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(-)Asym./Biol. Unit
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Asym./Biol. Unit  (Jmol Viewer)

(-) Description

Title :  THE LIGAND-BINDING FACE OF THE SEMAPHORINS REVEALED BY THE HIGH RESOLUTION CRYSTAL STRUCTURE OF SEMA4D
 
Authors :  C. A. Love, K. Harlos, N. Mavaddat, S. J. Davis, D. I. Stuart, E. Y. Jones, R. M. Esnouf
Date :  19 Aug 03  (Deposition) - 11 Sep 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Developmental Protein, Cd100, Semaphorin, Beta-Propeller, Psi Domain, Ig-Like Domain, Extracellular Receptor, Neurogenesis, Glycoprotein Developmental Protein, Structural Proteomics In Europe, Spine, Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. A. Love, K. Harlos, N. Mavaddat, S. J. Davis, D. I. Stuart, E. Y. Jones, R. M. Esnouf
The Ligand-Binding Face Of The Semaphorins Revealed By The High-Resolution Crystal Structure Of Sema4D
Nat. Struct. Biol. V. 10 843 2003
PubMed-ID: 12958590  |  Reference-DOI: 10.1038/NSB977

(-) Compounds

Molecule 1 - SEMAPHORIN 4D
    Chains: A, B
    Engineered: YES
    Expression System: CHO
    Expression System Cell Line: GLUTAMINE SYNTHASE
    Expression System Strain: LEC3.2.8.1
    Expression System Vector: PEE14
    Fragment: SOLUBLE EXTRACELLULAR FRAGMENT, RESIDUES 22-677
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: LEUKOCYTE ACTIVATION ANTIGEN CD100, BB18, A8, GR3

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1OLZ)

(-) Sites  (0, 0)

(no "Site" information available for 1OLZ)

(-) SS Bonds  (16, 16)

Asymmetric/Biological Unit
No.Residues
1A:76 -A:87
2A:105 -A:114
3A:236 -A:349
4A:260 -A:305
5A:482 -A:499
6A:488 -A:532
7A:491 -A:508
8A:555 -A:603
9B:76 -B:87
10B:105 -B:114
11B:236 -B:349
12B:260 -B:305
13B:482 -B:499
14B:488 -B:532
15B:491 -B:508
16B:555 -B:603

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Ser A:199 -Pro A:200
2Ser A:577 -Pro A:578
3Ser B:199 -Pro B:200
4Ser B:577 -Pro B:578

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (2, 4)

Asymmetric/Biological Unit (2, 4)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_030293A72TSEM4D_HUMANPolymorphism13284404A/BA51T
2UniProtVAR_057175A327TSEM4D_HUMANPolymorphism11526468A/BA306T
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1OLZ)

(-) Exons   (14, 28)

Asymmetric/Biological Unit (14, 28)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.4ENST000003564444ENSE00001424804chr9:92070868-9207080366SEM4D_HUMAN-00--
1.6bENST000003564446bENSE00001422645chr9:92033352-9203327875SEM4D_HUMAN-00--
1.7bENST000003564447bENSE00001419415chr9:92033033-9203297163SEM4D_HUMAN-00--
1.9dENST000003564449dENSE00001416368chr9:92020614-92020266349SEM4D_HUMAN1-36362A:3-15
B:3-15		13
13
1.10cENST0000035644410cENSE00001405010chr9:92017931-92017786146SEM4D_HUMAN36-84492A:15-63
B:15-63		49
49
1.11ENST0000035644411ENSE00001432732chr9:92014253-9201419163SEM4D_HUMAN85-105212A:64-84
B:64-84		21
21
1.12ENST0000035644412ENSE00002193353chr9:92011750-9201165299SEM4D_HUMAN106-138332A:85-117
B:85-117		33
33
1.13ENST0000035644413ENSE00001365232chr9:92008570-9200847794SEM4D_HUMAN139-170322A:118-149
B:118-149		32
32
1.14ENST0000035644414ENSE00001381319chr9:92007451-92007338114SEM4D_HUMAN170-208392A:149-187
B:149-187		39
39
1.15ENST0000035644415ENSE00001384069chr9:92006330-92006179152SEM4D_HUMAN208-258512A:187-237 (gaps)
B:187-237 (gaps)		51
51
1.16ENST0000035644416ENSE00001383236chr9:92003962-92003787176SEM4D_HUMAN259-317592A:238-296
B:238-296		59
59
1.17aENST0000035644417aENSE00001364475chr9:92003707-92003551157SEM4D_HUMAN317-369532A:296-348
B:296-348		53
53
1.18aENST0000035644418aENSE00001384090chr9:92002523-92002301223SEM4D_HUMAN370-444752A:349-423
B:349-423		75
75
1.19ENST0000035644419ENSE00001371945chr9:92001397-92001282116SEM4D_HUMAN444-482392A:423-461
B:423-461		39
39
1.20bENST0000035644420bENSE00001383649chr9:91996261-91996089173SEM4D_HUMAN483-540582A:462-519
B:462-519		58
58
1.21ENST0000035644421ENSE00001364259chr9:91996013-9199597044SEM4D_HUMAN540-555162A:519-534
B:519-534		16
16
1.22cENST0000035644422cENSE00001364891chr9:91994544-919921522393SEM4D_HUMAN555-8623082A:534-628
B:534-628		95
95

(-) 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:622
 aligned with SEM4D_HUMAN | Q92854 from UniProtKB/Swiss-Prot  Length:862

    Alignment length:626
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       643      
          SEM4D_HUMAN    24 FAPIPRITWEHREVHLVQFHEPDIYNYSALLLSEDKDTLYIGAREAVFAVNALNISEKQHEVYWKVSEDKKAKCAEKGKSKQTECLNYIRVLQPLSATSLYVCGTNAFQPACDHLNLTSFKFLGKNEDGKGRCPFDPAHSYTSVMVDGELYSGTSYNFLGSEPIISRNSSHSPLRTEYAIPWLNEPSFVFADVIRKSPDSPDGEDDRVYFFFTEVSVEYEFVFRVLIPRIARVCKGDQGGLRTLQKKWTSFLKARLICSRPDSGLVFNVLRDVFVLRSPGLKVPVFYALFTPQLNNVGLSAVCAYNLSTAEEVFSHGKYMQSTTVEQSHTKWVRYNGPVPKPRPGACIDSEARAANYTSSLNLPDKTLQFVKDHPLMDDSVTPIDNRPRLIKKDVNYTQIVVDRTQALDGTVYDVMFVSTDRGALHKAISLEHAVHIIEETQLFQDFEPVQTLLLSSKKGNRFVYAGSNSGVVQAPLAFCGKHGTCEDCVLARDPYCAWSPPTATCVALHQTESPSRGLIQEMSGDASVCPDKSKGSYRQHFFKHGGTAELKCSQKSNLARVFWKFQNGVLKAESPKYGLMGRKNLLIFNLSEGDSGVYQCLSEERVKNKTVFQVVAKHVLEVKVV 649
               SCOP domains d1olza2 A:3-480 Semaphorin 4d                                                                                                                                                                                                                                                                                                                                                                                                                                                                 d1olza3 A:481-536 Semaphorin 4d                         d1olza1 A:537-628 Semaphorin 4d Ig-like domain                                               SCOP domains
               CATH domains 1olzA01 A:3-481 YVTN repeat-like/Quinoprotein amine dehydrogenase                                                                                                                                                                                                                                                                                                                                                                                                                              1olzA02 A:482-538                                        1olzA03 A:539-628 Immunoglobulins                                                          CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee.......eee.........eeee.....eeeee...eeeeee..eeeeeeeeee...hhhhhhhhhhh...........eeeeee....eeeeee......eeeeee....ee....ee............eeeeee..eeeeeee.......eeeeee..................eeeeeeee....----....eeeeeeeee..........eeeeeeeee.................eeeee..eehhhhee..eeeeeeee........eeeeeee.......eeeeeeeehhhhhhhhhhh..eeee.......eeee..............hhhhhh....hhhhhhhhhhhhhhhh.eeeeee.hhhhh..eeee...eeeeeeeeee.....eeeeeeeee...eeeeeee....eeeeeeee.........eeee.......eeeee....eeeee..hhhhh.hhhhhhhh....eeee....eeee......hhhhh......hhhhh......eeeeeeee....eee.........eeeeee...........ee......eee...hhhhheeeeeeeeee....eeeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------T--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) ------------Exon 1.10c  PDB: A:15-63 UniProt: 36-84          Exon 1.11            Exon 1.12  PDB: A:85-117         Exon 1.13  PDB: A:118-149       -------------------------------------Exon 1.15  PDB: A:187-237 (gaps) UniProt: 208-258  Exon 1.16  PDB: A:238-296 UniProt: 259-317                 ----------------------------------------------------Exon 1.18a  PDB: A:349-423 UniProt: 370-444                                --------------------------------------Exon 1.20b  PDB: A:462-519 UniProt: 483-540               --------------Exon 1.22c  PDB: A:534-628 UniProt: 555-862 [INCOMPLETE]                                        Transcript 1 (1)
           Transcript 1 (2) Exon 1.9d    -------------------------------------------------------------------------------------------------------------------------------------Exon 1.14  PDB: A:149-187              ------------------------------------------------------------------------------------------------------------Exon 1.17a  PDB: A:296-348 UniProt: 317-369          --------------------------------------------------------------------------Exon 1.19  PDB: A:423-461              ---------------------------------------------------------Exon 1.21       ---------------------------------------------------------------------------------------------- Transcript 1 (2)
                 1olz A   3 FAPIPRITWEHREVHLVQFHEPDIYNYSALLLSEDKDTLYIGAREAVFAVNALNISEKQHEVYWKVSEDKKAKCAEKGKSKQTECLNYIRVLQPLSATSLYVCGTNAFQPACDHLNLTSFKFLGKNEDGKGRCPFDPAHSYTSVMVDGELYSGTSYNFLGSEPIISRNSSHSPLRTEYAIPWLNEPSFVFADVIRKSP----GEDDRVYFFFTEVSVEYEFVFRVLIPRIARVCKGDQGGLRTLQKKWTSFLKARLICSRPDSGLVFNVLRDVFVLRSPGLKVPVFYALFTPQLNNVGLSAVCAYNLSTAEEVFSHGKYMQSTTVEQSHTKWVRYNGPVPKPRPGACIDSEARAANYTSSLNLPDKTLQFVKDHPLMDDSVTPIDNRPRLIKKDVNYTQIVVDRTQALDGTVYDVMFVSTDRGALHKAISLEHAVHIIEETQLFQDFEPVQTLLLSSKKGNRFVYAGSNSGVVQAPLAFCGKHGTCEDCVLARDPYCAWSPPTATCVALHQTESPSRGLIQEMSGDASVCPDKSKGSYRQHFFKHGGTAELKCSQKSNLARVFWKFQNGVLKAESPKYGLMGRKNLLIFNLSEGDSGVYQCLSEERVKNKTVFQVVAKHVLEVKVV 628
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       | -  |    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       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622      
                                                                                                                                                                                                                               200  205                                                                                                                                                                                                                                                                                                                                                                                                                                       


Chain B from PDB  Type:PROTEIN  Length:622
 aligned with SEM4D_HUMAN | Q92854 from UniProtKB/Swiss-Prot  Length:862

    Alignment length:626
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       643      
          SEM4D_HUMAN    24 FAPIPRITWEHREVHLVQFHEPDIYNYSALLLSEDKDTLYIGAREAVFAVNALNISEKQHEVYWKVSEDKKAKCAEKGKSKQTECLNYIRVLQPLSATSLYVCGTNAFQPACDHLNLTSFKFLGKNEDGKGRCPFDPAHSYTSVMVDGELYSGTSYNFLGSEPIISRNSSHSPLRTEYAIPWLNEPSFVFADVIRKSPDSPDGEDDRVYFFFTEVSVEYEFVFRVLIPRIARVCKGDQGGLRTLQKKWTSFLKARLICSRPDSGLVFNVLRDVFVLRSPGLKVPVFYALFTPQLNNVGLSAVCAYNLSTAEEVFSHGKYMQSTTVEQSHTKWVRYNGPVPKPRPGACIDSEARAANYTSSLNLPDKTLQFVKDHPLMDDSVTPIDNRPRLIKKDVNYTQIVVDRTQALDGTVYDVMFVSTDRGALHKAISLEHAVHIIEETQLFQDFEPVQTLLLSSKKGNRFVYAGSNSGVVQAPLAFCGKHGTCEDCVLARDPYCAWSPPTATCVALHQTESPSRGLIQEMSGDASVCPDKSKGSYRQHFFKHGGTAELKCSQKSNLARVFWKFQNGVLKAESPKYGLMGRKNLLIFNLSEGDSGVYQCLSEERVKNKTVFQVVAKHVLEVKVV 649
               SCOP domains d1olzb2 B:3-480 Semaphorin 4d                                                                                                                                                                                                                                                                                                                                                                                                                                                                 d1olzb3 B:481-536 Semaphorin 4d                         d1olzb1 B:537-628 Semaphorin 4d Ig-like domain                                               SCOP domains
               CATH domains 1olzB01 B:3-481 YVTN repeat-like/Quinoprotein amine dehydrogenase                                                                                                                                                                                                                                                                                                                                                                                                                              1olzB02 B:482-538                                        1olzB03 B:539-628 Immunoglobulins                                                          CATH domains
           Pfam domains (1) --------------------------Sema-1olzB05 B:29-461                                                                                                                                                                                                                                                                                                                                                                                                                            -------------------PSI-1olzB03 B:481-533                                --------------ig-1olzB01 B:548-605                                      ----------------------- Pfam domains (1)
           Pfam domains (2) --------------------------Sema-1olzB06 B:29-461                                                                                                                                                                                                                                                                                                                                                                                                                            -------------------PSI-1olzB04 B:481-533                                --------------ig-1olzB02 B:548-605                                      ----------------------- Pfam domains (2)
         Sec.struct. author ......eee.......eee.........eeee.....eeeee...eeeeee..eeeeeeeeee...hhhhhhhhhh............eeeeeeee..eeeeee......eeeeee....ee....ee.............eeeee..eeeeeee.......eeeee......ee...........eeeeeeee....----....eeeeeeeee..........eeeeeeeee.................eeee...eehhhhee..eeeeeeee........eeeeeee.......eeeeeeeehhhhhhhhhhh..eeee.......eeee..............hhhhhh....hhhhhhhhhhhhhhhh........hhhhh..eeee...eeeeeeeeee.....eeeeeeeee...eeeeeee....eeeeeeee.........eeee.......eeeee....eeeee..hhhhh.hhhhhhhh....eeee....eeee......hhhhh..................eeeeeee....eee.........eeeeee..ee.........ee...eeee........eeeeeeeeee....eeeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------T--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) ------------Exon 1.10c  PDB: B:15-63 UniProt: 36-84          Exon 1.11            Exon 1.12  PDB: B:85-117         Exon 1.13  PDB: B:118-149       -------------------------------------Exon 1.15  PDB: B:187-237 (gaps) UniProt: 208-258  Exon 1.16  PDB: B:238-296 UniProt: 259-317                 ----------------------------------------------------Exon 1.18a  PDB: B:349-423 UniProt: 370-444                                --------------------------------------Exon 1.20b  PDB: B:462-519 UniProt: 483-540               --------------Exon 1.22c  PDB: B:534-628 UniProt: 555-862 [INCOMPLETE]                                        Transcript 1 (1)
           Transcript 1 (2) Exon 1.9d    -------------------------------------------------------------------------------------------------------------------------------------Exon 1.14  PDB: B:149-187              ------------------------------------------------------------------------------------------------------------Exon 1.17a  PDB: B:296-348 UniProt: 317-369          --------------------------------------------------------------------------Exon 1.19  PDB: B:423-461              ---------------------------------------------------------Exon 1.21       ---------------------------------------------------------------------------------------------- Transcript 1 (2)
                 1olz B   3 FAPIPRITWEHREVHLVQFHEPDIYNYSALLLSEDKDTLYIGAREAVFAVNALNISEKQHEVYWKVSEDKKAKCAEKGKSKQTECLNYIRVLQPLSATSLYVCGTNAFQPACDHLNLTSFKFLGKNEDGKGRCPFDPAHSYTSVMVDGELYSGTSYNFLGSEPIISRNSSHSPLRTEYAIPWLNEPSFVFADVIRKSP----GEDDRVYFFFTEVSVEYEFVFRVLIPRIARVCKGDQGGLRTLQKKWTSFLKARLICSRPDSGLVFNVLRDVFVLRSPGLKVPVFYALFTPQLNNVGLSAVCAYNLSTAEEVFSHGKYMQSTTVEQSHTKWVRYNGPVPKPRPGACIDSEARAANYTSSLNLPDKTLQFVKDHPLMDDSVTPIDNRPRLIKKDVNYTQIVVDRTQALDGTVYDVMFVSTDRGALHKAISLEHAVHIIEETQLFQDFEPVQTLLLSSKKGNRFVYAGSNSGVVQAPLAFCGKHGTCEDCVLARDPYCAWSPPTATCVALHQTESPSRGLIQEMSGDASVCPDKSKGSYRQHFFKHGGTAELKCSQKSNLARVFWKFQNGVLKAESPKYGLMGRKNLLIFNLSEGDSGVYQCLSEERVKNKTVFQVVAKHVLEVKVV 628
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       | -  |    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       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622      
                                                                                                                                                                                                                               200  205
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (3, 6)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Small proteins (3458)

(-) CATH Domains  (3, 6)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (3, 6)

Asymmetric/Biological Unit
(-)
Clan: Ig (577)
(-)
Family: ig (14)
(-)
Homo sapiens (Human) (11)
1aig-1olzB01B:548-605
1big-1olzB02B:548-605
(-)
Clan: no clan defined [family: PSI] (9)
(-)
Family: PSI (9)
(-)
Homo sapiens (Human) (6)
2aPSI-1olzB03B:481-533
2bPSI-1olzB04B:481-533
(-)
Clan: no clan defined [family: Sema] (8)

(-) Gene Ontology  (40, 40)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (SEM4D_HUMAN | Q92854)
molecular function
    GO:0045499    chemorepellent activity    Providing the environmental signal that initiates the directed movement of a motile cell or organism towards a lower concentration of that signal.
    GO:0038191    neuropilin binding    Interacting selectively and non-covalently with a member of the neuropilin family.
    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).
    GO:0004872    receptor activity    Combining with an extracellular or intracellular messenger to initiate a change in cell activity.
    GO:0005102    receptor binding    Interacting selectively and non-covalently with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
    GO:0030215    semaphorin receptor binding    Interacting selectively and non-covalently with semaphorin receptors.
    GO:0004888    transmembrane signaling receptor activity    Combining with an extracellular or intracellular signal and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity or state as part of signal transduction.
biological process
    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:0030154    cell differentiation    The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.
    GO:0006955    immune response    Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat.
    GO:0070486    leukocyte aggregation    The adhesion of one leukocyte to one or more other leukocytes via adhesion molecules.
    GO:0007275    multicellular organism development    The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).
    GO:0050919    negative chemotaxis    The directed movement of a motile cell or organism towards a lower concentration of a chemical.
    GO:0010693    negative regulation of alkaline phosphatase activity    Any process that decreases the frequency, rate or extent of alkaline phosphatase activity, the catalysis of the reaction: an orthophosphoric monoester + H2O = an alcohol + phosphate, with an alkaline pH optimum.
    GO:0043066    negative regulation of apoptotic process    Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process.
    GO:0048843    negative regulation of axon extension involved in axon guidance    Any process that stops, prevents, or reduces the frequency, rate or extent of axon extension involved in axon guidance.
    GO:0007162    negative regulation of cell adhesion    Any process that stops, prevents, or reduces the frequency, rate or extent of cell adhesion.
    GO:0045668    negative regulation of osteoblast differentiation    Any process that stops, prevents, or reduces the frequency, rate or extent of osteoblast differentiation.
    GO:0050732    negative regulation of peptidyl-tyrosine phosphorylation    Any process that stops, prevents, or reduces the frequency, rate or extent of the phosphorylation of peptidyl-tyrosine.
    GO:0000122    negative regulation of transcription from RNA polymerase II promoter    Any process that stops, prevents, or reduces the frequency, rate or extent of transcription from an RNA polymerase II promoter.
    GO:0007399    nervous system development    The process whose specific outcome is the progression of nervous tissue over time, from its formation to its mature state.
    GO:0001755    neural crest cell migration    The characteristic movement of cells from the dorsal ridge of the neural tube to a variety of locations in a vertebrate embryo.
    GO:0043931    ossification involved in bone maturation    The formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone, involved in the progression of the skeleton from its formation to its mature state.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
    GO:0050772    positive regulation of axonogenesis    Any process that activates or increases the frequency, rate or extent of axonogenesis.
    GO:0030335    positive regulation of cell migration    Any process that activates or increases the frequency, rate or extent of cell migration.
    GO:0048672    positive regulation of collateral sprouting    Any process that activates or increases the frequency, rate or extent of collateral sprouting.
    GO:0050731    positive regulation of peptidyl-tyrosine phosphorylation    Any process that activates or increases the frequency, rate or extent of the phosphorylation of peptidyl-tyrosine.
    GO:0014068    positive regulation of phosphatidylinositol 3-kinase signaling    Any process that activates or increases the frequency, rate or extent of signal transduction mediated by the phosphatidylinositol 3-kinase cascade.
    GO:0001934    positive regulation of protein phosphorylation    Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to amino acids within a protein.
    GO:0031344    regulation of cell projection organization    Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of cell projections.
    GO:0008360    regulation of cell shape    Any process that modulates the surface configuration of a cell.
    GO:0048814    regulation of dendrite morphogenesis    Any process that modulates the frequency, rate or extent of dendrite morphogenesis.
    GO:0071526    semaphorin-plexin signaling pathway    A series of molecular signals generated as a consequence of a semaphorin receptor (composed of a plexin and a neurophilin) binding to a semaphorin ligand.
    GO:1900220    semaphorin-plexin signaling pathway involved in bone trabecula morphogenesis    Any semaphorin-plexin signaling pathway that contributes to bone trabecula morphogenesis.
cellular component
    GO:0005615    extracellular space    That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
    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:0005887    integral component of plasma membrane    The component of the plasma 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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        SEM4D_HUMAN | Q92854: 3ol2

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