RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254781003|ref|YP_003065416.1| hypothetical protein CLIBASIA_04520 [Candidatus Liberibacter asiaticus str. psy62] (304 letters) >3i41_A Beta-hemolysin; beta toxin, sphingomyelinase, toxin; 1.75A {Staphylococcus aureus RN4220} PDB: 3i46_A 3i48_A Length = 317 Score = 78.9 bits (193), Expect = 1e-15 Identities = 58/313 (18%), Positives = 91/313 (29%), Gaps = 39/313 (12%) Query: 13 LVPCTASVAQK-----VRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDAD 67 LVP + + K ++LVS N+ LS + + L+ Q + + D Sbjct: 14 LVPRGSHMESKKDDTDLKLVSHNVYMLSTVLYPNWGQYKRAD------LIGQSSYIKNND 67 Query: 68 IVFLQEMGSYNAVAKVFPKNTWCIFYSTERLINHSKRDSN----------NDIHTAIAVR 117 +V E A K+ Y T L D AI + Sbjct: 68 VVIFNEAFDNGASDKLLSNVKKEYPYQTPVLGRSQSGWDKTEGSYSSTVAEDGGVAIVSK 127 Query: 118 KKNVRVLQQSYPLLGAKDSFSRAGNRRAVELLVEINGKKIWVLDIHLKSFCFLDSLENTY 177 +Q + D+ S N+ V +E NGK + V+ H +S + Sbjct: 128 YPIKEKIQHVFKSGCGFDNDS---NKGFVYTKIEKNGKNVHVIGTHTQSEDSRCGAGHDR 184 Query: 178 SPSCSLLSQQAQWLKDWITQKKESLVPFVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRF 237 Q + + I GD N D K ++ ND L Sbjct: 185 KIRA---EQMKEISDFVKKKNIPKDETVYIGGDLNVNKGTPE-FKDMLKNLNVNDVLYAG 240 Query: 238 PKEKDSRCN---ANKNLRNKIP--IDYFVMDQNAYK------FLIQESFSEILYNEDDIK 286 + A N N P +DY D++ + ++ E Sbjct: 241 HNSTWDPQSNSIAKYNYPNGKPEHLDYIFTDKDHKQPKQLVNEVVTEKPKPWDVYAAAYY 300 Query: 287 SRGKRLSDHCPIS 299 SDH PI Sbjct: 301 YVYNDFSDHYPIK 313 >2f1n_A CDT B, cytolethal distending toxin subunit B; E.coli, DNAse I, microbatch; 1.73A {Escherichia coli} SCOP: d.151.1.1 Length = 262 Score = 65.9 bits (159), Expect = 1e-11 Identities = 43/284 (15%), Positives = 79/284 (27%), Gaps = 37/284 (13%) Query: 21 AQKVRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGSYNAV 80 R+ +WN+ ++ + + + + + DI+ +QE GS + Sbjct: 13 LTDFRVATWNLQ----------GASATTESKWNINVRQLISGENAVDILAVQEAGSPPST 62 Query: 81 AKVFPKNTWCIFYSTERLINHSKRDSNNDIHTAI--AVRKKNVRVLQQSYPLLGAKDSFS 138 A + LI + +S AV RV A + F Sbjct: 63 AVDTGRVIPSPGIPVRELIWNLSTNSRPQQVYIYFSAVDALGGRVNLALVSNRRADEVFV 122 Query: 139 RAGNRRAVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQWLKDWITQK 198 + R+ L+ I H + D+ L ++ Sbjct: 123 LSPVRQGGRPLLGIRIGNDAFFTAHAIAMRNNDAPA---------LVEEVYNFFRDSRDP 173 Query: 199 KESLVPFVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRFPKEKDSRCNANKNLRNKIPID 258 + ++I GDFNR+ L N + R +D Sbjct: 174 VHQALNWMILGDFNREPADLEMNLTVPVRRASEIISPAAATQTSQRT-----------LD 222 Query: 259 YFVMDQNAYKFLIQESFSEILYNEDDIKSRGKRLSDHCPISIDY 302 Y V + + S + R + SDH P+ + Sbjct: 223 YAVAGNS-----VAFRPSPLQAGIVYGARRTQISSDHFPVGVSR 261 >3g6s_A Putative endonuclease/exonuclease/phosphatase family protein; alpha-beta protein, structural genomics, PSI-2; 2.50A {Bacteroides vulgatus atcc 8482} Length = 267 Score = 65.0 bits (157), Expect = 2e-11 Identities = 46/294 (15%), Positives = 79/294 (26%), Gaps = 52/294 (17%) Query: 24 VRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEM--GSYNAVA 81 VR ++NI + Q+ ++ W+ R + Q+ K+ + DIV +QE+ + + Sbjct: 4 VRWATFNIRYDNPQDSLNNWQYRKDR-------VCQFIKDHELDIVGMQEVLHNQFQDLR 56 Query: 82 KVFPKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQS------YPLLGAKD 135 P+ + + RK VL + P Sbjct: 57 AGLPEYDGIGVGRD--------DGKTAGEYAPLFYRKDKYEVLDSNTFWLAENPDSVGMM 108 Query: 136 SFSRAGNRRAVELLVEI--NGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQWLKD 193 + R A + GK ++ H Q A + Sbjct: 109 GWDAVCVRIATWAKFKDKATGKIFMAVNTHFDHVGEEARR------------QSALLIIR 156 Query: 194 WITQKKESLVPFVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRFPKEKDSRCN----ANK 249 I + P V+ GDFN D+ + A Sbjct: 157 KIKEIVGER-PAVVTGDFNVTDASDAYETITTNEFVMKDAYKTAARVTGVDYTFHDFARI 215 Query: 250 NLRNKIPIDYFVMDQNAYKFLIQESFSEILYNEDDIKSRGKRLSDHCPISIDYD 303 + ID+ + + EI LSDH P D + Sbjct: 216 PAEDCEKIDFIFVTPQ-----VLVKSCEIPAEVP-----EALLSDHNPQLADLE 259 >1zwx_A SMCL, sphingomyelinase-C; dnase1-like fold, beta-hairpin, hydrolase; 1.90A {Listeria ivanovii} SCOP: d.151.1.3 Length = 301 Score = 59.9 bits (143), Expect = 7e-10 Identities = 33/300 (11%), Positives = 84/300 (28%), Gaps = 27/300 (9%) Query: 17 TASVAQKVRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGS 76 + ++ S N+ S + + L+ Q + D+V L E Sbjct: 4 SDEYPGNFKITSHNVYLFSRNIYPNWGQMHRAD------LIAQADYMKNNDVVILNEAFD 57 Query: 77 YNAVAKVFPKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLL----- 131 +A ++ + T + + + + + + +P++ Sbjct: 58 TSASHRLLNNLREMYPHQTPVIGRSKHGWDKTEGNYSNFALEDGGVAVVSQWPIVEKSQH 117 Query: 132 --GAKDSFSRAGNRRAVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQ 189 R N+ + + NGK ++ H ++ L S + + Q + Sbjct: 118 IFQRGGGADRLSNKGFAYVKIMKNGKPYHIIGTHTQADDSLISKDTSR---AIRAEQMQE 174 Query: 190 WLKDWITQKKESLVPFVIAGDFN-----RKINYLGNNDDFWKTIDPNDSLIRFPKEKDSR 244 + I GD N + + + + + N + + +S Sbjct: 175 IQTFIAKKNIPKDEIIFIGGDLNVNYGTDEYHDMLKLLNVSSPANFNGQMATWDPTTNSM 234 Query: 245 CNANKNLRNKIPIDYFVMDQNAYK------FLIQESFSEILYNEDDIKSRGKRLSDHCPI 298 + +DY ++ + ++ + + SDH P+ Sbjct: 235 LKESYPKAAPEYLDYIFVENGHARPHSWHNKVLHTKSPQWSVKSWFKTYTYQDFSDHYPV 294 >3mtc_A Type II inositol-1,4,5-trisphosphate 5-phosphatas; INPP5BA,phosphoinositide 5-phosphatase, inositol signalling, phosphatase, magnesium; HET: PIF; 2.40A {Homo sapiens} Length = 313 Score = 59.0 bits (142), Expect = 1e-09 Identities = 46/307 (14%), Positives = 91/307 (29%), Gaps = 41/307 (13%) Query: 23 KVRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGSYNAVAK 82 + ++N+N S +E + LW L + D V QE+ + Sbjct: 9 RFFAGTYNVNGQSPKECLRLW-------------LSNGIQAPDVYCVGFQELDL--SKEA 53 Query: 83 VFPKNTWCIFYSTERLINHSKRDSN---------NDIHTAIAVRKKNVRVLQQSYPLLGA 133 F +T + + D+ I + V++++ + + Sbjct: 54 FFFHDTPKEEEWFKAVSEGLHPDAKYAKVKLIRLVGIMLLLYVKQEHAAYISEVEAETVG 113 Query: 134 KDSFSRAGNRRAVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQWLKD 193 R GN+ V + + + I V++ HL + N Q Q Sbjct: 114 TGIMGRMGNKGGVAIRFQFHNTSICVVNSHLAAHIEEYERRNQDYKDICSRMQFCQPDPS 173 Query: 194 WITQKKESLVPFVIAGDFNRKINYLGNND-------DFWKTIDPNDSLIRFPKEK---DS 243 + + GD N +I L ++ + D L K + Sbjct: 174 LPPLTISNHDVILWLGDLNYRIEELDVEKVKKLIEEKDFQMLYAYDQLKIQVAAKTVFEG 233 Query: 244 RCNANKNLRNKIPIDYFVMDQNAYKFLIQESFSE-ILYNEDDIKSR------GKRLSDHC 296 + D D + + ++ + IL+ +I + SDH Sbjct: 234 FTEGELTFQPTYKYDTGSDDWDTSEKCRAPAWCDRILWKGKNITQLSYQSHMALKTSDHK 293 Query: 297 PISIDYD 303 P+S +D Sbjct: 294 PVSSVFD 300 >1sr4_B CDT B, cytolethal distending toxin protein B; bacterial, virulence, DNA damage, genotoxin, cytotoxins, cell cycle, apoptosis, lectin; 2.00A {Haemophilus ducreyi} SCOP: d.151.1.1 PDB: 2f2f_B Length = 261 Score = 56.7 bits (135), Expect = 6e-09 Identities = 35/288 (12%), Positives = 85/288 (29%), Gaps = 34/288 (11%) Query: 21 AQKVRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGSYNAV 80 ++ +WN+ ++V + + + + + ADI+ +QE GS + Sbjct: 2 LSDFKVATWNLQ----------GSSAVNESKWNINVRQLLSGEQGADILMVQEAGSLPSS 51 Query: 81 AKVFPKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLL---GAKDSF 137 A + E + + I + +V + + ++ A ++F Sbjct: 52 AVRTSRVIQHGGTPIEEYTWN-LGTRSRPNMVYIYYSRLDVGANRVNLAIVSRRQADEAF 110 Query: 138 SRAGNRRAVEL--LVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQWLKDWI 195 + ++ V I +H + D++ Sbjct: 111 IVHSDSSVLQSRPAVGIRIGTDVFFTVHALATGGSDAVSLIR--------NIFTTFNSSS 162 Query: 196 TQKKESLVPFVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRFPKEKDSRCNANKNLRNKI 255 + + + +++ GDFNR + + Sbjct: 163 SPPERRVYSWMVVGDFNR-----APANLEVALRQEPAVSENTIIIAPTEPTHRSGNI--- 214 Query: 256 PIDYFVMDQNAYKFLIQESFSEILYNEDDIKSRGKRLSDHCPISIDYD 303 +DY ++ +++ I + + R + SDH P+S D Sbjct: 215 -LDYAILHDAHLPR-REQARERIGASLMLNQLRSQITSDHFPVSFVRD 260 >2ddr_A Sphingomyelin phosphodiesterase; DNAse I like folding, riken structural genomics/proteomics initiative, RSGI, structural genomics, hydrolase; 1.40A {Bacillus cereus} SCOP: d.151.1.3 PDB: 2dds_A 2ddt_A* 2uyr_X Length = 306 Score = 55.8 bits (132), Expect = 1e-08 Identities = 39/315 (12%), Positives = 92/315 (29%), Gaps = 39/315 (12%) Query: 17 TASVAQKVRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGS 76 + + +++++ N+ LS + + L+ + D+V L E+ Sbjct: 3 STTQNDTLKVMTHNVYMLSTNLYPNWGQTERAD------LIGAADYIKNQDVVILNEVFD 56 Query: 77 YNAVAKVFPKNTWCIFYSTERLINHSKRDSNN-----------DIHTAIAVRKKNVRVLQ 125 +A ++ T L S + + D AI + +Q Sbjct: 57 NSASDRLLGNLKKEYPNQTAVLGRSSGSEWDKTLGNYSSSTPEDGGVAIVSKWPIAEKIQ 116 Query: 126 QSYPLLGAKDSFSRAGNRRAVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLS 185 + D+ S + V ++ N + + V+ HL++ + + + Sbjct: 117 YVFAKGCGPDNLSN---KGFVYTKIKKNDRFVHVIGTHLQAEDSMCGKTSPA---SVRTN 170 Query: 186 QQAQWLKDWITQKKESLVPFVIAGDFN--------RKINYLGNNDDFWKTIDPNDSLIRF 237 Q + + + +I GD N + + P+ + Sbjct: 171 QLKEIQDFIKNKNIPNNEYVLIGGDMNVNKINAENNNDSEYASMFKTLNASVPSYTGHTA 230 Query: 238 PKEKDSRCNANKNLRNKIP--IDYFVMDQNAYK------FLIQESFSEILYNEDDIKSRG 289 + + A N + +DY + ++ ++Q + K Sbjct: 231 TWDATTNSIAKYNFPDSPAEYLDYIIASKDHANPSYIENKVLQPKSPQWTVTSWFQKYTY 290 Query: 290 KRLSDHCPISIDYDF 304 SDH P+ Sbjct: 291 NDYSDHYPVEATISM 305 >3mpr_A Putative endonuclease/exonuclease/phosphatase FAM protein; structural genomics, PSI-2, protein structure initiative; HET: MSE PEG; 1.90A {Bacteroides thetaiotaomicron} Length = 298 Score = 54.0 bits (128), Expect = 4e-08 Identities = 35/312 (11%), Positives = 83/312 (26%), Gaps = 54/312 (17%) Query: 21 AQKVRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEM--GSYN 78 + + S+N+ + + + ++ Q + D DI QE Sbjct: 4 PTSLTVASYNLRNANGSDSARGDGWGQRYP-----VIAQMVQYHDFDIFGTQECFLHQLK 58 Query: 79 AVAKVFPKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSY---------P 129 + + P + + H+AI R ++++ P Sbjct: 59 DMKEALPGYDYIGV--------GRDDGKDKGEHSAIFYRTDKFDIVEKGDFWLSETPDVP 110 Query: 130 LLGAKDSFSRAGNRRAVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQ 189 G R + G + ++H+ + + + Sbjct: 111 SKGWDAVLPR--ICSWGHFKCKDTGFEFLFFNLHMD-----------HIGKKARVESAFL 157 Query: 190 WLKDWITQKKESLVPFVIAGDFNRKINY--LGNNDDFWKTIDPNDSLIRFPKEKDSRCNA 247 + + +P ++ GDFN + D + + N Sbjct: 158 VQEKMKELGRGKNLPAILTGDFNVDQTHQSYDAFVSKGVLCDSYEKCDYRYALNGTFNNF 217 Query: 248 NKNLRNKIPIDYF------------VMDQNAYKFLIQESFSEILYNEDDIKSR---GKRL 292 + N + ID+ V+ ++ ++I + + Sbjct: 218 DPNSFTESRIDHIFVSPSFHVKRYGVLTDTYRSVRENSKKEDVRDCPEEITIKAYEARTP 277 Query: 293 SDHCPISIDYDF 304 SDH P+ ++ F Sbjct: 278 SDHFPVKVELVF 289 >1wdu_A TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA binding protein; 2.40A {Bombyx mori} SCOP: d.151.1.1 Length = 245 Score = 53.1 bits (126), Expect = 8e-08 Identities = 32/286 (11%), Positives = 66/286 (23%), Gaps = 69/286 (24%) Query: 24 VRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGSYNAVAKV 83 R++ N+ R L A A I +QE A + Sbjct: 20 YRVLQANLQ----------------RKKLATAELAIEAATRKAAIALIQEPYVGGAKSMK 63 Query: 84 FPKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLGAKDSFSRAGNR 143 + S + + AIAV ++ V+Q Sbjct: 64 GFRGVRV---------FQSTAQGDGTVKAAIAVFDHDLDVIQYPQL-----------TTN 103 Query: 144 RAVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQWLKDWITQKKESLV 203 V + + +I ++ + Y + + +K + Sbjct: 104 NIVVVGIRTRAWEITLV--------------SYYFEPDKPIESYLEQIKRVERKMGPK-- 147 Query: 204 PFVIAGDFN------RKINYLGNNDDFWKTIDPNDSLIRFPKEKDSRCNANKNLRNKIPI 257 + GD N D T+ I + + R + + Sbjct: 148 RLIFGGDANAKSTWWGSKEDDARGDQLMGTLGELGLHILNEGDVPTFDTIRGGKRYQSRV 207 Query: 258 DYFVMDQNAYKFLIQESFSEILYNEDDIKSRGKRLSDHCPISIDYD 303 D ++ + + + SDH + + Sbjct: 208 DVTFCTEDMLDLIDG---WRVDEDL--------VSSDHNGMVFNIR 242 >2a40_B Deoxyribonuclease-1; WAVE, WH2, WAsp, actin, DNAse I, ARP2/3, structural protein; HET: HIC NAG ATP; 1.80A {Bos taurus} SCOP: d.151.1.1 PDB: 1dnk_A* 2a3z_B* 2a41_B* 2a42_B* 2d1k_B* 2dnj_A* 3cjc_D* 3dni_A* 1atn_D* Length = 260 Score = 52.2 bits (123), Expect = 1e-07 Identities = 36/286 (12%), Positives = 84/286 (29%), Gaps = 38/286 (13%) Query: 25 RLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNL-DADIVFLQEM--GSYNAVA 81 ++ ++NI T E S+ TL + + DIV +QE+ AV Sbjct: 2 KIAAFNIRTFGE------------TKMSNATLASYIVRIVRRYDIVLIQEVRDSHLVAVG 49 Query: 82 KVFPKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLGAKDSFSRAG 141 K+ + +++ ++ R V VL G + + + Sbjct: 50 KLLDYLNQDDPNTYHYVVSEPLGRNSYKERYLFLFRPNKVSVLDTYQYDDGCESCGNDSF 109 Query: 142 NRRAVELLVEI---NGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQWLKDWITQK 198 +R + K+ ++ +H + + D + Sbjct: 110 SREPAVVKFSSHSTKVKEFAIVALHSAPSDAVAEIN-----------SLYDVYLDVQQKW 158 Query: 199 KESLVPFVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRFPKEKDSRCNANKNLRNKIPID 258 ++ GDFN +Y+ ++ + + + + + N D Sbjct: 159 HL--NDVMLMGDFNADCSYVTSSQWSSIRLRTSSTFQWLIPDSADTTATSTNCA----YD 212 Query: 259 YFVMDQNAYKFLIQESFSEILYNEDDIK---SRGKRLSDHCPISID 301 V+ + + + + + +SDH P+ + Sbjct: 213 RIVVAGSLLQSSVVPGSAAPFDFQAAYGLSNEMALAISDHYPVEVT 258 >2jc4_A Exodeoxyribonuclease III; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: 1PE; 1.90A {Neisseria meningitidis} Length = 256 Score = 51.3 bits (121), Expect = 3e-07 Identities = 34/282 (12%), Positives = 73/282 (25%), Gaps = 29/282 (10%) Query: 25 RLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQE--MGSYNAVAK 82 ++ +WN+N +++ V+ + DI+ LQE + A Sbjct: 2 KITTWNVN------SLNVRLPQVQ----------NLLADNPPDILVLQELKLDQDKFPAA 45 Query: 83 VFPKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLGAKDSFSRAGN 142 W +S ++ N S + Q+ Sbjct: 46 ALQMMGWHCVWSGQKTYNGVAIVSRSVPQDVHFGLPALPDDPQRRVIAATVSGVRVINVY 105 Query: 143 RRAVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQWLKDWITQKKESL 202 E L K L F + + + + +K Sbjct: 106 CVNGEALDSPKFKYKEQWFAALTEFVRDEMTRHGKLVLLGDFNIAPADADCYDPEKWHEK 165 Query: 203 VPFVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRFPKEKDSRCNANKNLRNKIPIDYFVM 262 + + D + + P + + + + LR ID+ ++ Sbjct: 166 IHCSSVERQWFQNLLDLGLTDSLRQVHPEGAFYTWFDYRGAMFQRKLGLR----IDHILV 221 Query: 263 DQNAYKFLIQESFSEILYNEDDIKSRGKRLSDHCPISIDYDF 304 L + +R SDH P++ ++D+ Sbjct: 222 SPAMAAALKD---VRVDLETRA----LERPSDHAPVTAEFDW 256 >3l1w_A Uncharacterized protein; APC29019.2, conserved protein, enterococcus faecalis V583, PSI-2, MCSG, structural genomics; 1.60A {Enterococcus faecalis} Length = 257 Score = 47.1 bits (110), Expect = 5e-06 Identities = 33/282 (11%), Positives = 73/282 (25%), Gaps = 32/282 (11%) Query: 24 VRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGSYNAVAKV 83 +++ ++N+ +E + W + + Q D + +QE+ Sbjct: 1 MKIATYNVRVDTEYDQDWQWSFRKEA-------VCQLINFHDWSLCCIQEVRPNQV---- 49 Query: 84 FPKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLGAKDSFSRAGNR 143 Y+T ++ + AI ++ V+ + Y S + Sbjct: 50 ----RDLKAYTTFTCLSAEREGDGQGEGLAILYNEQKVQAIDTGYF------WLSETPQQ 99 Query: 144 RAVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQWLKDWITQKKESLV 203 ++ +W L + + + K + Sbjct: 100 PSIHPEAGCPRIALWGLFKETTQNTPFLVINVHLDHISAHARLAGMTVILEELHDKIAQY 159 Query: 204 PFVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRFPKEKD-SRCNANKNLRNKIPIDYFVM 262 P ++ GDFN + + K D + + K IDY + Sbjct: 160 PTLLMGDFNAESGEEVHQLVQKKFQDSKNLATHYGPRGTFQNFTYTKPWAELEEIDYIYV 219 Query: 263 DQNAYKFLIQESFSEILYNEDDIKSRGKRLSDHCPISIDYDF 304 + G+ SDH P+ + Sbjct: 220 K----------GWQVQQTASLTDSIDGRFPSDHFPLEAEVAG 251 >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 = 46.5 bits (110), Expect = 7e-06 Identities = 38/246 (15%), Positives = 71/246 (28%), Gaps = 108/246 (43%) Query: 12 FLVPCTAS--VAQKVRLVSWN--INTLSEQ-EGVSLWKNSVKRTTSDYTLLRQYAKNLD- 65 LVP TAS +A +++ L E EG + T+ L+ ++ L Sbjct: 20 LLVP-TASFFIASQLQ----EQFNKILPEPTEG--FAADD--EPTTPAELVGKF---LGY 67 Query: 66 -ADIVFLQEMGSYNAVAKVFPKNTWCIFYSTERLINHSKRD--SNNDIHTAIA------- 115 + +V ++G ++ V + + + NDIH A Sbjct: 68 VSSLVEPSKVGQFDQVLNL--------------CLTEFENCYLEGNDIHALAAKLLQEND 113 Query: 116 ---VRKKNV--------RVLQQSYPLLGAKDS--FSRAGNRRAVELLVEINGKKIWVLDI 162 V+ K + + ++ + +S F G A ++ + Sbjct: 114 TTLVKTKELIKNYITARIMAKRPFD--KKSNSALFRAVGEGNA----------QLVAI-- 159 Query: 163 HLKSF--------CF--LDSLENTYSP-------SCS--L--LSQQA------------- 188 F F L L TY + L L + Sbjct: 160 ----FGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNI 215 Query: 189 -QWLKD 193 +WL++ Sbjct: 216 LEWLEN 221 Score = 35.3 bits (81), Expect = 0.017 Identities = 24/150 (16%), Positives = 42/150 (28%), Gaps = 64/150 (42%) Query: 209 GDFNRKINYLGNND----------DFWKTIDPNDSLIR------------FPKEKDSRC- 245 +F YL ND + T+ LI+ F K+ +S Sbjct: 89 TEFEN--CYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALF 146 Query: 246 -NANKNLRNKIPI-----------DYFVMDQ-----NAYKFLIQE---SFSEILY----N 281 + + DYF ++ Y L+ + +E L Sbjct: 147 RAVGE---GNAQLVAIFGGQGNTDDYF--EELRDLYQTYHVLVGDLIKFSAETLSELIRT 201 Query: 282 EDDIK---SRG----KRLS--DHCPISIDY 302 D + ++G + L + P DY Sbjct: 202 TLDAEKVFTQGLNILEWLENPSNTP-DKDY 230 Score = 33.8 bits (77), Expect = 0.053 Identities = 18/100 (18%), Positives = 32/100 (32%), Gaps = 31/100 (31%) Query: 3 RKYVLALVF---FLVPCTA--------SVAQKV--RLVSWNINTLSEQEGVSLWKNSVKR 49 RK L F FL P + + + LV N++ ++ + ++ Sbjct: 412 RK----LKFSNRFL-PVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDT---F 463 Query: 50 TTSDYTLLRQYAKNLDADIVFLQEMGSYNAV----AKVFP 85 SD LR + ++ IV + V F Sbjct: 464 DGSD---LRVLSGSISERIV---DCIIRLPVKWETTTQFK 497 >2jc5_A Exodeoxyribonuclease; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: BCN DIO GOL; 1.50A {Neisseria meningitidis} Length = 259 Score = 46.3 bits (108), Expect = 9e-06 Identities = 29/283 (10%), Positives = 69/283 (24%), Gaps = 32/283 (11%) Query: 25 RLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGSYNAVAKVF 84 +++S N+N + +++ K+ +Y ADIV +QE+ A Sbjct: 3 KIISANVNGI---------RSAYKKG------FYEYIAASGADIVCVQEL---KAQEADL 44 Query: 85 PKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLGAKDSFSRAGNRR 144 + KR + + + + G Sbjct: 45 SADMKNPHGMHGHWHCAEKRGYSGVAVYSKRKPDNVQIGMGIEEFDREGRFVRCDFGRLS 104 Query: 145 AVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQWLKDWITQKKESLVP 204 + L + + + + + W ++ Sbjct: 105 VISLYLPSGSSAEERQQVKYRFLDAFYPMLEAMKNEGRDIVVCGDWNIAHQNIDLKNWKG 164 Query: 205 FVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRFPKEKDSRCNANKNLRNKIP---IDYFV 261 F + + + + K IDY + Sbjct: 165 NQKNSGFLPEEREWIGKVIHKLGWTDMWRTLYPDVPGYTWWSNRGQAYAKDVGWRIDYQM 224 Query: 262 MDQNAYKFLIQESFSEILYNEDDIKSRGKRLSDHCPISIDYDF 304 + + + + +E + SDH P+ ++YD+ Sbjct: 225 VTPELAAKAVS---AHVYKDE--------KFSDHAPLVVEYDY 256 >2voa_A AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP endonuclease, lyase; 1.7A {Archaeoglobus fulgidus} Length = 257 Score = 45.4 bits (106), Expect = 1e-05 Identities = 32/295 (10%), Positives = 71/295 (24%), Gaps = 57/295 (19%) Query: 25 RLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQE----------- 73 ++ ++N+N + + V + K DI+ +QE Sbjct: 3 KIATFNVN------SIRSRLHIVI----------PWLKENKPDILCMQETKVENRKFPEA 46 Query: 74 ----MGSYNAVAKVFPKNTWCIFYSTERL-INHSKRDSNNDIHTAIAVRKKNVRVLQQSY 128 +G + + +N I E ++ D I + + V+ Sbjct: 47 DFHRIGYHVVFSGSKGRNGVAIASLEEPEDVSFGLDSEPKDEDRLIRAKIAGIDVINTYV 106 Query: 129 PLLGAKDSFSRAGNRRAVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQA 188 P D + + L + ++ + + +P + Sbjct: 107 PQGFKID------SEKYQYKLQWLERLYHYLQKTVDFRSFAVWCGDMNVAPEPIDVHSPD 160 Query: 189 QWLKDWITQKKESLVPFVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRFPKEKDSRCNAN 248 + + +KI LG D K + Sbjct: 161 KLKNHVCFHEDAR--------RAYKKILELGFVDVLRKIHPNERIYTFYDYRVKGAIERG 212 Query: 249 KNLRNKIPIDYFVMDQNAYKFLIQESFSEILYNEDDIKSRGKRLSDHCPISIDYD 303 R D + + + ++ SDH P+ +D Sbjct: 213 LGWR----GDAILATPPLAERCVD---CYADIKPRL----AEKPSDHLPLVAVFD 256 >3ngq_A CCR4-NOT transcription complex subunit 6-like; alpha/beta sandwich fold, hydrolase; HET: 1PS; 1.80A {Homo sapiens} PDB: 3ngo_A 3ngn_A Length = 398 Score = 44.6 bits (104), Expect = 3e-05 Identities = 41/353 (11%), Positives = 89/353 (25%), Gaps = 69/353 (19%) Query: 21 AQKVRLVSWNI--NTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGS-- 76 + ++ +N+ + + ++ + + + N DADI+ LQE+ + Sbjct: 29 SASFTVMCYNVLCDKYATRQLYGYCPSWALNWEYRKKGIMEEIVNCDADIISLQEVETEQ 88 Query: 77 -YNAVAKVFPK-NTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQS------- 127 + + F R S+++ + AI + + ++Q+ Sbjct: 89 YFTLFLPALKERGYDGFFSPKSRAKIMSEQERKHVDGCAIFFKTEKFTLVQKHTVEFNQV 148 Query: 128 --YPLLGAKDSFSRAGNRRAVELLVEINGKKIWVLDIHL---KSFCFLDSLENTYSPSCS 182 G++ +R + + + V + K + L + N + Sbjct: 149 AMANSDGSEAMLNRVMTKDNIGVAVVLEVHKELFGAGMKPIHAADKQLLIVANAHMHWDP 208 Query: 183 LLS----QQAQWLKDWITQKKESL-------------VPFVIAGDFN--------RKINY 217 S Q + E +P V+ D N ++ Sbjct: 209 EYSDVKLIQTMMFVSEVKNILEKASSRPGSPTADPNSIPLVLCADLNSLPDSGVVEYLSN 268 Query: 218 LGNNDDF-----------WKTIDPNDSLIRFPKEKDSRCNANKNLRNKIP---------- 256 G D+ N N + Sbjct: 269 GGVADNHKDFKELRYNECLMNFSCNGKNGSSEGRITHGFQLKSAYENNLMPYTNYTFDFK 328 Query: 257 --IDY-FVMDQNAY--KFLIQESFSEILYNEDDIKSRGKRLSDHCPISIDYDF 304 IDY F + L ++ N SDH + + Sbjct: 329 GVIDYIFYSKTHMNVEGVLGPLDPQWLVENNITGCPHPHIPSDHFSLLTQLEL 381 >2j63_A AP-endonuclease; base excision repair, lyase; 2.48A {Leishmania major} Length = 467 Score = 42.9 bits (100), Expect = 1e-04 Identities = 45/350 (12%), Positives = 90/350 (25%), Gaps = 96/350 (27%) Query: 21 AQKVRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGSYNAV 80 ++ + ++WN+ L + +K+ S LR + + D++ LQE Sbjct: 147 SRMYKFITWNVAGL---------RGLLKKNASA---LRAFMEAEKPDVLCLQE---TKLN 191 Query: 81 AKVFPKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRV-----LQQSYPLLGAKD 135 N ++H T ++ + + L Sbjct: 192 VDEADANATLGVVDGYSFVDHPCAFKRGYSGTRTYMKNSTTVKGLHARCTRGFALPSEPQ 251 Query: 136 SFSRAGNR-----------RAVELLVEING------KKIWVLDIHLKSFC-FLDSLENTY 177 + + AG+R R + + + +I +++ ++ + L L Sbjct: 252 ADAAAGSRVLVEGAGDEEGRVLTTFLSPDPDSASSSSRIALVNTYVANSGMGLTRLPYRV 311 Query: 178 SPSCSLLSQQAQWLKDWITQKKESLV-----------PFVIAGDFNRKINYLGNNDDFWK 226 + + L W T+ F+ AGD N Sbjct: 312 QSFDPSMREYLHRLDTWATENAAVPSAAAMGSGSSPHGFIWAGDLNVAERDYDRYYAGTF 371 Query: 227 TIDPNDSLIR-----------------------FPKEK------DSRCNA---NKNLRNK 254 S +P+ R N N R Sbjct: 372 KSMQECSGFAPEERMSFRETMQRTNSVDIFRQLYPQAGPVYSFWSQRINGRPRNLGWR-- 429 Query: 255 IPIDYFVMDQNAYKFLIQESFSEILYNEDDIKSRGKRLSDHCPISIDYDF 304 +DYFV+ +++ + SDHCP + Sbjct: 430 --LDYFVVSSRLASYVVD---CFPMPTV--------MGSDHCPFQMWMRH 466 >2o3h_A DNA-(apurinic or apyrimidinic site) lyase; APE, endonuclease; 1.90A {Homo sapiens} PDB: 1bix_A 1dew_A* 1de8_B* 1de9_A* 2o3c_A Length = 285 Score = 42.3 bits (98), Expect = 1e-04 Identities = 33/288 (11%), Positives = 69/288 (23%), Gaps = 42/288 (14%) Query: 25 RLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGSYNAVAKVF 84 ++ SWN++ L + +K+ + K DI+ LQE Sbjct: 30 KIASWNVDGL---------RAWIKK------KGLDWVKEEAPDILCLQET---KCSENKL 71 Query: 85 PKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLGAKDSFSRAGNRR 144 P + + + + ++ + + A Sbjct: 72 PAELQELPGLSHQYWSAPSDKEGYSGVGLLSRQCPLKVSYGIGDEEHDQEGRVIVAEFDS 131 Query: 145 AVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQWLKDWITQKKESLVP 204 V + + ++ + + + + L + Sbjct: 132 FVLVTAYVPNAGRGLVRLEYRQRWDEAFRKFLKGLASRKPLVLCGDLNVAHEEIDLRNPK 191 Query: 205 FVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRFPKEK------DSRCNA---NKNLRNKI 255 G + + +P NA N R Sbjct: 192 GNKKNAGFTPQERQGFGELLQAVPLADSFRHLYPNTPYAYTFWTYMMNARSKNVGWR--- 248 Query: 256 PIDYFVMDQNAYKFLIQESFSEILYNEDDIKSRGKRLSDHCPISIDYD 303 +DYF++ + L S+I SDHCPI++ Sbjct: 249 -LDYFLLSHSLLPALCD---SKIRSKA--------LGSDHCPITLYLA 284 >3nr8_B Phosphatidylinositol-3,4,5-trisphosphate 5-phosph; structural genomics consortium, SGC, trisphosphate 5-phosphatase 2, SHIP2, INPPL1, SHIP-2; 2.80A {Homo sapiens} Length = 316 Score = 42.1 bits (98), Expect = 2e-04 Identities = 46/312 (14%), Positives = 92/312 (29%), Gaps = 41/312 (13%) Query: 23 KVRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVF--LQEMGSYNAV 80 V + +WN+ ++ + V+ W S + L + + DI QE + Sbjct: 9 SVFIGTWNMGSVPPPKNVTSWFTSKGLGKT----LDEVTVTIPHDIYVFGTQEN---SVG 61 Query: 81 AKVFPKN-TWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLGAKDSFSR 139 + + + T+ S +I A+ V+ ++ + + Sbjct: 62 DREWLDLLRGGLKELTDLDYRPIAMQSLWNIKVAVLVKPEHENRISHVSTSSVKTGIANT 121 Query: 140 AGNRRAVELLVEINGKKIWVLDIHLKSF-CFLDSLENTYSPSCSLLSQQAQWLKDWITQK 198 GN+ AV + NG ++ HL S Y LLS + L Sbjct: 122 LGNKGAVGVSFMFNGTSFGFVNCHLTSGNEKTARRNQNYLDILRLLSLGDRQL--NAFDI 179 Query: 199 KESLVPFVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRFPKEKDSRCNANKNLRNKIPID 258 GD N +++ + + + L+R + R LR Sbjct: 180 SLRFTHLFWFGDLNYRLDMDIQEILNYISRKEFEPLLRVDQLNLEREKHKVFLRFSEEEI 239 Query: 259 YFVMDQNAYKFLIQESFSE------------------ILY--------NEDDIKSRGK-R 291 F Y+ +++++ IL+ + Sbjct: 240 SFP-PTYRYERGSRDTYAWHKQKPTGVRTNVPSWCDRILWKSYPETHIICNSYGCTDDIV 298 Query: 292 LSDHCPISIDYD 303 SDH P+ ++ Sbjct: 299 TSDHSPVFGTFE 310 >1ako_A Exonuclease III; AP-endonuclease, DNA repair; 1.70A {Escherichia coli} SCOP: d.151.1.1 Length = 268 Score = 41.3 bits (95), Expect = 3e-04 Identities = 39/294 (13%), Positives = 87/294 (29%), Gaps = 45/294 (15%) Query: 25 RLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQE----------- 73 + VS+NIN G+ + ++ + D++ LQE Sbjct: 2 KFVSFNIN------GLRARPHQLE----------AIVEKHQPDVIGLQETKVHDDMFPLE 45 Query: 74 ---MGSYNAVAKVFPKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPL 130 YN + + E I + +D + + L + + Sbjct: 46 EVAKLGYNVFYHGQKGHYGVALLTKETPIAVRRGFPGDDEEAQRRIIMAEIPSLLGNVTV 105 Query: 131 LGAKDSFSRAGNRRAVELLVEINGKKI--WVLDIHLKSFCFLDSLENTYSPSCSLLSQQA 188 + + + + + ++ + L + SP+ + Sbjct: 106 INGYFPQGESRDHPIKFPAKAQFYQNLQNYLETELKRDNPVLIMGDMNISPTDLDIGIGE 165 Query: 189 QWLKDWITQKKESLVPFVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRFPKEKDSRCNAN 248 + K W+ K S +P ++ ++ G D F + + + N Sbjct: 166 ENRKRWLRTGKCSFLPEER--EWMDRLMSWGLVDTFRHANPQTADRFSWFDYRSKGFDDN 223 Query: 249 KNLRNKIPIDYFVMDQNAYKFLIQESFSEILYNEDDIKSRGKRLSDHCPISIDY 302 + LR ID + Q + ++ + I Y ++ SDH P+ + Sbjct: 224 RGLR----IDLLLASQPLAECCVE---TGIDYEIRS----MEKPSDHAPVWATF 266 >3g91_A MTH0212, exodeoxyribonuclease; double-strand specific 3'-5' exonuclease, AP endonuclease; HET: PG4; 1.23A {Methanothermobacter thermautotrophicusorganism_taxid} PDB: 3fzi_A 3g0a_A 3g1k_A 3g2c_A 3g3c_A* 3g3y_A* 3g4t_A* 3g00_A 3g0r_A* 3g2d_A* 3g38_A 3g8v_A* 3ga6_A Length = 265 Score = 40.0 bits (93), Expect = 7e-04 Identities = 43/286 (15%), Positives = 79/286 (27%), Gaps = 41/286 (14%) Query: 25 RLVSWNINTLSEQEGV-SLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQE--MGSYNAVA 81 +++SWN+N G+ ++ + + + DI+ LQE Sbjct: 5 KIISWNVN------GLRAVHRKGFLK----------WFMEEKPDILCLQEIKAAPEQLPR 48 Query: 82 KVFPKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLGAKDSFSRAG 141 K+ + F++ +S + + V + A Sbjct: 49 KLRHVEGYRSFFTPAERKGYSGVAMYTKVPPSSLREGFGVERFDTEGRIQIADFDDFLLY 108 Query: 142 N---RRAVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQWLKDWITQK 198 N + K + DS N + + L Sbjct: 109 NIYFPNGAMSEERLKYKLEFYDAFLEDVNRERDSGRNVIICGDFNTAHREIDLARPKENS 168 Query: 199 KESLV-PFVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRFPKEKDSRCNANKNLRNKIPI 257 S P A + K G D F + +R N R + Sbjct: 169 NVSGFLPVERA--WIDKFIENGYVDTFRMFNSDPGQYTWWSYRTRARER-NVGWR----L 221 Query: 258 DYFVMDQNAYKFLIQESFSEILYNEDDIKSRGKRLSDHCPISIDYD 303 DYF +++ + + S IL + SDHCPI ++ + Sbjct: 222 DYFFVNEEFKGKVKR---SWILSDV--------MGSDHCPIGLEIE 256 >2ei9_A Non-LTR retrotransposon R1BMKS ORF2 protein; four layered alpha beta sandwich, gene regulation; 2.00A {Bombyx mori} Length = 240 Score = 38.4 bits (88), Expect = 0.002 Identities = 27/280 (9%), Positives = 61/280 (21%), Gaps = 69/280 (24%) Query: 22 QKVRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGSYNAVA 81 ++R+ N+ L A++L DIV +QE Sbjct: 6 PRLRIGQINLGGAE----------------DATRELPSIARDLGLDIVLVQE-------- 41 Query: 82 KVFPKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLGAKDSFSRAG 141 + + + H K + +R + + Sbjct: 42 ------QYSMVGFLAQCGAHPK--------AGVYIRNRVLPCAVL-----------HHLS 76 Query: 142 NRRAVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQWLKDWITQKKES 201 + +V I G ++++ + + +D + L + Sbjct: 77 STHIT--VVHIGGWDLYMVSAYFQYSDPIDPYLHRLGNILDRLRGARVVICADTNAHSPL 134 Query: 202 LVPFVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRFPKEKDSRCNANKNLRNKIPIDYFV 261 + D K D + D + +D + Sbjct: 135 WHSL----PRHYVGRGQEVADRRAKMEDFIGARRLVVHNADGHLPTFSTANGESYVDVTL 190 Query: 262 MDQNAYKFLIQESFSEILYNEDDIKSRGKRLSDHCPISID 301 + + + + SDH I Sbjct: 191 STRGV--------------RVSEWRVTNESSSDHRLIVFG 216 >1vyb_A ORF2 contains A reverse transcriptase domain; endonuclease, APE-1 type, retrotransposition, retrotransposon, transferase; 1.8A {Homo sapiens} SCOP: d.151.1.1 PDB: 2v0s_A 2v0r_A Length = 238 Score = 37.4 bits (85), Expect = 0.004 Identities = 31/283 (10%), Positives = 67/283 (23%), Gaps = 57/283 (20%) Query: 23 KVRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGSYNAVAK 82 + +++ NIN L + L + K+ D + +QE Sbjct: 7 HITILTLNINGL--------------NSAIKRHRLASWIKSQDPSVCCIQETHLTCRDTH 52 Query: 83 VFPKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLGAKDSFSRAGN 142 W Y + AI V K R Sbjct: 53 RLKIKGWRKIYQANGKQKKA--------GVAILVSDKTDFKP----------TKIKRDKE 94 Query: 143 RRAVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQWLKDWITQKKESL 202 + + I +++ +L+I+ + +++K ++ + L Sbjct: 95 GHYIMVKGSIQQEELTILNIYAPNTGAP------------------RFIKQVLSDLQRDL 136 Query: 203 VPFVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRFPKEKDSRCNANKNLRNKIPIDYFVM 262 + + K L + D +F Sbjct: 137 DSHTLIMGDFNTPLSTLDRSTRQKVNKDTQELNSALHQADLIDIYRTLHPKSTEYTFFSA 196 Query: 263 DQNAYK----FLIQESFSEILYNEDDIKSRGKRLSDHCPISID 301 + Y + ++ + LSDH I ++ Sbjct: 197 PHHTYSKIDHIVGSKALLSKC---KRTEIITNYLSDHSAIKLE 236 >1hd7_A DNA-(apurinic or apyrimidinic site) lyase; DNA repair, endonuclease, APE1, HAP1, REF-1; 1.95A {Homo sapiens} SCOP: d.151.1.1 PDB: 1e9n_A 2isi_A Length = 318 Score = 36.4 bits (83), Expect = 0.008 Identities = 41/291 (14%), Positives = 83/291 (28%), Gaps = 48/291 (16%) Query: 25 RLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGSYNAVAKVF 84 ++ SWN++ L + +K+ + K DI+ LQE Sbjct: 63 KICSWNVDGL---------RAWIKK------KGLDWVKEEAPDILCLQET---KCSENKL 104 Query: 85 PKNT-WCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLGAKDSFSRAGNR 143 P S + S ++ + + R+ ++V ++ Sbjct: 105 PAELQELPGLSHQYWSAPSDKEGYS--GVGLLSRQCPLKVSYGIGDEEHDQEGRVIVAEF 162 Query: 144 RAVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSL-----------LSQQAQWLK 192 + +LV + L+ D + + ++ + L+ Sbjct: 163 DSF-VLVTAYVPNAGRGLVRLEYRQRWDEAFRKFLKGLASRKPLVLCGDLNVAHEEIDLR 221 Query: 193 DWITQKKESLVPFVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRFPKEKDSRCNANKNLR 252 + KK + F + + D F F + + N R Sbjct: 222 NPKGNKKNAGFTPQERQGFGELLQAVPLADSFRHLYPNTPYAYTFWTYMMNARSKNVGWR 281 Query: 253 NKIPIDYFVMDQNAYKFLIQESFSEILYNEDDIKSRGKRLSDHCPISIDYD 303 +DYF++ + L S+I SDHCPI++ Sbjct: 282 ----LDYFLLSHSLLPALCD---SKIRSKA--------LGSDHCPITLYLA 317 >2imq_X Salivary nitrophorin; ferrous heme, beta-sandwich, transport protein; HET: HEM; 1.30A {Cimex lectularius} SCOP: d.151.1.2 PDB: 1ntf_A* 1y21_A* 1yjh_A* 1si6_X* Length = 282 Score = 35.3 bits (80), Expect = 0.016 Identities = 36/298 (12%), Positives = 73/298 (24%), Gaps = 43/298 (14%) Query: 23 KVRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGSYNAVAK 82 V VSWN + L + D V +Q G Sbjct: 8 SVHTVSWNSGHERAPTNLEEL------------LGLNSGETPDVIAVAVQGFGFQTD--- 52 Query: 83 VFPKNTWCIFYSTERL--INHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLGAKDSFSRA 140 + C+ L ++K + + V + Q + + Sbjct: 53 KPQQGPACVKNFQSLLTSKGYTKLKNTITETMGLTVYCLEKHLDQNTLKNETIIVTVDDQ 112 Query: 141 GNRRAVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSPSCSLLSQQAQWLKDWITQKKE 200 + I K+ + + A + ++K + Sbjct: 113 KKSGGIVTSFTIYNKRFSFTTSRMSDEDVTSTNTK-----------YAYDTRLDYSKKDD 161 Query: 201 SLVPFVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRF-----PKEKDSRCNANKNLRNKI 255 GD N ++ + + D L+ F KE+ + Sbjct: 162 PSDFLFWIGDLNVRVETNATHAKSLVDQNNIDGLMAFDQLKKAKEQKLFDGWTEPQVTFK 221 Query: 256 PIDYFVMDQNAYKFLIQESFSE-ILYNEDD--------IKSRGK-RLSDHCPISIDYD 303 P F + + Y S+++ LY S + ++H P+ + Sbjct: 222 PTYKFKPNTDEYDLSATPSWTDRALYKSGTGKTIQPLSYNSLTNYKQTEHRPVLAKFR 279 >2xsw_A 72 kDa inositol polyphosphate 5-phosphatase; inositol signalling, SGC stockholm, structural genomics CONS hydrolase; 1.90A {Homo sapiens} Length = 357 Score = 30.0 bits (67), Expect = 0.75 Identities = 38/320 (11%), Positives = 82/320 (25%), Gaps = 66/320 (20%) Query: 23 KVRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVF--LQEMGSYN-- 78 + + +WN+ G S+ L + D+ +QE S Sbjct: 27 ALFVATWNMQ------GQKELPPSLDE------FLLPAEADYAQDLYVIGVQEGCSDRRE 74 Query: 79 ---AVAKVFPKNTWCIFYSTERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLGAKD 135 + + + + S+ ++ ++ +R+ + + Sbjct: 75 WETRLQETLGPH--YVLLSSAAH---------GVLYMSLFIRRDLIWFCSEVECSTVTTR 123 Query: 136 SFSRAGNRRAVELLVEINGKKIWVLDIHLKSF------CFLDSLENTYSPSCSLLSQQAQ 189 S+ + A+ + G + H S LD + Sbjct: 124 IVSQIKTKGALGISFTFFGTSFLFITSHFTSGDGKVAERLLDYTRTVQALVLPRNVPDTN 183 Query: 190 WLKDWITQKKESLVPFVIAGDFNRKINYLGNNDDFWKTIDPNDSLIRFPKEKDSRCNANK 249 + GDFN +++ D L+ + Sbjct: 184 PYRSSAADVTTRFDEVFWFGDFNFRLSGGRTVVDALL----CQGLVVDVPALLQHDQLIR 239 Query: 250 NLRNKIPIDYF----VMDQNAYKFLIQESFSE-------------ILY---NEDDIKSRG 289 +R F + +YKF I + + +LY ++ DI Sbjct: 240 EMRKGSIFKGFQEPDIHFLPSYKFDIGKDTYDSTSKQRTPSYTDRVLYRSRHKGDICPVS 299 Query: 290 K------RLSDHCPISIDYD 303 + SDH P+ + Sbjct: 300 YSSCPGIKTSDHRPVYGLFR 319 >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 = 28.0 bits (61), Expect = 2.9 Identities = 8/19 (42%), Positives = 11/19 (57%), Gaps = 1/19 (5%) Query: 118 KKNVRVLQQSYPLLGAKDS 136 K+ ++ LQ S L A DS Sbjct: 19 KQALKKLQASLKLY-ADDS 36 >3m66_A Mterf3, mterf domain-containing protein 1, mitochondrial; mitochondrion, DNA binding protein, transcription factor, transcription termination; 1.60A {Homo sapiens} PDB: 3opg_A 3my3_A Length = 270 Score = 27.7 bits (61), Expect = 3.1 Identities = 24/105 (22%), Positives = 40/105 (38%), Gaps = 9/105 (8%) Query: 39 GVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMG-SYNAVAKVFPKNTWCIFYSTER 97 GV L K ++ L + K++ ++FL+++G N + KN E Sbjct: 16 GVDLSKIEKHPEAANLLLRLDFEKDIKQMLLFLKDVGIEDNQLGAFLTKNHAIFSEDLEN 75 Query: 98 LIN-----HSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLGAKDSF 137 L HSK S D+ + +K +L S L + F Sbjct: 76 LKTRVAYLHSKNFSKADVAQMV---RKAPFLLNFSVERLDNRLGF 117 >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 = 27.5 bits (60), Expect = 4.1 Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 26/76 (34%) Query: 183 LLSQQAQWLKDWITQKKESL------VPFVIAGDF----NRKIN------------YLGN 220 L++++AQ +KDW+ + E+L +P +F R+I+ GN Sbjct: 1253 LVTREAQ-IKDWVENELEALKLEAEEIPSEDQNEFLLERTREIHNEAESQLRAAQQQWGN 1311 Query: 221 NDDFWKTIDPNDSLIR 236 DF+K DP + +R Sbjct: 1312 --DFYKR-DPRIAPLR 1324 >2gdt_A Leader protein; P65 homolog; NSP1 (EC 3.4.22.-); beta-barrel, alpha-beta, replicase, structural genomics, PSI-2, protein structure initiative; NMR {Sars coronavirus} SCOP: d.346.1.1 PDB: 2hsx_A Length = 116 Score = 27.3 bits (60), Expect = 4.5 Identities = 14/61 (22%), Positives = 28/61 (45%) Query: 94 STERLINHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLGAKDSFSRAGNRRAVELLVEIN 153 S E ++ ++ N + + K + L+Q Y + D+ S + VEL+ E++ Sbjct: 23 SVEEALSEAREHLKNGTCGLVELEKGVLPQLEQPYVFIKRSDALSTNHGHKVVELVAEMD 82 Query: 154 G 154 G Sbjct: 83 G 83 >3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold, motor, ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A Length = 422 Score = 27.3 bits (60), Expect = 5.1 Identities = 20/118 (16%), Positives = 39/118 (33%), Gaps = 21/118 (17%) Query: 159 VLDIHLKSFCFLDSLENTYSP-------SCSLLSQQ----AQWLKDWITQKKESLVPFVI 207 VL+I F FL S +++Y S S + + + I KE F + Sbjct: 57 VLEILQDGFGFLRSADSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFAL 116 Query: 208 AGDFNRKINYLGNND-DFWKTIDPNDSL-IRFPKEKDSRCNANKNLRNKIPIDYFVMD 263 K+N + + + + ++L R + + + V+D Sbjct: 117 -----LKVNEVNFDKPENARNKILFENLTPLHANS---RLRMERGNGSTEDLTARVLD 166 >1xv5_A AGT, DNA alpha-glucosyltransferase; HET: DNA CME UDP; 1.73A {Enterobacteria phage T4} PDB: 1y6f_A* 1y6g_A* 1ya6_A* 1y8z_A* Length = 401 Score = 26.8 bits (59), Expect = 5.6 Identities = 7/52 (13%), Positives = 16/52 (30%), Gaps = 4/52 (7%) Query: 188 AQWLKD-WITQKKESLVPFVIAG---DFNRKINYLGNNDDFWKTIDPNDSLI 235 + L W + A +F ++ + +WK + + I Sbjct: 148 NKVLMKEWYPETVSLFDDIEEAPTVYNFQPPMDIVKVRSTYWKDVSEINMNI 199 >3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima} Length = 427 Score = 26.5 bits (58), Expect = 6.7 Identities = 10/22 (45%), Positives = 14/22 (63%) Query: 159 VLDIHLKSFCFLDSLENTYSPS 180 VL+IH + F FL +E+ PS Sbjct: 61 VLEIHPEGFGFLRRIEDNLLPS 82 >2fqx_A Membrane lipoprotein TMPC; ABC transport system, ligand-binding protein, guanosine, TP0319, transport protein; HET: GMP; 1.70A {Treponema pallidum} PDB: 2fqw_A* 2fqy_A* Length = 318 Score = 26.6 bits (58), Expect = 7.2 Identities = 8/50 (16%), Positives = 19/50 (38%), Gaps = 5/50 (10%) Query: 50 TTSDY-TLLRQYAKNLDADIVFL---QEMGSYNAVAKVFPKNTWCIFYST 95 T ++Y L +A + +V + + + FPK + + + Sbjct: 47 TDAEYVPSLSAFADE-NMGLVVACGSFLVEAVIETSARFPKQKFLVIDAV 95 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 0.321 0.135 0.408 Gapped Lambda K H 0.267 0.0490 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 2,577,672 Number of extensions: 114224 Number of successful extensions: 395 Number of sequences better than 10.0: 1 Number of HSP's gapped: 354 Number of HSP's successfully gapped: 47 Length of query: 304 Length of database: 5,693,230 Length adjustment: 92 Effective length of query: 212 Effective length of database: 3,462,782 Effective search space: 734109784 Effective search space used: 734109784 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: 56 (25.9 bits)