RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7771
(193 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 = 39.5 bits (91), Expect = 5e-04
Identities = 51/277 (18%), Positives = 79/277 (28%), Gaps = 113/277 (40%)
Query: 2 SLLI-------------NL-CTILLT--------------------------LT---TLM 18
LL+ NL C ILLT LT
Sbjct: 246 CLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305
Query: 19 LQAEALPQR-QPLYQNPRYSESTHPVRQNYISPSLRTTRRAAKPNQPTSYSHQTAEYYRP 77
L + L R Q L PR +T+P R + I+ S+R + T + ++
Sbjct: 306 LLLKYLDCRPQDL---PREVLTTNPRRLSIIAESIR--------DGLA-----TWDNWK- 348
Query: 78 NYQPSGQNQYYDPSY---QPSNYQESYNPNPAAFKPS------------FDPSTFDPANF 122
+ + S +P+ Y++ ++ + F PS FD D
Sbjct: 349 HVNCDKLTTIIESSLNVLEPAEYRKMFD-RLSVFPPSAHIPTILLSLIWFDVIKSDVMVV 407
Query: 123 EPSYEPSSFQPTALKKAPLPSKVTDHD---------NSESRLERQ----------SGGGG 163
S ++K P S ++ +E L R
Sbjct: 408 VNKLHKYS----LVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDD 463
Query: 164 GHDTYVD--FGAHTGHH----------GSF-GWYADF 187
Y+D F +H GHH F + DF
Sbjct: 464 LIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDF 500
Score = 27.9 bits (61), Expect = 2.8
Identities = 18/96 (18%), Positives = 24/96 (25%), Gaps = 25/96 (26%)
Query: 73 EYYRPNYQ---PSGQNQYYDPSYQPSNYQESYNP--NPAAFKPSFDPSTFDPANFEPSYE 127
E R NY+ + + PS Y E + N D F N +
Sbjct: 85 EVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN--------DNQVFAKYNV-SRLQ 135
Query: 128 PSSFQPTALKKAPLPSKVTDHDNSESRLERQSGGGG 163
P AL + V G G
Sbjct: 136 PYLKLRQALLELRPAKNVLID-----------GVLG 160
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 34.3 bits (78), Expect = 0.020
Identities = 28/114 (24%), Positives = 44/114 (38%), Gaps = 20/114 (17%)
Query: 31 YQNPRYS-----ESTHPVRQNYISPSLRTTRRAAKPNQPTSYSHQTAEYYRPNYQP-SGQ 84
+P YS S + SPS T + P P+ P+Y P S
Sbjct: 1643 PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS------PSYSPTSPS 1696
Query: 85 NQYYDPSYQPSNYQES-----YNPNPAAFKPS---FDPSTFDPANFEPSYEPSS 130
PSY P++ S Y+P ++ P+ + P++ + PSY P+S
Sbjct: 1697 YSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS 1750
Score = 31.6 bits (71), Expect = 0.18
Identities = 27/112 (24%), Positives = 46/112 (41%), Gaps = 4/112 (3%)
Query: 33 NPRYSESTHPVRQNYISPSLRTTRRAAKPNQPTSYSHQTAEYYRPNYQPSGQNQY-YDPS 91
S + +SP T + P+ P + P+Y P+ + PS
Sbjct: 1532 KGVQSPGYTSPFSSAMSPGYGLTSPSYSPSSPGYSTSPAYMPSSPSYSPTSPSYSPTSPS 1591
Query: 92 YQP-SNYQESYNPNPAAFKPSFDPSTFDPANFEPSYEPSS--FQPTALKKAP 140
Y P S +P+ +A PS+ P++ + PSY P+S + PT+ +P
Sbjct: 1592 YSPTSPSYSPTSPSYSATSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSP 1643
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A
1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A*
1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A*
1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 33.9 bits (77), Expect = 0.032
Identities = 33/126 (26%), Positives = 53/126 (42%), Gaps = 20/126 (15%)
Query: 29 PLYQNPRYSESTHPVR---QNYISPSLRTTRRAAKPNQPT------SYSHQTAEY--YRP 77
Y Y E+T P + SP + P PT +YS + Y P
Sbjct: 1509 TAYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYSPTSPSYSPTSP 1568
Query: 78 NYQPSGQNQYYDPSYQPSNYQES-YNPNPAAFKPSFDPSTFDPANFEPSYEPSS--FQPT 134
+Y P+ PSY P++ S +P+ + PS+ P++ + PSY P+S + PT
Sbjct: 1569 SYSPT------SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPT 1622
Query: 135 ALKKAP 140
+ +P
Sbjct: 1623 SPSYSP 1628
Score = 28.1 bits (62), Expect = 2.4
Identities = 16/99 (16%), Positives = 33/99 (33%), Gaps = 2/99 (2%)
Query: 33 NPRYSESTHPVRQNYISPSLRTTRRAAKPNQPTSYSHQTAEYYRPNYQPSGQNQYYDPSY 92
+ + + SP + + A T+Y + G+ P +
Sbjct: 1477 SGLVNADLDVKDELMFSPLVDSGSNDAMAGGFTAYGGADYGEATSPFGAYGE-APTSPGF 1535
Query: 93 QP-SNYQESYNPNPAAFKPSFDPSTFDPANFEPSYEPSS 130
S +P + P++ P++ + PSY P+S
Sbjct: 1536 GVSSPGFSPTSPTYSPTSPAYSPTSPSYSPTSPSYSPTS 1574
Score = 27.4 bits (60), Expect = 3.6
Identities = 29/92 (31%), Positives = 43/92 (46%), Gaps = 7/92 (7%)
Query: 49 SPSLRTTRRAAKPNQPTSYSHQTAEYY--RPNYQPSGQNQY-YDPSYQP-SNYQESYNPN 104
SP+ T A P P SYS + Y P+Y P+ + PSY P S +P+
Sbjct: 1546 SPTYSPTSPAYSPTSP-SYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPS 1604
Query: 105 PAAFKPSFDPSTFDPANFEPSYEPSS--FQPT 134
+ PS+ P++ + PSY P+S + PT
Sbjct: 1605 YSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPT 1636
Score = 27.0 bits (59), Expect = 4.8
Identities = 22/91 (24%), Positives = 36/91 (39%), Gaps = 8/91 (8%)
Query: 34 PRYSESTHPVRQNYISPSLRTTRRAAKPNQPTSYSHQTAEYYRPNYQPSGQNQYYDPS-- 91
P YS ++ + SP+ T + P P SYS + Y + S + Y P+
Sbjct: 1645 PSYSPTS--PSYSPTSPAYSPTSPSYSPTSP-SYSPTSPSYSPTSPSYSPTSPNYSPTSP 1701
Query: 92 -YQPSNYQESYNPNPAAFKPSFDPSTFDPAN 121
Y P++ Y+P A+ P D +
Sbjct: 1702 SYSPTS--PGYSPGSPAYSPKQDEQKHNENE 1730
Score = 26.6 bits (58), Expect = 6.8
Identities = 18/123 (14%), Positives = 39/123 (31%), Gaps = 4/123 (3%)
Query: 17 LMLQAEALPQRQPLYQNPRYSESTHPVRQNYISPSLRTTRRAAKPNQPT---SYSHQTAE 73
+M+ E+L + P + + Y + S ++ + +
Sbjct: 1443 VMIDEESLVKYMPEQKITEIEDGQDGGVTPYSNESGLVNADLDVKDELMFSPLVDSGSND 1502
Query: 74 YYRPNYQPSGQNQYYDPSYQPSNYQESYN-PNPAAFKPSFDPSTFDPANFEPSYEPSSFQ 132
+ G Y + + Y E+ P P F P++ + P+Y P+S
Sbjct: 1503 AMAGGFTAYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYSPTSPS 1562
Query: 133 PTA 135
+
Sbjct: 1563 YSP 1565
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein,
abnormal nuclear; zinc-finger, beta barrel, VWA domain,
gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP:
a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1
Length = 926
Score = 30.9 bits (69), Expect = 0.23
Identities = 12/104 (11%), Positives = 23/104 (22%), Gaps = 13/104 (12%)
Query: 40 THPVRQNYISPSLRTTRRAAKPNQPTSYSHQTAEYYRPNYQPSGQNQYYDPSYQPSNYQE 99
+H ++ Y P Y +P Q+
Sbjct: 2 SHHKKRVY-------------PQAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMP 48
Query: 100 SYNPNPAAFKPSFDPSTFDPANFEPSYEPSSFQPTALKKAPLPS 143
P+ + F + + + +S L PL
Sbjct: 49 PQGAVPSMGQQQFLTPAQEQLHQQIDQATTSMNDMHLHNVPLVD 92
>3bb7_A Interpain A; cysteine protease, zymogen activation, bacterial
odontopatho hydrolase; 1.50A {Prevotella intermedia}
PDB: 3bba_A
Length = 321
Score = 29.2 bits (65), Expect = 0.87
Identities = 13/62 (20%), Positives = 26/62 (41%), Gaps = 9/62 (14%)
Query: 74 YYRPNYQPSGQNQYYDPSYQPSNYQESYNPNPAAFKPSFDPSTFDPANFEPSYEPSSFQP 133
Y++ + G + + P+ PS S + F +T+D AN + +Y + +
Sbjct: 127 YFKYPVRGIGSHTVHYPANDPSGVAISAD---------FGNTTYDWANMKDNYSGNYTEA 177
Query: 134 TA 135
A
Sbjct: 178 EA 179
>3s79_A Cytochrome P450 19A1; oxidoreductase; HET: HEM ASD; 2.75A {Homo
sapiens} PDB: 3eqm_A* 3s7s_A*
Length = 503
Score = 28.8 bits (65), Expect = 0.98
Identities = 8/30 (26%), Positives = 10/30 (33%), Gaps = 3/30 (10%)
Query: 104 NPAAFKPSFDPSTFDPANFEPSYEPSSFQP 133
F P+ F NF + FQP
Sbjct: 403 RLEFFP---KPNEFTLENFAKNVPYRYFQP 429
>3ebb_A Phospholipase A2-activating protein; armadillo repeat, structural
genomics consortium, SGC, WD repeat, acetylation,
ATP-binding; 1.90A {Homo sapiens}
Length = 304
Score = 27.8 bits (61), Expect = 2.4
Identities = 12/57 (21%), Positives = 21/57 (36%), Gaps = 4/57 (7%)
Query: 72 AEYYRPN----YQPSGQNQYYDPSYQPSNYQESYNPNPAAFKPSFDPSTFDPANFEP 124
+ ++ + P G DP S Y+ + + + P + TFD AN
Sbjct: 3 SSHHHHHHSSGLVPRGSMAGVDPFTGNSAYRSAASKTMNIYFPKKEAVTFDQANPTQ 59
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 27.9 bits (62), Expect = 2.7
Identities = 26/154 (16%), Positives = 40/154 (25%), Gaps = 62/154 (40%)
Query: 65 TS-YSHQTAEYYRPNYQPSGQ----------NQYYDPSYQPSN------YQESYNPNPAA 107
TS +S Q +YY+ Y G NQ S Q Y N
Sbjct: 508 TSRFSKQVTDYYQSIYAKYGAKGSTLIVVPFNQ---GSKQDVEALIEFIYDTEKNGGLG- 563
Query: 108 FKPSFDPSTFDPANFEPSYEPSSFQPTALKKAPLPSKVTDHDNSESR-----------LE 156
+D P F A +P + + ++ +S+ +
Sbjct: 564 ----WDLDAIIP--F----------------AAIPEQGIELEHIDSKSEFAHRIMLTNIL 601
Query: 157 RQSGGGGGHDTYVDFGAHTGH--------HGSFG 182
R G + HG+FG
Sbjct: 602 RMMGCVKKQKSARGIETRPAQVILPMSPNHGTFG 635
>3tlw_A GLR4197 protein, GLIC; Cys-loop receptor family, membrane protein,
transport protei; HET: LMT; 2.60A {Gloeobacter
violaceus} PDB: 3uu4_A* 3uub_A* 3tlv_A* 3uu6_A* 3uu5_A*
3uu3_A* 3tlu_A* 3uu8_A* 3tls_A* 3tlt_A* 3p4w_A* 3p50_A*
3eam_A* 3ehz_A 2xq4_A 2xq5_A 2xq6_A 2xq3_A 2xq8_A 2xqa_A
...
Length = 321
Score = 26.9 bits (60), Expect = 4.7
Identities = 4/24 (16%), Positives = 9/24 (37%), Gaps = 2/24 (8%)
Query: 5 INLC-TILLTLTTLMLQ-AEALPQ 26
+ L + L+ + LP+
Sbjct: 229 VTLVVSTLIAHIAFNILVETCLPK 252
>1i5p_A Pesticidial crystal protein CRY2AA; helical bundle, beta prism,
lectin-like beta sandwich, jelly roll, toxin; 2.20A
{Bacillus thuringiensis serovarkurstaki} SCOP: b.18.1.3
b.77.2.1 f.1.3.1
Length = 633
Score = 26.8 bits (58), Expect = 5.7
Identities = 22/139 (15%), Positives = 35/139 (25%)
Query: 31 YQNPRYSESTHPVRQNYISPSLRTTRRAAKPNQPTSYSHQTAEYYRPNYQPSGQNQYYDP 90
+ S + R NY A N + S P + +
Sbjct: 326 LPGSTTTHSLNSARVNYSGGVSSGLIGATNLNHNFNCSTVLPPLSTPFVRSWLDSGTDRE 385
Query: 91 SYQPSNYQESYNPNPAAFKPSFDPSTFDPANFEPSYEPSSFQPTALKKAPLPSKVTDHDN 150
S ++ + S +N+ P Y + L H N
Sbjct: 386 GVATSTNWQTESFQTTLSLRCGAFSARGNSNYFPDYFIRNISGVPLVIRNEDLTRPLHYN 445
Query: 151 SESRLERQSGGGGGHDTYV 169
+E SG GG Y+
Sbjct: 446 QIRNIESPSGTPGGARAYL 464
>3mt1_A Putative carboxynorspermidine decarboxylase prote; PSI2, MCSG,
structural genomics; 2.50A {Sinorhizobium meliloti}
Length = 365
Score = 26.4 bits (59), Expect = 6.1
Identities = 6/24 (25%), Positives = 10/24 (41%), Gaps = 4/24 (16%)
Query: 33 NPRYSESTHPVRQNYISPSLRTTR 56
NP+ S S+ P+ +R
Sbjct: 121 NPQVSSSSFD----LADPARPFSR 140
>3l3f_X Protein DOA1, DOA1/UFD3; armadillo-like repeat structure, nucleus,
UBL conjugation PA protein binding; 1.90A {Saccharomyces
cerevisiae}
Length = 362
Score = 26.4 bits (57), Expect = 6.1
Identities = 9/66 (13%), Positives = 19/66 (28%), Gaps = 2/66 (3%)
Query: 59 AKPNQPTSYSHQTAEYYRPNYQPSGQNQYYDPSYQPSNYQESYNPNPAAFKPSFDPSTFD 118
A+ P SY Q ++ N +Q D + + + + +
Sbjct: 66 ARYELPMSYRDQVVQFILKNTNGISLDQPNDNASSSAVSPSKTSVMKVLPVKQY--LIME 123
Query: 119 PANFEP 124
N +
Sbjct: 124 NYNPDT 129
>3ntt_A Capsid protein; gene therapy vector, cystic fibros sialic acid
receptor, icosahedral virus; 3.45A {Adeno-associated
virus - 5}
Length = 724
Score = 26.8 bits (58), Expect = 6.4
Identities = 16/83 (19%), Positives = 23/83 (27%)
Query: 105 PAAFKPSFDPSTFDPANFEPSYEPSSFQPTALKKAPLPSKVTDHDNSESRLERQSGGGGG 164
P E S +S A ++ S + S GGGG
Sbjct: 140 TGKRIDDHFPKRKKARTEEDSKPSTSSDAEAGPSGSQQLQIPAQPASSLGADTMSAGGGG 199
Query: 165 HDTYVDFGAHTGHHGSFGWYADF 187
+ GA + S W+ D
Sbjct: 200 PLGDNNQGADGVGNASGDWHCDS 222
>1dfm_A Endonuclease bglii; restriction endonuclease, restriction enzyme,
protein-DNA complex, hydrolase/DNA complex; HET: DNA;
1.50A {Bacillus subtilis} SCOP: c.52.1.5 PDB: 1d2i_A*
1es8_A
Length = 223
Score = 25.9 bits (56), Expect = 8.0
Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 1/53 (1%)
Query: 65 TSYSHQTAEYYRPNYQPSGQNQYYDPSYQPSNYQESYNPNPAAFKPSFDPSTF 117
S Q ++ + P G NQY P +++ + P P F F
Sbjct: 34 VKASDQASKVGSLIFDPVGTNQYIKDELVPKHWKNNI-PIPKRFDFLGTDIDF 85
>3gw9_A Sterol 14alpha-demethylase; CYP51, cytochrome P450, heme,
oxidoreductase, monooxygenase, sterol biosynthesis,
lipids, endoplasmic reticulum; HET: HEM VNI; 1.87A
{Trypanosoma brucei} PDB: 3g1q_A* 3p99_A* 2wv2_A*
2x2n_A* 3khm_A* 3k1o_A* 3ksw_A* 2wx2_A* 2wuz_A* 3l4d_A*
Length = 450
Score = 26.1 bits (58), Expect = 8.9
Identities = 7/30 (23%), Positives = 11/30 (36%), Gaps = 5/30 (16%)
Query: 104 NPAAFKPSFDPSTFDPANFEPSYEPSSFQP 133
+ AF +P +DP E +F
Sbjct: 363 DEEAFP---EPRRWDPERDEKV--EGAFIG 387
>1r61_A Metal-dependent hydrolase; zinc-dependent hydrolase, structural
genomics, cyclase, PSI, protein structure initiative;
2.50A {Geobacillus stearothermophilus} SCOP: c.8.8.1
PDB: 3krv_A
Length = 207
Score = 25.9 bits (57), Expect = 9.1
Identities = 9/30 (30%), Positives = 12/30 (40%), Gaps = 6/30 (20%)
Query: 161 GGGGHDTYVDFGAHTGHHGSFGWYADFPAH 190
G ++ +D HTG H D P H
Sbjct: 34 NGYVTESRIDMDVHTGTH------IDAPLH 57
>3rqw_A ELIC pentameric ligand gated ION channel from ERW chrysanthemi;
membrane, transport protein; HET: ACH MES; 2.91A
{Dickeya dadantii} PDB: 3rqu_A* 3uq4_A 3uq5_A 3uq7_A
2vl0_A 2yks_A
Length = 322
Score = 25.8 bits (57), Expect = 9.4
Identities = 5/24 (20%), Positives = 11/24 (45%), Gaps = 2/24 (8%)
Query: 5 INLC-TILLTLTTLML-QAEALPQ 26
+ T++LT+ + LP+
Sbjct: 232 LQTSFTLMLTVVAYAFYTSNILPR 255
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
0.312 0.129 0.396
Gapped
Lambda K H
0.267 0.0484 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,929,249
Number of extensions: 158116
Number of successful extensions: 333
Number of sequences better than 10.0: 1
Number of HSP's gapped: 318
Number of HSP's successfully gapped: 40
Length of query: 193
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 105
Effective length of database: 4,244,745
Effective search space: 445698225
Effective search space used: 445698225
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: 55 (25.6 bits)