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(-) Description

Title :  CRYSTAL STRUCTURE OF THE LINGO-1 ECTODOMAIN
 
Authors :  L. Mosyak, A. Wood, B. Dwyer, M. Johnson, M. L. Stahl, W. S. Somers
Date :  14 Sep 06  (Deposition) - 26 Sep 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Cns-Specific Lrr-Ig Containing, Ligand Binding Protein, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Mosyak, A. Wood, B. Dwyer, M. Buddha, M. Johnson, A. Aulabaugh, X. Zhong, E. Presman, S. Benard, K. Kelleher, J. Wilhelm, M. L. Stahl, R. Kriz, Y. Gao, Z. Cao, H. P. Ling, M. N. Pangalos, F. S. Walsh, W. S. Somers
The Structure Of The Lingo-1 Ectodomain, A Module Implicate In Central Nervous System Repair Inhibition.
J. Biol. Chem. V. 281 36378 2006
PubMed-ID: 17005555  |  Reference-DOI: 10.1074/JBC.M607314200

(-) Compounds

Molecule 1 - LEUCINE RICH REPEAT NEURONAL 6A
    Chains: A, B, C, D
    Engineered: YES
    Expression System: CRICETULUS GRISEUS
    Expression System Cell: HAMPSTER OVARY CELLS
    Expression System Common: CHINESE HAMSTER
    Expression System Plasmid: PSMEG
    Expression System Strain: LEC 3.2.8.1
    Expression System Taxid: 10029
    Expression System Vector Type: PLASMID
    Fragment: EXTRACELULLAR PORTION
    Gene: LRRN6A
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: LINGO-1

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 52)

Asymmetric/Biological Unit (2, 52)
No.NameCountTypeFull Name
1MAN13Ligand/IonALPHA-D-MANNOSE
2NAG39Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (52, 52)

Asymmetric Unit (52, 52)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETHR A:232 , HIS A:233 , PHE A:252 , ASN A:254 , GLN A:278 , NAG A:479 , HOH A:509 , HOH A:549BINDING SITE FOR RESIDUE NAG A 478
02AC2SOFTWAREHIS A:233 , TYR A:257 , NAG A:478 , MAN A:480 , HOH A:509BINDING SITE FOR RESIDUE NAG A 479
03AC3SOFTWARENAG A:479BINDING SITE FOR RESIDUE MAN A 480
04AC4SOFTWAREGLN A:278 , VAL A:280 , ASN A:302 , GLN A:353 , NAG A:482BINDING SITE FOR RESIDUE NAG A 481
05AC5SOFTWAREGLN A:353 , NAG A:481 , MAN A:483BINDING SITE FOR RESIDUE NAG A 482
06AC6SOFTWARENAG A:482BINDING SITE FOR RESIDUE MAN A 483
07AC7SOFTWAREPHE A:80 , ASN A:81 , SER A:104 , ASN A:105BINDING SITE FOR RESIDUE NAG A 484
08AC8SOFTWAREASN A:138 , ASP A:139 , ASN A:163 , ASN A:187BINDING SITE FOR RESIDUE NAG A 485
09AC9SOFTWAREPRO A:211 , TYR A:212 , ASN A:235 , NAG A:487BINDING SITE FOR RESIDUE NAG A 486
10BC1SOFTWARENAG A:486BINDING SITE FOR RESIDUE NAG A 487
11BC2SOFTWARELYS A:203 , ASN A:225 , TYR A:249 , NAG A:489 , HOH A:501BINDING SITE FOR RESIDUE NAG A 488
12BC3SOFTWARETYR A:249 , NAG A:488 , MAN A:490BINDING SITE FOR RESIDUE NAG A 489
13BC4SOFTWARENAG A:489BINDING SITE FOR RESIDUE MAN A 490
14BC5SOFTWAREASN A:453 , GLY A:454 , THR A:455 , HIS A:474BINDING SITE FOR RESIDUE NAG A 491
15BC6SOFTWARETHR B:232 , PHE B:252 , ASN B:254 , NAG B:479BINDING SITE FOR RESIDUE NAG B 478
16BC7SOFTWAREHIS B:233 , TYR B:257 , NAG B:478 , MAN B:480 , HOH B:515BINDING SITE FOR RESIDUE NAG B 479
17BC8SOFTWARENAG B:479 , MAN B:481BINDING SITE FOR RESIDUE MAN B 480
18BC9SOFTWAREMAN B:480BINDING SITE FOR RESIDUE MAN B 481
19CC1SOFTWAREGLN B:278 , VAL B:280 , ASN B:302 , SER B:304 , GLN B:353 , NAG B:483BINDING SITE FOR RESIDUE NAG B 482
20CC2SOFTWAREGLN B:353 , NAG B:482 , MAN B:484BINDING SITE FOR RESIDUE NAG B 483
21CC3SOFTWAREARG B:352 , NAG B:483BINDING SITE FOR RESIDUE MAN B 484
22CC4SOFTWAREGLU B:59 , PHE B:80 , ASN B:81 , ARG B:83 , ASN B:105 , HOH B:510BINDING SITE FOR RESIDUE NAG B 485
23CC5SOFTWAREASN B:138 , ASN B:163 , ASN B:187BINDING SITE FOR RESIDUE NAG B 486
24CC6SOFTWAREPRO B:211 , TYR B:212 , ASN B:235BINDING SITE FOR RESIDUE NAG B 487
25CC7SOFTWAREASN B:453 , GLY B:454 , LEU B:473 , HIS B:474 , HOH B:499BINDING SITE FOR RESIDUE NAG B 488
26CC8SOFTWARELYS B:203 , ASN B:225 , TYR B:249 , NAG B:490BINDING SITE FOR RESIDUE NAG B 489
27CC9SOFTWARETYR B:249 , NAG B:489 , MAN B:491BINDING SITE FOR RESIDUE NAG B 490
28DC1SOFTWARENAG B:490BINDING SITE FOR RESIDUE MAN B 491
29DC2SOFTWARETHR C:232 , HIS C:233 , PHE C:252 , ASN C:254 , NAG C:479BINDING SITE FOR RESIDUE NAG C 478
30DC3SOFTWAREHIS C:233 , TYR C:257 , NAG C:478 , MAN C:480BINDING SITE FOR RESIDUE NAG C 479
31DC4SOFTWARENAG C:479BINDING SITE FOR RESIDUE MAN C 480
32DC5SOFTWAREGLN C:278 , VAL C:280 , ASN C:302 , NAG C:482BINDING SITE FOR RESIDUE NAG C 481
33DC6SOFTWAREARG C:352 , NAG C:481 , MAN C:483BINDING SITE FOR RESIDUE NAG C 482
34DC7SOFTWAREARG C:352 , NAG C:482BINDING SITE FOR RESIDUE MAN C 483
35DC8SOFTWAREPHE C:80 , ASN C:81 , SER C:104 , ASN C:105 , ASN C:129 , ARG D:347BINDING SITE FOR RESIDUE NAG C 484
36DC9SOFTWAREASN C:138 , ASN C:163 , ASN C:187BINDING SITE FOR RESIDUE NAG C 485
37EC1SOFTWAREPRO C:211 , TYR C:212 , ASN C:235BINDING SITE FOR RESIDUE NAG C 486
38EC2SOFTWAREASN C:453 , GLY C:454 , HIS C:474BINDING SITE FOR RESIDUE NAG C 487
39EC3SOFTWARELYS C:203 , ASN C:225 , TYR C:249 , NAG C:489BINDING SITE FOR RESIDUE NAG C 488
40EC4SOFTWARETYR C:249 , NAG C:488 , MAN C:490 , HOH C:512BINDING SITE FOR RESIDUE NAG C 489
41EC5SOFTWARENAG C:489BINDING SITE FOR RESIDUE MAN C 490
42EC6SOFTWARETHR D:232 , HIS D:233 , PHE D:252 , ASN D:254 , NAG D:479 , HOH D:495BINDING SITE FOR RESIDUE NAG D 478
43EC7SOFTWAREHIS D:233 , TYR D:257 , NAG D:478 , MAN D:480BINDING SITE FOR RESIDUE NAG D 479
44EC8SOFTWARENAG D:479 , MAN D:481BINDING SITE FOR RESIDUE MAN D 480
45EC9SOFTWAREARG D:88 , MAN D:480BINDING SITE FOR RESIDUE MAN D 481
46FC1SOFTWAREGLN D:278 , ASN D:302 , GLN D:353 , NAG D:483BINDING SITE FOR RESIDUE NAG D 482
47FC2SOFTWAREGLN D:353 , NAG D:482BINDING SITE FOR RESIDUE NAG D 483
48FC3SOFTWAREPRO D:211 , TYR D:212 , ASN D:235BINDING SITE FOR RESIDUE NAG D 484
49FC4SOFTWAREASN D:453 , GLY D:454 , HIS D:472 , LEU D:473 , HIS D:474BINDING SITE FOR RESIDUE NAG D 485
50FC5SOFTWARELYS D:203 , ASN D:225 , TYR D:249 , NAG D:487BINDING SITE FOR RESIDUE NAG D 486
51FC6SOFTWARETYR D:249 , NAG D:486 , MAN D:488BINDING SITE FOR RESIDUE NAG D 487
52FC7SOFTWARENAG D:487BINDING SITE FOR RESIDUE MAN D 488

(-) SS Bonds  (20, 20)

Asymmetric/Biological Unit
No.Residues
1A:3 -A:9
2A:7 -A:18
3A:334 -A:357
4A:336 -A:382
5A:407 -A:458
6B:3 -B:9
7B:7 -B:18
8B:334 -B:357
9B:336 -B:382
10B:407 -B:458
11C:3 -C:9
12C:7 -C:18
13C:334 -C:357
14C:336 -C:382
15C:407 -C:458
16D:3 -D:9
17D:7 -D:18
18D:334 -D:357
19D:336 -D:382
20D:407 -D:458

(-) Cis Peptide Bonds  (8, 8)

Asymmetric/Biological Unit
No.Residues
1Thr A:359 -Pro A:360
2Asp A:412 -Pro A:413
3Thr B:359 -Pro B:360
4Asp B:412 -Pro B:413
5Thr C:359 -Pro C:360
6Asp C:412 -Pro C:413
7Thr D:359 -Pro D:360
8Asp D:412 -Pro D:413

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 4)

Asymmetric/Biological Unit (1, 4)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_042436S183FLIGO1_HUMANPolymorphism9855A/B/C/DS144F
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 40)

Asymmetric/Biological Unit (1, 40)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LRRPS51450 Leucine-rich repeat profile.LIGO1_HUMAN72-93
 
 
 
96-117
 
 
 
120-141
 
 
 
144-165
 
 
 
168-189
 
 
 
192-213
 
 
 
288-309
 
 
 
264-285
 
 
 
336-357
 
 
 
360-381
 
 
 		  40A:33-54
B:33-54
C:33-54
D:35-54
A:57-78
B:57-78
C:57-78
D:57-78
A:81-102
B:81-102
C:81-102
D:81-102
A:105-126
B:105-126
C:105-126
D:105-126
A:129-150
B:129-150
C:129-150
D:129-150
A:153-174
B:153-174
C:153-174
D:153-174
A:249-270
B:249-270
C:249-270
D:249-270
A:225-246
B:225-246
C:225-246
D:225-246
A:297-318
B:297-318
C:297-318
D:297-318
A:321-342
B:321-342
C:321-342
D:321-342

(-) Exons   (1, 4)

Asymmetric/Biological Unit (1, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000003553001ENSE00001700105chr15:77924709-7792465258LIGO1_HUMAN1-220--
1.2ENST000003553002ENSE00001430143chr15:77908242-779053692874LIGO1_HUMAN3-6206184A:1-477 (gaps)
B:3-475
C:2-477 (gaps)
D:3-476 (gaps)		477
473
476
474

(-) 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:470
 aligned with LIGO1_HUMAN | Q96FE5 from UniProtKB/Swiss-Prot  Length:620

    Alignment length:477
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509       
          LIGO1_HUMAN    40 TGCPPRCECSAQDRAVLCHRKRFVAVPEGIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILDSNPLACDCRLLWVFRRRWRLNFNRQQPTCATPEFVQGKEFKDFPDVLLPNYFTCRRARIRDRKAQQVFVDEGHTVQFVCRADGDPPPAILWLSPRKHLVSAKSNGRLTVFPDGTLEVRYAQVQDNGTYLCIAANAGGNDSMPAHLHVRS 516
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eee....eee..................eee.......ee............eee.......ee............eee.....................eee.......ee............eeee......ee............eeeee.......hhhhhh......eeeee.....ee............eeeee......ee...........eeeee.......hhhhhh......eee.......ee............eee.......ee............eee.........hhhhh.hhhhh.eee.....ee.hhhhhhhhh.............eeehhhhh..hhhhh...........eeeee.....eeeeee....eee...eeee...eeeee.....ee-------.ee.....eee........eeeeeeeee..eeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -----------------------------------------------------------------------------------------------------------------------------------------------F--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------LRR  PDB: A:33-54     --LRR  PDB: A:57-78     --LRR  PDB: A:81-102    --LRR  PDB: A:105-126   --LRR  PDB: A:129-150   --LRR  PDB: A:153-174   --------------------------------------------------LRR  PDB: A:225-246   --LRR  PDB: A:249-270   --------------------------LRR  PDB: A:297-318   --LRR  PDB: A:321-342   --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.2  PDB: A:1-477 (gaps) UniProt: 3-620 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                                                                                                                                     Transcript 1
                 2id5 A   1 TGCPPRCECSAQDRAVLCHRKRFVAVPEGIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILDSNPLACDCRLLWVFRRRWRLNFNRQQPTCATPEFVQGKEFKDFPDVLLPNYFTCRRARIRDRKAQQVFVDEGHTVQFVCRADGDPPPAILWLSPRKHLV-------LTVFPDGTLEVRYAQVQDNGTYLCIAANAGGNDSMPAHLHVRS 477
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420      |  -    |  440       450       460       470       
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    427     435                                          


Chain B from PDB  Type:PROTEIN  Length:473
 aligned with LIGO1_HUMAN | Q96FE5 from UniProtKB/Swiss-Prot  Length:620

    Alignment length:473
                                    51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511   
          LIGO1_HUMAN    42 CPPRCECSAQDRAVLCHRKRFVAVPEGIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILDSNPLACDCRLLWVFRRRWRLNFNRQQPTCATPEFVQGKEFKDFPDVLLPNYFTCRRARIRDRKAQQVFVDEGHTVQFVCRADGDPPPAILWLSPRKHLVSAKSNGRLTVFPDGTLEVRYAQVQDNGTYLCIAANAGGNDSMPAHLHV 514
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeehhh.eee..................eee.......ee............eee.......ee............eee.....................eee.......ee............eeee......ee............eeeee.......hhhhhh......eeeee.....ee............eeeee......ee...........eeeee...................eee.......ee............eee.......ee............eee.........hhhhh.hhhhh.eee.....ee.hhhhhhhhh.............eeehhhhh..hhhhh...........eeeee.....eeee......eee...eeee...eeeee.....ee.......eee.....eee...hhhhheeeeeeeee..eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------F------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------LRR  PDB: B:33-54     --LRR  PDB: B:57-78     --LRR  PDB: B:81-102    --LRR  PDB: B:105-126   --LRR  PDB: B:129-150   --LRR  PDB: B:153-174   --------------------------------------------------LRR  PDB: B:225-246   --LRR  PDB: B:249-270   --------------------------LRR  PDB: B:297-318   --LRR  PDB: B:321-342   ------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.2  PDB: B:3-475 UniProt: 3-620 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                                                                                                                                        Transcript 1
                 2id5 B   3 CPPRCECSAQDRAVLCHRKRFVAVPEGIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILDSNPLACDCRLLWVFRRRWRLNFNRQQPTCATPEFVQGKEFKDFPDVLLPNYFTCRRARIRDRKAQQVFVDEGHTVQFVCRADGDPPPAILWLSPRKHLVSAKSNGRLTVFPDGTLEVRYAQVQDNGTYLCIAANAGGNDSMPAHLHV 475
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472   


Chain C from PDB  Type:PROTEIN  Length:472
 aligned with LIGO1_HUMAN | Q96FE5 from UniProtKB/Swiss-Prot  Length:620

    Alignment length:476
                                    50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510      
          LIGO1_HUMAN    41 GCPPRCECSAQDRAVLCHRKRFVAVPEGIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILDSNPLACDCRLLWVFRRRWRLNFNRQQPTCATPEFVQGKEFKDFPDVLLPNYFTCRRARIRDRKAQQVFVDEGHTVQFVCRADGDPPPAILWLSPRKHLVSAKSNGRLTVFPDGTLEVRYAQVQDNGTYLCIAANAGGNDSMPAHLHVRS 516
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee....eee..................eee.......ee............eee.......ee............eee.....................eee.......ee............eeee......ee............eeeee.......hhhhhh......eeeee.....ee............eeeee......ee...........eeeee.......hhhhhh......eee.......ee............eee.......ee............eee.........hhhhh.hhhhh.eee.....ee.hhhhhhhhh.............eeehhhhh..hhhhh...........eeeee.....eeeeee....eee...eeee...eeeee.......----...eee.....eee...hhhhheeeeeeeee..eeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------F--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------LRR  PDB: C:33-54     --LRR  PDB: C:57-78     --LRR  PDB: C:81-102    --LRR  PDB: C:105-126   --LRR  PDB: C:129-150   --LRR  PDB: C:153-174   --------------------------------------------------LRR  PDB: C:225-246   --LRR  PDB: C:249-270   --------------------------LRR  PDB: C:297-318   --LRR  PDB: C:321-342   --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.2  PDB: C:2-477 (gaps) UniProt: 3-620 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                                                                                                                                    Transcript 1
                 2id5 C   2 GCPPRCECSAQDRAVLCHRKRFVAVPEGIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILDSNPLACDCRLLWVFRRRWRLNFNRQQPTCATPEFVQGKEFKDFPDVLLPNYFTCRRARIRDRKAQQVFVDEGHTVQFVCRADGDPPPAILWLSPRKHLV----NGRLTVFPDGTLEVRYAQVQDNGTYLCIAANAGGNDSMPAHLHVRS 477
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421     |   -|      441       451       461       471      
                                                                                                                                                                                                                                                                                                                                                                                                                                                                   427  432                                             


Chain D from PDB  Type:PROTEIN  Length:471
 aligned with LIGO1_HUMAN | Q96FE5 from UniProtKB/Swiss-Prot  Length:620

    Alignment length:474
                                    51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511    
          LIGO1_HUMAN    42 CPPRCECSAQDRAVLCHRKRFVAVPEGIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILDSNPLACDCRLLWVFRRRWRLNFNRQQPTCATPEFVQGKEFKDFPDVLLPNYFTCRRARIRDRKAQQVFVDEGHTVQFVCRADGDPPPAILWLSPRKHLVSAKSNGRLTVFPDGTLEVRYAQVQDNGTYLCIAANAGGNDSMPAHLHVR 515
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....eee....eee..............---..ee.......ee.............ee.......ee............eee.....................eee.......ee............eeee......ee............eeeee.......hhhhhh......eeeee.....ee............eeeee......ee...........eeeee...................eee.......ee............eee.......ee............eee.........hhhhh.hhhhh.eee.....ee.hhhhhhhhh.............eeehhhhh..hhhhh...........eeeee.....eeeee.....eee...eeee...eeeee.....ee.......eee.....eee...hhhhheeeeeeeee..eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------F-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------LRR  PDB: D:35-54     --LRR  PDB: D:57-78     --LRR  PDB: D:81-102    --LRR  PDB: D:105-126   --LRR  PDB: D:129-150   --LRR  PDB: D:153-174   --------------------------------------------------LRR  PDB: D:225-246   --LRR  PDB: D:249-270   --------------------------LRR  PDB: D:297-318   --LRR  PDB: D:321-342   -------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.2  PDB: D:3-476 (gaps) UniProt: 3-620 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                                                                                                                                  Transcript 1
                 2id5 D   3 CPPRCECSAQDRAVLCHRKRFVAVPEGIP---RLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILDSNPLACDCRLLWVFRRRWRLNFNRQQPTCATPEFVQGKEFKDFPDVLLPNYFTCRRARIRDRKAQQVFVDEGHTVQFVCRADGDPPPAILWLSPRKHLVSAKSNGRLTVFPDGTLEVRYAQVQDNGTYLCIAANAGGNDSMPAHLHVR 476
                                    12        22        |-  |     42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472    
                                                       31  35
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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 2ID5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2ID5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2ID5)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (LIGO1_HUMAN | Q96FE5)
molecular function
    GO:0005154    epidermal growth factor receptor binding    Interacting selectively and non-covalently with the epidermal growth factor receptor.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0007409    axonogenesis    De novo generation of a long process of a neuron, that carries efferent (outgoing) action potentials from the cell body towards target cells. Refers to the morphogenesis or creation of shape or form of the developing axon.
    GO:0050771    negative regulation of axonogenesis    Any process that stops, prevents, or reduces the frequency, rate or extent of axonogenesis.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
cellular component
    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.

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 Related Entries

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

UniProtKB/Swiss-Prot
        LIGO1_HUMAN | Q96FE5: 4oqt

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 2ID5)