RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780153|ref|YP_003064566.1| phosphoserine aminotransferase [Candidatus Liberibacter asiaticus str. psy62] (391 letters) >gnl|CDD|179533 PRK03080, PRK03080, phosphoserine aminotransferase; Provisional. Length = 378 Score = 602 bits (1555), Expect = e-173 Identities = 206/387 (53%), Positives = 253/387 (65%), Gaps = 10/387 (2%) Query: 1 MLDMRKPTRKPKRPFFSSGPCAKRPGWSLGILEGALLGRSHRCVLGKERINKAIQLTRKV 60 M + P +P P FSSGPC KRPGW L L ALLGRSHR K + + I+ TR++ Sbjct: 1 MTTLTIPALRPADPRFSSGPCKKRPGWQLEALADALLGRSHRQKPVKALLKRVIEGTREL 60 Query: 61 LEVPENYRIAIVPASDTGAVEMALWSLLGYRGVDVLAWESFGLGWMSDI-RQLSLQDVRE 119 L +PE Y + IVP SDTGA EMALWSLLG R VD LAWESFG W +D+ +QL L+D R Sbjct: 61 LSLPEGYEVGIVPGSDTGAWEMALWSLLGARRVDHLAWESFGSKWATDVVKQLKLEDPRV 120 Query: 120 FTAPYGSLPDFSKVDFDRDVVFVWNGTTSGVCVPDVGFIPESREGLVICDATSAVFARHI 179 A YGSLPD S VDFDRDVVF WNGTT+GV VP +I REGL ICDATSA FA + Sbjct: 121 LEADYGSLPDLSAVDFDRDVVFTWNGTTTGVRVPVARWIGADREGLTICDATSAAFALPL 180 Query: 180 DFNKLDVVTFSAQKVLGGEAGFGIIILSPASVERLEKYVPSWPLPKIFRMVKGGRVMEGL 239 D++KLDV TFS QKVLGGE G G+ ILSP +VERLE Y P+ P+PK FR+ KGG+ +E Sbjct: 181 DWSKLDVYTFSWQKVLGGEGGHGMAILSPRAVERLESYTPARPIPKFFRLTKGGKAIENS 240 Query: 240 FCGETINTPSLLCIEDYIDALLWLKKMGGLSACVERCNANAAVLFQFIQENDWIENLAVD 299 F G+TINTPS+L +EDY+D L W +GGL A + R ANA+VL+ + ++ W L D Sbjct: 241 FKGQTINTPSMLTVEDYLDQLDWANSIGGLDALIARTAANASVLYDWAEKTPWATPLVAD 300 Query: 300 ETTRSNTSICMKIVDSDIASLDINSQKSFCKSMLSFLEKEEIAYDIGSYRDAPLGLRVWV 359 TRSNTS+ + VD +Q + + ++ L +E A DI YRDAP GLR+W Sbjct: 301 PATRSNTSVTLDFVD---------AQAAVDAAAVAKLLRENGAVDIEPYRDAPNGLRIWC 351 Query: 360 GVTVEKEDLLLLCDWLRWVFYFQKISF 386 G TVE D+ L WL W F K + Sbjct: 352 GPTVEPADVEALTPWLDWAFERLKAAL 378 >gnl|CDD|130432 TIGR01365, serC_2, phosphoserine aminotransferase, Methanosarcina type. This model represents a variant form of the serine biosynthesis enzyme phosphoserine aminotransferase, as found in a small number of distantly related species, including Caulobacter crescentus, Mesorhizobium loti, and the archaeon Methanosarcina barkeri. Length = 374 Score = 537 bits (1384), Expect = e-153 Identities = 231/371 (62%), Positives = 281/371 (75%), Gaps = 1/371 (0%) Query: 10 KPKRPFFSSGPCAKRPGWSLGILEGALLGRSHRCVLGKERINKAIQLTRKVLEVPENYRI 69 +P P FSSGPCAKRPGWS+ L+ A LGRSHR LGKE++ +AI+ TR++L VP +Y I Sbjct: 1 RPANPCFSSGPCAKRPGWSIEELKNAPLGRSHRSKLGKEKLAEAIKKTREMLGVPADYLI 60 Query: 70 AIVPASDTGAVEMALWSLLGYRGVDVLAWESFGLGWMSDI-RQLSLQDVREFTAPYGSLP 128 IVPASDTGAVEMALWS+LG RGVDVLAWESFG GW++D+ +QL L DVR A YG LP Sbjct: 61 GIVPASDTGAVEMALWSMLGCRGVDVLAWESFGKGWVTDVTKQLKLPDVRVLEAEYGKLP 120 Query: 129 DFSKVDFDRDVVFVWNGTTSGVCVPDVGFIPESREGLVICDATSAVFARHIDFNKLDVVT 188 D KVDF DVVF WNGTTSGV VP+ FIP REGL ICDATSA FA+ +D++KLDVVT Sbjct: 121 DLKKVDFKNDVVFTWNGTTSGVRVPNGDFIPADREGLTICDATSAAFAQDLDYHKLDVVT 180 Query: 189 FSAQKVLGGEAGFGIIILSPASVERLEKYVPSWPLPKIFRMVKGGRVMEGLFCGETINTP 248 FS QKVLGGE G++ILSP +V RLE Y P+WPLPKIFR+ KGG++ + +F G TINTP Sbjct: 181 FSWQKVLGGEGAHGMLILSPRAVARLESYTPAWPLPKIFRLTKGGKLNKKIFEGSTINTP 240 Query: 249 SLLCIEDYIDALLWLKKMGGLSACVERCNANAAVLFQFIQENDWIENLAVDETTRSNTSI 308 S+LC+ED++DAL W + +GGL + R + N AVL F+ +N+WI LA RSNTS+ Sbjct: 241 SMLCVEDWLDALKWAESIGGLKPLIARADDNLAVLEAFVAKNNWIHFLAETPEIRSNTSV 300 Query: 309 CMKIVDSDIASLDINSQKSFCKSMLSFLEKEEIAYDIGSYRDAPLGLRVWVGVTVEKEDL 368 C+K+VD I +LD ++Q F K ++S LEKE +AYDIGSYRDAP GLR+W G TVEK DL Sbjct: 301 CLKVVDPAIDALDEDAQADFAKELISTLEKEGVAYDIGSYRDAPSGLRIWCGATVEKSDL 360 Query: 369 LLLCDWLRWVF 379 LC WL W F Sbjct: 361 ECLCPWLDWAF 371 >gnl|CDD|130431 TIGR01364, serC_1, phosphoserine aminotransferase. This model represents the common form of the phosphoserine aminotransferase SerC. The phosphoserine aminotransferase of the archaeon Methanosarcina barkeri and putative phosphoserine aminotransferase of Mycobacterium tuberculosis are represented by separate models. All are members of the class V aminotransferases (pfam00266). Length = 349 Score = 83.5 bits (207), Expect = 8e-17 Identities = 65/289 (22%), Positives = 118/289 (40%), Gaps = 33/289 (11%) Query: 40 SHRCVLGKERINKAIQLTRKVLEVPENYRIAIVPASDTGAVEMALWSLLGYRGV-DVL-- 96 SHR + N+A R++L +P+NY + + TG +LL V D + Sbjct: 29 SHRSKEFEAVANEAESDLRELLNIPDNYEVLFLQGGATGQFAAVPLNLLAEGKVADYIVT 88 Query: 97 -AWESFGLGWMSDIRQLSLQDVREFTAPYGSLPDFSKVDFDRDVVFVW---NGTTSGVCV 152 AW +++ + Y +PD S + D +V N T GV Sbjct: 89 GAWSKKAAKEAKKYGVVNVVASGK-EGNYTKIPDPSTWEISEDAAYVHYCANETIHGVEF 147 Query: 153 PDVGFIPESREGLVICDATSAVFARHIDFNKLDVVTFSAQKVLGGEAGFGIIILSPASVE 212 + +P+ + ++ D +S + +R ID +K ++ AQK + G AG ++I+ + Sbjct: 148 RE---LPDVKNAPLVADMSSNILSRPIDVSKFGLIYAGAQKNI-GPAGLTVVIVRKDLLG 203 Query: 213 RLEKYVPSWPLPKIFR---MVKGGRVMEGLFCGETINTPSLLCIEDYIDALL--WLKKMG 267 R + P + + ++ NTP I Y+ L+ WLK+ G Sbjct: 204 RASR-----ITPSMLNYKIHAEND----SMY-----NTPPTFAI--YVSGLVFKWLKEQG 247 Query: 268 GLSACVERCNANAAVLFQFIQENDWIENLAVDETTRSNTSICMKIVDSD 316 G+ A +R A A +L+ I ++ VD RS ++ + + + Sbjct: 248 GVKAIEKRNQAKAQLLYDTIDNSNGFYRNPVDPRNRSRMNVVFTLGNEE 296 >gnl|CDD|130433 TIGR01366, serC_3, phosphoserine aminotransferase, putative. This model represents a putative variant form of the serine biosynthesis enzyme phosphoserine aminotransferase, as found in Mycobacterium tuberculosis and related high-GC Gram-positive bacteria. Length = 361 Score = 81.9 bits (202), Expect = 2e-16 Identities = 78/316 (24%), Positives = 133/316 (42%), Gaps = 21/316 (6%) Query: 10 KPKRPFFSSGPCAKRPGWSLGILEG--ALLGRSHRCVLGKERINKAIQLTRKVLEVPENY 67 KP+ F SGP R + +L G SHR K + + + ++ +P+ Y Sbjct: 1 KPRDGRFGSGPSKVRLEQLQALTTTAASLFGTSHRQAPVKNLVGRVREGLAELFSLPDGY 60 Query: 68 RIAIVPASDTGAVEMALWSLLGYRGVDVLAWESFGLGWMSDIRQLSLQDVREF-TAPYGS 126 + + T + A + L+ + + L++ F + ++ TA GS Sbjct: 61 EVILGNGGATAFWDAATFGLIEKKSLH-LSFGEFSSKFAKAVKLAPWLGEPIIVTADPGS 119 Query: 127 LPD---FSKVDFDRDVVFVW--NGTTSGVCVPDVGFIPESREGLVICDATSAVFARHIDF 181 P+ VD V W N T++GV VP V S + LV+ DATS +D Sbjct: 120 APEPQADPGVD-----VIAWAHNETSTGVAVP-VRRPEGSDDALVVIDATSGAGGLPVDI 173 Query: 182 NKLDVVTFSAQKVLGGEAGFGIIILSPASVERLEKYVPS--WPLPKIFRMVKGGRVMEGL 239 + DV F+ QK + G + I+SPA++ER+E S W +P+ + ++ Sbjct: 174 AETDVYYFAPQKNFASDGGLWLAIMSPAALERIEAIAASGRW-VPEFLSLPTA---VDNS 229 Query: 240 FCGETINTPSLLCIEDYIDALLWLKKMGGLSACVERCNANAAVLFQFIQENDWIENLAVD 299 +T NTP++ + + + W+ GGL V R +++ L+ + QE + D Sbjct: 230 LKNQTYNTPAIATLALLAEQIDWMNGNGGLDWAVARTADSSSRLYSWAQERPYATPFVTD 289 Query: 300 ETTRSNTSICMKIVDS 315 RS + VD Sbjct: 290 PGKRSQVVGTIDFVDD 305 >gnl|CDD|180036 PRK05355, PRK05355, 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional. Length = 360 Score = 74.8 bits (185), Expect = 3e-14 Identities = 75/320 (23%), Positives = 122/320 (38%), Gaps = 96/320 (30%) Query: 40 SHRCVLGKE---RINKAIQLTRKVLEVPENYRI-----------AIVP---ASDTGAVEM 82 SHR KE +A R++L +P+NY++ A+VP + Sbjct: 40 SHR---SKEFEAVAEEAEADLRELLNIPDNYKVLFLQGGASLQFAMVPMNLLGGGKKADY 96 Query: 83 AL---WS--------LLGYRGVDVLAWESFGLGWMSDIRQLSLQDVREFTAPYGSLPDFS 131 WS G V+V A S +D + +P Sbjct: 97 VDTGSWSKKAIKEAKKYG--EVNVAA---------------SSED-----DGFTYIPPLD 134 Query: 132 KVDFDRDVVFV---WNGTTSGV---CVPDVGFIPESREGLVICDATSAVFARHIDFNKLD 185 + D +V N T G +PD G +P ++ D +S + +R ID +K Sbjct: 135 EWQLSDDAAYVHYTSNETIDGTEFHELPDTGDVP------LVADMSSDILSRPIDVSKFG 188 Query: 186 VVTFSAQKVLGGEAGFGIIILSPASVER---LEKYVPSWPLPKIFR---MVKGGRVMEGL 239 ++ AQK + G AG I+I+ R L + +PS +P + + Sbjct: 189 LIYAGAQKNI-GPAGLTIVIV------REDLLGRALPS--IPSMLDYKTHADND----SM 235 Query: 240 FCGETINTPSLLCIEDYIDALL---WLKKMGGLSACVERCNANAAVLFQFIQENDWIENL 296 + NTP I Y+ A L WLK+ GG++A +R AA+L+ I +D+ N Sbjct: 236 Y-----NTPPTFAI--YL-AGLVFKWLKEQGGVAAMEKRNQEKAALLYDAIDSSDFYRN- 286 Query: 297 AVDETTRSNTSICMKIVDSD 316 V RS ++ + D + Sbjct: 287 PVAPEDRSRMNVPFTLADEE 306 >gnl|CDD|178071 PLN02452, PLN02452, phosphoserine transaminase. Length = 365 Score = 59.7 bits (145), Expect = 1e-09 Identities = 74/349 (21%), Positives = 126/349 (36%), Gaps = 94/349 (26%) Query: 16 FSSGP--------------CAKRPGWSLGILEGALLGRSHRCVLGKER---INKAIQLTR 58 FS+GP G + ++E SHR GKE I KA R Sbjct: 11 FSAGPATLPANVLAKAQAELYNWEGSGMSVME-----MSHR---GKEFLSIIQKAEADLR 62 Query: 59 KVLEVPENYRI-----------AIVPASDTGAVEMALWSLLGYRGVDVLAW--ESFG--- 102 ++L++P+NY + A +P + + A + + G +W ++ Sbjct: 63 ELLDIPDNYEVLFLQGGASTQFAAIPLNLCKPGDKADFVVTG-------SWSKKAAKEAK 115 Query: 103 ------LGWMSDIRQLSLQDVREFTAPYGSLPDFSKVDFDRDVVFVW---NGTTSGV--- 150 + Y +P S+ + D FV N T GV Sbjct: 116 KYCKTNVIASGK------------DEKYTKIPSVSEWELTPDAKFVHICANETIHGVEFK 163 Query: 151 CVPDVGFIPESREGLVICDATSAVFARHIDFNKLDVVTFSAQKVLGGEAGFGIIILSPAS 210 PDVG ++ D +S ++ +D +K V+ AQK + G +G I+I+ Sbjct: 164 DYPDVG------NVPLVADMSSNFLSKPVDVSKYGVIYAGAQKNV-GPSGVTIVIIRKDL 216 Query: 211 VERLEKYVPSWPLPKIFRMVKGGRVMEGLFCGETINTPSLLCIEDYIDALL--WLKKMGG 268 + P KI + + NTP I Y+ L+ L GG Sbjct: 217 IGNARPITPGMLDYKI--HAENDSLY---------NTPPCFGI--YMCGLVFEDLLAQGG 263 Query: 269 LSACVERCNANAAVLFQFIQENDWIENLAVDETTRSNTSICMKIVDSDI 317 L A +R A +L+ I E++ V+++ RS ++ + S++ Sbjct: 264 LKAMEKRNIRKADLLYDAIDESNGFYVCPVEKSVRSLMNVPFTLGGSEL 312 >gnl|CDD|132344 TIGR03301, PhnW-AepZ, 2-aminoethylphosphonate aminotransferase. This family includes a number of 2-aminoethylphosphonate aminotransferases, some of which are indicated to operate in the catabolism of 2-aminoethylphosphonate (AEP) and others which are involved in the biosynthesis of the same compound. The catabolic enzyme (PhnW, ) is known to use pyruvate:alanine as the transfer partner and is modeled by the equivalog-level alignment (TIGR02326). The PhnW family is apparently a branch of a larger tree including genes (AepZ) adjacent to others responsible for the biosynthesis of phosphonoacetaldehyde. The identity of the transfer partner is unknown for these enzymes and considering the reversed flux compared to PhnW, it may very well be different. Length = 355 Score = 52.4 bits (126), Expect = 2e-07 Identities = 44/154 (28%), Positives = 69/154 (44%), Gaps = 19/154 (12%) Query: 74 ASDTGAVEMALWSLLGYRG-VDVLAWESFG--LGWMSDIRQLSLQDVREFTAPYGSLPDF 130 S T AVE + SL+ G + VL ++G L + + + D+ + Y PD Sbjct: 57 GSGTFAVEATIGSLVPRDGKLLVLINGAYGERLAKICEYLGIPHTDLN--FSEY-EPPDL 113 Query: 131 SKV--------DFDRDVVFVWNGTTSGVCVP--DVGFIPESREGLVICDATSAVFARHID 180 +++ D V V + TT+G+ P + + S ++I DA S+ A ID Sbjct: 114 NRIEEALAADPDI-THVATVHHETTTGILNPLEAIAKVARSHGAVLIVDAMSSFGAIPID 172 Query: 181 FNKLDV--VTFSAQKVLGGEAGFGIIILSPASVE 212 +LDV + SA K L G GFG +I +E Sbjct: 173 IEELDVDALIASANKCLEGVPGFGFVIARRDLLE 206 >gnl|CDD|183540 PRK12462, PRK12462, phosphoserine aminotransferase; Provisional. Length = 364 Score = 46.7 bits (111), Expect = 9e-06 Identities = 65/273 (23%), Positives = 110/273 (40%), Gaps = 39/273 (14%) Query: 35 ALLGRSHRCVLGKERINKAIQLTRKVLEVPENYRIAIVPASDTGAVEMALWSLLGYRGVD 94 ++LG SHR + +A R +L +P+ Y + + + M + R Sbjct: 36 SVLGMSHRSSWFSSLLAQAEADLRDLLGIPDEYGVVFLQGGSSLQFSMIPMNFS--RPGA 93 Query: 95 VLAWESFGLGWMSDIRQLSLQDVREFTAP----------YGSLPDFSKVDFDRDVVF--- 141 E G+ S + ++ + A Y +LP +++D+D F Sbjct: 94 AAP-EYVTTGYWS---RKAIGEASRVAAMRVVWDGAASGYRTLPSLAELDWDARAPFRHY 149 Query: 142 VWNGTTSGVCVPDVGFIPESREGLVICDATSAVFARHIDFNKLDVVTFSAQKVLGGEAGF 201 V N T G+ PD +P+S I D +S +R D +V AQK L G AG Sbjct: 150 VSNETVEGLQFPDAAGLPDSPL---IADMSSDFMSRPFDVEAYGMVYAHAQKNL-GPAGV 205 Query: 202 GIIILSPASVERLEKYVPSWPLPKIFRMVKGGRVMEGLFCGETINTPSLLCIEDYIDALL 261 + I+ A +ER+ +P FR R NTP + I Y+ AL+ Sbjct: 206 TVAIIRRALLERVPDTLPPM---LDFRTHVEHR--------SNYNTPPVFAI--YVMALV 252 Query: 262 --WLK-KMGGLSACVERCNANAAVLFQFIQEND 291 W++ ++GG+ A + AA+L+ + + Sbjct: 253 LRWIRDEIGGVHAMRDINARKAAMLYATLDALN 285 >gnl|CDD|178031 PLN02409, PLN02409, serine--glyoxylate aminotransaminase. Length = 401 Score = 40.1 bits (94), Expect = 0.001 Identities = 47/165 (28%), Positives = 77/165 (46%), Gaps = 23/165 (13%) Query: 71 IVPASDTGAVEMALWSLL--GYRGVDVLAWESFGLGWMSDIRQLSLQDVREFTAPYGSLP 128 I P + TGA E AL + L G + V + F L W+ +++L+ DV +P+G Sbjct: 64 IFPTTGTGAWESALTNTLSPGDKVVSFRIGQ-FSLLWIDQMQRLNF-DVDVVESPWGQGA 121 Query: 129 DF----SKVDFDRD-----VVFVWNGTTSGVC--VPDVGFIPESRE--GLVICDATSAVF 175 D SK+ D + V V N T++GV + V + + + L++ D S++ Sbjct: 122 DLDILKSKLRQDTNHKIKAVCVVHNETSTGVTNDLAGVRKLLDCAQHPALLLVDGVSSIG 181 Query: 176 ARHIDFN----KLDVVTFSAQKVLGGEAGFGIIILSPASVERLEK 216 A +DF +DV +QK L G GI+ SP ++E + Sbjct: 182 A--LDFRMDEWGVDVALTGSQKALSLPTGLGIVCASPKALEASKT 224 >gnl|CDD|161897 TIGR00474, selA, seryl-tRNA(sec) selenium transferase. In bacteria, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes SelA. This model excludes homologs that appear to differ in function from Frankia alni, Helicobacter pylori, Methanococcus jannaschii and other archaea, and so on. Length = 454 Score = 34.9 bits (81), Expect = 0.037 Identities = 20/45 (44%), Positives = 27/45 (60%), Gaps = 7/45 (15%) Query: 185 DVVTFSAQKVLGG-EAGFGIIILSPASVERLEKYVPSWPLPKIFR 228 D+VTFS K+LGG +A GII+ +ERL+K PL + R Sbjct: 280 DLVTFSGDKLLGGPQA--GIIVGKKELIERLKKN----PLTRALR 318 >gnl|CDD|181322 PRK08249, PRK08249, cystathionine gamma-synthase; Provisional. Length = 398 Score = 33.2 bits (76), Expect = 0.12 Identities = 34/136 (25%), Positives = 53/136 (38%), Gaps = 38/136 (27%) Query: 165 LVICDATSAVFARHIDFNKL----DVVTFSAQKVLGGEAGF--GIIILSPASVERLEKYV 218 LV+ D T FA I+ N L D+V SA K L G A G++ S +E++ Y Sbjct: 181 LVVVDNT---FATPINQNPLALGADLVIHSATKFLSGHADALGGVVCGSKELMEQVYHY- 236 Query: 219 PSWPLPKIFRMVKGGRVMEGLFCGETINTPSLLCIEDYIDALLWLKKMGGLSACVERCNA 278 IN ++ D + A L L+ M L V + Sbjct: 237 ------------------------REINGATM----DPMSAYLILRGMKTLKLRVRQQQE 268 Query: 279 NAAVLFQFIQENDWIE 294 +A L +++Q + +E Sbjct: 269 SAMALAKYLQTHPKVE 284 >gnl|CDD|179819 PRK04311, PRK04311, selenocysteine synthase; Provisional. Length = 464 Score = 32.5 bits (75), Expect = 0.19 Identities = 16/33 (48%), Positives = 22/33 (66%), Gaps = 3/33 (9%) Query: 185 DVVTFSAQKVLGG-EAGFGIIILSPASVERLEK 216 D+VTFS K+LGG +A GII+ + RL+K Sbjct: 285 DLVTFSGDKLLGGPQA--GIIVGKKELIARLKK 315 >gnl|CDD|181005 PRK07503, PRK07503, methionine gamma-lyase; Provisional. Length = 403 Score = 32.5 bits (74), Expect = 0.21 Identities = 50/197 (25%), Positives = 73/197 (37%), Gaps = 34/197 (17%) Query: 42 RCVLGKE------RI-NKAIQLTRKVLEVPENYRIAIVPASDTGAVEMALWSLLGYRGVD 94 C G+E RI N + L + + E A+ AS GA+ LW+LL G + Sbjct: 48 ECFAGEEEGHFYSRISNPTLALLEQRMASLEGGEAAVALASGMGAITATLWTLLR-PGDE 106 Query: 95 VL----------AWESFGLG-WMSDIRQLSLQDVREFTAPYGSLPDFSKVDFDRDVVF-- 141 V+ A+ GLG + +R + L D A D R V F Sbjct: 107 VIVDQTLYGCTFAFLHHGLGEFGVTVRHVDLTDPAALKAAIS--------DKTRMVYFET 158 Query: 142 VWNGTTSGVCVPDVGFIPESREGLVICDATSA--VFARHIDFNKLDVVTFSAQKVLGGEA 199 N V + V I V+ D T R ++ D+V SA K LGG Sbjct: 159 PANPNMRLVDIAAVAEIAHGAGAKVVVDNTYCTPYLQRPLELGA-DLVVHSATKYLGGHG 217 Query: 200 GF--GIIILSPASVERL 214 G+++ A +R+ Sbjct: 218 DITAGLVVGGKALADRI 234 >gnl|CDD|149600 pfam08602, Mgr1, Mgr1-like, i-AAA protease complex subunit. The S. cerevisiae Mgr1 protein has been shown to be required for mitochondrial viability in yeast lacking mitochondrial DNA. It is a mitochondrial inner membrane protein, which interacts with Yme1 and is a new subunit of the i-AAA protease complex. Length = 362 Score = 31.0 bits (70), Expect = 0.49 Identities = 18/66 (27%), Positives = 27/66 (40%), Gaps = 10/66 (15%) Query: 71 IVPASDTGAVEMALWSLLGYRGVDVLAWESFGLGWMSDIRQLSLQDVREFTAPYGSLPDF 130 +VPASD L++L+G + GL + R L + + A + SL F Sbjct: 47 LVPASDNLP---GLYTLVGLQTG-------IGLFFFKRFRTLGKKLRKRDIADFPSLNRF 96 Query: 131 SKVDFD 136 S D Sbjct: 97 STTHGD 102 >gnl|CDD|130947 TIGR01892, AcOrn-deacetyl, acetylornithine deacetylase (ArgE). This model represents a clade of acetylornithine deacetylases from proteobacteria. This enzyme is the final step of the "acetylated" ornithine biosynthesis pathway. The enzyme is closely related to dapE, succinyl-diaminopimelate desuccinylase, and outside of this clade annotation is very inaccurate as to which function should be ascribed to genes. Length = 364 Score = 30.6 bits (69), Expect = 0.80 Identities = 15/74 (20%), Positives = 28/74 (37%), Gaps = 9/74 (12%) Query: 169 DATSAVFARHIDFNKLDVVTFSAQKVLGGEAGFGIIILSPASVERLEK---YVPSWPLPK 225 DA F + N +VV++ + E G ++ P + + + YV Sbjct: 296 DAELVAFLEELSGNAPEVVSYGTEAPQFQELGAEAVVCGPGDIRQAHQPDEYVE------ 349 Query: 226 IFRMVKGGRVMEGL 239 I +V+ V+ L Sbjct: 350 IEDLVRCRAVLARL 363 >gnl|CDD|183113 PRK11387, PRK11387, S-methylmethionine transporter; Provisional. Length = 471 Score = 29.8 bits (67), Expect = 1.3 Identities = 28/77 (36%), Positives = 35/77 (45%), Gaps = 11/77 (14%) Query: 181 FNKLDVVTFSAQKVLGGEAGFGIIIL---SPA---SVERLEKYVPSWPLPKIFRMVK--- 231 F+ + VVT A VLGG A FG I + SPA E + P LP + MV Sbjct: 158 FSLIKVVTILAFIVLGGAAIFGFIPMQDGSPAPGLRNLTAEGWFPHGGLPILMTMVAVNF 217 Query: 232 --GGRVMEGLFCGETIN 246 G + G+ GET N Sbjct: 218 AFSGTELIGIAAGETEN 234 >gnl|CDD|131573 TIGR02521, type_IV_pilW, type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain. Length = 234 Score = 29.2 bits (66), Expect = 1.7 Identities = 25/88 (28%), Positives = 36/88 (40%), Gaps = 15/88 (17%) Query: 293 IENLAVDETTRSNTSI--C-MKIVDSDIA------SLDINSQKSFCKSMLSFLEKEEIAY 343 IE+ + RS + C +K D D A +L I+ Q+ S LE E+ Y Sbjct: 126 IEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRP-----ESLLELAELYY 180 Query: 344 DIGSYRDAPLGLRVWVGVTVE-KEDLLL 370 G Y+DA L + + E L L Sbjct: 181 LRGQYKDARAYLERYQQTYNQTAESLWL 208 >gnl|CDD|130393 TIGR01326, OAH_OAS_sulfhy, OAH/OAS sulfhydrylase. This model describes a distinct clade of the Cys/Met metabolism pyridoxal phosphate-dependent enzyme superfamily. Members include examples of OAH/OAS sulfhydrylase, an enzyme with activity both as O-acetylhomoserine (OAH) sulfhydrylase (EC 2.5.1.49) and O-acetylserine (OAS) sulphydrylase (EC 2.5.1.47). An alternate name for OAH sulfhydrylase is homocysteine synthase. This model is designated subfamily because it may or may not have both activities. Length = 418 Score = 28.9 bits (65), Expect = 2.6 Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 7/45 (15%) Query: 166 VICDAT--SAVFARHIDFNKLDVVTFSAQKVLGGEA---GFGIII 205 +I D T + R ID D+V SA K +GG G G+I+ Sbjct: 175 LIVDNTFATPYLCRPIDHG-ADIVVHSATKYIGGHGTAIG-GVIV 217 >gnl|CDD|100796 PRK01156, PRK01156, chromosome segregation protein; Provisional. Length = 895 Score = 28.7 bits (64), Expect = 2.7 Identities = 13/39 (33%), Positives = 18/39 (46%) Query: 311 KIVDSDIASLDINSQKSFCKSMLSFLEKEEIAYDIGSYR 349 KI + +I DI+ + K +LE EEI I Y Sbjct: 484 KIREIEIEVKDIDEKIVDLKKRKEYLESEEINKSINEYN 522 >gnl|CDD|166005 PLN02364, PLN02364, L-ascorbate peroxidase 1. Length = 250 Score = 28.5 bits (63), Expect = 3.2 Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 3/44 (6%) Query: 153 PDVGFIPESREGLVICDATSAVFARHIDFNKLDVVTFSAQKVLG 196 P G +P++ +G CD VFA+ + + D+V S LG Sbjct: 126 PPEGRLPDATKG---CDHLRDVFAKQMGLSDKDIVALSGAHTLG 166 >gnl|CDD|179654 PRK03818, PRK03818, putative transporter; Validated. Length = 552 Score = 28.3 bits (64), Expect = 3.9 Identities = 9/16 (56%), Positives = 11/16 (68%) Query: 235 VMEGLFCGETINTPSL 250 VM G+F G NTP+L Sbjct: 121 VMLGIFSGAVTNTPAL 136 >gnl|CDD|151884 pfam11445, DUF2894, Protein of unknown function (DUF2894). This is a bacterial family of uncharacterized proteins. Length = 193 Score = 28.1 bits (63), Expect = 4.3 Identities = 7/13 (53%), Positives = 11/13 (84%) Query: 256 YIDALLWLKKMGG 268 Y+DAL WL+++ G Sbjct: 179 YVDALSWLEQLAG 191 >gnl|CDD|161743 TIGR00174, miaA, tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine. Length = 287 Score = 28.1 bits (63), Expect = 4.5 Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 4/54 (7%) Query: 229 MVKGGRVME--GLFC-GETINTPSLLCIEDYIDALLWLKKMGGLSACVERCNAN 279 M++ G + E L+ + + PS+ I Y + LL+L+ L +ER N Sbjct: 209 MLESGLLAEVKALYAQYDLCDLPSIQAI-GYKEFLLYLEGTVSLEDAIERIKCN 261 >gnl|CDD|185067 PRK15112, PRK15112, antimicrobial peptide ABC system ATP-binding protein SapF; Provisional. Length = 267 Score = 27.8 bits (62), Expect = 5.5 Identities = 12/32 (37%), Positives = 18/32 (56%) Query: 312 IVDSDIASLDINSQKSFCKSMLSFLEKEEIAY 343 I D +ASLD++ + ML EK+ I+Y Sbjct: 172 IADEALASLDMSMRSQLINLMLELQEKQGISY 203 >gnl|CDD|148155 pfam06378, DUF1071, Protein of unknown function (DUF1071). This family consists of several hypothetical bacterial and phage proteins of unknown function. Length = 162 Score = 27.4 bits (61), Expect = 6.4 Identities = 12/31 (38%), Positives = 14/31 (45%), Gaps = 3/31 (9%) Query: 338 KEEIAYDIGS---YRDAPLGLRVWVGVTVEK 365 KE D+ + Y D G V V VTVE Sbjct: 46 KEFDHPDVRTENYYLDTETGYFVEVSVTVEG 76 >gnl|CDD|181080 PRK07680, PRK07680, late competence protein ComER; Validated. Length = 273 Score = 27.2 bits (61), Expect = 7.3 Identities = 10/17 (58%), Positives = 12/17 (70%) Query: 203 IIILSPASVERLEKYVP 219 + I SP SVE+LE VP Sbjct: 93 VSITSPISVEQLETLVP 109 >gnl|CDD|131034 TIGR01979, sufS, cysteine desulfurases, SufS subfamily. This model represents a subfamily of NifS-related cysteine desulfurases involved in FeS cluster formation needed for nitrogen fixation among other vital functions. Many cysteine desulfurases are also active as selenocysteine lyase and/or cysteine sulfinate desulfinase. This subfamily is associated with the six-gene SUF system described in E. coli and Erwinia as an FeS cluster formation system during oxidative stress. The active site Cys is this subfamily resembles GHHC with one or both His conserved. Length = 403 Score = 27.2 bits (61), Expect = 7.7 Identities = 13/54 (24%), Positives = 19/54 (35%), Gaps = 4/54 (7%) Query: 147 TSGVCVP--DVGFIPESREGLVICDATSAVFARHIDFNKLDV--VTFSAQKVLG 196 G P ++ + V+ D AV +D LD FS K+ G Sbjct: 171 VLGTVNPVEEIAKLAHQVGAKVLVDGAQAVPHMPVDVQALDCDFYVFSGHKMYG 224 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 0.323 0.140 0.437 Gapped Lambda K H 0.267 0.0698 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 6,630,244 Number of extensions: 433694 Number of successful extensions: 720 Number of sequences better than 10.0: 1 Number of HSP's gapped: 709 Number of HSP's successfully gapped: 33 Length of query: 391 Length of database: 5,994,473 Length adjustment: 95 Effective length of query: 296 Effective length of database: 3,941,713 Effective search space: 1166747048 Effective search space used: 1166747048 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 58 (26.2 bits)