RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780901|ref|YP_003065314.1| single-stranded-DNA-specific exonuclease protein [Candidatus Liberibacter asiaticus str. psy62] (600 letters) >2zxr_A Single-stranded DNA specific exonuclease RECJ; DNA repair, hydrolase; 2.15A {Thermus thermophilus} PDB: 2zxo_A 2zxp_A 1ir6_A Length = 666 Score = 423 bits (1088), Expect = e-119 Identities = 151/578 (26%), Positives = 252/578 (43%), Gaps = 51/578 (8%) Query: 16 FRWVSLLGQEGINRALAITQKHAIPDIVARVLVNRNVSIDYAKDFLNPSIRLLMPDPLIL 75 RW +L + + + + A +R K+ L+P + LL L Sbjct: 5 VRWR-VLSLPPLAQWREVMAALEVGPEAALAYWHRGFR---RKEDLDPPLALLP-----L 55 Query: 76 TDCDKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRFLSHCSVNANMYIPDRIVDGY 135 +AA + +A+ ++I + GDYD DG A+++R L+ + + +IP R+ +GY Sbjct: 56 KGLREAAALLEEALRQGKRIRVHGDYDADGLTGTAILVRGLAALGADVHPFIPHRLEEGY 115 Query: 136 GPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSEEIPAYALV 195 G + + + E + L +TVDCG T++ L+ G++VIV DHH + P +V Sbjct: 116 GVLMERVPEHL-EASDLFLTVDCGITNHAELRELLENGVEVIVTDHHTP-GKTPPPGLVV 173 Query: 196 NPNRLDDLSGQGHLCAAGVVFLVLVLIYRILRQDNKVPLNFDLLSLLDLVALATVCDVVP 255 +P DL + AGV F +L ++ L DL A+ T+ DV P Sbjct: 174 HPALTPDL--KEKPTGAGVAF-------LLLWALHERLGLPPPLEYADLAAVGTIADVAP 224 Query: 256 LIGLNRAYVVKGLMVARRQGNPGLKALIERVNISSPITAENLGYMIGPSINAGGRIGESN 315 L G NRA V +GL GL+ L E V A + + I P INA R+GE+ Sbjct: 225 LWGWNRALVKEGLARIPASSWVGLRLLAEAVGY--TGKAVEVAFRIAPRINAASRLGEAE 282 Query: 316 LGSRLLISDDSQELEMLAMKLDVLNQNRRLMESAMLEQAEAKVLTQCDDIQQASVIVVEG 375 RLL++DD+ E + L +L LN R+ +E AML + +A IV+ Sbjct: 283 KALRLLLTDDAAEAQALVGELHRLNARRQTLEEAMLRKL------LPQADPEAKAIVLLD 336 Query: 376 DRWHPGIVGLLAARLKEKFGRPSFAISFEEDGKGIGSGRSIEGFDIGKMVSFAVEEGILV 435 HPG++G++A+R+ E RP F ++ +G G+ RS+ + + A + +L+ Sbjct: 337 PEGHPGVMGIVASRILEATLRPVFLVA-----QGKGTVRSLAPISAVEALRSAED--LLL 389 Query: 436 KGGGHAMAAGLTVERVNFGRLCDFFQKFAHNIVPALITTPVFKIDGVLNASAVNIALIDM 495 + GGH AAG ++ F + +A + + +L + + Sbjct: 390 RYGGHKEAAGFAMDEALFPAFKARVEAYAARFPDPVREV---ALLDLLPEPGLLPQVFRE 446 Query: 496 LESAGPYGAGNPNPVFAFPNHKLQSIRVVNLAHLQMTFESQDSETLQAIAFRVYGTPLGE 555 L PYG GNP P+F ++ R+ HL + ++ +A++ L Sbjct: 447 LALLEPYGEGNPEPLFLLFGAPEEARRLGEGRHLAFRLKG-----VRVLAWKQGDLAL-- 499 Query: 556 FLMQSRGKRMHVTGHLCVNYWRGSKRCQLRVLDASPVE 593 + V G L N W G +++ +D E Sbjct: 500 ------PPEVEVAGLLSENAWNGHLAYEVQAVDLRKPE 531 >3dma_A Exopolyphosphatase-related protein; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.25A {Bacteroides fragilis} Length = 343 Score = 90.1 bits (222), Expect = 1e-18 Identities = 41/383 (10%), Positives = 87/383 (22%), Gaps = 84/383 (21%) Query: 80 KAARRIVQAIYNSEKIMIFG--DYDVDGAASVALMMRFLSHCSVNANMYIPDRIVDGYG- 136 + ++KI+I D D S + FL N+ +P+ D Sbjct: 9 AHIDHFTKWFERADKIVIVSHVSPDGDAIGSSLGLYHFLDSQDKIVNVIVPNAFPDFLKW 68 Query: 137 ----------PNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQVKS 186 + A +I +D + I Sbjct: 69 MPGSKDILLYDRYQEFADKLIMEADVICCLDFNALKRIDEMSDIVAASPGRKIMIDHHLY 128 Query: 187 EEIPAYALVNPNRLDDLSGQGHLCAAGVVFLVLVLIYRILRQDNKVPLNFDLLSLLDLVA 246 E ++ + S L++R++ + + Sbjct: 129 PEDFCRITISHPEISSTS---------------ELVFRLICRMGYFSDISKEGAECIYTG 173 Query: 247 LATVCDVVPLIGLNRAYVVKGLMVARRQGNPGLKALIERVNISSPITAENLGYMIGPSIN 306 + T NR + ++I ++ Sbjct: 174 MMTDTGGFTYNSNNRE----------------------------------IYFIISELLS 199 Query: 307 AGGRIGESNLGSRLLISDDSQELEMLAMKLDVLNQNRRLMESAMLEQAEAKVLTQCDDIQ 366 G + S+ L + + ++ ++ ++ + K D + Sbjct: 200 KGIDKDDIYRKVYNTYSESRLRLMGYVLSNMKVYKDYNSALISLTKEEQGKFDYIKGDSE 259 Query: 367 QASVIVVEGDRWHPGIVGLLAARLKEKFGRPSFAISFEEDGKGIGSGRSIEGFDIGKMVS 426 I + + F E S RS+ F ++ + Sbjct: 260 GF-------VNIPLSIKNVCFSC---------FLREDTEKKMIKISLRSVGKFPCNRLAA 303 Query: 427 FAVEEGILVKGGGHAMAAGLTVE 449 GGGH A+G Sbjct: 304 ------EFFNGGGHLNASGGEFY 320 >3dev_A SH1221; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; 3.10A {Staphylococcus haemolyticus JCSC1435} Length = 320 Score = 68.6 bits (166), Expect = 4e-12 Identities = 20/106 (18%), Positives = 35/106 (33%), Gaps = 2/106 (1%) Query: 80 KAARRIVQAIYNSEKIMIFG--DYDVDGAASVALMMRFLSHCSVNANMYIPDRIVDGYGP 137 + I+Q + +E I+I D D S + +L N+Y Sbjct: 3 EIFNEIMQRVKEAETIIIHRHVRPDPDAYGSQLGLKLYLERKFPEKNIYATGEAEPSLSF 62 Query: 138 NPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQ 183 L E + + ++ V + + G +I IDHH Sbjct: 63 IGDLDEIDDSVYSDALVIVCDTANAPRIDDQRYLNGQSLIKIDHHP 108 Score = 47.0 bits (110), Expect = 1e-05 Identities = 18/110 (16%), Positives = 36/110 (32%), Gaps = 8/110 (7%) Query: 340 NQNRRLMESAMLEQAEAKVLTQCDDIQQASVIVVEGDRWHPGIVGLLAARLKEKFGRPSF 399 + + + Q + + + V++ P + + G + Sbjct: 195 KDPKLMPFQGYVLQNFELSDSHEYCQIKITNDVLKQFDIQPNEASQFVNTVADISGLKIW 254 Query: 400 AISFEEDGKGIGSGRSIEGFDIGKMVSFAVEEGILVKGGGHAMAAGLTVE 449 +E + RS +G I A + G GGGH A+G++V Sbjct: 255 MFGVDEGDQIRCRIRS-KGITIND---VANQFG----GGGHPNASGVSVY 296 >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 = 55.3 bits (133), Expect = 4e-08 Identities = 93/534 (17%), Positives = 147/534 (27%), Gaps = 206/534 (38%) Query: 102 DVDGAASVALMMRFLSHCSVNANMYIPDRIVDG-YGPNPSLMEKFINE-------G---- 149 D + L+ +FL + S + G ++ + E G Sbjct: 51 DDEPTTPAELVGKFLGYVS--------SLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIH 102 Query: 150 ---AQLIITVDCGST-------SYDALQYATNQGIDVIVIDHHQ------VKSEEIPAYA 193 A+L+ D +Y + + D V A Sbjct: 103 ALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFD----KKSNSALFRAVGEGNAQLVA 158 Query: 194 LVNPNRLDDLSGQGHLCAAGVVF------------LVLVLI-------YRILRQDNKV-- 232 + GQG+ F LV LI ++R Sbjct: 159 IFG--------GQGN---TDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEK 207 Query: 233 --PLNFDLLSLL---------DLVALATVCDVVPLIGLNR-A-YVVKGLMVARRQG-NPG 278 ++L L D + + PLIG+ + A YVV A+ G PG Sbjct: 208 VFTQGLNILEWLENPSNTPDKDYLLSIPIS--CPLIGVIQLAHYVV----TAKLLGFTPG 261 Query: 279 -----LKA-------LIERVNISSPITAEN--------------LGY---------MIGP 303 LK L+ V I+ + E+ +G + P Sbjct: 262 ELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPP 321 Query: 304 SI------NAGGRIGESNLGSRLLISDDSQE-LEMLAMKLDVLNQNRRLMESAMLEQAEA 356 SI N E L IS+ +QE ++ ++ N L +E + Sbjct: 322 SILEDSLEN-----NEGVPSPMLSISNLTQEQVQDY---VNKTNS--HLPAGKQVEIS-- 369 Query: 357 KVLTQCDDIQQASVIVVEGDRWHP-GIVGLLAARLKEKFGRPSFAISFEEDGKGI-GSGR 414 L + A +VV G P + G L L+ K PS D I S R Sbjct: 370 --L-----VNGAKNLVVSG---PPQSLYG-LNLTLR-KAKAPS-----GLDQSRIPFSER 412 Query: 415 SIEGFD-----IGKMVSF------AVEEGIL-------VKGGGHAMAAGLTVERVNFGRL 456 ++ F + F + I V + + V G Sbjct: 413 KLK-FSNRFLPVA--SPFHSHLLVPASDLINKDLVKNNVSFNAKDIQ--IPVYDTFDGS- 466 Query: 457 CDFFQKFAHNIVPAL---ITT-PVF--KIDGVLNASAVNIALIDMLESAGPYGA 504 D + + +I + I PV A +I +D GP GA Sbjct: 467 -D-LRVLSGSISERIVDCIIRLPVKWET---TTQFKATHI--LDF----GPGGA 509 Score = 42.6 bits (100), Expect = 2e-04 Identities = 58/261 (22%), Positives = 107/261 (40%), Gaps = 59/261 (22%) Query: 133 DGYGPNPSLMEKFINEGAQLIITVDCGST-------SYDALQYATNQGIDVIVIDHHQVK 185 D YG S+++ IN L T+ G +Y A+ + T ++D ++K Sbjct: 1655 DTYGF--SILDIVINNPVNL--TIHFGGEKGKRIRENYSAMIFET-------IVDG-KLK 1702 Query: 186 SEEIPAYALVNPNRLDDL--SGQGHLCAAGVVFLVLVLIYRILRQDNK----VPLN--FD 237 +E+I + +N + S +G L A L L+ + +D K +P + F Sbjct: 1703 TEKI--FKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFA 1760 Query: 238 LLSLLDLVALATVCDVVPLIGLNRAYVVKGLM----VARRQ---GNPGLKALIERVNISS 290 SL + ALA++ DV+ + L +G+ V R + N G+ A I +++ Sbjct: 1761 GHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIA-INPGRVAA 1819 Query: 291 PITAENLGYMIGPSINAGGRIG------ESNL-GSRLLISDDSQELEMLA--------MK 335 + E L Y++ G R G N+ + + + D + L+ + K Sbjct: 1820 SFSQEALQYVVE---RVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQK 1876 Query: 336 LDVLNQNRRLMESAMLEQAEA 356 +D++ L +S LE+ E Sbjct: 1877 IDII----ELQKSLSLEEVEG 1893 Score = 39.9 bits (93), Expect = 0.002 Identities = 55/336 (16%), Positives = 94/336 (27%), Gaps = 177/336 (52%) Query: 386 LAARLKEKFGR--PSFAISFEEDGKGIGSGRSIE------GF--------------DIGK 423 +A++L+E+F + P F D + + E G+ + Sbjct: 29 IASQLQEQFNKILPEPTEGFAADDE-PTT--PAELVGKFLGYVSSLVEPSKVGQFDQVLN 85 Query: 424 MVSFAVEEGILVKGGG---HAMAAGLTVE---------RVNFGRLCDFF-------QKFA 464 + E L G HA+AA L E + + ++ + F Sbjct: 86 LCLTEFENCYL---EGNDIHALAAKLLQENDTTLVKTKEL----IKNYITARIMAKRPFD 138 Query: 465 HNIVPALITTPVFKI--DGVLNAS--AV-----NI---------------ALI-DMLESA 499 AL F+ +G NA A+ N L+ D+++ + Sbjct: 139 KKSNSAL-----FRAVGEG--NAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFS 191 Query: 500 GP---------------YGAG--------NPN-----------PVFAFPNHKLQSIRVVN 525 + G NP+ P+ + P L I V+ Sbjct: 192 AETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPI-SCP---L--IGVIQ 245 Query: 526 LAHLQMTFESQDSETLQAIAFRVYG-TPLGEFLMQSR--GKRMHVTGH------------ 570 LAH + + ++ G TP GE +S G TGH Sbjct: 246 LAH----Y---------VVTAKLLGFTP-GEL--RSYLKG----ATGHSQGLVTAVAIAE 285 Query: 571 ------------LCVN--YWRGSKRCQLRVLDASPV 592 + ++ G RC +A P Sbjct: 286 TDSWESFFVSVRKAITVLFFIGV-RCY----EAYPN 316 Score = 32.6 bits (74), Expect = 0.24 Identities = 47/195 (24%), Positives = 77/195 (39%), Gaps = 47/195 (24%) Query: 266 KGLMVARRQGNPGLKALIERVNISSPITAENL---GYMIGPSINAGGRIGESNLGSRLLI 322 KGL+ A + P L L+E+ E+L G + + AG +GE Sbjct: 1723 KGLLSATQFTQPAL-TLMEKAAF------EDLKSKGLIPADATFAGHSLGE--------- 1766 Query: 323 SDDSQELEMLAMKLDVLNQNRRLMESAMLEQAEAKVLTQCDDIQQASVIVVEGDRWHPGI 382 LA DV++ +ES ++E + +T Q +V E R + G+ Sbjct: 1767 ------YAALASLADVMS-----IES-LVEVVFYRGMTM-----QVAVPRDELGRSNYGM 1809 Query: 383 VGLLAARLKEKFGRPSFAISFEEDGKGIGSGRSIEGFDIGKMVSFAVEEGILVKGGGHAM 442 + + R+ F + + E GK +G +E +V++ VE V G + Sbjct: 1810 IAINPGRVAASFSQEALQYVVERVGK--RTGWLVE------IVNYNVENQQYVAAGD--L 1859 Query: 443 AAGLTVERV-NFGRL 456 A TV V NF +L Sbjct: 1860 RALDTVTNVLNFIKL 1874 >3cvj_A Putative phosphoheptose isomerase; NP_244191.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 2.00A {Bacillus halodurans c-125} Length = 243 Score = 37.5 bits (86), Expect = 0.008 Identities = 18/116 (15%), Positives = 38/116 (32%), Gaps = 18/116 (15%) Query: 79 DKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRFLSHCSVNANMYIPDRIVDGYGPN 138 K A + +A+ N + +FG + +A + + +P ++ PN Sbjct: 29 IKGAHLVSEAVMNGGRFYVFG---SGHSHMIAEEIYNRAGGLALVTAILPPELMLHERPN 85 Query: 139 PS-------------LMEKFINEGAQLIITVDCGSTSY--DALQYATNQGIDVIVI 179 S L + ++I + G + + + N G VI + Sbjct: 86 KSTYLERIEGLSKSYLKLHQVTNKDVIMIISNSGRNTVPVEMAIESRNIGAKVIAM 141 >2gx8_A NIF3-related protein; structural genomics, unknown function, PSI, protein structure initiative; HET: EPE; 2.20A {Bacillus cereus atcc 14579} SCOP: c.135.1.1 Length = 397 Score = 35.0 bits (80), Expect = 0.052 Identities = 9/57 (15%), Positives = 22/57 (38%), Gaps = 6/57 (10%) Query: 140 SLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSEEIPAYALVN 196 + + +GA + +T G Y A G++++ H+ E++ + Sbjct: 319 KYINQAKFKGADVYVT---GDMYYHVAHDAMMLGLNIVDPGHN---VEKVMKQGVQK 369 >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 = 34.6 bits (78), Expect = 0.065 Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 18/47 (38%) Query: 79 DKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRFLSHCSVNANM 125 +K A + +QA S K+ + D D A ++A + A M Sbjct: 18 EKQALKKLQA---SLKL--YAD---DSAPALA----------IKATM 46 Score = 29.2 bits (64), Expect = 2.9 Identities = 7/22 (31%), Positives = 11/22 (50%), Gaps = 4/22 (18%) Query: 534 ESQDSETLQAIAFRVYG---TP 552 E Q + LQA + ++Y P Sbjct: 18 EKQALKKLQA-SLKLYADDSAP 38 >2haw_A Manganese-dependent inorganic pyrophosphatase; substrate complex, hydrolase; HET: 1PE PG4; 1.75A {Bacillus subtilis} SCOP: c.107.1.1 PDB: 1k23_A* 1wpm_A* 2iw4_A* Length = 309 Score = 34.6 bits (79), Expect = 0.068 Identities = 21/112 (18%), Positives = 34/112 (30%), Gaps = 11/112 (9%) Query: 93 EKIMIFG--DYDVDGAASVALMMRFLSHCSVNANMYIPD-------RIVDGYGPNPSLME 143 EKI+IFG + D D S + NA +D + + Sbjct: 2 EKILIFGHQNPDTDTICSAIAYADLKNKLGFNAEPVRLGQVNGETQYALDYFKQESPRLV 61 Query: 144 KFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSEEIPAYALV 195 + +I VD + + VIDHH++ + E Sbjct: 62 ETAANEVNGVILVDHNERQQ--SIKDIEEVQVLEVIDHHRIANFETAEPLYY 111 >2fyw_A Conserved hypothetical protein; structural genomics, PSI, midwest center for structural genomics, MCSG; 2.40A {Streptococcus pneumoniae TIGR4} SCOP: c.135.1.1 Length = 267 Score = 34.3 bits (78), Expect = 0.069 Identities = 14/70 (20%), Positives = 27/70 (38%), Gaps = 4/70 (5%) Query: 113 MRFLSHCSVNANMYIPDRIVDGYGPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQ 172 +R + + + I + G G S + + +GA + IT G Y Q + Sbjct: 163 LRMVHYQEDDLQKPISRVAICG-GSGQSFYKDALAKGADVYIT---GDIYYHTAQDMLSD 218 Query: 173 GIDVIVIDHH 182 G+ + H+ Sbjct: 219 GLLALDPGHY 228 >2xbl_A Phosphoheptose isomerase; capsule; HET: M7P PGE PG4; 1.62A {Burkholderia pseudomallei} PDB: 2x3y_A Length = 198 Score = 33.5 bits (76), Expect = 0.13 Identities = 23/149 (15%), Positives = 49/149 (32%), Gaps = 23/149 (15%) Query: 51 NVSIDYAKDFLNPSIRLL---MPDPLILTDCDKAARRIVQAIYNSEKIMIFGDYDVDGAA 107 N + Y + + + R++ + D +L K A + +I K+++ G G+A Sbjct: 4 NRELTYITNSIAEAQRVMAAMLADERLLATVRKVADACIASIAQGGKVLLAG---NGGSA 60 Query: 108 SVALMMRF-LSHCSVNANMYIPDRIVDGYGPNPS--------------LMEKFINEGAQL 152 + A + +P + + ++ NEG L Sbjct: 61 ADAQHIAGEFVSRFAFDRPGLPAVALTTDTSILTAIGNDYGYEKLFSRQVQALGNEGDVL 120 Query: 153 IITVDCGSTSY--DALQYATNQGIDVIVI 179 I G + A + A +G+ + Sbjct: 121 IGYSTSGKSPNILAAFREAKAKGMTCVGF 149 >2z1d_A Hydrogenase expression/formation protein HYPD; [NIFE] hydrogenase maturation, [4Fe-4S] cluster, thiol redox; HET: CSW; 2.07A {Thermococcus kodakarensis KOD1} Length = 372 Score = 33.1 bits (76), Expect = 0.19 Identities = 19/127 (14%), Positives = 42/127 (33%), Gaps = 16/127 (12%) Query: 165 ALQYATNQGID--VIVIDHHQVKSEEIPAYA--LVNPNRLDDLSGQGHLCAAGVVFLVLV 220 L A + ++ I H PA L L GH+ ++ V Sbjct: 159 MLNVAAQEELENFKIYSVHRLT----PPAVEVLLKQGTVFQGLIAPGHVST-----IIGV 209 Query: 221 LIYRILRQDNKVPLNFDLLSLLDLVALATVCDVVPLIGLNRAYVV-KGLMVARRQGNPGL 279 + L + +P D+ L + ++ + A ++ + + +GN Sbjct: 210 KGWEYLTEKYGIPQVVAGFEPNDV--LMAILMLIRMYKEGEARIINEYERAVKYEGNVVA 267 Query: 280 KALIERV 286 + +I++ Sbjct: 268 QKMIDKF 274 >2nyd_A UPF0135 protein SA1388; hypothetical protein SA1388, selenomethionine SAD, unknown function; 2.00A {Staphylococcus aureus subsp} Length = 370 Score = 33.2 bits (75), Expect = 0.20 Identities = 13/59 (22%), Positives = 25/59 (42%), Gaps = 6/59 (10%) Query: 136 GPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSEEIPAYAL 194 G + + +GA + +T G + A G+++I I+H+ SE + L Sbjct: 288 GSGIGYEYQAVQQGADVFVT---GDIKHHDALDAKIHGVNLIDINHY---SEYVMKEGL 340 >1zcl_A Protein tyrosine phosphatase 4A1; PRL-1 PTP4A dual specific phosphatase, hydrolase; 2.90A {Rattus norvegicus} PDB: 1x24_A Length = 180 Score = 32.2 bits (73), Expect = 0.30 Identities = 24/110 (21%), Positives = 36/110 (32%), Gaps = 12/110 (10%) Query: 126 YIPDRIVDGYGPNPSLMEKFINEGAQLIIT--VDCGSTSYDALQYATNQGIDV--IVIDH 181 Y R + + P + + KFI E + +T V +YD +GI V D Sbjct: 34 YKNMRFLITHNPTNATLNKFIEELKKYGVTTIVRVCEATYDT-TLVEKEGIHVLDWPFDD 92 Query: 182 HQVKSEEIPAYALVNPNRLDDLSGQGHL---CAAGV----VFLVLVLIYR 224 S +I L + AG+ V + L LI Sbjct: 93 GAPPSNQIVDDWLSLVKIKFREEPGCCIAVHSVAGLGRAPVLVALALIEG 142 >1wpn_A Manganese-dependent inorganic pyrophosphatase; metal binding, hydrolase; 1.30A {Bacillus subtilis} SCOP: c.107.1.1 Length = 188 Score = 32.1 bits (72), Expect = 0.33 Identities = 19/107 (17%), Positives = 32/107 (29%), Gaps = 7/107 (6%) Query: 93 EKIMIFG--DYDVDGAASVALMMRFLSHCSVNANMYIPDRIVDGYGPNPSLMEKFINEGA 150 EKI+IFG + D D S + NA ++ ++ Sbjct: 2 EKILIFGHQNPDTDTICSAIAYADLKNKLGFNAEPVRLGQVNGETQYALDYFKQESPRLV 61 Query: 151 QLIITVDCGSTSYDA-----LQYATNQGIDVIVIDHHQVKSEEIPAY 192 + G D + + VIDHH++ + E Sbjct: 62 ETAANEVNGVILVDHNERQQSIKDIEEVQVLEVIDHHRIANFETAEP 108 >1nmo_A Hypothetical protein YBGI; toroidal structure, structure 2 function project, S2F, structural genomics, unknown functio; 2.20A {Escherichia coli} SCOP: c.135.1.1 PDB: 1nmp_A Length = 247 Score = 31.9 bits (72), Expect = 0.40 Identities = 14/65 (21%), Positives = 20/65 (30%), Gaps = 4/65 (6%) Query: 118 HCSVNANMYIPDRIVDGYGPNPSLMEKFINEGAQLIITVDCGSTSYDALQYATNQGIDVI 177 C + R+ G S ++ G IT G S + A QG+ Sbjct: 156 WCGDTGPEVV-QRVAWCTGGGQSFIDSAARFGVDAFIT---GEVSEQTIHSAREQGLHFY 211 Query: 178 VIDHH 182 HH Sbjct: 212 AAGHH 216 >1k20_A Manganese-dependent inorganic pyrophosphatase; family II ppase, binuclear metal centre, hydrolase; 1.50A {Streptococcus gordonii} SCOP: c.107.1.1 PDB: 1wpp_A 2enx_A* 1i74_A Length = 310 Score = 30.3 bits (68), Expect = 1.2 Identities = 19/113 (16%), Positives = 34/113 (30%), Gaps = 13/113 (11%) Query: 94 KIMIFG--DYDVDGAASVALMMRFLSHC-SVNANMYIPDRIVDGYG--------PNPSLM 142 KI++FG + D D S ++ + P ++ Sbjct: 2 KILVFGHQNPDSDAIGSSYAFAYLAREAYGLDTEAVALGEPNEETAFVLDYFGVAAPRVI 61 Query: 143 EKFINEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSEEIPAYALV 195 EGA+ +I D + V+DHH+V + E + Sbjct: 62 TSAKAEGAEQVILTDHNEFQQSVADI--AEVEVYGVVDHHRVANFETANPLYM 112 >2vh3_A Ranasmurfin, RSF-1; LTQ, bisltq, unknown function; HET: TY3 TY2; 1.16A {Polypedates leucomystax} PDB: 2vh3_B* Length = 113 Score = 30.5 bits (68), Expect = 1.2 Identities = 27/99 (27%), Positives = 44/99 (44%), Gaps = 18/99 (18%) Query: 380 PGIVGLLAARLK--EKFGRPSFAI-----SFEEDGKGIGSGRSIEGFDIGKMVSFAVEEG 432 PG LA L+ + F + S+A+ +++ED + R+ E FD + +EG Sbjct: 12 PGSKECLAEALQKHQGFKKKSYALICAYLNYKEDAENYE--RAAEDFDSAVKCT-GCKEG 68 Query: 433 I--------LVKGGGHAMAAGLTVERVNFGRLCDFFQKF 463 + L++ G A L ++R G LC FQK Sbjct: 69 VDLHEGNPELIEEGFEKFLASLKIDRKALGSLCTLFQKL 107 >2eih_A Alcohol dehydrogenase; zinc ION binding protein, structural genomics, NPPSFA; 2.30A {Thermus thermophilus HB8} Length = 343 Score = 30.1 bits (67), Expect = 1.6 Identities = 19/153 (12%), Positives = 39/153 (25%), Gaps = 3/153 (1%) Query: 146 INEGAQLIITVDCGSTSYDALQYATNQGIDVIVIDHHQVKSE---EIPAYALVNPNRLDD 202 + G +++ S A+Q A G VI + K + A VN D Sbjct: 164 VRPGDDVLVMAAGSGVSVAAIQIAKLFGARVIATAGSEDKLRRAKALGADETVNYTHPDW 223 Query: 203 LSGQGHLCAAGVVFLVLVLIYRILRQDNKVPLNFDLLSLLDLVALATVCDVVPLIGLNRA 262 L V+ + + + + + R Sbjct: 224 PKEVRRLTGGKGADKVVDHTGALYFEGVIKATANGGRIAIAGASSGYEGTLPFAHVFYRQ 283 Query: 263 YVVKGLMVARRQGNPGLKALIERVNISSPITAE 295 + G +A + + +E + + Sbjct: 284 LSILGSTMASKSRLFPILRFVEEGKLKPVVGQV 316 >2i2w_A Phosphoheptose isomerase; lipopolysaccharide biosynthesis; 1.95A {Escherichia coli} PDB: 2i22_A 1x94_A Length = 212 Score = 29.4 bits (65), Expect = 2.1 Identities = 18/156 (11%), Positives = 44/156 (28%), Gaps = 9/156 (5%) Query: 55 DYAKDFLNPSIRLL---MPDPLILTDCDKAARRIVQAIYNSEKIMIFGDYDVDGAASVAL 111 D ++ LN + L + D + +AA + + K++ G+ G+ A+ Sbjct: 24 DLIRNELNEAAETLANFLKDDANIHAIQRAAVLLADSFKAGGKVLSCGN---GGSHCDAM 80 Query: 112 MMRFLSHCSVNANMYIPDRI-VDGYGPNPSLMEKFINEGAQLIITVDCGSTSYDALQYAT 170 N I + + F G L +T Sbjct: 81 HFAEELTGRYRENRPGYPAIAISDVSHISCVGNDFGFNDIFSRYVEAVGREGDVLLGIST 140 Query: 171 NQGIDVIVIDHHQVKSEEIPAYALV--NPNRLDDLS 204 + ++ + + + L + ++ + Sbjct: 141 SGNSANVIKAIAAAREKGMKVITLTGKDGGKMAGTA 176 >3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190 Score = 29.1 bits (64), Expect = 2.6 Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 4/32 (12%) Query: 573 VNYWRGSKRCQLRVLD-ASPV---EGHHFAKK 600 + WR +R +L+ LD AS V E AKK Sbjct: 87 IRKWREEQRKRLQELDAASKVMEQEWREKAKK 118 >2yva_A DNAA initiator-associating protein DIAA; intermolecular disulfide bonding, putative phosphosugar binding protein, DNAA binding protein; 1.85A {Escherichia coli} Length = 196 Score = 29.0 bits (64), Expect = 3.0 Identities = 13/77 (16%), Positives = 25/77 (32%), Gaps = 4/77 (5%) Query: 55 DYAKDFLNPSIRLLMP-DPLILTDCDKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMM 113 + K SI+ + + +AA +VQ++ N KI+ G+ +A+ A Sbjct: 3 ERIKACFTESIQTQIAAAEALPDAISRAAMTLVQSLLNGNKILCCGN---GTSAANAQHF 59 Query: 114 RFLSHCSVNANMYIPDR 130 Sbjct: 60 AASMINRFETERPSLPA 76 >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 = 28.6 bits (63), Expect = 4.4 Identities = 22/104 (21%), Positives = 46/104 (44%), Gaps = 28/104 (26%) Query: 47 LVNRNVSID--YAKDFLNP--SIRLLMPDPLILTDCDKAARRIVQAIYNSEKIMI----- 97 +VN N S D YA+ + P +I+L P+ + A ++ + + E++++ Sbjct: 768 VVNGN-SADAAYAQVEIQPRANIQLDFPELKPYKQVKQIAPAELEGLLDLERVIVVTGFA 826 Query: 98 ----------------FGDYDVDGAASVALMMRFLSHCSVNANM 125 FG++ ++G +A +M F+S+ N N+ Sbjct: 827 EVGPWGSARTRWEMEAFGEFSLEGCVEMAWIMGFISYH--NGNL 868 >2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter baumannii} PDB: 2xkk_A* Length = 767 Score = 28.5 bits (63), Expect = 4.8 Identities = 8/25 (32%), Positives = 9/25 (36%) Query: 94 KIMIFGDYDVDGAASVALMMRFLSH 118 KI I D D DG L+ Sbjct: 116 KICILADADSDGLHIATLLCALFVK 140 >1wou_A Thioredoxin -related protein, 14 kDa; electron transport; 1.80A {Homo sapiens} SCOP: c.47.1.16 PDB: 1v9w_A Length = 123 Score = 27.8 bits (61), Expect = 6.6 Identities = 10/80 (12%), Positives = 24/80 (30%), Gaps = 10/80 (12%) Query: 77 DCDKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRFLSHCSVNANMYIP-------- 128 DC +A + + + + + +F V +P Sbjct: 45 DCVQAEPVVREGLKHISEGCVFIYCQVG--EKPYWKDPNNDFRKNLKVTAVPTLLKYGTP 102 Query: 129 DRIVDGYGPNPSLMEKFINE 148 ++V+ +L+E +E Sbjct: 103 QKLVESECLQANLVEMLFSE 122 >2va1_A Uridylate kinase; UMPK, transferase, pyrimidine biosynthesis, amino acid kinase family; 2.50A {Ureaplasma parvum} Length = 256 Score = 27.6 bits (60), Expect = 7.7 Identities = 12/117 (10%), Positives = 39/117 (33%), Gaps = 4/117 (3%) Query: 68 LMPDPLILTDCDKAARRIVQAIYNSEKIMIFGDYDVDGAASVALMMRFLSHCSVNANMYI 127 ++ +++ ++ E++MIF + + + ++ + + Sbjct: 118 VLSAIKCDKLVHESSANNIKKAIEKEQVMIFVAGTGFPYFTTDSCAAIRAAETESSIILM 177 Query: 128 PDRIVDGYGPNPSLMEK----FINEGAQLIITVDCGSTSYDALQYATNQGIDVIVID 180 VDG + + + + + +T + AL I+++V + Sbjct: 178 GKNGVDGVYDSDPKINPNAQFYEHITFNMALTQNLKVMDATALALCQENNINLLVFN 234 >3nuh_B DNA gyrase subunit B; topoisomerase, supercoiling, specialization, isomera; HET: DNA; 3.10A {Escherichia coli} Length = 420 Score = 27.7 bits (61), Expect = 8.6 Identities = 9/25 (36%), Positives = 13/25 (52%) Query: 94 KIMIFGDYDVDGAASVALMMRFLSH 118 I+I D DVDG+ L++ F Sbjct: 108 SIIIMTDADVDGSHIRTLLLTFFYR 132 >1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea, helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16 c.37.1.16 e.10.1.1 PDB: 1gl9_B* Length = 1054 Score = 27.3 bits (60), Expect = 9.0 Identities = 21/54 (38%), Positives = 26/54 (48%), Gaps = 8/54 (14%) Query: 363 DDIQ---QASVIVVEGDRW-HPGIVGLLAARLKEKFGRPSFAI----SFEEDGK 408 DD+Q Q V+VVEG RW H + L+ R RP + S E DGK Sbjct: 856 DDVQRLIQEGVLVVEGLRWEHFALYDLIFRRFMASQCRPFKVVVKKYSIEFDGK 909 >3gos_A 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N- succinyltransferase; 2,3,4,5-tetrahydropyridine-2-carboxylate N- succinyltransferase; 1.80A {Yersinia pestis} PDB: 1kgq_A* 1kgt_A* 2tdt_A* 3tdt_A* 3bxy_A 1tdt_A Length = 276 Score = 27.5 bits (61), Expect = 9.1 Identities = 27/145 (18%), Positives = 61/145 (42%), Gaps = 14/145 (9%) Query: 103 VDGAASVALMMRFLSHCSVNANMYIPDRIVDGYGPNPSLMEK--FINEGAQLI--ITVDC 158 VD A+V + + ++ + I +++ NP+++E F+ ++++ + V+ Sbjct: 142 VDTWATVGSCAQIGKNVHLSGGVGI-GGVLEPLQANPTIIEDNCFVGARSEVVEGVIVEE 200 Query: 159 GSTSYDALQYATNQGIDVIVIDHHQVKSEEIPAYALVNPNRLDDLSGQGHLCAAGVVFLV 218 GS + Q + + +V +PA ++V L G L A Sbjct: 201 GSVISMGVFIG--QSTRIYDRETGEVHYGRVPAGSVVVSGNLPSKDGSYSLYCA------ 252 Query: 219 LVLIYRILRQDNKVPLNFDLLSLLD 243 +++ + +KV +N +LL +D Sbjct: 253 VIVKKVDAKTRSKVGIN-ELLRTID 276 >1bjt_A Topoisomerase II; quaternary change, DNA-binding, DNA topology; 2.50A {Saccharomyces cerevisiae} SCOP: e.11.1.1 PDB: 1bgw_A 2rgr_A* Length = 793 Score = 27.5 bits (60), Expect = 9.7 Identities = 9/23 (39%), Positives = 13/23 (56%) Query: 94 KIMIFGDYDVDGAASVALMMRFL 116 +MI D D DG+ L++ FL Sbjct: 112 HLMIMTDQDHDGSHIKGLIINFL 134 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 0.322 0.139 0.406 Gapped Lambda K H 0.267 0.0575 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 5,211,265 Number of extensions: 250797 Number of successful extensions: 840 Number of sequences better than 10.0: 1 Number of HSP's gapped: 819 Number of HSP's successfully gapped: 48 Length of query: 600 Length of database: 5,693,230 Length adjustment: 98 Effective length of query: 502 Effective length of database: 3,317,318 Effective search space: 1665293636 Effective search space used: 1665293636 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 (21.9 bits) S2: 59 (26.8 bits)