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(-) Description

Title :  NUCLEOTIDE-FREE KINESIN-1 MOTOR DOMAIN, P1 CRYSTAL FORM
 
Authors :  L. Cao, B. Gigant
Date :  06 Sep 16  (Deposition) - 01 Mar 17  (Release) - 01 Mar 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B,C,D,E,K
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Biol. Unit 5:  E  (1x)
Biol. Unit 6:  K  (1x)
Keywords :  Kinesin Motor Domain, Adp Dissociation, Nucleotide-Free, Motor Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Cao, S. Cantos-Fernandes, B. Gigant
The Structural Switch Of Nucleotide-Free Kinesin.
Sci Rep V. 7 42558 2017
PubMed-ID: 28195215  |  Reference-DOI: 10.1038/SREP42558

(-) Compounds

Molecule 1 - KINESIN-LIKE PROTEIN
    Chains: A, B, C, D, E, K
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Taxid: 511693
    Gene: KIF5B
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: NUCLEOTIDE-FREE KINESIN-1 MOTOR DOMAIN

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEK
Biological Unit 1 (1x): A     
Biological Unit 2 (1x):  B    
Biological Unit 3 (1x):   C   
Biological Unit 4 (1x):    D  
Biological Unit 5 (1x):     E 
Biological Unit 6 (1x):      K

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 11)

Asymmetric Unit (1, 11)
No.NameCountTypeFull Name
1SO411Ligand/IonSULFATE ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1SO41Ligand/IonSULFATE ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1SO41Ligand/IonSULFATE ION
Biological Unit 3 (1, 3)
No.NameCountTypeFull Name
1SO43Ligand/IonSULFATE ION
Biological Unit 4 (1, 3)
No.NameCountTypeFull Name
1SO43Ligand/IonSULFATE ION
Biological Unit 5 (1, 1)
No.NameCountTypeFull Name
1SO41Ligand/IonSULFATE ION
Biological Unit 6 (1, 2)
No.NameCountTypeFull Name
1SO42Ligand/IonSULFATE ION

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:88 , SER A:89 , GLY A:90 , LYS A:91 , THR A:92 , HOH A:518binding site for residue SO4 A 401
02AC2SOFTWARESER B:88 , SER B:89 , GLY B:90 , LYS B:91 , THR B:92binding site for residue SO4 B 401
03AC3SOFTWAREGLN C:86 , SER C:88 , SER C:89 , GLY C:90 , LYS C:91 , THR C:92 , HOH C:514 , HOH C:532binding site for residue SO4 C 401
04AC4SOFTWARESER C:133 , VAL C:165 , GLU C:170 , HOH C:502binding site for residue SO4 C 402
05AC5SOFTWARELYS A:150 , LYS C:141 , THR C:151 , HOH C:508 , HOH C:546binding site for residue SO4 C 403
06AC6SOFTWARESER D:88 , SER D:89 , GLY D:90 , LYS D:91 , THR D:92binding site for residue SO4 D 401
07AC7SOFTWARETYR D:274 , VAL D:275 , PRO D:276 , TYR D:277 , ARG D:278binding site for residue SO4 D 402
08AC8SOFTWARETYR B:77 , ASN B:78 , ASP B:288 , ASN B:293 , HOH D:501binding site for residue SO4 D 403
09AC9SOFTWARESER E:88 , SER E:89 , GLY E:90 , LYS E:91 , THR E:92binding site for residue SO4 E 401
10AD1SOFTWARESER K:88 , SER K:89 , GLY K:90 , LYS K:91 , THR K:92 , HOH K:519binding site for residue SO4 K 401
11AD2SOFTWAREGLU A:75 , TYR A:77 , GLU K:75 , GLY K:76 , TYR K:77 , HOH K:513binding site for residue SO4 K 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5LT2)

(-) Cis Peptide Bonds  (9, 9)

Asymmetric Unit
No.Residues
1Pro A:17 -Leu A:18
2Glu A:103 -Gly A:104
3Glu B:103 -Gly B:104
4Pro C:17 -Leu C:18
5Glu C:103 -Gly C:104
6Pro D:17 -Leu D:18
7Glu E:103 -Gly E:104
8Gly E:104 -Met E:105
9Pro K:17 -Leu K:18

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5LT2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5LT2)

(-) Exons   (0, 0)

(no "Exon" information available for 5LT2)

(-) 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:314
                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee...hhhhhh.......ee....eeee..eeee..eee....hhhhhhhhhhhhhhhhhhh...eeeeeee....hhhhhhh.........hhhhhhhhhhhhhhhhhh..eeeeeeeeeeeee..eeee.........eeee.....eeee....eee.hhhhhhhhhhhhhh..............eeeeeeeeeeee.....eeeeeeeeeee.........hhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh........eeeeeeee..hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5lt2 A   6 ESNIKVMCRFRPLNESEVNRGDKYIAKFQGEDTVVIASKPYAFDRVFQSSTSQEQVYNDAAKKIVKDVLEGYNGTIFAYGQTSSGKTHTMEGKLHDPEGMGIIPRIVQDIFNYIYSMDENLEFHIKVSYFEIYLDKIRDLLDVSKTNLSVHEDKNRVPYVKGATERFVSSPDEVMDTIDEGKSNRHVAVMNEHSSRSHSIFLINVKQENTQTEQKLSGKLYLVDLAGSEKVSAEGAVLDEAKNINKSLSALGNVISALAEGSTYVPYRDSKMTRILQDSLGGNARTTIVICCSPSSYNESETKSTLLFGQRAKT 324
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       197       207       217       227       237 ||    250       260       270       280       290       300       310       320    
                                                                                                                                                                                                                      194|                                       239|                                                                                 
                                                                                                                                                                                                                       197                                        243                                                                                 


Chain B from PDB  Type:PROTEIN  Length:307
                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee...hhhhhh......eee....eeee..eeee..eee....hhhhhhhhhhhhhhhhhh....eeeee......hhhhhhh.........hhhhhhhhhhhhhhhhhh..eeeeeeeeeeee..eeee..........eee.....eee.....eee.hhhhhhhhhhhhhh...........eeeeeeeeeee......eeeeeeeeee.......hhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh........eeeeeeee..hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5lt2 B   6 ESNIKVMCRFRPLNESEVNRGDKYIAKFQGEDTVVIASKPYAFDRVFQSSTSQEQVYNDAAKKIVKDVLEGYNGTIFAYGQTSSGKTHTMEGKLHDPEGMGIIPRIVQDIFNYIYSMDELEFHIKVSYFEIYLDKIRDLLDVSKTNLSVHEDKNRVPYVKGATERFVSSPDEVMDTIDEGKSNRHVAVTSSRSHSIFLINVKQENTQTEQKLSGKLYLVDLAGSEKEGAVLDEAKNINKSLSALGNVISALAEGSTYVPYRDSKMTRILQDSLGGNARTTIVICCSPSSYNESETKSTLLFGQRAKT 324
                                    15        25        35        45        55        65        75        85        95       105       115       126       136       146       156       166       176       186       201       211       221       231     ||247       257       267       277       287       297       307       317       
                                                                                                                                                124|                                                                  195|                                 237|                                                                                
                                                                                                                                                 126                                                                   201                                  244                                                                                


Chain C from PDB  Type:PROTEIN  Length:308
                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee............ee....eeee..eeee..eee....hhhhhhhhhhhhhhhhhhh...eeeeeee....hhhhhhh.........hhhhhhhhhhhhhhhhh...eeeeeeeeeeeee..eeee.........eeee.....eeee....eee.hhhhhhhhhhhhhh..............eeeeeeeeeeee.....eeeeeeeeee........hhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh........eeeeeeee.....hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5lt2 C   5 AESNIKVMCRFRPLNNRGDKYIAKFQGEDTVVIASKPYAFDRVFQSSTSQEQVYNDAAKKIVKDVLEGYNGTIFAYGQTSSGKTHTMEGKLHDPEGMGIIPRIVQDIFNYIYSMDENLEFHIKVSYFEIYLDKIRDLLDVSKTNLSVHEDKNRVPYVKGATERFVSSPDEVMDTIDEGKSNRHVAVTNMHSSRSHSIFLINVKQENTQTEQKLSGKLYLVDLAGSEKVGAVLDEAKNINKSLSALGNVISALAEGSTYVPYRDSKMTRILQDSLGGNARTTIVICCSPSSYNESETKSTLLFGQRAKT 324
                                    14    ||  28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       200       210       220       230       246       256       266       276       286       296       306       316        
                                         19|                                                                                                                                                                          197|                                   238|                                                                               
                                          24                                                                                                                                                                           200                                    245                                                                               


Chain D from PDB  Type:PROTEIN  Length:313
                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee.....hhhhh.....ee....eeee..eeee..eee....hhhhhhhhhhhhhhhhhh....eeeeeee....hhhhhhh.........hhhhhhhhhhhhhhhhh...eeeeeeeeeeeee..eeee.........eeee.....eeee....eee.hhhhhhhhhhhhhhhh.eee...eee..eeeeeeeeeeee.....eeeeeeeeee........hhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh........eeeeeeee..hhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5lt2 D   5 AESNIKVMCRFRPLNSEVNRGDKYIAKFQGEDTVVIASKPYAFDRVFQSSTSQEQVYNDAAKKIVKDVLEGYNGTIFAYGQTSSGKTHTMEGKLHDPEGMGIIPRIVQDIFNYIYSMDENLEFHIKVSYFEIYLDKIRDLLDVSKTNLSVHEDKNRVPYVKGATERFVSSPDEVMDTIDEGKSNRHVAVTNEHSSRSHSIFLINVKQENTQTEQKLSGKLYLVDLAGSEKVEGAVLDEAKNINKSLSALGNVISALAEGSTYVPYRDSKMTRILQDSLGGNARTTIVICCSPSSYNESETKSTLLFGQRAKTI 325
                                    14    ||  25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195|      207       217       227       237||     252       262       272       282       292       302       312       322   
                                         19|                                                                                                                                                                           195|                                     238|                                                                                 
                                          21                                                                                                                                                                            198                                      244                                                                                 


Chain E from PDB  Type:PROTEIN  Length:307
                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee.........ee....eeee..eeee..eee....hhhhhhhhhhhhhhhhhhh...eeeeeee....hhhhhhh.........hhhhhhhhhhhhhhhhh...eeeeeeeeeeeee..eeee.........eeee.....eeee....eee.hhhhhhhhhhhhhh...ee.....ee..eeeeeeeeeeee.....eeeeeeeeee...........hhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh........eeeeeeee.....hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5lt2 E   7 SNIKVMCRFRPLNDKYIAKFQGEDTVVIASKPYAFDRVFQSSTSQEQVYNDAAKKIVKDVLEGYNGTIFAYGQTSSGKTHTMEGKLHDPEGMGIIPRIVQDIFNYIYSMDENLEFHIKVSYFEIYLDKIRDLLDVSKTNLSVHEDKNRVPYVKGATERFVSSPDEVMDTIDEGKSNRHVAVMNEHSSRSHSIFLINVKQENTQTEQKLSGKLYLVDLAGSEKVSKTEGAVLDEAKNINKSLSALGNVISALAEGSTYVPYRDSKMTRILQDSLGGNARTTIVICCSPSSYNESETKSTLLFGQRAKT 324
                                    16  ||    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193||     205       215       225       235     ||247       257       267       277       287       297       307       317       
                                       19|                                                                                                                                                                    194|                                         241|                                                                                
                                        27                                                                                                                                                                     197                                          244                                                                                


Chain K from PDB  Type:PROTEIN  Length:307
                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee....hhhhh....eee....eeee..eeee..eee....hhhhhhhhhhhhhhhhhhh...eeeeee.....hhhhhhh.........hhhhhhhhhhhhhhhhhh..eeeeeeeeeeeee..eeee.........eeee.....eeee....eee.hhhhhhhhhhhhhh...........eeeeeeeeeeee.....eeeeeeeeeee.......hhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh........eeeeeeee..hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5lt2 K   5 AESNIKVMCRFRPLNEVNRGDKYIAKFQGEDTVVIASKPYAFDRVFQSSTSQEQVYNDAAKKIVKDVLEGYNGTIFAYGQTSSGKTHTMEGKLHDPEGMGIIPRIVQDIFNYIYSMDENLEFHIKVSYFEIYLDKIRDLLDVSKTNLSVHEDKNRVPYVKGATERFVSSPDEVMDTIDEGKSNRHVAEHSSRSHSIFLINVKQENTQTEQKLSGKLYLVDLAGSEKVGAVLDEAKNINKSLSALGNVISALAEGSTYVPYRDSKMTRILQDSLGGNARTTIVICCSPSSYNESETKSTLLFGQRAKT 324
                                    14    ||  26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186      |201       211       221       231      |247       257       267       277       287       297       307       317       
                                         19|                                                                                                                                                                        193|                                    238|                                                                               
                                          22                                                                                                                                                                         199                                     245
   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 5LT2)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5LT2)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5LT2)

(-) Gene Ontology  (29, 35)

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  5lt2
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  Q6P164_HUMAN | Q6P164
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 Related Entries

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

UniProtKB/Swiss-Prot
        KINH_HUMAN | P33176: 1bg2 1mkj 2p4n 3j8x 3j8y 4hna 4lnu 5lt0 5lt1 5lt3 5lt4
        Q6P164_HUMAN | Q6P164: 5lt0 5lt1

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5LT2)