2VKX - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Title :   HUMAN NCAM, FN3 DOMAINS 1 AND 2, M610R MUTANT

Authors :   F. Carafoli, J. L. Saffell, E. Hohenester

Date :   04 Jan 08 (Deposition) - 26 Feb 08 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.70

Chains :   Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C,D  (1x)
Biol. Unit 3: E,F  (1x)

Keywords :   Adhesion Receptor, Cell Adhesion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   F. Carafoli, J. L. Saffell, E. Hohenester
Structure Of The Tandem Fibronectin Type 3 Domains Of Neural Cell Adhesion Molecule
J. Mol. Biol. V. 377 524 2008
PubMed-ID: 18261743 | Reference-DOI: 10.1016/J.JMB.2008.01.030

Molecule 1 - NEURAL CELL ADHESION MOLECULE
	Chains	:	A, B, C, D, E, F
	Engineered	:	YES
	Expression System	:	HOMO SAPIENS
	Expression System Cell Line	:	293-EBNA
	Expression System Taxid	:	9606
	Expression System Vector	:	PCEP-PU
	Fragment	:	FN3 DOMAINS, RESIDUES 496-598,601-692
	Mutation	:	YES
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	N-CAM 140, NCAM-140, CD56 ANTIGEN

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 11)

No.	Name	Count	Type	Full Name
1	SO4	11	Ligand/Ion	SULFATE ION

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 2 (1, 3)

No.	Name	Count	Type	Full Name
1	SO4	3	Ligand/Ion	SULFATE ION

Biological Unit 3 (1, 6)

No.	Name	Count	Type	Full Name
1	SO4	6	Ligand/Ion	SULFATE ION

Asymmetric Unit (11, 11)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HIS A:546 , SER A:547 , LYS A:646 , ASP A:664	BINDING SITE FOR RESIDUE SO4 A1696
02	AC2	SOFTWARE	ALA C:539 , HIS C:546 , LYS C:567 , TYR C:572	BINDING SITE FOR RESIDUE SO4 C1696
03	AC3	SOFTWARE	ARG C:639 , LEU C:641 , SER C:642 , GLU E:569 , THR E:571	BINDING SITE FOR RESIDUE SO4 C1697
04	AC4	SOFTWARE	GLU D:569 , THR D:570 , THR D:571 , LYS D:594 , ARG F:639 , LEU F:641 , SER F:642	BINDING SITE FOR RESIDUE SO4 F1696
05	AC5	SOFTWARE	ALA F:692 , ALA F:693	BINDING SITE FOR RESIDUE SO4 F1697
06	AC6	SOFTWARE	ALA A:692 , ALA A:693	BINDING SITE FOR RESIDUE SO4 A1697
07	AC7	SOFTWARE	ARG D:650 , ARG F:538 , ALA F:539 , GLU F:542 , HIS F:546 , TYR F:572	BINDING SITE FOR RESIDUE SO4 F1698
08	AC8	SOFTWARE	ARG A:538 , ASN E:666 , ARG E:690	BINDING SITE FOR RESIDUE SO4 E1695
09	AC9	SOFTWARE	ALA D:692 , ALA D:693	BINDING SITE FOR RESIDUE SO4 D1696
10	BC1	SOFTWARE	PRO B:652 , SER F:643 , LYS F:646	BINDING SITE FOR RESIDUE SO4 F1699
11	BC2	SOFTWARE	ARG F:632 , HIS F:633 , ARG F:650	BINDING SITE FOR RESIDUE SO4 F1700

(no "SS Bond" information available for 2VKX)

(no "Cis Peptide Bond" information available for 2VKX)

Asymmetric Unit (1, 6)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_049961	E	679	D	NCAM1_HUMAN	Polymorphism	17115280	A/B/C/D/E/F	E	668	D

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 1 (1, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_049961	E	679	D	NCAM1_HUMAN	Polymorphism	17115280	A/B	E	668	D

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 2 (1, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_049961	E	679	D	NCAM1_HUMAN	Polymorphism	17115280	C/D	E	668	D

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 3 (1, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_049961	E	679	D	NCAM1_HUMAN	Polymorphism	17115280	E/F	E	668	D

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric Unit (1, 12)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FN3	PS50853	Fibronectin type-III domain profile.	NCAM1_HUMAN	509-608 611-706	12	A:499-598 B:499-598 C:499-598 D:499-598 E:499-598 F:499-598 A:600-693 B:600-693 C:600-693 D:600-693 E:600-693 F:600-693

Biological Unit 1 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FN3	PS50853	Fibronectin type-III domain profile.	NCAM1_HUMAN	509-608 611-706	4	A:499-598 B:499-598 - - - - A:600-693 B:600-693 - - - -

Biological Unit 2 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FN3	PS50853	Fibronectin type-III domain profile.	NCAM1_HUMAN	509-608 611-706	4	- - C:499-598 D:499-598 - - - - C:600-693 D:600-693 - -

Biological Unit 3 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FN3	PS50853	Fibronectin type-III domain profile.	NCAM1_HUMAN	509-608 611-706	4	- - - - E:499-598 F:499-598 - - - - E:600-693 F:600-693

Asymmetric Unit (5, 30)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.6	ENST00000316851	6	ENSE00001530989	chr11:113067915-113067938	24	NCAM1_HUMAN	1-8	8	0	-	-
1.7a	ENST00000316851	7a	ENSE00001530988	chr11:113073076-113073175	100	NCAM1_HUMAN	9-42	34	0	-	-
1.8a	ENST00000316851	8a	ENSE00001660707	chr11:113075008-113075226	219	NCAM1_HUMAN	42-115	74	0	-	-
1.9b	ENST00000316851	9b	ENSE00001659816	chr11:113076245-113076388	144	NCAM1_HUMAN	115-163	49	0	-	-
1.10	ENST00000316851	10	ENSE00001338262	chr11:113076765-113076902	138	NCAM1_HUMAN	163-209	47	0	-	-
1.11	ENST00000316851	11	ENSE00001338259	chr11:113077983-113078100	118	NCAM1_HUMAN	209-248	40	0	-	-
1.12	ENST00000316851	12	ENSE00001338256	chr11:113078555-113078724	170	NCAM1_HUMAN	248-305	58	0	-	-
1.13	ENST00000316851	13	ENSE00000989824	chr11:113085091-113085233	143	NCAM1_HUMAN	305-352	48	0	-	-
1.14a	ENST00000316851	14a	ENSE00002168218	chr11:113092018-113092047	30	NCAM1_HUMAN	353-362	10	0	-	-
1.16b	ENST00000316851	16b	ENSE00001725196	chr11:113102367-113102517	151	NCAM1_HUMAN	363-413	51	0	-	-
1.17b	ENST00000316851	17b	ENSE00001701392	chr11:113102892-113103076	185	NCAM1_HUMAN	413-474	62	0	-	-
1.18b	ENST00000316851	18b	ENSE00001742465	chr11:113103440-113103536	97	NCAM1_HUMAN	475-507	33	6	A:497-497 B:497-497 C:497-497 D:497-497 E:492-497 (gaps) F:497-497	1 1 1 1 31 1
1.19b	ENST00000316851	19b	ENSE00001680751	chr11:113103869-113104039	171	NCAM1_HUMAN	507-564	58	6	A:497-554 B:497-554 C:497-554 D:497-554 E:497-554 F:497-554	58 58 58 58 58 58
1.20b	ENST00000316851	20b	ENSE00001127020	chr11:113105755-113105890	136	NCAM1_HUMAN	564-609	46	6	A:554-599 B:554-599 C:554-599 D:554-599 E:554-599 F:554-599	46 46 46 46 46 46
1.28c	ENST00000316851	28c	ENSE00001127014	chr11:113126600-113126723	124	NCAM1_HUMAN	609-650	42	6	A:599-639 (gaps) B:599-639 (gaps) C:599-639 (gaps) D:599-639 (gaps) E:599-639 (gaps) F:599-639 (gaps)	42 42 42 42 42 42
1.29e	ENST00000316851	29e	ENSE00001795910	chr11:113130868-113131045	178	NCAM1_HUMAN	651-710	60	6	A:640-695 B:640-694 C:640-695 D:640-695 E:640-694 F:640-695	56 55 56 56 55 56
1.31c	ENST00000316851	31c	ENSE00001723448	chr11:113140910-113141117	208	NCAM1_HUMAN	710-779	70	0	-	-
1.32	ENST00000316851	32	ENSE00001694365	chr11:113142482-113142598	117	NCAM1_HUMAN	779-818	40	0	-	-
1.34h	ENST00000316851	34h	ENSE00001382162	chr11:113145989-113149133	3145	NCAM1_HUMAN	818-857	40	0	-	-

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:199
 aligned with NCAM1_HUMAN | P13591 from UniProtKB/Swiss-Prot  Length:858

    Alignment length:200
                                   516       526       536       546       556       566       576       586       596       606       616       626       636       646       656       666       676       686       696       706
          NCAM1_HUMAN   507 ADTPSSPSIDQVEPYSSTAQVQFDEPEATGGVPILKYKAEWRAVGEEVWHSKWYDAKEASMEGIVTIVGLKPETTYAVRLAALNGKGLGEISAASEFKTQPVQGEPSAPKLEGQMGEDGNSIKVNLIKQDDGGSPIRHYLVRYRALSSEWKPEIRLPSGSDHVMLKSLDWNAEYEVYVVAENQQGKSKAAHFVFRTSAQP 706
               SCOP domains -d2vkxa1 A:498-598 Neural cell adhesion molecule 1, NCAM                                              ---d2vkxa2 A:601-693 Neural cell adhesion molecule 1, NCAM                                      -- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeee....eeeeee.........eeeeeeeeee......eeeeeehhhhhh..eeee.......eeeeeeeeee..ee......eeee.....-.....eeeeee......eeeeee........eeeeeeeeee........eeee....eeee.......eeeeeeeeee..ee...eeeeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------D--------------------------- SAPs(SNPs)
                    PROSITE --FN3  PDB: A:499-598 UniProt: 509-608                                                                --FN3  PDB: A:600-693 UniProt: 611-706                                                             PROSITE
           Transcript 1 (1) 1--------------------------------------------------------Exon 1.20b  PDB: A:554-599 UniProt: 564-609   -----------------------------------------Exon 1.29e  PDB: A:640-695 UniProt: 651-710 [INCOMPLETE] Transcript 1 (1)
           Transcript 1 (2) Exon 1.19b  PDB: A:497-554 UniProt: 507-564               --------------------------------------------Exon 1.28c  PDB: A:599-639 (gaps)         -------------------------------------------------------- Transcript 1 (2)
                 2vkx A 497 ADTPSSPSIDQVEPYSSTAQVQFDEPEATGGVPILKYKAEWRAVGEEVWHSKWYDAKEASMEGIVTIVGLKPETTYAVRLAALNGKGLGEISAASEFKTQPVR-EPSAPKLEGQRGEDGNSIKVNLIKQDDGGSPIRHYLVRYRALSSEWKPEIRLPSGSDHVMLKSLDWNAEYEVYVVAENQQGKSKAAHFVFRTAAAH 695
                                   506       516       526       536       546       556       566       576       586       596  | |  605       615       625       635       645       655       665       675       685       695
                                                                                                                                599 |                                                                                               
                                                                                                                                  600

Chain B from PDB  Type:PROTEIN  Length:198
 aligned with NCAM1_HUMAN | P13591 from UniProtKB/Swiss-Prot  Length:858

    Alignment length:199
                                   516       526       536       546       556       566       576       586       596       606       616       626       636       646       656       666       676       686       696         
          NCAM1_HUMAN   507 ADTPSSPSIDQVEPYSSTAQVQFDEPEATGGVPILKYKAEWRAVGEEVWHSKWYDAKEASMEGIVTIVGLKPETTYAVRLAALNGKGLGEISAASEFKTQPVQGEPSAPKLEGQMGEDGNSIKVNLIKQDDGGSPIRHYLVRYRALSSEWKPEIRLPSGSDHVMLKSLDWNAEYEVYVVAENQQGKSKAAHFVFRTSAQ 705
               SCOP domains -d2vkxb1 B:498-598 Neural cell adhesion molecule 1, NCAM                                              ---d2vkxb2 B:601-693 Neural cell adhesion molecule 1, NCAM                                      - SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeee....eeeeee.........eeeeeeeeee......eeeeeehhhhhhhh.eee.......eeeeeeeeee..ee......eeee.....-.....eeeeee......eeeeee........eeeeeeeeee........eeee....eeee.......eeeeeeeeee.......eeeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------D-------------------------- SAPs(SNPs)
                    PROSITE --FN3  PDB: B:499-598 UniProt: 509-608                                                                --FN3  PDB: B:600-693 UniProt: 611-706                                                            PROSITE
           Transcript 1 (1) 1--------------------------------------------------------Exon 1.20b  PDB: B:554-599 UniProt: 564-609   -----------------------------------------Exon 1.29e  PDB: B:640-694 UniProt: 651-710             Transcript 1 (1)
           Transcript 1 (2) Exon 1.19b  PDB: B:497-554 UniProt: 507-564               --------------------------------------------Exon 1.28c  PDB: B:599-639 (gaps)         ------------------------------------------------------- Transcript 1 (2)
                 2vkx B 497 ADTPSSPSIDQVEPYSSTAQVQFDEPEATGGVPILKYKAEWRAVGEEVWHSKWYDAKEASMEGIVTIVGLKPETTYAVRLAALNGKGLGEISAASEFKTQPVR-EPSAPKLEGQRGEDGNSIKVNLIKQDDGGSPIRHYLVRYRALSSEWKPEIRLPSGSDHVMLKSLDWNAEYEVYVVAENQQGKSKAAHFVFRTAAA 694
                                   506       516       526       536       546       556       566       576       586       596  | |  605       615       625       635       645       655       665       675       685         
                                                                                                                                599 |                                                                                              
                                                                                                                                  600

Chain C from PDB  Type:PROTEIN  Length:199
 aligned with NCAM1_HUMAN | P13591 from UniProtKB/Swiss-Prot  Length:858

    Alignment length:200
                                   516       526       536       546       556       566       576       586       596       606       616       626       636       646       656       666       676       686       696       706
          NCAM1_HUMAN   507 ADTPSSPSIDQVEPYSSTAQVQFDEPEATGGVPILKYKAEWRAVGEEVWHSKWYDAKEASMEGIVTIVGLKPETTYAVRLAALNGKGLGEISAASEFKTQPVQGEPSAPKLEGQMGEDGNSIKVNLIKQDDGGSPIRHYLVRYRALSSEWKPEIRLPSGSDHVMLKSLDWNAEYEVYVVAENQQGKSKAAHFVFRTSAQP 706
               SCOP domains -d2vkxc1 C:498-598 Neural cell adhesion molecule 1, NCAM                                              ---d2vkxc2 C:601-693 Neural cell adhesion molecule 1, NCAM                                      -- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeee...eeeeeee.........eeeeeeeeee......eeeeeehhhhhh...eeee......eeeeeeeeee..........eeee.....-.................eeeeeee.......eeeeeeeeee........eee.....eeee.......eeeeeeeeee..ee.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------D--------------------------- SAPs(SNPs)
                    PROSITE --FN3  PDB: C:499-598 UniProt: 509-608                                                                --FN3  PDB: C:600-693 UniProt: 611-706                                                             PROSITE
           Transcript 1 (1) 1--------------------------------------------------------Exon 1.20b  PDB: C:554-599 UniProt: 564-609   -----------------------------------------Exon 1.29e  PDB: C:640-695 UniProt: 651-710 [INCOMPLETE] Transcript 1 (1)
           Transcript 1 (2) Exon 1.19b  PDB: C:497-554 UniProt: 507-564               --------------------------------------------Exon 1.28c  PDB: C:599-639 (gaps)         -------------------------------------------------------- Transcript 1 (2)
                 2vkx C 497 ADTPSSPSIDQVEPYSSTAQVQFDEPEATGGVPILKYKAEWRAVGEEVWHSKWYDAKEASMEGIVTIVGLKPETTYAVRLAALNGKGLGEISAASEFKTQPVR-EPSAPKLEGQRGEDGNSIKVNLIKQDDGGSPIRHYLVRYRALSSEWKPEIRLPSGSDHVMLKSLDWNAEYEVYVVAENQQGKSKAAHFVFRTAAAH 695
                                   506       516       526       536       546       556       566       576       586       596  | |  605       615       625       635       645       655       665       675       685       695
                                                                                                                                599 |                                                                                               
                                                                                                                                  600

Chain D from PDB  Type:PROTEIN  Length:199
 aligned with NCAM1_HUMAN | P13591 from UniProtKB/Swiss-Prot  Length:858

    Alignment length:200
                                   516       526       536       546       556       566       576       586       596       606       616       626       636       646       656       666       676       686       696       706
          NCAM1_HUMAN   507 ADTPSSPSIDQVEPYSSTAQVQFDEPEATGGVPILKYKAEWRAVGEEVWHSKWYDAKEASMEGIVTIVGLKPETTYAVRLAALNGKGLGEISAASEFKTQPVQGEPSAPKLEGQMGEDGNSIKVNLIKQDDGGSPIRHYLVRYRALSSEWKPEIRLPSGSDHVMLKSLDWNAEYEVYVVAENQQGKSKAAHFVFRTSAQP 706
               SCOP domains -d2vkxd1 D:498-598 Neural cell adhesion molecule 1, NCAM                                              ---d2vkxd2 D:601-693 Neural cell adhesion molecule 1, NCAM                                      -- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeee....eeeeee............eeeeeee......eeeeehhhhhhhhheeee.......eeeeeeeeee..eeeee............-.....eeeeee......eeeeee........eeeeeeeeee........eeee....eeee.......eeeeeeeeee.......eeeeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------D--------------------------- SAPs(SNPs)
                    PROSITE --FN3  PDB: D:499-598 UniProt: 509-608                                                                --FN3  PDB: D:600-693 UniProt: 611-706                                                             PROSITE
           Transcript 1 (1) 1--------------------------------------------------------Exon 1.20b  PDB: D:554-599 UniProt: 564-609   -----------------------------------------Exon 1.29e  PDB: D:640-695 UniProt: 651-710 [INCOMPLETE] Transcript 1 (1)
           Transcript 1 (2) Exon 1.19b  PDB: D:497-554 UniProt: 507-564               --------------------------------------------Exon 1.28c  PDB: D:599-639 (gaps)         -------------------------------------------------------- Transcript 1 (2)
                 2vkx D 497 ADTPSSPSIDQVEPYSSTAQVQFDEPEATGGVPILKYKAEWRAVGEEVWHSKWYDAKEASMEGIVTIVGLKPETTYAVRLAALNGKGLGEISAASEFKTQPVR-EPSAPKLEGQRGEDGNSIKVNLIKQDDGGSPIRHYLVRYRALSSEWKPEIRLPSGSDHVMLKSLDWNAEYEVYVVAENQQGKSKAAHFVFRTAAAH 695
                                   506       516       526       536       546       556       566       576       586       596  | |  605       615       625       635       645       655       665       675       685       695
                                                                                                                                599 |                                                                                               
                                                                                                                                  600

Chain E from PDB  Type:PROTEIN  Length:203
 aligned with NCAM1_HUMAN | P13591 from UniProtKB/Swiss-Prot  Length:858

    Alignment length:229
                                   486       496       506       516       526       536       546       556       566       576       586       596       606       616       626       636       646       656       666       676       686       696         
          NCAM1_HUMAN   477 TPDSENDFGNYNCTAVNRIGQESLEFILVQADTPSSPSIDQVEPYSSTAQVQFDEPEATGGVPILKYKAEWRAVGEEVWHSKWYDAKEASMEGIVTIVGLKPETTYAVRLAALNGKGLGEISAASEFKTQPVQGEPSAPKLEGQMGEDGNSIKVNLIKQDDGGSPIRHYLVRYRALSSEWKPEIRLPSGSDHVMLKSLDWNAEYEVYVVAENQQGKSKAAHFVFRTSAQ 705
               SCOP domains -------------------------------d2vkxe1 E:498-598 Neural cell adhesion molecule 1, NCAM                                              ---d2vkxe2 E:601-693 Neural cell adhesion molecule 1, NCAM                                      - SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..-------------------------..........eeeeeee....eeeeee...........eeeeeeee......eeeeeehhhhhhhheeee.......eeeeeeeeee..ee...............-.....eeeeee......eeeeee........eeeeeeeeee........eeee....eeee.......eeeeeeeeee..ee...eeeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------D-------------------------- SAPs(SNPs)
                    PROSITE --------------------------------FN3  PDB: E:499-598 UniProt: 509-608                                                                --FN3  PDB: E:600-693 UniProt: 611-706                                                            PROSITE
           Transcript 1 (1) Exon 1.18b UniProt: 475-507    --------------------------------------------------------Exon 1.20b  PDB: E:554-599 UniProt: 564-609   -----------------------------------------Exon 1.29e  PDB: E:640-694 UniProt: 651-710             Transcript 1 (1)
           Transcript 1 (2) ------------------------------Exon 1.19b  PDB: E:497-554 UniProt: 507-564               --------------------------------------------Exon 1.28c  PDB: E:599-639 (gaps)         ------------------------------------------------------- Transcript 1 (2)
                 2vkx E 492 AP-------------------------LAQADTPSSPSIDQVEPYSSTAQVQFDEPEATGGVPILKYKAEWRAVGEEVWHSKWYDAKEASMEGIVTIVGLKPETTYAVRLAALNGKGLGEISAASEFKTQPVR-EPSAPKLEGQRGEDGNSIKVNLIKQDDGGSPIRHYLVRYRALSSEWKPEIRLPSGSDHVMLKSLDWNAEYEVYVVAENQQGKSKAAHFVFRTAAA 694
                             |       -         -       496       506       516       526       536       546       556       566       576       586       596  | |  605       615       625       635       645       655       665       675       685         
                           493                       494                                                                                                      599 |                                                                                              
                                                                                                                                                                600

Chain F from PDB  Type:PROTEIN  Length:199
 aligned with NCAM1_HUMAN | P13591 from UniProtKB/Swiss-Prot  Length:858

    Alignment length:200
                                   516       526       536       546       556       566       576       586       596       606       616       626       636       646       656       666       676       686       696       706
          NCAM1_HUMAN   507 ADTPSSPSIDQVEPYSSTAQVQFDEPEATGGVPILKYKAEWRAVGEEVWHSKWYDAKEASMEGIVTIVGLKPETTYAVRLAALNGKGLGEISAASEFKTQPVQGEPSAPKLEGQMGEDGNSIKVNLIKQDDGGSPIRHYLVRYRALSSEWKPEIRLPSGSDHVMLKSLDWNAEYEVYVVAENQQGKSKAAHFVFRTSAQP 706
               SCOP domains -d2vkxf1 F:498-598 Neural cell adhesion molecule 1, NCAM                                              ---d2vkxf2 F:601-693 Neural cell adhesion molecule 1, NCAM                                      -- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) --------------------------------------------------------------------------------------------------------fn3-2vkxF01 F:600-685                                                                 ---------- Pfam domains (1)
           Pfam domains (2) --------------------------------------------------------------------------------------------------------fn3-2vkxF02 F:600-685                                                                 ---------- Pfam domains (2)
           Pfam domains (3) --------------------------------------------------------------------------------------------------------fn3-2vkxF03 F:600-685                                                                 ---------- Pfam domains (3)
           Pfam domains (4) --------------------------------------------------------------------------------------------------------fn3-2vkxF04 F:600-685                                                                 ---------- Pfam domains (4)
           Pfam domains (5) --------------------------------------------------------------------------------------------------------fn3-2vkxF05 F:600-685                                                                 ---------- Pfam domains (5)
           Pfam domains (6) --------------------------------------------------------------------------------------------------------fn3-2vkxF06 F:600-685                                                                 ---------- Pfam domains (6)
           Pfam domains (7) --------------------------------------------------------------------------------------------------------fn3-2vkxF07 F:600-685                                                                 ---------- Pfam domains (7)
           Pfam domains (8) --------------------------------------------------------------------------------------------------------fn3-2vkxF08 F:600-685                                                                 ---------- Pfam domains (8)
           Pfam domains (9) --------------------------------------------------------------------------------------------------------fn3-2vkxF09 F:600-685                                                                 ---------- Pfam domains (9)
          Pfam domains (10) --------------------------------------------------------------------------------------------------------fn3-2vkxF10 F:600-685                                                                 ---------- Pfam domains (10)
          Pfam domains (11) --------------------------------------------------------------------------------------------------------fn3-2vkxF11 F:600-685                                                                 ---------- Pfam domains (11)
          Pfam domains (12) --------------------------------------------------------------------------------------------------------fn3-2vkxF12 F:600-685                                                                 ---------- Pfam domains (12)
         Sec.struct. author .......eeeeeee....eeeeee...........eeeeeeee......eeeeeehhhhhhhheeee.......eeeeeeeee....eeee...eeee.....-.................eeeeeee.......eeeeeeeeee........eee.....eeee.......eeeeeeeeee..ee.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------D--------------------------- SAPs(SNPs)
                    PROSITE --FN3  PDB: F:499-598 UniProt: 509-608                                                                --FN3  PDB: F:600-693 UniProt: 611-706                                                             PROSITE
           Transcript 1 (1) 1--------------------------------------------------------Exon 1.20b  PDB: F:554-599 UniProt: 564-609   -----------------------------------------Exon 1.29e  PDB: F:640-695 UniProt: 651-710 [INCOMPLETE] Transcript 1 (1)
           Transcript 1 (2) Exon 1.19b  PDB: F:497-554 UniProt: 507-564               --------------------------------------------Exon 1.28c  PDB: F:599-639 (gaps)         -------------------------------------------------------- Transcript 1 (2)
                 2vkx F 497 ADTPSSPSIDQVEPYSSTAQVQFDEPEATGGVPILKYKAEWRAVGEEVWHSKWYDAKEASMEGIVTIVGLKPETTYAVRLAALNGKGLGEISAASEFKTQPVR-EPSAPKLEGQRGEDGNSIKVNLIKQDDGGSPIRHYLVRYRALSSEWKPEIRLPSGSDHVMLKSLDWNAEYEVYVVAENQQGKSKAAHFVFRTAAAH 695
                                   506       516       526       536       546       556       566       576       586       596  | |  605       615       625       635       645       655       665       675       685       695
                                                                                                                                599 |                                                                                               
                                                                                                                                  600

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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: Immunoglobulin-like beta-sandwich (7299)

Superfamily: Fibronectin type III (212)

Family: Fibronectin type III (180)

Protein domain: Neural cell adhesion molecule 1, NCAM (5)

Human (Homo sapiens) [TaxId: 9606] (4)

1a	d2vkxa1	A:498-598
1b	d2vkxb1	B:498-598
1c	d2vkxb2	B:601-693
1d	d2vkxc1	C:498-598
1e	d2vkxc2	C:601-693
1f	d2vkxd1	D:498-598
1g	d2vkxd2	D:601-693
1h	d2vkxe1	E:498-598
1i	d2vkxe2	E:601-693
1j	d2vkxf1	F:498-598
1k	d2vkxf2	F:601-693
1l	d2vkxa2	A:601-693

(no "CATH Domain" information available for 2VKX)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: E-set (290)

Family: fn3 (66)

Homo sapiens (Human) (52)

1a	fn3-2vkxF01	F:600-685
1b	fn3-2vkxF02	F:600-685
1c	fn3-2vkxF03	F:600-685
1d	fn3-2vkxF04	F:600-685
1e	fn3-2vkxF05	F:600-685
1f	fn3-2vkxF06	F:600-685
1g	fn3-2vkxF07	F:600-685
1h	fn3-2vkxF08	F:600-685
1i	fn3-2vkxF09	F:600-685
1j	fn3-2vkxF10	F:600-685
1k	fn3-2vkxF11	F:600-685
1l	fn3-2vkxF12	F:600-685

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D,E,F (NCAM1_HUMAN | P13591)

molecular function
	GO:0005088	Ras guanyl-nucleotide exchange factor activity	Stimulates the exchange of guanyl nucleotides associated with a GTPase of the Ras superfamily. Under normal cellular physiological conditions, the concentration of GTP is higher than that of GDP, favoring the replacement of GDP by GTP in association with the GTPase.
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	GO:0001618	virus receptor activity	Combining with a virus component and mediating entry of the virus into the cell.
biological process
	GO:0000165	MAPK cascade	An intracellular protein kinase cascade containing at least a MAPK, a MAPKK and a MAP3K. The cascade can also contain two additional tiers: the upstream MAP4K and the downstream MAP Kinase-activated kinase (MAPKAPK). The kinases in each tier phosphorylate and activate the kinases in the downstream tier to transmit a signal within a cell.
	GO:0007411	axon guidance	The chemotaxis process that directs the migration of an axon growth cone to a specific target site in response to a combination of attractive and repulsive cues.
	GO:0007155	cell adhesion	The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.
	GO:0060333	interferon-gamma-mediated signaling pathway	A series of molecular signals initiated by the binding of interferon-gamma to a receptor on the surface of a cell, and ending with regulation of a downstream cellular process, e.g. transcription. Interferon gamma is the only member of the type II interferon found so far.
	GO:0031175	neuron projection development	The process whose specific outcome is the progression of a neuron projection over time, from its formation to the mature structure. A neuron projection is any process extending from a neural cell, such as axons or dendrites (collectively called neurites).
	GO:0043547	positive regulation of GTPase activity	Any process that activates or increases the activity of a GTPase.
	GO:0048167	regulation of synaptic plasticity	A process that modulates synaptic plasticity, the ability of synapses to change as circumstances require. They may alter function, such as increasing or decreasing their sensitivity, or they may increase or decrease in actual numbers.
	GO:0046718	viral entry into host cell	The process that occurs after viral attachment by which a virus, or viral nucleic acid, breaches the plasma membrane or cell envelope and enters the host cell. The process ends when the viral nucleic acid is released into the host cell cytoplasm.
	GO:0016032	viral process	A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
cellular component
	GO:0000139	Golgi membrane	The lipid bilayer surrounding any of the compartments of the Golgi apparatus.
	GO:0031225	anchored component of membrane	The component of a membrane consisting of the gene products that are tethered to the membrane only by a covalently attached anchor, such as a lipid group that is embedded in the membrane. Gene products with peptide sequences that are embedded in the membrane are excluded from this grouping.
	GO:0009986	cell surface	The external part of the cell wall and/or plasma membrane.
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0009897	external side of plasma membrane	The leaflet of the plasma membrane that faces away from the cytoplasm and any proteins embedded or anchored in it or attached to its surface.
	GO:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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
		SO4	[ 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 ]

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2vkx)

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]
		Biological Unit 3	[ Jena3D ]

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 ](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)

Access by PDB/NDB ID
	2vkx
		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
	NCAM1_HUMAN \| P13591
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

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

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
	NCAM1_HUMAN \| P13591
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	NCAM1_HUMAN \| P13591	:	2e3v 2haz 2vkw 3mtr 5aea 5lkn

2vkw	HUMAN NCAM, FN3 DOMAINS 1 AND 2

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 11)

Sites (11, 11)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 6)

PROSITE Motifs (1, 12)

Exons (5, 30)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 12)

CATH Domains (0, 0)

Pfam Domains (1, 12)

Gene Ontology (22, 22)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File