RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8046
(214 letters)
>3rls_A YAF9, protein AF-9 homolog; yeats domain, histone, transcription;
1.70A {Saccharomyces cerevisiae} PDB: 3fk3_A
Length = 175
Score = 124 bits (313), Expect = 2e-36
Identities = 50/138 (36%), Positives = 77/138 (55%), Gaps = 14/138 (10%)
Query: 8 KKRESDGHTHEWKVYIKPYYKEDLAKYIKKVSFKLHESYPVNVRILTKPPFEISETGWGE 67
HTH W ++++ ED++ +IKKV FKLH++YP VR + PPFE++ETGWGE
Sbjct: 24 PPNAPAEHTHLWTIFVRGPQNEDISYFIKKVVFKLHDTYPNPVRSIEAPPFELTETGWGE 83
Query: 68 FELVIKIYFHD-PNERPVTLYHMLKLFKTKDAACDATNSLLYN-------------EFYE 113
F++ IK+YF + NE+ + YH L+L + ++ N N +++
Sbjct: 84 FDINIKVYFVEEANEKVLNFYHRLRLHPYANPVPNSDNGNEQNTTDHNSKDAEVSSVYFD 143
Query: 114 EIIFNEPTLTMYKTLSST 131
EI+FNEP +K L S
Sbjct: 144 EIVFNEPNEEFFKILMSR 161
>3qrl_A Transcription initiation factor TFIID subunit 14; yeats domain, IG
fold, nucleus, nuclear protein; HET: PGE; 1.70A
{Saccharomyces cerevisiae} PDB: 2l7e_A
Length = 140
Score = 105 bits (263), Expect = 3e-29
Identities = 24/92 (26%), Positives = 35/92 (38%), Gaps = 4/92 (4%)
Query: 8 KKRESDGHTHEWKVYIKPY---YKEDLAKYIKKVSFKLHESYPVNVRILTKPPFEISETG 64
+ +W + I KE A KV + LH ++ R T PPF I E G
Sbjct: 24 VPPVENFPVRQWSIEIVLLDDEGKEIPATIFDKVIYHLHPTFANPNRTFTDPPFRIEEQG 83
Query: 65 WGEFELVIKIYFHDPNERPVTLYHMLKLFKTK 96
WG F L I ++ + + H L +
Sbjct: 84 WGGFPLDISVFLLE-KAGERKIPHDLNFLQES 114
>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 = 43.5 bits (102), Expect = 3e-05
Identities = 30/209 (14%), Positives = 54/209 (25%), Gaps = 72/209 (34%)
Query: 6 MGKKRESDGHTHEWKVYIKPYYKEDLAKYI-KKVSFKLHESYPVNVR-ILTKPPFEISET 63
MG Y A+ + + ++Y ++ I+ P ++
Sbjct: 1631 MGMDL---------------YKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLT-- 1673
Query: 64 GWGEFELVIKIYFHDPNERPVTLYHMLKLFKTKDAACDATNSLL--YNEFYEEIIFNEPT 121
I+F + + + +F+T T + NE F
Sbjct: 1674 ----------IHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEK 1723
Query: 122 LTMYKTLSSTVPHT-PA-------------------SASLIAAHSV-------------N 148
+ T T PA + + A HS+ +
Sbjct: 1724 GLLSAT-----QFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMS 1778
Query: 149 FESA-KASTLRGII--EAKKRLEREIGVY 174
ES + RG+ A R E Y
Sbjct: 1779 IESLVEVVFYRGMTMQVAVPRDELGRSNY 1807
Score = 37.7 bits (87), Expect = 0.002
Identities = 35/200 (17%), Positives = 52/200 (26%), Gaps = 85/200 (42%)
Query: 29 EDLAKYIKKVSFKLHESYPVNVRILTKPPF-EISETGWGEFE------------------ 69
E + K++ VS + S F ++ EFE
Sbjct: 59 ELVGKFLGYVSSLVEPS--------KVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQ 110
Query: 70 ----------LVIKIYFH--DPNERPVTLYHMLKLFKTKDAACDATNSLLYNEF------ 111
+IK Y +RP LF+ A N+ L F
Sbjct: 111 ENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFR----AVGEGNAQLVAIFGGQGNT 166
Query: 112 --YEEIIFNEPTL-TMYKTLSSTVPHTPASASLIAAHSVNFESAKASTLRGIIEAKKRLE 168
Y F E L +Y+T + LI A TL +I
Sbjct: 167 DDY----FEE--LRDLYQT------YHVLVGDLIKFS--------AETLSELIRTTLD-- 204
Query: 169 REIGVYKDKISTKLFTH-CD 187
+ K+FT +
Sbjct: 205 ----------AEKVFTQGLN 214
Score = 35.4 bits (81), Expect = 0.011
Identities = 29/177 (16%), Positives = 56/177 (31%), Gaps = 61/177 (34%)
Query: 28 KEDLAKYIKKVSFKLHESYPVNV--------RILTKPPFEISETGWGEFELVI------- 72
+E + Y+ K + L V + +++ PP S G L +
Sbjct: 346 QEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPP--QSLYG---LNLTLRKAKAPS 400
Query: 73 -----KIYFHDPNER---------PVTL-YH--MLKLFKTKDAACDATNSLLYNEFYEEI 115
+I F +ER PV +H +L A++ + + +
Sbjct: 401 GLDQSRIPF---SERKLKFSNRFLPVASPFHSHLLV---------PASDLINKDLVKNNV 448
Query: 116 IFNEPTLTM--YKT--------LSSTVPHTPASASLIAAHSVNFESAKASTLRGIIE 162
FN + + Y T LS ++ + I V +E+ I++
Sbjct: 449 SFNAKDIQIPVYDTFDGSDLRVLSGSI--SERIVDCIIRLPVKWETTTQFKATHILD 503
Score = 29.6 bits (66), Expect = 0.99
Identities = 30/181 (16%), Positives = 54/181 (29%), Gaps = 62/181 (34%)
Query: 12 SDGHTHEWKVY--------IKPYYKEDLAKYIKKVSFKLHESYPVNVRILTKPPFEISET 63
+G+ ++ Y++E L L+++Y V V L K +ET
Sbjct: 150 GEGNA---QLVAIFGGQGNTDDYFEE-LRD--------LYQTYHVLVGDLIK---FSAET 194
Query: 64 GWGEFELVI---KIYFH---------DPNERPVTLYHMLKLFKTKDAACDATNSL----- 106
+ K++ +P+ P Y L S
Sbjct: 195 LSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDY--L---------LSIPISCPLIGV 243
Query: 107 --LYNEFYEEIIFNEPTLT---MYKTLSSTVPHTPA--SASLIAAHSVNFESAKASTLRG 159
L + Y + T + L H+ +A IA + ++ES S +
Sbjct: 244 IQLAH--Y-VVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAE-TDSWESFFVSVRKA 299
Query: 160 I 160
I
Sbjct: 300 I 300
>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 = 34.4 bits (78), Expect = 0.024
Identities = 38/263 (14%), Positives = 72/263 (27%), Gaps = 84/263 (31%)
Query: 3 PLQMG--KKRESDGHTHEWKVYIKPYYKEDLAKYIKKVSFK------LHESY------PV 48
P ++ + DG W K + L I+ S + + P
Sbjct: 327 PRRLSIIAESIRDGLAT-WD-NWKHVNCDKLTTIIE-SSLNVLEPAEYRKMFDRLSVFPP 383
Query: 49 NVRILTKPPFEISETGWGE--FELVIKIY--FH-------DPNERPVTLYHMLKLFKTKD 97
+ I P + W + V+ + H P E +++ + K K
Sbjct: 384 SAHI----PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKL 439
Query: 98 AACDATNSLL---YN--EFYEEIIFNEPTLTMYKTLSSTVPHTPASASLIAAHSVNFESA 152
A + + YN + ++ P L Y S I H N E
Sbjct: 440 ENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQY------------FYSHIGHHLKNIEHP 487
Query: 153 -KASTLRGI------IEAKKRLE--------------REIGVYKDKISTK---------- 181
+ + R + +E K R + +++ YK I
Sbjct: 488 ERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNA 547
Query: 182 ----LFTHCDSYVLCPKNNFWQI 200
L ++ + + +I
Sbjct: 548 ILDFLPKIEENLICSKYTDLLRI 570
Score = 27.9 bits (61), Expect = 2.9
Identities = 25/139 (17%), Positives = 44/139 (31%), Gaps = 24/139 (17%)
Query: 86 LYHMLKLFKTKDAAC----DATNSLLYNEFYEEIIFNEP-----TLTMYKTLSSTVPHTP 136
L F + C D S+L E + II TL ++ TL S
Sbjct: 22 LSVFEDAFV-DNFDCKDVQDMPKSILSKEEIDHII-MSKDAVSGTLRLFWTLLSK-QEEM 78
Query: 137 ASASLIAAHSVNFESAKASTLRGIIEAKKRLEREIGVYKDKISTKLFTHCDSYVLCPKNN 196
+ +N++ S ++ + R +D++ + D+ V K N
Sbjct: 79 VQKFVEEVLRINYKFL-MSPIKTEQRQPSMMTRMYIEQRDRL------YNDNQVF-AKYN 130
Query: 197 FW---QIDNLKNHFNKELQ 212
L+ EL+
Sbjct: 131 VSRLQPYLKLRQAL-LELR 148
>2olt_A Hypothetical protein; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2, unknown function; HET: MSE; 2.00A {Shewanella
oneidensis} PDB: 2iiu_A*
Length = 227
Score = 30.3 bits (68), Expect = 0.33
Identities = 15/112 (13%), Positives = 33/112 (29%), Gaps = 1/112 (0%)
Query: 79 PNERPVTLYHMLKLFKTKDAACDATNSLLYNEFYEEIIFNEPTLTMYKTLSSTVPHT-PA 137
P ER L + + K + A D + ++ + P + + V
Sbjct: 80 PVERTDLLELLTQQDKIANKAKDISGRVIGRQLLIPQALQVPFIAYLQRCIDAVGLAQQV 139
Query: 138 SASLIAAHSVNFESAKASTLRGIIEAKKRLEREIGVYKDKISTKLFTHCDSY 189
L F + + +I +E + + ++ +LF
Sbjct: 140 INELDDLLEAGFRGREVDFVAKMINELDIIEEDTDDLQIQLRRQLFALESEL 191
>3bma_A D-alanyl-lipoteichoic acid synthetase; structural genomics,
D-alanyl-lipoteichoic acid biosynthesis structure
initiative, PSI-2; 2.24A {Streptococcus pneumoniae}
Length = 407
Score = 30.7 bits (69), Expect = 0.36
Identities = 15/79 (18%), Positives = 33/79 (41%), Gaps = 11/79 (13%)
Query: 28 KEDLAKYIKKVSFKLHESYPVNVRILTKPPFE---------ISETGWGEFELVIKIYFHD 78
++ + ++K+ ++L N+ +K E + GW F+ + + +
Sbjct: 311 EDMYQQTVQKIRYQLESQGFTNIADFSKDGGEPFFMKDTIHLGWLGWLAFDKAVDPFLSN 370
Query: 79 PNERPVTLYHMLKLFKTKD 97
P P YH+ + F +KD
Sbjct: 371 PTPAPT--YHLNERFFSKD 387
>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 = 26.8 bits (58), Expect = 3.4
Identities = 8/38 (21%), Positives = 15/38 (39%), Gaps = 14/38 (36%)
Query: 126 KTLSSTV-PHTPASASLIAAHSVNFESAKASTLRGIIE 162
K L +++ + SA +A KA+ +E
Sbjct: 23 KKLQASLKLYADDSAPALA--------IKAT-----ME 47
>3n05_A NH(3)-dependent NAD(+) synthetase; ligase, structural genomics,
protein structure initiative, P nysgrc; 2.35A
{Streptomyces avermitilis}
Length = 590
Score = 27.3 bits (61), Expect = 4.5
Identities = 7/28 (25%), Positives = 16/28 (57%)
Query: 30 DLAKYIKKVSFKLHESYPVNVRILTKPP 57
LA++ + + + ++ P+ +TKPP
Sbjct: 467 RLAEWRNRAAAERGQTPPIPEASITKPP 494
>3bow_A Calpain-2 catalytic subunit; cysteine protease, inhibitor, cell
membrane, hydrolase, MEMB protease, thiol protease,
phosphoprotein; 2.40A {Rattus norvegicus} PDB: 3df0_A
1df0_A 1u5i_A 1kfu_L 1kfx_L
Length = 714
Score = 27.1 bits (59), Expect = 5.6
Identities = 10/52 (19%), Positives = 18/52 (34%), Gaps = 8/52 (15%)
Query: 84 VTLYHMLKLFKTKDAACDATNSLLYNEFYEEIIFNEPTLTMYKTLSSTVPHT 135
V L + K+FK D T L + ++ L++ + H
Sbjct: 667 VRLEILFKIFKQLDPENTGTIQLDLISWLS--------FSVLGKLAAALEHH 710
>2cnd_A NADH-dependent nitrate reductase; nitrate assimilating enzyme,
oxidoreductase, nitrogenous acceptor; HET: FAD; 2.50A
{Zea mays} SCOP: b.43.4.2 c.25.1.1 PDB: 1cnf_A* 1cne_A*
Length = 270
Score = 26.3 bits (58), Expect = 7.7
Identities = 6/17 (35%), Positives = 13/17 (76%)
Query: 66 GEFELVIKIYFHDPNER 82
G F+L++K+YF + + +
Sbjct: 74 GHFDLLVKVYFKNEHPK 90
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
0.318 0.134 0.402
Gapped
Lambda K H
0.267 0.0496 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,235,750
Number of extensions: 181430
Number of successful extensions: 440
Number of sequences better than 10.0: 1
Number of HSP's gapped: 434
Number of HSP's successfully gapped: 24
Length of query: 214
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 124
Effective length of database: 4,188,903
Effective search space: 519423972
Effective search space used: 519423972
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.5 bits)