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(-) Description

Title :  STAPHYLOCOCCAL COMPLEMENT INHIBITOR (SCIN) IN COMPLEX WITH HUMAN COMPLEMENT COMPONENT C3B
 
Authors :  B. V. Geisbrecht, B. L. Garcia
Date :  22 Dec 09  (Deposition) - 04 Aug 10  (Release) - 15 Sep 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  7.54
Chains :  Asym./Biol. Unit :  A,B,M
Keywords :  Complement Alternate Pathway, Complement Pathway, Converstase, Immune Response, Inflammatory Response, Innate Immunity, Secreted, Virulence, Immune Evasion, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  B. L. Garcia, K. X. Ramyar, A. Tzekou, D. Ricklin, W. J. Mcwhorter, J. D. Lambris, B. V. Geisbrecht
Molecular Basis For Complement Recognition And Inhibition Determined By Crystallographic Studies Of The Staphylococca Complement Inhibitor (Scin) Bound To C3C And C3B.
J. Mol. Biol. V. 402 17 2010
PubMed-ID: 20654625  |  Reference-DOI: 10.1016/J.JMB.2010.07.029

(-) Compounds

Molecule 1 - COMPLEMENT C3
    ChainsA
    FragmentRESIDUES 23-667
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
 
Molecule 2 - COMPLEMENT C3
    ChainsB
    FragmentRESIDUES 749-1663
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
 
Molecule 3 - STAPHYLOCOCCAL COMPLEMENT INHIBITOR
    ChainsM
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPT7HMT
    Expression System StrainBL21(DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneSAV1942, SCN
    Organism ScientificSTAPHYLOCOCCUS AUREUS
    Organism Taxid158878
    StrainMU50 / ATCC 700699
    SynonymSCIN

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit ABM

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1MAN1Ligand/IonALPHA-D-MANNOSE
2NAG3Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:19 , ASN A:63 , THR A:65 , NAG A:647BINDING SITE FOR RESIDUE NAG A 646
2AC2SOFTWARELEU A:479 , NAG A:646 , MAN A:648BINDING SITE FOR RESIDUE NAG A 647
3AC3SOFTWARENAG A:647BINDING SITE FOR RESIDUE MAN A 648
4AC4SOFTWAREASN A:178 , ASN B:917BINDING SITE FOR RESIDUE NAG A 649

(-) SS Bonds  (8, 8)

Asymmetric/Biological Unit
No.Residues
1A:537 -B:794
2A:605 -A:640
3B:1079 -B:1136
4B:1336 -B:1467
5B:1367 -B:1436
6B:1484 -B:1489
7B:1515 -B:1639
8B:1615 -B:1624

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Phe A:40 -Pro A:41
2Ile A:504 -Pro A:505
3Lys B:1593 -Pro B:1594

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (19, 19)

Asymmetric/Biological Unit (19, 19)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
01UniProtVAR_001983R102GCO3_HUMANPolymorphism2230199AR80G
02UniProtVAR_070941K155QCO3_HUMANDisease (ARMD9)147859257AK133Q
03UniProtVAR_020262E469DCO3_HUMANPolymorphism11569422AE447D
04UniProtVAR_001985D549NCO3_HUMANDisease (C3D)  ---AD527N
05UniProtVAR_063213R592QCO3_HUMANDisease (AHUS5)121909583AR570Q
06UniProtVAR_063214R592WCO3_HUMANDisease (AHUS5)771353792AR570W
07UniProtVAR_063654F603VCO3_HUMANDisease (AHUS5)  ---AF581V
08UniProtVAR_019206R863KCO3_HUMANPolymorphism11569472BR841K
09UniProtVAR_063655R1042LCO3_HUMANDisease (AHUS5)  ---BR1020L
10UniProtVAR_063216A1094VCO3_HUMANDisease (AHUS5)121909584BA1072V
11UniProtVAR_063217D1115NCO3_HUMANDisease (AHUS5)121909585BD1093N
12UniProtVAR_063218C1158WCO3_HUMANDisease (AHUS5)  ---BC1136W
13UniProtVAR_063219Q1161KCO3_HUMANDisease (AHUS5)  ---BQ1139K
14UniProtVAR_022761D1216NCO3_HUMANUnclassified  ---BD1194N
15UniProtVAR_019207G1224DCO3_HUMANPolymorphism11569534BG1202D
16UniProtVAR_019208I1367TCO3_HUMANPolymorphism11569541BI1345T
17UniProtVAR_063220H1464DCO3_HUMANDisease (AHUS5)  ---BH1442D
18UniProtVAR_029793H1601NCO3_HUMANPolymorphism1803225BH1579N
19UniProtVAR_029326S1619RCO3_HUMANPolymorphism2230210BS1597R

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ALPHA_2_MACROGLOBULINPS00477 Alpha-2-macroglobulin family thiolester region signature.CO3_HUMAN1007-1015  1B:985-993
2NTRPS50189 NTR domain profile.CO3_HUMAN1518-1661  1B:1496-1639

(-) Exons   (40, 40)

Asymmetric/Biological Unit (40, 40)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.3aENST000002459073aENSE00001938285chr19:6720693-6720527167CO3_HUMAN1-25251A:1-3
-
3
-
1.4ENST000002459074ENSE00001053574chr19:6719414-6719222193CO3_HUMAN25-89651A:3-67
-
65
-
1.5ENST000002459075ENSE00000858140chr19:6718423-6718258166CO3_HUMAN90-145561A:68-123 (gaps)
-
56
-
1.6aENST000002459076aENSE00001053592chr19:6718175-671810571CO3_HUMAN145-168241A:123-146
-
24
-
1.7ENST000002459077ENSE00000858137chr19:6714457-671436395CO3_HUMAN169-200321A:147-178
-
32
-
1.8bENST000002459078bENSE00001053577chr19:6714259-671417783CO3_HUMAN200-228291A:178-206
-
29
-
1.9ENST000002459079ENSE00001053565chr19:6714093-671400391CO3_HUMAN228-258311A:206-236
-
31
-
1.11ENST0000024590711ENSE00001053527chr19:6713520-6713418103CO3_HUMAN258-292351A:236-270
-
35
-
1.12bENST0000024590712bENSE00000858133chr19:6713326-6713200127CO3_HUMAN293-335431A:271-313 (gaps)
-
43
-
1.13ENST0000024590713ENSE00001053519chr19:6712634-6712519116CO3_HUMAN335-373391A:313-351
-
39
-
1.14bENST0000024590714bENSE00001053582chr19:6712417-6712268150CO3_HUMAN374-423501A:352-401
-
50
-
1.15ENST0000024590715ENSE00000858130chr19:6711207-6710998210CO3_HUMAN424-493701A:402-471
-
70
-
1.16bENST0000024590716bENSE00001159750chr19:6710856-6710650207CO3_HUMAN494-562691A:472-540
-
69
-
1.17bENST0000024590717bENSE00000858128chr19:6709853-6709695159CO3_HUMAN563-615531A:541-593
-
53
-
1.18ENST0000024590718ENSE00000858127chr19:6707940-6707811130CO3_HUMAN616-659441A:594-637
-
44
-
1.19ENST0000024590719ENSE00001053520chr19:6707548-670747772CO3_HUMAN659-683251A:637-645
-
9
-
1.20ENST0000024590720ENSE00001053532chr19:6707284-6707087198CO3_HUMAN683-749670--
1.21cENST0000024590721cENSE00001053537chr19:6702590-6702482109CO3_HUMAN749-785371-
B:729-763
-
35
1.22ENST0000024590722ENSE00001053579chr19:6702223-670213886CO3_HUMAN785-814301-
B:763-792
-
30
1.23bENST0000024590723bENSE00001053525chr19:6697805-6697663143CO3_HUMAN814-861481-
B:792-839
-
48
1.23dENST0000024590723dENSE00000858122chr19:6697567-6697355213CO3_HUMAN862-932711-
B:840-910
-
71
1.24bENST0000024590724bENSE00000858121chr19:6696670-669660467CO3_HUMAN933-955231-
B:911-933
-
23
1.25ENST0000024590725ENSE00001053553chr19:6696476-669639087CO3_HUMAN955-984301-
B:933-962
-
30
1.26ENST0000024590726ENSE00000858119chr19:6694645-6694442204CO3_HUMAN984-1052691-
B:962-1030
-
69
1.27ENST0000024590727ENSE00000858118chr19:6693498-669342376CO3_HUMAN1052-1077261-
B:1030-1055 (gaps)
-
26
1.28cENST0000024590728cENSE00000858117chr19:6693094-6692935160CO3_HUMAN1077-1130541-
B:1055-1108
-
54
1.29ENST0000024590729ENSE00000858116chr19:6690738-669064099CO3_HUMAN1131-1163331-
B:1109-1141
-
33
1.31aENST0000024590731aENSE00000858115chr19:6686913-6686757157CO3_HUMAN1164-1216531-
B:1142-1194
-
53
1.31dENST0000024590731dENSE00001504968chr19:6686298-6686135164CO3_HUMAN1216-1270551-
B:1194-1248
-
55
1.32ENST0000024590732ENSE00001159688chr19:6685157-6684999159CO3_HUMAN1271-1323531-
B:1249-1301
-
53
1.33ENST0000024590733ENSE00000858111chr19:6684845-668478660CO3_HUMAN1324-1343201-
B:1302-1321
-
20
1.34aENST0000024590734aENSE00001053551chr19:6684661-668457191CO3_HUMAN1344-1374311-
B:1322-1348 (gaps)
-
27
1.35aENST0000024590735aENSE00000858109chr19:6684450-668439952CO3_HUMAN1374-1391181-
B:1360-1369
-
10
1.36bENST0000024590736bENSE00000858108chr19:6682240-668215388CO3_HUMAN1391-1420301-
B:1369-1398
-
30
1.37ENST0000024590737ENSE00000858107chr19:6682041-668195290CO3_HUMAN1421-1450301-
B:1399-1428
-
30
1.38ENST0000024590738ENSE00000858106chr19:6680274-6680169106CO3_HUMAN1451-1486361-
B:1429-1464
-
36
1.40aENST0000024590740aENSE00000858105chr19:6679507-667941890CO3_HUMAN1486-1516311-
B:1464-1494
-
31
1.41aENST0000024590741aENSE00000858104chr19:6679219-667913684CO3_HUMAN1516-1544291-
B:1494-1522 (gaps)
-
29
1.42ENST0000024590742ENSE00000858103chr19:6678466-667838384CO3_HUMAN1544-1572291-
B:1522-1550
-
29
1.43ENST0000024590743ENSE00000858102chr19:6678298-6678163136CO3_HUMAN1572-1617461-
B:1550-1595
-
46
1.44cENST0000024590744cENSE00001159829chr19:6678034-6677846189CO3_HUMAN1617-1663471-
B:1595-1641
-
47

(-) 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:634
 aligned with CO3_HUMAN | P01024 from UniProtKB/Swiss-Prot  Length:1663

    Alignment length:645
                                    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       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652       662     
           CO3_HUMAN     23 SPMYSIITPNILRLESEETMVLEAHDAQGDVPVTVTVHDFPGKKLVLSSEKTVLTPATNHMGNVTFTIPANREFKSEKGRNKFVTVQATFGTQVVEKVVLVSLQSGYLFIQTDKTIYTPGSTVLYRIFTVNHKLLPVGRTVMVNIENPEGIPVKQDSLSSQNQLGVLPLSWDIPELVNMGQWKIRAYYENSPQQVFSTEFEVKEYVLPSFEVIVEPTEKFYYIYNEKGLEVTITARFLYGKKVEGTAFVIFGIQDGEQRISLPESLKRIPIEDGSGEVVLSRKVLLDGVQNPRAEDLVGKSLYVSATVILHSGSDMVQAERSGIPIVTSPYQIHFTKTPKYFKPGMPFDLMVFVTNPDGSPAYRVPVAVQGEDTVQSLTQGDGVAKLSINTHPSQKPLSITVRTKKQELSEAEQATRTMQALPYSTVGNSNNYLHLSVLRTELRPGETLNVNFLLRMDRAHEAKIRYYTYLIMNKGRLLKAGRQVREPGQDLVVLPLSITTDFIPSFRLVAYYTLIGASGQREVVADSVWVDVKDSCVGSLVVKSGQSEDRQPVPGQQMTLKIEGDHGARVVLVAVDKGVFVLNKKNKLTQSKIWDVVEKADIGCTPGSGKDYAGVFSDAGLTFTSSSGQQTAQRAELQCPQPAA  667
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------A2M_N-3l5nA01 A:107-202                                                                         ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A2M_N_2-3l5nA02 A:434-583                                                                                                                             -------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee......................eeeeeeee...........eee................--------.....eeeeeeee..eeeeeeee.........eee...ee....ee.eeee............eee......................ee...ee.......ee..eeeee.......eee..ee.......eeeeeee.............eeeeeeee.......eee.eeeeeee..eeeeeeeeee..ee....eeee..hhhhhh..---........eee....eee.....ee....eeee......eee.............eee..eee...........ee..................eee........eeeeeee...........eeeeee...........eeeee..........ee..eeeee..........eeeeeeee..eeeeeeeee...........ee.......eee.eeeeeee.....eeeeee..eee........eee..............eeee.eee....eeeeeee.............hhhhhhhhhhhh............hhhhhh..eeee.................... Sec.struct. author
             SAPs(SNPs) (1) -------------------------------------------------------------------------------G----------------------------------------------------Q-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------D-------------------------------------------------------------------------------N------------------------------------------Q----------V---------------------------------------------------------------- SAPs(SNPs) (1)
             SAPs(SNPs) (2) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------W--------------------------------------------------------------------------- SAPs(SNPs) (2)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) 1.3----------------------------------------------------------------Exon 1.5  PDB: A:68-123 (gaps) UniProt: 90-145          -----------------------Exon 1.7  PDB: A:147-178        ---------------------------------------------------------Exon 1.11  PDB: A:236-270          Exon 1.12b  PDB: A:271-313 (gaps)          --------------------------------------Exon 1.14b  PDB: A:352-401 UniProt: 374-423       Exon 1.15  PDB: A:402-471 UniProt: 424-493                            Exon 1.16b  PDB: A:472-540 UniProt: 494-562                          Exon 1.17b  PDB: A:541-593 UniProt: 563-615          Exon 1.18  PDB: A:594-637 UniProt: 616-659  -------- Transcript 1 (1)
           Transcript 1 (2) --Exon 1.4  PDB: A:3-67 UniProt: 25-89                             -------------------------------------------------------Exon 1.6a  PDB: A:123-14-------------------------------Exon 1.8b  PDB: A:178-206    ----------------------------------------------------------------------------------------------------------Exon 1.13  PDB: A:313-351              ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.19 Transcript 1 (2)
           Transcript 1 (3) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.9  PDB: A:206-236       ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (3)
                3l5n A    1 SPMYSIITPNILRLESEETMVLEAHDAQGDVPVTVTVHDFPGKKLVLSSEKTVLTPATNHMGNVTFTIP--------KGRNKFVTVQATFGTQVVEKVVLVSLQSGYLFIQTDKTIYTPGSTVLYRIFTVNHKLLPVGRTVMVNIENPEGIPVKQDSLSSQNQLGVLPLSWDIPELVNMGQWKIRAYYENSPQQVFSTEFEVKEYVLPSFEVIVEPTEKFYYIYNEKGLEVTITARFLYGKKVEGTAFVIFGIQDGEQRISLPESLKRIPIEDGSGEVVLSRKVLLDGV---RAEDLVGKSLYVSATVILHSGSDMVQAERSGIPIVTSPYQIHFTKTPKYFKPGMPFDLMVFVTNPDGSPAYRVPVAVQGEDTVQSLTQGDGVAKLSINTHPSQKPLSITVRTKKQELSEAEQATRTMQALPYSTVGNSNNYLHLSVLRTELRPGETLNVNFLLRMDRAHEAKIRYYTYLIMNKGRLLKAGRQVREPGQDLVVLPLSITTDFIPSFRLVAYYTLIGASGQREVVADSVWVDVKDSCVGSLVVKSGQSEDRQPVPGQQMTLKIEGDHGARVVLVAVDKGVFVLNKKNKLTQSKIWDVVEKADIGCTPGSGKDYAGVFSDAGLTFTSSSGQQTAQRAELQCPQPAA  645
                                    10        20        30        40        50        60        |-       |80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280        |-  |    300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640     
                                                                                               69       78                                                                                                                                                                                                                289 293                                                                                                                                                                                                                                                                                                                                                                

Chain B from PDB  Type:PROTEIN  Length:891
 aligned with CO3_HUMAN | P01024 from UniProtKB/Swiss-Prot  Length:1663

    Alignment length:913
                                   760       770       780       790       800       810       820       830       840       850       860       870       880       890       900       910       920       930       940       950       960       970       980       990      1000      1010      1020      1030      1040      1050      1060      1070      1080      1090      1100      1110      1120      1130      1140      1150      1160      1170      1180      1190      1200      1210      1220      1230      1240      1250      1260      1270      1280      1290      1300      1310      1320      1330      1340      1350      1360      1370      1380      1390      1400      1410      1420      1430      1440      1450      1460      1470      1480      1490      1500      1510      1520      1530      1540      1550      1560      1570      1580      1590      1600      1610      1620      1630      1640      1650      1660   
           CO3_HUMAN    751 LDEDIIAEENIVSRSEFPESWLWNVEDLKEPPKNGISTKLMNIFLKDSITTWEILAVSMSDKKGICVADPFEVTVMQDFFIDLRLPYSVVRNEQVEIRAVLYNYRQNQELKVRVELLHNPAFCSLATTKRRHQQTVTIPPKSSLSVPYVIVPLKTGLQEVEVKAAVYHHFISDGVRKSLKVVPEGIRMNKTVAVRTLDPERLGREGVQKEDIPPADLSDQVPDTESETRILLQGTPVAQMTEDAVDAERLKHLIVTPSGCGEQNMIGMTPTVIAVHYLDETEQWEKFGLEKRQGALELIKKGYTQQLAFRQPSSAFAAFVKRAPSTWLTAYVVKVFSLAVNLIAIDSQVLCGAVKWLILEKQKPDGVFQEDAPVIHQEMIGGLRNNNEKDMALTAFVLISLQEAKDICEEQVNSLPGSITKAGDFLEANYMNLQRSYTVAIAGYALAQMGRLKGPLLNKFLTTAKDKNRWEDPGKQLYNVEATSYALLALLQLKDFDFVPPVVRWLNEQRYYGGGYGSTQATFMVFQALAQYQKDAPDHQELNLDVSLQLPSRSSKITHRIHWESASLLRSEETKENEGFTVTAEGKGQGTLSVVTMYHAKAKDQLTCNKFDLKVTIKPAPETEKRPQDAKNTMILEICTRYRGDQDATMSILDISMMTGFAPDTDDLKQLANGVDRYISKYELDKAFSDRNTLIIYLDKVSHSEDDCLAFKVHQYFNVELIQPGAVKVYAYYNLEESCTRFYHPEKEDGKLNKLCRDELCRCAEENCFIQKSDDKVTLEERLDKACEPGVDYVYKTRLVKVQLSNDFDEYIMAIEQTIKSGSDEVQVGQQRTFISPIKCREALKLEEKKHYLMWGLSSDFWGEKPNLSYIIGKDTWVEHWPEEDECQDEENQKQCQDLGAFTESMVVFGCPN 1663
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------A2M-3l5nB02 B:748-844                                                                            ------------------------------------------------------------------------------------------------------------------------------------Thiol-ester_cl-3l5nB05         ---------------------A2M_comp-3l5n    B01 B:1029-1262                                                                                                                                                                                                          ------------------------------------------------------------------     ---------------           ----------------A2M_recep-3l5nB04 B:1376-1471                                                                   ---------------------------  -----------NTR-3l5nB03 B:1512-1622                                                                                        ------------------- Pfam domains
         Sec.struct. author ...................eeeeee...........ee..eeee......ee...eeee.....eee.....ee.......eee.............eee.........ee..eee...............ee...ee.................ee..eeeeee......eeeeee..ee.....ee..eeeeeee...........eeee..............eeeeeeee...........................hhhhhhhhhhhhhhhhhhh..hhhhhh.hhhhhh.....hhhhhhhhh....----................................................................................................hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh......hhhhhh....eehhhee........hhhhhhhhhhhhhhh....hhhhhhhhhh............hhhhhhhhhhhhhhhhh..........eee.......ee.............eee.....eeee......eeeeeeeeee.-----.....eeeeeeeee.-----------..eeeeeeeee........eeeeee....................ee.hhhhh........eee.ee........ee..eee............eeeeee.......eee.............eee..eee........--.....hhhhhhhhh....eeeeeeeeeeeeee...eeeeeeeeeeeee..........eeeeeee.hhh.........eeeeeee.hhh........ee.....eeeee..........hhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------K----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------L---------------------------------------------------V--------------------N------------------------------------------W--K------------------------------------------------------N-------D----------------------------------------------------------------------------------------------------------------------------------------------T------------------------------------------------------------------------------------------------D----------------------------------------------------------------------------------------------------------------------------------------N-----------------R-------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ALPHA_2_M----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------NTR  PDB: B:1496-1639 UniProt: 1518-1661                                                                                                        -- PROSITE
           Transcript 1 (1) ----------------------------------Exon 1.22  PDB: B:763-792     -----------------------------------------------Exon 1.23d  PDB: B:840-910 UniProt: 862-932                            Exon 1.24b             ----------------------------Exon 1.26  PDB: B:962-1030 UniProt: 984-1052                         ------------------------Exon 1.28c  PDB: B:1055-1108 UniProt: 1077-1130       Exon 1.29  PDB: B:1109-1141      Exon 1.31a  PDB: B:1142-1194 UniProt: 1164-1216      ------------------------------------------------------Exon 1.32  PDB: B:1249-1301 UniProt: 1271-1323       Exon 1.33           Exon 1.34a UniProt: 1344-1374  ----------------Exon 1.36b  PDB: B:1369-1398  Exon 1.37  PDB: B:1399-1428   Exon 1.38  PDB: B:1429-1464         -----------------------------Exon 1.41a UniProt: 1516-1544---------------------------Exon 1.43  PDB: B:1550-1595 UniProt: 1572-1617---------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) Exon 1.21c  PDB: B:729-763         ----------------------------Exon 1.23b  PDB: B:792-839 UniProt: 814-861     ---------------------------------------------------------------------------------------------Exon 1.25  PDB: B:933-962     -------------------------------------------------------------------Exon 1.27                 ------------------------------------------------------------------------------------------------------------------------------------------Exon 1.31d  PDB: B:1194-1248 UniProt: 1216-1270        -------------------------------------------------------------------------------------------------------Exon 1.35a        ----------------------------------------------------------------------------------------------Exon 1.40a  PDB: B:1464-1494   ---------------------------Exon 1.42  PDB: B:1522-1550  --------------------------------------------Exon 1.44c  PDB: B:1595-1641 UniProt: 1617-1663 Transcript 1 (2)
           Transcript 1 (3) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (3)
                3l5n B  729 LDEDIIAEENIVSRSEFPESWLWNVEDLKEPPKNGISTKLMNIFLKDSITTWEILAVSMSDKKGICVADPFEVTVMQDFFIDLRLPYSVVRNEQVEIRAVLYNYRQNQELKVRVELLHNPAFCSLATTKRRHQQTVTIPPKSSLSVPYVIVPLKTGLQEVEVKAAVYHHFISDGVRKSLKVVPEGIRMNKTVAVRTLDPERLGREGVQKEDIPPADLSDQVPDTESETRILLQGTPVAQMTEDAVDAERLKHLIVTPSGCGEQNMIGMTPTVIAVHYLDETEQWEKFGLEKRQGALELIKKGYTQQLAFRQPS----AFVKRAPSTWLTAYVVKVFSLAVNLIAIDSQVLCGAVKWLILEKQKPDGVFQEDAPVIHQEMIGGLRNNNEKDMALTAFVLISLQEAKDICEEQVNSLPGSITKAGDFLEANYMNLQRSYTVAIAGYALAQMGRLKGPLLNKFLTTAKDKNRWEDPGKQLYNVEATSYALLALLQLKDFDFVPPVVRWLNEQRYYGGGYGSTQATFMVFQALAQYQKDAPDHQELNLDVSLQLPSRSSKITHRIHWESASLLRSEETKENEGFTVTAEGKGQGTLSVVTMYHA-----LTCNKFDLKVTIKPA-----------NTMILEICTRYRGDQDATMSILDISMMTGFAPDTDDLKQLANGVDRYISKYELDKAFSDRNTLIIYLDKVSHSEDDCLAFKVHQYFNVELIQPGAVKVYAYYNLEESCTRFYHPEKEDGKLNKLCRDELCRCAEENCFI--SDDKVTLEERLDKACEPGVDYVYKTRLVKVQLSNDFDEYIMAIEQTIKSGSDEVQVGQQRTFISPIKCREALKLEEKKHYLMWGLSSDFWGEKPNLSYIIGKDTWVEHWPEEDECQDEENQKQCQDLGAFTESMVVFGCPN 1641
                                   738       748       758       768       778       788       798       808       818       828       838       848       858       868       878       888       898       908       918       928       938       948       958       968       978       988       998      1008      1018      1028      1038  |   1048      1058      1068      1078      1088      1098      1108      1118      1128      1138      1148      1158      1168      1178      1188      1198      1208      1218      1228      1238      1248      1258      1268      1278      1288      1298      1308      1318      1328     |1338      1348         - |    1368      1378      1388      1398      1408      1418      1428      1438      1448      1458      1468      1478      1488      1498  |   1508      1518      1528      1538      1548      1558      1568      1578      1588      1598      1608      1618      1628      1638   
                                                                                                                                                                                                                                                                                                                                                 1041 1046                                                                                                                                                                                                                                                                                      1328  1334          1348        1360                                                                                                                                      1498  |                                                                                                                                            
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             1501                                                                                                                                            

Chain M from PDB  Type:PROTEIN  Length:84
 aligned with SCIN_STAAM | Q931M7 from UniProtKB/Swiss-Prot  Length:116

    Alignment length:84
                                    42        52        62        72        82        92       102       112    
          SCIN_STAAM     33 TSLPTSNEYQNEKLANELKSLLDELNVNELATGSLNTYYKRTIKISGQKAMYALKSKDFKKMSEAKYQLQKIYNEIDEALKSKY  116
               SCOP domains ------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------ CATH domains
               Pfam domains CompInhib_SCIN-3l5nM01 M:2-83                                                     -- Pfam domains
         Sec.struct. author .................................................................................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------ Transcript
                3l5n M    2 TSLPTSNEYQNEKLANELKSLLDELNVNELATGSLNTYYKRTIKISGQKAMYALKSKDFKKMSEAKYQLQKIYNEIDEALKSKY   85
                                    11        21        31        41        51        61        71        81    

   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  (0, 0)

(no "SCOP Domain" information available for 3L5N)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3L5N)

(-) Pfam Domains  (8, 8)

Asymmetric/Biological Unit
(-)
Clan: 6_Hairpin (120)
(-)
Clan: E-set (290)
(-)
Clan: Ig (577)
(-)
Family: A2M (13)
(-)
Family: NTR (13)
4aNTR-3l5nB03B:1512-1622

(-) Gene Ontology  (48, 49)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (CO3_HUMAN | P01024)
molecular function
    GO:0031715    C5L2 anaphylatoxin chemotactic receptor binding    Interacting selectively and non-covalently with a C5L2 anaphylatoxin chemotactic receptor.
    GO:0048037    cofactor binding    Interacting selectively and non-covalently with a cofactor, a substance that is required for the activity of an enzyme or other protein. Cofactors may be inorganic, such as the metal atoms zinc, iron, and copper in certain forms, or organic, in which case they are referred to as coenzymes. Cofactors may either be bound tightly to active sites or bind loosely with the substrate.
    GO:0004866    endopeptidase inhibitor activity    Stops, prevents or reduces the activity of an endopeptidase, any enzyme that hydrolyzes nonterminal peptide bonds in polypeptides.
    GO:0008289    lipid binding    Interacting selectively and non-covalently with a lipid.
    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: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:0004252    serine-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
biological process
    GO:0007186    G-protein coupled receptor signaling pathway    A series of molecular signals that proceeds with an activated receptor promoting the exchange of GDP for GTP on the alpha-subunit of an associated heterotrimeric G-protein complex. The GTP-bound activated alpha-G-protein then dissociates from the beta- and gamma-subunits to further transmit the signal within the cell. The pathway begins with receptor-ligand interaction, or for basal GPCR signaling the pathway begins with the receptor activating its G protein in the absence of an agonist, and ends with regulation of a downstream cellular process, e.g. transcription. The pathway can start from the plasma membrane, Golgi or nuclear membrane (PMID:24568158 and PMID:16902576).
    GO:0007596    blood coagulation    The sequential process in which the multiple coagulation factors of the blood interact, ultimately resulting in the formation of an insoluble fibrin clot; it may be divided into three stages: stage 1, the formation of intrinsic and extrinsic prothrombin converting principle; stage 2, the formation of thrombin; stage 3, the formation of stable fibrin polymers.
    GO:0006956    complement activation    Any process involved in the activation of any of the steps of the complement cascade, which allows for the direct killing of microbes, the disposal of immune complexes, and the regulation of other immune processes; the initial steps of complement activation involve one of three pathways, the classical pathway, the alternative pathway, and the lectin pathway, all of which lead to the terminal complement pathway.
    GO:0006957    complement activation, alternative pathway    Any process involved in the activation of any of the steps of the alternative pathway of the complement cascade which allows for the direct killing of microbes and the regulation of other immune processes.
    GO:0006958    complement activation, classical pathway    Any process involved in the activation of any of the steps of the classical pathway of the complement cascade which allows for the direct killing of microbes, the disposal of immune complexes, and the regulation of other immune processes.
    GO:0006631    fatty acid metabolic process    The chemical reactions and pathways involving fatty acids, aliphatic monocarboxylic acids liberated from naturally occurring fats and oils by hydrolysis.
    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:0002376    immune system process    Any process involved in the development or functioning of the immune system, an organismal system for calibrated responses to potential internal or invasive threats.
    GO:0006954    inflammatory response    The immediate defensive reaction (by vertebrate tissue) to infection or injury caused by chemical or physical agents. The process is characterized by local vasodilation, extravasation of plasma into intercellular spaces and accumulation of white blood cells and macrophages.
    GO:0045087    innate immune response    Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens.
    GO:0006629    lipid metabolic process    The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.
    GO:0010951    negative regulation of endopeptidase activity    Any process that decreases the frequency, rate or extent of endopeptidase activity, the endohydrolysis of peptide bonds within proteins.
    GO:0070374    positive regulation of ERK1 and ERK2 cascade    Any process that activates or increases the frequency, rate or extent of signal transduction mediated by the ERK1 and ERK2 cascade.
    GO:0045745    positive regulation of G-protein coupled receptor protein signaling pathway    Any process that activates or increases the frequency, rate or extent of G-protein coupled receptor protein signaling pathway activity.
    GO:0001970    positive regulation of activation of membrane attack complex    Any process that activates, maintains or increases the frequency, rate or extent of the activation of the membrane attack complex components of the complement cascade.
    GO:0045766    positive regulation of angiogenesis    Any process that activates or increases angiogenesis.
    GO:2000427    positive regulation of apoptotic cell clearance    Any process that activates or increases the frequency, rate or extent of apoptotic cell clearance.
    GO:0048639    positive regulation of developmental growth    Any process that activates, maintains or increases the rate of developmental growth.
    GO:0010828    positive regulation of glucose transport    Any process that increases the frequency, rate or extent of glucose transport. Glucose transport is the directed movement of the hexose monosaccharide glucose into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0010884    positive regulation of lipid storage    Any process that increases the rate, frequency or extent of lipid storage. Lipid storage is the accumulation and maintenance in cells or tissues of lipids, compounds soluble in organic solvents but insoluble or sparingly soluble in aqueous solvents. Lipid reserves can be accumulated during early developmental stages for mobilization and utilization at later stages of development.
    GO:0050766    positive regulation of phagocytosis    Any process that activates or increases the frequency, rate or extent of phagocytosis.
    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:0001798    positive regulation of type IIa hypersensitivity    Any process that activates or increases the frequency, rate or extent of type IIa hypersensitivity, a type of inflammatory response.
    GO:0010575    positive regulation of vascular endothelial growth factor production    Any process that increases or activates the frequency, rate, or extent of production of vascular endothelial growth factor.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
    GO:0030449    regulation of complement activation    Any process that modulates the frequency, rate or extent of complement activation.
    GO:0050776    regulation of immune response    Any process that modulates the frequency, rate or extent of the immune response, the immunological reaction of an organism to an immunogenic stimulus.
    GO:0010866    regulation of triglyceride biosynthetic process    Any process that modulates the rate, frequency, or extent of triglyceride biosynthesis. Triglyceride biosynthesis is the collection of chemical reactions and pathways resulting in the formation of triglyceride, any triester of glycerol.
    GO:0032355    response to estradiol    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of stimulus by estradiol, a C18 steroid hormone hydroxylated at C3 and C17 that acts as a potent estrogen.
    GO:0043627    response to estrogen    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of stimulus by an estrogen, C18 steroid hormones that can stimulate the development of female sexual characteristics.
    GO:0051384    response to glucocorticoid    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a glucocorticoid stimulus. Glucocorticoids are hormonal C21 corticosteroids synthesized from cholesterol with the ability to bind with the cortisol receptor and trigger similar effects. Glucocorticoids act primarily on carbohydrate and protein metabolism, and have anti-inflammatory effects.
    GO:0032026    response to magnesium ion    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a magnesium ion stimulus.
    GO:0032570    response to progesterone    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a progesterone stimulus.
    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.
    GO:0002507    tolerance induction    A process that directly activates any of the steps required for tolerance, a physiologic state in which the immune system does not react destructively against the components of an organism that harbors it or against antigens that are introduced to it.
cellular component
    GO:0072562    blood microparticle    A phospholipid microvesicle that is derived from any of several cell types, such as platelets, blood cells, endothelial cells, or others, and contains membrane receptors as well as other proteins characteristic of the parental cell. Microparticles are heterogeneous in size, and are characterized as microvesicles free of nucleic acids.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    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: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.

Chain M   (SCIN_STAAM | Q931M7)
biological process
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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 Related Entries

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

UniProtKB/Swiss-Prot
        CO3_HUMAN | P010241c3d 1ghq 1w2s 2a73 2a74 2gox 2i07 2ice 2icf 2noj 2qki 2wii 2win 2wy7 2wy8 2xqw 2xwb 2xwj 3d5r 3d5s 3g6j 3l3o 3nms 3oed 3ohx 3oxu 3rj3 3t4a 4hw5 4hwj 4i6o 4m76 4ont 4zh1 5fo7 5fo8 5fo9 5foa 5fob 5m6w 5o32 5o35
        SCIN_STAAM | Q931M73l3o 3nms 3ohx

(-) Related Entries Specified in the PDB File

3l3o STAPHYLOCCOCAL COMPLEMENT INHIBITOR (SCIN) IN COMPLEX WITH HUMAN COMPLEMENT COMPONENT C3C