RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12513
(159 letters)
>2kz9_A V-type proton ATPase subunit E; V-ATPase, proton transport; NMR
{Saccharomyces cerevisiae}
Length = 69
Score = 63.7 bits (155), Expect = 1e-14
Identities = 19/63 (30%), Positives = 38/63 (60%)
Query: 47 MALDDAAVEKQIERMVAFIQTEADEKLDDIRRKIEEDYQIERERVTRDGKASVDEEYAKK 106
AL V ++ +M AFI+ EA+EK +I+ K +++Y+IE+ + R+ ++D + K
Sbjct: 6 TALTPNQVNDELNKMQAFIRKEAEEKAKEIQLKADQEYEIEKTNIVRNETNNIDGNFKSK 65
Query: 107 YRQ 109
++
Sbjct: 66 LKK 68
>2dm9_A V-type ATP synthase subunit E; A-ATPase, structural genomics,
NPPSFA, national project on P structural and functional
analyses; 1.85A {Pyrococcus horikoshii} SCOP: d.81.4.1
PDB: 2dma_A 4dt0_A
Length = 198
Score = 49.2 bits (117), Expect = 5e-08
Identities = 15/75 (20%), Positives = 32/75 (42%)
Query: 57 QIERMVAFIQTEADEKLDDIRRKIEEDYQIERERVTRDGKASVDEEYAKKYRQVELRHRT 116
E ++ I EA+ K++ I + + + +E R+ +A + + Q EL +
Sbjct: 3 GAELIIQEINKEAERKIEYILNEARQQAEKIKEEARRNAEAKAEWIIRRAKTQAELEKQR 62
Query: 117 DCSNIKSEGRMNVMR 131
+N + E R +
Sbjct: 63 IIANARLEVRRKRLA 77
>3v6i_A V-type ATP synthase subunit E; peripheral stator stalk, right
handed coiled-coil, ATPase/SY ATP binding, membrane,
hydrolase; 2.25A {Thermus thermophilus} PDB: 3k5b_E
3j0j_J
Length = 187
Score = 43.8 bits (103), Expect = 4e-06
Identities = 14/74 (18%), Positives = 32/74 (43%)
Query: 51 DAAVEKQIERMVAFIQTEADEKLDDIRRKIEEDYQIERERVTRDGKASVDEEYAKKYRQV 110
+A + +++E + + EA+ K + ++R+ EE + + R +A +
Sbjct: 4 EAILSQEVEAEIQALLQEAEAKAEAVKREAEEKAKALLQARERALEAQYRAALRRAESAG 63
Query: 111 ELRHRTDCSNIKSE 124
EL T + + E
Sbjct: 64 ELLVATARTQARGE 77
Score = 28.3 bits (63), Expect = 0.94
Identities = 10/75 (13%), Positives = 24/75 (32%), Gaps = 2/75 (2%)
Query: 60 RMVAFIQTEADEKLDDIRRKIEEDYQIERERVTRDGKASVDEEYAKKYRQVELRHRTDCS 119
++ A + E + ++ + ++ E + + KA + Q R S
Sbjct: 2 KLEAILSQEVEAEIQALLQEAEAKAEAVKREAEEKAKALLQARERALEAQYRAALRRAES 61
Query: 120 NIKSEGRMNVMRLNA 134
+ + R A
Sbjct: 62 AGELL--VATARTQA 74
>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 = 37.9 bits (87), Expect = 8e-04
Identities = 35/165 (21%), Positives = 62/165 (37%), Gaps = 45/165 (27%)
Query: 6 LQSNKVLKVI--SLKLCDKSTFRS-FLKLPNAPDIFRP----PPTLLGMALDD------- 51
+ +K+ +I SL + + + +R F +L +F P P LL + D
Sbjct: 350 VNCDKLTTIIESSLNVLEPAEYRKMFDRLS----VFPPSAHIPTILLSLIWFDVIKSDVM 405
Query: 52 ---------AAVEKQIERMVAFI---QTEADEKLDD---IRRKIEEDYQIERERVTRDGK 96
+ VEKQ + I E KL++ + R I + Y I + + D
Sbjct: 406 VVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI 465
Query: 97 ASVDEEYAKKYRQVEL-RHRTDCSNIKSEGRMNVMR---LNAARW 137
++Y + + H NI+ RM + R L+ R+
Sbjct: 466 PPYLDQYFYSH----IGHH---LKNIEHPERMTLFRMVFLD-FRF 502
Score = 28.7 bits (63), Expect = 1.0
Identities = 21/130 (16%), Positives = 40/130 (30%), Gaps = 32/130 (24%)
Query: 4 NVLQSNKVLKVISLKLC-------DKSTF-------RSFLKLPNAPDIFRPPPTL----- 44
NV Q+ K +L C K + + L + P
Sbjct: 252 NV-QNAKAWNAFNLS-CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK 309
Query: 45 -LGMALDDAAVE-KQIE-RMVAFIQTEADEKLDDIRRKIEEDY--QIERERVTRDGKASV 99
L D E R ++ I A+ D + D + +++T ++S+
Sbjct: 310 YLDCRPQDLPREVLTTNPRRLSII---AESIRDGLATW---DNWKHVNCDKLTTIIESSL 363
Query: 100 DEEYAKKYRQ 109
+ +YR+
Sbjct: 364 NVLEPAEYRK 373
>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 = 33.9 bits (77), Expect = 0.019
Identities = 23/147 (15%), Positives = 47/147 (31%), Gaps = 33/147 (22%)
Query: 3 QNVLQSNKV--LKVISL-------KLCDKSTFRSFLKLPNAPDIFRPPPTLLGMALDDAA 53
L+ N + L L + K ++++ RP AL A
Sbjct: 93 NCYLEGNDIHAL-AAKLLQENDTTLVKTKELIKNYITARIMAK--RPFDKKSNSALFRAV 149
Query: 54 VEKQIERMVAFI-QTEADEKLDDIRRKIEEDYQIERERVTRDGKASVDE--EYAKKYRQV 110
E + + F Q D+ +++ R + + Y V + +++ +
Sbjct: 150 GEGNAQLVAIFGGQGNTDDYFEEL-RDLYQTYH-----------VLVGDLIKFSAETLSE 197
Query: 111 ELRHRTDCSNIKSEGRMNVMRLNAARW 137
+R D + ++G LN W
Sbjct: 198 LIRTTLDAEKVFTQG------LNILEW 218
Score = 27.3 bits (60), Expect = 3.0
Identities = 19/139 (13%), Positives = 39/139 (28%), Gaps = 48/139 (34%)
Query: 46 GMALD---DAAVEKQI-ERMVAFIQTEADEKLDDI----------------RRKIEEDYQ 85
GM +D + + + R + + DI ++I E+Y
Sbjct: 1630 GMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYS 1689
Query: 86 IERERVTRDGKAS---VDEEYAKKYRQVELRHRTDCSNIKSEGRMN--------VMRLNA 134
DGK + +E + R +G ++ + +
Sbjct: 1690 AMIFETIVDGKLKTEKIFKEINEHSTSYTFRS--------EKGLLSATQFTQPALTLMEK 1741
Query: 135 ARWSYDTGRIVPINIKSEG 153
A + +KS+G
Sbjct: 1742 AAFED---------LKSKG 1751
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.7 bits (66), Expect = 0.28
Identities = 10/57 (17%), Positives = 26/57 (45%), Gaps = 11/57 (19%)
Query: 51 DAAVEKQIERMVAFIQTEADEKLDDIRRKIEEDYQIERERV-TRDGKASVDEEYAKK 106
DAA + + +A + L++ ++ E Q+E+ ++ R D+ + ++
Sbjct: 102 DAASKVMEQEWRE----KAKKDLEEWNQRQSE--QVEKNKINNRI----ADKAFYQQ 148
Score = 25.1 bits (54), Expect = 9.6
Identities = 12/70 (17%), Positives = 31/70 (44%), Gaps = 19/70 (27%)
Query: 55 EKQIERMVAFIQTEADEKLDDIRRKIEEDYQIERERVTRDGKASVDEEYAKKYRQVELRH 114
E+Q +R+ ++LD + +E++++ + K ++E ++ QVE
Sbjct: 92 EEQRKRL---------QELDAASKVMEQEWREK-------AKKDLEEWNQRQSEQVEKNK 135
Query: 115 RTDCSNIKSE 124
+N ++
Sbjct: 136 I---NNRIAD 142
>3smt_A Histone-lysine N-methyltransferase SETD3; histone
methyltransferase, histone modification, LYSI
translational modification, structural genomics; HET:
SAM; 2.04A {Homo sapiens}
Length = 497
Score = 27.5 bits (60), Expect = 2.0
Identities = 14/55 (25%), Positives = 23/55 (41%), Gaps = 5/55 (9%)
Query: 59 ERMVAFIQTEADEKLDDIRRKIEEDYQIERERVTRDGKASVDEEYAKKYRQVELR 113
++ F++ A L + IEED + V ++ SV + A K R E
Sbjct: 423 VKLWTFLEDRASLLLKTYKTTIEED-----KSVLKNHDLSVRAKMAIKLRLGEKE 472
>3zq5_A Phytochrome-like protein CPH1; arginine finger, tandem GAF
domain, receptor, PAS domain, chromophore, sensory
transduction; HET: CYC; 1.95A {Synechocystis SP} PDB:
2vea_A*
Length = 520
Score = 27.3 bits (60), Expect = 2.6
Identities = 11/59 (18%), Positives = 19/59 (32%), Gaps = 1/59 (1%)
Query: 20 CDKSTFRSFLKLPNAPDIF-RPPPTLLGMALDDAAVEKQIERMVAFIQTEADEKLDDIR 77
+ N I R P LLG L + QI+ + + + L+ +
Sbjct: 35 LQEPDLTISQISANCTGILGRSPEDLLGRTLGEVFDSFQIDPIQSRLTAGQISSLNPSK 93
>2e58_A MNMC2; tRNA wobble uridine, modification enzyme, genetic CODE, 5-
methylaminomethyl-2-thiouridine, methyltransferase; HET:
SAM; 2.50A {Aquifex aeolicus}
Length = 308
Score = 26.8 bits (58), Expect = 3.8
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 70 DEKLDDIRRKIEEDYQIERERVTR 93
DEKLD +I DY ++ +++R
Sbjct: 285 DEKLDKEPLEILIDYLLKVYKISR 308
>2o8r_A Polyphosphate kinase; structural genomics, protein structure
initiative, PSI, nysgrc, NEW YORK structural genomics
research consortium; HET: MSE; 2.70A {Porphyromonas
gingivalis} SCOP: a.7.15.1 d.322.1.2 d.136.1.4 d.136.1.4
Length = 705
Score = 26.7 bits (60), Expect = 3.9
Identities = 7/40 (17%), Positives = 18/40 (45%), Gaps = 6/40 (15%)
Query: 79 KIEEDYQIERERVTRDGKASVDEEYAKKYRQV---ELRHR 115
++ + Y I +V+RD +D + + +++ R
Sbjct: 225 EVMDSYSI---KVSRDADLLLDAQRPEDLPGEIRKKVKTR 261
>2h21_A Ribulose-1,5 bisphosphate carboxylase/oxygenase; SET domain,
protein lysine methyltransferase, transferase; HET: SAM;
2.45A {Pisum sativum} SCOP: a.166.1.1 b.85.7.3 PDB:
2h23_A* 2h2e_A* 2h2j_A* 1p0y_A* 1ozv_A* 1mlv_A*
Length = 440
Score = 26.3 bits (57), Expect = 4.8
Identities = 10/64 (15%), Positives = 23/64 (35%), Gaps = 7/64 (10%)
Query: 51 DAAVEKQIERMV-AFIQTEADEKLDDIRRKIEEDYQIERERVTRDGKASVDEEYAKKYRQ 109
+ +V + E ++ ++ L IE+D ++ ++G A R+
Sbjct: 337 ELSVSRDNEELLCKAVREACKSALAGYHTTIEQDREL------KEGNLDSRLAIAVGIRE 390
Query: 110 VELR 113
E
Sbjct: 391 GEKM 394
>3rq0_A Glycosyl hydrolases family protein 16; structural genomics,
PSI-biology; HET: PG4 211; 2.02A {Mycobacterium
smegmatis}
Length = 269
Score = 25.9 bits (57), Expect = 5.7
Identities = 4/25 (16%), Positives = 9/25 (36%)
Query: 132 LNAARWSYDTGRIVPINIKSEGRMN 156
+AA+W+ R + +
Sbjct: 55 PSAAKWTIAKARETIQDPTYWEQPG 79
>3nrk_A LIC12922; NC domain, parvulin domain, SURA homology, probable
chaperon unknown function; 3.10A {Leptospira interrogans
serovar copenhaorganism_taxid}
Length = 325
Score = 26.0 bits (57), Expect = 5.7
Identities = 4/75 (5%), Positives = 25/75 (33%), Gaps = 12/75 (16%)
Query: 45 LGMALDDAAVEKQIERMVAFIQTEADEKL------------DDIRRKIEEDYQIERERVT 92
+ +++ V+ +IE+ + + ++ + ++ + +
Sbjct: 74 ESIQVNEQRVDSEIEKRMEVMGITNRKQFEKTMETSSGMPFELWVTELPYQIKKGQLLQL 133
Query: 93 RDGKASVDEEYAKKY 107
+ +E+ + +
Sbjct: 134 KIAVPPPNEQEIRSW 148
>3bxp_A Putative lipase/esterase; putative carboxylesterase, structural
genomics, joint center structural genomics, JCSG; HET:
EPE; 1.70A {Lactobacillus plantarum WCFS1} PDB: 3d3n_A*
Length = 277
Score = 26.0 bits (57), Expect = 5.8
Identities = 4/19 (21%), Positives = 9/19 (47%)
Query: 127 MNVMRLNAARWSYDTGRIV 145
++ + A+ D RI+
Sbjct: 94 IDWITTQASAHHVDCQRII 112
>1xdp_A Polyphosphate kinase; PPK, PPK complex with AMPPNP, AMPPNP,
transferase; HET: ATP; 2.50A {Escherichia coli} SCOP:
a.7.15.1 d.322.1.2 d.136.1.4 d.136.1.4 PDB: 1xdo_A*
Length = 687
Score = 26.3 bits (59), Expect = 6.2
Identities = 7/40 (17%), Positives = 15/40 (37%), Gaps = 6/40 (15%)
Query: 79 KIEEDYQIERERVTRDGKASVDEEYAKKYRQV---ELRHR 115
Y + ++TRD + + E ++ L+ R
Sbjct: 217 DALNAYSM---KMTRDAEYDLVHEMEASLMELMSSSLKQR 253
>3tvs_A Cryptochrome-1; circadian clock light entrainment, jetlag,
phosphorylation, gene regulation, signaling protein;
HET: TPO FAD; 2.30A {Drosophila melanogaster}
Length = 538
Score = 25.7 bits (57), Expect = 7.9
Identities = 5/34 (14%), Positives = 12/34 (35%)
Query: 67 TEADEKLDDIRRKIEEDYQIERERVTRDGKASVD 100
T+A LD+ + + ++ + D
Sbjct: 227 TQALLLLDERLKVEQHAFERGFYLPNQALPNIHD 260
>3mzn_A Glucarate dehydratase; lyase, structural genomics, protein
structure initiative, PS nysgrc; 1.85A {Chromohalobacter
salexigens} PDB: 3nfu_A
Length = 450
Score = 25.6 bits (56), Expect = 8.8
Identities = 17/95 (17%), Positives = 31/95 (32%), Gaps = 29/95 (30%)
Query: 63 AFIQTEADEKLDDIRRKIEEDYQIERERVTRDGKASV----------DEE----YAKKYR 108
+ D +R E +QI DGK +V D++ + Y+
Sbjct: 359 EITAIDTHWIWQDGQRITREPFQIR------DGKLTVPKTPGLGIELDDDKLMEAHETYK 412
Query: 109 QVELRHRTDCSNIKSEGRMNVMRLNAARWSYDTGR 143
++++ R D M+ W +D R
Sbjct: 413 RLDVTQRNDAMA---------MQYLIPGWEFDPKR 438
>1q06_A Transcriptional regulator CUER; MERR family transcriptional
regulator, copper efflux regulator; 2.07A {Escherichia
coli} SCOP: a.6.1.3 PDB: 1q05_A 1q07_A
Length = 135
Score = 25.0 bits (55), Expect = 9.5
Identities = 11/42 (26%), Positives = 20/42 (47%), Gaps = 4/42 (9%)
Query: 45 LGMALDD----AAVEKQIERMVAFIQTEADEKLDDIRRKIEE 82
+G L++ + +R A ++ EK+ +I R IEE
Sbjct: 56 VGFNLEESGELVNLFNDPQRHSADVKRRTLEKVAEIERHIEE 97
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
0.319 0.134 0.374
Gapped
Lambda K H
0.267 0.0531 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,432,427
Number of extensions: 141764
Number of successful extensions: 438
Number of sequences better than 10.0: 1
Number of HSP's gapped: 435
Number of HSP's successfully gapped: 41
Length of query: 159
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 73
Effective length of database: 4,300,587
Effective search space: 313942851
Effective search space used: 313942851
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.7 bits)