Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Asym. Unit - sites
(-)Biological Unit 1
(-)Biol. Unit 1 - sites
(-)Biological Unit 2
(-)Biological Unit 3
(-)Biological Unit 4
(-)Biological Unit 5
(-)Biological Unit 6
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Asym. Unit - sites
Asym. Unit - sites  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biol. Unit 1 - sites
Biol. Unit 1 - sites  (Jmol Viewer)
Image Biological Unit 2
Biological Unit 2  (Jmol Viewer)
Image Biological Unit 3
Biological Unit 3  (Jmol Viewer)
Image Biological Unit 4
Biological Unit 4  (Jmol Viewer)
Image Biological Unit 5
Biological Unit 5  (Jmol Viewer)
Image Biological Unit 6
Biological Unit 6  (Jmol Viewer)

(-) Description

Title :  CRYSTAL STRUCTURE OF T. FUSCA CAS3-ADP
 
Authors :  A. Ke, Y. Huo, K. H. Nam
Date :  30 Jun 14  (Deposition) - 27 Aug 14  (Release) - 24 Sep 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.12
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Biol. Unit 4:  G,H  (1x)
Biol. Unit 5:  A,B,C,D  (1x)
Biol. Unit 6:  E,F,G,H  (1x)
Keywords :  Rispr, Cas3, Helicase, Hydrolase-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Huo, K. H. Nam, F. Ding, H. Lee, L. Wu, Y. Xiao, M. D. Farchione, S. Zhou K. Rajashankar, I. Kurinov, R. Zhang, A. Ke
Structures Of Crispr Cas3 Offer Mechanistic Insights Into Cascade-Activated Dna Unwinding And Degradation.
Nat. Struct. Mol. Biol. V. 21 771 2014
PubMed-ID: 25132177  |  Reference-DOI: 10.1038/NSMB.2875

(-) Compounds

Molecule 1 - CRISPR-ASSOCIATED HELICASE, CAS3 FAMILY
    Chains: A, C, E, G
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28B
    Expression System Strain: BL21(DE3)STAR
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: TFU_1593
    Organism Scientific: THERMOBIFIDA FUSCA
    Organism Taxid: 269800
    Strain: YX
 
Molecule 2 - HD NUCLEASE
    Chains: B, D, F, H
    Engineered: YES
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): AB      
Biological Unit 2 (1x):   CD    
Biological Unit 3 (1x):     EF  
Biological Unit 4 (1x):       GH
Biological Unit 5 (1x): ABCD    
Biological Unit 6 (1x):     EFGH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 12)

Asymmetric Unit (2, 12)
No.NameCountTypeFull Name
1ADP4Ligand/IonADENOSINE-5'-DIPHOSPHATE
2FE8Ligand/IonFE (III) ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2FE-1Ligand/IonFE (III) ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2FE-1Ligand/IonFE (III) ION
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2FE-1Ligand/IonFE (III) ION
Biological Unit 4 (1, 1)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2FE-1Ligand/IonFE (III) ION
Biological Unit 5 (1, 2)
No.NameCountTypeFull Name
1ADP2Ligand/IonADENOSINE-5'-DIPHOSPHATE
2FE-1Ligand/IonFE (III) ION
Biological Unit 6 (1, 2)
No.NameCountTypeFull Name
1ADP2Ligand/IonADENOSINE-5'-DIPHOSPHATE
2FE-1Ligand/IonFE (III) ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:84 , HIS A:115 , HIS A:149 , HIS A:150 , FE A:1002 , DA B:12BINDING SITE FOR RESIDUE FE A 1001
02AC2SOFTWAREHIS A:37 , HIS A:83 , ASP A:84 , ASP A:215 , FE A:1001 , DA B:12BINDING SITE FOR RESIDUE FE A 1002
03AC3SOFTWARELEU A:277 , LYS A:279 , PRO A:280 , ASN A:281 , GLN A:284 , MET A:307 , GLY A:308 , GLU A:309 , GLY A:310 , GLU A:313 , ARG A:692BINDING SITE FOR RESIDUE ADP A 1003
04AC4SOFTWAREASP C:84 , HIS C:115 , HIS C:149 , HIS C:150 , FE C:1002 , DA D:12BINDING SITE FOR RESIDUE FE C 1001
05AC5SOFTWAREHIS C:37 , HIS C:83 , ASP C:84 , ASP C:215 , FE C:1001 , DA D:12BINDING SITE FOR RESIDUE FE C 1002
06AC6SOFTWARELEU C:277 , LYS C:279 , ASN C:281 , GLN C:284 , MET C:307 , GLY C:308 , GLU C:309 , GLY C:310 , GLU C:313 , ARG C:692BINDING SITE FOR RESIDUE ADP C 1003
07AC7SOFTWAREASP E:84 , HIS E:115 , HIS E:149 , HIS E:150 , FE E:1002 , DA F:12BINDING SITE FOR RESIDUE FE E 1001
08AC8SOFTWAREHIS E:37 , HIS E:83 , ASP E:84 , ASP E:215 , FE E:1001 , DA F:12BINDING SITE FOR RESIDUE FE E 1002
09AC9SOFTWARELEU E:277 , SER E:278 , LYS E:279 , PRO E:280 , ASN E:281 , GLN E:284 , GLY E:308 , GLY E:310 , THR E:312 , GLU E:313 , ARG E:347 , ARG E:692BINDING SITE FOR RESIDUE ADP E 1003
10BC1SOFTWAREASP G:84 , HIS G:115 , HIS G:149 , HIS G:150 , FE G:1002 , DA H:12BINDING SITE FOR RESIDUE FE G 1001
11BC2SOFTWAREHIS G:37 , HIS G:83 , ASP G:84 , LYS G:87 , ASP G:215 , FE G:1001 , DA H:12BINDING SITE FOR RESIDUE FE G 1002
12BC3SOFTWARELEU G:277 , LYS G:279 , ASN G:281 , GLN G:284 , MET G:307 , GLY G:308 , GLU G:309 , GLY G:310 , GLU G:313 , ARG G:347 , ARG G:692BINDING SITE FOR RESIDUE ADP G 1003

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4QQY)

(-) Cis Peptide Bonds  (17, 17)

Asymmetric Unit
No.Residues
1Gly A:409 -Arg A:410
2Tyr A:519 -Pro A:520
3Ala A:613 -Pro A:614
4Ile A:757 -Pro A:758
5Ala A:844 -Gly A:845
6Arg C:363 -Ser C:364
7Tyr C:519 -Pro C:520
8Glu C:611 -Asp C:612
9Asp C:612 -Ala C:613
10Ile C:757 -Pro C:758
11Tyr E:519 -Pro E:520
12Ile E:757 -Pro E:758
13Ala E:844 -Gly E:845
14Tyr G:519 -Pro G:520
15Ala G:613 -Pro G:614
16Ile G:757 -Pro G:758
17Asn G:846 -Arg G:847

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4QQY)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4QQY)

(-) Exons   (0, 0)

(no "Exon" information available for 4QQY)

(-) 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:896
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eee........eehhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...................hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh..............hhhhhh...hhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhh......hhhhhhhhhhhhhhh...eeeeee.....hhhhhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhhhhhhhhh......eeee......................hhhhh..hhhhh.eeeeehhhhhhhhh...hhhhhhhhhhheeeee.hhhhhhhhhhhhhhhhhhhhhhh...eeeee...hhhhhhhhhhhhhhhhhh.................eeeeee.....eee.hhhh............eeeeeee........hhhhhhhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhh.....eeee....hhhhhhhhhhhhhhhhh............eeee.hhhhh.......eeeee..hhhhhhhhhh....................eeeeeee........hhhhhh..hhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..hhhhh...hhhhh..............eeeeeeeee.....ee..................hhhhhhhhhh..eeee.hhhhh..hhhhh...hhhhh......eeeeee......eee..eeeeee...eee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qqy A  14 PPLDLRFWAKERGLRGKTYPLVCHSLDAAAAALVLWNEYLSPGLRDTIASSMETDEEHAGHCIAFWAGLHDIGKLTREFQQQIAIDLSAYPGEELSGEQRSHAAATGKWLPFALPSLGYPNGGLVTGLVAQMLGGHHGTFHPHPSFQSRNPLAEFGFSSPHWEKQRHALLHAVFDATGRPTPPDMLDGPTASVVCGLVILADWLVSQEDFLLERLTSLPADGSASALRAHFETSLRRIPSLLDAAGLRPITVPPATFTESFPHLSKPNGLQASLAKHLPCLCTGPGLVLITAPMGEGKTEAAYHVADLLGKATGRPGRFLALPTMATADQMHTRLKEYARYRVEPRSSTLALLHSMAWLNPDYAPAGHRDPFAATDWLMGRKRGLLAPWAVGTIDQALMAVLRAKHNALRLFGLAGKVVVVDEAHAVDPYMQVLLEQLLRWLGTLDVPVVLLSATLHHSIANSLVKAYLEGARGRRWNRSEPQPVSEVSYPGWLHVDARIGKVTRSSDVDPLPIATTPRKPLEVRLVDVPVKEGALNRSTVLAKELTPLVKQGGCAAIICTTVAEAQGVYDLLSQWFATAPDLYLLHSRFPNRQRTEITATIVDLFGKEGAQSGRRPTAVLVATQVVEQSLDLDVDLMISDLAPVSLLLQRAGRCWRHEHLGIINRPQWAKQPELVVLTPEQNRAPWFPRSWTSVYPLALLQRTYTLLRRRNGAPVQIPEDVQQLVDDVYDDDSLAEDLEADMERMGEELAQRGLARNAVIPDPDDAEDNLNGLTEFSFHVLATRFGAGSVRVLCYYVDTAGNRWLDPECTVEFPEQGTEGRFTMADCRDLVARTIPVRMGPWASQLTEDNHPPEAWRESFYLRDLVLIPQRVTDVLPTETGGREWLLDPCKGLIF 944
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353   ||  367       377     ||399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       613       623       633       643       655       665       675       685       695       705       715  ||   729       739       749       759       769       779       789       799       809       823       833       843       853       865       875       885       895       905       915    || 928       938      
                                                                                                                                                                                                                                                                                                                                                                                 357|                  383|                                                                                                                                                                                                                 608|                                   651|                                                             718|                                                                                            818|                                    862|                                                    920|                    
                                                                                                                                                                                                                                                                                                                                                                                  362                   396                                                                                                                                                                                                                  613                                    654                                                              723                                                                                             823                                     865                                                     924                    


Chain B from PDB  Type:DNA  Length:11
                                           
                 4qqy B   1 AAAAAAAAAAA  12
                                  ||11 
                                  7|   
                                   9   


Chain C from PDB  Type:PROTEIN  Length:902
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eee........eehhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...................hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh..............hhhhhh...hhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhh.hhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhh..........hhhhhh......hhhhhhhhhhhhhhh...eeeeee.....hhhhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhhhhhhhhhhh.......eeee...................hhhhh..hhhhh.eeeeehhhhhh......hhhhhhhhhhheeeee.hhhhhhhhhhhhhhhhhhhhhhh...eeeee...hhhhhhhhhhhhhhhhhh...................eeee.....eee.hhh.........eeeeeeeeeee.ee..ee.hhhhhhhhhhhhhhhh.eeeee..hhhhhhhhhhhhhhhhhhh.....eeeee....hhhhhhhhhhhhhhhhhhhhhhh.......eeeee.hhhhh.......eeeee..hhhhhhhhh.....hhhhh...........eeeeeee.......hhhhhh..hhhhhhhhhhhhhh.....eee..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.....hhhhh..hhhhh............eeeeeeeeee....ee..............hhhhh.hhhhhhhhhh..eeee.hhhhhhhhhhhh.hhhhhh.......eeeeeee........eee..eeeeee...eee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qqy C  14 PPLDLRFWAKERGLRGKTYPLVCHSLDAAAAALVLWNEYLSPGLRDTIASSMETDEEHAGHCIAFWAGLHDIGKLTREFQQQIAIDLSAYPGEELSGEQRSHAAATGKWLPFALPSLGYPNGGLVTGLVAQMLGGHHGTFHPHPSFQSRNPLAEFGFSSPHWEKQRHALLHAVFDATGRPTPPDMLDGPTASVVCGLVILADWLVSQEDFLLERLTSLPADGSASALRAHFETSLRRIPSLLDAAGLRPITVPPATFTESFPHLSKPNGLQASLAKHLPCLCTGPGLVLITAPMGEGKTEAAYHVADLLGKATGRPGRFLALPTMATADQMHTRLKEYARYRVENTRSSTLALLHSMAWLNPDYAPADPFAATDWLMGRKRGLLAPWAVGTIDQALMAVLRAKHNALRLFGLAGKVVVVDEAHAVDPYMQVLLEQLLRWLGTLDVPVVLLSATLHHSIANSLVKAYLEGARGRRWNRSEPQPVSEVSYPGWLHVDARIGKVTRSSDVDPLPIATTPRKPLEVRLVDVPVKEGALNRSTVLAKELTPLVKQGGCAAIICTTVAEAQGVYDLLSQWFATLGEDAPDLYLLHSRFPNRQRTEITATIVDLFGKEGAQSGRRPTRGAVLVATQVVEQSLDLDVDLMISDLAPVSLLLQRAGRCWRHEHLGIINRPQWAKQPELVVLTPEQNAPWFPRSWTSVYPLALLQRTYTLLRRRNGAPVQIPEDVQQLVDDVYDDDSLAEDLEADMERMGEELAQRGLARNAVIPDPDDAEDNLNGLTEFSVLATRFGAGSVRVLCYYVDTAGNRWLDPECTVEFPEQGTGREGRFTMADCRDLVARTIPVRMGPWASQLTEDNHPPEAWRESFYLRDLVLIPQRVTDEGAVLPTETGGREWLLDPCKGLIF 944
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353     ||366       376      |401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631       641       651       661       671       681       691       701       711      |726       736       746       756       766       776       786       796       806       816||     832       842       852       862       872       882       892       902       912       922       932       942  
                                                                                                                                                                                                                                                                                                                                                                                   359|                 383|                                                                                                                                                                                                                                                                                                                            718|                                                                                          817|                                                                                                                        
                                                                                                                                                                                                                                                                                                                                                                                    363                  399                                                                                                                                                                                                                                                                                                                             724                                                                                           824                                                                                                                        


Chain D from PDB  Type:DNA  Length:11
                                           
                 4qqy D   1 AAAAAAAAAAA  12
                                  ||11 
                                  7|   
                                   9   


Chain E from PDB  Type:PROTEIN  Length:902
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eee........eehhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhh...................hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh..............hhhhhh...hhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhh.hhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhh......hhhhhhhhhhhhhhh...eeeeee.....hhhhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhhhhhhhhh.........eeee...................hhhhh..hhhhh.eeeeehhhhhh......hhhhhhhhhhheeeee.hhhhhhhhhhhhhhhhhhhhhhh...eeeee...hhhhhhhhhhhhhhhhh....................eeee.....eeehhhhh........eeeeeeeeeee........hhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhhhhhhhhh........eeeee.hhhhh.......eeeee..hhhhhhhhhhhhhhhhh.............eeeeeee................hhhhhhhhhhhhhhh....eee..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..hhhhhh..hhhhh...........eeeeeeeee.....ee..............hhhhh.hhhhhhhhhh..eeee.hhhhh..hhhhh.hhhhhh.......eeeeeee.....ee.eee..eeeeee...eee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qqy E  14 PPLDLRFWAKERGLRGKTYPLVCHSLDAAAAALVLWNEYLSPGLRDTIASSMETDEEHAGHCIAFWAGLHDIGKLTREFQQQIAIDLSAYPGEELSGEQRSHAAATGKWLPFALPSLGYPNGGLVTGLVAQMLGGHHGTFHPHPSFQSRNPLAEFGFSSPHWEKQRHALLHAVFDATGRPTPPDMLDGPTASVVCGLVILADWLVSQEDFLLERLTSLPADGSASALRAHFETSLRRIPSLLDAAGLRPITVPPATFTESFPHLSKPNGLQASLAKHLPCLCTGPGLVLITAPMGEGKTEAAYHVADLLGKATGRPGRFLALPTMATADQMHTRLKEYARYRVENTRSSTLALLHSMAWLNPDYAPADPFAATDWLMGRKRGLLAPWAVGTIDQALMAVLRAKHNALRLFGLAGKVVVVDEAHAVDPYMQVLLEQLLRWLGTLDVPVVLLSATLHHSIANSLVKAYLEGARGRRWNRSEPQPVSEVSYPGWLHVDARIGKVTRSSDVDPLPIATTPRKPLEVRLVDVPVKEGALNRSTVLAKELTPLVKQGGCAAIICTTVAEAQGVYDLLSQWFATLGEDAPDLYLLHSRFPNRQRTEITATIVDLFGKEGAQSGRRPTRGAVLVATQVVEQSLDLDVDLMISDLAPVSLLLQRAGRCWRHEHLGIINRPQWAKQPELVVLTPEQNRAPWFPRSWTSVYPLALLQRTYTLLRRRNGAPVQIPEDVQQLVDDVYDDDSLAEDLEADMERMGEELAQRGLARNAVIPDPDDAEDNLNGLTEFVLATRFGAGSVRVLCYYVDTAGNRWLDPECTVEFPEQGTGREGRFTMADCRDLVARTIPVRMGPWASQLTEDNHPPEAWRESFYLRDLVLIPQRVTDEGAVLPTETGGREWLLDPCKGLIF 944
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353     ||366       376      |401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631       641       651       661       671       681       691       701       711      |725       735       745       755       765       775       785       795       805       815||     832       842       852       862       872       882       892       902       912       922       932       942  
                                                                                                                                                                                                                                                                                                                                                                                   359|                 383|                                                                                                                                                                                                                                                                                                                            718|                                                                                          816|                                                                                                                        
                                                                                                                                                                                                                                                                                                                                                                                    363                  399                                                                                                                                                                                                                                                                                                                             723                                                                                           824                                                                                                                        


Chain F from PDB  Type:DNA  Length:11
                                           
                 4qqy F   1 AAAAAAAAAAA  12
                                  ||11 
                                  7|   
                                   9   


Chain G from PDB  Type:PROTEIN  Length:894
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eee........eehhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhh...................hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh..............hhhhhh...hhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhh......hhhhhhhhhhh.......eeeeee.....hhhhhhhhhhhhhhhh....eeeeee.hhhhhhhhhhhhhhhhhhhh.....eeee..hhhhh..........hhhhhh..hhhhh.eeeeehhhhhhhhh...hhhhhhhhhhheeeee......hhhhhhhhhhhhhhhhhh...eeeee...hhhhhhhhhhhhhhhhhh.................eeeeee.....eee................eeeeeeee.ee..ee.hhhhhhhhhhhhhhhh.eeeee..hhhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhhhhhhhhhhh.......eeeee.hhhh........eeeee..hhhhhhhhh.....hhhhh...........eeeeeee........hhhhhh..hhhhhhhhhhhhhh....ee....hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh....hhhhh...hhhhhh...........eeeeeeeee...................hhhhh.hhhhhhhhhh..eeee.hhhhhhhhhhhh.......hhhhhh.eeeeee.........ee....eeeee...eee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4qqy G  14 PPLDLRFWAKERGLRGKTYPLVCHSLDAAAAALVLWNEYLSPGLRDTIASSMETDEEHAGHCIAFWAGLHDIGKLTREFQQQIAIDLSAYPGEELSGEQRSHAAATGKWLPFALPSLGYPNGGLVTGLVAQMLGGHHGTFHPHPSFQSRNPLAEFGFSSPHWEKQRHALLHAVFDATGRPTPPDMLDGPTASVVCGLVILADWLVSQEDFLLERLTSLPADGSASALRAHFETSLRRIPSLLDAAGLRPITVPPATFTESFPHLSKPNGLQASLAKHLPCLCTGPGLVLITAPMGEGKTEAAYHVADLLGKATGRPGRFLALPTMATADQMHTRLKEYARYRVENSSTLALLHSMAWLNPDYAPAPFAATDWLMGRKRGLLAPWAVGTIDQALMAVLRAKHNALRLFGLAGKVVVVDEAHAVDPYMQVLLEQLLRWLGTLDVPVVLLSATLHHSIANSLVKAYLEGARGRRWNRSEPQPVSEVSYPGWLHVDARIGKVTRSSDVDPLPIATTPRKPLEVRLVDVPVKEGALNRSTVLAKELTPLVKQGGCAAIICTTVAEAQGVYDLLSQWFATAPDLYLLHSRFPNRQRTEITATIVDLFGKEGAQSGRRPTRGAVLVATQVVEQSLDLDVDLMISDLAPVSLLLQRAGRCWRHEHLGIINRPQWAKQPELVVLTPEQNRAPWFPRSWTSVYPLALLQRTYTLLRRRNGAPVQIPEDVQQLVDDVYDDDSLAEDLEADMERMGEELAQRGLARNAVIPDPDDAEDNLNGLTEFSVLATRFGAGSVRVLCYYVAGNRWLDPECTVEFPEQGTGREGRFTMADCRDLVARTIPVRMGPWASQLTEDNHPPEAWRESFYLRDLVLIPQRVTDEGAVLPTETGGREWLLDPCKGLIF 944
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353    || 368       378    || 404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554       564       574       584       594       604   ||  618       628       638       648       658       668       678       688       698       708       718|      732       742       752       762       772       782       792       802       812    || 828       838  ||   850       860       870       880       890       900       910       920       930       940    
                                                                                                                                                                                                                                                                                                                                                                                  358|                383|                                                                                                                                                                                                             608|                                                                                                      718|                                                                                           817|              841|                                                                                                    
                                                                                                                                                                                                                                                                                                                                                                                   364                 400                                                                                                                                                                                                              613                                                                                                       723                                                                                            824               844                                                                                                    


Chain H from PDB  Type:DNA  Length:11
                                           
                 4qqy H   1 AAAAAAAAAAA  12
                                  ||11 
                                  7|   
                                   9
   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 4QQY)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4QQY)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4QQY)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    ADP  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    FE  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
    AC7  [ RasMol ]  +environment [ RasMol ]
    AC8  [ RasMol ]  +environment [ RasMol ]
    AC9  [ RasMol ]  +environment [ RasMol ]
    BC1  [ RasMol ]  +environment [ RasMol ]
    BC2  [ RasMol ]  +environment [ RasMol ]
    BC3  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Ala A:613 - Pro A:614   [ RasMol ]  
    Ala A:844 - Gly A:845   [ RasMol ]  
    Ala E:844 - Gly E:845   [ RasMol ]  
    Ala G:613 - Pro G:614   [ RasMol ]  
    Arg C:363 - Ser C:364   [ RasMol ]  
    Asn G:846 - Arg G:847   [ RasMol ]  
    Asp C:612 - Ala C:613   [ RasMol ]  
    Glu C:611 - Asp C:612   [ RasMol ]  
    Gly A:409 - Arg A:410   [ RasMol ]  
    Ile A:757 - Pro A:758   [ RasMol ]  
    Ile C:757 - Pro C:758   [ RasMol ]  
    Ile E:757 - Pro E:758   [ RasMol ]  
    Ile G:757 - Pro G:758   [ RasMol ]  
    Tyr A:519 - Pro A:520   [ RasMol ]  
    Tyr C:519 - Pro C:520   [ RasMol ]  
    Tyr E:519 - Pro E:520   [ RasMol ]  
    Tyr G:519 - Pro G:520   [ RasMol ]  
 
Biological Units
  Complete Structure
    Biological Unit 1  [ Jena3D ]
    Biological Unit 2  [ Jena3D ]
    Biological Unit 3  [ Jena3D ]
    Biological Unit 4  [ Jena3D ]
    Biological Unit 5  [ Jena3D ]
    Biological Unit 6  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym. Unit PNG format | Asym. Unit - sites PNG format | Biol. Unit 1 PNG format | Biol. Unit 1 - sites PNG format | Biol. Unit 2 PNG format | Biol. Unit 3 PNG format | Biol. Unit 4 PNG format | Biol. Unit 5 PNG format | Biol. Unit 6 PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  4qqy
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  Q47PJ0_THEFY | Q47PJ0
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/TrEMBL
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  Q47PJ0_THEFY | Q47PJ0
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/TrEMBL
        Q47PJ0_THEFY | Q47PJ0: 4qqw 4qqx 4qqz

(-) Related Entries Specified in the PDB File

4qqw 4qqy 4qqz