5GYD,5TOD,5YK6,5GYK,4P42,5H5A


Conserved Protein Domain Family
SMP_SF

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cd21669: SMP_SF 
Click on image for an interactive view with Cn3D
synaptotagmin-like mitochondrial-lipid-binding protein (SMP) domain superfamily
The SMP domain is a lipid transport domain found in phospholipid transfer proteins such as synaptotagmin family proteins, tricalbin (TCB) family proteins, maintenance of mitochondrial morphology protein 1 (MMM1), mitochondrial distribution and morphology protein 12 (MDM12), mitochondrial distribution and morphology protein 34 (MDM34), PDZ domain-containing protein 8 (PDZD8), testis-expressed protein 2 (TEX2), meiotically up-regulated gene 190 protein (Mug190), C2 domain-containing protein 2 (C2CD2) and C2 domain-containing protein 2-like (C2CD2L). The SMP domain belongs to a superfamily of lipid/hydrophobic ligand-binding domains called TULIP (tubular lipid-binding proteins). It adopts a TULIP fold with two alpha helices and a highly curved antiparallel beta sheet forming a cornucopia-like structure.
Statistics
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PSSM-Id: 439225
Aligned: 122 rows
Threshold Bit Score: 54.2496
Created: 13-Oct-2021
Updated: 17-Oct-2022
Structure
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Program:
Drawing:
Aligned Rows:
 
lipid binding
Conserved site includes 26 residues -Click on image for an interactive view with Cn3D
Feature 1:lipid binding site [chemical binding site]
Evidence:
  • Structure:5GYK; Saccharomyces cerevisiae Mdm12 binds phospholipid, contacts at 4A
  • Structure:5H5A; Kluyveromyces lactis Mdm12 binds glycerophospholipid, contacts at 4A
  • Structure:4P42; Homo sapiens Synaptotagmin-2 binds lipids, contacts at 4A

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1         #  ##   #   #                                       #           #               
5GYD_A         17 LNDLIRKHLNSYLQnt---------------------qlPSYVSNLRVLDFDLGkv-------gPAITLKEITDpldefy 68   Saccharomyces...
5TOD_F         27 FRENWQRAWVRALNeqa--------------------crNGSSIQIAFEEVPQLpp-------rASISHVTCVDqs---- 75   human
5GYK_A         17 LNDLIRKHLNSYLQnt---------------------qlPSYVSNLRVLDFDLGkv-------gPAITLKEITDpldefy 68   Saccharomyces...
OHT11347      102 FMQERVDYFKEQLQwvld------------------nnkVPYFDSIALKSMKLGnm-------aPQITQILLPKtpe--- 153  Tritrichomona...
XP_001323532   92 FSQERVEQFKESLQwvvd------------------qqkIPYLEKLILKEIKLGnt-------sPQITFVKIPEkpk--- 143  Trichomonas v...
XP_005831300  148 YEPWLQSFVASNIEf------------------------YASQLGVKVVSTQFGsq-------pIQIRRVTGRPknnllg 196  Guillardia th...
OLP75557      149 LRGMLEEDVVKGEFqq---------------------ilQNVTAALKFDRICLGpe-------pLKVLSLSMVPattt-- 198  Symbiodinium ...
XP_005769220  125 LAGWVLSKLVKNLGdsgkv----------------tgvgGLSLGEVKLKDLRLGlpfehdtlapLELQKMHTVErteera 188  Emiliania hux...
KXZ47272      400 LAAAAEAELRRQLRevvvph--------------vagggVPGLAALSVRRLTLGpa------apPRIGGVKLAGgwaggg 459  Gonium pectorale
PTQ42127       89 QRPRLRDFLEAFLEtyrlgvfqvigedeanrkveryipsGETLTSLHLNDLNLGsa-------aPQIGGVKLRGlhd--- 158  liverwort
Feature 1                                                                    #              # # # 
5GYD_A         69 dsireeadqeteenndnkedsehicpdrtianhegpkddfeapvvmpspndIQFLLEVEYk-----------gDLLVTIG 137  Saccharomyces...
5TOD_F         76 --------------------------------------------------eHTXVLRCQLsa----------eEVRFPVS 95   human
5GYK_A         69 dsire------------------------------------eggsggspndIQFLLEVEYk-----------gDLLVTIG 101  Saccharomyces...
OHT11347      154 ------------------------------------------------apdDSIMLQMQAi-----------yYPSFELS 174  Tritrichomona...
XP_001323532  144 ------------------------------------------------aakNSLIFELQAi-----------yYPTFVLN 164  Trichomonas v...
XP_005831300  197 vsk---------------------------------------ktmsaddwcHELDIDVKLlt----------kDMNLTVS 227  Guillardia th...
OLP75557      199 ------------------------------------------------eraITIAAEVEFcg----------kDVDLTLS 220  Symbiodinium ...
XP_005769220  189 ad------------------------------------------gkpagvrLVMQVDVRFstahasthpahaaALSMEMS 226  Emiliania hux...
KXZ47272      460 g--------------------------------------------ggggeeLVIELDVAWa-----------aGIEVDLE 484  Gonium pectorale
PTQ42127      159 -------------------------------------------------nkMVMDVRLVWet----------rALTVGLG 179  liverwort
Feature 1                                         #   # #                        # # #            
5GYD_A        138 ADlvlnypv-------ekfmtlPVKLSISDiGLHSLCIVAcls------------------kqLFLSFLcdvsdpalddn 192  Saccharomyces...
5TOD_F         96 VTqqsp------------aavsXETYHVTLtLPPTQLEVNleeip-------------gegllISWAFTd---------- 140  human
5GYK_A        102 ADlvlnypv-------ekfmtlPVKLSISDiGLHSLCIVAcls------------------kqLFLSFLcdvsdpalddn 156  Saccharomyces...
OHT11347      175 GLctps------------anvpAFNITFTDlTVMCDVYIMleftpdpyi------pnmpfwtaLDFLLVkp--------- 227  Tritrichomona...
XP_001323532  165 SVlflk------------npsiDVKVSFNNlTVQFDMLVQfefkeepel------peipfctaMDFSLTkn--------- 217  Trichomonas v...
XP_005831300  228 VW--------------------GVPISMKNlEISGNLRLElewieldardasydypsfpnvcgLKMFFTn---------- 277  Guillardia th...
OLP75557      221 LTlgr---------------lvGLSVSVNRfSLRGSLLLSfryltph----------lpltqgLTIAFVn---------- 265  Symbiodinium ...
XP_005769220  227 GPip----------------giGLEVGIRNiTLEGTLRLElawvrp-----------ypwlgtLSVSFAa---------- 269  Emiliania hux...
KXZ47272      485 ARlglagsdpsrpprlalpllpPLRASLSRlALRGVVRLAagpllae----------ppyvaaASLTLLq---------- 544  Gonium pectorale
PTQ42127      180 VGtt----------------dgVLRVQLENlRVLATVRVQfyfveq-----------ppfvsvLVLFTPsk--------- 223  liverwort
Feature 1                                    #                                                    
5GYD_A        193 qtvldpkgpilaatkplerisIVRSMKIEteigeqyqg----------------------------------qgsvlrsv 238  Saccharomyces...
5TOD_F        141 --------------------rPDLSLTVLpklqar----------------------------------------ergee 160  human
5GYK_A        157 qtvldpkgpilaatkplerisIVRSMKIEteigeqyqg----------------------------------qgsvlrsv 202  Saccharomyces...
OHT11347      228 --------------------pQVSGFNLTlfqss-----------------------------------------nlink 246  Tritrichomona...
XP_001323532  218 --------------------pQIIGFDVTvanmt-----------------------------------------slfng 236  Trichomonas v...
XP_005831300  278 --------------------iPSLAFSLWiadll-----------------------------------------dvmai 296  Guillardia th...
OLP75557      266 --------------------pPAVDLSLRtpagslp-------------------------------------flperar 288  Symbiodinium ...
XP_005769220  270 --------------------ePSLQRANLtd-----------------------------------------------ls 282  Emiliania hux...
KXZ47272      545 --------------------pPLLGGSLRlglggggggaaasatasaneaeaklpegaaggvagggpagggwwgvdlmal 604  Gonium pectorale
PTQ42127      224 -------------------lkPVIHYKLSpdqda-----------------------------------------lehlq 243  liverwort
Feature 1                   #  ##        # #### 
5GYD_A        239 GELEQFLFTIFKDFLrke--laWPSWINLD 266  Saccharomyces cerevisiae S288C
5TOD_F        161 QVELSTIEELIKDAIvs----tQPAXXVNL 186  human
5GYK_A        203 GELEQFLFTIFKDFLrke--laWPSWINLD 230  Saccharomyces cerevisiae S288C
OHT11347      247 DSIKAHMSDIFSKMIwnf--cgIPNGFVWE 274  Tritrichomonas foetus
XP_001323532  237 EDLKKRMSSAASNTIwgl--cgQPNGFLWE 264  Trichomonas vaginalis G3
XP_005831300  297 PLLRMAFEKLVINKLicsdlklGPTDMSSE 326  Guillardia theta CCMP2712
OLP75557      289 QALIALVDSTLARDLv------LPNRLPLP 312  Symbiodinium microadriaticum
XP_005769220  283 SQLKLWLTDKFKEAVres--lvVPNKFSIP 310  Emiliania huxleyi CCMP1516
KXZ47272      605 PGVSWLVRSSLQSLLqra--lvFPRHLLVT 632  Gonium pectorale
PTQ42127      244 PVVMRKLREFIYDSIsds--lhWPNRLVVI 271  liverwort

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