RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780524|ref|YP_003064937.1| flagellar hook-associated protein FlgK [Candidatus Liberibacter asiaticus str. psy62] (480 letters) >2d4y_A HAP1, flagellar HOOK-associated protein 1; multi-domain protein, alpha-helical bundle, complex all- beta folds, structural protein; 2.10A {Salmonella typhimurium} Length = 463 Score = 91.5 bits (226), Expect = 4e-19 Identities = 40/257 (15%), Positives = 102/257 (39%), Gaps = 5/257 (1%) Query: 62 MFDKVLHAHSSAIGQQRLLQSFEALKEMMSADDHYNNSPTHYISKLRDSLESYSKNLSED 121 + +++ A + + G + + +++ +S + + SL++ N + Sbjct: 7 ITNQLRGAQNQSSGLTTRYEQMSKIDNLLADKS---SSLSGSLQSFFTSLQTLVSNAEDP 63 Query: 122 ILGKTVIDNAEEVVQNFNTSAREVQKIRADADKEIELEISNLRRFLSELTVVNDAIK--F 179 + +I AE +V F T+ + ++ + I ++ + + ++ +ND I Sbjct: 64 AARQALIGKAEGLVNQFKTTDQYLRDQDKQVNIAIGSSVAQINNYAKQIANLNDQISRMT 123 Query: 180 KTASKHDAHDFLDQRDVLLQKISEIIGISTIVRNNNDMVVYTSDGTTLFETVPRDINFEK 239 + +D LDQRD L+ ++++I+G+ V++ + ++G TL + Sbjct: 124 GVGAGASPNDLLDQRDQLVSELNKIVGVEVSVQDGGTYNLTMANGYTLVQGSTARQLAAV 183 Query: 240 MNSYTVTSESNPIFIDGVVVSSNQGSAVPKGKIKALLQIRDSVVPIFQNQLDEMARVLIG 299 +S T + + + G + LL R + +N L ++A Sbjct: 184 PSSADPTRTTVAYVDEAAGNIEIPEKLLNTGSLGGLLTFRSQDLDQTRNTLGQLALAFAD 243 Query: 300 SFSEKDPIAGNSENVPG 316 +F+ + +++ G Sbjct: 244 AFNAQHTKGYDADGNKG 260 >2pff_B Fatty acid synthase subunit beta; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 2006 Score = 49.9 bits (119), Expect = 1e-06 Identities = 63/432 (14%), Positives = 121/432 (28%), Gaps = 177/432 (40%) Query: 100 PT-HYI--SKLRD----SLESYSKNLSEDILGKTVIDNAEEVVQNF-NTSAREVQKIRAD 151 PT + S+L++ L ++ + D T E+V F + V+ Sbjct: 23 PTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPA----ELVGKFLGYVSSLVE----- 73 Query: 152 ADKEIELEISNLRRFLSELTVVNDAIKFKTASKHDAHDFLDQRDV--LLQKISEIIGIS- 208 ++ L L+E F+ +L+ D+ L K+ + + Sbjct: 74 -PSKVGQFDQVLNLCLTE---------FEN-------CYLEGNDIHALAAKLLQENDTTL 116 Query: 209 ----TIVRNNNDMVVYTSDGTTLFETVPRDINFEKMNSYTVTSESNPIFIDGVVVSSNQG 264 +++N Y ++ +F Sbjct: 117 VKTKELIKN------Y-------ITAR------IMAKRPFDKKSNSALF----------- 146 Query: 265 SAVPKGKIKALLQIRDSVVPIFQNQ------LDE----------MARVLIGSFSEK-DPI 307 AV +G + +V IF Q +E + LI +E + Sbjct: 147 RAVGEGNAQ--------LVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSEL 198 Query: 308 AGNSENVPGLFIADGIKDLDNKLCQGISETICVNPQYRSNPSFLRDGGS--VSKKFLWNV 365 + + +F + L+ + + + NP + +L S +S Sbjct: 199 IRTTLDAEKVF----TQGLN--ILEWLE-----NPSNTPDKDYL---LSIPIS------- 237 Query: 366 KNLAGYPDLIN-----HYCDSFNKNFIFDPVAGINTNVT---LLEYARNSIGWLEKNRSD 417 P LI HY V T L Y + + G Sbjct: 238 -----CP-LIGVIQLAHYV-----------VTAKLLGFTPGELRSYLKGATG-------- 272 Query: 418 SHDLHMKSQ--VVFNHISES------YSNTV-GVNLQEELSFLIKVE--QSYNISNKLIM 466 H SQ V I+E+ + + + + F I V ++Y ++ Sbjct: 273 -H-----SQGLVTAVAIAETDSWESFFVSVRKAI----TVLFFIGVRCYEAYPNTS---- 318 Query: 467 FTDKMLQTLLEG 478 +L+ LE Sbjct: 319 LPPSILEDSLEN 330 Score = 34.5 bits (79), Expect = 0.054 Identities = 53/264 (20%), Positives = 102/264 (38%), Gaps = 68/264 (25%) Query: 1 MSLLAVFNKAQNICNNASQQFA--------SIVRN------IENADNKNYVRRDTMTTIS 46 M L AQ++ N A F IV N I K R+ + + Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMI 1692 Query: 47 PENVTVVTQRSENKNMFDKVLHAHSSAI---GQQRLLQ---------------SFEALKE 88 E T+V + + + +F K ++ HS++ ++ LL +FE LK Sbjct: 1693 FE--TIVDGKLKTEKIF-KEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKS 1749 Query: 89 --MMSADDHY-NNSPTHY--ISKLRD--SLES-----YSKNLS------EDILGKT---- 126 ++ AD + +S Y ++ L D S+ES + + ++ D LG++ Sbjct: 1750 KGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGM 1809 Query: 127 VIDNAEEVVQNFNTSARE--VQKIRADADKEIEL---EISNLRRF----LSELTVVNDAI 177 + N V +F+ A + V+++ +E+ + N + L L V + + Sbjct: 1810 IAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVL 1869 Query: 178 KFKTASKHDAHDFLDQRDVLLQKI 201 F K D + Q+ + L+++ Sbjct: 1870 NFIKLQKIDIIEL--QKSLSLEEV 1891 Score = 33.8 bits (77), Expect = 0.091 Identities = 43/189 (22%), Positives = 80/189 (42%), Gaps = 56/189 (29%) Query: 79 LLQSFEALKEMMS-ADDHYNNSPTHYISKLRDSLESYSKNLS-----EDILGKTVIDNAE 132 L ++ +A +++ + AD+H+ ++ Y + D + + NL+ E GK + +N Sbjct: 1635 LYKTSKAAQDVWNRADNHFKDT---YGFSILDIVINNPVNLTIHFGGEK--GKRIRENYS 1689 Query: 133 EVVQNFNT---SAREVQKIRADADKEIELEISNLRRFLSE-------------LTVVNDA 176 ++ F T + +KI KEI E S F SE LT++ A Sbjct: 1690 AMI--FETIVDGKLKTEKIF----KEIN-EHSTSYTFRSEKGLLSATQFTQPALTLMEKA 1742 Query: 177 ----IKFK-------TASKHDAHDFLDQRDVLLQKISEIIGISTIVRNNNDMVVYTSDGT 225 +K K T + H ++ L +++++ I ++V ++V Y G Sbjct: 1743 AFEDLKSKGLIPADATFAGHSLGEY-----AALASLADVMSIESLV----EVVFYR--GM 1791 Query: 226 TLFETVPRD 234 T+ VPRD Sbjct: 1792 TMQVAVPRD 1800 Score = 31.1 bits (70), Expect = 0.55 Identities = 58/303 (19%), Positives = 91/303 (30%), Gaps = 129/303 (42%) Query: 262 NQGS-----AVPKGKIKALLQIRDSVVPIFQNQL----------DEMARV--LIGSF--- 301 + GS VP Q+++ F L DE L+G F Sbjct: 12 SHGSLEHVLLVPTASFFIASQLQEQ----FNKILPEPTEGFAADDEPTTPAELVGKFLGY 67 Query: 302 --SEKDPIA-GNSENVPGLFIAD---------GIKDLDNKLCQGISET-------ICVN- 341 S +P G + V L + + I L KL ++T + N Sbjct: 68 VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKL-LQENDTTLVKTKELIKNY 126 Query: 342 ---------PQYRSNPSFL----RDG-----------GSVSKKF-----LWNVKNLAGYP 372 P + + S L +G G+ F L+ Y Sbjct: 127 ITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQT-----YH 181 Query: 373 DLINHYCDSFNKNFIFDPVAGINTNVTLLEYARNS-------------IGWLEKNRSDSH 419 L+ + I A TL E R + + WLE N S++ Sbjct: 182 VLV--------GDLI-KFSAE-----TLSELIRTTLDAEKVFTQGLNILEWLE-NPSNTP 226 Query: 420 DLHMKSQVVFNHISESYSNTVGVNLQEELSF-LIKVEQ--SYNISNKLIMFTDKMLQTLL 476 D + Y ++ + S LI V Q Y ++ KL+ FT L++ L Sbjct: 227 D-------------KDYLLSIPI------SCPLIGVIQLAHYVVTAKLLGFTPGELRSYL 267 Query: 477 EGV 479 +G Sbjct: 268 KGA 270 >2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 1688 Score = 43.3 bits (101), Expect = 1e-04 Identities = 75/335 (22%), Positives = 132/335 (39%), Gaps = 91/335 (27%) Query: 110 SLESYSKNLSEDILGKTVIDNAEEV---VQNFNTSAREVQKIRADADKEIELEISNLRRF 166 S++ S NL+ + ++ ++ V+N E++ ++ +A+ EI E N F Sbjct: 1236 SVKYASPNLNMKYRKRQLVTREAQIKDWVEN------ELEALKLEAE-EIPSEDQN--EF 1286 Query: 167 LSELT--VVNDA-IKFKTASKHDAHDFLDQRDVLLQKISEIIG-ISTIVRNNNDMVVYTS 222 L E T + N+A + + A + +DF +RD +I+ + G ++T +D+ V + Sbjct: 1287 LLERTREIHNEAESQLRAAQQQWGNDFY-KRD---PRIAPLRGALATYGLTIDDLGVASF 1342 Query: 223 DGTTLFETVPRDIN----FEKMNSYTVTSESNPIFIDGVVVSSNQGSAVPKGK-----IK 273 GT+ T D N +M + SE NP+ GV G PKG + Sbjct: 1343 HGTS---TKANDKNESATINEMMKHLGRSEGNPVI--GVFQKFLTGH--PKGAAGAWMMN 1395 Query: 274 ALLQIRDS-VVPIFQNQ------LDEMARVLIGSFSEKDPIAGNSENVPGLFIADGIKDL 326 LQI +S ++P +N L++ VL S + K DG++ + Sbjct: 1396 GALQILNSGIIPGNRNADNVDKILEQFEYVLYPSKTLK---------------TDGVRAV 1440 Query: 327 DNK---LCQGISETICVNPQY---------------------RSNPSFLRDGGSVSKKFL 362 Q + I V+P Y +S F +G +K F+ Sbjct: 1441 SITSFGFGQKGGQAIVVHPDYLYGAITEDRYNEYVAKVSAREKSAYKFFHNGMIYNKLFV 1500 Query: 363 WNVKNLAGYPDLINHYCDSFNKNFIFDPVAGINTN 397 K A P Y D ++ DP+A ++ + Sbjct: 1501 --SKEHA--P-----YTDELEEDVYLDPLARVSKD 1526 Score = 30.2 bits (67), Expect = 1.1 Identities = 36/179 (20%), Positives = 71/179 (39%), Gaps = 51/179 (28%) Query: 89 MMSADDHYNNSPTHYISKLRDSLESYS-KNLSEDILG---KTVIDNAEE--VVQNFNTSA 142 +MSA NN I K+ + ++S K ++ ++LG V++ ++ V+ + N Sbjct: 678 LMSA----NNIIAEGIEKM--GVRTFSQKEMAFNLLGLLTPEVVELCQKSPVMADLNGGL 731 Query: 143 REVQKIRADADKEIELEISNLRRFLSELTVVNDAIKFKTASKHDAHDFLDQRDVLLQKIS 202 + V ++ KE + LR+ L E + V A+ +TA +H Sbjct: 732 QFVPEL-----KEF---TAKLRKELVETSEVRKAVSIETALEH----------------- 766 Query: 203 EIIGISTIVRNNNDMVVYTSDGTTLFETVPR---DINFEKMNSYTVTSESNPIFIDGVV 258 +V N+ Y E PR ++F ++ Y + P ++G++ Sbjct: 767 ------KVVNGNSADAAYAQ-----VEIQPRANIQLDFPELKPYKQVKQIAPAELEGLL 814 >3a69_A Flagellar HOOK protein FLGE; the bacterial flagellar motor, universal joint, bacterial flagellum, motor protein; 7.10A {Salmonella enterica subsp} Length = 402 Score = 36.9 bits (84), Expect = 0.010 Identities = 11/36 (30%), Positives = 22/36 (61%) Query: 441 GVNLQEELSFLIKVEQSYNISNKLIMFTDKMLQTLL 476 V+L +EL +I +++Y + + I D++L TL+ Sbjct: 364 NVDLSKELVNMIVAQRNYQSNAQTIKTQDQILNTLV 399 >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 = 34.2 bits (77), Expect = 0.058 Identities = 8/34 (23%), Positives = 20/34 (58%), Gaps = 11/34 (32%) Query: 84 EALKEMMS-----ADDHYNNSPTHYISKLRDSLE 112 +ALK++ + ADD ++P ++ ++ ++E Sbjct: 20 QALKKLQASLKLYADD---SAPA--LA-IKATME 47 >3ol1_A Vimentin; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, structural protein; 2.81A {Homo sapiens} Length = 119 Score = 32.1 bits (73), Expect = 0.29 Identities = 14/91 (15%), Positives = 35/91 (38%), Gaps = 7/91 (7%) Query: 103 YISKLRDSLESYSKNLSEDILGKTVIDNAEEVVQNFNTSAREVQKIRADADKEIELEISN 162 + +LR ++ + + + + DN E + +E R +A E + + Sbjct: 21 EMRELRRQVDQLTNDKARVEVE---RDNLAEDIMRLREKLQEEMLQREEA----ENTLQS 73 Query: 163 LRRFLSELTVVNDAIKFKTASKHDAHDFLDQ 193 R+ + ++ ++ K S + FL + Sbjct: 74 FRQDVDNASLARLDLERKVESLQEEIAFLKK 104 >3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190 Score = 31.1 bits (69), Expect = 0.63 Identities = 13/55 (23%), Positives = 26/55 (47%), Gaps = 10/55 (18%) Query: 76 QQRLLQSFEALKEMMSADDHYNNSPTHYISKLRDSLESYSKNLSEDILGKTVIDN 130 Q++ LQ +A ++M + + K + LE +++ SE + K I+N Sbjct: 94 QRKRLQELDAASKVMEQE---------WREKAKKDLEEWNQRQSEQV-EKNKINN 138 >3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, transcription factor, DNA-binding, DNA-directed RNA polymerase; 4.30A {Saccharomyces cerevisiae} Length = 197 Score = 30.7 bits (69), Expect = 0.77 Identities = 8/45 (17%), Positives = 13/45 (28%), Gaps = 10/45 (22%) Query: 352 RDGGSVSKKFLWNVKNLAGYPDLINH---YCDSFNKNFIFDPVAG 393 R+ S+ K+ NL I C + + G Sbjct: 4 RE--SIDKRAGRRGPNLN-----IVLTCPECKVYPPKIVERFSEG 41 >1hqm_D DNA-directed RNA polymerase; transferase, transcription, 3D- structure; 3.30A {Thermus aquaticus} SCOP: i.8.1.1 PDB: 1i6v_D* 2gho_D Length = 1265 Score = 29.6 bits (66), Expect = 1.5 Identities = 48/320 (15%), Positives = 100/320 (31%), Gaps = 67/320 (20%) Query: 27 NIENADNKNYVRRDTMTTISPENVTVVTQRSENKNMFDKVLHAHSSAIGQ---QRLLQSF 83 + ++ + T + + + ++ + V + +IG+ Q +++F Sbjct: 923 EVREVPVRSPLTCQTRYGVCQKCYGYDLSMARPVSIGEAVGVVAAESIGEPGTQLTMRTF 982 Query: 84 EALKEMMSADDHYNNSPTHYISKLRDSLESYSKNLSEDILGKTVIDNAEEVVQNFNTSAR 143 + D P + +L ++ +K + +I G I+ E+ + F S Sbjct: 983 H-TGGVAVGTDITQGLPR--VIELFEARRPKAKAVISEIDGVVRIEEGEDRLSVFVESEG 1039 Query: 144 EVQKIRADADKEIELEISNLRRFLSELTVVNDAIKFK-----TASKHDAHDFL------D 192 ++ + D + +V D + T D H L Sbjct: 1040 FSKEYKLPKDARL---------------LVKDGDYVEAGQPLTRGAIDPHQLLEAKGPEA 1084 Query: 193 QRDVLLQKISEIIG----------ISTIVRNNNDMVVYTSDGTTLFETVPRDI----NFE 238 L+ +I ++ I +VR V T G + + + + E Sbjct: 1085 VERYLVDEIQKVYRAQGVKLHDKHIEIVVRQMLKYVEVTDPGDS--PLLEGQVLEKWDVE 1142 Query: 239 KMNSYTVTSESNPIFIDGVVVSSNQGSAVPKGKIKALLQIRDSVVPI--FQNQLDEMARV 296 +N + P+ +++ G K+ L S + FQ V Sbjct: 1143 ALNERLIAEGKVPVAWKPLLM----------GVTKSALS-TKSWLSAASFQ----NTTHV 1187 Query: 297 LI--GSFSEKDPIAGNSENV 314 L +KD + G ENV Sbjct: 1188 LTEAAIAGKKDELIGLKENV 1207 >2ywb_A GMP synthase [glutamine-hydrolyzing]; GMP synthetase, XMP binding, ATP binding, purine nucleotide biosynthetic pathway; 2.10A {Thermus thermophilus HB8} PDB: 2ywc_A* Length = 503 Score = 29.6 bits (66), Expect = 1.7 Identities = 10/77 (12%), Positives = 26/77 (33%), Gaps = 16/77 (20%) Query: 210 IVRNNNDMVVYTSDGTTLFETVPRDINFEKMNSYTVTSESNPIFIDGVVVSSNQGSAVPK 269 I R ++ ++ +P D E++ + P +++S S Sbjct: 15 IARRLRELRAFS-------LILPGDAPLEEVLKH------RP---QALILSGGPRSVFDP 58 Query: 270 GKIKALLQIRDSVVPIF 286 + ++ S +P+ Sbjct: 59 DAPRPDPRLFSSGLPLL 75 >2kcp_A 30S ribosomal protein S8E; RPS8E, beta, NESG, ribonucleoprotein, structural genomics, PSI-2; NMR {Methanothermobacter thermautotrophicusstr} PDB: 2kcy_A Length = 98 Score = 29.2 bits (66), Expect = 1.9 Identities = 9/22 (40%), Positives = 14/22 (63%) Query: 22 ASIVRNIENADNKNYVRRDTMT 43 A I +EN N ++VRR+ +T Sbjct: 38 AEIRNVVENTANPHFVRRNIIT 59 >2kco_A 30S ribosomal protein S8E; ribosomal protein of unknown function, ribonucleoprotein, PSI-2, protein structure initiative; NMR {Sulfolobus solfataricus P2} Length = 133 Score = 29.2 bits (66), Expect = 2.0 Identities = 6/22 (27%), Positives = 9/22 (40%) Query: 22 ASIVRNIENADNKNYVRRDTMT 43 I+ +E NK RR + Sbjct: 76 VKILEILETPANKELARRGIII 97 >3dsk_A Cytochrome P450 74A, chloroplast; P450 fold, fatty acid biosynthesis, heme, iron, lipid synthesis, lyase, metal-binding; HET: HEM T25; 1.55A {Arabidopsis thaliana} PDB: 2rcm_A* 3dsj_A* 3dsi_A* 2rcl_A* 2rch_A* 3cli_A* Length = 495 Score = 28.7 bits (63), Expect = 3.1 Identities = 23/109 (21%), Positives = 35/109 (32%), Gaps = 8/109 (7%) Query: 205 IGISTIVRNNNDMVVYTSDGTTLFETVPRDINFEKMNSYTVTSESNPIFIDGVVVSSNQG 264 + + N +V F + EK + T T + G + S Sbjct: 74 MPPGAFIAENPQVVALL--DGKSFPVLFDVDKVEKKDLLTGTYMPSTELTGGYRILSYLD 131 Query: 265 SAVPK-GKIKALLQ-----IRDSVVPIFQNQLDEMARVLIGSFSEKDPI 307 + PK K+K LL R+ + P FQ E+ L S K Sbjct: 132 PSEPKHEKLKNLLFFLLKSSRNRIFPEFQATYSELFDSLEKELSLKGKA 180 >1dos_A Aldolase class II; lyase, classii fructose 1,6-bisphosphate aldolase, glycolysis; 1.67A {Escherichia coli} SCOP: c.1.10.2 PDB: 1b57_A* 1gyn_A 1zen_A Length = 358 Score = 28.6 bits (63), Expect = 3.5 Identities = 28/165 (16%), Positives = 54/165 (32%), Gaps = 10/165 (6%) Query: 94 DHYNNSPTHYISKLRDSLESYSKNLSEDILGKTVIDN-AEEVVQNFNTSAREVQKIRADA 152 DH +I L D+ E + + + +ID E + +N ++ ++++ Sbjct: 109 DHCAKKLLPWIDGLLDAGEKHFAATGKPLFSSHMIDLSEESLQENIEICSKYLERMSK-I 167 Query: 153 DKEIELEISNLRRFLSELTVVNDAIKFKTASKHDAHDFLDQRDVLLQKISEIIGISTI-V 211 +E+E L D + + + D ++S+I TI Sbjct: 168 GMTLEIE-------LGCTGGEEDGVDNSHMDASALYTQPEDVDYAYTELSKISPRFTIAA 220 Query: 212 RNNNDMVVYTSDGTTLFETVPRDINFEKMNSYTVTSESNPIFIDG 256 N VY + L T+ RD + + S G Sbjct: 221 SFGNVHGVYKAGNVVLTPTILRDSQEYVSKKHNLPHNSLNFVFHG 265 >1gpm_A GMP synthetase, XMP aminase; class I glutamine amidotransferase, N-type ATP pyrophosphatase, transferase (glutamine amidotransferase); HET: AMP CIT; 2.20A {Escherichia coli K12} SCOP: c.23.16.1 c.26.2.1 d.52.2.1 Length = 525 Score = 28.4 bits (63), Expect = 4.0 Identities = 14/77 (18%), Positives = 30/77 (38%), Gaps = 16/77 (20%) Query: 210 IVRNNNDMVVYTSDGTTLFETVPRDINFEKMNSYTVTSESNPIFIDGVVVSSNQGSAVPK 269 + R ++ VY E D+ ++ + NP G+++S S + Sbjct: 23 VARRVRELGVYC-------ELWAWDVTEAQIRDF------NP---SGIILSGGPESTTEE 66 Query: 270 GKIKALLQIRDSVVPIF 286 +A + ++ VP+F Sbjct: 67 NSPRAPQYVFEAGVPVF 83 >2xs1_A Programmed cell death 6-interacting protein; protein transport-viral protein complex, cell cycle; 2.30A {Homo sapiens} PDB: 2xs8_A 2oev_A 2r05_A 2r02_A 2r03_A 2oex_A 2ojq_A Length = 704 Score = 28.0 bits (61), Expect = 4.7 Identities = 14/103 (13%), Positives = 43/103 (41%), Gaps = 5/103 (4%) Query: 104 ISKLRDSLESYSKNLSEDILGKTV-IDNAEEVVQNFNTSAREVQKIRADADKEIELEISN 162 + K R+ LE+ K+++ D+ K + + V+ S E+ ++ +++ + Sbjct: 568 VKKEREGLENDLKSVNFDMTSKFLTALAQDGVINEEALSVTELDRVYGGLTTKVQESLKK 627 Query: 163 LRRFLSELTVVNDAIKFKTASKHDAHDFLDQRDVLLQKISEII 205 L + V + + +++ + R+ +L+ ++ Sbjct: 628 QEGLLKNIQVSHQEF----SKMKQSNNEANLREEVLKNLATAY 666 >2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2 PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D* 2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D Length = 1524 Score = 27.8 bits (61), Expect = 6.0 Identities = 44/242 (18%), Positives = 83/242 (34%), Gaps = 43/242 (17%) Query: 124 GKTVIDNAEEVVQNFNTSAREVQKIRADADKEIELEISNLRRFLSELTVVNDAIKFKTAS 183 K VI + VV+ T + + ++ E ++ R L + +A + T Sbjct: 1270 AKAVISEIDGVVRIEETEEKLSVFVESE-GFSKEYKLPKEARLLVKDGDYVEAGQPLTRG 1328 Query: 184 KHDAHDFLDQRDV------LLQKISEII----------GISTIVRNNNDMVVYTSDGTTL 227 D H L+ + L+++I ++ I +VR V T G + Sbjct: 1329 AIDPHQLLEAKGPEAVERYLVEEIQKVYRAQGVKLHDKHIEIVVRQMMKYVEVTDPGDSR 1388 Query: 228 FETVPRDINFEKMNSYTVTSESNPIFIDGVVVSSNQGSAVPKGKIKALLQIRDSVVPI-- 285 + + + + V + + + +G + + + G K+ L S + Sbjct: 1389 L------LEGQVLEKWDVEALNERLIAEGKTPVAWKP--LLMGVTKSALS-TKSWLSAAS 1439 Query: 286 FQNQLDEMARVLIGS--FSEKDPIAGNSENV------P---GLFIADGIKDLDNKLCQGI 334 FQ VL + +KD + G ENV P G + +D K + I Sbjct: 1440 FQ----NTTHVLTEAAIAGKKDELIGLKENVILGRLIPAGTGSDFVRFTQVVDQKTLKAI 1495 Query: 335 SE 336 E Sbjct: 1496 EE 1497 >2o8b_A DNA mismatch repair protein MSH2; DNA damage response, somatic hypermutation, protein-DNA complex, DNA mispair, cancer, ABC transporter ATPase; HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 2o8e_A* Length = 934 Score = 27.7 bits (60), Expect = 6.3 Identities = 22/141 (15%), Positives = 51/141 (36%), Gaps = 17/141 (12%) Query: 79 LLQSFEALKEM-MSADDHYNN-SPTHYISKLRD--SLESYSKNLSEDI-LGKTVIDNAEE 133 L + + ++A + + +++ +S+ +++E K VI+ A++ Sbjct: 790 LANQIPTVNNLHVTALTTEETLTMLY---QVKKGVCDQSFGIHVAELANFPKHVIECAKQ 846 Query: 134 VVQNFNTSAREVQKIRAD----ADKEIELEISNLRRFLSELTVVNDAIKFKTASKHDAHD 189 + D A K+ LE + + E + F S+ + Sbjct: 847 KALELEEFQYIGESQGYDIMEPAAKKCYLEREQGEKIIQEFLSKVKQMPFTEMSEENITI 906 Query: 190 FLDQ-RDVLLQK----ISEII 205 L Q + ++ K ++EII Sbjct: 907 KLKQLKAEVIAKNNSFVNEII 927 >2b1e_A Exocyst complex component EXO70; tethering complex, endocytosis/exocytosis complex; 2.00A {Saccharomyces cerevisiae} PDB: 2b7m_A 2pfv_A Length = 564 Score = 26.9 bits (59), Expect = 9.7 Identities = 7/82 (8%), Positives = 34/82 (41%), Gaps = 7/82 (8%) Query: 127 VIDNAEEVVQNFNTSAREVQKIRADADKEIELEISNLRRFLSELTVVNDAIKFKTASKHD 186 +++ V N +++ ++ ++ L+++ + ++D ++ + + + Sbjct: 8 TLNSVASVKDLANEASKYEIILQKGINQ------VGLKQYTQVVHKLDDMLEDIQSGQAN 61 Query: 187 AHDFLDQRDVLLQKISEIIGIS 208 + + +L + ++I S Sbjct: 62 REENSEF-HGILTHLEQLIKRS 82 Database: pdb70 Posted date: Jan 26, 2011 11:21 AM Number of letters in database: 5,693,230 Number of sequences in database: 24,244 Lambda K H 0.315 0.131 0.362 Gapped Lambda K H 0.267 0.0634 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 3,850,789 Number of extensions: 177002 Number of successful extensions: 523 Number of sequences better than 10.0: 1 Number of HSP's gapped: 520 Number of HSP's successfully gapped: 36 Length of query: 480 Length of database: 5,693,230 Length adjustment: 96 Effective length of query: 384 Effective length of database: 3,365,806 Effective search space: 1292469504 Effective search space used: 1292469504 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: 41 (21.6 bits) S2: 58 (26.3 bits)