RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780960|ref|YP_003065373.1| phosphoserine phosphatase SerB [Candidatus Liberibacter asiaticus str. psy62] (297 letters) >gnl|CDD|161826 TIGR00338, serB, phosphoserine phosphatase SerB. Phosphoserine phosphatase catalyzes the reaction 3-phospho-serine + H2O = L-serine + phosphate. It catalyzes the last of three steps in the biosynthesis of serine from D-3-phosphoglycerate. Note that this enzyme acts on free phosphoserine, not on phosphoserine residues of phosphoproteins. Length = 219 Score = 207 bits (530), Expect = 2e-54 Identities = 92/209 (44%), Positives = 137/209 (65%), Gaps = 1/209 (0%) Query: 77 NRRKNLLIADMDSTMIEQECIDELADLIGIKEKVSLITARAMNGEIPFQDSLRERISLFK 136 R K L++ DMDST+I E IDE+A + G++E+VS IT RAM GE+ F+ SLRER++L K Sbjct: 11 LRSKKLVVFDMDSTLINAETIDEIAKIAGVEEEVSEITERAMRGELDFKASLRERVALLK 70 Query: 137 GTSTKIIDSLLEKKITYNPGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHLGFDQYYA 196 G +++ + + + G ELV T+K+ G +++GGF +FA + LG D +A Sbjct: 71 GLPVELLKEV-RENLPLTEGAEELVKTLKEKGYKVAVISGGFDLFAEHVKDKLGLDAAFA 129 Query: 197 NRFIEKDDRLTGQVMEPIIDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGY 256 NR +D +LTG V PI+D + K + LL ++K I+PE+T+AVGDG NDL M++ AG Sbjct: 130 NRLEVEDGKLTGLVEGPIVDASYKGKTLLILLRKEGISPENTVAVGDGANDLSMIKAAGL 189 Query: 257 GVAFHAKPALAKQAKIRIDHSDLEALLYI 285 G+AF+AKP L ++A I I+ DL +L + Sbjct: 190 GIAFNAKPKLQQKADICINKKDLTDILPL 218 >gnl|CDD|182988 PRK11133, serB, phosphoserine phosphatase; Provisional. Length = 322 Score = 198 bits (505), Expect = 2e-51 Identities = 84/204 (41%), Positives = 123/204 (60%), Gaps = 1/204 (0%) Query: 82 LLIADMDSTMIEQECIDELADLIGIKEKVSLITARAMNGEIPFQDSLRERISLFKGTSTK 141 LL+ DMDST I+ ECIDE+A L G E+V+ +T RAM GE+ F+ SLR+R++ KG Sbjct: 112 LLVMDMDSTAIQIECIDEIAKLAGTGEEVAEVTERAMRGELDFEASLRQRVATLKGADAN 171 Query: 142 IIDSLLEKKITYNPGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHLGFDQYYANRFIE 201 I+ + E + PG ELV ++ G + +GGF+ FA ++ L D AN Sbjct: 172 ILQQVREN-LPLMPGLTELVLKLQALGWKVAIASGGFTYFADYLRDKLRLDAAVANELEI 230 Query: 202 KDDRLTGQVMEPIIDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVAFH 261 D +LTG V+ I+D K+ L Q+ +I T+A+GDG NDL M++ AG G+A+H Sbjct: 231 MDGKLTGNVLGDIVDAQYKADTLTRLAQEYEIPLAQTVAIGDGANDLPMIKAAGLGIAYH 290 Query: 262 AKPALAKQAKIRIDHSDLEALLYI 285 AKP + +QA++ I H+DL +L I Sbjct: 291 AKPKVNEQAQVTIRHADLMGVLCI 314 >gnl|CDD|162386 TIGR01488, HAD-SF-IB, Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like. Subfamily IA includes the enzyme phosphoserine phosphatase (TIGR00338) as well as three hypothetical equivalogs. Many members of these hypothetical equivalogs have been annotated as PSPase-like or PSPase-family proteins. In particular, the hypothetical equivalog which appears to be most closely related to PSPase contains only Archaea (while TIGR00338 contains only eukaryotes and bacteria) of which some are annotated as PSPases. Although this is a reasonable conjecture, none of these sequences has sufficient evidence for this assignment. If such should be found, this model should be retired while the PSPase model should be broadened to include these sequences. Length = 177 Score = 107 bits (268), Expect = 5e-24 Identities = 63/177 (35%), Positives = 101/177 (57%), Gaps = 4/177 (2%) Query: 82 LLIADMDSTMIEQEC-IDELADLIGIKEKVSLITARAMNGEIPFQDSLRERISLFKGT-S 139 L I D D T+ Q+ ID LA L+G ++V +T A +G I F+D+L R++L + S Sbjct: 1 LAIFDFDGTLTRQDSLIDLLAKLLGTNDEVIELTRLAPSGRISFEDALGRRLALLHRSRS 60 Query: 140 TKIIDSLLEKKITYNPGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHLGFDQYYANRF 199 ++ L +++ PG EL+ +K+ G T++V+GGF F +A+ LG D +ANR Sbjct: 61 EEVAKEFLARQVALRPGARELISWLKERGIDTVIVSGGFDFFVEPVAEKLGIDDVFANRL 120 Query: 200 IEKDD-RLTGQ-VMEPIIDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVA 254 D+ LTG + +G K ++L E +++ +I + IAVGD NDL ML++A Sbjct: 121 EFDDNGLLTGPIEGQVNPEGECKGKVLKELLEESKITLKKIIAVGDSVNDLPMLKLA 177 >gnl|CDD|178540 PLN02954, PLN02954, phosphoserine phosphatase. Length = 224 Score = 105 bits (264), Expect = 2e-23 Identities = 58/170 (34%), Positives = 93/170 (54%), Gaps = 10/170 (5%) Query: 86 DMDSTMIEQECIDELADLIGIKEKVSLITARAMNGEIPFQDSLRERISLFKGTSTKIIDS 145 D+DST+ E IDELA+ G E V+ TA+AM G +PF+++L R+SLFK + +++ + Sbjct: 18 DVDSTVCVDEGIDELAEFCGAGEAVAEWTAKAMGGSVPFEEALAARLSLFKPSLSQVEEF 77 Query: 146 LLEKKITYNPGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHLGF--DQYYANRFIEKD 203 L ++ +PG ELV ++ G LV+GGF +A LG + +AN+ + D Sbjct: 78 LEKRPPRLSPGIPELVKKLRARGTDVYLVSGGFRQMIAPVAAILGIPPENIFANQILFGD 137 Query: 204 D-RLTG-QVMEPIIDGTAKSQILLEAIQKL-QINPEDTIA-VGDGNNDLD 249 G EP T++S EA+Q + + + T+ +GDG DL+ Sbjct: 138 SGEYAGFDENEP----TSRSGGKAEAVQHIKKKHGYKTMVMIGDGATDLE 183 >gnl|CDD|162387 TIGR01490, HAD-SF-IB-hyp1, HAD-superfamily subfamily IB hydrolase, TIGR01490. A subset of these sequences, including the Caulobacter crescentus CicA protein, cluster together and may represent a separate equivalog. Length = 202 Score = 64.7 bits (158), Expect = 3e-11 Identities = 30/103 (29%), Positives = 49/103 (47%), Gaps = 1/103 (0%) Query: 154 NPGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHLGFDQYYANRFIE-KDDRLTGQVME 212 P +L+ K G + +LV+ +I + +A+ LG D R E +D TG + Sbjct: 89 YPEARDLIRWHKAEGHTIVLVSASLTILVKPLARILGIDNAIGTRLEESEDGIYTGNIDG 148 Query: 213 PIIDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAG 255 G K L E + + QI+ +D+ A GD +DL +L + G Sbjct: 149 NNCKGEGKVHALAELLAEEQIDLKDSYAYGDSISDLPLLSLVG 191 >gnl|CDD|162388 TIGR01491, HAD-SF-IB-PSPlk, HAD-superfamily, subfamily-IB PSPase-like hydrolase, archaeal. This hypothetical equivalog is a member of the IB subfamily (TIGR01488) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this alignment are all from archaeal species. The phylogenetically closest group of sequences to these are phosphoserine phosphatases (TIGR00338). There are no known archaeal phosphoserine phosphatases, and no archaea fall within TIGR00338. It is likely, then, that This model represents the archaeal branch of the PSPase equivalog. Length = 201 Score = 61.8 bits (150), Expect = 2e-10 Identities = 45/192 (23%), Positives = 84/192 (43%), Gaps = 8/192 (4%) Query: 78 RRKNLLIADMDSTMIEQECIDELADL-IGIKEKVSLITARAMNGEIPFQDSLRERISLFK 136 R L+I D+D T+ + E + +G I +++ R SL+K Sbjct: 2 RMIKLIIFDLDGTLTDVMSSWEYLHRRLETCGLAKKNAELFFSGRISYEEWARLDASLWK 61 Query: 137 GTSTKIIDSLLE---KKITYNPGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHLGFDQ 193 S ++ +E K+I+ ELV +K+ G T +V+GG A+ +A+ L D Sbjct: 62 RRSGRLRREEVEEIFKEISLRDYAEELVRWLKEKGLKTAIVSGGIMCLAKKVAEKLNPDY 121 Query: 194 YYANRFI-EKDDRLTGQVMEPIIDGTAKSQILLEAIQK-LQINPEDTIAVGDGNNDLDML 251 Y+N + ++ + + + +E +++ L + +T+AVGD NDL M Sbjct: 122 VYSNELVFDEKGFIQPDGI--VRVTFDNKGEAVERLKRELNPSLTETVAVGDSKNDLPMF 179 Query: 252 RVAGYGVAFHAK 263 VA ++ + Sbjct: 180 EVADISISLGDE 191 >gnl|CDD|161707 TIGR00099, Cof-subfamily, Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily. The members of this subfamily are restricted almost exclusively to bacteria (one sequences from S. pombe scores above trusted, while another is between trusted and noise). It is notable that no archaea are found in this group, the closest relations to the archaea found here being two Deinococcus sequences. Length = 256 Score = 53.8 bits (130), Expect = 6e-08 Identities = 27/69 (39%), Positives = 35/69 (50%), Gaps = 1/69 (1%) Query: 211 MEPIIDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVAFH-AKPALAKQ 269 +E G +K L + L I+ ED IA GDG ND++ML AGYGVA A L Sbjct: 180 IEITAKGVSKGSALQSLAEALGISLEDVIAFGDGMNDIEMLEAAGYGVAMGNADEELKAL 239 Query: 270 AKIRIDHSD 278 A D ++ Sbjct: 240 ADYVTDSNN 248 >gnl|CDD|179236 PRK01158, PRK01158, phosphoglycolate phosphatase; Provisional. Length = 230 Score = 52.7 bits (127), Expect = 1e-07 Identities = 17/36 (47%), Positives = 25/36 (69%) Query: 224 LLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVA 259 L + + + I+PE+ A+GD NDL+M VAG+GVA Sbjct: 162 LKKLAELMGIDPEEVAAIGDSENDLEMFEVAGFGVA 197 >gnl|CDD|116866 pfam08282, Hydrolase_3, haloacid dehalogenase-like hydrolase. This family contains haloacid dehalogenase-like hydrolase enzymes. Length = 254 Score = 51.9 bits (125), Expect = 2e-07 Identities = 23/63 (36%), Positives = 33/63 (52%), Gaps = 1/63 (1%) Query: 217 GTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVAFH-AKPALAKQAKIRID 275 G +K L + L I+ E+ IA GDG ND++ML +AG GVA A P + A Sbjct: 184 GVSKGTALKALAKHLGIDLEEVIAFGDGENDIEMLELAGLGVAMGNASPEVKAAADYVTG 243 Query: 276 HSD 278 ++ Sbjct: 244 SNN 246 >gnl|CDD|162384 TIGR01482, SPP-subfamily, Sucrose-phosphate phosphatase subfamily. catalyze the same reaction as SPP. Length = 225 Score = 49.0 bits (117), Expect = 1e-06 Identities = 22/66 (33%), Positives = 34/66 (51%), Gaps = 1/66 (1%) Query: 217 GTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVAF-HAKPALAKQAKIRID 275 G K + + +KL I P +T+ GD ND+D+ V G+GVA +A+P L + A + Sbjct: 147 GVNKGVAVKKLKEKLGIKPGETLVCGDSENDIDLFEVPGFGVAVANAQPELKEWADYVTE 206 Query: 276 HSDLEA 281 E Sbjct: 207 SPYGEG 212 >gnl|CDD|130551 TIGR01487, SPP-like, sucrose-phosphate phosphatase-like hydrolase, Archaeal. TIGR01482, in turn, is a member of the IIB subfamily (TIGR01484) of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. Length = 215 Score = 47.4 bits (113), Expect = 4e-06 Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 3/58 (5%) Query: 202 KDDRLTGQVMEPIIDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVA 259 D +M+ +D K + + + L I PE+ A+GD ND+D+ RV G+ VA Sbjct: 133 VDSGFAIHIMKKGVD---KGVGVEKLKELLGIKPEEVAAIGDSENDIDLFRVVGFKVA 187 >gnl|CDD|184163 PRK13582, thrH, phosphoserine phosphatase; Provisional. Length = 205 Score = 43.8 bits (104), Expect = 5e-05 Identities = 26/117 (22%), Positives = 51/117 (43%), Gaps = 9/117 (7%) Query: 155 PGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHLGFDQYYANRF-IEKDDRLTGQVMEP 213 PG E + +++ ++++ F FA + + LG+ + + +++D +TG + Sbjct: 71 PGAVEFLDWLRERF-QVVILSDTFYEFAGPLMRQLGWPTLFCHSLEVDEDGMITGYDLR- 128 Query: 214 IIDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVAFHAKPALAKQA 270 DG +A++ L+ IA GD ND ML A G+ F + + Sbjct: 129 QPDGK------RQAVKALKSLGYRVIAAGDSYNDTTMLGEADAGILFRPPANVIAEF 179 >gnl|CDD|162385 TIGR01484, HAD-SF-IIB, HAD-superfamily hydrolase, subfamily IIB. The IIB subfamily consists of Trehalose-6-phosphatase (TIGR00685), plant and cyanobacterial Sucrose-phosphatase and a closely related group of bacterial and archaeal sequences, eukaryotic phosphomannomutase (pfam03332), a large subfamily ("Cof-like hydrolases", TIGR00099) containing many closely related bacterial sequences, a hypothetical equivalog containing the E. coli YedP protein, as well as two small clusters containing sequences whose relationship to the other groups is unclear. Length = 204 Score = 42.4 bits (100), Expect = 1e-04 Identities = 14/40 (35%), Positives = 21/40 (52%) Query: 220 KSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVA 259 K L +++L ++ +A GD ND +M VAG VA Sbjct: 164 KGSALQALLKELNGKRDEILAFGDSGNDEEMFEVAGLAVA 203 >gnl|CDD|130521 TIGR01454, AHBA_synth_RP, 3-amino-5-hydroxybenoic acid synthesis related protein. The most closely related enzyme below the noise cutoff is IndB which is involved in the biosynthesis of Indigoidine in Pectobacterium (Erwinia) chrysanthemi, a gamma proteobacter. This enzyme is similarly related to PGP. In this case, too it is unclear what role would be be played by a PGPase activity. Length = 205 Score = 41.8 bits (98), Expect = 2e-04 Identities = 31/107 (28%), Positives = 46/107 (42%), Gaps = 14/107 (13%) Query: 155 PGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHLGFDQYYANRFIEKDDRLTG--QVME 212 PG EL+ ++ +G T + TG AR + + LG + D + G +V Sbjct: 78 PGVPELLAELRADGVGTAIATGKSGPRARSLLEALGLLPLF--------DHVIGSDEVPR 129 Query: 213 PIIDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVA 259 P I+ EA++ L + PED + VGD DL R AG Sbjct: 130 P----KPAPDIVREALRLLDVPPEDAVMVGDAVTDLASARAAGTATV 172 >gnl|CDD|162399 TIGR01525, ATPase-IB_hvy, heavy metal translocating P-type ATPase. This alignment encompasses two equivalog models for the copper and cadmium-type heavy metal transporting P-type ATPases (TIGR01511 and TIGR01512) as well as those species which score ambiguously between both models. For more comments and references, see the files on TIGR01511 and 01512. Length = 556 Score = 41.5 bits (98), Expect = 3e-04 Identities = 32/133 (24%), Positives = 51/133 (38%), Gaps = 23/133 (17%) Query: 155 PGGYELVHTMKQ-NGASTLLVTGGFSIFARFIAQHLGFDQYYANRFIEKDDRLTGQVMEP 213 P E + +K+ G +++TG A +A LG D+ +A Sbjct: 387 PEAKEAIAALKRAGGIKLVMLTGDNRSAAEAVAAELGIDEVHAE---------------- 430 Query: 214 IIDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVAFHAKPALAKQ-AKI 272 + L +++LQ VGDG ND L A G+A A +A + A I Sbjct: 431 -----LLPEDKLAIVKELQEEGGVVAMVGDGINDAPALAAADVGIAMGAGSDVAIEAADI 485 Query: 273 RIDHSDLEALLYI 285 + + DL +L Sbjct: 486 VLLNDDLSSLPTA 498 >gnl|CDD|130575 TIGR01511, ATPase-IB1_Cu, copper-(or silver)-translocating P-type ATPase. One member from Halobacterium is annotated as "molybdenum-binding protein" although no evidence can be found for this classification. Length = 562 Score = 40.3 bits (95), Expect = 6e-04 Identities = 27/116 (23%), Positives = 43/116 (37%), Gaps = 22/116 (18%) Query: 155 PGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHLGFDQYYANRFIEKDDRLTGQVMEPI 214 P E++ +K+ G +++TG A+ +A+ LG + A Sbjct: 408 PEAKEVIQALKRRGIEPVMLTGDNRKTAKAVAKELGIN-VRAE----------------- 449 Query: 215 IDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVAFHAKPALAKQA 270 I++LQ VGDG ND L A G+A A +A +A Sbjct: 450 ----VLPDDKAALIKELQEKGRVVAMVGDGINDAPALAQADVGIAIGAGTDVAIEA 501 >gnl|CDD|178475 PLN02887, PLN02887, hydrolase family protein. Length = 580 Score = 40.2 bits (94), Expect = 6e-04 Identities = 18/50 (36%), Positives = 34/50 (68%) Query: 210 VMEPIIDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVA 259 ++E + GT+K + + L ++P++ +A+GDG ND++ML++A GVA Sbjct: 498 MLEIVPPGTSKGNGVKMLLNHLGVSPDEIMAIGDGENDIEMLQLASLGVA 547 >gnl|CDD|162723 TIGR02137, HSK-PSP, phosphoserine phosphatase/homoserine phosphotransferase bifunctional protein. This enzyme is a member of the haloacid dehalogenase (HAD) superfamily, specifically part of subfamily IB by virtue of the presence of an alpha helical domain in between motifs I and II of the HAD domain . The closest homologs to this family are monofunctional phosphoserine phosphatases (TIGR00338). Length = 203 Score = 39.9 bits (93), Expect = 9e-04 Identities = 44/170 (25%), Positives = 75/170 (44%), Gaps = 13/170 (7%) Query: 104 IGIKEKVSLITARAMNGEIPFQDSL-RERISLFKGTSTKIIDSLLEKKITYNP--GGYEL 160 I EK + +A +IP D L ++R+ + K+ D + E T P G E Sbjct: 18 IAFAEKTGIDALKATTRDIPDYDVLMKQRLRILDEHGLKLGD-IQEVIATLKPLEGAVEF 76 Query: 161 VHTMKQNGASTLLVTGGFSIFARFIAQHLGFDQYYANRF-IEKDDRLTGQVMEPIIDGTA 219 V +++ ++++ F F++ + + LGF ++ I+ DR+ G + D Sbjct: 77 VDWLRER-FQVVILSDTFYEFSQPLMRQLGFPTLLCHKLEIDDSDRVVGYQLR-QKDPKR 134 Query: 220 KSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVAFHAKPALAKQ 269 +S I A + L IA GD ND ML A G+ FHA + ++ Sbjct: 135 QSVI---AFKSLYYR---VIAAGDSYNDTTMLSEAHAGILFHAPENVIRE 178 >gnl|CDD|130561 TIGR01497, kdpB, K+-transporting ATPase, B subunit. One sequence is apparently mis-annotated in the primary literature, but properly annotated by TIGR. Length = 675 Score = 39.5 bits (92), Expect = 0.001 Identities = 38/166 (22%), Positives = 62/166 (37%), Gaps = 27/166 (16%) Query: 116 RAMNGEIPFQ-DSLRERISLFKGTSTKI-----IDSLLEKKITYNPGGYELVHTMKQNGA 169 A G IP D ++++ GT + I ++ K G E +++ G Sbjct: 404 EANGGHIPTDLDQAVDQVARQGGTPLVVCEDNRIYGVIYLKDIVKGGIKERFAQLRKMGI 463 Query: 170 STLLVTGGFSIFARFIAQHLGFDQYYANRFIEKDDRLTGQVMEPIIDGTAKSQILLEAIQ 229 T+++TG + A IA G D + A A + + I+ Sbjct: 464 KTIMITGDNRLTAAAIAAEAGVDDFIAE---------------------ATPEDKIALIR 502 Query: 230 KLQINPEDTIAVGDGNNDLDMLRVAGYGVAFHAKPALAKQAKIRID 275 + Q + GDG ND L A GVA ++ AK+A +D Sbjct: 503 QEQAEGKLVAMTGDGTNDAPALAQADVGVAMNSGTQAAKEAANMVD 548 >gnl|CDD|182509 PRK10513, PRK10513, sugar phosphate phosphatase; Provisional. Length = 270 Score = 38.1 bits (89), Expect = 0.003 Identities = 15/31 (48%), Positives = 21/31 (67%) Query: 229 QKLQINPEDTIAVGDGNNDLDMLRVAGYGVA 259 + L I PE+ +A+GD ND+ M+ AG GVA Sbjct: 206 EHLGIKPEEVMAIGDQENDIAMIEYAGVGVA 236 >gnl|CDD|162389 TIGR01494, ATPase_P-type, ATPase, P-type (transporting), HAD superfamily, subfamily IC. The crystal structure of one calcium-pumping ATPase and an analysis of the fold of the catalytic domain of the P-type ATPases have been published. These reveal that the catalytic core of these enzymes is a haloacid dehalogenase(HAD)-type aspartate-nucleophile hydrolase. The location of the ATP-binding loop in between the first and second HAD conserved catalytic motifs defines these enzymes as members of subfamily I of the HAD superfamily (see also TIGR01493, TIGR01509, TIGR01549, TIGR01544 and TIGR01545). Based on these classifications, the P-type ATPase _superfamily_ corresponds to the IC subfamily of the HAD superfamily. Length = 499 Score = 38.0 bits (89), Expect = 0.003 Identities = 26/111 (23%), Positives = 44/111 (39%), Gaps = 24/111 (21%) Query: 155 PGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHLGFDQYYANRFIEKDDRLTGQVMEPI 214 E + +++ G +++TG + A+ IA+ LG +A + P Sbjct: 350 DDAKETISELREAGIRVIMLTGDNVLTAKAIAKELGI---FAR-------------VTP- 392 Query: 215 IDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVAFHAKPA 265 K+ + ++ LQ GDG ND L+ A G+A AK A Sbjct: 393 ---EEKAAL----VEALQKKGRVVAMTGDGVNDAPALKKADVGIAMGAKAA 436 >gnl|CDD|162397 TIGR01512, ATPase-IB2_Cd, heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. . Length = 536 Score = 35.8 bits (83), Expect = 0.016 Identities = 31/131 (23%), Positives = 51/131 (38%), Gaps = 24/131 (18%) Query: 155 PGGYELVHTMKQNGAS-TLLVTGGFSIFARFIAQHLGFDQYYANRFIEKDDRLTGQVMEP 213 P E + +K G +++TG A +A+ LG D+ +A Sbjct: 365 PDAAEAIAELKALGIEKVVMLTGDRRAVAERVARELGIDEVHAE---------------- 408 Query: 214 IIDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVAFHAK-PALAKQ-AK 271 + LE +++L+ VGDG ND L A G+A A +A + A Sbjct: 409 -----LLPEDKLEIVKELREKYGPVAMVGDGINDAPALAAADVGIAMGASGSDVAIETAD 463 Query: 272 IRIDHSDLEAL 282 + + + DL L Sbjct: 464 VVLLNDDLSRL 474 >gnl|CDD|181313 PRK08238, PRK08238, hypothetical protein; Validated. Length = 479 Score = 35.2 bits (82), Expect = 0.018 Identities = 29/121 (23%), Positives = 46/121 (38%), Gaps = 20/121 (16%) Query: 153 YNPGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHLG-FDQYYANRFIEKDDRLTGQVM 211 YN + + + G +L T A+ +A HLG FD +A+ D Sbjct: 73 YNEEVLDYLRAERAAGRKLVLATASDERLAQAVAAHLGLFDGVFAS-----DGTTN---- 123 Query: 212 EPIIDGTAKSQILLEAIQKLQINPEDTIA-VGDGNNDLDMLRVAGYGVAFHAKPALAKQA 270 + G AK+ L+EA E G+ DL + A + A P +A+ A Sbjct: 124 ---LKGAAKAAALVEAF------GERGFDYAGNSAADLPVWAAARRAIVVGASPGVARAA 174 Query: 271 K 271 + Sbjct: 175 R 175 >gnl|CDD|182878 PRK10976, PRK10976, putative hydrolase; Provisional. Length = 266 Score = 35.4 bits (82), Expect = 0.018 Identities = 19/47 (40%), Positives = 27/47 (57%) Query: 211 MEPIIDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYG 257 +E + G +K L +KL + +D IA GDG ND +ML +AG G Sbjct: 182 LEVMAGGVSKGHALEAVAKKLGYSLKDCIAFGDGMNDAEMLSMAGKG 228 >gnl|CDD|182523 PRK10530, PRK10530, pyridoxal phosphate (PLP) phosphatase; Provisional. Length = 272 Score = 35.4 bits (82), Expect = 0.020 Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 1/42 (2%) Query: 236 EDTIAVGDGNNDLDMLRVAGYGVAF-HAKPALAKQAKIRIDH 276 ++ +A GD ND+ ML AG GVA +A A+ +A + I Sbjct: 216 KNVVAFGDNFNDISMLEAAGLGVAMGNADDAVKARADLVIGD 257 >gnl|CDD|178922 PRK00192, PRK00192, mannosyl-3-phosphoglycerate phosphatase; Reviewed. Length = 273 Score = 34.9 bits (81), Expect = 0.027 Identities = 15/48 (31%), Positives = 17/48 (35%), Gaps = 5/48 (10%) Query: 238 TIAVGDGNNDLDMLRVAGYGV----AFHAKPALAKQ-AKIRIDHSDLE 280 TIA+GD NDL ML A V P L A + Sbjct: 210 TIALGDSPNDLPMLEAADIAVVVPGPDGPNPPLLPGIADGEFILASAP 257 >gnl|CDD|130516 TIGR01449, PGP_bact, 2-phosphoglycolate phosphatase, prokaryotic. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolase enzymes (pfam00702). Length = 213 Score = 32.5 bits (74), Expect = 0.12 Identities = 18/67 (26%), Positives = 28/67 (41%), Gaps = 7/67 (10%) Query: 224 LLEAIQKLQINPEDTIAVGDGNNDLDMLRVAG-------YGVAFHAKPALAKQAKIRIDH 276 LL A ++L + P+ + VGD D+ R AG YG + L + Sbjct: 147 LLLAAERLGVAPQQMVYVGDSRVDIQAARAAGCPSVLLTYGYRYGEAIDLLPPDVLYDSL 206 Query: 277 SDLEALL 283 ++L LL Sbjct: 207 NELPPLL 213 >gnl|CDD|162049 TIGR00805, oat, sodium-independent organic anion transporter. Proteins of the OAT family catalyze the Na+-independent facilitated transport of organic anions such as bromosulfobromophthalein and prostaglandins as well as conjugated and unconjugated bile acids (taurocholate and cholate, respectively). These transporters have been characterized in mammals, but homologues are present in C. elegans and A. thaliana. Some of the mammalian proteins exhibit a high degree of tissue specificity. For example, the rat OAT is found at high levels in liver and kidney and at lower levels in other tissues. These proteins possess 10-12 putative a-helical transmembrane spanners. They may catalyze electrogenic anion uniport or anion exchange. Length = 633 Score = 32.4 bits (74), Expect = 0.14 Identities = 21/90 (23%), Positives = 29/90 (32%), Gaps = 15/90 (16%) Query: 126 DSLRERISLFKGTSTKIIDSLLEKKITYNPGGYELVHTMKQNGASTLLVTGGFSIFARFI 185 D R++ S KII LL I Y LV + +L G + +++ Sbjct: 306 DKSRKKNSDITKDFPKIIKRLLCNPI------YMLVILAQV--IDSLAFNGYITFLPKYL 357 Query: 186 AQHLGFDQYYANRFIEKDDRLTGQVMEPII 215 G AN L G V P Sbjct: 358 ENQYGISSAEAN-------FLIGVVNLPAA 380 >gnl|CDD|182635 PRK10671, copA, copper exporting ATPase; Provisional. Length = 834 Score = 31.6 bits (72), Expect = 0.22 Identities = 28/94 (29%), Positives = 38/94 (40%), Gaps = 21/94 (22%) Query: 166 QNGASTLLVTGGFSIFARFIAQHLGFDQYYANRFIEKDDRLTGQVMEPIIDGTAKSQILL 225 + G +++TG A IA+ G D+ A V+ DG A Sbjct: 664 KAGYRLVMLTGDNPTTANAIAKEAGIDEVIAG------------VLP---DGKA------ 702 Query: 226 EAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVA 259 EAI++LQ VGDG ND L A G+A Sbjct: 703 EAIKRLQSQGRQVAMVGDGINDAPALAQADVGIA 736 >gnl|CDD|184448 PRK14010, PRK14010, potassium-transporting ATPase subunit B; Provisional. Length = 673 Score = 31.6 bits (71), Expect = 0.22 Identities = 27/112 (24%), Positives = 44/112 (39%), Gaps = 21/112 (18%) Query: 164 MKQNGASTLLVTGGFSIFARFIAQHLGFDQYYANRFIEKDDRLTGQVMEPIIDGTAKSQI 223 +++ G T++ TG + A IA+ G D++ A K + Sbjct: 453 LREMGIETVMCTGDNELTAATIAKEAGVDRFVAE---------------------CKPED 491 Query: 224 LLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVAFHAKPALAKQAKIRID 275 + I++ Q GDG ND L A G+A ++ AK+A ID Sbjct: 492 KINVIREEQAKGHIVAMTGDGTNDAPALAEANVGLAMNSGTMSAKEAANLID 543 >gnl|CDD|183901 PRK13222, PRK13222, phosphoglycolate phosphatase; Provisional. Length = 226 Score = 31.7 bits (73), Expect = 0.24 Identities = 28/107 (26%), Positives = 43/107 (40%), Gaps = 22/107 (20%) Query: 155 PGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHLGFDQYYANRFIEKDDRLTGQVMEPI 214 PG E + +K G +VT + F + + LG Y+ + Sbjct: 96 PGVKETLAALKAAGYPLAVVTNKPTPFVAPLLEALGIADYF----------------SVV 139 Query: 215 IDGTAKSQI------LLEAIQKLQINPEDTIAVGDGNNDLDMLRVAG 255 I G + LL A +KL ++PE+ + VGD ND+ R AG Sbjct: 140 IGGDSLPNKKPDPAPLLLACEKLGLDPEEMLFVGDSRNDIQAARAAG 186 >gnl|CDD|130549 TIGR01485, SPP_plant-cyano, sucrose-6F-phosphate phosphohydrolase. Sucrose phosphate synthase (SPS), the prior step in the biosynthesis of sucrose contains a domain which exhibits considerable similarity to SPP albeit without conservation of the catalytic residues. The catalytic machinery of the synthase resides in another domain. It seems likely that the phosphatase-like domain is involved in substrate binding, possibly binding both substrates in a "product-like" orientation prior to ligation by the synthase catalytic domain. Length = 249 Score = 31.3 bits (71), Expect = 0.28 Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 1/52 (1%) Query: 208 GQVMEPIIDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAG-YGV 258 G+ ++ + G+ K Q L +QKL + P T+ GD ND+++ + GV Sbjct: 156 GKDLDILPQGSGKGQALQYLLQKLAMEPSQTLVCGDSGNDIELFEIGSVRGV 207 >gnl|CDD|183951 PRK13288, PRK13288, pyrophosphatase PpaX; Provisional. Length = 214 Score = 31.2 bits (71), Expect = 0.33 Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 3/45 (6%) Query: 224 LLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGY---GVAFHAKPA 265 +L+A++ L PE+ + VGD ++D+ + AG GVA+ K Sbjct: 144 VLKALELLGAKPEEALMVGDNHHDILAGKNAGTKTAGVAWTIKGR 188 >gnl|CDD|130550 TIGR01486, HAD-SF-IIB-MPGP, mannosyl-3-phosphoglycerate phosphatase family. This small group of proteins is a member of the IIB subfamily (TIGR01484) of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. Several members of this family from thermophiles (and from Dehalococcoides ethenogenes) are now known to act as mannosyl-3-phosphoglycerate (MPG) phosphatase. In these cases, the enzyme acts after MPG synthase to make the compatible solute mannosylglycerate. We propose that other mesophilic members of this family do not act as mannosyl-3-phosphoglycerate phosphatase. A member of this family is found in Escherichia coli, which appears to lack MPG synthase. Mannosylglycerate is imported in E. coli by phosphoenolpyruvate-dependent transporter (PubMed:14645248), but it appears the phosphorylation is not on the glycerate moiety, that the phosphorylated import is degraded by an alpha-mannosidase from an adjacent gene, and that E. coli would have no pathway to obtain MPG. Length = 256 Score = 30.8 bits (70), Expect = 0.38 Identities = 11/44 (25%), Positives = 16/44 (36%), Gaps = 2/44 (4%) Query: 217 GTAKSQILLEAIQKLQINPED--TIAVGDGNNDLDMLRVAGYGV 258 G+ K + Q + +GD NDL +L V V Sbjct: 174 GSDKGKAANALKQFYNQPGGAIKVVGLGDSPNDLPLLEVVDLAV 217 >gnl|CDD|130585 TIGR01522, ATPase-IIA2_Ca, golgi membrane calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIA based on a phylogenetic analysis which distinguishes this group from the Type IIB PMCA calcium pump modelled by TIGR01517. A separate analysis divides Type IIA into sub-types, SERCA and PMR1 the former of which is modelled by TIGR01116. Length = 884 Score = 31.0 bits (70), Expect = 0.43 Identities = 29/111 (26%), Positives = 48/111 (43%), Gaps = 6/111 (5%) Query: 155 PGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHLGF-----DQYYANRFIEKDDRLTGQ 209 PG E V T+ G +++TG A IA+ LG + DD+ Q Sbjct: 531 PGVKEAVTTLITGGVRIIMITGDSQETAVSIARRLGMPSKTSQSVSGEKLDAMDDQQLSQ 590 Query: 210 VMEPI-IDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVA 259 ++ + + A + ++ ++ LQ + GDG ND L++A GVA Sbjct: 591 IVPKVAVFARASPEHKMKIVKALQKRGDVVAMTGDGVNDAPALKLADIGVA 641 >gnl|CDD|129317 TIGR00213, GmhB_yaeD, D,D-heptose 1,7-bisphosphate phosphatase. This family of proteins formerly designated yaeD resembles the histidinol phosphatase domain of the bifunctional protein HisB. The member from E. coli has been characterized as D,D-heptose 1,7-bisphosphate phosphatase, GmhB, involved in inner core LPS assembly (PubMed:11751812). Length = 176 Score = 30.3 bits (68), Expect = 0.70 Identities = 16/78 (20%), Positives = 29/78 (37%), Gaps = 10/78 (12%) Query: 220 KSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVAFHAKPALAKQAKIRIDHSDL 279 K +LL+A ++L I+ + VGD D+ AG L + K ++ Sbjct: 108 KPGMLLQARKELHIDMAQSYMVGDKLEDM----QAGVAAKVKTN-VLVRTGKPITPEAE- 161 Query: 280 EALLYIQGYKKDEIVKSP 297 I + + + P Sbjct: 162 ----NIADWVLNSLADLP 175 >gnl|CDD|130580 TIGR01517, ATPase-IIB_Ca, plasma-membrane calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIB based on a phylogenetic analysis which distinguishes this group from the Type IIA SERCA calcium pump. A separate analysis divides Type IIA into sub-types (SERCA and PMR1), which are modelled by the corresponding TIGR01116 and TIGR01522. This model is well separated from the two others. Length = 941 Score = 30.1 bits (68), Expect = 0.71 Identities = 32/116 (27%), Positives = 56/116 (48%), Gaps = 16/116 (13%) Query: 155 PGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHLGFDQYYANRFIEKDD--RLTGQVME 212 PG E V ++ G + +VTG A+ IA++ G + +E + RL + M+ Sbjct: 582 PGVREAVQECQRAGITVRMVTGDNIDTAKAIARNCGI-LTFGGLAMEGKEFRRLVYEEMD 640 Query: 213 PIIDG---TAKS-----QILLEAIQKLQINPEDTIAV-GDGNNDLDMLRVAGYGVA 259 PI+ A+S Q+L+ ++ + + +AV GDG ND L++A G + Sbjct: 641 PILPKLRVLARSSPLDKQLLVLMLKDMG----EVVAVTGDGTNDAPALKLADVGFS 692 >gnl|CDD|177475 PHA02693, PHA02693, hypothetical protein; Provisional. Length = 710 Score = 30.0 bits (67), Expect = 0.80 Identities = 11/21 (52%), Positives = 15/21 (71%) Query: 226 EAIQKLQINPEDTIAVGDGNN 246 E I KL+I+PED +A+ D N Sbjct: 166 EMIPKLEISPEDLVALADKGN 186 >gnl|CDD|178732 PLN03190, PLN03190, aminophospholipid translocase; Provisional. Length = 1178 Score = 29.5 bits (66), Expect = 0.99 Identities = 11/26 (42%), Positives = 18/26 (69%) Query: 238 TIAVGDGNNDLDMLRVAGYGVAFHAK 263 T+A+GDG ND+ M+++A GV + Sbjct: 874 TLAIGDGANDVSMIQMADVGVGISGQ 899 >gnl|CDD|131516 TIGR02463, MPGP_rel, mannosyl-3-phosphoglycerate phosphatase-related protein. This family consists of members of the HAD superfamily, subfamily IIB. All members are closely related to mannosyl-3-phosphoglycerate phosphatase, the second enzyme in a two-step pathway for biosynthesis of mannosylglycerate, a compatible solute present in some thermophiles and in Dehalococcoides ethenogenes. However, members of this family are separable in a neighbor-joining tree constructed from a multiple sequence alignment and are found only in mesophiles that lack the companion mannosyl-3-phosphoglycerate synthase (TIGR02460). Members of this family are like to act on a compound related to yet distinct from mannosyl-3-phosphoglycerate. Length = 221 Score = 29.7 bits (67), Expect = 1.0 Identities = 13/42 (30%), Positives = 19/42 (45%) Query: 217 GTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGV 258 ++K + T+ +GDG NDL +L VA Y V Sbjct: 177 SSSKGKAANWLKATYNQPDVKTLGLGDGPNDLPLLEVADYAV 218 >gnl|CDD|162429 TIGR01574, miaB-methiolase, tRNA-N(6)-(isopentenyl)adenosine-37 thiotransferase enzyme MiaB. Hits to this model span all major groups of bacteria and eukaryotes, but not archaea, which are known to lack this particular tRNA modification. The enzyme from Thermotoga maritima has been cloned, expressed, spectroscopically characterized and shown to complement the E. coli MiaB enzyme. Length = 438 Score = 29.4 bits (66), Expect = 1.1 Identities = 21/108 (19%), Positives = 38/108 (35%), Gaps = 8/108 (7%) Query: 39 SIACDIILPLEGMIDHHRSKILSIIADKPIDLIIHRHENRRKNLLIADMDSTMIEQECID 98 SI+ DII+ G + + L ++ + D + R ADM + E+ Sbjct: 299 SISTDIIVGFPGETEEDFEETLDLLREVEFDSAFSFIYSPRPGTPAADMPDQIPEEIKKR 358 Query: 99 ELADLIGIKEKVSLITARAMNGEIPFQDSLRERISLFKGTSTKIIDSL 146 L L ++ R G+ ++ L +G S + L Sbjct: 359 RLQRLQARHNEILDKKMRKQEGKT-------FKV-LVEGLSRNNPEEL 398 >gnl|CDD|183902 PRK13226, PRK13226, phosphoglycolate phosphatase; Provisional. Length = 229 Score = 29.1 bits (65), Expect = 1.5 Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 7/63 (11%) Query: 224 LLEAIQKLQINPEDTIAVGDGNNDLDMLRVAG-------YGVAFHAKPALAKQAKIRIDH 276 LL A +++ + P D + VGD D+ R AG +G H LA QA + ++ Sbjct: 157 LLVAAERIGVAPTDCVYVGDDERDILAARAAGMPSVAALWGYRLHDDDPLAWQADVLVEQ 216 Query: 277 SDL 279 L Sbjct: 217 PQL 219 >gnl|CDD|162465 TIGR01652, ATPase-Plipid, phospholipid-translocating P-type ATPase, flippase. This model describes the P-type ATPase responsible for transporting phospholipids from one leaflet of bilayer membranes to the other. These ATPases are found only in eukaryotes. Length = 1057 Score = 28.1 bits (63), Expect = 2.5 Identities = 11/21 (52%), Positives = 16/21 (76%) Query: 238 TIAVGDGNNDLDMLRVAGYGV 258 T+A+GDG ND+ M++ A GV Sbjct: 771 TLAIGDGANDVSMIQEADVGV 791 >gnl|CDD|131514 TIGR02461, osmo_MPG_phos, mannosyl-3-phosphoglycerate phosphatase. Members of this family are mannosyl-3-phosphoglycerate phosphatase (EC 3.1.3.70). It acts sequentially after mannosyl-3-phosphoglycerate synthase (EC 2.4.1.217) in a two-step pathway of biosynthesis of the compatible solute mannosylglycerate, a typical osmolyte of thermophiles. Length = 225 Score = 28.2 bits (63), Expect = 2.5 Identities = 29/144 (20%), Positives = 47/144 (32%), Gaps = 36/144 (25%) Query: 115 ARAMNGEIPFQDSLRERISLFKGTSTKIIDSLLEKKITYNPGGYELVHTMKQNGASTLLV 174 A G + +S E + G ++ L K+ Y+ E + + G +LV Sbjct: 105 AENEYGLKYYGNSTAEEVEKLTGLPRELAP--LAKRREYS----ETIFLWSREGWEAILV 158 Query: 175 T---GGFSIF--ARFIAQHLGFDQYYANRFIEKDDRLTGQVMEPIIDGTAKSQILLEAIQ 229 T G RF H G D+ K+ L + Sbjct: 159 TARARGLKYTHGGRFYTVHGGSDK-------------------------GKAIKRLLDLY 193 Query: 230 KLQINPEDTIAVGDGNNDLDMLRV 253 KL+ +++ +GD ND M V Sbjct: 194 KLRPGAIESVGLGDSENDFPMFEV 217 >gnl|CDD|179628 PRK03669, PRK03669, mannosyl-3-phosphoglycerate phosphatase; Reviewed. Length = 271 Score = 28.1 bits (63), Expect = 2.8 Identities = 13/35 (37%), Positives = 18/35 (51%) Query: 224 LLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGV 258 L+ Q+L T+ +GDG ND +L V Y V Sbjct: 195 LIATYQQLSGTRPTTLGLGDGPNDAPLLDVMDYAV 229 >gnl|CDD|179122 PRK00779, PRK00779, ornithine carbamoyltransferase; Provisional. Length = 304 Score = 28.1 bits (64), Expect = 2.9 Identities = 21/61 (34%), Positives = 23/61 (37%), Gaps = 17/61 (27%) Query: 238 TIA-VGDGNN----------DLDM-LRVA---GYGV--AFHAKPALAKQAKIRIDHSDLE 280 +A VGDGNN L LRVA GY K A A I + H E Sbjct: 154 KVAWVGDGNNVANSLLLAAALLGFDLRVATPKGYEPDPEIVEKIAKETGASIEVTHDPKE 213 Query: 281 A 281 A Sbjct: 214 A 214 >gnl|CDD|162415 TIGR01549, HAD-SF-IA-v1, haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E. HAD subfamilies caused by an overly broad single model. Length = 154 Score = 28.1 bits (63), Expect = 2.9 Identities = 23/103 (22%), Positives = 41/103 (39%), Gaps = 13/103 (12%) Query: 153 YNPGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHLGFDQYYANRFIEKDDRLTGQVME 212 Y G +L+ +K+ G +++ G + + + D I D Sbjct: 65 YIRGAADLLKRLKEAGIKLGIISNGSLRAQKLLLRKHLGDY---FDLILGSDE------- 114 Query: 213 PIIDGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAG 255 + +I L A++ L + PE + VGD ND++ R AG Sbjct: 115 --FGAKPEPEIFLAALESLGLPPE-VLHVGDNLNDIEGARNAG 154 >gnl|CDD|130587 TIGR01524, ATPase-IIIB_Mg, magnesium-translocating P-type ATPase. The magnesium ATPases have been classified as type IIIB by a phylogenetic analysis. Length = 867 Score = 27.9 bits (62), Expect = 3.3 Identities = 33/123 (26%), Positives = 52/123 (42%), Gaps = 18/123 (14%) Query: 159 ELVHTMKQNGASTLLVTGGFSIFARFIAQHLGFDQYYANRFIE-------KDDRLTGQVM 211 E + + +NG + ++TG I I Q +G D AN F+ D+ L ++ Sbjct: 522 EAIAALFKNGINVKVLTGDNEIVTARICQEVGID---ANDFLLGADIEELSDEELARELR 578 Query: 212 EPII----DGTAKSQILLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVAFHAKPALA 267 + I KS+I I L+ +GDG ND LR A G++ +A Sbjct: 579 KYHIFARLTPMQKSRI----IGLLKKAGHTVGFLGDGINDAPALRKADVGISVDTAADIA 634 Query: 268 KQA 270 K+A Sbjct: 635 KEA 637 >gnl|CDD|184275 PRK13723, PRK13723, conjugal transfer pilus assembly protein TraH; Provisional. Length = 451 Score = 27.8 bits (62), Expect = 3.6 Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 1/39 (2%) Query: 8 ITHRSHPILNISLVKQIMQIVNSSIFYWLADSIACDIIL 46 I+ + P+ LV M V++S+ Y L D I DI+L Sbjct: 332 ISSTTIPVFKY-LVDPQMLGVSNSLIYQLTDYIGYDILL 369 >gnl|CDD|132376 TIGR03333, salvage_mtnX, 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase. Members of this family are the methionine salvage enzyme MnxX, a member of the HAD-superfamily hydrolases, subfamily IB (see TIGR01488). Members are found in Bacillus subtilis and related species, paired with MtnW (TIGR03332). In most species that recycle methionine from methylthioadenosine, the single protein MtnC replaces the MtnW/MtnX pair. In B. subtilis, mtnX was first known as ykrX. Length = 214 Score = 27.4 bits (61), Expect = 3.9 Identities = 24/128 (18%), Positives = 48/128 (37%), Gaps = 24/128 (18%) Query: 82 LLIADMDSTMIEQECIDELADLIGIKEKVSLITARAMNGEIPFQDSLRERISLFKGTST- 140 +I D D T+ + I I I ++ + A+ + L + +S+ +G Sbjct: 1 FIICDFDGTITNNDNI------ISIMKQFAPPEWEALKDGV-----LSKTLSIQEGVGRM 49 Query: 141 ----------KIIDSLLEKKITYNPGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHL- 189 +I +LE G E V + ++G +++GG F + + + Sbjct: 50 FGLLPSSLKEEITSFVLETAEI-REGFREFVAFINEHGIPFYVISGGMDFFVYPLLEGIV 108 Query: 190 GFDQYYAN 197 D+ Y N Sbjct: 109 EKDRIYCN 116 >gnl|CDD|181006 PRK07505, PRK07505, hypothetical protein; Provisional. Length = 402 Score = 27.3 bits (61), Expect = 4.5 Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 2/32 (6%) Query: 261 HAKPALAKQAKI-RIDHSDLEALLYI-QGYKK 290 K A + ++ IDH+DL+AL I + K Sbjct: 150 ILKGICADETEVETIDHNDLDALEDICKTNKT 181 >gnl|CDD|130731 TIGR01670, YrbI-phosphatas, 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase, YrbI family. The Methanosarcina sequence is distinctive in that it is linked to an N-terminal cytidylyltransferase domain (pfam02348) and is annotated as acylneuraminate cytidylyltransferase. This may give some clue as the function of these phosphatases. Several eukaryotic sequences scoring between trusted and noise are also closely related to this function such as the CMP-N-acetylneuraminic acid synthetase from mouse, but in these cases the phosphatase domain is clearly inactive as many of the active site residues are not conserved. Length = 154 Score = 27.1 bits (60), Expect = 5.0 Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 1/58 (1%) Query: 203 DDRLTGQVMEPIIDGTAKSQILLEAI-QKLQINPEDTIAVGDGNNDLDMLRVAGYGVA 259 +DR + + G + I I +KL + PE+ +GD D ++ G VA Sbjct: 59 EDRCKTLGITHLYQGQSNKLIAFSDILEKLALAPENVAYIGDDLIDWPVMEKVGLSVA 116 >gnl|CDD|132560 TIGR03521, GldG, gliding-associated putative ABC transporter substrate-binding component GldG. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldG is a protein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldG abolish the gliding phenotype. GldG, along with GldA and GldF are believed to compose an ABC transporter and are observed as an operon. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility. Length = 552 Score = 27.3 bits (61), Expect = 5.3 Identities = 13/32 (40%), Positives = 17/32 (53%) Query: 224 LLEAIQKLQINPEDTIAVGDGNNDLDMLRVAG 255 +AI KL E IAV GN +L L++A Sbjct: 171 FADAISKLINPREKRIAVLKGNGELADLQIAD 202 >gnl|CDD|184712 PRK14501, PRK14501, putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional. Length = 726 Score = 26.4 bits (59), Expect = 8.5 Identities = 16/70 (22%), Positives = 27/70 (38%), Gaps = 7/70 (10%) Query: 23 QIMQ--IVNSSIFYWLADSIACDIILPLEGMIDHHRSKILSIIADKPIDLIIHRHENRRK 80 Q MQ + + W A D + L + +++ I + II R+ + Sbjct: 438 QAMQERLRRYDVHKW-----ASDFLDELREAAEKNKAFASKPITPAAAEEIIARYRAASR 492 Query: 81 NLLIADMDST 90 LL+ D D T Sbjct: 493 RLLLLDYDGT 502 >gnl|CDD|177855 PLN02205, PLN02205, alpha,alpha-trehalose-phosphate synthase [UDP-forming]. Length = 854 Score = 26.5 bits (58), Expect = 8.8 Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 3/49 (6%) Query: 224 LLEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVAFHAKPALAKQAKI 272 LL +Q+ + P+ + +GD +D DM V + A P++A +A++ Sbjct: 770 LLSIMQERGMLPDFVLCIGDDRSDEDMFEVITSSM---AGPSIAPRAEV 815 >gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed. Length = 644 Score = 26.5 bits (58), Expect = 8.9 Identities = 17/62 (27%), Positives = 32/62 (51%), Gaps = 8/62 (12%) Query: 55 HRSKILSIIADKPIDLIIHRHENRRKNLLIADMD------STMIEQECID--ELADLIGI 106 H S + I D+ + +I R+ NR + LL +MD +++ E ID ++ DL+ Sbjct: 536 HMSDETARIIDQEVKALIERNYNRARQLLTDNMDILHAMKDALMKYETIDAPQIDDLMAR 595 Query: 107 KE 108 ++ Sbjct: 596 RD 597 >gnl|CDD|162209 TIGR01116, ATPase-IIA1_Ca, sarco/endoplasmic reticulum calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIA based on a phylogenetic analysis which distinguishes this group from the Type IIB PMCA calcium pump modelled by TIGR01517. A separate analysis divides Type IIA into sub-types, SERCA and PMR1, the latter of which is modelled by TIGR01522. Length = 917 Score = 26.3 bits (58), Expect = 9.4 Identities = 16/46 (34%), Positives = 23/46 (50%) Query: 225 LEAIQKLQINPEDTIAVGDGNNDLDMLRVAGYGVAFHAKPALAKQA 270 E ++ LQ E GDG ND L+ A G+A + +AK+A Sbjct: 620 SELVELLQEQGEIVAMTGDGVNDAPALKKADIGIAMGSGTEVAKEA 665 >gnl|CDD|148965 pfam07651, ANTH, ANTH domain. AP180 is an endocytotic accessory proteins that has been implicated in the formation of clathrin-coated pits. The domain is involved in phosphatidylinositol 4,5-bisphosphate binding and is a universal adaptor for nucleation of clathrin coats. Length = 276 Score = 26.5 bits (59), Expect = 9.4 Identities = 22/114 (19%), Positives = 39/114 (34%), Gaps = 25/114 (21%) Query: 87 MDSTMIEQECIDELADLIG--IKEKVSLITARAMNGEI---PFQDSLRERISLFKGTSTK 141 S + I +L L+ +K K T A+ E ++E L+ + Sbjct: 148 TMSMEDLLDIIPKLQKLLDRLLKCKP---TGNALTNECIIAALILLIKESFGLYG-AINE 203 Query: 142 IIDSLLEKKITYNPGGYELVHTMKQNGASTLLVTGGFSIFARFIAQHLGFDQYY 195 I +LL K + + A L I+ RF++Q ++Y Sbjct: 204 GIINLLSK-----------FFELSKPDADAAL-----GIYKRFVSQFERLKEFY 241 >gnl|CDD|180482 PRK06233, PRK06233, hypothetical protein; Provisional. Length = 372 Score = 26.2 bits (58), Expect = 10.0 Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 6/53 (11%) Query: 162 HTMKQNGASTLLVTGGFSIFARFIAQHLGFDQYYANRFIEKDDRLTGQVMEPI 214 H + N ST L +GG+ A+++ Q L +D + F+E D+ +G EP+ Sbjct: 242 HICRGNFKSTYLFSGGYEPVAKYLGQ-LNYDGF----FLEYDNDRSGS-FEPL 288 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.322 0.139 0.390 Gapped Lambda K H 0.267 0.0707 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 4,902,670 Number of extensions: 325101 Number of successful extensions: 778 Number of sequences better than 10.0: 1 Number of HSP's gapped: 770 Number of HSP's successfully gapped: 87 Length of query: 297 Length of database: 5,994,473 Length adjustment: 93 Effective length of query: 204 Effective length of database: 3,984,929 Effective search space: 812925516 Effective search space used: 812925516 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: 57 (25.8 bits)