3OL2


Conserved Protein Domain Family
Sema_4

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cd11240: Sema_4 
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The Sema domain, a protein interacting module, of class 4 semaphorins (Sema4)
Class 4 semaphorins (Sema4s) are transmembrane regulator molecules involved in the development of the nervous system, immune response, cytoskeletal organization, angiogenesis, and cell-cell interactions. There are 7 distinct subfamilies in class 4 semaphorins, named 4A to 4G. Several class 4 subfamilies play important roles in the immune system and are called "immune semaphorins". Sema4A plays critical roles in T cell-DC interactions in the immune response. Sema4D/CD100, expressed by lymphocytes, promotes the aggregation and survival of B lymphocytes and inhibits cytokine-induced migration of immune cells in vitro. It is required for normal activation of B and T lymphocytes. Sema4B negatively regulates basophil functions through T cell-basophil contacts and significantly inhibits IL-4 and IL-6 production from basophils in response to various stimuli, including IL-3 and papain. Sema4s not only influence the activation state of cells but also modulate their migration and survival. The effects of Sema4s on nonlymphoid cells are mediated by plexin D1 and plexin Bs. The Sema4G and Sema4C genes are expressed in the developing cerebellar cortex and are involved in neural tube closure and development of cerebellar granules cells through receptor plexin B2. The Sema domain is located at the N-terminus and contains four disulfide bonds formed by eight conserved cysteine residues. It serves as a receptor-recognition and -binding module.
Statistics
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PSSM-Id: 200501
Aligned: 9 rows
Threshold Bit Score: 653.709
Created: 6-Apr-2011
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
plexin bindingputative
Conserved site includes 24 residues -Click on image for an interactive view with Cn3D
Feature 1:plexin binding site [polypeptide binding site]
Evidence:
  • Structure:3OL2; Human Semaphorin 4D binds with its receptor Plexin B1, contacts at 4A distance.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                   ###                  
3OL2_A        21 FHEPDIYNYSALLLSEDkdTLYIGAREAVFAVNAlnis--ekqHEVYWKVseDKKAKCAEKGkskQTECLNYIRVLQPLS 98  human
Q64151        45 FSQTGIQDFLTLTLTEHsgLLYVGAREALFAFSVeal---elqGAISWEApaEKKIECTQKGksnQTECFNFIRFLQPYN 121 house mouse
Q9H3S1        56 FHQKGLQDFDTLLLSGDgnTLYVGAREAILALDIqdpgvprlkNMIPWPAsdRKKSECAFKKksnETQCFNFIRVLVSYN 135 human
NP_001087062  42 FEADGATYYTTLLLSKDgnMLYVGARETLFSLNStdfmsteyhSKITWQAdeEKKKECAFKGkdpQRDCQNYIKILLQLN 121 African clawed ...
XP_003229876   8 FSAEGASNFSVFQVDAH--TLYVGARDAIYALTLgsis--qrpKKISWMVlkDHRDSCTQKGk-kEAECQNFIRILQFVN 82  green anole
CBN81657       6 RFTGSSQNYSTLLLEEEvgLLYVGGRGALYALNTsdis-tlgnLTIDWDAspEQKKQCLNKGrdnQTECYNHVRFLQRYN 84  European seabass
XP_699956     19 FTNDDSYNATTLLLSNDegTLFVGARDTILSINIsqtd-mtlkEKLDWSPseKDFNDCSMKGk-lKMDCHNFVRVLQVLN 96  zebrafish
XP_001338626  43 YSSSTLKNTSTLLLSTDedTLFVGARDALFSLDVsqsdsitlkDELKWTPssDQTKTCRVAS---KLDCGNFISILQFFN 119 zebrafish
Q9YHX4        45 FREEGIWNYTTMLLRDDlnLLILGAREAIFALDLddit--ikkAMLKWEVtrDQQNDCSNKGkdaTNDCKNYIRILHKKN 122 zebrafish
Feature 1                                                    #                    # ## #         
3OL2_A        99 ATSLYVCGTNAFQPACDHLnltsfkf------lgknedGKGRCPFDPAHSYTSVMVDGELYSGTSYNFLgSEPIISRNSs 172 human
Q64151       122 SSHLYVCGTYAFQPKCTYInmltftl-----draefedGKGKCPYDPAKGHTGLLVDGELYSATLNNFLgTEPVILRYMg 196 house mouse
Q9H3S1       136 VTHLYTCGTFAFSPACTFIelqdsyllp--isedkvmeGKGQSPFDPAHKHTAVLVDGMLYSGTMNNFLgSEPILMRTLg 213 human
NP_001087062 122 STHLYTCGTFAFSPTCTYIkisdfsleknasghpvledGKGRCPFDPEYNSTAIMVDGEMYAGTVNNFQgNEPIVYKSHe 201 African clawed ...
XP_003229876  83 QSHLLVCGTFAFDPRCGYIklsdfrs------vehmesGRGRCPFEPLQPSTAIMADGALYVATVGNFLgTEPLISRDTr 156 green anole
CBN81657      85 ETHLYVCGTNAFRPLCAYIdaerfsf------ssgfeeGRDRCPYDPAKGYTGLLVDGEMFTASQYEFR-SSPDVRRNFp 157 European seabass
XP_699956     97 STHMYACGTFAFSPRCIYInsqtftmvt--gpsgkpeeGRGRCPYDPYQKNSAITVDGELYTGTVSDFRgTRPVISRHLs 174 zebrafish
XP_001338626 120 STHLYACGTNAYKPQAIIIpasslna------nidkkdAKNCCPFSSTQRNTAIIVDGELYTATNVGFFgDKNVISRCHs 193 zebrafish
Q9YHX4       123 DGRMYVCGTKAFNPTCGYLsyadgklt----leilqedTKGKCPFDPFQRYTSAMVDGAYYSATSMNFRgSEPVMMRSTe 198 zebrafish
Feature 1               #  # #    #                                 #                         ###
3OL2_A       173 h---spLRTEYAIPWLNEPSFVFADVIRkspds--pdgedDRVYFFFTEVSVEY--EFVFRVLIPRIARVCKGDQGGLRT 245 human
Q64151       197 th--hsIKTEYLAFWLNEPHFVGSAFVPesvgs--ftgddDKIYFFFSERAVEY--DCYSEQVVARVARVCKGDMGGART 270 house mouse
Q9H3S1       214 sq--pvLKTDNFLRWLHHDASFVAAIPSt-----------QVVYFFFEETASEF--DFFERLHTSRVARVCKNDVGGEKL 278 human
NP_001087062 202 sr--itLKTENALYWLQDPAFVGSAYIQeslpkgnlvgddDKIYFFFSETGKEF--DFFENTIVSRIARVCKGDLGGERV 277 African clawed ...
XP_003229876 157 np-aevIRTVISMTWLNDPEFVASAFVRegkd-----gedDKIYFFFTETAREY--DFYEKVKVARVARVCKGDLGGQKT 228 green anole
CBN81657     158 fp--tlRTEEAPTRWLLEADFVGSVLLKesins--sigddDKIYFFFTERSQEQi-AYPSQTKVSRVARVCKNDWGGQRT 232 European seabass
XP_699956    175 egshvdLKLDDTLGWLEDPTFISSTYIHs----------eEKVYFFFSEIGKEY--DFIDKFTVSRVAQVCTSDVGGQRT 242 zebrafish
XP_001338626 194 rgthnnLELETVPKLLQEPVFISSTHVAs----------eGKILLFFTENGDLSgdYFGNSFTVSRVAQVCTDDNGGTLT 263 zebrafish
Q9YHX4       199 e----sIRTEFTSTWLSEPNFIHMAHIPegqsn--pdgddDKIYLFFSETAVEY--ESYTKVDVSRVARVCKGDLGGQRT 270 zebrafish
Feature 1        ## #                                                                            
3OL2_A       246 LQKKWTSFLKARLICSRPdSGLVFNVLRDVFVLrsp---glkVPVFYALFTPQLnn-----vGLSAVCAYNLSTAEEVFs 317 human
Q64151       271 LQKKWTTFLKARLVCSAPdWKVYFNQLKAVHTLrga---swhNTTFFGVFQARWgd-----mDLSAVCEYQLEQIQQVFe 342 house mouse
Q9H3S1       279 LQKKWTTFLKAQLLCTQP-GQLPFNVIRHAVLLpad---sptAPHIYAVFTSQWqvg---gtRSSAVCAFSLLDIERVFk 351 human
NP_001087062 278 LQRRWTTFLKAQLICSCPgDGFPFNVLKDMFVLtpge-ehwkDTIFYGVFTSQWnkg---gaGSSAVCAFSMDEVQNAFn 353 African clawed ...
XP_003229876 229 LQKRWTTFLKAQLYCSDPkSGTVFNILRDVVTLpald-gawnATIFYGVFAAQGre-----eSGSAVCTYSMEAVRRAMe 302 green anole
CBN81657     233 LQRKWTTFLKARMVCSVPeYELHLNILRSVFVLqgr---daqSSIFYGVFGLEWkn-----iKASAICQYAFSDVQKAFe 304 European seabass
XP_699956    243 LQKRWTTFAKAQLLCQAD-QELPYNVLQDVISLsppegasedETLFYGIFTSQCfvfrrvnlGRSAVCAFSLKDIKKVFt 321 zebrafish
XP_001338626 264 LQRRWTSFAKAQLVCQQG-EDLQFNKLQDIVKLspsdsdspdKTLFYGVFTSQRsv----ssGLSAVCAFSLTDIKAAFs 338 zebrafish
Q9YHX4       271 LQKKWTSFLKARLDCQVP-NTNLPLLVQDVFHLcpd---dwtTCVFYAVFTPQSds-----sQYSAVCSYKIEDIKTVFs 341 zebrafish
Feature 1                     ##                                   #   #  #                      
3OL2_A       318 hGKYMQSttveqsHTKWVRYn-gPVPKPRPGACidsearaanytsslnlpDKTLQFVKDHPLMDDSVTPidnRPRLIKKd 396 human
Q64151       343 -GPYKEYse---qAQKWARYt-dPVPSPRPGSCinnwhrdngytsslelpDNTLNFIKKHPLMEDQVKPrlgRPLLVKKn 417 house mouse
Q9H3S1       352 -GKYKELnk---eTSRWTTYr-gPETNPRPGSCsvg-----------pssDKALTFMKDHFLMDEQVVG---TPLLVKSg 412 human
NP_001087062 354 -GLFKEVnr---eTQQWYTYt-nSVPEPRPGACitnsakhrkinsslhmpDRVLNFVKDHFLMDSAIRS---QPLLLQSq 425 African clawed ...
XP_003229876 303 -GHFKEFrr---eCDKWTRLtpsDVPHPRPGACvtsstegi--gsslalpDRVLTFVRDHPLMDELVLPldnAPVLVVPg 376 green anole
CBN81657     305 -GPYMEVq-----DSKWREYt-gKVPEPRPGSCitdlhrsqginssrdlpDNVLTFARRHPLMASQVHPigvRPLMFKRs 377 European seabass
XP_699956    322 -GRYKVLnr---dTLKWSTRv--QEQMANPGECglh-----------nasDNTLRFVKDNFLADKSVLPv-nQGLTVVSp 383 zebrafish
XP_001338626 339 -GNYKTFdl---rGNHWSPQ---PNTDGKLGKCglf-----------ndtDSVLNRVKKSFLTENVVHPm-dKTLLLSSa 399 zebrafish
Q9YHX4       342 kGKFKAPfnvetsFVKWVMYs-gELPDPRPGACidnharekgitkslelpDKTLQFVKDKPLMDQAVTAe--QPLLVKRg 418 zebrafish
Feature 1                                                                                        
3OL2_A       397 -VNYTQIVVDrtqaldgtvYDVMFVSTDRGALHKAIs-lEHAVHIIEETQLFQDFEPVQTLLLSSkkgnrfVYAGSnSGV 474 human
Q64151       418 -TNFTHVVADrvpgldgatYTVLFIGTGDGWLLKAVs-lGPWIHMVEELQVFDQEPVESLVLSQSkk---vLFAGSrSQL 492 house mouse
Q9H3S1       413 -VEYTRLAVEtaqgldghsHLVMYLGTTTGSLHKAVvsgDSSAHLVEEIQLFPDPEPVRNLQLAPtq--gaVFVGFsGGV 489 human
NP_001087062 426 -IRYKQISVQrvkg-lkktYDVLFLGTDDGRLHKAVs-vNKMVHIIEEIKLFQDMQPVQELLLDPsk--glLYASSrSAV 500 African clawed ...
XP_003229876 377 -ARYLRLAIHrvaslsgqeHHVLYLGTEDGRVHKAVr-iGPRLSLLEDLHLFAEPQPVRNLQLHQn----wLYVASdTEV 450 green anole
CBN81657     378 -VNYVKIAVHkepaldgniYTILFLGTDDGWLHRAVd-iDGEMHIIEELQLFDKPQPIESMVISSal--rsVYVGSrSGV 453 European seabass
XP_699956    384 dKSYSNIAAQrvqgargkyYTVLYLLTESGFLHKTVl-lKKGAHIIEEIQVFHQPQMVKSLLLSVsk--gaVLIGSsEGL 460 zebrafish
XP_001338626 400 eEQYTRLAVHraqavdgqtYTILYLLTESGFLHKVVl-lAEGPHIIEEIQIFKQPQIAKNILLSKsk--svLFIGSsEGV 476 zebrafish
Q9YHX4       419 -AAFTRIVVTtatalngtsHQVMFIGTKSGSVLKAVn-yNGEMVIMEEIQLFDPSEPIKILRLSSsk--kqLYVGSeVGV 494 zebrafish
Feature 1              
3OL2_A       475 VQAPLA 480 human
Q64151       493 VQLSLA 498 house mouse
Q9H3S1       490 WRVPRA 495 human
NP_001087062 501 VQVPVS 506 African clawed frog
XP_003229876 451 TQIPTS 456 green anole
CBN81657     454 VQVPMS 459 European seabass
XP_699956    461 LSVPVS 466 zebrafish
XP_001338626 477 FRVPLS 482 zebrafish
Q9YHX4       495 VQLSIS 500 zebrafish

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