RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10169
(390 letters)
>1w0r_A Properdin, factor P; X-RAY scattering, analytical
ultracentrifugation, complement, thrombospondin type I
repeats, constrained modelling; NMR {Homo sapiens} PDB:
1w0s_A
Length = 442
Score = 94.3 bits (234), Expect = 2e-21
Identities = 39/267 (14%), Positives = 64/267 (23%), Gaps = 31/267 (11%)
Query: 73 CDHLCGDGKQKRSVKCYREDKDG-HREVVPDSACNEEKPESEKPCNLRPCE--GVDWLTS 129
C C G + R+ + P C E + L PC G
Sbjct: 178 CSASCHGGPHEPKETRSRKCSAPEPSQKPPGKPCPGLAYEQRRCTGLPPCPVAGGWGPWG 237
Query: 130 EWTGCDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPCEGVDWLT 189
+ C CG G+ C + C + + PC
Sbjct: 238 PVSPCPVTCGLGQTMEQRTC-----NHPVPQHGGPFCAGDATRTHICNTAVPCPVDGEWD 292
Query: 190 --SEWTGCEEKCGSSLETRTAVCATK-----NGKIYPESFCLKAKTPELQRECESPPPCE 242
EW+ C + S+ + G+ + C + P +
Sbjct: 293 SWGEWSPCIRRNMKSISCQEIPGQQSRGRTCRGRKFDGHRCAGQQQDIRHCYSIQHCPLK 352
Query: 243 HQWYA-TQWSKCSAKCGTG-IQTRKVFCGALDGESIKKVDDSKCDPELKYNATKNCTSSQ 300
W + W C CG + R+ C L + V
Sbjct: 353 GSWSEWSTWGLCMPPCGPNPTRARQRLCTPLLPKYPPTVSM--------------VEGQG 398
Query: 301 VCKGHWMSGPWSKCSKTYGGGTMVSRT 327
+ P +C + G +V
Sbjct: 399 EKNVTFWGRPLPRCEELQGQKLVVEEK 425
Score = 89.7 bits (222), Expect = 8e-20
Identities = 53/306 (17%), Positives = 70/306 (22%), Gaps = 35/306 (11%)
Query: 73 CDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPCEGVDWLTSEWT 132
C L G G + + S C L S W
Sbjct: 16 CKGLLGGGVSVEDC--------------CLNTAFAYQKRSGGLCQPCRS-PRWSLWSTWA 60
Query: 133 GCDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPCEGVDWLTSE- 191
C C +G Q R +C G + C + C S
Sbjct: 61 PCSVTCSEGSQLRYRRC-----VGWNGQCSGKVAPGTLEWQLQACEDQQCCPEMGGWSGW 115
Query: 192 --WTGCEEKCGSSLETRTAVCATKNGKIYPESFCLKAKTPELQRECESPPPCEHQWYATQ 249
W C C TR C P+ + C++ C
Sbjct: 116 GPWEPCSVTCSKGTRTRRRACNHPA----PKCGGHCPGQAQESEACDTQQVCPTHGAWAT 171
Query: 250 ---WSKCSAKCGTGIQTRKVFCGALDGESIKKVDDSKCDPELKYNATKNCTSSQVCKGHW 306
W+ CSA C G K + CT C
Sbjct: 172 WGPWTPCSASCHGGPHEPKETRSRKCSAPEPSQKPPGKPCPGLAYEQRRCTGLPPCPVAG 231
Query: 307 MS---GPWSKCSKTYGGGTMVSRTARDEVIPVEPTGKVAEADEEEECEEEEEEGEETVNN 363
GP S C T G G + + R PV G A + V+
Sbjct: 232 GWGPWGPVSPCPVTCGLGQTMEQ--RTCNHPVPQHGGPFCAGDATRTHICNTAVPCPVDG 289
Query: 364 DTDEWT 369
+ D W
Sbjct: 290 EWDSWG 295
Score = 75.4 bits (185), Expect = 4e-15
Identities = 43/242 (17%), Positives = 61/242 (25%), Gaps = 28/242 (11%)
Query: 120 PCEGVDWLTSEWTGCDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNL 179
P C L G G + + S C
Sbjct: 2 PVLCFTQYEESSGKCKGLLGGGVSVEDC--------------CLNTAFAYQKRSGGLCQP 47
Query: 180 RPCEGVDWLTSEWTGCEEKCGSSLETRTAVCATKNGKIYPESFCLKAKTPELQRECESPP 239
L S W C C + R C NG+ +LQ +
Sbjct: 48 CRS-PRWSLWSTWAPCSVTCSEGSQLRYRRCVGWNGQ-CSGKVAPGTLEWQLQACEDQQC 105
Query: 240 PCEH-QWYA-TQWSKCSAKCGTGIQTRKVFCGALDGESIKKVDDSKCDPELKYNATKNCT 297
E W W CS C G +TR+ C C + + ++ C
Sbjct: 106 CPEMGGWSGWGPWEPCSVTCSKGTRTRRRAC-----NHPAPKCGGHCPGQAQ--ESEACD 158
Query: 298 SSQVCKGHWMS---GPWSKCSKTYGGGTMVSRTARDEVIPVEPTGKVAEADEEEECEEEE 354
+ QVC H GPW+ CS + GG + R + E+
Sbjct: 159 TQQVCPTHGAWATWGPWTPCSASCHGGPHEPKETRSRKCSAPEPSQKPPGKPCPGLAYEQ 218
Query: 355 EE 356
Sbjct: 219 RR 220
>3t5o_A Complement component C6; macpf, MAC, membrane attack complex,
innate IMMU system, blood, membrane, cytolysin, immune
SYST; HET: NAG FUL FUC BGC MAN; 2.87A {Homo sapiens}
PDB: 4a5w_B* 4e0s_B*
Length = 913
Score = 53.0 bits (126), Expect = 1e-07
Identities = 23/141 (16%), Positives = 39/141 (27%), Gaps = 20/141 (14%)
Query: 73 CDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESE-KPCNLRPCEGVDWLT--S 129
C C G Q R + + ++ C + + E + CN + C L
Sbjct: 14 CSKTCNSGTQSRHRQIVVDKYYQ------ENFCEQICSKQETRECNWQRCPINCLLGDFG 67
Query: 130 EWTGCDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPCEGVDWLT 189
W+ CD KQ + R + G + C + + C+ +
Sbjct: 68 PWSDCDPCI--EKQSKVRSVLRPSQFGGQ------PCTAPLVAFQPCIPSKLCKIEEADC 119
Query: 190 SEWTGCEEKCGSSLETRTAVC 210
C R C
Sbjct: 120 KNKFRC---DSGRCIARKLEC 137
Score = 52.6 bits (125), Expect = 1e-07
Identities = 31/185 (16%), Positives = 54/185 (29%), Gaps = 18/185 (9%)
Query: 121 CEGVDWLTSEWTGCDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESE-KPCNL 179
C+ W ++WT C C G Q R + + ++ C + + E + CN
Sbjct: 3 CDHYAW--TQWTSCSKTCNSGTQSRHRQIVVDKYYQ------ENFCEQICSKQETRECNW 54
Query: 180 RPCEGVDWLT--SEWTGCEEKCGSSLETRTAVCATKNGKIYPESFCLKAKTPELQRECES 237
+ C L W+ C+ + R+ + ++ G C A Q S
Sbjct: 55 QRCPINCLLGDFGPWSDCDPCIEKQSKVRSVLRPSQFG----GQPC-TAPLVAFQPCIPS 109
Query: 238 PPPCEHQWYATQWSKCSAKCGTGIQTRKVFCGALDGESIKKVDDSKCDPELKYNATKNCT 297
+ +K G I + G D D +
Sbjct: 110 KLCKIEEA--DCKNKFRCDSGRCIARKLECNGENDCGDNSDERDCGRTKAVCTRKYNPIP 167
Query: 298 SSQVC 302
S Q+
Sbjct: 168 SVQLM 172
Score = 46.4 bits (109), Expect = 1e-05
Identities = 21/85 (24%), Positives = 31/85 (36%), Gaps = 8/85 (9%)
Query: 241 CEHQWYA-TQWSKCSAKCGTGIQTRKVFCGALDGESIKKVDDSKCDPELKYNATKNCTSS 299
C YA TQW+ CS C +G Q+R K ++ C+ T+ C
Sbjct: 1 CFCDHYAWTQWTSCSKTCNSGTQSRHRQI-----VVDKYYQENFCEQICSKQETRECNWQ 55
Query: 300 QVCKGHWMS--GPWSKCSKTYGGGT 322
+ + GPWS C +
Sbjct: 56 RCPINCLLGDFGPWSDCDPCIEKQS 80
Score = 33.7 bits (76), Expect = 0.11
Identities = 17/125 (13%), Positives = 32/125 (25%), Gaps = 14/125 (11%)
Query: 73 CDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPCEGVDWLTSEWT 132
CD KQ + R + G + C + + C+ +
Sbjct: 72 CDPCIE--KQSKVRSVLRPSQFGGQ------PCTAPLVAFQPCIPSKLCKIEEADCKNKF 123
Query: 133 GCDHLCGDGKQKRSVKCY--REDKDGHREVVPDSACNEEKPESEKPCNLRPC-EGVDWLT 189
C R ++C + D E + +++ G +L
Sbjct: 124 RC---DSGRCIARKLECNGENDCGDNSDERDCGRTKAVCTRKYNPIPSVQLMGNGFHFLA 180
Query: 190 SEWTG 194
E G
Sbjct: 181 GEPRG 185
Score = 32.5 bits (73), Expect = 0.28
Identities = 20/154 (12%), Positives = 33/154 (21%), Gaps = 7/154 (4%)
Query: 117 NLRPCEGVDWLTSEWTGCDHLCGDGKQKRSVKCYR-EDKDGHREVVPDSACNEEKPESEK 175
+ C+G W + C + + K E + S + SE
Sbjct: 721 SRYTCQGNSW--TPPISNSLTCEKDTLTKLKGHCQLGQKQSGSECICMSPEEDCSHHSED 778
Query: 176 PCNLRPCEGVDWLTSEWTGCEEKCGSSLETRTAVCATKNGKIYPESFCLKAKTPELQREC 235
C + C+ L + + L
Sbjct: 779 LC---VFDTDSNDYFTSPACKFLAEKCLNNQQLHFLHIGSCQDGRQLEWGLERTRLSSNS 835
Query: 236 ESPPPCEHQWYATQWSKCSAKCGTGIQTRKVFCG 269
C + W KCSA + C
Sbjct: 836 TKKESCGYD-TCYDWEKCSASTSKCVCLLPPQCF 868
Score = 30.2 bits (67), Expect = 1.5
Identities = 19/165 (11%), Positives = 36/165 (21%), Gaps = 9/165 (5%)
Query: 73 CDHLCGDGKQKRSVKCYR-EDKDGHREVVPDSACNEEKPESEKPCNLRPCEGVDWLTSEW 131
C + + K E + S + SE C + +
Sbjct: 736 NSLTCEKDTLTKLKGHCQLGQKQSGSECICMSPEEDCSHHSEDLCVFDTDSNDYFTSPAC 795
Query: 132 TGCDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPCEGVDWLTSE 191
C + +Q + E + ++ C C +
Sbjct: 796 KFLAEKCLNNQQLHFLHIGSCQDGRQLEWGLERTRLSSNSTKKESCGYDTC-------YD 848
Query: 192 WTGCEEKCGSSLETRTAVCATKNGKIYPESFCLKAKTPELQRECE 236
W C + C K G + + + CE
Sbjct: 849 WEKCSASTSKCVCLLPPQC-FKGGNQLYCVKMGSSTSEKTLNICE 892
>3r6b_A Thrombospondin-1; cell adhesion, disulfide bond, EGF-like domain,
TSP-1 type 1; 2.40A {Homo sapiens}
Length = 153
Score = 41.6 bits (98), Expect = 9e-05
Identities = 30/146 (20%), Positives = 45/146 (30%), Gaps = 18/146 (12%)
Query: 129 SEWTGCDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPCEGVD-- 186
S W+ C CGDG R C + + C E E+ K C C ++
Sbjct: 18 SPWSSCSVTCGDGVITRIRLC-----NSPSPQMNGKPCEGEARET-KACKKDACP-INGG 70
Query: 187 ---WLTSEWTGCEEKCGSSLETRTAVCATKNGKIYPESFCLKAKTPELQRECESPP-PCE 242
W S W C CG ++ R+ +C + C+ T + C P E
Sbjct: 71 WGPW--SPWDICSVTCGGGVQKRSRLC-NNPTPQFGGKDCVGDVT--ENQICNKQDCPLE 125
Query: 243 HQWYATQWSKCSAKCGTGIQTRKVFC 268
Y ++ F
Sbjct: 126 PYTYRVRFLAKENVTQDAEDNTVSFL 151
Score = 40.1 bits (94), Expect = 3e-04
Identities = 26/96 (27%), Positives = 36/96 (37%), Gaps = 10/96 (10%)
Query: 235 CESPPPCEH-QWYA-TQWSKCSAKCGTGIQTRKVFCGALDGESIKKVDDSKCDPELKYNA 292
+ + W + WS CS CG G+ TR C + +++ C+ E +
Sbjct: 3 MDPEFELQDGGWSHWSPWSSCSVTCGDGVITRIRLCNS----PSPQMNGKPCEGEAR--E 56
Query: 293 TKNCTSSQ-VCKGHWMS-GPWSKCSKTYGGGTMVSR 326
TK C G W PW CS T GGG
Sbjct: 57 TKACKKDACPINGGWGPWSPWDICSVTCGGGVQKRS 92
Score = 38.9 bits (91), Expect = 6e-04
Identities = 32/141 (22%), Positives = 45/141 (31%), Gaps = 23/141 (16%)
Query: 73 CDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPCEGVD-----WL 127
C CGDG R C + + C E E+ K C C ++ W
Sbjct: 23 CSVTCGDGVITRIRLC-----NSPSPQMNGKPCEGEARET-KACKKDACP-INGGWGPW- 74
Query: 128 TSEWTGCDHLCGDGKQKRSVKCYR-EDKDGHREVVPDSACNEEKPESEKPCNLRPC-EGV 185
S W C CG G QKRS C + G C + E+ + CN + C
Sbjct: 75 -SPWDICSVTCGGGVQKRSRLCNNPTPQFG------GKDCVGDVTEN-QICNKQDCPLEP 126
Query: 186 DWLTSEWTGCEEKCGSSLETR 206
+ E + +
Sbjct: 127 YTYRVRFLAKENVTQDAEDNT 147
>3ghm_A A disintegrin and metalloproteinase with thrombos motifs 13;
thrombospondin type-1 motif, beta sandwich, hydrolase;
HET: NAG FUC BGC; 2.60A {Homo sapiens} PDB: 3ghn_A*
Length = 410
Score = 41.5 bits (96), Expect = 3e-04
Identities = 13/61 (21%), Positives = 16/61 (26%), Gaps = 7/61 (11%)
Query: 17 AIRNMSGHYYLNGNWRIDYPK--PLWFAGTVFYYERNTFY----APESISALGPTTEPLY 70
A+R G Y + G I P Y E I GP E
Sbjct: 312 AVRIG-GRYVVAGKMSISPNTTYPSLLEDGRVEYRVALTEDRLPRLEEIRIWGPLQEDAD 370
Query: 71 V 71
+
Sbjct: 371 I 371
Score = 29.9 bits (66), Expect = 1.5
Identities = 20/138 (14%), Positives = 33/138 (23%), Gaps = 7/138 (5%)
Query: 129 SEWTGCDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPCEGVDWL 188
+ C CG G R +C AC + + CN + CE L
Sbjct: 107 GPRSPCSRSCGGGVVTRRRQCNNPRPAF-----GGRACVGADLQ-AEMCNTQACEK-TQL 159
Query: 189 TSEWTGCEEKCGSSLETRTAVCATKNGKIYPESFCLKAKTPELQRECESPPPCEHQWYAT 248
C G L + + + A + R +
Sbjct: 160 EFMSQQCARTDGQPLRSSPGGASFYHWGAAVPHSQGDALCRHMCRAIGESFIMKRGDSFL 219
Query: 249 QWSKCSAKCGTGIQTRKV 266
++C T +
Sbjct: 220 DGTRCMPSGPREDGTLSL 237
Score = 27.6 bits (60), Expect = 8.2
Identities = 16/77 (20%), Positives = 24/77 (31%), Gaps = 3/77 (3%)
Query: 195 CEEKCGSSLETRTAVCATKNGKI-YPESFCLKAKTPELQRECESPPPCEHQWYA-TQWSK 252
C + +G E +C K + L +W + S
Sbjct: 53 CHTDPLDQSSCSRLLVPLLDGTECGVEKWCSKGRCRSLVELTP-IAAVHGRWSSWGPRSP 111
Query: 253 CSAKCGTGIQTRKVFCG 269
CS CG G+ TR+ C
Sbjct: 112 CSRSCGGGVVTRRRQCN 128
>1lsl_A Thrombospondin 1; TSP-1, TSR, cell adhesion; HET: FUL FUC; 1.90A
{Homo sapiens} SCOP: g.60.1.1 g.60.1.1
Length = 113
Score = 38.6 bits (90), Expect = 4e-04
Identities = 21/80 (26%), Positives = 31/80 (38%), Gaps = 3/80 (3%)
Query: 190 SEWTGCEEKCGSSLETRTAVCATKNGKIYPESFCLKAKTPELQRECESPPPCEHQWYA-T 248
S W+ C CG + TR +C + + + C E + + P W +
Sbjct: 9 SPWSSCSVTCGDGVITRIRLCNSPSPQ-MNGKPCEGEAR-ETKACKKDACPINGGWGPWS 66
Query: 249 QWSKCSAKCGTGIQTRKVFC 268
W CS CG G+Q R C
Sbjct: 67 PWDICSVTCGGGVQKRSRLC 86
Score = 38.6 bits (90), Expect = 4e-04
Identities = 21/77 (27%), Positives = 31/77 (40%), Gaps = 4/77 (5%)
Query: 248 TQWSKCSAKCGTGIQTRKVFCGALDGESIKKVDDSKCDPELKYNATKNCTSSQVCKGHWM 307
+ WS CS CG G+ TR C + +++ C+ E + + + G
Sbjct: 9 SPWSSCSVTCGDGVITRIRLCNS----PSPQMNGKPCEGEARETKACKKDACPINGGWGP 64
Query: 308 SGPWSKCSKTYGGGTMV 324
PW CS T GGG
Sbjct: 65 WSPWDICSVTCGGGVQK 81
Score = 37.8 bits (88), Expect = 8e-04
Identities = 23/84 (27%), Positives = 31/84 (36%), Gaps = 8/84 (9%)
Query: 129 SEWTGCDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPC--EGVD 186
S W+ C CGDG R C + + C E E+ K C C G
Sbjct: 9 SPWSSCSVTCGDGVITRIRLC-----NSPSPQMNGKPCEGEARET-KACKKDACPINGGW 62
Query: 187 WLTSEWTGCEEKCGSSLETRTAVC 210
S W C CG ++ R+ +C
Sbjct: 63 GPWSPWDICSVTCGGGVQKRSRLC 86
Score = 36.3 bits (84), Expect = 0.003
Identities = 30/112 (26%), Positives = 38/112 (33%), Gaps = 14/112 (12%)
Query: 73 CDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPC--EGVDWLTSE 130
C CGDG R C + + C E E+ K C C G S
Sbjct: 14 CSVTCGDGVITRIRLC-----NSPSPQMNGKPCEGEARET-KACKKDACPINGGWGPWSP 67
Query: 131 WTGCDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPC 182
W C CG G QKRS C + C + E+ + CN + C
Sbjct: 68 WDICSVTCGGGVQKRSRLC-----NNPTPQFGGKDCVGDVTEN-QICNKQDC 113
>1vex_A F-spondin; TSR, cell adhesion; NMR {Rattus norvegicus}
Length = 56
Score = 33.5 bits (77), Expect = 0.008
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 9/54 (16%)
Query: 129 SEWTGCDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPC 182
SEW+ C CG G + R + G CNE+ ++E C L C
Sbjct: 11 SEWSDCSVTCGKGMRTRQRMLKSLAELGD--------CNEDLEQAE-KCMLPEC 55
Score = 33.5 bits (77), Expect = 0.008
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 248 TQWSKCSAKCGTGIQTRKVFC 268
++WS CS CG G++TR+
Sbjct: 11 SEWSDCSVTCGKGMRTRQRML 31
Score = 26.9 bits (60), Expect = 1.9
Identities = 13/49 (26%), Positives = 18/49 (36%), Gaps = 9/49 (18%)
Query: 73 CDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPC 121
C CG G + R + G CNE+ ++E C L C
Sbjct: 16 CSVTCGKGMRTRQRMLKSLAELGD--------CNEDLEQAE-KCMLPEC 55
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 34.2 bits (77), Expect = 0.027
Identities = 9/28 (32%), Positives = 13/28 (46%), Gaps = 10/28 (35%)
Query: 274 ESIKKV--------DDSKCDPELKYNAT 293
+++KK+ DDS P L AT
Sbjct: 20 QALKKLQASLKLYADDSA--PALAIKAT 45
Score = 31.1 bits (69), Expect = 0.30
Identities = 7/16 (43%), Positives = 8/16 (50%), Gaps = 2/16 (12%)
Query: 54 YAPESISALG--PTTE 67
YA +S AL T E
Sbjct: 32 YADDSAPALAIKATME 47
Score = 29.9 bits (66), Expect = 0.82
Identities = 10/35 (28%), Positives = 12/35 (34%), Gaps = 20/35 (57%)
Query: 81 KQ--KR---SVKCYREDKDGHREVVPDSACNEEKP 110
KQ K+ S+K Y DSA P
Sbjct: 19 KQALKKLQASLKLY----------ADDSA-----P 38
Score = 29.9 bits (66), Expect = 0.82
Identities = 10/35 (28%), Positives = 12/35 (34%), Gaps = 20/35 (57%)
Query: 142 KQ--KR---SVKCYREDKDGHREVVPDSACNEEKP 171
KQ K+ S+K Y DSA P
Sbjct: 19 KQALKKLQASLKLY----------ADDSA-----P 38
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 32.1 bits (72), Expect = 0.21
Identities = 8/33 (24%), Positives = 13/33 (39%), Gaps = 2/33 (6%)
Query: 340 KVAEADEEEECEEEEEEGEETVNNDTDEWTVDY 372
++ E D + E+E E D +EW
Sbjct: 97 RLQELDAASK--VMEQEWREKAKKDLEEWNQRQ 127
>2zjr_S 50S ribosomal protein L25; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.53.1.1 PDB: 1njm_T* 1nwx_T* 1njp_T*
1xbp_T* 2zjp_S* 2zjq_S 1nwy_T 3cf5_S* 3dll_S* 3pio_S*
3pip_S* 1nkw_T 1sm1_T* 1yl3_V 2b66_Z 2b9n_Z 2b9p_Z
1pnu_T 1pny_T 1vor_W ...
Length = 237
Score = 31.2 bits (71), Expect = 0.42
Identities = 3/43 (6%), Positives = 11/43 (25%), Gaps = 2/43 (4%)
Query: 327 TARDEVIP--VEPTGKVAEADEEEECEEEEEEGEETVNNDTDE 367
+ + + P E + E + + ++
Sbjct: 162 ADPELTVVSVLPPRLTAEELEAEVQAAQVAGLVAAGELSEEAA 204
>1feu_A 50S ribosomal protein L25; general stress protein CTC, 5S
rRNA-protein complex, cadmium IONS, ribosome; 2.30A
{Thermus thermophilus} SCOP: b.53.1.1 PDB: 2j01_Z 1vsp_T
2hgj_Y 2hgq_Y 2hgu_Y 1vsa_T 2j03_Z 2jl6_Z 2jl8_Z 2v47_Z
2v49_Z 2wdi_Z 2wdj_Z 2wdl_Z 2wdn_Z 2wh2_Z 2wh4_Z 2wrj_Z
2wrl_Z 2wro_Z ...
Length = 206
Score = 31.2 bits (71), Expect = 0.45
Identities = 10/47 (21%), Positives = 19/47 (40%)
Query: 321 GTMVSRTARDEVIPVEPTGKVAEADEEEECEEEEEEGEETVNNDTDE 367
G ++ + + + V P V + EE E E E + + +E
Sbjct: 160 GVELAVSPEETIAAVVPPEDVEKLAEEAAAEVAEPEVIKKGKEEEEE 206
>1vq8_G Acidic ribosomal protein P0 homolog; ribosome 50S, protein-protein
complex, RNA-RNA complex, PROT complex, peptidyl
transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS;
2.20A {Haloarcula marismortui} SCOP: j.84.1.1 PDB:
1k73_I* 1k8a_I* 1k9m_I* 1kc8_I* 1kd1_I* 1kqs_G* 1m1k_I*
1m90_I* 1n8r_I* 1nji_I* 1q7y_I* 1q81_I* 1q82_I* 1q86_I*
1qvf_G 1qvg_G 1s72_G* 1vq4_G* 1vq5_G* 1vq6_G* ...
Length = 348
Score = 31.4 bits (70), Expect = 0.52
Identities = 5/33 (15%), Positives = 17/33 (51%)
Query: 334 PVEPTGKVAEADEEEECEEEEEEGEETVNNDTD 366
P + ++++ + ++ EE ++ ++D D
Sbjct: 307 PTDDQDDDTASEDDADADDAAEEADDDDDDDED 339
Score = 29.0 bits (64), Expect = 2.9
Identities = 6/32 (18%), Positives = 16/32 (50%)
Query: 328 ARDEVIPVEPTGKVAEADEEEECEEEEEEGEE 359
D+ + A+AD+ E +++++ +E
Sbjct: 307 PTDDQDDDTASEDDADADDAAEEADDDDDDDE 338
>2rjq_A Adamts-5; metalloprotease domain, aggrecanase, cleavage on PAIR of
BAS residues, extracellular matrix, glycoprotein,
hydrolase, ME binding; HET: NAG BAT; 2.60A {Homo
sapiens}
Length = 378
Score = 31.2 bits (70), Expect = 0.61
Identities = 16/82 (19%), Positives = 24/82 (29%), Gaps = 7/82 (8%)
Query: 195 CEEKCGSSLETRTAVCATKNGKIYPESFCLKAKTPELQRECES------PPPCEHQW-YA 247
C + + VC TK + C K + + + W
Sbjct: 253 CARLWCAVVRQGQMVCLTKKLPAVEGTPCGKGRICLQGKCVDKTKKKYYSTSSHGNWGSW 312
Query: 248 TQWSKCSAKCGTGIQTRKVFCG 269
W +CS CG G+Q C
Sbjct: 313 GSWGQCSRSCGGGVQFAYRHCN 334
>1qy5_A Endoplasmin; GRP94, NECA, HSP90, chaperone; HET: NEC; 1.75A {Canis
lupus familiaris} SCOP: d.122.1.1 PDB: 1qy8_A* 1qye_A*
1u0y_A* 1yt2_A*
Length = 269
Score = 30.6 bits (70), Expect = 0.68
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 343 EADEEEECEEEEEEGEETVNNDTDEWTVDY 372
EE EEEE EE ++D + +
Sbjct: 218 TETVEEPMEEEEAAKEEKEDSDDEAAVEEE 247
>2bbx_A Trap, thrombospondin-related anonymous protein; elongated
three-stranded structure, cell adhesion; NMR {Plasmodium
falciparum}
Length = 49
Score = 28.0 bits (62), Expect = 0.73
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 248 TQWSKCSAKCGTGIQTRKVFCG 269
+WS CS CG G ++RK
Sbjct: 9 DEWSPCSVTCGKGTRSRKREIL 30
Score = 25.3 bits (55), Expect = 5.3
Identities = 11/54 (20%), Positives = 16/54 (29%), Gaps = 15/54 (27%)
Query: 129 SEWTGCDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPC 182
EW+ C CG G + R + E E ++ C C
Sbjct: 9 DEWSPCSVTCGKGTRSRKREILHEGCTS---------------EIQEQCEEERC 47
>3p34_A Serine/threonine-protein kinase PLK1; phosphoprotein binding
domain, PLK1, kinase, transferase; HET: TPO; 1.40A {Homo
sapiens} PDB: 3p2z_A* 3p2w_A* 3p35_A* 3p36_A* 3p37_A*
3q1i_A* 2ogq_A 2ojs_A* 2ojx_A 3bzi_A* 3mhn_A* 3mhq_A
3mq8_B* 4dfw_A* 1q4o_A* 1umw_A* 3hik_A* 3rq7_A* 3fvh_A*
3hih_A ...
Length = 232
Score = 29.7 bits (66), Expect = 1.3
Identities = 15/61 (24%), Positives = 20/61 (32%), Gaps = 3/61 (4%)
Query: 226 AKTPELQRECESPPPCEHQWYATQWSKCSAKCGTGIQTRKVFCGAL--DGESIKKVDDSK 283
+ Q E E P W ++W S K G G Q G L D + +D
Sbjct: 29 ERGLVRQEEAEDPACIPIFW-VSKWVDYSDKYGLGYQLCDNSVGVLFNDSTRLILYNDGD 87
Query: 284 C 284
Sbjct: 88 S 88
>1q4k_B Serine/threonine-protein kinase PLK; six-stranded anti-parallel
beta sheet with one alpha helix, transferase; HET: TPO;
2.30A {Homo sapiens} SCOP: d.223.1.2 d.223.1.2
Length = 259
Score = 29.0 bits (64), Expect = 2.5
Identities = 13/61 (21%), Positives = 24/61 (39%), Gaps = 2/61 (3%)
Query: 225 KAKTPELQRECESPPPCEHQWYATQWSKCSAKCGTGIQTRKVFCGAL--DGESIKKVDDS 282
++ +++E P C ++ ++W S K G G Q G L D + +D
Sbjct: 45 PSERGLVRQEEAEDPACIPIFWVSKWVDYSDKYGLGYQLCDNSVGVLFNDSTRLILYNDG 104
Query: 283 K 283
Sbjct: 105 D 105
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 29.6 bits (66), Expect = 2.6
Identities = 16/58 (27%), Positives = 20/58 (34%), Gaps = 14/58 (24%)
Query: 320 GGTMVSRTARDE-------VIPVEPTGKVAEADEE---EECEE-EEEEGE--ETVN-N 363
G TM RDE +I + P A +E E + G E VN N
Sbjct: 1790 GMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYN 1847
>1yz1_A Translationally controlled tumor protein; unknown function; 2.00A
{Homo sapiens} SCOP: b.88.1.2 PDB: 2hr9_A 3ebm_A
Length = 174
Score = 28.3 bits (63), Expect = 2.9
Identities = 14/43 (32%), Positives = 17/43 (39%)
Query: 321 GTMVSRTARDEVIPVEPTGKVAEADEEEECEEEEEEGEETVNN 363
G MVSRT + + AE E E E G + V N
Sbjct: 35 GKMVSRTEGNIDDSLIGGNASAEGPEGEGTESTVITGVDIVMN 77
>3vdj_A Circumsporozoite (CS) protein; TSR, ATSR, cell invasion; 1.70A
{Plasmodium falciparum} PDB: 3vdk_A 3vdl_A
Length = 77
Score = 26.8 bits (58), Expect = 4.1
Identities = 13/56 (23%), Positives = 20/56 (35%), Gaps = 8/56 (14%)
Query: 127 LTSEWTGCDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPC 182
L++EW+ C CG+G Q R P + +K C + C
Sbjct: 22 LSTEWSPCSVTCGNGIQVRIKPGSANK--------PKDELDYANDIEKKICKMEKC 69
Score = 26.4 bits (57), Expect = 4.8
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 247 ATQWSKCSAKCGTGIQTRKVFCGA 270
+T+WS CS CG GIQ R A
Sbjct: 23 STEWSPCSVTCGNGIQVRIKPGSA 46
>2r3a_A Histone-lysine N-methyltransferase SUV39H2; histone H3-K9
methyltransferase 2, H3 lysine-9 specific 2, alternative
splicing, cell cycle; HET: SAM; 2.00A {Homo sapiens}
Length = 300
Score = 28.3 bits (63), Expect = 4.3
Identities = 16/96 (16%), Positives = 28/96 (29%), Gaps = 12/96 (12%)
Query: 178 NLRPCEGVDWLTSEWTGCEEKCGSSLETRTAVCATKNGKIYPESFCLKAKTPELQRECES 237
+P G+ + GC C + Y ++ +K EC S
Sbjct: 64 EYKPAPGISLVNEATFGCS--CTDCFFQKCCPAEAGVLLAYNKNQQIKIPPGTPIYECNS 121
Query: 238 PPPC----------EHQWYATQWSKCSAKCGTGIQT 263
C + Y+ + S G G++T
Sbjct: 122 RCQCGPDCPNRIVQKGTQYSLCIFRTSNGRGWGVKT 157
>3l6v_A GYRA, DNA gyrase subunit A; gyrase A C-terminal domain, GYRA
C-terminal domain, DNA wrapping, beta-strand-bearing
proline, ATP-binding; HET: DNA; 2.19A {Xanthomonas
campestris PV}
Length = 370
Score = 28.4 bits (64), Expect = 4.5
Identities = 8/42 (19%), Positives = 17/42 (40%), Gaps = 4/42 (9%)
Query: 326 RTARDE-VIPVEPTGKVAEADEEEECEEEEEEGEETVNNDTD 366
R ++ E + VE ++ + EE E +E + +
Sbjct: 331 RLSKGEKLQAVE---RLDASLEEPEDVVDEAVAITSDAPPAE 369
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 27.5 bits (62), Expect = 5.6
Identities = 10/49 (20%), Positives = 17/49 (34%), Gaps = 6/49 (12%)
Query: 116 CNLRPCEGVDWLTSEWTGCDHLC----GDGKQKRSVKCYREDKDGHREV 160
CN R V+ LT++ D Q+ +E + G +
Sbjct: 37 CNTR--RKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRI 83
>3f1s_B Vitamin K-dependent protein Z; PZ, ZPI, complex, serpin, protease
inhibitor, protease, GLYC secreted, serine protease
inhibitor, blood coagulation; HET: FLC NAG; 2.30A {Homo
sapiens}
Length = 283
Score = 27.7 bits (62), Expect = 6.6
Identities = 13/75 (17%), Positives = 21/75 (28%), Gaps = 15/75 (20%)
Query: 73 CDHLCGDGKQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPCEGVDWLTSEW- 131
C H C G++ + C G+R C P + C + E +
Sbjct: 13 CQHFCLPGQESYTCSC----AQGYRLGEDHKQC---VPHDQCACGVLTSEKRAPDLQDLP 65
Query: 132 -------TGCDHLCG 139
+ CG
Sbjct: 66 WQVKLTNSEGKDFCG 80
>2bll_A Protein YFBG; decarboxylase, short chain dehydrogenase, L-ARA4N
biosynthes methyltransferase, transferase; 2.3A
{Escherichia coli} SCOP: c.2.1.2 PDB: 1u9j_A 1z73_A
1z75_A 1z7b_A 1z74_A
Length = 345
Score = 27.7 bits (62), Expect = 6.9
Identities = 7/26 (26%), Positives = 10/26 (38%), Gaps = 6/26 (23%)
Query: 67 EPLYVVCDHLCGDGKQKRSVKCYRED 92
P+ ++ GKQKR D
Sbjct: 208 SPIKLI-----DGGKQKRCF-TDIRD 227
>2qts_A Acid-sensing ION channel; trimer, membrane protein; HET: MAL NAG;
1.90A {Gallus gallus} PDB: 3hgc_A 3ij4_A
Length = 438
Score = 27.8 bits (60), Expect = 7.0
Identities = 12/86 (13%), Positives = 16/86 (18%), Gaps = 2/86 (2%)
Query: 166 CNEEKPESEKPCNLRPCEGVDWLTSEWTGCEEKCGSSLETRTAVCATKNGKIYPESFCLK 225
E ++ C C C A T L
Sbjct: 268 ATTGDSEFYDTYSITACRIDCETRYLVENC--NCRMVHMPGDAPYCTPEQYKECADPALD 325
Query: 226 AKTPELQRECESPPPCEHQWYATQWS 251
+ C PC Y + S
Sbjct: 326 FLVEKDNEYCVCEMPCNVTRYGKELS 351
>3qv0_A Mitochondrial acidic protein MAM33; A BOWL like structure,
mitochondrial oxidative phosphorylati protein binding;
2.10A {Saccharomyces cerevisiae}
Length = 227
Score = 27.3 bits (60), Expect = 8.1
Identities = 18/90 (20%), Positives = 29/90 (32%), Gaps = 6/90 (6%)
Query: 283 KCDPELKY--NATKNCTSSQVCKGHWMSGPWSKCSKTYGGG--TMVSRTARDEVIPVE-P 337
ELK TS + +T G +V RT E + V
Sbjct: 17 ILQSELKIEKETLPESTSLDSFNDFLNKYKF-SLVETPGKNEAEIVRRTESGETVHVFFD 75
Query: 338 TGKVAEADEEEECEEEEEEGEETVNNDTDE 367
++A +E E+ E+ +N D +
Sbjct: 76 VAQIANLPYNNAMDENTEQNEDGINEDDFD 105
>3slg_A PBGP3 protein; structural genomics, seattle structural genomics
center for infectious disease, ssgcid, melioidosis,
glanders; 2.10A {Burkholderia pseudomallei}
Length = 372
Score = 27.4 bits (61), Expect = 8.4
Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 6/26 (23%)
Query: 67 EPLYVVCDHLCGDGKQKRSVKCYRED 92
E + +V G QKR+ Y +D
Sbjct: 231 ENISLV-----DGGSQKRAF-TYVDD 250
>3pur_A Lysine-specific demethylase 7 homolog;
oxidoreductase-oxidoreductase inhibitor complex; HET:
2HG; 2.10A {Caenorhabditis elegans} PDB: 3n9l_A 3n9m_A*
3n9o_A* 3n9p_A* 3n9q_A* 3n9n_A* 3puq_A*
Length = 528
Score = 27.8 bits (60), Expect = 8.5
Identities = 11/60 (18%), Positives = 21/60 (35%), Gaps = 1/60 (1%)
Query: 81 KQKRSVKCYREDKDGHREVVPDSACNEEKPESEKPCNLRPCEGVDWLTSEWTGCDHLCGD 140
K S +C K H + + ++K + + + + +W GCD C
Sbjct: 8 TPKESDRCGGCGKFTHEDDLIALEEEKKKEKEKPLMSKKKSHHHKKNDFQWIGCDS-CQT 66
>2xzm_B RPS0E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_B
Length = 241
Score = 27.1 bits (60), Expect = 9.0
Identities = 13/53 (24%), Positives = 18/53 (33%), Gaps = 2/53 (3%)
Query: 324 VSRTARDEVIPVEPTGKVAEADEEEECEEEEEEGEETVNNDTDEWTVDYVWTQ 376
+S+ EV+ K E++E EEEEG E E
Sbjct: 185 LSKDEEWEVMVDLFYHKTLPTAEQKE--AEEEEGAEGAEEKVAEVKEGEAEQN 235
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.314 0.133 0.439
Gapped
Lambda K H
0.267 0.0548 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,191,860
Number of extensions: 356273
Number of successful extensions: 965
Number of sequences better than 10.0: 1
Number of HSP's gapped: 805
Number of HSP's successfully gapped: 117
Length of query: 390
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 295
Effective length of database: 4,049,298
Effective search space: 1194542910
Effective search space used: 1194542910
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 58 (26.5 bits)