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(-) Description

Title :  STRUCTURE OF BOVINE ENDOTHELIAL NITRIC OXIDE SYNTHASE HEME DOMAIN IN COMPLEX WITH 3,5-BIS(2-(6-AMINO-4-METHYLPYRIDIN-2-YL)ETHYL) BENZONITRILE
 
Authors :  H. Li, T. L. Poulos
Date :  03 Jan 13  (Deposition) - 24 Apr 13  (Release) - 01 May 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Oxidoreductase Nitric Oxide Synthase, Oxidoreductase-Oxidoreductase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Huang, H. Li, P. Martasek, L. J. Roman, T. L. Poulos, R. B. Silverman
Structure-Guided Design Of Selective Inhibitors Of Neuronal Nitric Oxide Synthase.
J. Med. Chem. V. 56 3024 2013
PubMed-ID: 23451760  |  Reference-DOI: 10.1021/JM4000984

(-) Compounds

Molecule 1 - SUBUNIT A
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PCWORI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Common: BOVINE
    Organism Scientific: BOS TAURUS
    Organism Taxid: 9913

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (7, 15)

Asymmetric/Biological Unit (7, 15)
No.NameCountTypeFull Name
11EV2Ligand/Ion3,5-BIS[2-(6-AMINO-4-METHYLPYRIDIN-2-YL)ETHYL]BENZONITRILE
2ACT4Ligand/IonACETATE ION
3CAD2Ligand/IonCACODYLIC ACID
4GOL2Ligand/IonGLYCEROL
5H4B2Ligand/Ion5,6,7,8-TETRAHYDROBIOPTERIN
6HEM2Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
7ZN1Ligand/IonZINC ION

(-) Sites  (15, 15)

Asymmetric Unit (15, 15)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETRP A:180 , CYS A:186 , SER A:228 , PHE A:355 , SER A:356 , TRP A:358 , GLU A:363 , TRP A:449 , PHE A:475 , TYR A:477 , H4B A:502 , 1EV A:503 , HOH A:610 , HOH A:617BINDING SITE FOR RESIDUE HEM A 501
02AC2SOFTWARESER A:104 , ARG A:367 , ALA A:448 , TRP A:449 , HEM A:501 , GOL A:506 , HOH A:610 , HOH A:677 , HOH A:698 , TRP B:447 , PHE B:462 , GLN B:464 , GLU B:465 , HOH B:710BINDING SITE FOR RESIDUE H4B A 502
03AC3SOFTWARELEU A:107 , SER A:248 , GLN A:249 , ARG A:252 , VAL A:338 , PHE A:355 , GLY A:357 , TRP A:358 , GLU A:363 , HEM A:501 , ACT A:505 , HOH A:607 , HOH A:610BINDING SITE FOR RESIDUE 1EV A 503
04AC4SOFTWARETRP A:358 , VAL A:420 , SER A:428BINDING SITE FOR RESIDUE ACT A 504
05AC5SOFTWAREARG A:252 , ASN A:368 , ARG A:374 , 1EV A:503 , HOH A:680BINDING SITE FOR RESIDUE ACT A 505
06AC6SOFTWAREVAL A:106 , ARG A:367 , HIS A:373 , H4B A:502 , TRP B:76 , HOH B:710BINDING SITE FOR RESIDUE GOL A 506
07AC7SOFTWARECYS A:384BINDING SITE FOR RESIDUE CAD A 507
08AC8SOFTWARECYS A:96 , CYS A:101 , CYS B:96 , CYS B:101BINDING SITE FOR RESIDUE ZN A 508
09AC9SOFTWARETRP B:180 , ARG B:185 , CYS B:186 , SER B:228 , PHE B:355 , SER B:356 , TRP B:358 , MET B:360 , GLU B:363 , TYR B:477 , H4B B:502 , 1EV B:503 , HOH B:603 , HOH B:661 , HOH B:675 , HOH B:678BINDING SITE FOR RESIDUE HEM B 501
10BC1SOFTWARETRP A:447 , PHE A:462 , HOH A:636 , SER B:104 , ARG B:367 , ALA B:448 , TRP B:449 , HEM B:501 , GOL B:506 , HOH B:652 , HOH B:678 , HOH B:705BINDING SITE FOR RESIDUE H4B B 502
11BC2SOFTWARETRP A:76 , SER B:248 , GLN B:249 , ARG B:252 , GLY B:357 , TRP B:358 , TYR B:359 , GLU B:363 , TRP B:449 , TYR B:477 , HEM B:501 , ACT B:505 , HOH B:696BINDING SITE FOR RESIDUE 1EV B 503
12BC3SOFTWARETRP B:358 , VAL B:420 , SER B:428 , HOH B:656BINDING SITE FOR RESIDUE ACT B 504
13BC4SOFTWAREGLN B:249 , ARG B:252 , ASN B:368 , ARG B:374 , 1EV B:503 , HOH B:624BINDING SITE FOR RESIDUE ACT B 505
14BC5SOFTWAREVAL B:106 , ARG B:367 , HIS B:373 , H4B B:502BINDING SITE FOR RESIDUE GOL B 506
15BC6SOFTWARETYR B:83 , TRP B:324 , CYS B:384BINDING SITE FOR RESIDUE CAD B 507

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Ser A:472 -Pro A:473
2Ser B:472 -Pro B:473

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4IMX)

(-) Sequences/Alignments

Asymmetric/Biological 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:405
                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains d4imxa_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eee......eee.hhhhhh....................hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh....hhhhh...eeee.....hhhhhhhhhhhhhhhhhhhhh...eeee...........ee.........eee.....eee...hhhhhhhhhhh.............eeee......eee..hhhhh.eee.....hhhhhhhh.eee...ee...eeee..eee....ee..eehhhhhhhhhhh.....hhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh...eehhhhhhhhhhhhhhhhhhhhh....hhhhhh...hhhhhhhhhh.........eee...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4imx A  67 GPKFPRVKNWELGSITYDTLCAQSQQDGPCTPRRCLGSLVLPRPAEQLLSQARDFINQYYSSIKRSGSQAHEERLQEVEAEVASTGTYHLRESELVFGAKQAWRNAPRCVGRIQWGKLQVFDARDCSSAQEMFTYICNHIKYATNRGNLRSAITVFPQRAPGRGDFRIWNSQLVRYAGYRQQDGSVRGDPANVEITELCIQHGWTPGNGRFDVLPLLLQAPDEAPELFVLPPELVLEVPLEHPTLEWFAALGLRWYALPAVSNMLLEIGGLEFSAAPFSGWYMSTEIGTRNLCDPHRYNILEDVAVCMDLDTRTTSSLWKDKAAVEINLAVLHSFQLAKVTIVDHHAATVSFMKHLDNEQKARGGCPADWAWIVPPISGSLTPVFHQEMVNYILSPAFRYQPDPW 482
                                    76        86        96       106  ||   127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477     
                                                                    109|                                                                                                                                                                                                                                                                                                                                                                         
                                                                     121                                                                                                                                                                                                                                                                                                                                                                         


Chain B from PDB  Type:PROTEIN  Length:405
                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains d4imxb_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee......eee.hhhhhh......................hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh.....hhhhh...eeee.....hhhhhhhhhhhhhhhhhhhhh...eeee...........ee.........eee.....eee...hhhhhhhhhhh.............eeee......eee..hhhhh.eee......hhhhhh..eee...ee...eeee..eee....ee..eehhhhhhhhhhh.....hhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh...eehhhhhhhhhhhhhhhhhhhhh....hhhhhh...hhhhhhhhhh.........eee...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4imx B  69 KFPRVKNWELGSITYDTLCAQSQQDGPCTPRRCLGSLVLPRKLPAEQLLSQARDFINQYYSSIKRSGSQAHEERLQEVEAEVASTGTYHLRESELVFGAKQAWRNAPRCVGRIQWGKLQVFDARDCSSAQEMFTYICNHIKYATNRGNLRSAITVFPQRAPGRGDFRIWNSQLVRYAGYRQQDGSVRGDPANVEITELCIQHGWTPGNGRFDVLPLLLQAPDEAPELFVLPPELVLEVPLEHPTLEWFAALGLRWYALPAVSNMLLEIGGLEFSAAPFSGWYMSTEIGTRNLCDPHRYNILEDVAVCMDLDTRTTSSLWKDKAAVEINLAVLHSFQLAKVTIVDHHAATVSFMKHLDNEQKARGGCPADWAWIVPPISGSLTPVFHQEMVNYILSPAFRYQPDPW 482
                                    78        88        98       108  ||   127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477     
                                                                    111|                                                                                                                                                                                                                                                                                                                                                                         
                                                                     121
   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  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (27, 27)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Ser A:472 - Pro A:473   [ RasMol ]  
    Ser B:472 - Pro B:473   [ RasMol ]  
 

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  NOS3_BOVIN | P29473
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 Related Entries

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

UniProtKB/Swiss-Prot
        NOS3_BOVIN | P29473: 1d0c 1d0o 1d1v 1d1w 1d1x 1d1y 1dm6 1dm7 1dm8 1dmi 1dmj 1dmk 1ed4 1ed5 1ed6 1foi 1foj 1fol 1foo 1fop 1i83 1nse 1p6l 1p6m 1p6n 1q2o 1rs8 1rs9 1zzs 1zzt 2g6o 2hx2 2nse 3dqs 3dqt 3e7s 3jww 3jwx 3jwy 3jwz 3n5p 3n5q 3n5r 3n5s 3n5t 3nld 3nle 3nlf 3nlg 3nlh 3nli 3nlt 3nlu 3nse 3pnh 3rqo 3rqp 4c3a 4car 4cft 4cty 4ctz 4cu0 4cu1 4cul 4cum 4cun 4cvg 4cwv 4cww 4cwx 4cwy 4cwz 4cx0 4cx1 4cx2 4d33 4d34 4d35 4d36 4d37 4d38 4d39 4d3a 4jsk 4jsl 4jsm 4k5h 4k5i 4k5j 4k5k 4kcp 4kcq 4kcr 4kcs 4luw 4nse 4uh7 4uh8 4uh9 4uha 4upq 4upr 4ups 4upt 5adj 5adk 5adl 5adm 5adn 5fj2 5fj3 5fvy 5fvz 5nse 5uod 6nse 7nse 8nse 9nse

(-) Related Entries Specified in the PDB File

4ims 4imt 4imu 4imw