RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6439
(114 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 = 87.9 bits (218), Expect = 3e-24
Identities = 30/103 (29%), Positives = 47/103 (45%), Gaps = 11/103 (10%)
Query: 12 LAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN 71
+ V+GD DT VGF L G+ E + + SV R+ ++RDDV IILI
Sbjct: 3 IVVMGDSDTVVGFRLAGVHEA-------YEYDESLESVERARNKLRELLERDDVGIILIT 55
Query: 72 QNVAELIRHCIDDHTQPIPAVLEIPSKDHPYDASKDSILRRAK 114
+ +A+ I + P +L+IP K +D + +
Sbjct: 56 ERLAQRIGSLPE---VKFPIILQIPDK-FGSIYGEDILRDVVR 94
>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 = 80.5 bits (199), Expect = 3e-21
Identities = 22/103 (21%), Positives = 43/103 (41%), Gaps = 14/103 (13%)
Query: 13 AVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQ 72
V+GD+D+ F L G V T+ ++I + + + +++ +I I +
Sbjct: 6 GVVGDKDSVSPFRLFGFD------------VQHGTTKTEIRKTIDE-MAKNEYGVIYITE 52
Query: 73 NVAELIRHCIDDH-TQPIPAVLEIPSKDHPYDASKDSILRRAK 114
A L+ I+ + Q PA++ IPS + I +
Sbjct: 53 QCANLVPETIERYKGQLTPAIILIPSHQGTLGIGLEEIQNSVE 95
>2ov6_A V-type ATP synthase subunit F; F subunit, A1AO ATP synthase,
hydrolase; NMR {Methanosarcina mazei}
Length = 101
Score = 62.9 bits (153), Expect = 2e-14
Identities = 20/104 (19%), Positives = 41/104 (39%), Gaps = 14/104 (13%)
Query: 12 LAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN 71
LAVIG + GF L GI + V + + E A R ++ V I++++
Sbjct: 3 LAVIGKSEFVTGFRLAGISK-----------VYETPDIPATESAVRSVLEDKSVGILVMH 51
Query: 72 QNVAELIRHCIDDH--TQPIPAVLEIPSKDHPYDASKDSILRRA 113
+ + + + P V+ + + ++ I ++A
Sbjct: 52 NDDIGNLPEVLRKNLNESVQPTVVALGGSGSGSTSLREKI-KQA 94
>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 = 62.4 bits (152), Expect = 2e-14
Identities = 27/115 (23%), Positives = 50/115 (43%), Gaps = 15/115 (13%)
Query: 1 MALHSAVKGKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFI 60
M H +LAV+GD D +GF+L GI +I + V +I +A +
Sbjct: 1 MGHHHHHHSHMLAVVGDPDFTIGFMLAGISDI-------YEVTSDE----EIVKAVEDVL 49
Query: 61 KRDDVDIILINQNVAELIRHCIDDH--TQPIPAVLEIPSKDHPYDASKDSILRRA 113
KRDDV ++++ Q + + + + P + + + ++ I R+A
Sbjct: 50 KRDDVGVVIMKQEYLKKLPPVLRREIDEKVEPTFVSVGGTGGV-EEIREKI-RKA 102
>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 = 59.8 bits (145), Expect = 4e-13
Identities = 13/93 (13%), Positives = 33/93 (35%), Gaps = 14/93 (15%)
Query: 12 LAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN 71
+AVI D +T GF L G+ + + + ++R ++ ++
Sbjct: 6 MAVIADPETAQGFRLAGLEG--------YGASSAE----EAQSLLETLVERGGYALVAVD 53
Query: 72 QNVAELIRHCIDDH--TQPIPAVLEIPSKDHPY 102
+ + ++ + +P +L I +
Sbjct: 54 EALLPDPERAVERLMRGRDLPVLLPIAGLKEAF 86
>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 = 38.7 bits (89), Expect = 1e-04
Identities = 8/65 (12%), Positives = 25/65 (38%), Gaps = 3/65 (4%)
Query: 19 DTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELI 78
D G +I + F+ N D+++ + + ++++D I+++++
Sbjct: 8 DFETGEHQYQYKDILSVFEDAFV---DNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGT 64
Query: 79 RHCID 83
Sbjct: 65 LRLFW 69
>3pdi_B Nitrogenase MOFE cofactor biosynthesis protein NI; nitrogenase
cofactor maturation, NIFB, nifdk, NIFH; HET: CZL; 2.40A
{Azotobacter vinelandii}
Length = 458
Score = 28.9 bits (65), Expect = 0.28
Identities = 12/76 (15%), Positives = 26/76 (34%), Gaps = 9/76 (11%)
Query: 4 HSAVKGKLLAVIGDEDTCVG---FL--LGG--IGEINKHRQPNFL-VVDKNTSVSDIEEA 55
H + A+ D D +G L +G + + R + + V D+E+
Sbjct: 308 HFMLSSARTAIAADPDLLLGFDALLRSMGAHTVAAVVPARAAALVDSPLPSVRVGDLED- 366
Query: 56 FRKFIKRDDVDIILIN 71
+ +++ N
Sbjct: 367 LEHAARAGQAQLVIGN 382
>1xkn_A Putative peptidyl-arginine deiminase; alpha-beta protein, NESG,
structural genomics, protein struc initiative, PSI;
1.60A {Chlorobium tepidum} SCOP: d.126.1.6
Length = 355
Score = 28.0 bits (62), Expect = 0.72
Identities = 8/21 (38%), Positives = 10/21 (47%), Gaps = 3/21 (14%)
Query: 80 HCIDDHTQPIPAVLEIPSKDH 100
HC+ T PA+LE H
Sbjct: 338 HCV---THEEPAMLEHHHHHH 355
>2pqx_A Ribonuclease I; hydrolase; HET: MES; 1.42A {Escherichia coli} PDB:
2ea1_A* 2pqy_A* 2z70_A*
Length = 245
Score = 27.5 bits (60), Expect = 0.86
Identities = 19/75 (25%), Positives = 28/75 (37%), Gaps = 9/75 (12%)
Query: 29 IGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILI--NQNVAEL--IRHCI-- 82
E K N K S D + AF K +++V + + N A L I+ I
Sbjct: 157 ESEAGKFLADN---YGKTVSRRDFDAAFAKSWGKENVKAVKLTCQGNPAYLTEIQISIKA 213
Query: 83 DDHTQPIPAVLEIPS 97
D P+ A +P
Sbjct: 214 DAINAPLSANSFLPQ 228
>1pea_A Amidase operon; gene regulator, receptor, binding protein; 2.10A
{Pseudomonas aeruginosa} SCOP: c.93.1.1 PDB: 1qo0_A
1qnl_A
Length = 385
Score = 26.9 bits (60), Expect = 1.6
Identities = 10/51 (19%), Positives = 16/51 (31%), Gaps = 6/51 (11%)
Query: 23 GFLLGGIGEINKH-----RQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDII 68
G LL + ++N+ R L D FI+ V +
Sbjct: 30 GALLA-VEQLNREGGVGGRPIETLSQDPGGDPDRYRLCAEDFIRNRGVRFL 79
>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 = 26.7 bits (60), Expect = 1.8
Identities = 3/18 (16%), Positives = 9/18 (50%)
Query: 41 LVVDKNTSVSDIEEAFRK 58
L V+ + S++++
Sbjct: 715 LEVNHDVPSSELKQIIHN 732
>1wek_A Hypothetical protein TT1465; rossman fold, structural genomics,
riken structural genomics/proteomics initiative, RSGI,
unknown function; 2.20A {Thermus thermophilus} SCOP:
c.129.1.1
Length = 217
Score = 26.4 bits (59), Expect = 2.1
Identities = 4/32 (12%), Positives = 14/32 (43%), Gaps = 1/32 (3%)
Query: 57 RKFIKRDDVDIILINQNVAELIRHCIDDHTQP 88
+K + +D+ + + E+++ + P
Sbjct: 186 QKAVGPEDLQLFRLTDEPEEVVQA-LKAEAPP 216
>3eiq_C Programmed cell death protein 4; PDCD4, anti-oncogene, apoptosis,
cell cycle, nucleus, phosph RNA-binding, ATP-binding,
helicase, hydrolase; 3.50A {Mus musculus}
Length = 358
Score = 25.8 bits (56), Expect = 3.4
Identities = 11/56 (19%), Positives = 21/56 (37%), Gaps = 3/56 (5%)
Query: 48 SVSDIEEAFRKFIKR-DD--VDIILINQNVAELIRHCIDDHTQPIPAVLEIPSKDH 100
S +D+E++F K +K + +D Q V + I + D +
Sbjct: 121 STNDVEKSFDKLLKDLPELALDTPRAPQLVGQFIARAVGDGILCNTYIDSYKGTVD 176
>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 = 25.9 bits (58), Expect = 3.8
Identities = 5/18 (27%), Positives = 9/18 (50%)
Query: 41 LVVDKNTSVSDIEEAFRK 58
+VV T ++E R+
Sbjct: 699 VVVPAPTPYGEVEALVRE 716
>2ixa_A Alpha-N-acetylgalactosaminidase; NAD, A-ECO conversion,
hydrolase; HET: NAD; 2.3A {Flavobacterium
meningosepticum} PDB: 2ixb_A*
Length = 444
Score = 25.8 bits (56), Expect = 3.9
Identities = 2/18 (11%), Positives = 10/18 (55%)
Query: 53 EEAFRKFIKRDDVDIILI 70
+ ++ +K ++D + +
Sbjct: 80 NDDYKNMLKDKNIDAVFV 97
>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 = 25.5 bits (57), Expect = 4.3
Identities = 6/18 (33%), Positives = 10/18 (55%)
Query: 41 LVVDKNTSVSDIEEAFRK 58
+VV +N +DI +K
Sbjct: 712 VVVAENVPAADILSECKK 729
>3oy2_A Glycosyltransferase B736L; rossmann fold, GDP-mannose, sugar, VIRU
proteins, viral protein,transferase; 2.31A {Paramecium
bursaria chlorella virus NY} PDB: 3oy7_A*
Length = 413
Score = 25.5 bits (55), Expect = 5.0
Identities = 13/77 (16%), Positives = 22/77 (28%), Gaps = 8/77 (10%)
Query: 32 INKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQ------NVAELIRHCIDDH 85
I + V +FI DI++I N + C H
Sbjct: 49 IEEFDAQTAEHVRGLNEQGFYYSGLSEFIDVHKPDIVMIYNDPIVIGNYLLAMGKCS--H 106
Query: 86 TQPIPAVLEIPSKDHPY 102
I +++ SK+
Sbjct: 107 RTKIVLYVDLVSKNIRE 123
>1wjz_A 1700030A21RIK protein; J-domain, DNAJ like protein, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, chaperone; NMR {Mus musculus} SCOP:
a.2.3.1
Length = 94
Score = 24.7 bits (54), Expect = 5.2
Identities = 5/18 (27%), Positives = 13/18 (72%)
Query: 41 LVVDKNTSVSDIEEAFRK 58
L D + ++SD+++ ++K
Sbjct: 22 LGADPSANMSDLKQKYQK 39
>1weh_A Conserved hypothetical protein TT1887; rossman fold, structural
genomics, riken structural genomics/proteomics
initiative, RSGI; 1.80A {Thermus thermophilus} SCOP:
c.129.1.1
Length = 171
Score = 25.2 bits (56), Expect = 5.4
Identities = 5/26 (19%), Positives = 11/26 (42%)
Query: 55 AFRKFIKRDDVDIILINQNVAELIRH 80
I +DV ++ + + +L R
Sbjct: 142 KAHGEIAPEDVGLLRVVADEEDLRRF 167
>2ctq_A DNAJ homolog subfamily C member 12; J-domain, chaperone,
helix-turn-helix, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 112
Score = 24.7 bits (54), Expect = 5.5
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 41 LVVDKNTSVSDIEEAFRK 58
L D+ +SV I F+
Sbjct: 26 LGCDELSSVEQILAEFKV 43
>2pjk_A 178AA long hypothetical molybdenum cofactor biosynthesis protein
B; 3D-structure, structural genomics, NPPSFA; HET: PEG;
1.90A {Sulfolobus tokodaii} PDB: 3iwt_A*
Length = 178
Score = 24.9 bits (55), Expect = 6.0
Identities = 7/23 (30%), Positives = 12/23 (52%)
Query: 49 VSDIEEAFRKFIKRDDVDIILIN 71
I +AF + D+VD+I+
Sbjct: 66 KIKILKAFTDALSIDEVDVIIST 88
>1j6u_A UDP-N-acetylmuramate-alanine ligase MURC; structural genomics,
TM0231, JCSG, PSI, protein structure initiative; 2.30A
{Thermotoga maritima} SCOP: c.5.1.1 c.59.1.1 c.72.2.1
Length = 469
Score = 25.2 bits (56), Expect = 6.4
Identities = 5/33 (15%), Positives = 12/33 (36%)
Query: 47 TSVSDIEEAFRKFIKRDDVDIILINQNVAELIR 79
S++ AF K + D+ + + +
Sbjct: 200 NSLTRYRSAFEKISRNTDLVVTFAEDELTSHLG 232
>1t35_A Hypothetical protein YVDD, putative lysine decarboxylase;
structural genomics target, NYSGXRC, PSI, protein
structure initiative; 2.72A {Bacillus subtilis} SCOP:
c.129.1.1
Length = 191
Score = 24.9 bits (55), Expect = 6.7
Identities = 7/33 (21%), Positives = 14/33 (42%), Gaps = 1/33 (3%)
Query: 59 FIKRDDVDIILINQNVAELIRHCIDDHTQPIPA 91
F + +I + ELI + +++ PI
Sbjct: 154 FSNESHLKLIHSSSRPDELIEQ-MQNYSYPILE 185
>1mkz_A Molybdenum cofactor biosynthesis protein B; MAD, WEAK anomalous
signal, molybdopterin synthesis, structural genomics,
PSI; HET: MSE; 1.60A {Escherichia coli} SCOP: c.57.1.1
PDB: 1r2k_B
Length = 172
Score = 24.9 bits (55), Expect = 7.2
Identities = 7/23 (30%), Positives = 10/23 (43%)
Query: 49 VSDIEEAFRKFIKRDDVDIILIN 71
I +I DDV ++LI
Sbjct: 54 RYAIRAQVSAWIASDDVQVVLIT 76
>1y5e_A Molybdenum cofactor biosynthesis protein B; structural genomics,
protein structure initiative, PSI, MCSG, midwest center
for structural genomics; 1.90A {Bacillus cereus} SCOP:
c.57.1.1
Length = 169
Score = 24.5 bits (54), Expect = 7.5
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 49 VSDIEEAFRKFIKRDDVDIILIN 71
I++A ++DVD++L N
Sbjct: 57 KESIQQAVLAGYHKEDVDVVLTN 79
>3i45_A Twin-arginine translocation pathway signal protei; structural
genomics; 1.36A {Rhodospirillum rubrum}
Length = 387
Score = 24.7 bits (54), Expect = 7.9
Identities = 14/65 (21%), Positives = 21/65 (32%), Gaps = 9/65 (13%)
Query: 5 SAVKGKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDD 64
G LAV ++ G LLGG R + D A ++ + R
Sbjct: 23 PYRNGWQLAV--EQINAAGGLLGG-------RPLEVISRDDGGDPGKAVTAAQELLTRHG 73
Query: 65 VDIIL 69
V +
Sbjct: 74 VHALA 78
>3iu1_A Glycylpeptide N-tetradecanoyltransferase 1; N-myristoyltransferase,
NMT1, acyltransferase, phosphoprotein, structural
genomics; HET: MYA; 1.42A {Homo sapiens} PDB: 3iu2_A*
3iwe_A* 3jtk_A*
Length = 383
Score = 24.9 bits (54), Expect = 8.5
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 86 TQPIPAVLEIPSKDHPYDASKDSI 109
TQP+P + E+ + P + KD+I
Sbjct: 9 TQPVPKLGEVVNTHGPVEPDKDNI 32
>2dn9_A DNAJ homolog subfamily A member 3; J-domain, TID1, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
Length = 79
Score = 23.7 bits (52), Expect = 9.2
Identities = 6/18 (33%), Positives = 12/18 (66%)
Query: 41 LVVDKNTSVSDIEEAFRK 58
L V +N S +I++A+ +
Sbjct: 13 LGVPRNASQKEIKKAYYQ 30
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 0.140 0.404
Gapped
Lambda K H
0.267 0.0830 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,780,528
Number of extensions: 101254
Number of successful extensions: 508
Number of sequences better than 10.0: 1
Number of HSP's gapped: 494
Number of HSP's successfully gapped: 81
Length of query: 114
Length of database: 6,701,793
Length adjustment: 77
Effective length of query: 37
Effective length of database: 4,551,876
Effective search space: 168419412
Effective search space used: 168419412
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 (23.2 bits)