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)