Protein Model on 6xm4_B_1_J_1 (TEMPLATE: 6xm4 )

CurrentView:HTML5 Change to:[JAVA] DOWNLOAD:
[sequence-replaced 3D model] [for PyMOL]
[3D template]
[Modeller script]

ALL MOLECULES IN THE BIOLOGICAL UNIT:
[assembly_id:1]

Window size :
[small] [medium] [large]

[help]

MOLECULES contact sites
model mark query asym_id oper
(auth_asym_id)		 type description a(query A)
1 a A(SPIKE_SARS2) B 1 (B) polymer(polypeptide(L)) [1058 aa] Spike glycoprotein :SPIKE_SARS2
2 b J 1 (J) branched(oligosaccharide) 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose 331N 580Q (identity: 100.0 %/94.2 %)
ALIGNMENTS
MODEL[1] Protein A "queryA" TEMPLATE:6xm4_B_1 identity=94.2%
queryA        27:AYTNSFTRGVYYPDKVFRSSVLHSTQDLFLPFFSNVTWFHAIHVSGTNGTKRFDNPVLPFNDGVYFASTEKSNIIRGWIFGTTLDSKTQSLLIVNNATNV: 126
                :*******************************************          ***********************************************:
6xm4_B_1      14:AYTNSFTRGVYYPDKVFRSSVLHSTQDLFLPFFSNVTWFHAIHXXXXXXXXXXDNPVLPFNDGVYFASTEKSNIIRGWIFGTTLDSKTQSLLIVNNATNV: 113
SecStr          :  EEESS   B  SS    S EEEEEEEE  TTEEEEE     ----------    EE SS EEEEEEESSS   EEE  SS SSSS   EEEE SS E:    
ExpBur          :eebebebbbbbbeeeeeeeeeeeebeeebbbbeeebeeeeeee----------ebeebebeebbbbbbbbeeeebbbbbbbbeeeeeeebbbbbeeeeee:    

queryA       127:VIKVCEFQFCNDPFLGVYYHKNNKSWMESEFRVYSSANNCTFEYVSQPFLMDLEGKQGNFKNLREFVFKNIDGYFKIYSKHTPINLVRDLPQGFSALEPL: 226
                :*****************               **************             *****************************************:
6xm4_B_1     114:VIKVCEFQFCNDPFLGVXXXXXXXXXXXXXXXVYSSANNCTFEYVSXXXXXXXXXXXXXFKNLREFVFKNIDGYFKIYSKHTPINLVRDLPQGFSALEPL: 213
SecStr          :EEE S     SS     ---------------     SS   EEE -------------  EEEEEEEE  TT  EEEEEEEE   SSS  SS   BEEE:    
ExpBur          :bbbbbbbebeeebebee---------------eeeeeeeeeeeeee-------------eeebebbbbbbeeeebebbeeeeebeeeebbeeeebbbeee:    

queryA       227:VDLPIGINITRFQTLLALHRSYLTPGDSSSGWTAGAAAYYVGYLQPRTFLLKYNENGTITDAVDCALDPLSETKCTLKSFTVEKGIYQTSNFRVQPTESI: 326
                :*************************             **************************************************************:
6xm4_B_1     214:VDLPIGINITRFQTLLALHRSYLTPXXXXXXXXXXXXXYYVGYLQPRTFLLKYNENGTITDAVDCALDPLSETKCTLKSFTVEKGIYQTSNFRVQPTESI: 313
SecStr          :EE        EEEEE   SS     ------------- EEEE EEEEEEEEEETTTEEEEEEESSSSHHHHHHHHTTSS   SEEEEEEEE      B :    
ExpBur          :eebebebebeebbbbbeeeeeeeee-------------bbbbebeebebbbebeeebebeebbbeebebbbbbebeeebeebeeeebebeebebeeeeeb:    

queryA       327:VRFPNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLP: 426
                :****************************************************************************************************:
6xm4_B_1     314:VRFPNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLP: 413
SecStr          : B     SB   TTTTT S    SSS EEEEE S B   HHHHTS   S   BTTS SSSTTS  BSEEEEEEE  BTTTTSS SSS   HHHHHT    :    
ExpBur          :ebbeeeeeebeeeebbeeeebbbbeebeeeebeebebebeebeeeeeeeeeebeebeeeebeeeebbbbebbbbbbebebeebbbeeeeeebbeebbbbe:    
Contact         :    b                                                                                               

queryA       427:DDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCG: 526
                :****************************************************************************************************:
6xm4_B_1     414:DDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCG: 513
SecStr          :SS  SEEEEEE HHHH  TTTB   EEE   SS   SS      S B SSSS  TTSS TT B  EEE  B SSS TTT BEEEEEEEEE  SS   BB :    
ExpBur          :eebebbbbbbebbeebbeeebbeebebbeebeeebeeeeebeeeeeeeeeeeebeeeeeeebeebbeebebeeeeeeeeebebbbbbebeeeeeeeebeb:    

queryA       527:PKKSTNLVKNKCVNFNFNGLTGTGVLTESNKKFLPFQQFGRDIADTTDAVRDPQTLEILDITPCSFGGVSVITPGTNTSNQVAVLYQDVNCTEVPVAIHA: 626
                :****************************************************************************************************:
6xm4_B_1     514:PKKSTNLVKNKCVNFNFNGLTGTGVLTESNKKFLPFQQFGRDIADTTDAVRDPQTLEILDITPCSFGGVSVITPGTNTSNQVAVLYQDVNCTEVPVAIHA: 613
SecStr          :         SSEEEEEETTEEEEEEEEE      TT  EEE TTS EEEEE SSS  EEEEE    EEEEEEE  TTT S  EEEETT  TTSHHHHTTG:    
ExpBur          :beeeeeebeeebbebebeeeeeebebeebeeeeeeeeeeeeeeeeeeebbbbbeeeebbebeebeebbbbbbbbbeeebeebbbbbeebebeebeebbeb:    
Contact         :                                                     b                                              

queryA       627:DQLTPTWRVYSTGSNVFQTRAGCLIGAEHVNNSYECDIPIGAGICASYQTQTNSPRRARSVASQSIIAYTMSLGAENSVAYSNNSIAIPTNFTISVTTEI: 726
                :**************************************************            **************************************:
6xm4_B_1     614:DQLTPTWRVYSTGSNVFQTRAGCLIGAEHVNNSYECDIPIGAGICASYQTXXXXXXXXXXXXSQSIIAYTMSLGAENSVAYSNNSIAIPTNFTISVTTEI: 713
SecStr          :GGS TTTGGGTS S EEEETTEEEESSEE S     SEEEETTEEEEEE ------------  EEEEEE            SSEEEEEEEEEEEEEEEE:    
ExpBur          :eeeeeebeebbeeeeebebeebbbbebeeeeeeeeeebebeeebbbbeee------------eeebbbbeeeeeeeeeeeeeeeeeebbeebebebeeeb:    

queryA       727:LPVSMTKTSVDCTMYICGDSTECSNLLLQYGSFCTQLNRALTGIAVEQDKNTQEVFAQVKQIYKTPPIKDFGGFNFSQILPDPSKPSKRSFIEDLLFNKV: 826
                :****************************************************************************************************:
6xm4_B_1     714:LPVSMTKTSVDCTMYICGDSTECSNLLLQYGSFCTQLNRALTGIAVEQDKNTQEVFAQVKQIYKTPPIKDFGGFNFSQILPDPSKPSKRSFIEDLLFNKV: 813
SecStr          :EE    EEEE HHHHHHTT TTTHHHHTTS SHHHHHHHHHHHHHHHHHHHHHHHH   S      SS  STT   TTTS  SSSSSS  HHHHHHTTSS:    
ExpBur          :bbbbbbbbebebeebbbeebeebeebbeeeeeebeebeeebeebbeebeebbeebbbebeeeeeeeeeeebeebebeebbeeeeeeeebbebbebbbebb:    

queryA       827:TLADAGFIKQYGDCLGDIAARDLICAQKFNGLTVLPPLLTDEMIAQYTSALLAGTITSGWTFGAGAALQIPFAMQMAYRFNGIGVTQNVLYENQKLIANQ: 926
                :****************************************************************************************************:
6xm4_B_1     814:TLADAGFIKQYGDCLGDIAARDLICAQKFNGLTVLPPLLTDEMIAQYTSALLAGTITSGWTFGAGAALQIPFAMQMAYRFNGIGVTQNVLYENQKLIANQ: 913
SecStr          :  TT HHHHHHHT   TTS S   TTSSSTTEEEE  SS HHHHHHHHHHHHHHHHHHTTSTTTSS     HHHHHHHHHHTTT  THHHHHTHHHHHHH:    
ExpBur          :eeeebebbeebeeeeeeeeeeeeebeeebebbbeeeeebeeeebbebbebbbbbbbebbeebeeeeeeebebbebbbebbeebebeeebbeeeeeebbee:    

queryA       927:FNSAIGKIQDSLSSTASALGKLQDVVNQNAQALNTLVKQLSSNFGAISSVLNDILSRLDKVEAEVQIDRLITGRLQSLQTYVTQQLIRAAEIRASANLAA:1026
                :***********************************************************  ***************************************:
6xm4_B_1     914:FNSAIGKIQDSLSSTASALGKLQDVVNQNAQALNTLVKQLSSNFGAISSVLNDILSRLDPPEAEVQIDRLITGRLQSLQTYVTQQLIRAAEIRASANLAA:1013
SecStr          :HHHHHHHHHHHHTSS    HHHHHHHHHHHHHHHHHHHGGG  TTSS S HHHHTTTS HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH:    
ExpBur          :beebbeebbeebeeeeeebeebbebbeebbebbeebeeebeeeeebebeebeebeeeeeeeebeebbeebbebbbebbeebbeebeebbeebbebbeebb:    

queryA      1027:TKMSECVLGQSKRVDFCGKGYHLMSFPQSAPHGVVFLHVTYVPAQEKNFTTAPAICHDGKAHFPREGVFVSNGTHWFVTQRNFYEPQIITTDNTFVSGNC:1126
                :****************************************************************************************************:
6xm4_B_1    1014:TKMSECVLGQSKRVDFCGKGYHLMSFPQSAPHGVVFLHVTYVPAQEKNFTTAPAICHDGKAHFPREGVFVSNGTHWFVTQRNFYEPQIITTDNTFVSGNC:1113
SecStr          :HHHHHTTSS   STTTSSSSEEEEEEEEEETTEEEEEEEEEEEEEEEEEEEES EESSSEEEEESSSEEEESSSSEEEE SSS   EE BTTSEEEEEET:    
ExpBur          :ebbeebbbebbeeeebbeeeebbbbbbbbbeebbbbbbbbbeeeeeeebeebebbbeeeebbeeeebbbbbeeeebbbbbeebbbeeebbeeebeeeeee:    

queryA      1127:DVVIGIVNNTVYDPLQPELDS:1147
                :*********************:
6xm4_B_1    1114:DVVIGIVNNTVYDPLQPELDS:1134
SecStr          :TSSTT EE   B TT SS   :    
ExpBur          :eeeeeeeeeebeeeeeeeeee:

Input Residue Numbers for Focused Sites

ex) 2,15,123