RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9207
(125 letters)
>1rz4_A Eukaryotic translation initiation factor 3 subuni; heat analogous
motif, winged-helix, biosynthetic protein; 2.10A {Homo
sapiens} SCOP: a.4.5.53 a.118.1.18
Length = 226
Score = 54.3 bits (130), Expect = 3e-10
Identities = 23/113 (20%), Positives = 43/113 (38%), Gaps = 4/113 (3%)
Query: 1 MSHPEIGQVWEVGKHLWNGNYPSIYSTLKRTWSDDIAHIMKALQDEVQKRAISLISKAYS 60
I Q+ +G L ++ + + L + D+ + +D V+K ++ Y
Sbjct: 94 QEERPIRQILYLGDLLETCHFQAFWQALDE--NMDLLEGITGFEDSVRKFICHVVGITYQ 151
Query: 61 SIPNTSLSEFLGVT-EQEAAAIAQAEGWTVDKVYTQPVKKPEEYATP-NITDD 111
I L+E LG + + GW+ D+ + EE P NI +
Sbjct: 152 HIDRWLLAEMLGDLSDSQLKVWMSKYGWSADESGQIFICSQEESIKPKNIVEK 204
>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 = 33.7 bits (76), Expect = 0.010
Identities = 24/109 (22%), Positives = 38/109 (34%), Gaps = 17/109 (15%)
Query: 18 NGNYPSIYSTLKRTWSDDIAHIMKALQDEVQKRAISLISK----AYSSIPNTSLSEFLGV 73
+ + P+ L W D I + + +++ K SL+ K + SIP+ L E
Sbjct: 384 SAHIPT--ILLSLIWFDVIKSDVMVVVNKLHKY--SLVEKQPKESTISIPSIYL-ELKVK 438
Query: 74 TEQEAAAIAQAEGWTVDKVYTQPVKKPEEYATPNITDDQLYILTQYVSF 122
E E A VD Y P + P D Y ++
Sbjct: 439 LENEYALHRSI----VDH-YNIPKTFDSDDLIPPYLDQ--YFY-SHIGH 479
Score = 29.4 bits (65), Expect = 0.30
Identities = 11/84 (13%), Positives = 28/84 (33%), Gaps = 13/84 (15%)
Query: 33 SDDIAHIMKALQDEVQKRAI--SLISKAYSSIPNTSLSEFLGVTEQEAAAIAQAEGWTVD 90
++I HI+ + + +L+SK + +F+ + + +
Sbjct: 48 KEEIDHIIMSKDAVSGTLRLFWTLLSK-----QEEMVQKFVE------EVLRINYKFLMS 96
Query: 91 KVYTQPVKKPEEYATPNITDDQLY 114
+ T+ + D+LY
Sbjct: 97 PIKTEQRQPSMMTRMYIEQRDRLY 120
>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 = 32.3 bits (73), Expect = 0.030
Identities = 19/113 (16%), Positives = 45/113 (39%), Gaps = 33/113 (29%)
Query: 26 STLKRTWSDDIAHIMKAL---Q-------DEVQKRAISLISKAYSSIPNTSLSEFLGVTE 75
S L R + A ++ A+ Q +E++ + + Y + + + + +
Sbjct: 143 SALFRAVGEGNAQLV-AIFGGQGNTDDYFEELRD-----LYQTYHVL----VGDLIKFSA 192
Query: 76 QEAAAIAQAEGWTVDKVYTQPV------KKPEEYATPNITDDQLYILTQYVSF 122
+ + + + +KV+TQ + + P TP D+ Y+L+ +S
Sbjct: 193 ETLSELIRTT-LDAEKVFTQGLNILEWLENPS--NTP----DKDYLLSIPISC 238
Score = 29.2 bits (65), Expect = 0.36
Identities = 14/76 (18%), Positives = 24/76 (31%), Gaps = 26/76 (34%)
Query: 38 HIMKALQDEVQKRAISLISKAYSSIPN---TSLSEF------LGVTEQE----------- 77
+I++ L++ + S P L+ + LG T E
Sbjct: 214 NILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGH 273
Query: 78 ------AAAIAQAEGW 87
A AIA+ + W
Sbjct: 274 SQGLVTAVAIAETDSW 289
Score = 25.8 bits (56), Expect = 5.7
Identities = 16/122 (13%), Positives = 27/122 (22%), Gaps = 52/122 (42%)
Query: 2 SHPEIGQVWE-VGKHLWNGNYPSI--------------------------YSTLKRTWSD 34
+ VW H + SI YS +
Sbjct: 1638 TSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIV 1697
Query: 35 DIAHIMKALQDEVQKRAISLISKAYSSIPNTSLSEFLGVTEQEAAAIAQAEGWTVDKVYT 94
D + + E+ + + S + S L T+ +T
Sbjct: 1698 DGKLKTEKIFKEINEHSTSYT---FRS-EK----GLLSATQ-----------------FT 1732
Query: 95 QP 96
QP
Sbjct: 1733 QP 1734
>3t5v_A Nuclear mRNA export protein SAC3; PCI, mRNA nuclear export, mRNA,
nuclear, transcription; 2.90A {Saccharomyces cerevisiae}
Length = 316
Score = 31.7 bits (71), Expect = 0.040
Identities = 9/78 (11%), Positives = 22/78 (28%), Gaps = 6/78 (7%)
Query: 19 GNYPSIYSTLKRTWSDDI-AHIMKALQDEVQKRAISLISKAYSS----IPNTSLSEFLGV 73
Y + ++ + ++ +++ A+ +S + IP L L
Sbjct: 177 NFYARFFQLMQSPSLPLLMGFFLQMHLTDIRFYALRALSHTLNKKHKPIPFIYLENMLLF 236
Query: 74 -TEQEAAAIAQAEGWTVD 90
QE +
Sbjct: 237 NNRQEIIEFCNYYSIEII 254
>1ufm_A COP9 complex subunit 4; helix-turn-helix, structural genomics,
riken structural genomics/proteomics initiative, RSGI,
signaling protein; NMR {Mus musculus} SCOP: a.4.5.47
Length = 84
Score = 28.2 bits (63), Expect = 0.23
Identities = 9/42 (21%), Positives = 16/42 (38%)
Query: 37 AHIMKALQDEVQKRAISLISKAYSSIPNTSLSEFLGVTEQEA 78
+ L V + + SK Y++I L L + +A
Sbjct: 6 SGGSSILDRAVIEHNLLSASKLYNNITFEELGALLEIPAAKA 47
>2fp3_A Caspase NC; apoptosis, initiator caspase activation, dimerization,
active site conformation, hydrolysis/apoptosis complex;
2.50A {Drosophila melanogaster}
Length = 316
Score = 28.2 bits (62), Expect = 0.61
Identities = 6/39 (15%), Positives = 11/39 (28%)
Query: 29 KRTWSDDIAHIMKALQDEVQKRAISLISKAYSSIPNTSL 67
D+ I+K + V + S + N
Sbjct: 265 DHAHDTDLEDILKKTSEAVGNKRTKKGSMQTGAYDNLGF 303
>3l9f_A Putative uncharacterized protein SMU.1604C; PADR, transcription
regulator; 1.80A {Streptococcus mutans}
Length = 204
Score = 27.2 bits (60), Expect = 1.2
Identities = 6/16 (37%), Positives = 11/16 (68%)
Query: 15 HLWNGNYPSIYSTLKR 30
+ ++G Y IY TL++
Sbjct: 65 YFYDGTYGMIYPTLRK 80
>1yg2_A Gene activator APHA; virulence factor, winged helix, transcripti
factor, transcription; 2.20A {Vibrio cholerae} SCOP:
a.4.5.61
Length = 179
Score = 26.7 bits (59), Expect = 1.9
Identities = 3/16 (18%), Positives = 8/16 (50%)
Query: 15 HLWNGNYPSIYSTLKR 30
+ W ++ +Y L +
Sbjct: 31 YFWKASHQQVYRELNK 46
>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A
{Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20
c.37.1.20
Length = 854
Score = 26.0 bits (58), Expect = 4.0
Identities = 13/56 (23%), Positives = 22/56 (39%), Gaps = 5/56 (8%)
Query: 35 DIAHIMKALQDEVQKRAISLISKAYSSIPNTSLSEFLGVTEQEAAAIAQAEGWTVD 90
D+ H+ L + + A L+ KA + E+E A + + EG V
Sbjct: 30 DLPHLWAVLLKDERSLAWRLLEKA-----GADPKALKELQERELARLPKVEGAEVG 80
>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain,
ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus}
SCOP: c.37.1.20 PDB: 1nsf_A*
Length = 272
Score = 25.5 bits (56), Expect = 5.2
Identities = 9/52 (17%), Positives = 22/52 (42%), Gaps = 4/52 (7%)
Query: 33 SDDIAHIMKALQDEVQ----KRAISLISKAYSSIPNTSLSEFLGVTEQEAAA 80
+ I + ++ + K+ + LI + P + +FL + +E A+
Sbjct: 216 DKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVRKFLALLREEGAS 267
>2kui_A PKNB, serine/threonine-protein kinase PKNB; external domain,
signaling, STPK, resuscitation, transferase; NMR
{Mycobacterium tuberculosis}
Length = 275
Score = 25.4 bits (56), Expect = 5.4
Identities = 8/38 (21%), Positives = 13/38 (34%)
Query: 60 SSIPNTSLSEFLGVTEQEAAAIAQAEGWTVDKVYTQPV 97
S + + G+ +A +A GWT V
Sbjct: 205 SKGNQFVMPDLSGMFWVDAEPRLRALGWTGMLDKGADV 242
>1iuk_A Hypothetical protein TT1466; structural genomics, riken structural
genomics/proteomics initiative, RSGI, unknown function;
1.70A {Thermus thermophilus} SCOP: c.2.1.8 PDB: 1iul_A
Length = 140
Score = 24.9 bits (54), Expect = 6.2
Identities = 4/19 (21%), Positives = 6/19 (31%)
Query: 71 LGVTEQEAAAIAQAEGWTV 89
G+ E + G V
Sbjct: 102 SGIRHPEFEKALKEAGIPV 120
>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain,
DNA-binding, transcription regulation, transmembrane;
1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A
Length = 372
Score = 25.1 bits (54), Expect = 8.7
Identities = 8/47 (17%), Positives = 15/47 (31%)
Query: 13 GKHLWNGNYPSIYSTLKRTWSDDIAHIMKALQDEVQKRAISLISKAY 59
G + + Y +D + + KAL +R + K
Sbjct: 144 GSTMLDKRYVITNGNQLAIQNDLLESLSKALNQPWPQRMQETLQKIL 190
>2r6a_C DNAG primase, helicase binding domain, replicative helicase;
replication, DNAB; 2.90A {Geobacillus
stearothermophilus} PDB: 2r6c_G 1z8s_A*
Length = 143
Score = 24.4 bits (53), Expect = 9.8
Identities = 6/49 (12%), Positives = 18/49 (36%), Gaps = 4/49 (8%)
Query: 11 EVGKHLWNGNYPSIYSTLKRTWSD----DIAHIMKALQDEVQKRAISLI 55
+G + ++ + + + + D ++ + E+Q A L
Sbjct: 30 RIGGRFNIEEHRALAAYIYAFYEEGHEADPGALISRIPGELQPLASELS 78
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 0.128 0.378
Gapped
Lambda K H
0.267 0.0477 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,941,529
Number of extensions: 102275
Number of successful extensions: 207
Number of sequences better than 10.0: 1
Number of HSP's gapped: 206
Number of HSP's successfully gapped: 21
Length of query: 125
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 43
Effective length of database: 4,412,271
Effective search space: 189727653
Effective search space used: 189727653
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: 51 (24.0 bits)