RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15308
(270 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 = 40.2 bits (93), Expect = 6e-04
Identities = 31/235 (13%), Positives = 60/235 (25%), Gaps = 31/235 (13%)
Query: 44 ISETERKCFIEEIPEETQLLCVVLLAII---PFSYALYFHISETERKCF---IEEIPEET 97
+S+ E I + L L + F + E R + + I E
Sbjct: 46 LSKEEIDHIIMSKDAVSGTL--RLFWTLLSKQEEMVQKF-VEEVLRINYKFLMSPIKTEQ 102
Query: 98 QVIINYKTELFDTRTGGYMQSSPGVGMHVQISNPDSKII--LSRLYSYEGRISFTSH-MP 154
+ + R Y + +V P K+ L L + +
Sbjct: 103 RQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN---VLIDGVL 159
Query: 155 GEHVICLYSNSTKWVGASQ-LRVHLDIQVGEHAIDYAQVAQKDKLSELQLRVRQLLDQCD 213
G S K A + + I + + + + + L
Sbjct: 160 G---------SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV---LEMLQKLLY 207
Query: 214 QITKEQNYQRYREERFRATSESTNQ---RVFWWSLAQLGILVCMGVWQMRHLKSF 265
QI + + S R+ + +LV + V + +F
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF 262
Score = 35.2 bits (80), Expect = 0.022
Identities = 17/101 (16%), Positives = 33/101 (32%), Gaps = 32/101 (31%)
Query: 177 HLDIQVGEHAIDYA---QVAQKDKLSELQLR-----VRQLL--DQCDQITKEQNYQRYRE 226
H+D + GEH Y V + + + + +L ++ D I ++
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKD----AV 61
Query: 227 ERFRATSESTNQRVFWWSLAQLGILVCMGVWQMRHLKSFFE 267
R+FW L++ Q ++ F E
Sbjct: 62 SGTL--------RLFWTLLSK----------QEEMVQKFVE 84
Score = 34.4 bits (78), Expect = 0.040
Identities = 34/252 (13%), Positives = 68/252 (26%), Gaps = 83/252 (32%)
Query: 42 FHISETER---KCF---IEEIPEETQLLCVVLLAIIPFSYALYFHISETERKCFIEEIPE 95
E + K +++P E L P ++ E I +
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREV-------LTTNPRRLSI-----------IAESIRD 339
Query: 96 ETQVIINYKTELFD--TRTGGYMQSSPGVGMHVQISNPDSKIILSRLYSYEGRISFTS-- 151
N+K D T ++SS L+ L E R F
Sbjct: 340 GLATWDNWKHVNCDKLTTI---IESS-----------------LNVLEPAEYRKMFDRLS 379
Query: 152 ------HMPGEHVICLYSNSTKWVGASQLRVHLDIQVGEHAIDYAQVAQKDK-----LSE 200
H+P ++ L W + + V Y+ V ++ K +
Sbjct: 380 VFPPSAHIP-TILLSLI-----W---FDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS 430
Query: 201 LQLRVRQLLDQCDQITKE--QNYQRYREERFRATSESTNQRVFWWSLAQLGILVCMGVWQ 258
+ L ++ L+ + + +Y + + F+ +
Sbjct: 431 IYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIG------------ 478
Query: 259 MRHLKSFFEAKK 270
HLK+ ++
Sbjct: 479 -HHLKNIEHPER 489
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 37.4 bits (86), Expect = 0.002
Identities = 8/56 (14%), Positives = 23/56 (41%), Gaps = 10/56 (17%)
Query: 190 AQVAQKD-----KLSELQLRVRQLLD-----QCDQITKEQNYQRYREERFRATSES 235
++ + D E + + ++ L+ Q +Q+ K + R ++ F ++
Sbjct: 96 KRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPDA 151
>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 = 33.5 bits (76), Expect = 0.073
Identities = 36/205 (17%), Positives = 56/205 (27%), Gaps = 90/205 (43%)
Query: 10 HVQIS--NPDSKIILS------RLLCVVLLAV----------IPFSYALYFHISETERKC 51
V+IS N +++S L + L IPFS ERK
Sbjct: 365 QVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFS----------ERK- 413
Query: 52 FIEEIPEETQLLCVVLLAI-IPFSYALYFHISE--TERKCFIEEIPEETQVIINYKTEL- 107
+ L + PF H S I + + V N K ++
Sbjct: 414 -----LK----FSNRFLPVASPF------H-SHLLVPASDLINKDLVKNNVSFNAK-DIQ 456
Query: 108 ---FDTRTGGYMQSSPGVGMHVQISNPDSKIILSRLYSYEGRISFTSHMPGEHVICLYSN 164
+DT G ++ S I R+ V C+
Sbjct: 457 IPVYDTFDGSDLRVL-------------SGSISERI-----------------VDCIIRL 486
Query: 165 STKWVGASQLRVHLDIQVGEHAIDY 189
KW +Q + H +D+
Sbjct: 487 PVKWETTTQFKAT-------HILDF 504
>1js1_X Transcarbamylase; alpha/beta topology, two domains, transferase;
2.00A {Bacteroides fragilis} SCOP: c.78.1.1 c.78.1.1
PDB: 2fg6_X* 2fg7_X* 2g7m_X*
Length = 324
Score = 29.6 bits (67), Expect = 0.94
Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 2/49 (4%)
Query: 146 RISFTSHMP--GEHVICLYSNSTKWVGASQLRVHLDIQVGEHAIDYAQV 192
R+S G +VI L N W ++ V +D EH ++ V
Sbjct: 51 RLSTQKAALNLGMNVIVLDINQGAWKLETERGVIMDGDKPEHLLEAIPV 99
>1wlh_A Gelation factor; ABP-120, filamin, immunoglobulin fold, ROD domain,
structural protein; 2.80A {Dictyostelium discoideum}
SCOP: b.1.18.10 b.1.18.10 b.1.18.10 PDB: 1ksr_A
Length = 311
Score = 28.9 bits (63), Expect = 1.6
Identities = 8/67 (11%), Positives = 25/67 (37%), Gaps = 4/67 (5%)
Query: 114 GYMQSSPGVGMHVQISNPDSKIILSRLYSYEG---RISFTSHMPGEHVICLYSNSTKWVG 170
G ++ G V I+ PD ++ +++ + + + + G + + + +
Sbjct: 135 GVARTDGGDPFEVAINGPDGLVVDAKVTDNNDGTYGVVYDAPVEGNYNVNVTLRG-NPIK 193
Query: 171 ASQLRVH 177
+ V
Sbjct: 194 NMPIDVK 200
>1zq6_A Otcase, ornithine carbamoyltransferase; alpha/beta two-domain; HET:
AOR; 1.80A {Xanthomonas campestris} PDB: 1yh0_A* 1zq2_A
1yh1_A* 1zq8_A* 3kzc_A* 3kzk_A* 3kzm_A* 3kzn_A* 3kzo_A*
3m4j_A* 3m5d_A* 3m5c_A* 2g6a_A* 3l05_A* 2g65_A* 3l02_A*
3m4n_A* 2g6c_A* 3l06_A* 2g68_A* ...
Length = 359
Score = 28.1 bits (63), Expect = 3.2
Identities = 13/49 (26%), Positives = 17/49 (34%), Gaps = 2/49 (4%)
Query: 146 RISFTSHMP--GEHVICLYSNSTKWVGASQLRVHLDIQVGEHAIDYAQV 192
R SF G H + L W L +D EH + A+V
Sbjct: 73 RTSFELGAFQLGGHAVVLQPGKDAWPIEFNLGTVMDGDTEEHIAEVARV 121
>2es4_D Lipase chaperone; protein-protein complex, steric chaperone,
triacylglycerol hydrolase, all alpha helix protein, A/B
hydrolase fold; 1.85A {Burkholderia glumae} SCOP:
a.137.15.1
Length = 332
Score = 27.4 bits (60), Expect = 4.8
Identities = 16/73 (21%), Positives = 29/73 (39%), Gaps = 11/73 (15%)
Query: 171 ASQLRVHLDIQVGEHAID-YAQVAQKDKLSELQLRVRQLLDQCDQIT--------KEQNY 221
Q+R + +G A AQ+ Q D+ Q R + + D+I ++
Sbjct: 250 PDQMRAQIAQTLGPEAAARAAQMQQDDE--AWQTRYQAYAAERDRIAAQGLAPQDRDARI 307
Query: 222 QRYREERFRATSE 234
+ R++ F A E
Sbjct: 308 AQLRQQTFTAPGE 320
>1xsa_A BIS(5'-nucleosyl)-tetraphosphatase; nudix enzyme, human AP4A
hydrolase, alpha-beta; NMR {Homo sapiens} SCOP:
d.113.1.1 PDB: 1xsb_A 1xsc_A*
Length = 153
Score = 26.3 bits (58), Expect = 8.0
Identities = 9/60 (15%), Positives = 21/60 (35%), Gaps = 3/60 (5%)
Query: 46 ETERKCFIEEIPEETQLLCVVLLAIIPFSYALYF---HISETERKCFIEEIPEETQVIIN 102
E + + + EE + L I F L + + +T E + ++ ++
Sbjct: 54 EDDLETALRATQEEAGIEAGQLTIIEGFKRELNYVARNKPKTVIYWLAEVKDYDVEIRLS 113
>2jvb_A Protein PSU1, mRNA-decapping enzyme subunit 2; DCP2, mRNA decay,
cytoplasm, hydrolase, manganese, metal-binding, mRNA
processing; NMR {Saccharomyces cerevisiae}
Length = 146
Score = 25.9 bits (57), Expect = 8.6
Identities = 10/61 (16%), Positives = 17/61 (27%), Gaps = 2/61 (3%)
Query: 46 ETERKCFIEEIPEETQLLCVVLLAIIPFSYALYFHISETERKCFIEEIPEETQVIINYKT 105
E + C I E+ EE I + + + I + E +
Sbjct: 41 ENDIDCCIREVKEEIGFDLTDY--IDDNQFIERNIQGKNYKIFLISGVSEVFNFKPQVRN 98
Query: 106 E 106
E
Sbjct: 99 E 99
>3eeh_A Putative light and redox sensing histidine kinase; structural
genomic MCSG, protein structure initiative, midwest
center for STRU genomics; HET: PG5; 1.95A {Haloarcula
marismortui}
Length = 125
Score = 26.0 bits (58), Expect = 8.6
Identities = 7/25 (28%), Positives = 12/25 (48%), Gaps = 2/25 (8%)
Query: 223 RYREERFRATSESTNQRVFW-WSLA 246
E R R +E+TN + W ++
Sbjct: 7 AKSERRVRELTEATND-ILWEFTAD 30
>3lu0_C DNA-directed RNA polymerase subunit beta; E. coli RNA polymerase,
nucleotidyltransferase, transcription, transferase;
11.20A {Escherichia coli} PDB: 3iyd_C*
Length = 1342
Score = 27.0 bits (60), Expect = 9.5
Identities = 19/94 (20%), Positives = 37/94 (39%), Gaps = 14/94 (14%)
Query: 33 VIPFSYALYFHISETERKCFIEEIPEETQL-LCVVLLAIIPFSYALYFHISETERKCFIE 91
+ F Y ++ +K + +E + L L +P + ++ E E I+
Sbjct: 1141 LREFIQRAYDLGADVRQKVDLSTFSDEEVMRLAENLRKGMPIATPVFDGAKEAE----IK 1196
Query: 92 EIPEETQVIINYKTELFDTRTG---------GYM 116
E+ + + + + L+D RTG GYM
Sbjct: 1197 ELLKLGDLPTSGQIRLYDGRTGEQFERPVTVGYM 1230
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
0.323 0.136 0.407
Gapped
Lambda K H
0.267 0.0501 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,065,348
Number of extensions: 233434
Number of successful extensions: 441
Number of sequences better than 10.0: 1
Number of HSP's gapped: 439
Number of HSP's successfully gapped: 15
Length of query: 270
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 178
Effective length of database: 4,133,061
Effective search space: 735684858
Effective search space used: 735684858
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (25.9 bits)