RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780902|ref|YP_003065315.1| isocitrate dehydrogenase [Candidatus Liberibacter asiaticus str. psy62] (412 letters) >gnl|CDD|181365 PRK08299, PRK08299, isocitrate dehydrogenase; Validated. Length = 402 Score = 858 bits (2219), Expect = 0.0 Identities = 301/402 (74%), Positives = 348/402 (86%) Query: 1 MKKIKVTKPVVSLDGDEMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLTDDQVTIDA 60 M KIKV PVV LDGDEMTRIIW+ I++ LI PYLDI +EY+DL I+NRD TDDQVTIDA Sbjct: 1 MAKIKVKNPVVELDGDEMTRIIWKFIKDKLILPYLDIDLEYYDLGIENRDATDDQVTIDA 60 Query: 61 AHAIKNCGVGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIFREPIICSNVPRL 120 A+AIK GVG+KCATIT D+ARVKEFNLKKMWKSPNGTIRNILGG +FREPIIC NVPRL Sbjct: 61 ANAIKKYGVGVKCATITPDEARVKEFNLKKMWKSPNGTIRNILGGTVFREPIICKNVPRL 120 Query: 121 IPGWKKPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDGQTIEKEVFDSPGSGIAMAM 180 +PGW KPI+IGRHA+GDQYRATDF+ P KGKL L F G+DG+ IE EV D PG+G+AM M Sbjct: 121 VPGWTKPIVIGRHAYGDQYRATDFKVPGKGKLTLVFTGEDGEPIEHEVHDFPGAGVAMGM 180 Query: 181 YNLDDSIRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQFDEL 240 YNLD+SIR+FARA+ Y L R+ P+YLSTK+TILK+YDGRFK+IF E++EAEFK +F+ Sbjct: 181 YNLDESIRDFARASFNYGLDRKYPVYLSTKNTILKAYDGRFKDIFQEVYEAEFKEKFEAA 240 Query: 241 GITYTHRLIDDMVASSIKWSGGYIWACKNYDGDVQSDIVAQGFGSLGLMTSVLITADGKT 300 GITY HRLIDDMVAS++KW GGY+WACKNYDGDVQSD VAQGFGSLGLMTSVL+T DGKT Sbjct: 241 GITYEHRLIDDMVASALKWEGGYVWACKNYDGDVQSDTVAQGFGSLGLMTSVLMTPDGKT 300 Query: 301 METEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAENLERV 360 +E EAAHGTVTRHYRQHQ+G+ETSTN IASIFAWTRGL HR KLD N EL KFA+ LE+V Sbjct: 301 VEAEAAHGTVTRHYRQHQKGEETSTNPIASIFAWTRGLAHRGKLDGNPELVKFADTLEKV 360 Query: 361 CIKTVEDGFMTKDLALLIGPEQDWLSTTDFIEKISDNLRDAL 402 CI+TVE GFMTKDLALL+GP+Q WL+T +F++ I +NL AL Sbjct: 361 CIETVESGFMTKDLALLVGPDQKWLTTEEFLDAIDENLEKAL 402 >gnl|CDD|185615 PTZ00435, PTZ00435, isocitrate dehydrogenase; Provisional. Length = 413 Score = 761 bits (1967), Expect = 0.0 Identities = 279/411 (67%), Positives = 330/411 (80%), Gaps = 6/411 (1%) Query: 1 MKKIKVTKPVVSLDGDEMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLTDDQVTIDA 60 KIKV PVV LDGDEMTRIIW++I+E LI PYLD+ I+Y+DLSI+NRD TDD+VT+DA Sbjct: 3 GGKIKVKNPVVELDGDEMTRIIWKMIKEKLILPYLDVPIKYYDLSIENRDKTDDKVTVDA 62 Query: 61 AHAIKNCGVGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIFREPIICSNVPRL 120 A AIK VGIKCATIT D+ARVKEFNLKKMWKSPNGTIRNIL G +FREPII N+PRL Sbjct: 63 AEAIKKHKVGIKCATITPDEARVKEFNLKKMWKSPNGTIRNILDGTVFREPIIIKNIPRL 122 Query: 121 IPGWKKPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDG-QTIEKEVFDSPGSGIAMA 179 +PGWKKPI+IGRHAFGDQY+ATDF GKL L F DG + +VFD G G+AM Sbjct: 123 VPGWKKPIVIGRHAFGDQYKATDFVVDGPGKLELVFTPADGSEPQRVDVFDFKGGGVAMG 182 Query: 180 MYNLDDSIRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQFDE 239 MYN D+SI FAR+ QYAL R++PLYLSTK+TILK YDGRFK+IF EI++ E+K +F++ Sbjct: 183 MYNTDESIEGFARSCFQYALDRKMPLYLSTKNTILKKYDGRFKDIFQEIYDEEYKAKFEK 242 Query: 240 LGITYTHRLIDDMVASSIKWSGGYIWACKNYDGDVQSDIVAQGFGSLGLMTSVLITADGK 299 G+ Y HRLIDDMVA +IK GG++WACKNYDGDVQSDIVAQG+GSLGLMTSVL+ DGK Sbjct: 243 AGLWYEHRLIDDMVAQAIKSEGGFVWACKNYDGDVQSDIVAQGYGSLGLMTSVLVCPDGK 302 Query: 300 TMETEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAENLER 359 T+E EAAHGTVTRHYRQHQ+GKETSTNSIASIFAWTRGL HRAKLD N EL KF + LER Sbjct: 303 TVEAEAAHGTVTRHYRQHQKGKETSTNSIASIFAWTRGLAHRAKLDNNQELVKFCQALER 362 Query: 360 VCIKTVEDGFMTKDLALLIG-----PEQDWLSTTDFIEKISDNLRDALQKN 405 CI+T+E GFMTKDLA+ + D+L+T +FI+K+++ L+ L Sbjct: 363 SCIETIEAGFMTKDLAICVHGSSKVTRSDYLNTEEFIDKVAEKLKKKLGAL 413 >gnl|CDD|178617 PLN03065, PLN03065, isocitrate dehydrogenase (NADP+); Provisional. Length = 483 Score = 648 bits (1672), Expect = 0.0 Identities = 260/408 (63%), Positives = 324/408 (79%), Gaps = 5/408 (1%) Query: 3 KIKVTKPVVSLDGDEMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLTDDQVTIDAAH 62 +IKV P+V +DGDEMTR+IWQ+I++ LI PYLD+ I+YFDL I NRD TDD+VT+++A Sbjct: 73 RIKVQNPIVEMDGDEMTRVIWQMIKDKLIFPYLDLDIKYFDLGILNRDATDDKVTVESAE 132 Query: 63 AIKNCGVGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIFREPIICSNVPRLIP 122 A V IKCATIT D+ARVKEF LK MW+SPNGTIRNIL G +FREPI+C N+PRL+P Sbjct: 133 ATLKYNVAIKCATITPDEARVKEFGLKSMWRSPNGTIRNILNGTVFREPILCKNIPRLVP 192 Query: 123 GWKKPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDGQT-IEKEVFDSPGSGIAMAMY 181 GWKKPI IGRHAFGDQYRATD GKL + FV +DG +E +V+D G G+A+AMY Sbjct: 193 GWKKPICIGRHAFGDQYRATDTVIKGPGKLKMVFVPEDGNAPVELDVYDFKGPGVALAMY 252 Query: 182 NLDDSIRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQFDELG 241 N+D+SIR FA ++M AL ++ PLYLSTK+TILK YDGRFK+IF E++E ++K +F+E Sbjct: 253 NVDESIRAFAESSMAMALQKKWPLYLSTKNTILKKYDGRFKDIFQEVYEEQWKQKFEEHS 312 Query: 242 ITYTHRLIDDMVASSIKWSGGYIWACKNYDGDVQSDIVAQGFGSLGLMTSVLITADGKTM 301 I Y HRLIDDMVA ++K GGY+WACKNYDGDVQSD++AQGFGSLGLMTSVL+++DGKT+ Sbjct: 313 IWYEHRLIDDMVAYAVKSEGGYVWACKNYDGDVQSDLLAQGFGSLGLMTSVLLSSDGKTL 372 Query: 302 ETEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAENLERVC 361 E EAAHGTVTRH+R HQ+G+ETSTNSIASIFAWTRGL HRAKLD+N EL F LE C Sbjct: 373 EAEAAHGTVTRHFRLHQKGQETSTNSIASIFAWTRGLEHRAKLDKNEELLDFVHKLESAC 432 Query: 362 IKTVEDGFMTKDLALLI-GPE---QDWLSTTDFIEKISDNLRDALQKN 405 I+TVE G MTKDLA+LI GP+ + +L+T +FI+ ++ L + Sbjct: 433 IETVESGKMTKDLAILIHGPKVSREFYLNTEEFIDAVAQTLATKRGEP 480 >gnl|CDD|129233 TIGR00127, nadp_idh_euk, isocitrate dehydrogenase, NADP-dependent, eukaryotic type. This model does not discriminate cytosolic, mitochondrial, and chloroplast proteins. However, the model starts very near the amino end of the cytosolic form; the finding of additional amino-terminal sequence may indicate a transit peptide. Length = 409 Score = 634 bits (1636), Expect = 0.0 Identities = 268/404 (66%), Positives = 324/404 (80%), Gaps = 6/404 (1%) Query: 2 KKIKVTKPVVSLDGDEMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLTDDQVTIDAA 61 KIKV PVV +DGDEMTRIIW+LI++ LI PY+++ ++Y+DL ++ RD T+DQVT+DAA Sbjct: 1 SKIKVANPVVEMDGDEMTRIIWELIKDKLILPYVELDLKYYDLGVEYRDATNDQVTVDAA 60 Query: 62 HAIKNCGVGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIFREPIICSNVPRLI 121 AIK VG+KCATIT D+ARV+EF LKKMWKSPNGTIRNILGG +FREPIIC N+PRL+ Sbjct: 61 EAIKKYNVGVKCATITPDEARVEEFKLKKMWKSPNGTIRNILGGTVFREPIICKNIPRLV 120 Query: 122 PGWKKPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDG-QTIEKEVFDSPGSG-IAMA 179 PGW+KPIIIGRHAFGDQYRATDF P GKL L + DG Q + +V+D G +AMA Sbjct: 121 PGWEKPIIIGRHAFGDQYRATDFVVPGPGKLELVYKPKDGTQKVTLKVYDFEEGGGVAMA 180 Query: 180 MYNLDDSIRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQFDE 239 MYN D+SI FA ++ Q AL ++ PLYLSTK+TILK YDGRFK+IF E++EA++K++F+ Sbjct: 181 MYNTDESIEGFAHSSFQLALEKKWPLYLSTKNTILKKYDGRFKDIFQEVYEAQYKSKFEA 240 Query: 240 LGITYTHRLIDDMVASSIKWSGGYIWACKNYDGDVQSDIVAQGFGSLGLMTSVLITADGK 299 LGI Y HRLIDDMVA ++K GG+IWACKNYDGDVQSDIVAQGFGSLGLMTSVLI DGK Sbjct: 241 LGIWYEHRLIDDMVAQALKSEGGFIWACKNYDGDVQSDIVAQGFGSLGLMTSVLICPDGK 300 Query: 300 TMETEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAENLER 359 T E EAAHGTVTRHYR +Q+G+ETSTNSIASIFAW+RGL HRAKLD N EL KFA LE Sbjct: 301 TFEAEAAHGTVTRHYRMYQKGQETSTNSIASIFAWSRGLAHRAKLDNNPELSKFANILES 360 Query: 360 VCIKTVEDGFMTKDLALLIG----PEQDWLSTTDFIEKISDNLR 399 CI TVE G MTKDLAL++G +L+T +FI+ + + L+ Sbjct: 361 ACINTVEAGIMTKDLALILGGSPVERSAYLNTEEFIDAVEERLK 404 >gnl|CDD|177720 PLN00103, PLN00103, isocitrate dehydrogenase (NADP+); Provisional. Length = 410 Score = 629 bits (1624), Expect = 0.0 Identities = 260/406 (64%), Positives = 318/406 (78%), Gaps = 6/406 (1%) Query: 3 KIKVTKPVVSLDGDEMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLTDDQVTIDAAH 62 KIKV P+V +DGDEMTR+IW+ I++ LI P+LD+ I+YFDL + NRD TDD+VT+++A Sbjct: 5 KIKVANPIVEMDGDEMTRVIWKSIKDKLIFPFLDLDIKYFDLGLPNRDATDDKVTVESAE 64 Query: 63 AIKNCGVGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIFREPIICSNVPRLIP 122 A V IKCATIT D+ARVKEF LK+MWKSPNGTIRNIL G +FREPIIC N+PRL+P Sbjct: 65 ATLKYNVAIKCATITPDEARVKEFGLKQMWKSPNGTIRNILNGTVFREPIICKNIPRLVP 124 Query: 123 GWKKPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDD-GQTIEKEVFDSPGS-GIAMAM 180 GW KPI IGRHAFGDQYRATD GKL L FV + + E EV++ G+ G+A++M Sbjct: 125 GWTKPICIGRHAFGDQYRATDAVIKGPGKLKLVFVPEGKDEKTELEVYNFTGAGGVALSM 184 Query: 181 YNLDDSIRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQFDEL 240 YN D+SIR FA A+M A ++ PLYLSTK+TILK YDGRFK+IF E++EA++K++F+ Sbjct: 185 YNTDESIRAFAEASMNTAYQKKWPLYLSTKNTILKKYDGRFKDIFQEVYEAQWKSKFEAA 244 Query: 241 GITYTHRLIDDMVASSIKWSGGYIWACKNYDGDVQSDIVAQGFGSLGLMTSVLITADGKT 300 GI Y HRLIDDMVA ++K GGY+WACKNYDGDVQSD +AQGFGSLGLMTSVL+ DGKT Sbjct: 245 GIWYEHRLIDDMVAYALKSEGGYVWACKNYDGDVQSDFLAQGFGSLGLMTSVLVCPDGKT 304 Query: 301 METEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAENLERV 360 +E EAAHGTVTRHYR HQ+G ETSTNSIASIFAW+RGL HRAKLD NA L F E LE Sbjct: 305 IEAEAAHGTVTRHYRVHQKGGETSTNSIASIFAWSRGLAHRAKLDGNARLLDFTEKLEAA 364 Query: 361 CIKTVEDGFMTKDLALLI-GPE---QDWLSTTDFIEKISDNLRDAL 402 C+ TVE G MTKDLALLI GP+ +L+T +FI+ +++ L+ L Sbjct: 365 CVGTVESGKMTKDLALLIHGPKVSRDQYLNTEEFIDAVAEELKARL 410 >gnl|CDD|177715 PLN00096, PLN00096, isocitrate dehydrogenase (NADP+); Provisional. Length = 393 Score = 166 bits (422), Expect = 7e-42 Identities = 132/405 (32%), Positives = 193/405 (47%), Gaps = 28/405 (6%) Query: 10 VVSLDGDEMTRIIWQLIQENLIHPYLDI-KIEYFDLSIQNRDLTDDQVTIDAAHAIKNCG 68 +V + G+EMTR LI I P++D E+FDL +NRD T+DQV D A Sbjct: 1 MVYVAGEEMTRYTMDLILAKWIEPHVDTSAWEFFDLRAKNRDDTEDQVLRDVIEAGARLK 60 Query: 69 VGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGI-IFREPIICSNVPRLIPGWKKP 127 K TIT +VK LKK W SPNG +R GI I R+ I V G+KKP Sbjct: 61 AIFKEPTITPTADQVKRLGLKKAWGSPNGAMRRGWNGITISRDTIHIDGVEL---GYKKP 117 Query: 128 IIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDG----QTIEKEVFDSPGSGIAMAMYNL 183 + RHA G +Y A ++ KG L+ FV ++G ++ + D + + +N Sbjct: 118 VFFERHAVGGEYSA-GYKIVGKGTLVTTFVPEEGGKPIVVDDRTITDDLNA--VVTYHNP 174 Query: 184 DDSIRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQFDELGIT 243 D++ + AR L + Y+ TK T+ K + F I ++F+ EFK++F + G+ Sbjct: 175 LDNVHHLARIFFGRCLDAGIVPYVVTKKTVFK-WQEPFWEIMKKVFDEEFKSKFVDKGVM 233 Query: 244 -----YTHRLIDDMVASSIKWS-GGYIWACKNYDGDVQSDIVAQGFGSLGLMTSVLITAD 297 H L D + W+ GG+ A NYDGDV +D +AQ S G +TS L+ D Sbjct: 234 KSGDELVHLLSDAATMKLVVWTDGGFGMAAHNYDGDVLTDELAQVHKSPGFITSNLVGVD 293 Query: 298 GK---TMETEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAE-LKKF 353 E EA+HGTVT +G+ETS N + + + H A + E + F Sbjct: 294 ENGTLIKEFEASHGTVTDMDEARLRGEETSLNPLGMVEGLIGAMNHAADVHGGKERVHPF 353 Query: 354 AENLERVCIKTVEDGFMTKDLALLIGPEQDWLSTTDFIEKISDNL 398 L V K +G T+DL G L+T FI+ +++ L Sbjct: 354 TAKLRAVIHKLFREGRGTRDLC---GAGG--LTTEQFIDAVAEEL 393 >gnl|CDD|161740 TIGR00169, leuB, 3-isopropylmalate dehydrogenase. This model will not find all isopropylmalate dehydrogenases; the enzyme from Sulfolobus sp. strain 7 is more similar to mitochondrial NAD-dependent isocitrate dehydrogenases than to other known isopropylmalate dehydrogenases and was omitted to improve the specificity of the model. It scores below the cutoff and below some enzymes known not to be isopropylmalate dehydrogenase. Length = 349 Score = 51.3 bits (123), Expect = 5e-07 Identities = 54/219 (24%), Positives = 88/219 (40%), Gaps = 30/219 (13%) Query: 158 GDDGQTIEKEVFDSPGSGIAMAMYNLDDSIRNFARAAMQYALARQLPLYLSTKDTILKSY 217 G G E E +D+ +Y + I AR A + A R+ + K +L+S Sbjct: 144 GRFGAGGEGEAWDT-------EVYTKPE-IERIARVAFEMARKRRKKVTSVDKANVLES- 194 Query: 218 DGRFKNIFNEIFEAEFKNQFDELGITYTHRLIDDMVASSIKWSGGY-IWACKNYDGDVQS 276 R + + E K D + H+ ID+ +K + + N GD+ S Sbjct: 195 -SRL---WRKTVEEIAKEYPD---VELEHQYIDNAAMQLVKSPTQFDVVVTGNIFGDILS 247 Query: 277 DIVAQGFGSLGLMTSVLITADGKTMETEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTR 336 D + GSLG++ S + +DG + E HG+ GK + N IA I + Sbjct: 248 DEASVIPGSLGMLPSASLGSDGFGLF-EPVHGSAP-----DIAGKGIA-NPIAQILSAAM 300 Query: 337 GLLHRAKLDENAELKKFAENLERVCIKTVEDGFMTKDLA 375 L + L+E A+ +E K + +G+ T DL Sbjct: 301 MLRYSFNLEEAADA------IEAAVKKVLAEGYRTPDLG 333 >gnl|CDD|163075 TIGR02924, ICDH_alpha, isocitrate dehydrogenase. This family of mainly alphaproteobacterial enzymes is a member of the isocitrate/isopropylmalate dehydrogenase superfamily described by pfam00180. Every member of the seed of this model appears to have a TCA cycle lacking only a determined isocitrate dehydrogenase. The precise identity of the cofactor (NADH -- 1.1.1.41 vs. NADPH -- 1.1.1.42) is unclear. Length = 473 Score = 49.0 bits (117), Expect = 2e-06 Identities = 53/192 (27%), Positives = 85/192 (44%), Gaps = 26/192 (13%) Query: 209 TKDTILKSYDGRFKNIFNEIFEAEFKNQFDELGITYTHRLIDDMVASSIKWSGGY-IWAC 267 TKD I+K DG F IF++I AE+ + I H ++D +A + + Sbjct: 170 TKDNIMKMTDGIFHKIFDKI-AAEYPD------IESEHYIVDIGMARLATNPENFDVIVT 222 Query: 268 KNYDGDVQSDIVAQGFGSLGLMTSVLITADGKTMETEAAHGTVTRHYRQHQQGKETSTNS 327 N GD+ SD+ A+ GS+GL S I + EA HG+ G+ + S Sbjct: 223 PNLYGDILSDVAAEISGSVGLAGSANIGEEYAMF--EAVHGSAPD-----IAGQNIANPS 275 Query: 328 IASIFAWTRGLLHRA-KLDENAELKKFAENLERVCIKTVEDGFMTKDLALLIGPEQDWLS 386 GLL+ A ++ + A+ + +KT+EDG T D+ +Q + Sbjct: 276 ---------GLLNAAIQMLVHIGQSDIAQLIYNAWLKTLEDGVHTADIYNEKTSKQK-VG 325 Query: 387 TTDFIEKISDNL 398 T +F E ++ NL Sbjct: 326 TKEFAEAVTANL 337 >gnl|CDD|162693 TIGR02088, LEU3_arch, isopropylmalate/isohomocitrate dehydrogenases. This family is closely related to both the LeuB genes found in TIGR00169 and the mitochondrial eukaryotic isocitrate dehydratases found in TIGR00175. All of these are included within the broader subfamily model, pfam00180. Length = 322 Score = 46.7 bits (111), Expect = 1e-05 Identities = 36/124 (29%), Positives = 50/124 (40%), Gaps = 13/124 (10%) Query: 188 RNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQFDELGITYTHR 247 AR A A R + K +LK DG F+ + EI + G+ Y Sbjct: 144 ERIARFAFNLAKERNRKVTCVHKANVLKGTDGLFREVCREIAKRY--------GVEYRDM 195 Query: 248 LIDDMVASSIK--WSGGYIWACKNYDGDVQSDIVAQGFGSLGLMTSVLITADGKTMETEA 305 +D + +K W I N GD+ SD+ + GSLGL S I D K + E Sbjct: 196 YVDSAAMNLVKDPWRFDVI-VTTNMFGDILSDLASALAGSLGLAPSANI-GDRKAL-FEP 252 Query: 306 AHGT 309 HG+ Sbjct: 253 VHGS 256 >gnl|CDD|177731 PLN00118, PLN00118, isocitrate dehydrogenase (NAD+). Length = 372 Score = 43.7 bits (103), Expect = 8e-05 Identities = 53/191 (27%), Positives = 80/191 (41%), Gaps = 30/191 (15%) Query: 210 KDTILKSYDGRFKNIFNEIFEAEFKNQFDELGITYTHRLIDDMVASSIKWSGGY-IWACK 268 K I+K DG F E+ E ++ E I Y +ID+ +K + + Sbjct: 210 KANIMKKTDGLFLKCCREVAE-----KYPE--IVYEEVIIDNCCMMLVKNPALFDVLVMP 262 Query: 269 NYDGDVQSDIVAQGFGSLGLMTSVLITADGKTMETEAAHGTVTRHYRQHQQGKETSTNSI 328 N GD+ SD+ A G LGL S I +G + EA HG+ GK + N Sbjct: 263 NLYGDIISDLCAGLIGGLGLTPSCNIGENGLAL-AEAVHGSAP-----DIAGKNLA-NPT 315 Query: 329 ASIFAWTRGLLHRAKLDENAELKKFAENLERVCIKTVEDG-FMTKDLALLIGPEQDWLST 387 A + + L H +L + AE + + T+ +G + T DL G +T Sbjct: 316 ALLLSAVMMLRH-------LKLNEQAEQIHNAILNTIAEGKYRTADLG---GSS----TT 361 Query: 388 TDFIEKISDNL 398 TDF + I D+L Sbjct: 362 TDFTKAICDHL 372 >gnl|CDD|161744 TIGR00175, mito_nad_idh, isocitrate dehydrogenase, NAD-dependent, mitochondrial type. The NADP-dependent IDH of Thermus aquaticus thermophilus strain HB8 resembles these NAD-dependent IDH, except for the residues involved in cofactor specificity, much more closely than it resembles other prokaryotic NADP-dependent IDH, including that of Thermus aquaticus strain YT1. Length = 333 Score = 43.9 bits (104), Expect = 8e-05 Identities = 48/211 (22%), Positives = 82/211 (38%), Gaps = 31/211 (14%) Query: 191 ARAAMQYALARQLPLYLST-KDTILKSYDGRFKNIFNEIFEAEFKNQFDELGITYTHRLI 249 AR A +YA + K I+K DG F N+ E+ ++ + IT+ ++ Sbjct: 151 ARYAFEYARKNGRKKVTAVHKANIMKLADGLFLNVCREV-----AKEYPD--ITFESMIV 203 Query: 250 DDMVASSIKWSGGY-IWACKNYDGDVQSDIVAQGFGSLGLMTSVLITADGKTMETEAAHG 308 D+ + + + N G++ S++ A G GL+ I D E Sbjct: 204 DNTCMQLVSRPSQFDVMVMPNLYGNILSNLGAGLVGGPGLVPGANIGRDYAVFEPG---- 259 Query: 309 TVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAENLERVCIKTVEDG 368 RH G+ + N A I + L H LK+ A+ +++ + T+ +G Sbjct: 260 --VRHTGPDIAGQNIA-NPTALILSSVMMLNH-------LGLKEHADRIQKAVLSTIAEG 309 Query: 369 -FMTKDLALLIGPEQDWLSTTDFIEKISDNL 398 TKDL +T+DF E + L Sbjct: 310 KNRTKDLG-------GTATTSDFTEAVIKRL 333 >gnl|CDD|181708 PRK09222, PRK09222, isocitrate dehydrogenase; Validated. Length = 482 Score = 43.3 bits (103), Expect = 1e-04 Identities = 59/212 (27%), Positives = 87/212 (41%), Gaps = 66/212 (31%) Query: 209 TKDTILKSYDGRFKNIFNEIFEAEFKNQFDELGITYTHRLIDDMVASSIKWSGGYIWACK 268 TKD I+K DG F +F+EI E+ + I H ++D I A + Sbjct: 174 TKDNIMKLTDGLFHKVFDEI-AKEYPD------IEAEHYIVD-------------IGAAR 213 Query: 269 ------NYD--------GDVQSDIVAQGFGSLGLMTSVLITADGKTMETEAAHGTVTRHY 314 N+D GD+ SDI A+ GS+GL S I + M EA HG+ Sbjct: 214 LATNPENFDVIVTPNLYGDILSDIAAEISGSVGLAGSANI-GEEYAM-FEAVHGSAPD-- 269 Query: 315 RQHQQGKETSTNSIASIFAWTRGLLHRA-------KLDENAELKKFAENLERVCIKTVED 367 GK + S GLL+ A + AEL +E +KT+ED Sbjct: 270 ---IAGKNIANPS---------GLLNAAVMMLVHIGQFDIAEL------IENAWLKTLED 311 Query: 368 GFMTKDL-ALLIGPEQDWLSTTDFIEKISDNL 398 G T D+ + ++ + T +F E + +NL Sbjct: 312 GIHTADIYNEGVSKKK--VGTKEFAEAVIENL 341 >gnl|CDD|161750 TIGR00183, prok_nadp_idh, isocitrate dehydrogenase, NADP-dependent, prokaryotic type. Prokaryotic NADP-dependent isocitrate dehydrogenases resemble their NAD-dependent counterparts and 3-isopropylmalate dehydrogenase (an NAD-dependent enzyme) more closely than they resemble eukaryotic NADP-dependent isocitrate dehydrogenases. Length = 416 Score = 42.5 bits (100), Expect = 2e-04 Identities = 52/222 (23%), Positives = 91/222 (40%), Gaps = 31/222 (13%) Query: 192 RAAMQYALARQLP-LYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQF--DELGITYTHR- 247 RAA++YA+ + L K I+K +G F++ E+ + EF + L Y + Sbjct: 211 RAAIEYAIENDRKSVTLVHKGNIMKFTEGAFRDWGYELAKKEFGAECITWGLWDKYKNPN 270 Query: 248 -----LIDDMVASSI------KWSGGYIWACKNYDGDVQSDIVAQGFGSLGLMTSVLITA 296 +I D +A + + + A N +GD SD +A G +G+ I Sbjct: 271 PGKEIVIKDRIADAFLQQILTRPDEYDVIATMNLNGDYISDALAAQVGGIGIAPGANI-G 329 Query: 297 DGKTMETEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAEN 356 D + EA HGT ++ Q + N + I + L H + +KK E Sbjct: 330 DEIGI-FEATHGTAPKYAGQDK------VNPGSIILSGEMMLEHMGWKEAADLIKKAME- 381 Query: 357 LERVCIKTVEDGFMTKDLALLIGPEQDWLSTTDFIEKISDNL 398 K + +T D A L+ ++ + ++F E I +N+ Sbjct: 382 ------KAIASKIVTYDFARLMDGAKE-VKCSEFAEAIIENM 416 >gnl|CDD|179119 PRK00772, PRK00772, 3-isopropylmalate dehydrogenase; Provisional. Length = 358 Score = 35.1 bits (82), Expect = 0.032 Identities = 49/230 (21%), Positives = 87/230 (37%), Gaps = 54/230 (23%) Query: 187 IRNFARAAMQYALARQLPLYLSTKDTILKSYDGRF-KNIFNEIFEAEFKNQFDELGITYT 245 I AR A + A R+ + K +L+S R + + E+ E+ + + + Sbjct: 168 IERIARVAFELARKRRKKVTSVDKANVLES--SRLWREVVTEV-AKEYPD------VELS 218 Query: 246 HRLIDDMVASSIKWSGGYIWACKNYD--------GDVQSDIVAQGFGSLGLMTSVLITAD 297 H +D+ ++ K +D GD+ SD A GSLG++ S + Sbjct: 219 HMYVDNAAMQLVRNP-------KQFDVIVTENLFGDILSDEAAMLTGSLGMLPSASLGES 271 Query: 298 GKTMETEAAHGT------VTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELK 351 G + E HG+ +G N IA+I + ++ R L Sbjct: 272 GPGL-YEPIHGSAPDIAG---------KGI---ANPIATI--LSAAMMLRYSLGLEEA-- 314 Query: 352 KFAENLERVCIKTVEDGFMTKDLALLIGPEQDWLSTTDFIEKISDNLRDA 401 A+ +E K + G+ T D+A G +ST++ + I L + Sbjct: 315 --ADAIEAAVEKVLAQGYRTADIAEGGGK----VSTSEMGDAILAALAEG 358 >gnl|CDD|184462 PRK14025, PRK14025, multifunctional 3-isopropylmalate dehydrogenase/D-malate dehydrogenase; Provisional. Length = 330 Score = 33.2 bits (76), Expect = 0.15 Identities = 51/190 (26%), Positives = 70/190 (36%), Gaps = 30/190 (15%) Query: 210 KDTILKSYDGRFKNIFNEIFEAEFKNQFDELGITYTHRLIDDMVASSIKWSGGY-IWACK 268 K +LK DG FK F E+ + + I +D M I + + Sbjct: 170 KANVLKKTDGLFKKTFYEVAK-------EYPDIKAEDYYVDAMNMYIITRPQTFDVVVTS 222 Query: 269 NYDGDVQSDIVAQGFGSLGLMTSVLITADGKTMETEAAHGTVTRHYRQHQQGKETSTNSI 328 N GD+ SD A G LGL S I K E HG+ GK + N Sbjct: 223 NLFGDILSDGAAGLVGGLGLAPSANIGD--KYGLFEPVHGSAP-----DIAGKGIA-NPT 274 Query: 329 ASIFAWTRGLLHRAKLDENAELKKFAENLERVCIKTVEDGFMTKDLALLIGPEQDWLSTT 388 A+I L H L EN E K + LE + + G T DL LST Sbjct: 275 ATILTAVLMLRH---LGENEEADKVEKALE----EVLALGLTTPDLG-------GNLSTM 320 Query: 389 DFIEKISDNL 398 + E+++ + Sbjct: 321 EMAEEVAKRV 330 >gnl|CDD|180792 PRK07006, PRK07006, isocitrate dehydrogenase; Reviewed. Length = 409 Score = 32.7 bits (75), Expect = 0.19 Identities = 35/138 (25%), Positives = 61/138 (44%), Gaps = 27/138 (19%) Query: 192 RAAMQYALARQLP-LYLSTKDTILKSYDGRFKNIFNEIFEAEFK------NQFDELGITY 244 RAA++YA+ + L K I+K +G FK+ ++ E EF +D++ Sbjct: 204 RAAIEYAIDNDRKSVTLVHKGNIMKFTEGAFKDWGYQLAEEEFGDELIDGGPWDKIKNPE 263 Query: 245 THR--LIDDMVASS------IKWSGGYIWACKNYDGDVQSDIVAQGFGSLGLMTSVLITA 296 T + ++ D +A + ++ + + A N +GD SD +A G +G+ A Sbjct: 264 TGKEIIVKDSIADAFLQQILLRPAEYDVIATMNLNGDYISDALAAQVGGIGI-------A 316 Query: 297 DGKTMET-----EAAHGT 309 G + EA HGT Sbjct: 317 PGANINDGHAIFEATHGT 334 >gnl|CDD|151641 pfam11199, DUF2891, Protein of unknown function (DUF2891). This is a bacterial family of uncharacterized proteins. Length = 324 Score = 29.5 bits (67), Expect = 1.5 Identities = 7/16 (43%), Positives = 8/16 (50%) Query: 189 NFARAAMQYALARQLP 204 N +RA LA LP Sbjct: 267 NLSRAWCLRGLASALP 282 >gnl|CDD|117061 pfam08484, Methyltransf_14, C-methyltransferase. This domain is found in bacterial C-methyltransferase proteins, often together with other methyltransferase domains such as pfam08241 or pfam08242. Length = 169 Score = 29.5 bits (67), Expect = 1.6 Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 4/57 (7%) Query: 307 HGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAENLERVCIK 363 HG R H+ + + S+A + A A L+ A + FAE +E+V + Sbjct: 13 HGGSLRVTLAHEGSRHPVSASVAELLARET----AAGLNTIATYEAFAERIEQVRDE 65 >gnl|CDD|152710 pfam12275, DUF3616, Protein of unknown function (DUF3616). This family of proteins is found in bacteria. Proteins in this family are typically between 335 and 392 amino acids in length. There is a conserved GLRGPV sequence motif. Length = 331 Score = 28.9 bits (65), Expect = 2.3 Identities = 13/36 (36%), Positives = 17/36 (47%) Query: 150 GKLILKFVGDDGQTIEKEVFDSPGSGIAMAMYNLDD 185 G L L +G+DG+ K D G GI + DD Sbjct: 208 GLLKLAKLGEDGKLYRKHFLDLGGLGIRDLCISGDD 243 >gnl|CDD|180944 PRK07362, PRK07362, isocitrate dehydrogenase; Validated. Length = 474 Score = 28.9 bits (65), Expect = 2.4 Identities = 45/159 (28%), Positives = 63/159 (39%), Gaps = 33/159 (20%) Query: 248 LIDDMVASSI---------KWSGGYIWACKNYDGDVQSDIVAQGFGSLGLMTSVLITADG 298 L+DD +A SI ++S I A N +GD SD A G LG+ I G Sbjct: 333 LVDDRIADSIFQQIQTRPQEYS---ILATLNLNGDYISDAAAAIVGGLGMAPGANI---G 386 Query: 299 KTMET-EAAHGTVTRHYRQHQQGKETSTNSI--ASIFAWTRGLLHRAKLDENAELKKFAE 355 EA HGT +H + I S+ +L E A+L + Sbjct: 387 DNAAIFEATHGTAPKH---------AGLDRINPGSVILSGVMMLEYLGWQEAADLIT--K 435 Query: 356 NLERVCIKTVEDGFMTKDLALLIGPEQDWLSTTDFIEKI 394 L + + +T DLA L+ P D LS ++F E I Sbjct: 436 GLS----AAIANKQVTYDLARLMEPPVDPLSCSEFAEAI 470 >gnl|CDD|162685 TIGR02073, PBP_1c, penicillin-binding protein 1C. This subfamily of the penicillin binding proteins includes the member from E. coli designated penicillin-binding protein 1C. Members have both transglycosylase and transpeptidase domains and are involved in forming cross-links in the late stages of peptidoglycan biosynthesis. All members of this subfamily are presumed to have the same basic function. Length = 727 Score = 27.8 bits (62), Expect = 5.7 Identities = 8/30 (26%), Positives = 13/30 (43%) Query: 140 RATDFQFPSKGKLILKFVGDDGQTIEKEVF 169 ++ + P+ G L V DDG+ F Sbjct: 696 QSILWWPPAPGFYRLSVVDDDGRIDTLVFF 725 >gnl|CDD|152739 pfam12304, BCLP, Beta-casein like protein. This protein is found in eukaryotes. Proteins in this family are typically between 216 to 240 amino acids in length. This protein has two conserved sequence motifs: VLR and TRIY. BCLP is associated with cell morphology and a regulation of growth pattern of tumor. It is found in adenocarcinomas of uterine cervical tissues. Length = 188 Score = 27.7 bits (62), Expect = 5.9 Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%) Query: 307 HGTVTRHYRQHQQGKETSTNSIASIFAWTRGLL 339 HGTV RH Q T +++I + T GLL Sbjct: 22 HGTVLRHVAVLQDA-VTLQYCVSNIISVTSGLL 53 >gnl|CDD|162194 TIGR01079, rplX_bact, ribosomal protein L24, bacterial/organelle. This model recognizes bacterial and organellar forms of ribosomal protein L24. It excludes eukaryotic and archaeal forms, designated L26 in eukaryotes. Length = 104 Score = 27.6 bits (62), Expect = 6.7 Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 2/54 (3%) Query: 79 DQARVKEFNLKKMWKSPNGTIRNILGGIIFRE-PIICSNVPRLIPGWKKPIIIG 131 ++ V+ N+ K P T R+ GGII +E PI SNV P K +G Sbjct: 32 NKVIVEGVNMVKKHVKPKPTQRS-QGGIIEKEAPIHISNVMLFDPKTGKATRVG 84 >gnl|CDD|177963 PLN02329, PLN02329, 3-isopropylmalate dehydrogenase. Length = 409 Score = 27.3 bits (60), Expect = 8.3 Identities = 27/106 (25%), Positives = 47/106 (44%), Gaps = 13/106 (12%) Query: 269 NYDGDVQSDIVAQGFGSLGLMTSVLITADGKTMETEAAHGTVTRHYRQHQQGKETSTNSI 328 N GD+ SD + GS+G++ S + G + E HG+ Q + N + Sbjct: 288 NIFGDILSDEASMITGSIGMLPSASLGESGPGL-FEPIHGSAPDIAGQDK------ANPL 340 Query: 329 ASIFAWTRGLLHRAKLDENAELKKFAENLERVCIKTVEDGFMTKDL 374 A+I + +L + L E +K A+ +E + + GF T D+ Sbjct: 341 ATIL--SAAMLLKYGLGE----EKAAKRIEDAVVDALNKGFRTGDI 380 >gnl|CDD|149275 pfam08125, Mannitol_dh_C, Mannitol dehydrogenase C-terminal domain. Length = 245 Score = 27.0 bits (60), Expect = 8.8 Identities = 15/45 (33%), Positives = 17/45 (37%), Gaps = 7/45 (15%) Query: 183 LDDSIRNFARAAMQYALARQLPLYLSTKDTILKSYD----GRFKN 223 D IR F M +A L Y L+SY GRF N Sbjct: 103 NDPEIRAFVEKLMLEEVAPLLAKY---PGNDLESYADKIIGRFSN 144 >gnl|CDD|182512 PRK10518, PRK10518, alkaline phosphatase; Provisional. Length = 476 Score = 27.0 bits (60), Expect = 9.4 Identities = 11/26 (42%), Positives = 13/26 (50%), Gaps = 1/26 (3%) Query: 276 SDIVAQGFGSLGLMTSVLITADGKTM 301 S I+A + GL T L T DG M Sbjct: 401 SQIIAPDAKAPGL-TQALNTKDGAVM 425 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 0.320 0.137 0.404 Gapped Lambda K H 0.267 0.0719 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 6,876,439 Number of extensions: 450562 Number of successful extensions: 915 Number of sequences better than 10.0: 1 Number of HSP's gapped: 897 Number of HSP's successfully gapped: 36 Length of query: 412 Length of database: 5,994,473 Length adjustment: 96 Effective length of query: 316 Effective length of database: 3,920,105 Effective search space: 1238753180 Effective search space used: 1238753180 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: 58 (26.1 bits)