RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13494
(143 letters)
>2k3j_A Mitochondrial intermembrane space import and assembly protein 40;
alpha-hairpin fold, coiled coil-helix-coiled coil-helix
domain; NMR {Homo sapiens} PDB: 2l0y_A
Length = 146
Score = 149 bits (376), Expect = 2e-47
Identities = 74/142 (52%), Positives = 96/142 (67%), Gaps = 5/142 (3%)
Query: 1 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEP-----QPGLILPDGSINWNCPCLGGMA 55
MS C++EGKD IIF TKEDH PSS EL +P + GLILP+G+INWNCPCLGGMA
Sbjct: 5 MSYCRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGNINWNCPCLGGMA 64
Query: 56 TGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDDVKD 115
+GPCG QF+ AFSCFHYST+E KG +C + F+ MQ+CM +YP LY Q D+D+E+ + K
Sbjct: 65 SGPCGEQFKSAFSCFHYSTEEIKGSDCVDQFRAMQECMQKYPDLYPQEDEDEEEEREKKP 124
Query: 116 ESIRKEAQEKADRIIEQADSGS 137
+E ++ + S
Sbjct: 125 AEQAEETAPIEATATKEEEGSS 146
>2zxt_A Maltose-binding periplasmic protein, linker, MITO intermembrane
space import AND...; disulfide bond, alpha helix,
fusion, sugar transport; HET: MAL; 3.00A {Escherichia
coli}
Length = 465
Score = 108 bits (270), Expect = 1e-28
Identities = 41/85 (48%), Positives = 55/85 (64%)
Query: 32 EPQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQD 91
P+ G INW+CPCLGGMA GPCG +F+ AFSCF YS EPKG++C E F+ MQD
Sbjct: 380 RPEFAYNPDTGEINWDCPCLGGMAHGPCGEEFKSAFSCFVYSEAEPKGIDCVEKFQHMQD 439
Query: 92 CMAQYPTLYKQNDDDDEDLDDVKDE 116
C +YP Y + + D ++ +D+
Sbjct: 440 CFRKYPEHYAEQLKETSDDEEPQDK 464
>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 = 30.7 bits (69), Expect = 0.12
Identities = 8/27 (29%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 108 EDLDDVKDESIRKEAQEKADRIIEQAD 134
+ + E I KEA+ K + I+ +A
Sbjct: 2 NGAELIIQE-INKEAERKIEYILNEAR 27
Score = 26.1 bits (57), Expect = 3.6
Identities = 8/18 (44%), Positives = 14/18 (77%)
Query: 116 ESIRKEAQEKADRIIEQA 133
E I EA+++A++I E+A
Sbjct: 20 EYILNEARQQAEKIKEEA 37
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.1 bits (67), Expect = 0.18
Identities = 9/23 (39%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 116 ESIRKEAQEKADRIIEQADSGSS 138
ESIRK +E+ R +++ D+ S
Sbjct: 85 ESIRKWREEQRKR-LQELDAASK 106
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.5 bits (65), Expect = 0.28
Identities = 7/31 (22%), Positives = 13/31 (41%), Gaps = 8/31 (25%)
Query: 18 EDHAIP---SSVELPPPEPQPGLILPDGSIN 45
E A+ +S++L + P L +I
Sbjct: 18 EKQALKKLQASLKLYADDSAPAL-----AIK 43
>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 = 29.1 bits (65), Expect = 0.37
Identities = 5/19 (26%), Positives = 14/19 (73%)
Query: 116 ESIRKEAQEKADRIIEQAD 134
+++ +EA+ KA+ + +A+
Sbjct: 16 QALLQEAEAKAEAVKREAE 34
>1s6c_A KV4 potassium channel-interacting protein kchip1B; EF-hand,
transport protein; 2.00A {Rattus norvegicus} SCOP:
a.39.1.5 PDB: 2nz0_A 2i2r_E
Length = 183
Score = 27.9 bits (62), Expect = 0.92
Identities = 9/74 (12%), Positives = 22/74 (29%), Gaps = 1/74 (1%)
Query: 62 QFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDDVKDESIRKE 121
F A S T K F + +D + + + ++++
Sbjct: 77 DFVTALSILLRGTVHEKLRWTFNLYDINKDGYINKEEMMDIVKAIYDMMGKYTYPVLKED 136
Query: 122 -AQEKADRIIEQAD 134
++ D ++ D
Sbjct: 137 TPRQHVDVFFQKMD 150
>1jba_A GCAP-2, protein (guanylate cyclase activating protein 2); EF-hand,
calcium-binding protein, guanylyl cyclase regulation,
lyase; NMR {Bos taurus} SCOP: a.39.1.5
Length = 204
Score = 27.1 bits (60), Expect = 1.7
Identities = 15/83 (18%), Positives = 26/83 (31%), Gaps = 14/83 (16%)
Query: 62 QFREAFSCFHYSTDEPKGVNCFEAF----------KTMQDCMAQYPTLYKQNDDDDEDLD 111
++ A + T E K F+ + + + D + L K + E
Sbjct: 80 EYVAALNLVLRGTLEHKLKWTFKIYDKDRNGCIDRQELLDIVESIYKLKKACSVEVEAEQ 139
Query: 112 DVKDESIRKEAQEKADRIIEQAD 134
K + +E DRI D
Sbjct: 140 QGKLLTP----EEVVDRIFLLVD 158
>2khk_A ATP synthase subunit B; F1FO ATP synthase, spectroscopy, ATP
synthesis, inner membrane, cell membrane, CF(0),
hydrogen ION transpor transport; NMR {Escherichia coli}
Length = 53
Score = 25.1 bits (55), Expect = 3.0
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 107 DEDLDDVKDESIRKEAQEKADRIIEQA 133
D DL K+A+ +A IIEQA
Sbjct: 24 DLDLAKASATDQLKKAKAEAQVIIEQA 50
>1s1e_A KV channel interacting protein 1; kchip, calcium-binding protein,
EF-finger, transport protein; 2.30A {Homo sapiens} SCOP:
a.39.1.5
Length = 224
Score = 26.1 bits (57), Expect = 4.1
Identities = 10/78 (12%), Positives = 22/78 (28%), Gaps = 9/78 (11%)
Query: 62 QFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYK-----QNDDDDEDLDDVKDE 116
F A S T K F + +D + + +K++
Sbjct: 110 DFVTALSILLRGTVHEKLRWTFNLYDINKDGYINKEEMMDIVKAIYDMMGKYTYPVLKED 169
Query: 117 SIRKEAQEKADRIIEQAD 134
+ ++ D ++ D
Sbjct: 170 TP----RQHVDVFFQKMD 183
>3u4q_A ATP-dependent helicase/nuclease subunit A; helicase, nuclease,
double strand DNA repair, protein-DNA CO hydrolase-DNA
complex; HET: DNA; 2.80A {Bacillus subtilis} PDB:
3u44_A*
Length = 1232
Score = 26.5 bits (58), Expect = 4.5
Identities = 9/38 (23%), Positives = 17/38 (44%)
Query: 99 LYKQNDDDDEDLDDVKDESIRKEAQEKADRIIEQADSG 136
L +D D + + E+++ EA+ A I + S
Sbjct: 529 LIDNAEDTDASEEAEELETVQFEAKAIAKEIRKLISSP 566
>1nqk_A Alkanesulfonate monooxygenase; structural genomics, beta barrel,
PSI, protein structure INI midwest center for structural
genomics, MCSG; 2.20A {Escherichia coli} SCOP: c.1.16.4
PDB: 1m41_A
Length = 381
Score = 25.8 bits (57), Expect = 5.1
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 119 RKEAQEKADRIIEQAD 134
EA + A+R+I D
Sbjct: 236 NDEAWQAAERLISHLD 251
>1gpj_A Glutamyl-tRNA reductase; tRNA-dependent tetrapyrrole biosynthesis;
HET: GMC CIT; 1.95A {Methanopyrus kandleri} SCOP:
a.151.1.1 c.2.1.7 d.58.39.1
Length = 404
Score = 25.6 bits (57), Expect = 6.0
Identities = 7/27 (25%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 108 EDLDDVKDESI--RKEAQEKADRIIEQ 132
+DL + E++ R++ K +++IE+
Sbjct: 287 DDLRVIARENLERRRKEIPKVEKLIEE 313
>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 = 26.0 bits (56), Expect = 6.7
Identities = 15/64 (23%), Positives = 25/64 (39%), Gaps = 8/64 (12%)
Query: 71 HYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDDVKDESIRKEAQEKADRII 130
H+ D FE Q ++++ D+ D DV+D ++E+ D II
Sbjct: 4 HHHMD-------FET-GEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHII 55
Query: 131 EQAD 134
D
Sbjct: 56 MSKD 59
>1uw0_A DNA ligase III; DNA repair, zinc finger, PARP-like finger, cell
division, DNA replication, nuclear protein; HET: DNA;
NMR {Homo sapiens} SCOP: g.39.1.12
Length = 117
Score = 25.0 bits (54), Expect = 7.5
Identities = 12/54 (22%), Positives = 23/54 (42%), Gaps = 1/54 (1%)
Query: 91 DCMAQYPTLYKQNDDDDEDLDDVKD-ESIRKEAQEKADRIIEQADSGSSHTNKK 143
CM + + EDL +++ E + +E+ + I S ++ T KK
Sbjct: 54 KCMFEKLERARATTKKIEDLTELEGWEELEDNEKEQITQHIADLSSKAAGTPKK 107
>3d5l_A Regulatory protein RECX; PSI-II, NYSGXRC, DNA repair, 10123K,
structural genomi protein structure initiative; 2.35A
{Lactobacillus reuteri}
Length = 221
Score = 25.4 bits (56), Expect = 7.9
Identities = 7/51 (13%), Positives = 19/51 (37%), Gaps = 1/51 (1%)
Query: 84 EAFKTMQDCMAQYPTLYKQNDDDDEDLDDVKDESIRKEAQEKADRIIEQAD 134
AF + + Q+ L K + D++ + + + +A + +
Sbjct: 26 YAFPVAESVLIQFR-LMKGTELDEKQIAAIATADQQAKAYSRMLDYLSYQM 75
>2kz9_A V-type proton ATPase subunit E; V-ATPase, proton transport; NMR
{Saccharomyces cerevisiae}
Length = 69
Score = 24.0 bits (52), Expect = 7.9
Identities = 11/17 (64%), Positives = 13/17 (76%)
Query: 118 IRKEAQEKADRIIEQAD 134
IRKEA+EKA I +AD
Sbjct: 24 IRKEAEEKAKEIQLKAD 40
>1ypx_A Putative vitamin-B12 independent methionine synth protein;
alpha-beta protein; 2.60A {Listeria monocytogenes}
Length = 375
Score = 25.4 bits (56), Expect = 8.4
Identities = 4/31 (12%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 98 TLYKQNDDDDEDLDDVKDESIRK--EAQEKA 126
++ + +L +++ I+ E Q++
Sbjct: 26 EKFQSGEITALELRKIENTEIKYIVEKQKEV 56
>4ayb_A DNA-directed RNA polymerase; transferase, multi-subunit,
transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_A
2y0s_A 2waq_A 4b1o_A 4b1p_W 2pmz_A 3hkz_A
Length = 880
Score = 25.6 bits (56), Expect = 8.9
Identities = 8/34 (23%), Positives = 16/34 (47%), Gaps = 3/34 (8%)
Query: 106 DDEDLDDVKDESIRK---EAQEKADRIIEQADSG 136
+D L D + I A+ + D +I++ +G
Sbjct: 649 EDVSLGDDVKKEIYNEIDRAKVEVDNLIQKYKNG 682
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
0.315 0.134 0.417
Gapped
Lambda K H
0.267 0.0727 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,253,465
Number of extensions: 127672
Number of successful extensions: 362
Number of sequences better than 10.0: 1
Number of HSP's gapped: 353
Number of HSP's successfully gapped: 36
Length of query: 143
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 59
Effective length of database: 4,356,429
Effective search space: 257029311
Effective search space used: 257029311
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 52 (23.8 bits)