RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy963
(128 letters)
>2qai_A V-type ATP synthase subunit F; VATF_pyrfu, ATPF, NESG, structural
genomics, PSI-2, protein structure initiative; 2.40A
{Pyrococcus furiosus}
Length = 111
Score = 73.7 bits (181), Expect = 2e-18
Identities = 27/94 (28%), Positives = 42/94 (44%), Gaps = 18/94 (19%)
Query: 9 VGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVG 68
+ ++GD D+VVGF L G+ + + + R L+ R DVG
Sbjct: 3 IVVMGDSDTVVGFRLAGVHE------------AYEYDESLESVERARNKLRELLERDDVG 50
Query: 69 IVLITRLVADRIRHTLDIRERSNQVYPIVLEIPS 102
I+LIT +A RI + +PI+L+IP
Sbjct: 51 IILITERLAQRIGSLPE------VKFPIILQIPD 78
>3aon_B V-type sodium ATPase subunit G; V-ATPase, coiled-coil, alpha/beta
fold, hydrol Na(+)-ATPase, NTPA3-NTPB3, NTPC, central
AXIS; HET: MSE; 2.00A {Enterococcus hirae}
Length = 115
Score = 65.5 bits (160), Expect = 4e-15
Identities = 23/94 (24%), Positives = 39/94 (41%), Gaps = 20/94 (21%)
Query: 9 VGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVG 68
+G++GD+DSV F L G V T EI + + + G
Sbjct: 5 IGVVGDKDSVSPFRLFGFD--------------VQHG---TTKTEIRKTIDEMAKN-EYG 46
Query: 69 IVLITRLVADRIRHTLDIRERSNQVYPIVLEIPS 102
++ IT A+ + T++ Q+ P ++ IPS
Sbjct: 47 VIYITEQCANLVPETIE--RYKGQLTPAIILIPS 78
>2d00_A V-type ATP synthase subunit F; V-ATPase, CHEY, FRET, hydrolase;
2.20A {Thermus thermophilus} SCOP: c.149.1.1 PDB:
3a5c_H* 3a5d_H 3j0j_H*
Length = 109
Score = 61.7 bits (150), Expect = 1e-13
Identities = 17/94 (18%), Positives = 34/94 (36%), Gaps = 18/94 (19%)
Query: 9 VGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVG 68
+ +I D ++ GF L G+ + + A+E + TLV R
Sbjct: 6 MAVIADPETAQGFRLAGL--------------EGYGA---SSAEEAQSLLETLVERGGYA 48
Query: 69 IVLITRLVADRIRHTLDIRERSNQVYPIVLEIPS 102
+V + + ++ R + P++L I
Sbjct: 49 LVAVDEALLPDPERAVE-RLMRGRDLPVLLPIAG 81
>2i4r_A V-type ATP synthase subunit F; NESG, GR52A, ATP synthesis,
hydrolase, structural genomics, protein structure
initiative; 2.80A {Archaeoglobus fulgidus} SCOP:
c.149.1.1
Length = 102
Score = 59.7 bits (145), Expect = 5e-13
Identities = 23/94 (24%), Positives = 45/94 (47%), Gaps = 17/94 (18%)
Query: 9 VGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVG 68
+ ++GD D +GF+L GI S+++ V + +EI A +++R DVG
Sbjct: 12 LAVVGDPDFTIGFMLAGI-------------SDIYEVTSD---EEIVKAVEDVLKRDDVG 55
Query: 69 IVLITRLVADRIRHTLDIRERSNQVYPIVLEIPS 102
+V++ + ++ L RE +V P + +
Sbjct: 56 VVIMKQEYLKKLPPVL-RREIDEKVEPTFVSVGG 88
>2ov6_A V-type ATP synthase subunit F; F subunit, A1AO ATP synthase,
hydrolase; NMR {Methanosarcina mazei}
Length = 101
Score = 54.4 bits (131), Expect = 5e-11
Identities = 20/94 (21%), Positives = 35/94 (37%), Gaps = 17/94 (18%)
Query: 9 VGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVG 68
+ +IG + V GF L GI S V+ E A R+++ VG
Sbjct: 3 LAVIGKSEFVTGFRLAGI-------------SKVYETPDI---PATESAVRSVLEDKSVG 46
Query: 69 IVLITRLVADRIRHTLDIRERSNQVYPIVLEIPS 102
I+++ + L + + V P V+ +
Sbjct: 47 ILVMHNDDIGNLPEVLR-KNLNESVQPTVVALGG 79
>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 = 32.5 bits (73), Expect = 0.028
Identities = 10/82 (12%), Positives = 32/82 (39%), Gaps = 13/82 (15%)
Query: 43 FVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLDI--RERSNQVYPIVLEI 100
FV + + +++D ++++ + ++ +++++ ++ V V E
Sbjct: 29 FVDNFD--CKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEE- 85
Query: 101 PSALDAFHY-----TITDEDKQ 117
+ +Y I E +Q
Sbjct: 86 ---VLRINYKFLMSPIKTEQRQ 104
>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET:
DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11
e.13.1.2
Length = 503
Score = 28.2 bits (62), Expect = 0.82
Identities = 9/52 (17%), Positives = 17/52 (32%), Gaps = 3/52 (5%)
Query: 31 ITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLI---TRLVADR 79
I + V S D+ D + + + T V +V+I +
Sbjct: 359 ILDHISIVVSASGESDERKMIDNLMTKLKGFAKSTGVVLVVICHLKNPDKGK 410
>3t8b_A 1,4-dihydroxy-2-naphthoyl-COA synthase; crotonase superfamily,
lyase; 1.65A {Mycobacterium tuberculosis} PDB: 3t8a_A
1rjm_A* 1rjn_A* 1q52_A 1q51_A
Length = 334
Score = 27.1 bits (60), Expect = 1.5
Identities = 17/82 (20%), Positives = 24/82 (29%), Gaps = 7/82 (8%)
Query: 52 DEIEDAFRTLVRRTDVGIVLITRLVADRIRHTL------DIRERSNQVYPIV-LEIPSAL 104
DE+ DVG+VL+T D R R Y + +
Sbjct: 87 DELYRVLDHARMSPDVGVVLLTGNGPSPKDGGWAFCSGGDQRIRGRSGYQYASGDTADTV 146
Query: 105 DAFHYTITDEDKQCRNIATLPK 126
D + R I +PK
Sbjct: 147 DVARAGRLHILEVQRLIRFMPK 168
>3eau_A Voltage-gated potassium channel subunit beta-2; kvbeta, cortisone,
NADPH, cytoplasm, ION transport, ionic channel, NADP,
phosphoprotein; HET: NDP PDN; 1.82A {Rattus norvegicus}
SCOP: c.1.7.1 PDB: 2r9r_A* 2a79_A* 3lnm_A* 1exb_A*
3eb4_A* 3eb3_A* 1qrq_A* 1zsx_A*
Length = 327
Score = 27.1 bits (61), Expect = 1.5
Identities = 11/55 (20%), Positives = 22/55 (40%), Gaps = 6/55 (10%)
Query: 46 DKETPADEIEDAFRTLVRRTDVGIVL---ITRLVADRIRHTLDIRERSNQVYPIV 97
D TP +E A ++ + G+ + +R + I + + N + PI
Sbjct: 127 DPNTPMEETVRAMTHVINQ---GMAMYWGTSRWSSMEIMEAYSVARQFNLIPPIC 178
>3lut_A Voltage-gated potassium channel subunit beta-2; voltage gating,
potassium channel, KV1.2, gating charges, no analysis,
ION transport; HET: NAP; 2.90A {Rattus norvegicus}
Length = 367
Score = 27.2 bits (61), Expect = 1.6
Identities = 11/55 (20%), Positives = 22/55 (40%), Gaps = 6/55 (10%)
Query: 46 DKETPADEIEDAFRTLVRRTDVGIVL---ITRLVADRIRHTLDIRERSNQVYPIV 97
D TP +E A ++ + G+ + +R + I + + N + PI
Sbjct: 161 DPNTPMEETVRAMTHVINQ---GMAMYWGTSRWSSMEIMEAYSVARQFNLIPPIC 212
>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 = 26.9 bits (59), Expect = 2.0
Identities = 26/171 (15%), Positives = 50/171 (29%), Gaps = 83/171 (48%)
Query: 4 EVLQLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTS-----------NVFVVDKETPAD 52
E L+ GLI D+ GH S +V
Sbjct: 1745 EDLKSKGLI-PADATF------AGH-----------SLGEYAALASLADVM--------- 1777
Query: 53 EIEDAFRTLVR----------------RTDVGIVLI--TRLVA----DRIRHTLD-IRER 89
IE +V R++ G++ I R+ A + +++ ++ + +R
Sbjct: 1778 SIESLVE-VVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKR 1836
Query: 90 SNQVYPIVLEI---------------PSALDAFHYTITDEDKQCRNIATLP 125
+ ++EI ALD + + K + I +
Sbjct: 1837 TGW----LVEIVNYNVENQQYVAAGDLRALDTVT-NVLNFIK-LQKIDIIE 1881
>1b7y_B Phers, protein (phenylalanyl-tRNA synthetase); enzyme, alpha/beta
homodimer, ligase; HET: FYA; 2.50A {Thermus
thermophilus} SCOP: a.6.1.1 a.6.1.1 b.40.4.4 b.153.1.1
d.58.13.1 d.104.1.1 PDB: 1b70_B* 1eiy_B 1jjc_B* 1pys_B
2akw_B* 2aly_B* 2amc_B* 3hfz_B* 3teh_B* 2iy5_B*
Length = 785
Score = 26.7 bits (60), Expect = 2.3
Identities = 7/17 (41%), Positives = 8/17 (47%)
Query: 43 FVVDKETPADEIEDAFR 59
VV TP E+E R
Sbjct: 699 VVVPAPTPYGEVEALVR 715
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 26.8 bits (59), Expect = 2.4
Identities = 10/49 (20%), Positives = 17/49 (34%), Gaps = 8/49 (16%)
Query: 68 GIVLITRLVADRIRHTLDIRERSNQVYPIVLEIPSALDAFHYTITDEDK 116
GI +I + L + +Y IV +A D ++ K
Sbjct: 1184 GIQIIMQA-----DLAL---KMGVPIYGIVAMAATATDKIGRSVPAPGK 1224
>3pco_B Phenylalanyl-tRNA synthetase, beta chain; aminoacylation,
tRNA-binding, DNA-binding domain, four-helix
aminoacyl-tRNA synthetase, ATP-binding; HET: PHE AMP;
3.02A {Escherichia coli}
Length = 795
Score = 26.3 bits (59), Expect = 3.8
Identities = 5/17 (29%), Positives = 8/17 (47%)
Query: 43 FVVDKETPADEIEDAFR 59
VV + PA +I +
Sbjct: 712 VVVAENVPAADILSECK 728
>1zsy_A Mitochondrial 2-enoyl thioester reductase; medium-chain
dehydrogenase/reductase, oxidoreductase, 2-ENOY
thioester reductase; 1.75A {Homo sapiens} PDB: 2vcy_A
Length = 357
Score = 26.1 bits (58), Expect = 3.9
Identities = 6/67 (8%), Positives = 17/67 (25%), Gaps = 10/67 (14%)
Query: 17 SVVGFLLGGIGHQTITPPLQTVTSNVF----------VVDKETPADEIEDAFRTLVRRTD 66
+ GF L + + + + P + + A ++
Sbjct: 290 KLRGFWLSQWKKDHSPDQFKELILTLCDLIRRGQLTAPACSQVPLQDYQSALEASMKPFI 349
Query: 67 VGIVLIT 73
++T
Sbjct: 350 SSKQILT 356
>2rhq_B Phenylalanyl-tRNA synthetase beta chain; heterotetramer,
phenylalanine, aminoacyl-tRNA synthetase, ATP-binding,
cytoplasm, ligase; HET: GAX; 2.20A {Staphylococcus
haemolyticus} PDB: 2rhs_B*
Length = 795
Score = 25.9 bits (58), Expect = 4.4
Identities = 3/17 (17%), Positives = 8/17 (47%)
Query: 43 FVVDKETPADEIEDAFR 59
V+ + P+ E++
Sbjct: 715 LEVNHDVPSSELKQIIH 731
>2eih_A Alcohol dehydrogenase; zinc ION binding protein, structural
genomics, NPPSFA, natio project on protein structural
and functional analyses; 2.30A {Thermus thermophilus}
Length = 343
Score = 25.6 bits (57), Expect = 5.0
Identities = 9/29 (31%), Positives = 13/29 (44%), Gaps = 1/29 (3%)
Query: 44 VVDKETPADEIEDAFRTLVRRTDVG-IVL 71
VV + P + + R L R G +VL
Sbjct: 312 VVGQVLPLEAAAEGHRLLEERRVFGKVVL 340
>4eml_A Naphthoate synthase; 1,4-dihydroxy-2-naphthoyl-coenzyme A, lyase;
2.04A {Synechocystis SP}
Length = 275
Score = 25.6 bits (57), Expect = 5.1
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 52 DEIEDAFRTLVRRTDVGIVLIT 73
E+ DAF +G+VL+T
Sbjct: 40 FELYDAFCNAREDNRIGVVLLT 61
>2uzf_A Naphthoate synthase; lyase, menaquinone biosynthesis; HET: CAA;
2.9A {Staphylococcus aureus}
Length = 273
Score = 25.6 bits (57), Expect = 5.6
Identities = 6/22 (27%), Positives = 12/22 (54%)
Query: 52 DEIEDAFRTLVRRTDVGIVLIT 73
E+ DAF +V ++++T
Sbjct: 43 AEMIDAFSRARDDQNVSVIVLT 64
>3t89_A 1,4-dihydroxy-2-naphthoyl-COA synthase; crotonase superfamily,
lyase; 1.95A {Escherichia coli} PDB: 3t88_A 3h02_A
2iex_A
Length = 289
Score = 25.6 bits (57), Expect = 5.8
Identities = 4/22 (18%), Positives = 11/22 (50%)
Query: 52 DEIEDAFRTLVRRTDVGIVLIT 73
E+ A ++G++++T
Sbjct: 58 KEMIQALADARYDDNIGVIILT 79
>3o74_A Fructose transport system repressor FRUR; dual transcriptional
regulator, DNA, transcription; 2.00A {Pseudomonas
putida} PDB: 3o75_A*
Length = 272
Score = 25.2 bits (56), Expect = 7.3
Identities = 6/87 (6%), Positives = 19/87 (21%), Gaps = 22/87 (25%)
Query: 1 MAEEVLQLV---GLIGDEDSVVGFLLGGIGH-QTITPPLQTVTSNVFVVDKETPADEI-E 55
+ + V + + + + F G + P+ + +I
Sbjct: 191 LLQGVFDTLQARPVDSRQLQLGTF--GDNQLLDFLPLPVNAM---------AQQHGQIAA 239
Query: 56 DAFRTLVRRTDVG------IVLITRLV 76
A + + +
Sbjct: 240 TALELALAAIEEKRYEPGVHAVGRTFK 266
>3t3w_A Probable enoyl-COA hydratase; ssgcid, structural genomics, seattle
ST genomics center for infectious disease, lyase; 1.80A
{Mycobacterium thermoresistibile} PDB: 3ome_A
Length = 279
Score = 24.9 bits (55), Expect = 8.2
Identities = 13/85 (15%), Positives = 26/85 (30%), Gaps = 26/85 (30%)
Query: 52 DEIEDAFRTLVRRTDVGIVLITRLVADRIRHTL----------DIRERSNQVYPIVLEIP 101
DE++ A+ DV ++++ D+R + LE
Sbjct: 50 DELDAAWTRAAEDNDVSVIVLR-----------ANGKHFSAGHDLRGGGPVPDKLTLEFI 98
Query: 102 SALDAFHYTITDEDKQCRNIATLPK 126
A ++ Y + +PK
Sbjct: 99 YAHESRRYL-----EYSLRWRNVPK 118
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
0.321 0.139 0.391
Gapped
Lambda K H
0.267 0.0782 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,998,558
Number of extensions: 116852
Number of successful extensions: 433
Number of sequences better than 10.0: 1
Number of HSP's gapped: 424
Number of HSP's successfully gapped: 59
Length of query: 128
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 45
Effective length of database: 4,384,350
Effective search space: 197295750
Effective search space used: 197295750
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: 51 (23.3 bits)