RPS-BLAST 2.2.22 [Sep-27-2009] Database: scop70_1_75 13,730 sequences; 2,407,596 total letters Searching..................................................done Query= gi|254780964|ref|YP_003065377.1| ribonucleotide-diphosphate reductase subunit beta [Candidatus Liberibacter asiaticus str. psy62] (352 letters) >d1syya_ a.25.1.2 (A:) Ribonucleotide reductase R2 {Chlamydia trachomatis [TaxId: 813]} Length = 317 Score = 280 bits (717), Expect = 1e-76 Identities = 172/315 (54%), Positives = 237/315 (75%), Gaps = 3/315 (0%) Query: 10 IQAGEKRVNVDDKRMLNA-RSDVNQLLPLKYGWAWEKYLSACNNHWMPTEVPMQDDLALW 68 + +KRVN++ KR++N + DVNQL+P+KY WAWE YL+ C N+W+PTE+PM D+ LW Sbjct: 5 LDGKQKRVNLNSKRLVNCNQVDVNQLVPIKYKWAWEHYLNGCANNWLPTEIPMGKDIELW 64 Query: 69 KSKNGLTDDERLMIKRNLGFFASSESLVANNIVLAIYRHLSNPECRQYLLRQAFEEAVHS 128 KS + L++DER +I NLGFF+++ESLV NNIVLAI++H++NPE RQYLLRQAFEEAVH+ Sbjct: 65 KS-DRLSEDERRVILLNLGFFSTAESLVGNNIVLAIFKHVTNPEARQYLLRQAFEEAVHT 123 Query: 129 HTFQYIITSLGLDEGELFNMYREVPSITAKANWALQYTQTLSSPSFTTGTKDADQEFLQD 188 HTF YI SLGLDE E+FN Y E +I AK ++ ++ T + P+F T + + QEF+++ Sbjct: 124 HTFLYICESLGLDEKEIFNAYNERAAIKAKDDFQMEITGKVLDPNFRTDSVEGLQEFVKN 183 Query: 189 LFVFYVVFEGMWFYTGFAQILSLGRANKMVGIAEQYQYIMRDESLHLNFGIDVINQIKIE 248 L +Y++ EG++FY+GF ILS R NKM+GI EQYQYI+RDE++HLNFGID+IN IK E Sbjct: 184 LVGYYIIMEGIFFYSGFVMILSFHRQNKMIGIGEQYQYILRDETIHLNFGIDLINGIKEE 243 Query: 249 NPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQIG 308 NP +WT E QQ+ ++ A LEI YA + +P+G +GL A Y+Q IA+RR +IG Sbjct: 244 NPEIWTPELQQEIVELIKRAVDLEIEYAQDCLPRGILGLRASMFIDYVQHIADRRLERIG 303 Query: 309 LEPLFKYTENPFPWM 323 L+P++ T+NPFPWM Sbjct: 304 LKPIYH-TKNPFPWM 317 >d1mxra_ a.25.1.2 (A:) Ribonucleotide reductase R2 {Escherichia coli [TaxId: 562]} Length = 339 Score = 207 bits (528), Expect = 9e-55 Identities = 70/317 (22%), Positives = 128/317 (40%), Gaps = 26/317 (8%) Query: 31 VNQLLPLKYGWAWEKYLSACNNHWMPTEVPMQDDLALWKSKNGLTDDERLMIKRNLGFFA 90 V + KY + + W P EV + D +++ L + E+ + NL + Sbjct: 25 VARYDQQKYDIFEKLIEKQLSFFWRPEEVDVSRDRIDYQA---LPEHEKHIFISNLKYQT 81 Query: 91 SSESLVANNIVLAIYRHLSNPECRQYLLRQAFEEAVHSHTFQYIITSLGLDEGELFNMYR 150 +S+ + +A+ +S PE ++ AF E +HS ++ +II ++ D +F+ Sbjct: 82 LLDSIQGRSPNVALLPLISIPELETWVETWAFSETIHSRSYTHIIRNIVNDPSVVFDDIV 141 Query: 151 EVPSITAKANWALQY-----------------TQTLSSPSFTTGTKDADQEFLQDLFVFY 193 I +A Y T T++ + T ++ ++ L Sbjct: 142 TNEQIQKRAEGISSYYDELIEMTSYWHLLGEGTHTVNGKTVTVSLRELKKKLYLCLMSV- 200 Query: 194 VVFEGMWFYTGFAQILSLGRANKMVGIAEQYQYIMRDESLHLNFGIDVINQIKIENPHLW 253 E + FY FA + M G A+ + I RDE+LHL ++N ++ Sbjct: 201 NALEAIRFYVSFACSFAFAERELMEGNAKIIRLIARDEALHLTGTQHMLNLLRSGADDPE 260 Query: 254 TK----EFQQKSRTMLHEATLLEIAYAHETMPKG-FVGLNAPSCEQYMQFIANRRCHQIG 308 E +Q+ + +A E +A G +GLN QY+++I N R +G Sbjct: 261 MAEIAEECKQECYDLFVQAAQQEKDWADYLFRDGSMIGLNKDILCQYVEYITNIRMQAVG 320 Query: 309 LEPLFKYTENPFPWMSE 325 L+ F+ NP PW++ Sbjct: 321 LDLPFQTRSNPIPWINT 337 >d1jk0a_ a.25.1.2 (A:) Ribonucleotide reductase R2 {Baker's yeast (Saccharomyces cerevisiae), Y2 [TaxId: 4932]} Length = 334 Score = 202 bits (515), Expect = 4e-53 Identities = 83/306 (27%), Positives = 139/306 (45%), Gaps = 26/306 (8%) Query: 21 DKRMLNARSDVNQLLPLKYGWAWEKYLSACNNHWMPTEVPMQDDLALWKSKNGLTDDERL 80 ++ +LN + L P+KY W+ Y A + W E+ + D+ W ++ + ++ER Sbjct: 50 EEPLLNEDKERTVLFPIKYHEIWQAYKRAEASFWTAEEIDLSKDIHDWNNR--MNENERF 107 Query: 81 MIKRNLGFFASSESLVANNIVLAIYRHLSNPECRQYLLRQAFEEAVHSHTFQYIITSLGL 140 I R L FFA+S+ +V N+V + PE + + Q E +HS T+ +I + Sbjct: 108 FISRVLAFFAASDGIVNENLVENFSTEVQIPEAKSFYGFQIMIENIHSETYSLLIDTYIK 167 Query: 141 DEG---ELFNMYREVPSITAKANWALQYTQTLSSPSFTTGTKDADQEFLQDLFVFYVVFE 197 D LFN +P I KA WAL++ Q + V + E Sbjct: 168 DPKESEFLFNAIHTIPEIGEKAEWALRWIQD-------------ADALFGERLVAFASIE 214 Query: 198 GMWFYTGFAQILSLGRANKMVGIAEQYQYIMRDESLHLNFGIDVINQIKIENPHLWTKEF 257 G++F FA I L + M G+ + I RDE LH +F + +K + ++ Sbjct: 215 GVFFSGSFASIFWLKKRGMMPGLTFSNELICRDEGLHTDFACLLFAHLKNKPDPAIVEK- 273 Query: 258 QQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQIGLEPLFKYTE 317 ++ EA +E Y + +P +G+NA QY++F+A+R G + +K E Sbjct: 274 ------IVTEAVEIEQRYFLDALPVALLGMNADLMNQYVEFVADRLLVAFGNKKYYK-VE 326 Query: 318 NPFPWM 323 NPF +M Sbjct: 327 NPFDFM 332 >d1w68a_ a.25.1.2 (A:) Ribonucleotide reductase R2 {Mouse (Mus musculus) [TaxId: 10090]} Length = 281 Score = 178 bits (453), Expect = 4e-46 Identities = 78/305 (25%), Positives = 134/305 (43%), Gaps = 27/305 (8%) Query: 19 VDDKRMLNARSDVNQLLPLKYGWAWEKYLSACNNHWMPTEVPMQDDLALWKSKNGLTDDE 78 V+D+ +L + P++Y W+ Y A + W EV + D+ W++ L DE Sbjct: 1 VEDEPLLRENPRRFVVFPIEYHDIWQMYKKAEASFWTAEEVDLSKDIQHWEA---LKPDE 57 Query: 79 RLMIKRNLGFFASSESLVANNIVLAIYRHLSNPECRQYLLRQAFEEAVHSHTFQYIITSL 138 R I L FFA+S+ +V N+V + + E R + Q E +HS + +I + Sbjct: 58 RHFISHVLAFFAASDGIVNENLVERFSQEVQVTEARCFYGFQIAMENIHSEMYSLLIDTY 117 Query: 139 GLDEG---ELFNMYREVPSITAKANWALQYTQTLSSPSFTTGTKDADQEFLQDLFVFYVV 195 D LFN +P + KA+WAL++ + + V + Sbjct: 118 IKDPKEREYLFNAIETMPCVKKKADWALRWIGD-------------KEATYGERVVAFAA 164 Query: 196 FEGMWFYTGFAQILSLGRANKMVGIAEQYQYIMRDESLHLNFGIDVINQIKIENPHLWTK 255 EG++F FA I L + M G+ + I RDE LH +F + + + Sbjct: 165 VEGIFFSGSFASIFWLKKRGLMPGLTFSNELISRDEGLHCDFACLMFKHLVHKPAEQRV- 223 Query: 256 EFQQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQIGLEPLFKY 315 R ++ A +E + E +P +G+N +QY++F+A+R ++G +F+ Sbjct: 224 ------REIITNAVRIEQEFLTEALPVKLIGMNCTLMKQYIEFVADRLMLELGFNKIFR- 276 Query: 316 TENPF 320 ENPF Sbjct: 277 VENPF 281 >d1jk0b_ a.25.1.2 (B:) Ribonucleotide reductase R2 {Baker's yeast (Saccharomyces cerevisiae), Y4 [TaxId: 4932]} Length = 285 Score = 176 bits (448), Expect = 2e-45 Identities = 56/282 (19%), Positives = 110/282 (39%), Gaps = 25/282 (8%) Query: 34 LLPLKYGWAWEKYLSACNNHWMPTEVPMQDDLALWKSKNGLTDDERLMIKRNLGFFASSE 93 + P+KY W Y + W E+ + D ++ LTDD++ I L SS+ Sbjct: 27 MFPIKYHEIWAAYKKVEASFWTAEEIELAKDTEDFQK---LTDDQKTYIGNLLALSISSD 83 Query: 94 SLVANNIVLAIYRHLSNPECRQYLLRQAFEEAVHSHTFQYIITSLGLDEGE--LFNMYRE 151 +LV ++ L NPE + + Q E ++S + ++ + D LF Sbjct: 84 NLVNKYLIENFSAQLQNPEGKSFYGFQIMMENIYSEVYSMMVDAFFKDPKNIPLFKEIAN 143 Query: 152 VPSITAKANWALQYTQTLSSPSFTTGTKDADQEFLQDLFVFYVVFEGMWFYTGFAQILSL 211 +P + KA + ++ D + V + EG++ +A + L Sbjct: 144 LPEVKHKAAFIERWI-------------SNDDSLYAERLVAFAAKEGIFQAGNYASMFWL 190 Query: 212 GRANKMVGIAEQYQYIMRDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLL 271 M G+A + I RD + +F + ++ + ++ ++ EA + Sbjct: 191 TDKKIMPGLAMANRNICRDRGAYTDFSCLLFAHLRTKPNPKIIEK-------IITEAVEI 243 Query: 272 EIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQIGLEPLF 313 E Y ++P G++ S Y++F+A+ G E + Sbjct: 244 EKEYYSNSLPVEKFGMDLKSIHTYIEFVADGLLQGFGNEKYY 285 >d1r2fa_ a.25.1.2 (A:) Ribonucleotide reductase R2 {Salmonella typhimurium [TaxId: 90371]} Length = 283 Score = 173 bits (440), Expect = 2e-44 Identities = 53/295 (17%), Positives = 107/295 (36%), Gaps = 28/295 (9%) Query: 37 LKYGWAWEKYLSACNNHWMPTEVPMQDDLALWKSKNGLTDDERLMIKRNLGFFASSESLV 96 ++ E + +N W+P +VP+ +D+ W++ L+ E+ + R +++ Sbjct: 9 IQDDKDLEVWNRLTSNFWLPEKVPLSNDIPAWQT---LSAAEQQLTIRVFTGLTLLDTIQ 65 Query: 97 ANNIVLAIYRHLSNPECRQYLLRQAFEEAVHSHTFQYIITSLGLDEG--ELFNMYREVPS 154 ++ P L +F EAVH+ ++ I ++L + + E P Sbjct: 66 NIAGAPSLMADAITPHEEAVLSNISFMEAVHARSYSSIFSTLCQTKEVDAAYAWSEENPP 125 Query: 155 ITAKANWALQYTQTLSSPSFTTGTKDADQEFLQDLFVFYVVFEGMWFYTGFAQILSLGRA 214 + KA L + + + V E FY+GF + Sbjct: 126 LQRKAQIILAHY---------------VSDEPLKKKIASVFLESFLFYSGFWLPMYFSSR 170 Query: 215 NKMVGIAEQYQYIMRDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIA 274 K+ A+ + I+RDE++H + + + +E + + +L E EI Sbjct: 171 GKLTNTADLIRLIIRDEAVHGYYIGYKYQIALQKLSAIEREELKLFALDLLMELYDNEIR 230 Query: 275 YAHETMPKGFVGLNAPSCEQYMQFIANRRCHQIGLEPLFK---YTENP--FPWMS 324 Y + + ++ + AN+ +G E LF NP +S Sbjct: 231 YTEALYAE---TGWVNDVKAFLCYNANKALMNLGYEALFPPEMADVNPAILAALS 282 >d3dhza1 a.25.1.2 (A:14-297) Ribonucleotide reductase R2 {Corynebacterium ammoniagenes [TaxId: 1697]} Length = 284 Score = 172 bits (436), Expect = 4e-44 Identities = 53/289 (18%), Positives = 107/289 (37%), Gaps = 24/289 (8%) Query: 37 LKYGWAWEKYLSACNNHWMPTEVPMQDDLALWKSKNGLTDDERLMIKRNLGFFASSESLV 96 + E + N W+P ++P+ +D+ W +T E+L R +++ Sbjct: 11 IPDEKDLEVWDRLTGNFWLPEKIPVSNDIQSWNK---MTPQEQLATMRVFTGLTLLDTIQ 67 Query: 97 ANNIVLAIYRHLSNPECRQYLLRQAFEEAVHSHTFQYIITSLGLDEG--ELFNMYREVPS 154 +++ AF E+VH+ ++ I +L E F E + Sbjct: 68 GTVGAISLLPDAETMHEEAVYTNIAFMESVHAKSYSNIFMTLASTPQINEAFRWSEENEN 127 Query: 155 ITAKANWALQYTQTLSSPSFTTGTKDADQEFLQDLFVFYVVFEGMWFYTGFAQILSLGRA 214 + KA + Y + V + E FY+GF + L Sbjct: 128 LQRKAKIIMSYYN---------------GDDPLKKKVASTLLESFLFYSGFYLPMYLSSR 172 Query: 215 NKMVGIAEQYQYIMRDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIA 274 K+ A+ + I+RDES+H + Q + +E++ + ++++ EI Sbjct: 173 AKLTNTADIIRLIIRDESVHGYYIGYKYQQGVKKLSEAEQEEYKAYTFDLMYDLYENEIE 232 Query: 275 YAHETMPKGFVGLNAPSCEQYMQFIANRRCHQIGLEPLFKYTENPF-PW 322 Y + +G ++++++ AN+ + +G E LF E P Sbjct: 233 YTEDIYDD--LGWTE-DVKRFLRYNANKALNNLGYEGLFPTDETKVSPA 278 >d2inca1 a.25.1.2 (A:2-492) Toluene, o-xylene monooxygenase oxygenase subunit TouA {Pseudomonas stutzeri [TaxId: 316]} Length = 491 Score = 41.4 bits (97), Expect = 1e-04 Identities = 42/221 (19%), Positives = 66/221 (29%), Gaps = 24/221 (10%) Query: 42 AWEKYLSACNNHWMPTEVPMQDD---------LALWKSKNGLTDDERLM--IKRNLGFFA 90 AWEKY P V +Q + AL + D + ++ + G A Sbjct: 42 AWEKY-DEPYKITYPEYVSIQREKDSGAYSIKAALERDGFVDRADPGWVSTMQLHFGAIA 100 Query: 91 SSESLVANNIVLAIYRHLSNPECRQYLLRQAFEEAVHSHTFQYIITSLGLDEGELFNMYR 150 E A+ + R P R +E H Y + + ++ Sbjct: 101 LEE-YAASTAEARMARFAKAPGNRNMATFGMMDENRHGQIQLYFPYANVKRSRKWDWAHK 159 Query: 151 EVPSITAKANWALQYTQTLSSPSFTTGTKDADQEFLQDLFVFYVVFEGMWFYTGFAQILS 210 + WA ++ T D+ + F F F M + G A + Sbjct: 160 AIH----TNEWAAIAARSFFDDMMMTR--DSVAVSIMLTFAFETGFTNM-QFLGLAADAA 212 Query: 211 LGRANKMVGIAEQYQYIMRDESLHLNFGIDVINQIKIENPH 251 A A I DES H G + +I +EN Sbjct: 213 --EAGDHT-FASLISSIQTDESRHAQQGGPSL-KILVENGK 249 >d1mtyd_ a.25.1.2 (D:) Methane monooxygenase hydrolase alpha subunit {Methylococcus capsulatus [TaxId: 414]} Length = 512 Score = 28.7 bits (64), Expect = 0.73 Identities = 32/220 (14%), Positives = 57/220 (25%), Gaps = 24/220 (10%) Query: 54 WMPTEVPMQD----------DLALWKSKNGLTDDERLM--IKRNLGFFASSESLVANNIV 101 M+ +AL + G+ + +K F E A Sbjct: 49 IAKEYARMEAVKDERQFGSLQVALTRLNAGVRVHPKWNETMKVVSNFLEVGE-YNAIAAT 107 Query: 102 LAIYRHLSNPECRQYLLRQAFEEAVHSHTFQYIITSLGLDEGELFNMYREVPSITAKANW 161 ++ E + L Q +E H+H Y+ + + T Sbjct: 108 GMLWDSAQAAEQKNGYLAQVLDEIRHTHQCAYVNYYFAKNGQDPAGHNDA--RRTRTIGP 165 Query: 162 ALQYTQTLSSPSFTTGTKDADQEFLQDLFVFYVVFEGMWFYTGFAQILSLGRANKMVGIA 221 + + + S F +G DA + L V F AN Sbjct: 166 LWKGMKRVFSDGFISG--DAVECSLNLQLVGEACFTNP-LIVAVT---EWAAANGDEITP 219 Query: 222 EQYQYIMRDESLHLNFGIDVINQIKIENPHLWTKEFQQKS 261 + I DE H+ G + I + ++ Sbjct: 220 TVFLSIETDELRHMANGYQTVVSIANDPAS---AKYLNTD 256 >d2bmoa1 b.33.1.2 (A:3-152) Nitrobenzene dioxygenase alpha subunit, NBDO-alpha {Comamonas sp. JS765 [TaxId: 58226]} Length = 150 Score = 25.6 bits (55), Expect = 5.9 Identities = 13/115 (11%), Positives = 27/115 (23%), Gaps = 10/115 (8%) Query: 195 VFEGMWFYTGFAQILSLGRANKMVGIAEQYQYIMRDESLHLNFGIDVINQIKIENPHLWT 254 +F W + ++ + + R + ++V H Sbjct: 30 IFARNWLFLTHDSLIPSPGDYVKAKMGVDEVIVSRQNDGSVRAFLNVCRHRGKTLVHAEA 89 Query: 255 KEFQQK-----SRTMLHEATLLEIAYAHETMPKGF----VGLNA-PSCEQYMQFI 299 + L + + E +GL P E + FI Sbjct: 90 GNAKGFVCGYHGWGYGSNGELQSVPFEKELYGDAIKKKCLGLKEVPRIESFHGFI 144 >d1uf2a_ e.28.1.2 (A:) RDV p3 {Rice dwarf virus [TaxId: 10991]} Length = 967 Score = 25.3 bits (55), Expect = 7.2 Identities = 9/23 (39%), Positives = 14/23 (60%) Query: 88 FFASSESLVANNIVLAIYRHLSN 110 FFA E ++ ++ A+Y LSN Sbjct: 613 FFAGGEDILILQLIRAVYDTLSN 635 >d2oc5a1 a.25.1.6 (A:20-241) Hypothetical protein PMT1231 {Prochlorococcus marinus [TaxId: 1219]} Length = 222 Score = 25.1 bits (55), Expect = 9.2 Identities = 6/12 (50%), Positives = 10/12 (83%) Query: 227 IMRDESLHLNFG 238 +++DE HLN+G Sbjct: 134 VVKDEYTHLNYG 145 Database: scop70_1_75 Posted date: Mar 27, 2010 6:21 PM Number of letters in database: 2,407,596 Number of sequences in database: 13,730 Lambda K H 0.320 0.134 0.412 Gapped Lambda K H 0.267 0.0511 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 13730 Number of Hits to DB: 1,325,204 Number of extensions: 60992 Number of successful extensions: 150 Number of sequences better than 10.0: 1 Number of HSP's gapped: 127 Number of HSP's successfully gapped: 16 Length of query: 352 Length of database: 2,407,596 Length adjustment: 86 Effective length of query: 266 Effective length of database: 1,226,816 Effective search space: 326333056 Effective search space used: 326333056 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 53 (24.7 bits)