RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14449
(673 letters)
>3qe7_A Uracil permease; uracil transporter, URAA, transporter, INNE
membrane protein, transport protein; HET: BNG; 2.78A
{Escherichia coli}
Length = 429
Score = 157 bits (398), Expect = 5e-42
Identities = 90/424 (21%), Positives = 161/424 (37%), Gaps = 90/424 (21%)
Query: 182 TYGIDDVPPWYLCIFMALQHYLTMIGAIVSIPFILTPALCMREDDPARGHIISTMIFVTA 241
G+ + PP I ++LQH M GA V +P + +T++
Sbjct: 5 AIGVSERPPLLQTIPLSLQHLFAMFGATVLVPVLF-------------HINPATVLLFNG 51
Query: 242 IVTFIQNTFGCRT-----MGHTYS-----ESLRSAGY----------------VGWFSPS 275
I T + F C+ +G +++ L GY V +
Sbjct: 52 IGTLLY-LFICKGKIPAYLGSSFAFISPVLLLLPLGYEVALGGFIMCGVLFCLVSFIVKK 110
Query: 276 GVVGVLLKYVTPLTIVPTVSLVGLSLFENAAEAA-----------SKHWGISVSTIIMLT 324
G L P + V+++GL L AA A SK IS++T+ +
Sbjct: 111 AGTGWLDVLFPPAAMGAIVAVIGLELAGVAAGMAGLLPAEGQTPDSKTIIISITTLAVTV 170
Query: 325 VFSQCLSEVKVPGINYSKEEGFKIVWFNLFKLFPVLLTIMIMWGICGLLTLTEALPKGHP 384
+ S GF + P+L+ +++ + + + +
Sbjct: 171 LGSVLFR-------------GF-------LAIIPILIGVLVGYALSFAMGI--------- 201
Query: 385 ARTDVKLRILEDSSWFRVPYPGQWGTPTVSLSGVLGMLAGVLACTVESISYYPTTSKMCG 444
V + ++ WF +P TP +L +L L E + + T+ +
Sbjct: 202 ----VDTTPIINAHWFALP---TLYTPRFEWFAILTILPAALVVIAEHVGHLVVTANIVK 254
Query: 445 APPPPVHAINRGIAIEGLGTVLAGLWGSGNGTNTFGENVGAIGVTKVGSRRVIQYACALM 504
++R + GL TV++G +G T+GEN+G + +T+V S VI A
Sbjct: 255 KDLLRDPGLHRSMFANGLSTVISGFFG-STPNTTYGENIGVMAITRVYSTWVIGGAAIFA 313
Query: 505 LLQGIINKFGAVFIIIPEPVVGGIFCVMFGMIAAFGLSALQY--VDLNSSRNLYIIGFSM 562
+L + K A +IP PV+GG+ +++G+I A G+ L VD N ++NL + +
Sbjct: 314 ILLSCVGKLAAAIQMIPLPVMGGVSLLLYGVIGASGIRVLIESKVDYNKAQNLILTSVIL 373
Query: 563 FFSL 566
+
Sbjct: 374 IIGV 377
>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 = 56.6 bits (136), Expect = 3e-08
Identities = 107/591 (18%), Positives = 181/591 (30%), Gaps = 210/591 (35%)
Query: 166 NGHSKSSEKIEDRP-DITYG-ID---DVPP--WYLCIFMALQHYLTMIGAIVSIPFILTP 218
+ +S RP +++G ++ VP + F+A Q I+ P T
Sbjct: 2 DAYST-------RPLTLSHGSLEHVLLVPTASF----FIASQLQEQFN-KILPEP---TE 46
Query: 219 ALCMREDDP-------AR--GHIIS-----TMIFVTAIVTFIQNTFGCRTMG----HTYS 260
+D+P + G++ S + ++ F + H +
Sbjct: 47 GFA-ADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALA 105
Query: 261 ESLRSAGYVGWFSPSGVVGVLLK-YVTPLTIV--PTVSLVGLSLFENAAEAASKHWGISV 317
L + L+K Y+T + P +LF E ++
Sbjct: 106 AKLLQEND----TTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQ------ 155
Query: 318 STIIMLTVFS-QCLSEVKVPGINYSKEEGFKIVWF----NLFKLFPVLLTIMIMWGICGL 372
++ +F Q G ++ +F +L++ + VL+ +I + L
Sbjct: 156 ----LVAIFGGQ--------GNT---DD-----YFEELRDLYQTYHVLVGDLIKFSAETL 195
Query: 373 LTLTEALPKGHPARTDVKLRILEDSSWFRVPYPGQWGTP------TVSLSGVL-GMLAGV 425
L T L IL W P TP ++ +S L G++
Sbjct: 196 SELIRTTLDAEKVFTQG-LNIL---EWLENPSN----TPDKDYLLSIPISCPLIGVIQ-- 245
Query: 426 LACTVESISYYPTTSKMCGAPPPPVHAINRGIAIEGLGTVLAGLWGSGNGTNTFGENV-G 484
LA Y T+K+ G P + + +G G V A + +F +V
Sbjct: 246 LAH-------YVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRK 298
Query: 485 AIGV-TKVGSR------------RVIQYAC-------ALML---------LQGIINKF-- 513
AI V +G R +++ + + ML +Q +NK
Sbjct: 299 AITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNS 358
Query: 514 -----GAVFI-IIPEP---VVGGIFCVMFGMIAAF-GLSALQYVDLNSSRNLYIIGFS-- 561
V I ++ VV G ++G+ A L+ SR I FS
Sbjct: 359 HLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPS--GLDQSR----IPFSER 412
Query: 562 --MFFSLVLP-------KWMVHNADAI-----------------------RTGSD----- 584
F + LP +V +D I GSD
Sbjct: 413 KLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLS 472
Query: 585 ------IVDSILTVLL---------STSILV---GGM--LGCLLDNLIPGT 615
IVD I+ + + +T IL GG LG L GT
Sbjct: 473 GSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGT 523
Score = 50.8 bits (121), Expect = 1e-06
Identities = 50/269 (18%), Positives = 82/269 (30%), Gaps = 77/269 (28%)
Query: 298 GLSLFENAAEA------ASKHW----GISVSTIIM-----LTVF-----SQCLSEVKVPG 337
G+ L++ + A A H+ G S+ I++ LT+ + + E
Sbjct: 1632 GMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRE-NYSA 1690
Query: 338 INYSKEEGFKIVWFNLFKLFPVLLTIMIMWGICGLLTLTE-ALPKGHPARTDVKLRILED 396
+ + K+ +FK T GLL+ T+ PA T ++ ED
Sbjct: 1691 MIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFT----QPALTLMEKAAFED 1746
Query: 397 -SSWFRVPYP--------GQWGTPTVSLSGVL------------GMLAGVLACTVESISY 435
S +P G++ SL+ V+ GM + V
Sbjct: 1747 LKSKGLIPADATFAGHSLGEY-AALASLADVMSIESLVEVVFYRGMT---MQVAVPRDEL 1802
Query: 436 YPTTSKMCGAPPPPVHAINRGIAIEGLGTVLAGLWGSGNGTNTFGE----NVGAIGVTKV 491
+ M P V A + E L V+ + G T E NV
Sbjct: 1803 GRSNYGMIAINPGRVAA---SFSQEALQYVVERV---GKRTGWLVEIVNYNVE------- 1849
Query: 492 GSRRVIQYAC-----ALMLLQGIINKFGA 515
QY AL + ++N
Sbjct: 1850 NQ----QYVAAGDLRALDTVTNVLNFIKL 1874
Score = 34.3 bits (78), Expect = 0.16
Identities = 48/288 (16%), Positives = 83/288 (28%), Gaps = 117/288 (40%)
Query: 127 SKSSEKIEDRPDI----TYGIDDVPPWYLCIFMALQVLGLVDQNGHSK-------SSEKI 175
SK+++ + +R D TYG +L +V N + ++I
Sbjct: 1639 SKAAQDVWNRADNHFKDTYGFS--------------ILDIVINNPVNLTIHFGGEKGKRI 1684
Query: 176 -EDRPDITY-GIDDVPPWYLCIFMALQHYLTMIGAIVSIPFI-------LT----PAL-- 220
E+ + + I D IF + + T S F T PAL
Sbjct: 1685 RENYSAMIFETIVDGKLKTEKIFKEINEHST------SYTFRSEKGLLSATQFTQPALTL 1738
Query: 221 -------CMREDDPARGHIISTMIFVTAIVTFIQNTFGCRTMGHT---YSESLRSAGYVG 270
++ +G I + F A GH+ Y+ +L A
Sbjct: 1739 MEKAAFEDLKS----KGLIPADATF--A--------------GHSLGEYA-AL--ASLAD 1775
Query: 271 WFSPSGVV------GVLLKYVTP-----------LTIVPTVSLVGLSL----FENAAEAA 309
S +V G+ ++ P + I P V S + E
Sbjct: 1776 VMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINP--GRVAASFSQEALQYVVERV 1833
Query: 310 SKHWGISVS---------------TIIMLTVFSQCLSEVKVPGINYSK 342
K G V + L + L+ +K+ I+ +
Sbjct: 1834 GKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIE 1881
Score = 31.2 bits (70), Expect = 1.3
Identities = 41/232 (17%), Positives = 67/232 (28%), Gaps = 72/232 (31%)
Query: 1 MSLMASSTELNMENLDP---------PGTVHSSVSVVGVLLKYVTPLTIV---PTVSLVG 48
S M S + L E + P +S+V +V P SL G
Sbjct: 335 PSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVN------GAKNLVVSGPPQSLYG 388
Query: 49 LSLFENAAEAASKHWGISSLRQ-KILY-----------------FSTIIMLTVFSQCLSE 90
L+L A+A S L Q +I + F + +++ +
Sbjct: 389 LNLTLRKAKAPSG------LDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKD 442
Query: 91 VKLPGINYSKEEGFKIVWFNLFKLFPVLGLVDQNGHSKSSEKIEDRPDITYGIDDVP-PW 149
+ ++++ ++ +I PV D G I I +P W
Sbjct: 443 LVKNNVSFNAKD-IQI---------PVYDTFD--GSDLRVLSGSISERIVDCIIRLPVKW 490
Query: 150 -YLCIFMALQVL-----------GLVDQNGHSKSSEKI-----EDRPDITYG 184
F A +L L +N I + PD YG
Sbjct: 491 ETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDYG 542
>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 = 44.5 bits (104), Expect = 1e-04
Identities = 45/291 (15%), Positives = 84/291 (28%), Gaps = 112/291 (38%)
Query: 103 GFKIVWFNLFKLFPVLGLVDQNGHSKSSEKIEDRPDITYGIDDVPPWYLCIFMALQVLGL 162
FKI W NL + S E + + M ++L
Sbjct: 181 DFKIFWLNL-------------KNCNSPETV-------------------LEMLQKLLYQ 208
Query: 163 VDQNGHSKSSEKIEDRPDITYGIDDVPPWYLCIFMALQHYLTMIGAIVSIPFILTPALCM 222
+D N S+S + +I I + + + + ++ +L
Sbjct: 209 IDPNWTSRS----DHSSNIKLRIHSIQAELRRLLKSKPYENCLL--------VL------ 250
Query: 223 REDDPARGHIISTM-----IFVT----AIVTFIQNTFGCRTMGHTYSESLRSAGYVGWFS 273
+ + I +T + F+ T H + +
Sbjct: 251 --LNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAA----TTTHISLDHHSMT-----LT 299
Query: 274 PSGVVGVLLKYVT------P---LTIVP-TVSLVGLSLFENAAEAASKHW----GISVST 319
P V +LLKY+ P LT P +S++ S+ + A +W ++T
Sbjct: 300 PDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLAT--WDNWKHVNCDKLTT 357
Query: 320 II-----------------MLTVFSQCLSEVKVPGINYSKEEGFKIVWFNL 353
II L+VF +P ++WF++
Sbjct: 358 IIESSLNVLEPAEYRKMFDRLSVFPP---SAHIP------TILLSLIWFDV 399
>3mp7_A Preprotein translocase subunit SECY; protein transport, membrane
protein complex, preprotein TRAN membrane insertion,;
2.90A {Pyrococcus furiosus}
Length = 482
Score = 31.9 bits (73), Expect = 0.80
Identities = 9/50 (18%), Positives = 24/50 (48%), Gaps = 5/50 (10%)
Query: 63 WGISSLRQKILYFSTIIMLTVFSQCLSEVKLPGINYSKEEGFKIVWFNLF 112
LR++ ++ T + L ++ L+E+ + GI ++ F+ + +
Sbjct: 21 KRRVPLRERFMW--TGVALILY-YVLAEIPVYGIPERIQDYFQ--FLRVV 65
>3din_C Preprotein translocase subunit SECY; protein translocation,
membrane protein, ATPase, ATP-binding membrane,
nucleotide-binding, protein transport; HET: ADP; 4.50A
{Thermotoga maritima MSB8}
Length = 431
Score = 30.2 bits (69), Expect = 2.3
Identities = 13/60 (21%), Positives = 24/60 (40%), Gaps = 3/60 (5%)
Query: 63 WGISSLRQKILYFSTIIMLTVFSQCLSEVKLPGINYSKEEGFKIVWFNLFKLFPVLGLVD 122
+ I LR +I++ T + L VF + + +PG+N + +L D
Sbjct: 9 FKIPELRDRIIF--TFLALIVF-RMGIYIPVPGLNLEAWGEIFRRIAETAGVAGILSFYD 65
>1ui0_A Uracil-DNA glycosylase; base excision repair, iron/sulfer cluster,
thermophIle, riken structural genomics/proteomics
initiative, RSGI; 1.50A {Thermus thermophilus} SCOP:
c.18.1.2 PDB: 1ui1_A
Length = 205
Score = 29.2 bits (66), Expect = 3.0
Identities = 7/28 (25%), Positives = 11/28 (39%), Gaps = 1/28 (3%)
Query: 643 FDFPVGMATLR-RWKWTSYIPFMPTYHP 669
V + +R +W I P +HP
Sbjct: 129 LGEKVSITKVRGKWYEWHGIKVFPMFHP 156
>3jux_A Protein translocase subunit SECA; protein translocation, ATPase,
conformational change, peptide binding, ATP-binding,
cell inner membrane; HET: ADP; 3.10A {Thermotoga
maritima} PDB: 3din_A*
Length = 822
Score = 29.9 bits (68), Expect = 3.5
Identities = 11/83 (13%), Positives = 24/83 (28%), Gaps = 11/83 (13%)
Query: 113 KLFPVLGL---VDQNGHSKSSEKIEDRPDITYGID-DVPPWYLCIFMALQVLGLVDQNGH 168
++ LGL V + ++ I+ + W + +++
Sbjct: 138 PVYLFLGLRVGVINSLGKSYEVVWKNPDLARKAIEENWSVWPDGFNGEVLKEESMNKEAV 197
Query: 169 SK------SSEKIEDR-PDITYG 184
+ E D+TYG
Sbjct: 198 EAFQVELKEITRKEAYLCDVTYG 220
>3b8c_A ATPase 2, plasma membrane-type; P-type ATPase, proton pump,
ATP-binding, hydrogen ION transport, hydrolase, ION
transport; HET: ACP; 3.60A {Arabidopsis thaliana}
Length = 885
Score = 29.6 bits (67), Expect = 4.0
Identities = 18/132 (13%), Positives = 39/132 (29%), Gaps = 12/132 (9%)
Query: 195 IFMALQHYLTMIGAIVSIPFILTPALCMREDDPARGHIISTMIFVTAIVTFIQNTFGCRT 254
+ A+ + A + F T + D+ +++ + F R+
Sbjct: 718 GYQAIMTVIFFWAAHKTDFFSDTFGVRSIRDNNHELM---GAVYLQVSIISQALIFVTRS 774
Query: 255 MGHTYSESLRSAGYVGWFSPSGVVGVLLKYVTPLTIVPTVSLVGLSLFENAAEAASKHWG 314
++ A + F + ++ L+ V + +G W
Sbjct: 775 RSWSFV-ERPGALLMIAFLIAQLIATLI-AVYANWEFAKIRGIGWGWAGVI-------WL 825
Query: 315 ISVSTIIMLTVF 326
S+ T L VF
Sbjct: 826 YSIVTYFPLDVF 837
>3dl8_G Preprotein translocase subunit SECY; RECA-type ATPase membrane
protein translocation protein- protein complex,
ATP-binding, cell membrane; 7.50A {Aquifex aeolicus}
Length = 429
Score = 29.1 bits (66), Expect = 5.7
Identities = 11/37 (29%), Positives = 22/37 (59%), Gaps = 3/37 (8%)
Query: 63 WGISSLRQKILYFSTIIMLTVFSQCLSEVKLPGINYS 99
+ + LRQK ++ T++M ++ + S + +PGIN
Sbjct: 9 FELKELRQKFIF--TLLMFVIY-RLGSHIPIPGINPE 42
>2zjs_Y Preprotein translocase SECY subunit; translocon, SEC,
protein-conducting-channel, membrane, prote transport,
translocation, transmembrane, transport; 3.20A {Thermus
thermophilus} PDB: 2zqp_Y
Length = 434
Score = 28.7 bits (65), Expect = 6.3
Identities = 10/38 (26%), Positives = 22/38 (57%), Gaps = 3/38 (7%)
Query: 63 WGISSLRQKILYFSTIIMLTVFSQCLSEVKLPGINYSK 100
I LRQ++L+ T+++L + + + + PG++ K
Sbjct: 9 LQIPELRQRVLF--TLLVLAAY-RLGAFIPTPGVDLDK 43
>3j01_A Preprotein translocase SECY subunit; ribonucleoprotein,
nucleotide-binding, PR biosynthesis, translation,
zinc-finger, 70S ribosome, ribos translocon; 7.10A
{Escherichia coli 536} PDB: 2akh_Y 2aki_Y
Length = 435
Score = 28.6 bits (65), Expect = 6.4
Identities = 12/40 (30%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 60 SKHWGISSLRQKILYFSTIIMLTVFSQCLSEVKLPGINYS 99
S G+ L++++L+ I L VF + S + +PGI+ +
Sbjct: 4 SAKGGLGELKRRLLF--VIGALIVF-RIGSFIPIPGIDAA 40
>1vk2_A Uracil-DNA glycosylase TM0511; structural genomics, JCSG, P protein
structure initiative, joint center for structural G
hydrolase; 1.90A {Thermotoga maritima} SCOP: c.18.1.2
PDB: 1l9g_A
Length = 204
Score = 28.4 bits (64), Expect = 6.7
Identities = 7/26 (26%), Positives = 11/26 (42%), Gaps = 2/26 (7%)
Query: 646 PVGMATLR-RWK-WTSYIPFMPTYHP 669
V + +R W +PT+HP
Sbjct: 149 KVSITKVRGNPIDWLGGKKVIPTFHP 174
>1ee0_A 2-pyrone synthase; polyketide synthase, thiolase fold, transferase;
HET: CAA; 2.05A {Gerbera hybrid cultivar} SCOP: c.95.1.2
c.95.1.2 PDB: 1qlv_A
Length = 402
Score = 28.3 bits (63), Expect = 8.0
Identities = 21/94 (22%), Positives = 31/94 (32%), Gaps = 15/94 (15%)
Query: 298 GLSLFENAAEAASKHWGISVSTIIMLTVFSQCLSEVKVPGINYSKEEGFKIVWFNLFKLF 357
L + AA A WG+ S I L +F + V +PG +Y L L
Sbjct: 107 VPMLGKEAAVKAIDEWGLPKSKITHL-IFCTT-AGVDMPGADY--------QLVKLLGLS 156
Query: 358 PVLLTIMIMW-----GICGLLTLTEALPKGHPAR 386
P + M+ G L + +R
Sbjct: 157 PSVKRYMLYQQGAAAGGTVLRLAKDLAENNKGSR 190
>2zxe_A Na, K-ATPase alpha subunit; membrane protein, ION pump, ATPase, K+
binding, haloacid dehydrogenease superfamily, phosphate
analogue; HET: CLR NAG NDG; 2.40A {Squalus acanthias}
PDB: 3a3y_A* 3b8e_A* 3kdp_A* 3n2f_A* 3n23_A* 1mo7_A
1mo8_A* 1q3i_A
Length = 1028
Score = 28.8 bits (65), Expect = 8.2
Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 7/51 (13%)
Query: 202 YLTMIGAIVSIPFILTPALCMREDDPARGH-----IISTMIFVTAIVTFIQ 247
L IGAI+ F+ ED+PA + ++ST++ VT ++ Q
Sbjct: 107 ILLWIGAILC--FLAYGIQAATEDEPANDNLYLGVVLSTVVIVTGCFSYYQ 155
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
0.323 0.140 0.434
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 10,548,536
Number of extensions: 658494
Number of successful extensions: 1010
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1002
Number of HSP's successfully gapped: 31
Length of query: 673
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 573
Effective length of database: 3,909,693
Effective search space: 2240254089
Effective search space used: 2240254089
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 61 (27.2 bits)