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(-) Description

Title :  A RING E3-SUBSTRATE COMPLEX POISED FOR UBIQUITIN-LIKE PROTEIN TRANSFER: STRUCTURAL INSIGHTS INTO CULLIN-RING LIGASES
 
Authors :  M. F. Calabrese, D. C. Scott, D. M. Duda, C. R. Grace, I. Kurinov, R. W. Kri B. A. Schulman
Date :  03 May 11  (Deposition) - 20 Jul 11  (Release) - 24 Aug 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.21
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  G,H  (1x)
Biol. Unit 2:  A,B  (1x)
Biol. Unit 3:  C,D  (1x)
Biol. Unit 4:  E,F  (1x)
Keywords :  Ubiquitin, Nedd8, Cullin, Ubl Conjugation Pathway, E3 Ligase, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. F. Calabrese, D. C. Scott, D. M. Duda, C. R. Grace, I. Kurinov, R. W. Kriwacki, B. A. Schulman
A Ring E3-Substrate Complex Poised For Ubiquitin-Like Protein Transfer: Structural Insights Into Cullin-Ring Ligases.
Nat. Struct. Mol. Biol. V. 18 947 2011
PubMed-ID: 21765416  |  Reference-DOI: 10.1038/NSMB.2086

(-) Compounds

Molecule 1 - CULLIN-1
    ChainsA, C, E, G
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    FragmentUNP RESIDUES 411-776
    GeneCUL1
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymCUL-1
 
Molecule 2 - E3 UBIQUITIN-PROTEIN LIGASE RBX1
    ChainsB, D, F, H
    EC Number6.3.2.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    FragmentUNP RESIDUES 5-108
    GeneRBX1, RNF75, ROC1
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymPROTEIN ZYP, RING FINGER PROTEIN 75, RING-BOX PROTEIN 1, RBX1, REGULATOR OF CULLINS 1

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit ABCDEFGH
Biological Unit 1 (1x)      GH
Biological Unit 2 (1x)AB      
Biological Unit 3 (1x)  CD    
Biological Unit 4 (1x)    EF  

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 12)

Asymmetric Unit (1, 12)
No.NameCountTypeFull Name
1ZN12Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 4 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARECYS F:42 , CYS F:45 , HIS F:80 , CYS F:83BINDING SITE FOR RESIDUE ZN F 204
02AC2SOFTWARECYS F:75 , HIS F:77 , CYS F:94 , ASP F:97BINDING SITE FOR RESIDUE ZN F 208
03AC3SOFTWARECYS F:53 , CYS F:56 , CYS F:68 , HIS F:82BINDING SITE FOR RESIDUE ZN F 212
04AC4SOFTWARECYS D:42 , CYS D:45 , HIS D:80 , CYS D:83BINDING SITE FOR RESIDUE ZN D 201
05AC5SOFTWARECYS D:75 , HIS D:77 , CYS D:94 , ASP D:97BINDING SITE FOR RESIDUE ZN D 205
06AC6SOFTWARECYS D:53 , CYS D:56 , CYS D:68 , HIS D:82BINDING SITE FOR RESIDUE ZN D 209
07AC7SOFTWARECYS B:42 , CYS B:45 , HIS B:80 , CYS B:83BINDING SITE FOR RESIDUE ZN B 202
08AC8SOFTWARECYS B:75 , HIS B:77 , CYS B:94 , ASP B:97BINDING SITE FOR RESIDUE ZN B 206
09AC9SOFTWARECYS B:53 , CYS B:56 , CYS B:68 , HIS B:82BINDING SITE FOR RESIDUE ZN B 210
10BC1SOFTWARECYS H:42 , CYS H:45 , HIS H:80 , CYS H:83BINDING SITE FOR RESIDUE ZN H 203
11BC2SOFTWARECYS H:75 , HIS H:77 , CYS H:94 , ASP H:97BINDING SITE FOR RESIDUE ZN H 207
12BC3SOFTWARECYS H:53 , CYS H:56 , CYS H:68 , HIS H:82BINDING SITE FOR RESIDUE ZN H 211

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3RTR)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3RTR)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3RTR)

(-) PROSITE Motifs  (3, 9)

Asymmetric Unit (3, 9)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ZF_RING_2PS50089 Zinc finger RING-type profile.RBX1_HUMAN53-98
 
 
 
  4B:53-98
D:53-98
F:53-98
H:53-98
2CULLIN_2PS50069 Cullin family profile.CUL1_HUMAN417-644  1G:417-644
3CULLIN_1PS01256 Cullin family signature.CUL1_HUMAN749-776
 
 
 
  4A:749-776
C:749-776
E:749-776
G:749-776
Biological Unit 1 (3, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ZF_RING_2PS50089 Zinc finger RING-type profile.RBX1_HUMAN53-98
 
 
 
  1-
-
-
H:53-98
2CULLIN_2PS50069 Cullin family profile.CUL1_HUMAN417-644  1G:417-644
3CULLIN_1PS01256 Cullin family signature.CUL1_HUMAN749-776
 
 
 
  1-
-
-
G:749-776
Biological Unit 2 (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ZF_RING_2PS50089 Zinc finger RING-type profile.RBX1_HUMAN53-98
 
 
 
  1B:53-98
-
-
-
2CULLIN_2PS50069 Cullin family profile.CUL1_HUMAN417-644  0-
3CULLIN_1PS01256 Cullin family signature.CUL1_HUMAN749-776
 
 
 
  1A:749-776
-
-
-
Biological Unit 3 (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ZF_RING_2PS50089 Zinc finger RING-type profile.RBX1_HUMAN53-98
 
 
 
  1-
D:53-98
-
-
2CULLIN_2PS50069 Cullin family profile.CUL1_HUMAN417-644  0-
3CULLIN_1PS01256 Cullin family signature.CUL1_HUMAN749-776
 
 
 
  1-
C:749-776
-
-
Biological Unit 4 (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ZF_RING_2PS50089 Zinc finger RING-type profile.RBX1_HUMAN53-98
 
 
 
  1-
-
F:53-98
-
2CULLIN_2PS50069 Cullin family profile.CUL1_HUMAN417-644  0-
3CULLIN_1PS01256 Cullin family signature.CUL1_HUMAN749-776
 
 
 
  1-
-
E:749-776
-

(-) Exons   (17, 67)

Asymmetric Unit (17, 67)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1bENST000002162251bENSE00000880432chr22:41347363-41347480118RBX1_HUMAN1-26264B:21-26
D:24-26
F:21-26
H:20-26
6
3
6
7
1.2ENST000002162252ENSE00000654972chr22:41349559-4134963779RBX1_HUMAN27-53274B:27-53
D:27-53
F:27-53
H:27-53
27
27
27
27
1.3aENST000002162253aENSE00000654975chr22:41360051-4136012171RBX1_HUMAN53-76244B:53-76
D:53-76 (gaps)
F:53-76 (gaps)
H:53-76 (gaps)
24
24
24
24
1.4bENST000002162254bENSE00000654978chr22:41363803-4136388886RBX1_HUMAN77-105294B:77-105
D:77-105
F:77-105
H:77-104
29
29
29
28
1.5bENST000002162255bENSE00001814441chr22:41368480-41369313834RBX1_HUMAN105-10843B:105-106
D:105-106
F:105-106
-
2
2
2
-

2.2aENST000003252222aENSE00001513479chr7:148395933-148396121189CUL1_HUMAN-00--
2.3ENST000003252223ENSE00000909624chr7:148427054-148427354301CUL1_HUMAN1-47470--
2.4ENST000003252224ENSE00000872301chr7:148451068-148451242175CUL1_HUMAN47-105590--
2.5aENST000003252225aENSE00000729482chr7:148454075-148454242168CUL1_HUMAN106-161560--
2.6ENST000003252226ENSE00000909625chr7:148456396-14845644651CUL1_HUMAN162-178170--
2.7ENST000003252227ENSE00000466125chr7:148456640-14845673091CUL1_HUMAN179-209310--
2.8ENST000003252228ENSE00000729503chr7:148457425-148457588164CUL1_HUMAN209-263550--
2.9ENST000003252229ENSE00000909626chr7:148463653-148463815163CUL1_HUMAN264-318550--
2.10ENST0000032522210ENSE00000909627chr7:148464711-148464841131CUL1_HUMAN318-361440--
2.11ENST0000032522211ENSE00000909628chr7:148480875-148480982108CUL1_HUMAN362-397360--
2.12ENST0000032522212ENSE00000909629chr7:148481063-148481169107CUL1_HUMAN398-433364A:418-432
C:419-432
E:418-433
G:417-433
15
14
16
17
2.13ENST0000032522213ENSE00000909630chr7:148483643-14848369149CUL1_HUMAN433-449174A:439-449
C:441-449
E:433-449
G:433-449
11
9
17
17
2.14ENST0000032522214ENSE00000909631chr7:148484081-148484212132CUL1_HUMAN450-493444A:450-493
C:450-493
E:450-493
G:450-493
44
44
44
44
2.15ENST0000032522215ENSE00000909632chr7:148485649-148485766118CUL1_HUMAN494-533404A:494-533
C:494-533 (gaps)
E:494-533
G:494-533
40
40
40
40
2.16ENST0000032522216ENSE00000909633chr7:148486842-14848691877CUL1_HUMAN533-558264A:533-558
C:533-558
E:533-558
G:533-558
26
26
26
26
2.17ENST0000032522217ENSE00000909634chr7:148487402-148487533132CUL1_HUMAN559-602444A:559-602
C:559-590
E:559-602
G:559-602
44
32
44
44
2.18ENST0000032522218ENSE00000909635chr7:148489818-14848991093CUL1_HUMAN603-633314A:603-633
C:603-633 (gaps)
E:603-633
G:603-633
31
31
31
31
2.19ENST0000032522219ENSE00000909636chr7:148494904-14849495148CUL1_HUMAN634-649164A:634-649
C:634-649
E:634-649
G:634-649
16
16
16
16
2.20ENST0000032522220ENSE00000909637chr7:148495029-14849511183CUL1_HUMAN650-677284A:650-677
C:653-677 (gaps)
E:650-677
G:650-677
28
25
28
28
2.21ENST0000032522221ENSE00000909638chr7:148495664-148495769106CUL1_HUMAN677-712364A:677-712
C:677-712 (gaps)
E:677-712
G:677-712
36
36
36
36
2.22ENST0000032522222ENSE00000909639chr7:148496367-148496480114CUL1_HUMAN713-750384A:713-750
C:713-750
E:713-750
G:713-750
38
38
38
38
2.23cENST0000032522223cENSE00001388898chr7:148497594-148498201608CUL1_HUMAN751-776264A:751-776
C:751-776
E:751-776
G:751-776
26
26
26
26

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:353
 aligned with CUL1_HUMAN | Q13616 from UniProtKB/Swiss-Prot  Length:776

    Alignment length:359
                                   427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767         
           CUL1_HUMAN   418 SPELLARYCDSLLKKSSKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPLDLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 776
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhh.------hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh.......eeeeeeee..............hhhhhhhhhhhhhhhhhhh..eeeee.....eeeeee.......eee.hhhhhhhhh......eeehhhhhhhhh.hhhhhhhhhhhhhhh..ee.................eeee.........eee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeehhhhhhhhhhhhhh....hhhhhhhhhhhhhhh..eee......eeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE CULLIN_2  PDB: - UniProt: 417-644                                                                                                                                                                                                  --------------------------------------------------------------------------------------------------------CULLIN_1  PDB: A:749-776     PROSITE
           Transcript 2 (1) Exon 2.12       ----------------Exon 2.14  PDB: A:450-493 UniProt: 450-493  Exon 2.15  PDB: A:494-533               -------------------------Exon 2.17  PDB: A:559-602 UniProt: 559-602  Exon 2.18  PDB: A:603-633      Exon 2.19       Exon 2.20  PDB: A:650-677   -----------------------------------Exon 2.22  PDB: A:713-750             Exon 2.23c  PDB: A:751-776 Transcript 2 (1)
           Transcript 2 (2) ---------------Exon 2.13        -----------------------------------------------------------------------------------Exon 2.16  PDB: A:533-558 ----------------------------------------------------------------------------------------------------------------------Exon 2.21  PDB: A:677-712           ---------------------------------------------------------------- Transcript 2 (2)
                 3rtr A 418 SPEELARYCDSLLKK------EAELEDTLNQVMEKFKKIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPLDLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 776
                                   427    |    - |     447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767         
                                        432    439                                                                                                                                                                                                                                                                                                                                                 

Chain B from PDB  Type:PROTEIN  Length:86
 aligned with RBX1_HUMAN | P62877 from UniProtKB/Swiss-Prot  Length:108

    Alignment length:86
                                    30        40        50        60        70        80        90       100      
           RBX1_HUMAN    21 RFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQKY 106
               SCOP domains -------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeeee.................hhhhhh....hhhhh..eeee....eeehhhhhhhh..............eee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------ZF_RING_2  PDB: B:53-98 UniProt: 53-98        -------- PROSITE
           Transcript 1 (1) 1.1b  Exon 1.2  PDB: B:27-53     -----------------------Exon 1.4b  PDB: B:77-105     - Transcript 1 (1)
           Transcript 1 (2) --------------------------------Exon 1.3a  PDB: B:53-76 ----------------------------1. Transcript 1 (2)
                 3rtr B  21 RFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQKY 106
                                    30        40        50        60        70        80        90       100      

Chain C from PDB  Type:PROTEIN  Length:317
 aligned with CUL1_HUMAN | Q13616 from UniProtKB/Swiss-Prot  Length:776

    Alignment length:358
                                   428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718       728       738       748       758       768        
           CUL1_HUMAN   419 PELLARYCDSLLKKSSKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPLDLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 776
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhh.--------hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh..---..hhhhhhhhhhhhhhhhhhhhhhhh.........eeee..ee..............hhhhhhhhhhhhhhhhhhh..eeeee.....eee.------------...hhhhhhhh.-----.hhhhhhhhh..hhhhhhhhhhhhhhh...---.........--.......---....-----.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeehhhhhhhhhhhhhh....hhhhhhhhhhhhhhh..eee......eeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE CULLIN_2  PDB: - UniProt: 417-644                                                                                                                                                                                                 --------------------------------------------------------------------------------------------------------CULLIN_1  PDB: C:749-776     PROSITE
           Transcript 2 (1) Exon 2.12      ----------------Exon 2.14  PDB: C:450-493 UniProt: 450-493  Exon 2.15  PDB: C:494-533 (gaps)        -------------------------Exon 2.17  PDB: C:559-590 UniProt: 559-602  Exon 2.18  PDB: C:603-633 (gapsExon 2.19       Exon 2.20 UniProt: 650-677  -----------------------------------Exon 2.22  PDB: C:713-750             Exon 2.23c  PDB: C:751-776 Transcript 2 (1)
           Transcript 2 (2) --------------Exon 2.13        -----------------------------------------------------------------------------------Exon 2.16  PDB: C:533-558 ----------------------------------------------------------------------------------------------------------------------Exon 2.21  PDB: C:677-712 (gaps)    ---------------------------------------------------------------- Transcript 2 (2)
                 3rtr C 419 PEELARYCDSLLKK--------ELEDTLNQVMEKFKKIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQA---EYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPLDLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGEL------------ASTFQMAILLQY-----YTVQQLTDSTQIKMDILAQVLQILLKSKLL---DENANVDEV--KPDTLIK---GYKN-----NINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 776
                                   428   |     -  |    448       458       468       478       488      |  -|      508       518       528       538       548       558       568       578       588 |       -    |  608     |   - |     628       638       648|   |  658  |  | 668 |   |  |-    |  688       698       708       718       728       738       748       758       768        
                                       432      441                                                   495 499                                                                                        590          603        614   620                          649 653     661  |   670 674  |   683                                                                                             
                                                                                                                                                                                                                                                                               664          677                                                                                                   

Chain D from PDB  Type:PROTEIN  Length:79
 aligned with RBX1_HUMAN | P62877 from UniProtKB/Swiss-Prot  Length:108

    Alignment length:83
                                    33        43        53        63        73        83        93       103   
           RBX1_HUMAN    24 VKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQKY 106
               SCOP domains ----------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.eeeee.................hhhhhh...----....eee.....eeehhhhhhhhhhh............... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------ZF_RING_2  PDB: D:53-98 UniProt: 53-98        -------- PROSITE
           Transcript 1 (1) 1.1Exon 1.2  PDB: D:27-53     -----------------------Exon 1.4b  PDB: D:77-105     - Transcript 1 (1)
           Transcript 1 (2) -----------------------------Exon 1.3a UniProt: 53-76----------------------------1. Transcript 1 (2)
                 3rtr D  24 VKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQA----EECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQKY 106
                                    33        43        53       | -  |     73        83        93       103   
                                                                61   66                                        

Chain E from PDB  Type:PROTEIN  Length:359
 aligned with CUL1_HUMAN | Q13616 from UniProtKB/Swiss-Prot  Length:776

    Alignment length:359
                                   427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767         
           CUL1_HUMAN   418 SPELLARYCDSLLKKSSKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPLDLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 776
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhh.......eeeeeeee..............hhhhhhhhhhhhhhhhhhh....eeeeeeeeeeeeee.......eeeeehhhhhhhhhhh...eeehhhhhhhhh.hhhhhhhhhhhhhhh..ee.................eeee.........eee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeehhhhhhhhhhhh......hhhhhhhhhhhhhhh..eee......eeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE CULLIN_2  PDB: - UniProt: 417-644                                                                                                                                                                                                  --------------------------------------------------------------------------------------------------------CULLIN_1  PDB: E:749-776     PROSITE
           Transcript 2 (1) Exon 2.12       ----------------Exon 2.14  PDB: E:450-493 UniProt: 450-493  Exon 2.15  PDB: E:494-533               -------------------------Exon 2.17  PDB: E:559-602 UniProt: 559-602  Exon 2.18  PDB: E:603-633      Exon 2.19       Exon 2.20  PDB: E:650-677   -----------------------------------Exon 2.22  PDB: E:713-750             Exon 2.23c  PDB: E:751-776 Transcript 2 (1)
           Transcript 2 (2) ---------------Exon 2.13        -----------------------------------------------------------------------------------Exon 2.16  PDB: E:533-558 ----------------------------------------------------------------------------------------------------------------------Exon 2.21  PDB: E:677-712           ---------------------------------------------------------------- Transcript 2 (2)
                 3rtr E 418 SPEELARYCDSLLKKSSKNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPLDLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 776
                                   427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767         

Chain F from PDB  Type:PROTEIN  Length:81
 aligned with RBX1_HUMAN | P62877 from UniProtKB/Swiss-Prot  Length:108

    Alignment length:86
                                    30        40        50        60        70        80        90       100      
           RBX1_HUMAN    21 RFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQKY 106
               SCOP domains -------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeee...................hhhhhhh.-----....eee.....eeehhhhhhhhhhh............... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------ZF_RING_2  PDB: F:53-98 UniProt: 53-98        -------- PROSITE
           Transcript 1 (1) 1.1b  Exon 1.2  PDB: F:27-53     -----------------------Exon 1.4b  PDB: F:77-105     - Transcript 1 (1)
           Transcript 1 (2) --------------------------------Exon 1.3a UniProt: 53-76----------------------------1. Transcript 1 (2)
                 3rtr F  21 RFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQ-----EECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQKY 106
                                    30        40        50        60     |  70        80        90       100      
                                                                  60    66                                        

Chain G from PDB  Type:PROTEIN  Length:360
 aligned with CUL1_HUMAN | Q13616 from UniProtKB/Swiss-Prot  Length:776

    Alignment length:360
                                   426       436       446       456       466       476       486       496       506       516       526       536       546       556       566       576       586       596       606       616       626       636       646       656       666       676       686       696       706       716       726       736       746       756       766       776
           CUL1_HUMAN   417 KSPELLARYCDSLLKKSSKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPLDLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 776
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeeeeee..............hhhhhhhhhhhhhhhhhhh..eeeee.hhh.eeeeee.......eeeeehhhhhhhhhhhh..eeehhhhh.....hhhhhhhhhhhhh....ee.................eeee.........eee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeehhhhhhhhhhhhh.....hhhhhhhhhhhhhhh..eee......eeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE CULLIN_2  PDB: G:417-644 UniProt: 417-644                                                                                                                                                                                           --------------------------------------------------------------------------------------------------------CULLIN_1  PDB: G:749-776     PROSITE
           Transcript 2 (1) Exon 2.12        ----------------Exon 2.14  PDB: G:450-493 UniProt: 450-493  Exon 2.15  PDB: G:494-533               -------------------------Exon 2.17  PDB: G:559-602 UniProt: 559-602  Exon 2.18  PDB: G:603-633      Exon 2.19       Exon 2.20  PDB: G:650-677   -----------------------------------Exon 2.22  PDB: G:713-750             Exon 2.23c  PDB: G:751-776 Transcript 2 (1)
           Transcript 2 (2) ----------------Exon 2.13        -----------------------------------------------------------------------------------Exon 2.16  PDB: G:533-558 ----------------------------------------------------------------------------------------------------------------------Exon 2.21  PDB: G:677-712           ---------------------------------------------------------------- Transcript 2 (2)
                 3rtr G 417 KSPEELARYCDSLLKKSSKNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPLDLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 776
                                   426       436       446       456       466       476       486       496       506       516       526       536       546       556       566       576       586       596       606       616       626       636       646       656       666       676       686       696       706       716       726       736       746       756       766       776

Chain H from PDB  Type:PROTEIN  Length:81
 aligned with RBX1_HUMAN | P62877 from UniProtKB/Swiss-Prot  Length:108

    Alignment length:85
                                    29        39        49        59        69        79        89        99     
           RBX1_HUMAN    20 KRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQ 104
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeeeee..........................----....eee.....eee.hhhhhhhh............... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------ZF_RING_2  PDB: H:53-98 UniProt: 53-98        ------ PROSITE
           Transcript 1 (1) 1.1b   Exon 1.2  PDB: H:27-53     -----------------------Exon 1.4b  PDB: H:77-104     Transcript 1 (1)
           Transcript 1 (2) ---------------------------------Exon 1.3a UniProt: 53-76---------------------------- Transcript 1 (2)
                 3rtr H  20 KRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQA----EECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEFQ 104
                                    29        39        49        59 |    | 69        79        89        99     
                                                                    61   66                                      

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 3RTR)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3RTR)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3RTR)

(-) Gene Ontology  (66, 82)

Asymmetric Unit(hide GO term definitions)
Chain A,C,E,G   (CUL1_HUMAN | Q13616)
molecular function
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0061630    ubiquitin protein ligase activity    Catalysis of the transfer of ubiquitin to a substrate protein via the reaction X-ubiquitin + S -> X + S-ubiquitin, where X is either an E2 or E3 enzyme, the X-ubiquitin linkage is a thioester bond, and the S-ubiquitin linkage is an amide bond: an isopeptide bond between the C-terminal glycine of ubiquitin and the epsilon-amino group of lysine residues in the substrate or, in the linear extension of ubiquitin chains, a peptide bond the between the C-terminal glycine and N-terminal methionine of ubiquitin residues.
    GO:0031625    ubiquitin protein ligase binding    Interacting selectively and non-covalently with a ubiquitin protein ligase enzyme, any of the E3 proteins.
    GO:0004842    ubiquitin-protein transferase activity    Catalysis of the transfer of ubiquitin from one protein to another via the reaction X-Ub + Y --> Y-Ub + X, where both X-Ub and Y-Ub are covalent linkages.
biological process
    GO:0038095    Fc-epsilon receptor signaling pathway    A series of molecular signals initiated by the binding of the Fc portion of immunoglobulin E (IgE) to an Fc-epsilon receptor on the surface of a signal-receiving cell, and ending with regulation of a downstream cellular process, e.g. transcription. The Fc portion of an immunoglobulin is its C-terminal constant region.
    GO:0000082    G1/S transition of mitotic cell cycle    The mitotic cell cycle transition by which a cell in G1 commits to S phase. The process begins with the build up of G1 cyclin-dependent kinase (G1 CDK), resulting in the activation of transcription of G1 cyclins. The process ends with the positive feedback of the G1 cyclins on the G1 CDK which commits the cell to S phase, in which DNA replication is initiated.
    GO:0000086    G2/M transition of mitotic cell cycle    The mitotic cell cycle transition by which a cell in G2 commits to M phase. The process begins when the kinase activity of M cyclin/CDK complex reaches a threshold high enough for the cell cycle to proceed. This is accomplished by activating a positive feedback loop that results in the accumulation of unphosphorylated and active M cyclin/CDK complex.
    GO:0038061    NIK/NF-kappaB signaling    The process in which a signal is passed on to downstream components within the cell through the NIK-dependent processing and activation of NF-KappaB. Begins with activation of the NF-KappaB-inducing kinase (NIK), which in turn phosphorylates and activates IkappaB kinase alpha (IKKalpha). IKKalpha phosphorylates the NF-Kappa B2 protein (p100) leading to p100 processing and release of an active NF-KappaB (p52).
    GO:0031146    SCF-dependent proteasomal ubiquitin-dependent protein catabolic process    The chemical reactions and pathways resulting in the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by the covalent attachment of ubiquitin, with ubiquitin-protein ligation catalyzed by an SCF (Skp1/Cul1/F-box protein) complex, and mediated by the proteasome.
    GO:0050852    T cell receptor signaling pathway    A series of molecular signals initiated by the cross-linking of an antigen receptor on a T cell.
    GO:0016055    Wnt signaling pathway    The series of molecular signals initiated by binding of a Wnt protein to a frizzled family receptor on the surface of the target cell and ending with a change in cell state.
    GO:0009887    animal organ morphogenesis    Morphogenesis of an animal organ. An organ is defined as a tissue or set of tissues that work together to perform a specific function or functions. Morphogenesis is the process in which anatomical structures are generated and organized. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions.
    GO:0006915    apoptotic process    A programmed cell death process which begins when a cell receives an internal (e.g. DNA damage) or external signal (e.g. an extracellular death ligand), and proceeds through a series of biochemical events (signaling pathway phase) which trigger an execution phase. The execution phase is the last step of an apoptotic process, and is typically characterized by rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died.
    GO:0007050    cell cycle arrest    A regulatory process that halts progression through the cell cycle during one of the normal phases (G1, S, G2, M).
    GO:0008283    cell proliferation    The multiplication or reproduction of cells, resulting in the expansion of a cell population.
    GO:0097193    intrinsic apoptotic signaling pathway    A series of molecular signals in which an intracellular signal is conveyed to trigger the apoptotic death of a cell. The pathway starts with reception of an intracellular signal (e.g. DNA damage, endoplasmic reticulum stress, oxidative stress etc.), and ends when the execution phase of apoptosis is triggered. The intrinsic apoptotic signaling pathway is crucially regulated by permeabilization of the mitochondrial outer membrane (MOMP).
    GO:0008285    negative regulation of cell proliferation    Any process that stops, prevents or reduces the rate or extent of cell proliferation.
    GO:0051437    positive regulation of ubiquitin-protein ligase activity involved in regulation of mitotic cell cycle transition    Any process that activates, maintains or increases the rate of ubiquitin ligase activity that contributes to the regulation of the mitotic cell cycle phase transition.
    GO:0043161    proteasome-mediated ubiquitin-dependent protein catabolic process    The chemical reactions and pathways resulting in the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by the covalent attachment of ubiquitin, and mediated by the proteasome.
    GO:0006513    protein monoubiquitination    Addition of a single ubiquitin group to a protein.
    GO:0000209    protein polyubiquitination    Addition of multiple ubiquitin groups to a protein, forming a ubiquitin chain.
    GO:0016567    protein ubiquitination    The process in which one or more ubiquitin groups are added to a protein.
    GO:0042787    protein ubiquitination involved in ubiquitin-dependent protein catabolic process    The process in which a ubiquitin group, or multiple groups, are covalently attached to the target protein, thereby initiating the degradation of that protein.
    GO:0002223    stimulatory C-type lectin receptor signaling pathway    Any series of molecular signals generated as a consequence of binding to a C-type lectin receptor capable of cellular activation.
    GO:0051403    stress-activated MAPK cascade    A series of molecular signals in which a stress-activated MAP kinase cascade relays one or more of the signals; MAP kinase cascades involve at least three protein kinase activities and culminate in the phosphorylation and activation of a MAP kinase.
    GO:0006511    ubiquitin-dependent protein catabolic process    The chemical reactions and pathways resulting in the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by the covalent attachment of a ubiquitin group, or multiple ubiquitin groups, to the protein.
    GO:0016032    viral process    A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
cellular component
    GO:1990452    Parkin-FBXW7-Cul1 ubiquitin ligase complex    A ubiquitin ligase complex containing Parkin (PARK2), the F-box protein FBXW7 (also called SEL-10) and a cullin from the Cul1 subfamily; substrate specificity is conferred by the F-box protein.
    GO:0019005    SCF ubiquitin ligase complex    A ubiquitin ligase complex in which a cullin from the Cul1 subfamily and a RING domain protein form the catalytic core; substrate specificity is conferred by a Skp1 adaptor and an F-box protein. SCF complexes are involved in targeting proteins for degradation by the proteasome. The best characterized complexes are those from yeast and mammals (with core subunits named Cdc53/Cul1, Rbx1/Hrt1/Roc1).
    GO:0031461    cullin-RING ubiquitin ligase complex    Any ubiquitin ligase complex in which the catalytic core consists of a member of the cullin family and a RING domain protein; the core is associated with one or more additional proteins that confer substrate specificity.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.

Chain B,D,F,H   (RBX1_HUMAN | P62877)
molecular function
    GO:0019788    NEDD8 transferase activity    Catalysis of the transfer of NEDD8 from one protein to another via the reaction X-NEDD8 + Y --> Y-NEDD8 + X, where both X-NEDD8 and Y-NEDD8 are covalent linkages.
    GO:0097602    cullin family protein binding    Interacting selectively and non-covalently with any member of the cullin family, hydrophobic proteins that act as scaffolds for ubiquitin ligases (E3).
    GO:0016874    ligase activity    Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0032403    protein complex binding    Interacting selectively and non-covalently with any protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0061630    ubiquitin protein ligase activity    Catalysis of the transfer of ubiquitin to a substrate protein via the reaction X-ubiquitin + S -> X + S-ubiquitin, where X is either an E2 or E3 enzyme, the X-ubiquitin linkage is a thioester bond, and the S-ubiquitin linkage is an amide bond: an isopeptide bond between the C-terminal glycine of ubiquitin and the epsilon-amino group of lysine residues in the substrate or, in the linear extension of ubiquitin chains, a peptide bond the between the C-terminal glycine and N-terminal methionine of ubiquitin residues.
    GO:0031625    ubiquitin protein ligase binding    Interacting selectively and non-covalently with a ubiquitin protein ligase enzyme, any of the E3 proteins.
    GO:0004842    ubiquitin-protein transferase activity    Catalysis of the transfer of ubiquitin from one protein to another via the reaction X-Ub + Y --> Y-Ub + X, where both X-Ub and Y-Ub are covalent linkages.
    GO:0034450    ubiquitin-ubiquitin ligase activity    Isoenergetic transfer of ubiquitin from one protein to an existing ubiquitin chain via the reaction X-ubiquitin + Y-ubiquitin -> Y-ubiquitin-ubiquitin + X, where both the X-ubiquitin and Y-ubiquitin-ubiquitin linkages are thioester bonds between the C-terminal glycine of ubiquitin and a sulfhydryl side group of a cysteine residue.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0042769    DNA damage response, detection of DNA damage    The series of events required to receive a stimulus indicating DNA damage has occurred and convert it to a molecular signal.
    GO:0006281    DNA repair    The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
    GO:0000165    MAPK cascade    An intracellular protein kinase cascade containing at least a MAPK, a MAPKK and a MAP3K. The cascade can also contain two additional tiers: the upstream MAP4K and the downstream MAP Kinase-activated kinase (MAPKAPK). The kinases in each tier phosphorylate and activate the kinases in the downstream tier to transmit a signal within a cell.
    GO:0031146    SCF-dependent proteasomal ubiquitin-dependent protein catabolic process    The chemical reactions and pathways resulting in the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by the covalent attachment of ubiquitin, with ubiquitin-protein ligation catalyzed by an SCF (Skp1/Cul1/F-box protein) complex, and mediated by the proteasome.
    GO:0016055    Wnt signaling pathway    The series of molecular signals initiated by binding of a Wnt protein to a frizzled family receptor on the surface of the target cell and ending with a change in cell state.
    GO:0006974    cellular response to DNA damage stimulus    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism.
    GO:0070911    global genome nucleotide-excision repair    The nucleotide-excision repair process in which DNA lesions are removed from nontranscribed strands and from transcriptionally silent regions over the entire genome.
    GO:0090090    negative regulation of canonical Wnt signaling pathway    Any process that decreases the rate, frequency, or extent of the Wnt signaling pathway through beta-catenin, the series of molecular signals initiated by binding of a Wnt protein to a frizzled family receptor on the surface of the target cell, followed by propagation of the signal via beta-catenin, and ending with a change in transcription of target genes.
    GO:0000715    nucleotide-excision repair, DNA damage recognition    The identification of lesions in DNA, such as pyrimidine-dimers, intrastrand cross-links, and bulky adducts. The wide range of substrate specificity suggests the repair complex recognizes distortions in the DNA helix.
    GO:0000717    nucleotide-excision repair, DNA duplex unwinding    The unwinding, or local denaturation, of the DNA duplex to create a bubble around the site of the DNA damage.
    GO:0033683    nucleotide-excision repair, DNA incision    A process that results in the endonucleolytic cleavage of the damaged strand of DNA. The incision occurs at the junction of single-stranded DNA and double-stranded DNA that is formed when the DNA duplex is unwound.
    GO:0006295    nucleotide-excision repair, DNA incision, 3'-to lesion    The endonucleolytic cleavage of the damaged strand of DNA 3' to the site of damage. The incision occurs at the junction of single-stranded DNA and double-stranded DNA that is formed when the DNA duplex is unwound. The incision precedes the incision formed 5' to the site of damage.
    GO:0006296    nucleotide-excision repair, DNA incision, 5'-to lesion    The endonucleolytic cleavage of the damaged strand of DNA 5' to the site of damage. The incision occurs at the junction of single-stranded DNA and double-stranded DNA that is formed when the DNA duplex is unwound. The incision follows the incision formed 3' to the site of damage.
    GO:0006294    nucleotide-excision repair, preincision complex assembly    The aggregation, arrangement and bonding together of proteins on DNA to form the multiprotein complex involved in damage recognition, DNA helix unwinding, and endonucleolytic cleavage at the site of DNA damage. This assembly occurs before the phosphodiester backbone of the damaged strand is cleaved 3' and 5' of the site of DNA damage.
    GO:0006293    nucleotide-excision repair, preincision complex stabilization    The stabilization of the multiprotein complex involved in damage recognition, DNA helix unwinding, and endonucleolytic cleavage at the site of DNA damage as well as the unwound DNA. The stabilization of the protein-DNA complex ensures proper positioning of the preincision complex before the phosphodiester backbone of the damaged strand is cleaved 3' and 5' of the site of DNA damage.
    GO:0043161    proteasome-mediated ubiquitin-dependent protein catabolic process    The chemical reactions and pathways resulting in the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by the covalent attachment of ubiquitin, and mediated by the proteasome.
    GO:0030163    protein catabolic process    The chemical reactions and pathways resulting in the breakdown of a protein by the destruction of the native, active configuration, with or without the hydrolysis of peptide bonds.
    GO:0006513    protein monoubiquitination    Addition of a single ubiquitin group to a protein.
    GO:0045116    protein neddylation    Covalent attachment of the ubiquitin-like protein NEDD8 (RUB1) to another protein.
    GO:0000209    protein polyubiquitination    Addition of multiple ubiquitin groups to a protein, forming a ubiquitin chain.
    GO:0016567    protein ubiquitination    The process in which one or more ubiquitin groups are added to a protein.
    GO:0042787    protein ubiquitination involved in ubiquitin-dependent protein catabolic process    The process in which a ubiquitin group, or multiple groups, are covalently attached to the target protein, thereby initiating the degradation of that protein.
    GO:0061418    regulation of transcription from RNA polymerase II promoter in response to hypoxia    Any process that modulates the frequency, rate or extent of transcription from an RNA polymerase II promoter as a result of a hypoxia stimulus.
    GO:0006283    transcription-coupled nucleotide-excision repair    The nucleotide-excision repair process that carries out preferential repair of DNA lesions on the actively transcribed strand of the DNA duplex. In addition, the transcription-coupled nucleotide-excision repair pathway is required for the recognition and repair of a small subset of lesions that are not recognized by the global genome nucleotide excision repair pathway.
    GO:0016032    viral process    A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
cellular component
    GO:0031462    Cul2-RING ubiquitin ligase complex    A ubiquitin ligase complex in which a cullin from the Cul2 subfamily and a RING domain protein form the catalytic core; substrate specificity is conferred by an elongin-BC adaptor and a SOCS/BC box protein.
    GO:0031463    Cul3-RING ubiquitin ligase complex    A ubiquitin ligase complex in which a cullin from the Cul3 subfamily and a RING domain protein form the catalytic core; substrate specificity is conferred by a BTB-domain-containing protein.
    GO:0031464    Cul4A-RING E3 ubiquitin ligase complex    A ubiquitin ligase complex in which a cullin from the Cul4A subfamily and a RING domain protein form the catalytic core; substrate specificity is conferred by an adaptor protein.
    GO:0031465    Cul4B-RING E3 ubiquitin ligase complex    A ubiquitin ligase complex in which a cullin from the Cul4B subfamily and a RING domain protein form the catalytic core; substrate specificity is conferred by unknown subunits.
    GO:0031466    Cul5-RING ubiquitin ligase complex    A ubiquitin ligase complex in which a cullin from the Cul5 subfamily and a RING domain protein form the catalytic core; substrate specificity is conferred by an elongin-BC adaptor and a SOCS/BC box protein.
    GO:0031467    Cul7-RING ubiquitin ligase complex    A ubiquitin ligase complex in which a cullin from the Cul7 subfamily and a RING domain protein form the catalytic core; substrate specificity is conferred by a Skp1 linker and an F-box protein.
    GO:0019005    SCF ubiquitin ligase complex    A ubiquitin ligase complex in which a cullin from the Cul1 subfamily and a RING domain protein form the catalytic core; substrate specificity is conferred by a Skp1 adaptor and an F-box protein. SCF complexes are involved in targeting proteins for degradation by the proteasome. The best characterized complexes are those from yeast and mammals (with core subunits named Cdc53/Cul1, Rbx1/Hrt1/Roc1).
    GO:0030891    VCB complex    A protein complex that possesses ubiquitin ligase activity; the complex is usually pentameric; for example, in mammals the subunits are pVHL, elongin B, elongin C, cullin-2 (Cul2), and Rbx1.
    GO:0031461    cullin-RING ubiquitin ligase complex    Any ubiquitin ligase complex in which the catalytic core consists of a member of the cullin family and a RING domain protein; the core is associated with one or more additional proteins that confer substrate specificity.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0043224    nuclear SCF ubiquitin ligase complex    A ubiquitin ligase complex, located in the nucleus, in which a cullin from the Cul1 subfamily and a RING domain protein form the catalytic core; substrate specificity is conferred by a Skp1 adaptor and an F-box protein. SCF complexes are involved in targeting proteins for degradation by the proteasome. The best characterized complexes are those from yeast and mammals (with core subunits named Cdc53/Cul1, Rbx1/Hrt1/Roc1).
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        CUL1_HUMAN | Q136161ldj 1ldk 1u6g 3tdu 3tdz 4f52 4p5o 5v89
        RBX1_HUMAN | P628771ldj 1ldk 1u6g 2hye 2lgv 3dpl 3dqv 4f52 4p5o 5n4w

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 3RTR)