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(-) Description

Title :  CRYSTAL STRUCTURE OF PHOTOINHIBITABLE INTERSECTIN1 CONTAINING WILDTYPE LOV2 DOMAIN IN COMPLEX WITH CDC42
 
Authors :  M. Tarnawski, O. Dagliyan, P. H. Chu, D. Shirvanyants, N. V. Dokholyan, I. Schlichting
Date :  02 Feb 16  (Deposition) - 21 Dec 16  (Release) - 28 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.30
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Signaling Protein, Photoswitch, Chimera, Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  O. Dagliyan, M. Tarnawski, P. H. Chu, D. Shirvanyants, I. Schlichting N. V. Dokholyan, K. M. Hahn
Engineering Extrinsic Disorder To Control Protein Activity In Living Cells.
Science V. 354 1441 2016
PubMed-ID: 27980211  |  Reference-DOI: 10.1126/SCIENCE.AAH3404

(-) Compounds

Molecule 1 - CELL DIVISION CONTROL PROTEIN 42 HOMOLOG
    Chains: A, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: CDC42
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: G25K GTP-BINDING PROTEIN
 
Molecule 2 - INTERSECTIN-1,NPH1-1,INTERSECTIN-1
    Chains: B, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: ITSN1, ITSN, SH3D1A, NPH1-1
    Organism Common: HUMAN, OAT
    Organism Scientific: HOMO SAPIENS, AVENA SATIVA
    Organism Taxid: 9606, 4498
    Synonym: SH3 DOMAIN-CONTAINING PROTEIN 1A,SH3P17,SH3 DOMAIN- CONTAINING PROTEIN 1A,SH3P17

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1FMN2Ligand/IonFLAVIN MONONUCLEOTIDE
2GDP2Ligand/IonGUANOSINE-5'-DIPHOSPHATE
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1FMN1Ligand/IonFLAVIN MONONUCLEOTIDE
2GDP1Ligand/IonGUANOSINE-5'-DIPHOSPHATE
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1FMN1Ligand/IonFLAVIN MONONUCLEOTIDE
2GDP1Ligand/IonGUANOSINE-5'-DIPHOSPHATE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:11 , ALA A:13 , VAL A:14 , GLY A:15 , LYS A:16 , THR A:17 , CYS A:18 , GLN A:116 , ASP A:118 , LEU A:119 , SER A:158 , ALA A:159 , LEU A:160binding site for residue GDP A 200
2AC2SOFTWAREVAL B:1321 , THR B:1323 , ASN B:1330 , ASN B:1354 , CYS B:1355 , ARG B:1356 , LEU B:1358 , GLN B:1359 , VAL B:1368 , ILE B:1371 , ARG B:1372 , ILE B:1375 , LEU B:1385 , ASN B:1387 , ASN B:1397 , PHE B:1399 , LEU B:1401 , PHE B:1414 , GLY B:1416 , GLN B:1418binding site for residue FMN B 1801
3AC3SOFTWAREASP C:11 , ALA C:13 , VAL C:14 , GLY C:15 , LYS C:16 , THR C:17 , CYS C:18 , GLN C:116 , ASP C:118 , LEU C:119 , SER C:158 , ALA C:159 , LEU C:160binding site for residue GDP C 201
4AC4SOFTWAREGLY A:164 , VAL D:1321 , THR D:1323 , ASN D:1330 , ASN D:1354 , CYS D:1355 , ARG D:1356 , LEU D:1358 , GLN D:1359 , ARG D:1372 , ILE D:1375 , LEU D:1385 , ASN D:1387 , ASN D:1397 , PHE D:1399 , LEU D:1401 , PHE D:1414 , GLY D:1416 , GLN D:1418binding site for residue FMN D 1801

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5HZK)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5HZK)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5HZK)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5HZK)

(-) Exons   (0, 0)

(no "Exon" information available for 5HZK)

(-) 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:176
                                                                                                                                                                                                                 
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee....hhhhhhhhhhh..............eeeeeee..eeeeeeeee.........hhhhh.....eeeeeee..hhhhhhhhhhhhhhhhhhhh....eeeeeehhhhh.hhhhhhhhhh......hhhhhhhhhhhh....eee.......hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5hzk A    3 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVFDEAILAALE  178
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172      


Chain B from PDB  Type:PROTEIN  Length:460
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeee........eeeehhhhhhhhh.hhhhh...hhhhhh....hhhhhhhhhhhhhh...eeeeeeee.....eeeeeeeeeeee.....eeeeeeee.ee....hhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........................eeeeeeeee.....eeeeeee..eeeeee........ee...ee..eeee..eeeeee..hhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5hzk B 1231 LTPTERKRQGYIHELIVTEENYVNDLQLVTEIFQKPLMESELLTEKEVAMIFVNWKELIMCNIKLLKALRVRKKMSGELATTLERIEKNFVITDPRLPDNPIIFASDSFLQLTEYSREEILGRNCRFLQGPETDRATVRKIRDAIDNQTEVTVQLINYTKSGKKFWNLFHLQPMRDQKGDVQYFIGVQLDGTEHVRDAAEREGVMLIKKTAENIDEAAKELKMPVKMIGDILSAQLPHMQPYIRFCSRQLNGAALIQQKTDEAPDFKEFVKRLAMDPRCKGMPLSSFILKPMQRVTRYPLIIKNILENTPENHPDHSHLKHALEKAEELCSQVNEGVREKENSDRLEWIQAHVQCEGLSEQLVFNSVTNCLGPRKFLHSGKLYKAKSNKELYGFLFNDFLLLTQIYKMYKTPIFLNEVLVFHISHIDRVYTLRAESINERTAWVQKIKAASELYIETEKK 1722
                                  1240      1250      1260      1270      1280      1290      1300      1310      1320      1330      1340      1350      1360      1370      1380      1390      1400      1410      1420      1430      1440      1450      1460      1470      1480      1490      1500      1510      1520      1530      1540      1550      1560      1570      1580      1590      1600      1610      1620      1630    ||1660      1670|     1692      1702      1712      1722
                                                                                                                                                                                                                                                                                                                                                                                                                                             1635|          1670|                                       
                                                                                                                                                                                                                                                                                                                                                                                                                                              1656           1683                                       


Chain C from PDB  Type:PROTEIN  Length:176
                                                                                                                                                                                                                 
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee....hhhhhhhhhhh..............eeeeeee..eeeeeeeee.........hhhhh.....eeeeeee..hhhhhhhhhhhhhhhhhhhh....eeeeeehhhhh.hhhhhhhhhh......hhhhhhhhhhhh....eee.......hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5hzk C    3 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVFDEAILAALE  178
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172      


Chain D from PDB  Type:PROTEIN  Length:471
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeee........eeeehhhhhhhhh.........hhhhhh....hhhhhhhhhhhhhh...eeeeeeee.....eeeeeeeeeeee.....eeeeeeee.ee....hhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.ee.....................eeeeeeeee.....eeeeeee..eeeeeeee........eeee....ee.......eee....eeeeee.hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5hzk D 1231 LTPTERKRQGYIHELIVTEENYVNDLQLVTEIFQKPLMESELLTEKEVAMIFVNWKELIMCNIKLLKALRVRKKMSGELATTLERIEKNFVITDPRLPDNPIIFASDSFLQLTEYSREEILGRNCRFLQGPETDRATVRKIRDAIDNQTEVTVQLINYTKSGKKFWNLFHLQPMRDQKGDVQYFIGVQLDGTEHVRDAAEREGVMLIKKTAENIDEAAKELKMPVKMIGDILSAQLPHMQPYIRFCSRQLNGAALIQQKTDEAPDFKEFVKRLAMDPRCKGMPLSSFILKPMQRVTRYPLIIKNILENTPENHPDHSHLKHALEKAEELCSQVNEGVREKENSDRLEWIQAHVQCEGLSEQLVFNSVTNCLGPRKFLHSGKLYKAKSNKELYGFLFNDFLLLTQITVFSPKSNLQYKMYKTPIFLNEVLVFHISHIDRVYTLRAESINERTAWVQKIKAASELYIETEKKK 1723
                                  1240      1250      1260      1270      1280      1290      1300      1310      1320      1330      1340      1350      1360      1370      1380      1390      1400      1410      1420      1430      1440      1450      1460      1470      1480      1490      1500      1510      1520      1530      1540      1550      1560      1570      1580      1590      1600      1610      1620      1630     |1650      1660      1670|     1692      1702      1712      1722 
                                                                                                                                                                                                                                                                                                                                                                                                                                              1636|                   1670|                                        
                                                                                                                                                                                                                                                                                                                                                                                                                                               1647                    1683
   Legend:   → Mismatch (orange background)
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  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 5HZK)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5HZK)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5HZK)

(-) Gene Ontology  (139, 150)

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  5hzk
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  ITSN1_HUMAN | Q15811
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  O49003_AVESA | O49003
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 Related Entries

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

UniProtKB/Swiss-Prot
        CDC42_HUMAN | P60953: 1a4r 1aje 1am4 1an0 1cee 1cf4 1doa 1e0a 1ees 1grn 1gzs 1ki1 1kz7 1kzg 1nf3 2ase 2dfk 2kb0 2ngr 2odb 2qrz 2wm9 2wmn 2wmo 3gcg 3qbv 3vhl 4did 4itr 4js0 4yc7 4ydh 5cjp 5fi1
        ITSN1_HUMAN | Q15811: 1ki1 2kgr 2khn 3fia 3qbv 4iim 5hzi 5hzj
UniProtKB/TrEMBL
        O49003_AVESA | O49003: 2v0u 2v0w 2v1a 2v1b 2wkp 2wkq 2wkr 4wf0 5efw 5hzh 5hzi 5hzj

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5HZK)