RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10709
(348 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 = 168 bits (425), Expect = 6e-52
Identities = 76/144 (52%), Positives = 98/144 (68%), Gaps = 5/144 (3%)
Query: 202 TLTMSTCQREGKDFIIFATKEDHAIPSSVELPPPEP-----QPGLILPDGSINWNCPCLG 256
+ TMS C++EGKD IIF TKEDH PSS EL +P + GLILP+G+INWNCPCLG
Sbjct: 2 SFTMSYCRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGNINWNCPCLG 61
Query: 257 GMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDD 316
GMA+GPCG QF+ AFSCFHYST+E KG +C + F+ MQ+CM +YP LY Q D+D+E+ +
Sbjct: 62 GMASGPCGEQFKSAFSCFHYSTEEIKGSDCVDQFRAMQECMQKYPDLYPQEDEDEEEERE 121
Query: 317 DVKDVSIRKEAQEKADRIIEQADS 340
+ A +A E+ S
Sbjct: 122 KKPAEQAEETAPIEATATKEEEGS 145
Score = 123 bits (308), Expect = 2e-34
Identities = 57/84 (67%), Positives = 66/84 (78%), Gaps = 5/84 (5%)
Query: 1 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEP-----QPGLILPDGSINWNCPCLGGMA 55
MS C++EGKD IIF TKEDH PSS EL +P + GLILP+G+INWNCPCLGGMA
Sbjct: 5 MSYCRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGNINWNCPCLGGMA 64
Query: 56 TGPCGVQFREAFSCFHYSTDEPKG 79
+GPCG QF+ AFSCFHYST+E KG
Sbjct: 65 SGPCGEQFKSAFSCFHYSTEEIKG 88
>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 = 111 bits (280), Expect = 1e-27
Identities = 44/86 (51%), Positives = 54/86 (62%), Gaps = 3/86 (3%)
Query: 236 EPQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQD 295
P+ G INW+CPCLGGMA GPCG +F+ AFSCF YS EPKG++C E F+ MQD
Sbjct: 380 RPEFAYNPDTGEINWDCPCLGGMAHGPCGEEFKSAFSCFVYSEAEPKGIDCVEKFQHMQD 439
Query: 296 CMAQYPTLYKQ---NDDDDEDLDDDV 318
C +YP Y + DDE+ D V
Sbjct: 440 CFRKYPEHYAEQLKETSDDEEPQDKV 465
Score = 78.7 bits (194), Expect = 3e-16
Identities = 29/48 (60%), Positives = 33/48 (68%)
Query: 32 EPQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKG 79
P+ G INW+CPCLGGMA GPCG +F+ AFSCF YS EPKG
Sbjct: 380 RPEFAYNPDTGEINWDCPCLGGMAHGPCGEEFKSAFSCFVYSEAEPKG 427
>2av5_A Ribonuclease P protein component 2; hydrolase; 3.15A {Pyrococcus
furiosus} SCOP: d.58.59.1
Length = 120
Score = 43.2 bits (102), Expect = 1e-05
Identities = 12/55 (21%), Positives = 18/55 (32%)
Query: 137 YTGAGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTS 191
A L+KF+ I+R + + SLT N + A S
Sbjct: 49 LGTAKAKPWLIKFDETTQTGIIRSDRNHVYDVIFSLTLVSDINGNKAIIKVLGVS 103
>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 = 44.7 bits (105), Expect = 4e-05
Identities = 48/354 (13%), Positives = 111/354 (31%), Gaps = 128/354 (36%)
Query: 100 SNETFKDWLSNIYRKS-------IQTTNQHMTVIHNFKPPVPMYYTGAGVPIDLLKF--N 150
+++ F++ L ++Y+ I+ + + ++ + +T G +++L++ N
Sbjct: 166 TDDYFEE-LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT-QG--LNILEWLEN 221
Query: 151 PAQTRA---ILRCPASF-FIKL-QTS--LTTCGYYNNHPARFITHR--TSPCLLNLLSRL 201
P+ T +L P S I + Q + + T P ++ + L++ +
Sbjct: 222 PSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAV 281
Query: 202 TLTMSTCQREGKDF---------IIF----------------------ATKEDHAIPS-- 228
+ + + F ++F + + + +PS
Sbjct: 282 AIAETD---SWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM 338
Query: 229 -SVE-LPPPEPQPGLI------LPDGS------INWNCPCLGGMA---TGP----CGV-- 265
S+ L + Q + LP G +N G +GP G+
Sbjct: 339 LSISNLTQEQVQD-YVNKTNSHLPAGKQVEISLVN------GAKNLVVSGPPQSLYGLNL 391
Query: 266 QFREAFSCFH-------YSTDEPKGVNCF----EAFKT--MQDCMAQYPTLYKQNDDDDE 312
R+A + +S + K N F F + + D
Sbjct: 392 TLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLI-----NKDLVKN 446
Query: 313 DLDDDVKDVSI-----------RKEAQEKADRIIEQ-----------ADSGSSH 344
++ + KD+ I R + ++RI++ ++H
Sbjct: 447 NVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATH 500
>2czv_C Ribonuclease P protein component 2; RNA binding protein, RNA
recognition motif, protein-protein complex, hydrolase;
HET: BOG; 2.00A {Pyrococcus horikoshii} SCOP: d.58.59.1
Length = 120
Score = 41.6 bits (98), Expect = 4e-05
Identities = 13/55 (23%), Positives = 20/55 (36%)
Query: 137 YTGAGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTS 191
A V L+KF+P I+R + L+ +L +N T S
Sbjct: 49 TGTAIVKPWLIKFDPNTKTGIVRSDREYVEYLRFALMLVSEFNGKRLIIRTLGVS 103
>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 = 31.4 bits (71), Expect = 0.26
Identities = 7/31 (22%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 311 DEDLDDDVKDV--SIRKEAQEKADRIIEQAD 339
+ L +V+ ++ +EA+ KA+ + +A+
Sbjct: 4 EAILSQEVEAEIQALLQEAEAKAEAVKREAE 34
>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 = 31.1 bits (70), Expect = 0.39
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 323 IRKEAQEKADRIIEQAD 339
I KEA+ K + I+ +A
Sbjct: 11 INKEAERKIEYILNEAR 27
>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 = 30.6 bits (69), Expect = 0.52
Identities = 10/74 (13%), Positives = 19/74 (25%)
Query: 266 QFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDDDVKDVSIRK 325
F A S T K F + +D + + + V
Sbjct: 77 DFVTALSILLRGTVHEKLRWTFNLYDINKDGYINKEEMMDIVKAIYDMMGKYTYPVLKED 136
Query: 326 EAQEKADRIIEQAD 339
++ D ++ D
Sbjct: 137 TPRQHVDVFFQKMD 150
>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 = 29.9 bits (66), Expect = 0.77
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
Score = 29.9 bits (66), Expect = 0.77
Identities = 7/31 (22%), Positives = 13/31 (41%), Gaps = 8/31 (25%)
Query: 222 EDHAIP---SSVELPPPEPQPGLILPDGSIN 249
E A+ +S++L + P L +I
Sbjct: 18 EKQALKKLQASLKLYADDSAPAL-----AIK 43
>2kz9_A V-type proton ATPase subunit E; V-ATPase, proton transport; NMR
{Saccharomyces cerevisiae}
Length = 69
Score = 28.3 bits (63), Expect = 0.78
Identities = 12/32 (37%), Positives = 19/32 (59%), Gaps = 2/32 (6%)
Query: 310 DDEDLDDDVKDVS--IRKEAQEKADRIIEQAD 339
++D++ + IRKEA+EKA I +AD
Sbjct: 9 TPNQVNDELNKMQAFIRKEAEEKAKEIQLKAD 40
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.0 bits (64), Expect = 2.0
Identities = 8/22 (36%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 322 SIRKEAQEKADRIIEQADSGSS 343
SIRK +E+ R +++ D+ S
Sbjct: 86 SIRKWREEQRKR-LQELDAASK 106
>1yfs_A Alanyl-tRNA synthetase; alpha-beta fold, helix-loop-helix motif,
amino acid binding, ligase; 2.08A {Aquifex aeolicus}
SCOP: a.203.1.1 d.104.1.1 PDB: 1yfr_A* 1riq_A 1yft_A
1ygb_A 3htz_A
Length = 465
Score = 29.1 bits (66), Expect = 2.7
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 87 RATTILMCDGVLKSNE 102
RA T + DGV+ SNE
Sbjct: 275 RAITFAISDGVIPSNE 290
>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 = 29.1 bits (64), Expect = 3.2
Identities = 11/102 (10%), Positives = 26/102 (25%), Gaps = 21/102 (20%)
Query: 80 DLR--STKSRATTILMCDGVLKSNETFKDWLSNIYRKSIQTTNQHMTVIHNFKPPVPMYY 137
D R K R + + T + Y+ ++ P Y
Sbjct: 499 DFRFLEQKIRHDSTA-WNASGSILNTLQQL--KFYKP-------YICDND------PKY- 541
Query: 138 TGAGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYN 179
+ +L F P ++ + +++ +
Sbjct: 542 --ERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFE 581
>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 = 28.4 bits (63), Expect = 3.4
Identities = 10/74 (13%), Positives = 19/74 (25%)
Query: 266 QFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDDDVKDVSIRK 325
F A S T K F + +D + + + V
Sbjct: 110 DFVTALSILLRGTVHEKLRWTFNLYDINKDGYINKEEMMDIVKAIYDMMGKYTYPVLKED 169
Query: 326 EAQEKADRIIEQAD 339
++ D ++ D
Sbjct: 170 TPRQHVDVFFQKMD 183
>3v33_A Ribonuclease ZC3H12A; rossmann-like sandwich fold, RNAse,
cytoplastic, hydrolase; 2.00A {Homo sapiens}
Length = 223
Score = 28.2 bits (62), Expect = 3.4
Identities = 19/95 (20%), Positives = 37/95 (38%), Gaps = 9/95 (9%)
Query: 94 CDGVLKSNETFKDWLSNI--YRKSIQTTNQHMTVIHNFK--PPVPMYYTGAGVPIDLLKF 149
DG++ SN+T++D +++ I+ + +++ P P+ G + L K
Sbjct: 125 SDGIVVSNDTYRDLQGERQEWKRFIEERLLMYSFVNDKFMPPDDPLGRHGPSLDNFLRKK 184
Query: 150 NPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPAR 184
CP + T C ++ HP R
Sbjct: 185 PLTLEHRKQPCPYG---RKCTYGIKCRFF--HPER 214
>3hy0_A Alanyl-tRNA synthetase; aminoacyl-tRNA synthetase, ligase, protein
biosynthesis, NUC binding, amino acid-binding,
ATP-binding, metal-binding; HET: G5A EPE; 1.90A
{Escherichia coli} PDB: 3hxz_A* 3hy1_A* 3hxv_A* 3hxu_A*
3hxw_A* 3hxx_A* 3hxy_A*
Length = 441
Score = 28.3 bits (64), Expect = 3.9
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 87 RATTILMCDGVLKSNE 102
R+ L+ DGV+ SNE
Sbjct: 288 RSCAFLIADGVMPSNE 303
>2jul_A Calsenilin; EF-hand, calcium, LXXLL, DNA binding protein, dimer,
alternative splicing, apoptosis, cytoplasm, endoplasmic
reticulum, golgi apparatus; NMR {Mus musculus}
Length = 256
Score = 27.7 bits (61), Expect = 5.5
Identities = 9/74 (12%), Positives = 18/74 (24%)
Query: 266 QFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDDDVKDVSIRK 325
F S T K F + +D + + + +
Sbjct: 150 DFVVGLSILLRGTVHEKLKWAFNLYDINKDGCITKEEMLAIMKSIYDMMGRHTYPILRED 209
Query: 326 EAQEKADRIIEQAD 339
E +R ++ D
Sbjct: 210 APLEHVERFFQKMD 223
>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 = 6.8
Identities = 16/88 (18%), Positives = 25/88 (28%), Gaps = 18/88 (20%)
Query: 265 VQFRE---AFSCFHYSTDEPKGVNCFEAF----------KTMQDCMAQYPTLYKQNDDDD 311
+ F E A + T E K F+ + + + D + L K +
Sbjct: 76 IDFLEYVAALNLVLRGTLEHKLKWTFKIYDKDRNGCIDRQELLDIVESIYKLKKACSVEV 135
Query: 312 EDLDDDVKDVSIRKEAQEKADRIIEQAD 339
E +E DRI D
Sbjct: 136 EAEQQGKLLT-----PEEVVDRIFLLVD 158
>2ztg_A Alanyl-tRNA synthetase; class-II aminoacyl-tRNA synthetase,
aminoacyl-tRNA synthetase, ATP-binding, cytoplasm,
ligase; HET: A5A; 2.20A {Archaeoglobus fulgidus}
Length = 739
Score = 27.6 bits (62), Expect = 6.9
Identities = 5/17 (29%), Positives = 10/17 (58%)
Query: 86 SRATTILMCDGVLKSNE 102
+R ++ DG++ SN
Sbjct: 344 TRCILFMLGDGLVPSNA 360
>2d8n_A Recoverin; structural genomics, NPPSFA, national project on protein
STR and functional analyses, riken structural
genomics/proteomi initiative; 2.20A {Homo sapiens} PDB:
2i94_A 1iku_A* 1jsa_A* 1omr_A 1rec_A 1la3_A* 1omv_A
2het_A
Length = 207
Score = 27.3 bits (60), Expect = 7.7
Identities = 8/80 (10%), Positives = 21/80 (26%), Gaps = 5/80 (6%)
Query: 265 VQFRE---AFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYK--QNDDDDEDLDDDVK 319
+ F+E A K F + + + + +D
Sbjct: 88 LDFKEYVIALHMTTAGKTNQKLEWAFSLYDVDGNGTISKNEVLEIVMAIFKMITPEDVKL 147
Query: 320 DVSIRKEAQEKADRIIEQAD 339
+++A++I +
Sbjct: 148 LPDDENTPEKRAEKIWKYFG 167
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 0.136 0.431
Gapped
Lambda K H
0.267 0.0592 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,401,486
Number of extensions: 317917
Number of successful extensions: 877
Number of sequences better than 10.0: 1
Number of HSP's gapped: 874
Number of HSP's successfully gapped: 24
Length of query: 348
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 254
Effective length of database: 4,077,219
Effective search space: 1035613626
Effective search space used: 1035613626
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: 58 (26.4 bits)