RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7603
(130 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 = 36.8 bits (84), Expect = 0.001
Identities = 20/104 (19%), Positives = 38/104 (36%), Gaps = 21/104 (20%)
Query: 4 DEDTSYVDSGNESSSDDIGYAMEVENQN-PKDRQ-NDVEEFVFEVLSTEEIVQHMIDCIK 61
D +T + DI + V + DV++ +LS EE ID I
Sbjct: 8 DFETGEHQYQYK----DI---LSVFEDAFVDNFDCKDVQDMPKSILSKEE-----IDHII 55
Query: 62 EVNNVVEIPATTTRILLNHFKWDKEKLMERYYDGDQESSTLDYS 105
+ V T L +E++++++ + E ++Y
Sbjct: 56 MSKDAVS----GTLRLFWTLLSKQEEMVQKFVE---EVLRINYK 92
>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 = 31.2 bits (70), Expect = 0.089
Identities = 15/97 (15%), Positives = 27/97 (27%), Gaps = 48/97 (49%)
Query: 38 DVEEFVFEVLSTE----------EIVQHMIDCIKEVNNVVEIPATTTRILLNHFKWDKEK 87
+ ++ V T I + ++DCI + KW+
Sbjct: 451 NAKDIQIPVYDTFDGSDLRVLSGSISERIVDCI-----------IRLPV-----KWET-- 492
Query: 88 LMERYYDGDQESSTLDYSASTSSGLVFSAVDFGSGGS 124
T + A+ +DFG GG+
Sbjct: 493 -------------TTQFKAT-------HILDFGPGGA 509
Score = 26.6 bits (58), Expect = 3.4
Identities = 7/24 (29%), Positives = 10/24 (41%)
Query: 105 SASTSSGLVFSAVDFGSGGSWFEF 128
A+ S + +AV SW F
Sbjct: 269 GATGHSQGLVTAVAIAETDSWESF 292
Score = 25.8 bits (56), Expect = 6.0
Identities = 15/66 (22%), Positives = 27/66 (40%), Gaps = 13/66 (19%)
Query: 3 SDEDTSYVDSGNESSSDDIGYAMEVENQNPKDRQ-------NDVEEFVFEVLSTEEIVQH 55
S E YV E G+ +E+ N N +++Q ++ VL+ ++
Sbjct: 1822 SQEALQYV---VERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVT-NVLNFIKL--Q 1875
Query: 56 MIDCIK 61
ID I+
Sbjct: 1876 KIDIIE 1881
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 27.8 bits (61), Expect = 0.96
Identities = 12/70 (17%), Positives = 21/70 (30%), Gaps = 13/70 (18%)
Query: 24 AMEVENQNPKDRQNDV------EEFVFEVLSTEEIVQHMIDCIKEVNNVVEIPATTTRIL 77
+E+ + K ++ V E E+ E + D + V E+ T
Sbjct: 150 GLELSDTKQKGKKFLVIAYEPFENIAIELPPNEILFSENNDMDNNNDGVDELNKKCTF-- 207
Query: 78 LNHFKWDKEK 87
WD
Sbjct: 208 -----WDAIS 212
>1qwj_A Cytidine monophospho-N-acetylneuraminic acid synthetase;
CMP-5-N-acetylneuraminic acid synthetase, CMP-NEU5AC,
sialic acid, glycosylation; HET: NCC; 2.80A {Mus
musculus} SCOP: c.68.1.13
Length = 229
Score = 26.8 bits (60), Expect = 1.7
Identities = 6/26 (23%), Positives = 14/26 (53%)
Query: 48 STEEIVQHMIDCIKEVNNVVEIPATT 73
++ + + ++ EV+ V I AT+
Sbjct: 80 TSLDAIVEFLNYHNEVDIVGNIQATS 105
>3oqs_A Importin subunit alpha-2; importin alpha, karyopherin alpha,
nuclear localisation SIGN recognition, chloride
intracellular channel 4, CLIC4 NLS; 2.00A {Mus musculus}
PDB: 3rz9_A 3rzx_A 1q1s_C 1q1t_C 3tpo_A 3knd_A 1ejy_I
1iq1_C 1ejl_I 1pjn_B 1pjm_B 3q5u_A 3fey_C 3fex_C 1ial_A
1y2a_C 3btr_C 3l3q_A* 3ve6_A 2c1m_A ...
Length = 510
Score = 27.3 bits (60), Expect = 1.8
Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 2/42 (4%)
Query: 87 KLMERYYDGDQESSTLDYSASTSSGLVFSAVDFGSGGSWFEF 128
L+E+Y+ ++E +TS G F D G F F
Sbjct: 471 NLIEKYFSVEEEEDQNVVPETTSEGFAFQVQDGAPGT--FNF 510
>1rrm_A Lactaldehyde reductase; structural genomics, dehydrogenase, PSI,
protein structure initiative; HET: APR; 1.60A
{Escherichia coli} SCOP: e.22.1.2 PDB: 2bi4_A* 2bl4_A*
Length = 386
Score = 26.4 bits (59), Expect = 2.8
Identities = 7/26 (26%), Positives = 12/26 (46%)
Query: 47 LSTEEIVQHMIDCIKEVNNVVEIPAT 72
+S EE ++ + +N V IP
Sbjct: 314 MSLEEARNAAVEAVFALNRDVGIPPH 339
>3ox4_A Alcohol dehydrogenase 2; iron, NAD, oxidoreductase; HET: NAD; 2.00A
{Zymomonas mobilis} PDB: 3owo_A*
Length = 383
Score = 26.3 bits (59), Expect = 2.8
Identities = 6/26 (23%), Positives = 13/26 (50%)
Query: 47 LSTEEIVQHMIDCIKEVNNVVEIPAT 72
L +E + I ++++ + IPA
Sbjct: 314 LGDKEGAEATIQAVRDLAASIGIPAN 339
>1wyz_A Putative S-adenosylmethionine-dependent methyltra; northeast
structural genomics consortium, BTR28, methyltrans PSI;
2.50A {Bacteroides thetaiotaomicron} SCOP: c.90.1.1
Length = 242
Score = 26.4 bits (59), Expect = 3.2
Identities = 3/21 (14%), Positives = 7/21 (33%)
Query: 73 TTRILLNHFKWDKEKLMERYY 93
+ R L + + +Y
Sbjct: 42 SARRFLKKVDREIDIDSLTFY 62
>3rf7_A Iron-containing alcohol dehydrogenase; structural genomics, joint
center for structural genomics, J protein structure
initiative, PSI; HET: NAD EPE; 2.12A {Shewanella
denitrificans}
Length = 375
Score = 26.1 bits (58), Expect = 3.3
Identities = 2/29 (6%), Positives = 7/29 (24%)
Query: 47 LSTEEIVQHMIDCIKEVNNVVEIPATTTR 75
+++ I + V +
Sbjct: 327 NICKDLPDETIAKMVAVTKSMGPLWDNVY 355
>3dra_B Geranylgeranyltransferase type I beta subunit;
geranylgeranyltrasferase, ggtase, ggtase-I, PGGT,
prenyltransferase, farnesyltransferase; HET: B3P GRG;
1.80A {Candida albicans}
Length = 390
Score = 25.9 bits (56), Expect = 4.4
Identities = 6/38 (15%), Positives = 17/38 (44%)
Query: 46 VLSTEEIVQHMIDCIKEVNNVVEIPATTTRILLNHFKW 83
L++ + H ++E+N ++ I + + K+
Sbjct: 353 ALASLSLWNHEKFALQEINPILTITKESYQFFKEEIKY 390
>3bfj_A 1,3-propanediol oxidoreductase; opportunistic pathogens, decamer,
structural genomics,struct proteomics in europe, spine;
2.70A {Klebsiella pneumoniae}
Length = 387
Score = 25.6 bits (57), Expect = 5.6
Identities = 7/26 (26%), Positives = 12/26 (46%)
Query: 47 LSTEEIVQHMIDCIKEVNNVVEIPAT 72
LST + + I I ++ + IP
Sbjct: 318 LSTLDAAEKAIAAITRLSMDIGIPQH 343
>1j98_A Autoinducer-2 production protein LUXS; autoinducer synthesis,
signaling protein; 1.20A {Bacillus subtilis} SCOP:
d.185.1.2 PDB: 1jqw_A 1jvi_A* 1ie0_A 2fqo_A* 2fqt_A*
1ycl_A*
Length = 157
Score = 25.4 bits (56), Expect = 5.7
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 47 LSTEEIVQHMIDCIKEVNNVVEIPATT 73
++ EIV + D +KE + EIPA
Sbjct: 96 TTSAEIVDLLEDTMKEAVEITEIPAAN 122
>1j6x_A Autoinducer-2 production protein LUXS; alpha-beta fold, signaling
protein; 2.38A {Helicobacter pylori} SCOP: d.185.1.2
Length = 160
Score = 25.0 bits (55), Expect = 6.4
Identities = 6/27 (22%), Positives = 15/27 (55%)
Query: 47 LSTEEIVQHMIDCIKEVNNVVEIPATT 73
+ EI++ + +++V E+PA+
Sbjct: 92 DNYTEILEVLEKTMQDVLKAKEVPASN 118
>3nkd_A Crispr-associated protein CAS1; crispr,CAS1,YGBT,nuclease, DNA
recombination, DNA repair, IM system; 1.95A {Escherichia
coli}
Length = 305
Score = 25.3 bits (55), Expect = 6.8
Identities = 8/40 (20%), Positives = 20/40 (50%)
Query: 24 AMEVENQNPKDRQNDVEEFVFEVLSTEEIVQHMIDCIKEV 63
A E+ +NP + +V ++ + + + +I I++V
Sbjct: 232 AFEIARRNPGEPDREVRLACRDIFRSSKTLAKLIPLIEDV 271
>3r2u_A Metallo-beta-lactamase family protein; structural genomics, for
structural genomics of infectious diseases, csgid, HYDR;
2.10A {Staphylococcus aureus}
Length = 466
Score = 25.4 bits (55), Expect = 7.5
Identities = 7/39 (17%), Positives = 18/39 (46%)
Query: 26 EVENQNPKDRQNDVEEFVFEVLSTEEIVQHMIDCIKEVN 64
+ N +N+ F+ +++S + H +K++N
Sbjct: 239 YEKQTNWAFSENNEATFIDKLISDQPAPPHHFAQMKKIN 277
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
0.311 0.129 0.365
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,943,097
Number of extensions: 102746
Number of successful extensions: 234
Number of sequences better than 10.0: 1
Number of HSP's gapped: 232
Number of HSP's successfully gapped: 25
Length of query: 130
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 47
Effective length of database: 4,384,350
Effective search space: 206064450
Effective search space used: 206064450
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 (21.8 bits)
S2: 52 (24.3 bits)