RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13967
(379 letters)
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 47.5 bits (112), Expect = 5e-06
Identities = 62/437 (14%), Positives = 108/437 (24%), Gaps = 148/437 (33%)
Query: 37 FISYLICVDVCDYF-QVSTTEE---LFVDSSRGSKLPIHLDI------------VVPTIS 80
F+ C DV D + + EE + + S V +
Sbjct: 29 FVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLR 88
Query: 81 CDY------LALDAVDSSGEQHLHVEHNIYKRRLDLDG-----------KPIQE------ 117
+Y + + S +++E + RL D +P +
Sbjct: 89 INYKFLMSPIKTEQRQPSMMTRMYIE---QRDRLYNDNQVFAKYNVSRLQPYLKLRQALL 145
Query: 118 ---PQKEVV--------------NAVKKKKVTTENG------------TTTTELE----- 143
P K V+ + KV + + T LE
Sbjct: 146 ELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL 205
Query: 144 ----DPNKCGSCYGAETETRKCCNTCNEVKEAYR-------YKKWALPELDTIVQCKNEY 192
DPN + + + ++ R Y+ L L +
Sbjct: 206 LYQIDPNWTSRSDHSSNIKLR----IHSIQAELRRLLKSKPYEN-CLLVLLNV------- 253
Query: 193 STEKLKNTFTEGCQIYGYLEVNRVSGSFHIAPGLSYSINHVHVHDIQPYTSAAFNTTHHI 252
K N F C+I L R + + H+ +
Sbjct: 254 QNAKAWNAFNLSCKI---LLTTRFKQVTDFLSAATTT--HISLDHHSM----TLTPDEVK 304
Query: 253 RHLSFGIKLQDDDERRK-----PL--DGTVAKAEEGASMFNYY--------IKIIPTIYE 297
L + + D R+ P +G + ++ + II +
Sbjct: 305 SLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN 364
Query: 298 RLDGSKLGGGDGGMPGIFFSY--ELS--PLMVKITEKSKSLGHLWTKIMCNISGTYITFM 353
L+ P + LS P I L +W + M
Sbjct: 365 VLE-----------PAEYRKMFDRLSVFPPSAHIPT--ILLSLIWFDV------IKSDVM 405
Query: 354 LVDALLH--SCVKKISK 368
+V LH S V+K K
Sbjct: 406 VVVNKLHKYSLVEKQPK 422
Score = 32.5 bits (73), Expect = 0.31
Identities = 40/331 (12%), Positives = 92/331 (27%), Gaps = 83/331 (25%)
Query: 92 SGEQHLH----VEHNIYKRRLDLDGKPIQEPQKEVVNAVKKKKVTTENGTTTTELED--- 144
+GE + + D K +Q+ K ++ + E++
Sbjct: 11 TGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSIL--------------SKEEIDHIIM 56
Query: 145 -PNKCGSCYGAETETRKCCNTCNEVKEAYRYKKWALPELDTIVQCKNEYSTEKLKNTFTE 203
+ A + T + K+ +K+ ++ +++ ++ +K +
Sbjct: 57 SKD-------AVSGTLRLF-WTLLSKQEEMVQKF----VEEVLRINYKFLMSPIKTEQRQ 104
Query: 204 GCQIY-GYLE-VNRVSGSFHIAPGLSYSINHVHVHDIQPYT---SAAFNTTHH---IRH- 254
+ Y+E +R+ + +V +QPY A +
Sbjct: 105 PSMMTRMYIEQRDRLYNDNQVFAKY-------NVSRLQPYLKLRQALLELRPAKNVLIDG 157
Query: 255 -LSFGIK-------LQDDDERRKPLDG----TVAKAEEGASMFNYYIKIIPTIYERLDGS 302
L G K + K + ++ ++++ + ++D +
Sbjct: 158 VLGSG-KTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV----LEMLQKLLYQIDPN 212
Query: 303 KLGGGDGGMPGIF----FSYELSPLMVKITEKSKSL---GHLWTK-------IMCNISGT 348
D EL L+ K L ++ + C I T
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAELRRLL-KSKPYENCLLVLLNVQNAKAWNAFNLSCKILLT 271
Query: 349 YITFMLVDALLHSCVKKISKVEIGGKTVTKR 379
+ D L + IS T+T
Sbjct: 272 TRFKQVTDFLSAATTTHISLDHH-SMTLTPD 301
>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 = 42.7 bits (100), Expect = 2e-04
Identities = 56/288 (19%), Positives = 79/288 (27%), Gaps = 107/288 (37%)
Query: 12 AFTKPYEDFHEKTVYGGAVTIVCWLFISYLICVDVCDYFQVSTTEELFVDS-SRGSKLPI 70
A T +E F + LF + C + Y S + DS +P
Sbjct: 284 AETDSWESFFV-----SVRKAITVLFFIGVRCYEA--YPNTSLPPSILEDSLENNEGVPS 336
Query: 71 HLDIVVPTISCDYLALDAVDSSGEQHLHVEHNIYKRRLDLDGKPIQEPQKEVVNAVKKKK 130
+ L++ S V+ + K L P + V
Sbjct: 337 PM-----------LSI-----SNLTQEQVQDYVNKTNSHL-------PAGKQVE------ 367
Query: 131 VTTENGTTTTELEDPNK---CG---SCYGAETETRKCCNTCNEVKEAYRYKKWALPELDT 184
++ NG G S YG RK K A LD
Sbjct: 368 ISLVNG--------AKNLVVSGPPQSLYGLNLTLRK-------AK--------APSGLD- 403
Query: 185 IVQCKNEYSTEKLK--NTF---------------TEGCQIYGYLEVNRVSGS-------- 219
Q + +S KLK N F ++ I L N VS +
Sbjct: 404 --QSRIPFSERKLKFSNRFLPVASPFHSHLLVPASD--LINKDLVKNNVSFNAKDIQIPV 459
Query: 220 FHIAPG-----LSYSINHVHVHDI--QP--YTSAAFNTTHHIRHLSFG 258
+ G LS SI+ V I P + + HI L FG
Sbjct: 460 YDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHI--LDFG 505
Score = 35.4 bits (81), Expect = 0.034
Identities = 57/328 (17%), Positives = 93/328 (28%), Gaps = 92/328 (28%)
Query: 2 VFSERLKGLDAFTKPYEDFHEKTVYGGAVTIVCWLFISYLICVDVCDYFQVSTTEELFVD 61
+ +L+ + F K + E T L +L Y VS+ E
Sbjct: 28 FIASQLQ--EQFNKILPEPTEGFAADDEPTTPAELVGKFL------GY--VSSLVE---P 74
Query: 62 SSRGSKLPIHLDIVVPTISCDYL------ALDA-VDSSGEQHLHVEHNI---YKRRLDLD 111
S G + L++ + YL AL A + + L + Y +
Sbjct: 75 SKVGQFDQV-LNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMA 133
Query: 112 GKPIQEPQK-EVVNAVKKKKVTTEN-----GTTTTELEDPNKCGSCYGAETETRKCCNTC 165
+P + + AV + G T E
Sbjct: 134 KRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFE---------------------- 171
Query: 166 NEVKEAYR-YKKWALPELDTIVQCKNEYSTEKLKNT--FTEGCQIYGYLEVNRVSGSFHI 222
E+++ Y+ Y + + +E L FT+G I +LE N +
Sbjct: 172 -ELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLE-NPSN----- 224
Query: 223 APGLSY------SINHVHVHDIQPYTSAAFNTTHHIRHLSFGIKLQDDDERRKPLDGT-- 274
P Y S + V IQ A + T + + G E R L G
Sbjct: 225 TPDKDYLLSIPISCPLIGV--IQ---LAHYVVTAKLLGFTPG-------ELRSYLKGATG 272
Query: 275 ----------VAKAEEGASMFNYYIKII 292
+A+ + S F K I
Sbjct: 273 HSQGLVTAVAIAETDSWESFFVSVRKAI 300
>3rrc_A Duffy receptor; duffy binding like, receptor recognition, duffy
antigen RECE chemokines, cell invasion; HET: EDO; 1.95A
{Plasmodium vivax} PDB: 2c6j_A
Length = 317
Score = 30.6 bits (69), Expect = 0.69
Identities = 11/58 (18%), Positives = 17/58 (29%), Gaps = 11/58 (18%)
Query: 146 NKCGSCYGAETETRKCCNTCNEVKEAYRYKKWALPELDTIVQCKNEYSTEKLKNTFTE 203
KC + C Y +W I + KN++ + L N F
Sbjct: 205 EKCDGKINYTDKKVCKVPPCQN--ACKSYDQW-------ITRKKNQW--DVLSNKFIS 251
>1eq6_A MOG1P; alpha-beta, protein transport; 1.90A {Saccharomyces
cerevisiae} SCOP: d.107.1.1 PDB: 1jhs_A
Length = 189
Score = 29.3 bits (65), Expect = 1.6
Identities = 16/84 (19%), Positives = 33/84 (39%), Gaps = 8/84 (9%)
Query: 18 EDFHEKTVYGGAVTIVCWLFISYLICVDVCDYFQVSTTEELFVDSSRGSKLPIHLDIVVP 77
+ E +YGGA I + + +D +V T+E++V+S R +
Sbjct: 2 MNNKEVELYGGA--ITTVVPPGF---IDASTLREVPDTQEVYVNSRRDEEEFEDGLATNE 56
Query: 78 TISCD---YLALDAVDSSGEQHLH 98
+I D + + + + H+
Sbjct: 57 SIIVDLLETVDKSDLKEAWQFHVE 80
>2wau_A VAR2CSA, erythrocyte membrane protein 1 (pfemp1); chondroitin
sulphate A, membrane protein DBL, malaria; 3.00A
{Plasmodium falciparum}
Length = 302
Score = 29.0 bits (65), Expect = 2.2
Identities = 10/58 (17%), Positives = 17/58 (29%), Gaps = 11/58 (18%)
Query: 146 NKCGSCYGAETETRKCCNTCNEVKEAYRYKKWALPELDTIVQCKNEYSTEKLKNTFTE 203
C S + C E + Y + I+ K EY + L + +
Sbjct: 200 TACNSAKCNTSNGSVDKKECTEACKN--YSNF-------ILIKKKEY--QSLNSQYDM 246
>3h16_A TIR protein; bacteria TIR domain, signaling protein; 2.50A
{Paracoccus denitrificans PD1222}
Length = 154
Score = 28.0 bits (63), Expect = 3.0
Identities = 6/23 (26%), Positives = 11/23 (47%)
Query: 170 EAYRYKKWALPELDTIVQCKNEY 192
+ K+W ELD + Q ++
Sbjct: 83 THFFKKEWPQKELDGLFQLESSG 105
>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 = 28.7 bits (63), Expect = 4.3
Identities = 5/37 (13%), Positives = 11/37 (29%), Gaps = 2/37 (5%)
Query: 131 VTTENGTTTTELEDPNKCG--SCYGAETETRKCCNTC 165
E + + P++ G C + C +
Sbjct: 74 PCIEKQSKVRSVLRPSQFGGQPCTAPLVAFQPCIPSK 110
>1sva_1 Simian virus 40; virus coat protein, icosahedral virus; 3.10A
{Simian virus 40} SCOP: b.121.6.1
Length = 361
Score = 27.7 bits (61), Expect = 6.1
Identities = 29/151 (19%), Positives = 43/151 (28%), Gaps = 18/151 (11%)
Query: 69 PIHLDIVVPTISCDYLALDAVDSSGEQHLHVEHNIYKRRLDLDGK-PIQ----EPQK--- 120
P+ L V+ Y A + + +K LD D P++ +P K
Sbjct: 158 PLELQGVLANYRTKYPAQTVTPKNATVDSQQMNTDHKAVLDKDNAYPVECWVPDPSKNEN 217
Query: 121 -----EVVNAVKKKKVTTENGTTTTELEDPNKCGSCYGAETETRKCCNTCNEVKEAYRYK 175
V T TT L D G A++ + C +
Sbjct: 218 TRYFGTYTGGENVPPVLHITNTATTVLLDEQGVGPLCKADSLYVSAVDICGLFTNTSGTQ 277
Query: 176 KWA-LPELDTIV----QCKNEYSTEKLKNTF 201
+W LP I KN Y L +
Sbjct: 278 QWKGLPRYFKITLRKRSVKNPYPISFLLSDL 308
>3bqk_A Pfemp1 protein, erythrocyte membrane protein 1; malaria, pregnancy,
VAR2CSA encoded pfemp1 protein, DBL3X DO chondroitin
sulphate A; 1.80A {Plasmodium falciparum} PDB: 3bqi_A
3bql_A 3cml_A 3cpz_A
Length = 360
Score = 27.7 bits (61), Expect = 7.7
Identities = 14/77 (18%), Positives = 26/77 (33%), Gaps = 13/77 (16%)
Query: 127 KKKKVTTENGTTTTELEDPNKCGSCYGAETETRKCCNTCNEVKEAYRYKKWALPELDTIV 186
+ + T ++ KC + + + K C E YKK+ I
Sbjct: 248 RLRYEQNIREACTINGKNEKKCINSKSGQGD--KIQGACKRKCEK--YKKY-------IS 296
Query: 187 QCKNEYSTEKLKNTFTE 203
+ K E+ +K K +
Sbjct: 297 EKKQEW--DKQKTKYEN 311
>1zro_A Erythrocyte binding antigen region II; EBA-175, RII, DBL, invasion,
HOST, malaria, disease, glycophorin, glycan, sialic
acid; HET: SO4; 2.25A {Plasmodium falciparum} SCOP:
a.264.1.1 a.264.1.1 PDB: 1zrl_A*
Length = 602
Score = 27.6 bits (61), Expect = 8.8
Identities = 12/59 (20%), Positives = 22/59 (37%), Gaps = 6/59 (10%)
Query: 146 NKCGSCYGAETETRKCCNTCNEVKEAYRYKKWALPELDTIVQCKNEYSTEKLKNTFTEG 204
+KC + E ++C + C + Y+ W + EY T+K+ E
Sbjct: 200 SKCKNNALYEACEKECIDPCMK------YRDWIIRSKFEWHTLSKEYETQKVPKENAEN 252
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 26.9 bits (59), Expect = 9.7
Identities = 7/47 (14%), Positives = 10/47 (21%), Gaps = 7/47 (14%)
Query: 131 VTTENGTTTTELEDPNKCGSCYGAETETRK-------CCNTCNEVKE 170
+ G L C C + + C C V
Sbjct: 7 IDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSEGDVVCALCGLVLS 53
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
0.319 0.136 0.411
Gapped
Lambda K H
0.267 0.0466 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,934,017
Number of extensions: 359400
Number of successful extensions: 717
Number of sequences better than 10.0: 1
Number of HSP's gapped: 712
Number of HSP's successfully gapped: 21
Length of query: 379
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 284
Effective length of database: 4,049,298
Effective search space: 1150000632
Effective search space used: 1150000632
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.8 bits)