RPS-BLAST 2.2.22 [Sep-27-2009]

Database: pdb70 
           24,244 sequences; 5,693,230 total letters

Searching..................................................done

Query= gi|254780902|ref|YP_003065315.1| isocitrate dehydrogenase
[Candidatus Liberibacter asiaticus str. psy62]
         (412 letters)



>1lwd_A Isocitrate dehydrogenase; tricarboxylic acid cycle, oxidoreductase,
           NADP; HET: ICT; 1.85A {Sus scrofa} SCOP: c.77.1.1 PDB:
           1t0l_A* 1t09_A* 3inm_A* 2cmj_A* 2cmv_A*
          Length = 413

 Score =  435 bits (1120), Expect = e-123
 Identities = 257/411 (62%), Positives = 318/411 (77%), Gaps = 7/411 (1%)

Query: 1   MKKIKVTKPVVSLDGDEMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLTDDQVTIDA 60
            ++IKV KPVV +DGDEMTRIIWQ I+E LI P++D++++YFDL + NRD T+DQVTID+
Sbjct: 2   DQRIKVAKPVVEMDGDEMTRIIWQFIKEKLILPHVDVQLKYFDLGLPNRDQTNDQVTIDS 61

Query: 61  AHAIKNCGVGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIFREPIICSNVPRL 120
           A A +   V +KCATIT D+ARV+EF LKKMWKSPNGTIRNILGG +FREPIIC N+PRL
Sbjct: 62  ALATQKYSVAVKCATITPDEARVEEFKLKKMWKSPNGTIRNILGGTVFREPIICKNIPRL 121

Query: 121 IPGWKKPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDGQTIEK-EVFDSPGSGIAMA 179
           +PGW KPI IGRHA GDQY+ATDF     G   + F   DG + ++ EV++ P  G+ M 
Sbjct: 122 VPGWTKPITIGRHAHGDQYKATDFVVDRAGTFKIVFTPKDGSSAKQWEVYNFPAGGVGMG 181

Query: 180 MYNLDDSIRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQFDE 239
           MYN D+SI  FA +  QYA+ ++ PLY+STK+TILK+YDGRFK+IF EIFE  +K  FD+
Sbjct: 182 MYNTDESISGFAHSCFQYAIQKKWPLYMSTKNTILKAYDGRFKDIFQEIFEKHYKTDFDK 241

Query: 240 LGITYTHRLIDDMVASSIKWSGGYIWACKNYDGDVQSDIVAQGFGSLGLMTSVLITADGK 299
             I Y HRLIDDMVA  +K SGG++WACKNYDGDVQSDI+AQGFGSLGLMTSVL+  DGK
Sbjct: 242 YKIWYEHRLIDDMVAQVLKSSGGFVWACKNYDGDVQSDILAQGFGSLGLMTSVLVCPDGK 301

Query: 300 TMETEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAENLER 359
           T+E EAAHGTVTRHYR+HQ+G+ TSTN IASIFAWTRGL HR KLD N +L +FA+ LE+
Sbjct: 302 TIEAEAAHGTVTRHYREHQKGRPTSTNPIASIFAWTRGLEHRGKLDGNQDLIRFAQTLEK 361

Query: 360 VCIKTVEDGFMTKDLALLIG------PEQDWLSTTDFIEKISDNLRDALQK 404
           VC++TVE G MTKDLA  I         + +L+T+DF++ I  NL  AL +
Sbjct: 362 VCVETVESGAMTKDLAGCIHGLSNVKLNEHFLNTSDFLDTIKSNLDRALGR 412


>2qfy_A Isocitrate dehydrogenase [NADP]; rossmann fold, oxidoreductase;
           HET: AKG; 2.10A {Saccharomyces cerevisiae} PDB: 2qfw_A*
           2qfx_A* 2qfv_A*
          Length = 427

 Score =  418 bits (1076), Expect = e-118
 Identities = 252/410 (61%), Positives = 317/410 (77%), Gaps = 6/410 (1%)

Query: 1   MKKIKVTKPVVSLDGDEMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLTDDQVTIDA 60
             KIKV +PVV LDGDEMTRIIW  I++ LI PYLD+ ++Y+DLS+++RD T D++T DA
Sbjct: 16  FSKIKVKQPVVELDGDEMTRIIWDKIKKKLILPYLDVDLKYYDLSVESRDATSDKITQDA 75

Query: 61  AHAIKNCGVGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIFREPIICSNVPRL 120
           A AIK  GVGIKCATIT D+ARVKEFNL KMWKSPNGTIRNILGG +FREPI+   +PRL
Sbjct: 76  AEAIKKYGVGIKCATITPDEARVKEFNLHKMWKSPNGTIRNILGGTVFREPIVIPRIPRL 135

Query: 121 IPGWKKPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDGQTIEKE---VFDSPGSGIA 177
           +P W+KPIIIGRHA GDQY+ATD   P  G L L +   D  T + +   V+D  GSG+A
Sbjct: 136 VPRWEKPIIIGRHAHGDQYKATDTLIPGPGSLELVYKPSDPTTAQPQTLKVYDYKGSGVA 195

Query: 178 MAMYNLDDSIRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQF 237
           MAMYN D+SI  FA ++ + A+ ++L L+LSTK+TILK YDGRFK+IF E++EA++K++F
Sbjct: 196 MAMYNTDESIEGFAHSSFKLAIDKKLNLFLSTKNTILKKYDGRFKDIFQEVYEAQYKSKF 255

Query: 238 DELGITYTHRLIDDMVASSIKWSGGYIWACKNYDGDVQSDIVAQGFGSLGLMTSVLITAD 297
           ++LGI Y HRLIDDMVA  IK  GG+I A KNYDGDVQSDIVAQGFGSLGLMTS+L+T D
Sbjct: 256 EQLGIHYEHRLIDDMVAQMIKSKGGFIMALKNYDGDVQSDIVAQGFGSLGLMTSILVTPD 315

Query: 298 GKTMETEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAENL 357
           GKT E+EAAHGTVTRHYR++Q+G+ETSTNSIASIFAW+RGLL R +LD    L KFA  L
Sbjct: 316 GKTFESEAAHGTVTRHYRKYQKGEETSTNSIASIFAWSRGLLKRGELDNTPALCKFANIL 375

Query: 358 ERVCIKTV-EDGFMTKDLALLIGPEQD--WLSTTDFIEKISDNLRDALQK 404
           E   + TV +DG MTKDLAL  G  +   +++T +F++ +   L+  ++ 
Sbjct: 376 ESATLNTVQQDGIMTKDLALACGNNERSAYVTTEEFLDAVEKRLQKEIKS 425


>2uxq_A Isocitrate dehydrogenase native; psychrophilic, cold adaptation,
           thermal stability, oxidoreductase; HET: SO4 PEG; 1.75A
           {Desulfotalea psychrophila} PDB: 2uxr_A*
          Length = 402

 Score =  368 bits (945), Expect = e-102
 Identities = 186/402 (46%), Positives = 268/402 (66%), Gaps = 2/402 (0%)

Query: 3   KIKVTKPVVSLDGDEMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLTDDQVTIDAAH 62
           KI++  P+V LDGDEMTR++W LI++ L+ P++D++ EY+DL I+ RD T+DQ+TIDAA 
Sbjct: 2   KIQMKTPLVELDGDEMTRVLWPLIKDKLLLPFIDLQTEYYDLGIEERDRTNDQITIDAAE 61

Query: 63  AIKNCGVGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIFREPIICSNVPRLIP 122
           AIK  GVG+K ATIT +Q RV+E+ LK+ WKSPN T+R +L G +FR+PI+  N+   + 
Sbjct: 62  AIKKYGVGVKNATITPNQDRVEEYGLKEQWKSPNATVRAMLDGTVFRKPIMVKNIKPSVR 121

Query: 123 GWKKPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDGQTIEKEVFDSPGSGIAMAMYN 182
            W+KPI++GRHA+GD Y+  +    + GKL +     +G+   + + +     I   ++N
Sbjct: 122 SWQKPIVVGRHAYGDFYKNAEIFAEAGGKLEIVVTDKNGKETRQTIMEVDEPAIVQGIHN 181

Query: 183 LDDSIRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQFDELGI 242
              SI +FARA  +Y+L +++  + +TKDTI K YD RFK IF EIF  E+K +F   GI
Sbjct: 182 TVASIGHFARACFEYSLDQKIDCWFATKDTISKQYDQRFKIIFEEIFAQEYKEKFAAAGI 241

Query: 243 TYTHRLIDDMVASSIKWSGGYIWACKNYDGDVQSDIVAQGFGSLGLMTSVLITADGKTME 302
            Y + LIDD+VA  +K  GG +WACKNYDGDV SD+VA  FGSL +M+SVL++  G    
Sbjct: 242 EYFYTLIDDVVARMMKTEGGMLWACKNYDGDVMSDMVASAFGSLAMMSSVLVSPYGYFEY 301

Query: 303 TEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAENLERVCI 362
            EAAHGTV RHY QH +G+ TSTN +A I+AWT  L  R +LD   +L  F ++LE + I
Sbjct: 302 -EAAHGTVQRHYYQHLKGERTSTNPVALIYAWTGALRKRGELDGTPDLCAFCDSLEAITI 360

Query: 363 KTVEDGFMTKDLALLIGPEQD-WLSTTDFIEKISDNLRDALQ 403
           + +E G+MT DLA +  P     L + +FI+++   L+   +
Sbjct: 361 ECIESGYMTGDLARICEPAAIKVLDSIEFIDELGKRLQQLNK 402


>1zor_A Isocitrate dehydrogenase; wild type enzyme, CIS-proline,
           thermostable, oxidoreductase; 2.24A {Thermotoga maritima
           MSB8}
          Length = 399

 Score =  337 bits (864), Expect = 3e-93
 Identities = 199/403 (49%), Positives = 278/403 (68%), Gaps = 5/403 (1%)

Query: 1   MKKIKVTKPVVSLDGDEMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLTDDQVTIDA 60
           M+K+KV  P+V LDGDEM R++W++I+E LI PYLDI++ YFDL I+ RD TDDQ+TI+A
Sbjct: 1   MEKVKVKNPIVELDGDEMARVMWKMIKEKLILPYLDIQLVYFDLGIKKRDETDDQITIEA 60

Query: 61  AHAIKNCGVGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIFREPIICSNVPRL 120
           A AIK  GVG+KCATIT D  RVKE+NLKK WKSPN TIR  L G +FR+PI+  NVP L
Sbjct: 61  AKAIKKYGVGVKCATITPDAERVKEYNLKKAWKSPNATIRAYLDGTVFRKPIMVKNVPPL 120

Query: 121 IPGWKKPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDGQTIEKEVFDSPGSGIAMAM 180
           +  WKKPIIIGRHA+GD Y A + +     ++ L     + +T+    F   G+G+ MAM
Sbjct: 121 VKRWKKPIIIGRHAYGDIYNAVEAKVEGPAEVELVVRNKENKTLLVHKF--EGNGVVMAM 178

Query: 181 YNLDDSIRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQFDEL 240
           +NL+ SIR+FA++ + YA++ ++ ++ +TKDTI K Y   FK+IF E  + + K + ++ 
Sbjct: 179 HNLEKSIRSFAQSCINYAISEKVDIWFATKDTISKVYHAYFKDIFQEEVD-KRKEELEKA 237

Query: 241 GITYTHRLIDDMVASSIKWSGGYIWACKNYDGDVQSDIVAQGFGSLGLMTSVLITADGKT 300
           G+ Y + LIDD  A  ++  GG +WAC NY+GD+ SD++A GFGSLGLMTSVL++ DG  
Sbjct: 238 GVNYRYMLIDDAAAQILRSEGGMLWACMNYEGDIMSDMIASGFGSLGLMTSVLVSPDGVY 297

Query: 301 METEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAENLERV 360
              EAAHGTV RHY ++ +G++TSTN  ASIFAWT  +  R +LD   E+ +FA+ LE+ 
Sbjct: 298 EF-EAAHGTVRRHYYRYLKGEKTSTNPTASIFAWTGAIRKRGELDGTPEVCEFADKLEKA 356

Query: 361 CIKTVEDGFMTKDLALLIGPE-QDWLSTTDFIEKISDNLRDAL 402
            I T+E G +TKDL     P    +++  +FI+++  NL   L
Sbjct: 357 VINTIESGVITKDLQPFTEPPIDKYVTLEEFIDEVKKNLEKLL 399


>1hqs_A Isocitrate dehydrogenase; glyoxylate bypass, bsidh, tricarboxylic
           acid cycle, oxidoreductase, protein phosphorylation,
           NADP; HET: CME CIT; 1.55A {Bacillus subtilis} SCOP:
           c.77.1.1
          Length = 423

 Score =  182 bits (462), Expect = 2e-46
 Identities = 55/402 (13%), Positives = 120/402 (29%), Gaps = 34/402 (8%)

Query: 16  DEMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLTDDQVTIDAAHAIKNCGVGIKCAT 75
           +  ++++ +   E        I  +      +  + T + +  +    I+   + IK   
Sbjct: 36  NAASKVL-EAAVEKAYKGEKKITWKEVYAGEKAYNKTGEWLPAETLDVIREYFIAIKGPL 94

Query: 76  ITADQARVKEFNLKKMWKSPNGTIRNI----------------LGGIIFREPIICSNVPR 119
            T     ++  N+    +                            +IFRE         
Sbjct: 95  TTPVGGGIRSLNVALRQELDLFVCLRPVRYFTGVPSPVKRPEDTDMVIFRENTEDIYAGI 154

Query: 120 LIPGWKKPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDGQT-IEKEVFDSPGSGIAM 178
                 + +        ++      +FP    + +K V ++G + + +   D        
Sbjct: 155 EYAKGSEEVQKLISFLQNELNVNKIRFPETSGIGIKPVSEEGTSRLVRAAIDYAIEHGRK 214

Query: 179 AMYNLDDS-IRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQF 237
           ++  +    I  F   A +             K      YD   +    +          
Sbjct: 215 SVTLVHKGNIMKFTEGAFKNWGYELAEKEYGDKVFTWAQYDRIAEEQGKDAANKAQSEAE 274

Query: 238 DELGITYTHRLIDDMVASSIKWSGGY-IWACKNYDGDVQSDIVAQGFGSLGLMTSVLITA 296
               I     + D  +   +     + + A  N +GD  SD +A   G +G+     I  
Sbjct: 275 AAGKIIIKDSIADIFLQQILTRPNEFDVVATMNLNGDYISDALAAQVGGIGIAPGANINY 334

Query: 297 DGKTMETEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAEN 356
           +      EA HGT  ++    +       N  + I +    L H           + A+ 
Sbjct: 335 ETGHAIFEATHGTAPKYAGLDK------VNPSSVILSGVLLLEHLG-------WNEAADL 381

Query: 357 LERVCIKTVEDGFMTKDLALLIGPEQDWLSTTDFIEKISDNL 398
           + +   KT+    +T D A L+      +  ++F E++  N+
Sbjct: 382 VIKSMEKTIASKVVTYDFARLMDGAT-EVKCSEFGEELIKNM 422


>3dms_A Isocitrate dehydrogenase [NADP]; structural genomics, seattle
           structural genomics center for infectious disease,
           ssgcid; 1.65A {Burkholderia pseudomallei} PDB: 1pb1_A*
           1ai3_A* 1ika_A* 1ai2_A* 1p8f_A* 1pb3_A 1sjs_A 3icd_A
           4icd_A* 5icd_A* 9icd_A* 1bl5_A* 1cw7_A* 1idd_A 1ide_A*
           1hj6_A* 7icd_A 8icd_A* 6icd_A 1cw1_A* ...
          Length = 427

 Score =  177 bits (451), Expect = 3e-45
 Identities = 80/436 (18%), Positives = 147/436 (33%), Gaps = 67/436 (15%)

Query: 1   MKKIKVTK---------PVVSL---DG------DEMTRIIWQLIQENLIHPYLDIKIEYF 42
             KI V K         P++     DG        M +++     E        I     
Sbjct: 20  GDKITVNKDFSLNVSDQPIIPYIEGDGTGFDITPVMIKVV-DAAVEKAYGGKKKIHWMEI 78

Query: 43  DLSIQNRDLTDDQVTI--DAAHAIKNCGVGIKCATITADQARVKEFNLKKMWKSPNGTIR 100
               +   +    V +  +    +K   V IK    T               +S N  +R
Sbjct: 79  YAGEKATKVYGPDVWLPEETLQVLKEYVVSIKGPLTTPV---------GGGIRSLNVALR 129

Query: 101 NILGGIIFREPIIC-SNVPR-LIPGWKKPIIIGRHAFGDQYRATDFQFPS-KGKLILKFV 157
             L   +   PI     VP  +    K  ++I R    D Y   ++   S + K ++KF+
Sbjct: 130 QELDLYVCLRPIQYFKGVPSPVREPEKTNMVIFRENSEDIYAGIEWAAESEQAKKVIKFL 189

Query: 158 GDDGQTIEKEVFDSPGSGIAMAMYNLDDSIRNFARAAMQYALARQLP-LYLSTKDTILKS 216
            ++    +     + G GI        +      R A+QYA+      + L  K  I+K 
Sbjct: 190 QEEMGVKKIRFPQTSGIGI---KPVSKEGTERLVRKAIQYAIDNDRKSVTLVHKGNIMKF 246

Query: 217 YDGRFKNIFNEIFEAEFKNQFDELG-------------ITYTHRLIDDMVASSIKWSGGY 263
            +G F++    + + EF  +  + G             I     + D  +   +     Y
Sbjct: 247 TEGAFRDAGYALAQKEFGAELIDGGPWMKFKNPKTGNEIVVKDSIADAFLQQILLRPAEY 306

Query: 264 -IWACKNYDGDVQSDIVAQGFGSLGLMTSVLITADGKTMETEAAHGTVTRHYRQHQQGKE 322
            + A  N +GD  SD +A   G +G+     ++        EA HGT  ++  +      
Sbjct: 307 DVIATLNLNGDYISDALAAQVGGIGIAPGANLSDSV--AMFEATHGTAPKYAGKD----- 359

Query: 323 TSTNSIASIFAWTRGLLHRAKLDENAELKKFAENLERVCIKTVEDGFMTKDLALLIGPEQ 382
              N  + I +    L H           + A+ +     K+++   +T D A L+    
Sbjct: 360 -YVNPGSEILSAEMMLRHLG-------WTEAADVIISAMEKSIKQKRVTYDFARLMEGAT 411

Query: 383 DWLSTTDFIEKISDNL 398
             +S + F + + +N+
Sbjct: 412 Q-VSCSGFGQVLIENM 426


>1tyo_A Isocitrate dehydrogenase; enzyme-ethenonadp complex,
           oxidoreductase; HET: ENP; 2.15A {Aeropyrum pernix} PDB:
           1v94_A 1xgv_A 1xkd_A*
          Length = 435

 Score =  141 bits (357), Expect = 2e-34
 Identities = 73/426 (17%), Positives = 135/426 (31%), Gaps = 57/426 (13%)

Query: 3   KIKVT-KPVVSL---DG------DEMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLT 52
            ++V   PVV+    DG      +   +++     + +      I           R+  
Sbjct: 29  SLRVPDNPVVAFIRGDGVGPEVVESALKVV-DAAVKKVYGGSRRIVWWELLAGHLAREKC 87

Query: 53  DDQVTIDAAHAIKNCGVGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIFREPI 112
            + +       I+   V +K    T              ++S N  IR  L       P+
Sbjct: 88  GELLPKATLEGIRLARVALKGPLETPVGTG---------YRSLNVAIRQALDLYANIRPV 138

Query: 113 ICSNVP--RLIPGWKKPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDGQTIEKEVFD 170
                P           +I   +               +   I +F+ +     E  +  
Sbjct: 139 RYYGQPAPHKYADRVDMVIFRENTEDVYAGIEWPHDSPEAARIRRFLAE-----EFGISI 193

Query: 171 SPGSGIAMAMYNLDDSIRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFE 230
              +GI +   +   + R   RA           + +  K  I+K  +G F     E+  
Sbjct: 194 REDAGIGVKPISRFATRRLMERALEWALRNGNTVVTIMHKGNIMKYTEGAFMRWAYEVAL 253

Query: 231 AEFK--------------NQFDELGITYTHRLIDDMVASSIKWSGGY-IWACKNYDGDVQ 275
            +F+                  E  I    R+ D+M+   I     Y +    N +GD  
Sbjct: 254 EKFREHVVTEQEVQEKYGGVRPEGKILVNDRIADNMLQQIITRPWDYQVIVAPNLNGDYI 313

Query: 276 SDIVAQGFGSLGLMTSVLITADGKTMETEAAHGTVTRHYRQHQQGKETSTNSIASIFAWT 335
           SD  +   G +G+   +    DG  +  E  HGT  ++      GK+   N  A I + +
Sbjct: 314 SDAASALVGGIGMAAGM-NMGDGIAV-AEPVHGTAPKY-----AGKDLI-NPSAEILSAS 365

Query: 336 RGLLHRAKLDENAELKKFAENLERVCIKTVEDGFMTKDLALLIGPEQDWLSTTDFIEKIS 395
             +       E          +E    K V+   +T+DLA  + P    L T+++ E + 
Sbjct: 366 LLIGEFMGWRE------VKSIVEYAIRKAVQSKKVTQDLARHM-PGVQPLRTSEYTETLI 418

Query: 396 DNLRDA 401
             + +A
Sbjct: 419 AYIDEA 424


>2iv0_A Isocitrate dehydrogenase; oxidoreductase, tricarboxylic acid cycle,
           domain swapping, phosphorylation, aromatic cluster,
           NADP; 2.5A {Archaeoglobus fulgidus}
          Length = 412

 Score =  132 bits (334), Expect = 1e-31
 Identities = 72/383 (18%), Positives = 132/383 (34%), Gaps = 49/383 (12%)

Query: 35  LDIKIEYFDLSIQNRDLTDDQVTIDAAHAIKNCGVGIKCATITADQARVKEFNLKKMWKS 94
            ++             L  + +  D  +AIK   V +K    T              ++S
Sbjct: 59  KEVVWFQVYAGEDAYKLYGNYLPDDTLNAIKEFRVALKGPLTTPVGGG---------YRS 109

Query: 95  PNGTIRNILGGIIFREPIIC---SNVPRLIPGWKKPIIIGRHAFGDQYRATDFQFPSKGK 151
            N TIR +L       P+        P   P     +I   +           +   +  
Sbjct: 110 LNVTIRQVLDLYANVRPVYYLKGVPSPIKHPEKVNFVIFRENTEDVYAGIEWPRGSEEAL 169

Query: 152 LILKFVGDDGQTIEKEVFDSPGSGIAMAMYNLDDSIRNFARAAMQYALARQLPLYLSTKD 211
            +++F+ ++       V     SGI +   +   + R    A        +  + L  K 
Sbjct: 170 KLIRFLKNE-----FGVTIREDSGIGIKPISEFATKRLVRMAIRYAIENNRKSVTLVHKG 224

Query: 212 TILKSYDGRFKNIFNEIFEAEFK--------------NQFDELGITYTHRLIDDMVASSI 257
            I+K  +G F++   E+ + EF                +  E  I    R+ D+M    +
Sbjct: 225 NIMKYTEGAFRDWGYEVAKQEFGEYCITEDELWDKYGGKQPEGKIVVKDRIADNMFQQIL 284

Query: 258 KWSGGY-IWACKNYDGDVQSDIVAQGFGSLGLMTSVLITADGKTMETEAAHGTVTRHYRQ 316
             +  Y + A  N +GD  SD  A   G LG+     I  DG  +  E  HG+  ++  Q
Sbjct: 285 TRTDEYDVIALPNLNGDYLSDAAAALIGGLGIAPGSNIG-DGIGVF-EPVHGSAPKYAGQ 342

Query: 317 HQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAENLERVCIKTVEDGFMTKDLAL 376
           ++       N  A I        +          K  +E +++    T+  G +T D+  
Sbjct: 343 NK------VNPTAEILTGALMFEYIG-------WKDASEMIKKAVEMTISSGIVTYDIHR 389

Query: 377 LIGPEQDWLSTTDFIEKISDNLR 399
            +G  +  + T +F E + +NL+
Sbjct: 390 HMGGTK--VGTREFAEAVVENLQ 410


>1cnz_A IPMDH, IMDH, protein (3-isopropylmalate dehydrogenase);
           oxidoreductase, leucine biosynthetic pathway,
           NAD-dependant enzyme; 1.76A {Salmonella typhimurium}
           SCOP: c.77.1.1 PDB: 1cm7_A
          Length = 363

 Score =  128 bits (323), Expect = 2e-30
 Identities = 60/374 (16%), Positives = 116/374 (31%), Gaps = 52/374 (13%)

Query: 35  LDIKIEYFDLSIQNRDLTDDQVTIDAAHAIKNCGVGIKCATITADQARVK-----EFNLK 89
           + I   ++D+     D     +        +     +  +        +      E    
Sbjct: 36  MRITTSHYDVGGIAIDNHGHPLPKATVEGCEQADAILFGSVGGPKWENLPPESQPERGAL 95

Query: 90  KMWKSPNGTIRNILGGIIFREPIICSNVPRLIPGWKKPIIIGRHAFGDQYRATDFQFPSK 149
              +       N+    +++       +   I      I+  R   G  Y          
Sbjct: 96  LPLRKHFKLFSNLRPAKLYQGLEAFCPLRADIAANGFDILCVRELTGGIYF--------- 146

Query: 150 GKLILKFVGDDGQTIEKEVFDSPGSGIAMAMYNLDDSIRNFARAAMQYALARQLPLYLST 209
                      GQ   +E            +Y+    I   AR A + A  R+  +    
Sbjct: 147 -----------GQPKGREGSGQYEKAFDTEVYH-RFEIERIARIAFESARKRRRKVTSID 194

Query: 210 KDTILKSYDGRFKNIFNEIFEAEFKNQFDELGITYTHRLIDDMVASSIKWSGGY-IWACK 268
           K  +L+S     + I N++             +   H  ID+     IK    + +  C 
Sbjct: 195 KANVLQSSILWRE-IVNDVA-------KTYPDVELAHMYIDNATMQLIKDPSQFDVLLCS 246

Query: 269 NYDGDVQSDIVAQGFGSLGLMTSVLITADGKTMETEAAHGTVTRHYRQHQQGKETSTNSI 328
           N  GD+ SD  A   GS+G++ S  +   G  +  E A G+      ++        N I
Sbjct: 247 NLFGDILSDECAMITGSMGMLPSASLNEQGFGLY-EPAGGSAPDIAGKNI------ANPI 299

Query: 329 ASIFAWTRGLLHRAKLDENAELKKFAENLERVCIKTVEDGFMTKDLALLIGPEQDWLSTT 388
           A I +    L +    ++       A  +E+   + +E+G  T DL          +ST 
Sbjct: 300 AQILSLALLLRYSLDAND------AATAIEQAINRALEEGVRTGDL----ARGAAAVSTD 349

Query: 389 DFIEKISDNLRDAL 402
           +  + I+  + + +
Sbjct: 350 EMGDIIARYVAEGV 363


>2e0c_A 409AA long hypothetical NADP-dependent isocitrate dehydrogenase;
           homedimer, oxidoreductase; 2.00A {Sulfolobus tokodaii
           str} PDB: 2dht_A 2e5m_A*
          Length = 409

 Score =  125 bits (314), Expect = 2e-29
 Identities = 86/422 (20%), Positives = 153/422 (36%), Gaps = 56/422 (13%)

Query: 2   KKIKVTKPVVSL---DG------DEMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLT 52
           K I   KPV+     DG      +   ++I + ++        +IK        +   L 
Sbjct: 18  KWIVPNKPVILYIEGDGIGPEITNAAIKVINKAVERAYGSS-REIKWLEVYAGEKAEKLV 76

Query: 53  DDQVTIDAAHAIKNCGVGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIFREPI 112
           +D+   +    +    V +K    T              WKS N  IR +L       P+
Sbjct: 77  NDRFPKETQEMLLKYRVVLKGPLETPIGKG---------WKSVNVAIRLMLDLYANIRPV 127

Query: 113 ICSN--VPRLIPGWKKPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDGQTIEKEVFD 170
                    L    K  +II R    D YR  ++ F S+     K      + ++ E+ D
Sbjct: 128 KYIEGLESPLKHPEKVDMIIFRENTDDLYRGIEYPFNSEEAK--KIRDFLRKELKVEIED 185

Query: 171 SPGSGIAMAMYNLDDSIRNFARAAMQYALARQLP-LYLSTKDTILKSYDGRFKNIFNEIF 229
             G GI +        I    R A+QYA+  +   + +  K  ++K  +G F+    E+ 
Sbjct: 186 DTGIGIKVMSKYKTQRIT---RLAIQYAIEHKRKKVTIMHKGNVMKYTEGAFREWAYEVA 242

Query: 230 EAEFK-----------NQFDELGITYTHRLIDDMVASSIKWSGGY-IWACKNYDGDVQSD 277
             E++            + D+  I    R+ D+M    I     Y I    N +GD  SD
Sbjct: 243 LKEYRDFIVTEEEINQGKPDQGKIILNDRIADNMFQQIIIRPEEYDIILAPNVNGDYISD 302

Query: 278 IVAQGFGSLGLMTSVLITADGKTMETEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTRG 337
                 G++G++    I  +G   E  A HGT  ++  ++        N    I A    
Sbjct: 303 AAGALIGNIGMLGGANIGDEGGMFE--AIHGTAPKYAGKNV------ANPTGIIKAGELM 354

Query: 338 LLHRAKLDENAELKKFAENLERVCIKTVEDGFMTKDLALLIGPEQDWLSTTDFIEKISDN 397
           L             + A+ +E+     + D  +T+D+A  +G +   L T ++ +++   
Sbjct: 355 LRWMG-------WNEAADLIEKAINMAIRDKKVTQDIARFMGVKA--LGTKEYADELIKI 405

Query: 398 LR 399
           + 
Sbjct: 406 MD 407


>1v53_A 3-isopropylmalate dehydrogenase; IPMDH, HOMO dimer, X-RAY analysis,
           oxidoreductase; 2.85A {Bacillus coagulans} SCOP:
           c.77.1.1 PDB: 2ayq_A 1v5b_A
          Length = 366

 Score =  119 bits (298), Expect = 1e-27
 Identities = 68/413 (16%), Positives = 136/413 (32%), Gaps = 62/413 (15%)

Query: 3   KIKVTKPVVSLDGD----EMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLTDDQVTI 58
           K+K+      L GD    E+     ++++  L +   +   E   +     D     +  
Sbjct: 2   KMKLA----VLPGDGIGPEVMDAAIRVLKTVLDNDGHEAVFENALIGGAAIDEAGTPLPE 57

Query: 59  DAAHAIKNCGVGIKCATITADQARVK-----EFNLKKMWKSPNGTIRNILGGIIFREPII 113
           +     +     +  A               E  L  + K   G   N+     +   + 
Sbjct: 58  ETLDICRRSDAILLGAVGGPKWDHNPASLRPEKGLLGLRK-EMGLFANLRPVKAYATLLN 116

Query: 114 CSNVPRLIPGWKKPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDGQTIEKEVFDSPG 173
            S + R        ++I R   G  Y                           E      
Sbjct: 117 ASPLKRERVE-NVDLVIVRELTGGLY----------------------FGRPSERRGPGE 153

Query: 174 SGIAMAMYNLDDSIRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEF 233
           + +   +    + I      A Q A  R+  L    K  +L+S    ++ I  E    ++
Sbjct: 154 NEVVDTLAYTREEIERIIEKAFQLAQIRRKKLASVDKANVLES-SRMWREIAEET-AKKY 211

Query: 234 KNQFDELGITYTHRLIDDMVASSIKWSGGY-IWACKNYDGDVQSDIVAQGFGSLGLMTSV 292
            +      +  +H L+D      I   G + +   +N  GD+ SD  +   GSLG++ S 
Sbjct: 212 PD------VELSHMLVDSTSMQLIANPGQFDVIVTENMFGDILSDEASVITGSLGMLPSA 265

Query: 293 LITADGKTMETEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKK 352
            + +D   M  E  HG+      Q +       N + ++ +    L +   L++ A    
Sbjct: 266 SLRSDRFGMY-EPVHGSAPDIAGQGK------ANPLGTVLSAALMLRYSFGLEKEAAA-- 316

Query: 353 FAENLERVCIKTVEDGFMTKDLALLIGPEQDWLSTTDFIEKISDNLRDALQKN 405
               +E+     ++DG+ T DL +  G     +ST +  +++ + L ++    
Sbjct: 317 ----IEKAVDDVLQDGYCTGDLQVANGKV---VSTIELTDRLIEKLNNSAAGP 362


>1itw_A Isocitrate dehydrogenase; greece KEY motif, oxidoreductase; HET:
           ICT; 1.95A {Azotobacter vinelandii} SCOP: c.77.1.2 PDB:
           1j1w_A*
          Length = 741

 Score =  118 bits (297), Expect = 3e-27
 Identities = 39/230 (16%), Positives = 78/230 (33%), Gaps = 17/230 (7%)

Query: 136 GDQYRA--TDFQFPSKGKLILKFVGDDGQTI-EKEVFDSPGSGIAMAMYNLDDSIRNFAR 192
            ++Y +    FQ P+ G +  +   + G+ + E+ V       I       D  I+++ +
Sbjct: 417 AEEYGSHDKTFQIPADGVV--RVTDESGKLLLEQSVEAG---DIWRMCQAKDAPIQDWVK 471

Query: 193 AAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQFDELGITYTHRLIDDM 252
            A+  A A   P          +++D +         +         L I      ++  
Sbjct: 472 LAVNRARATNTPAVFWLDPA--RAHDAQVIAKVERYLK---DYDTSGLDI-RILSPVEAT 525

Query: 253 VAS--SIKWSGGYIWACKNYDGDVQSDIVAQ-GFGSLGLMTSVLITADGKTMETEAAHGT 309
             S   I+     I    N   D  +D+      G+   M S++    G  +    A G+
Sbjct: 526 RFSLARIREGKDTISVTGNVLRDYLTDLFPIMELGTSAKMLSIVPLMSGGGLFETGAGGS 585

Query: 310 VTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAENLER 359
             +H +Q  +      +S+    A    L H     +N +    A  L++
Sbjct: 586 APKHVQQFLEEGYLRWDSLGEFLALAASLEHLGNAYKNPKALVLASTLDQ 635


>1vlc_A 3-isopropylmalate dehydrogenase; TM0556, structural genomics, JCSG,
           PSI, protein structure initiative, joint center for
           structural genomics; 1.90A {Thermotoga maritima} SCOP:
           c.77.1.1
          Length = 366

 Score =  117 bits (293), Expect = 6e-27
 Identities = 69/396 (17%), Positives = 125/396 (31%), Gaps = 51/396 (12%)

Query: 10  VVSLDGD----EMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLTDDQVTIDAAHAIK 65
           +  L GD    E+ R   ++++          +  +  +     D   + +  +      
Sbjct: 15  IAVLPGDGIGPEVVREALKVLEVVEKKTGKTFEKVFGHIGGDAIDRFGEPLPEETKKICL 74

Query: 66  NCGVGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIFREPIICSNVPRLIPGWK 125
                   +        +               +R +L       PI        +   K
Sbjct: 75  EADAIFLGSVGGPKWDDLPPEKRP--EIGGLLALRKMLNLYANIRPIKVYRSLVHVSPLK 132

Query: 126 KPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDGQTIEKEVFDSPGSGIAMAMYNLDD 185
           + +I             D     +    + +    G   EK        G    +Y+   
Sbjct: 133 EKVI---------GSGVDLVTVRELSYGVYYGQPRGLDEEK--------GFDTMIYDRKT 175

Query: 186 SIRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQFDELGITYT 245
             R  AR A + A  R+  +    K  +L S    ++ + NE+   E+        +  T
Sbjct: 176 VER-IARTAFEIAKNRRKKVTSVDKANVLYS-SMLWRKVVNEVAR-EYP------DVELT 226

Query: 246 HRLIDDMVASSIKWSGGY-IWACKNYDGDVQSDIVAQGFGSLGLMTSVLITADGKTMETE 304
           H  +D+     I     + +    N  GD+ SD  A   GSLGL+ S      G     E
Sbjct: 227 HIYVDNAAMQLILKPSQFDVILTTNMFGDILSDESAALPGSLGLLPSASF---GDKNLYE 283

Query: 305 AAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAENLERVCIKT 364
            A G+      ++        N IA I +    L H   + E A        +ER     
Sbjct: 284 PAGGSAPDIAGKNI------ANPIAQILSLAMMLEHSFGMVEEARK------IERAVELV 331

Query: 365 VEDGFMTKDLALLIGPEQDWLSTTDFIEKISDNLRD 400
           +E+G+ T+D+A      +  +ST+   + I   L +
Sbjct: 332 IEEGYRTRDIA---EDPEKAVSTSQMGDLICKKLEE 364


>2d4v_A Isocitrate dehydrogenase; alpha and beta protein,
           isocitrate/isopropylmalate dehydrogenase-like fold,
           oxidoreductase; HET: FLC NAD; 1.90A {Acidithiobacillus
           thiooxidans}
          Length = 429

 Score =  116 bits (292), Expect = 8e-27
 Identities = 77/432 (17%), Positives = 140/432 (32%), Gaps = 66/432 (15%)

Query: 3   KIKVT-KPVVSL---DG------DEMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLT 52
            ++V  +P++     DG        M  ++       +      I         +   L 
Sbjct: 20  VLQVPDQPIIPFIEGDGIGCDVTPAMRSVV-DAAVAKVYGGQRQIAWMELFAGQKAVQLY 78

Query: 53  DDQVTI--DAAHAIKNCGVGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIFRE 110
            +   +  +   AI+   V IK    T     ++  N+             +     F  
Sbjct: 79  GEGQYLPDETMAAIREYKVAIKGPLETPVGGGIRSLNVAMRQD--LDLYVCLRPVRYFEG 136

Query: 111 PIICSNVPRLIPGWKKPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDGQTIEKEVFD 170
               +  P   P     +I   ++              + + I++F+ ++    +    D
Sbjct: 137 ----TPSPMRHPEKVDMVIFRENSEDIYAGIEWPAGSPEAEKIIRFLREEMGVTKIRFPD 192

Query: 171 SPGSGIAMAMYNLDDSIRNFARAAMQYALARQLP-LYLSTKDTILKSYDGRFKNIFNEIF 229
              S I +   + + S R   R   QYAL    P + L  K  I+K  +G F++    + 
Sbjct: 193 --SSAIGIKPVSTEGSERLIRRTI-QYALEHGKPSVSLVHKGNIMKFTEGGFRDWGYALA 249

Query: 230 EAEFKNQ---------------------FDELGITYTHRLIDDMVASSI------KWSGG 262
           E EF  +                      ++  I     +I D++A +       +    
Sbjct: 250 EREFAGRVFTWRQKAAISKAEGKAAGQKAEQQAIADGKLIIKDVIADNFLQQILLRPEDY 309

Query: 263 YIWACKNYDGDVQSDIVAQGFGSLGLMTSVLITADGKTMETEAAHGTVTRHYRQHQQGKE 322
            + A  N +GD  SD +A   G +G+     ++      E  A HGT      Q +    
Sbjct: 310 SVVATLNLNGDYVSDALAAEVGGIGMAPGANLSDTHAIFE--ATHGTAPDIAGQGK---- 363

Query: 323 TSTNSIASIFAWTRGLLHRAKLDENAELKKFAENLERVCIKTVEDGFMTKDLALLIGPEQ 382
              N  + I +    L H           + A+ +      T+  G +T DLA L G   
Sbjct: 364 --ANPSSLILSAVMMLEHLG-------WGEAAQAIVAAMNATIAAGEVTGDLAALRGDVP 414

Query: 383 DWLSTTDFIEKI 394
             LSTT+F   +
Sbjct: 415 -ALSTTEFTAAL 425


>1a05_A IPMDH, IMDH, 3-isopropylmalate dehydrogenase; oxidoreductase,
           decarboxylating dehydrogenase, leucine biosynthesis;
           HET: IPM; 2.00A {Thiobacillus ferrooxidans} SCOP:
           c.77.1.1
          Length = 358

 Score =  112 bits (281), Expect = 2e-25
 Identities = 70/403 (17%), Positives = 131/403 (32%), Gaps = 54/403 (13%)

Query: 1   MKKIKVTKPVVSLDGD----EMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLTDDQV 56
           MKKI +        GD    E+     Q++       +L ++     +     D +DD +
Sbjct: 1   MKKIAI------FAGDGIGPEIVAAARQVLDAVDQAAHLGLRCTEGLVGGAALDASDDPL 54

Query: 57  TIDAAHAIKNCGVGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIFREPIICSN 116
              +          I  A               +        +R  L       P     
Sbjct: 55  PAASLQLAMAADAVILGAVGGPRWDAYPPAKRPE---QGLLRLRKGLDLYANLRPA---- 107

Query: 117 VPRLIPGWKKPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDGQTIEKEVFDSPGSGI 176
             ++ P       +      +  R  D     +    + F    GQ    EV D    G 
Sbjct: 108 --QIFPQLLDASPLR----PELVRDVDILVVRELTGDIYF----GQPRGLEVIDGKRRGF 157

Query: 177 AMAMYNLDDSIRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQ 236
              +Y+ +D IR  A  A + A  R+  L    K  +L++    ++ +  E+        
Sbjct: 158 NTMVYD-EDEIRRIAHVAFRAAQGRRKQLCSVDKANVLETTR-LWREVVTEVAR------ 209

Query: 237 FDELGITYTHRLIDDMVASSIKWSGGY-IWACKNYDGDVQSDIVAQGFGSLGLMTSVLIT 295
            D   +  +H  +D+     I+    + +    N  GD+ SD  +Q  GS+G++ S  + 
Sbjct: 210 -DYPDVRLSHMYVDNAAMQLIRAPAQFDVLLTGNMFGDILSDEASQLTGSIGMLPSASLG 268

Query: 296 ADGKTMETEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAE 355
                 E  A +  +         G+    N +A+I +    L H    +       +A+
Sbjct: 269 ------EGRAMYEPIHGSAPDIA-GQ-DKANPLATILSVAMMLRHSLNAEP------WAQ 314

Query: 356 NLERVCIKTVEDGFMTKDLALLIGPEQDWLSTTDFIEKISDNL 398
            +E    + ++ G  T D+A    P    + T      + + L
Sbjct: 315 RVEAAVQRVLDQGLRTADIA---APGTPVIGTKAMGAAVVNAL 354


>1g2u_A IPMDH, 3-isopropylmalate dehydrogenase; beta-barrel, NAD binding,
           oxidoreductase; 2.10A {Thermus thermophilus HB8} SCOP:
           c.77.1.1 PDB: 1osj_A 1gc8_A 1xaa_A 1osi_A 1hex_A 1xab_A
           2ztw_A* 1gc9_A 1ipd_A 1wal_A 1dpz_A 1dr0_A 1dr8_A 1idm_A
           1xac_A 1xad_A
          Length = 345

 Score =  109 bits (274), Expect = 1e-24
 Identities = 61/394 (15%), Positives = 110/394 (27%), Gaps = 57/394 (14%)

Query: 10  VVSLDGD----EMTRIIWQLIQENLIHPYLDIKIEYFDLSIQNRDLTDDQVTIDAAHAIK 65
           V  L GD    E+T    ++++       L +  E F       D   +         ++
Sbjct: 3   VAVLPGDGIGPEVTEAALKVLRALDEAEGLGLAYEVFPFGGAAIDAFGEPFPEPTRKGVE 62

Query: 66  NCGVGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIFREPIICSNVPRLIPGWK 125
                +  +              K   ++   ++R          P         +   K
Sbjct: 63  EAEAVLLGSVGGPK---WDGLPRKIRPETGLLSLRKSQDLFANLRPAKVFPGLERLSPLK 119

Query: 126 KPIIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDGQTIEKEVFDSPGSGIAMAMYNLDD 185
           + I  G                     +L      G     E      +           
Sbjct: 120 EEIARGVD-------------------VLIVRELTGGIYFGEPRGMSEAEAWNTERYSKP 160

Query: 186 SIRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQFDELGITYT 245
            +   AR A + A  R+  +    K  +L+  +   K +         +       +   
Sbjct: 161 EVERVARVAFEVARKRRKHVVSVDKANVLEVGEFWRKTVE--------EVGRGYPDVALE 212

Query: 246 HRLIDDMVASSIKWSGGY-IWACKNYDGDVQSDIVAQGFGSLGLMTSVLITADGKTMETE 304
           H+ +D M    ++    + +    N  GD+ SD+ +   GSLGL+ S  +     T   E
Sbjct: 213 HQYVDAMAMHLVRSPARFDVVVTGNIFGDILSDLASVLPGSLGLLPSASLGRG--TPVFE 270

Query: 305 AAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAELKKFAENLERVCIKT 364
             HG+      +         N  A+I +    L H   L E A        +E    K 
Sbjct: 271 PVHGSAPDIAGKGI------ANPTAAILSAAMMLEHAFGLVELARK------VEDAVAKA 318

Query: 365 VEDGFMTKDLALLIGPEQDWLSTTDFIEKISDNL 398
           + +     DL    G       T  F   +  +L
Sbjct: 319 LLET-PPPDLG---GS----AGTEAFTATVLRHL 344


>3flk_A Tartrate dehydrogenase/decarboxylase; cytoplasm, lyase, magnesium,
           manganese, NAD, oxidoreductase; HET: NAD; 2.00A
           {Pseudomonas putida} PDB: 3fmx_X*
          Length = 364

 Score =  102 bits (254), Expect = 2e-22
 Identities = 53/410 (12%), Positives = 116/410 (28%), Gaps = 62/410 (15%)

Query: 1   MKKIKVTKPVVSLDGD----EMTRIIWQLIQENLIHPYLDIKIEYFDL-SIQNRDLTDDQ 55
               ++     ++ GD    E+     ++++   +   L ++ + F+  S          
Sbjct: 3   AHSFRIA----AIPGDGIGLEVLPEGIRVLEAAALKHGLALEFDTFEWASCDYYLQHGKM 58

Query: 56  VTIDAAHAIKNCGVGIKCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIFREPIICS 115
           +  D A  +K        A    D+                   R      +   P+   
Sbjct: 59  MPDDWAEQLKQYDAIYFGAVGWPDKVPDH-----ISLWGSLLKFRREFDQYVNIRPVRLF 113

Query: 116 NVPRLIPGWKKP----IIIGRHAFGDQYRATDFQFPSKGKLILKFVGDDGQTIEKEVFDS 171
                    +K      ++ R     +Y +                            ++
Sbjct: 114 PGVPCALANRKVGDIDFVVVRENTEGEYSSLGGIMF---------------------ENT 152

Query: 172 PGSGIAMAMYNLDDSIRNFARAAMQYALARQLP-LYLSTKDTILKSYDGRFKNIFNEIFE 230
               +          +    + A   A  R+   +  +TK   +      +         
Sbjct: 153 ENEIVIQESIFTRRGVDRILKYAFDLAEKRERKHVTSATKSNGMAISMPYWDKRTEA--- 209

Query: 231 AEFKNQFDELGITYTHRLIDDMVASSIKWSGGY-IWACKNYDGDVQSDIVAQGFGSLGLM 289
                      +++  + ID + A  +     + +    N  GD+ SD+     G++G+ 
Sbjct: 210 ----MAAHYPHVSWDKQHIDILCARFVLQPERFDVVVASNLFGDILSDLGPACAGTIGIA 265

Query: 290 TSVLITADGKTMETEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTRGLLHRAKLDENAE 349
            S  +  +        +             GK  + N IA I++    L    + DE   
Sbjct: 266 PSANLNPE----RNFPSLFEPVHGSAPDIFGKNIA-NPIAMIWSGALMLEFLGQGDER-- 318

Query: 350 LKKFAENLERVCIKTVEDGFMTKDLALLIGPEQDWLSTTDFIEKISDNLR 399
            ++  +++     + + DG +T D+    G     LST      ISD L 
Sbjct: 319 YQRAHDDMLNAIERVIADGSVTPDMG---GT----LSTQQVGAAISDTLA 361


>1wpw_A 3-isopropylmalate dehydrogenase; oxidoreductase; 2.80A {Sulfolobus
           tokodaii} SCOP: c.77.1.1
          Length = 336

 Score = 98.0 bits (243), Expect = 3e-21
 Identities = 54/367 (14%), Positives = 109/367 (29%), Gaps = 67/367 (18%)

Query: 35  LDIKIEYFDLSIQNRDLTDDQVTIDAAHAIKNCGVGIKCATITADQARVKEFNLKKMWKS 94
           L I+    +   +      + +  D+   I    + +K               + +    
Sbjct: 33  LPIEYIEVEAGDRALARYGEALPKDSLKIIDKADIILKG-------------PVGESAAD 79

Query: 95  PNGTIRNILGGIIFREPIICSNVPRL-IPGWKKPIIIGRHAFGDQYRATDFQFPSKGKLI 153
               +R I        P    ++P +        I+I R    D Y+  +        + 
Sbjct: 80  VVVKLRQIYDMYANIRP--AKSIPGIDTKYGNVDILIVRENTEDLYKGFEHIVSDGVAVG 137

Query: 154 LKFVGDDGQTIEKEVFDSPGSGIAMAMYNLDDSIRNFARAAMQYALARQLPLYLSTKDTI 213
           +K +                                 A+  + +AL R+  +    K  +
Sbjct: 138 MKIITRFA-------------------------SERIAKVGLNFALRRRKKVTCVHKANV 172

Query: 214 LKSYDGRFKNIFNEIFEAEFKNQFDELGITYTHRLIDDMVASSIKWSGGY-IWACKNYDG 272
           ++  DG F      + + +         + Y+   +D   A+ ++    + +   +N  G
Sbjct: 173 MRITDGLFAEACRSVLKGK---------VEYSEMYVDAAAANLVRNPQMFDVIVTENVYG 223

Query: 273 DVQSDIVAQGFGSLGLMTSVLITADGKTMETEAAHGTVTRHYRQHQQGKETSTNSIASIF 332
           D+ SD  +Q  GSLG+  S  I       E                   +   N  A + 
Sbjct: 224 DILSDEASQIAGSLGIAPSANIGDKKALFEPVHGAA--------FDIAGKNIGNPTAFLL 275

Query: 333 AWTRGLLHRAKLDENAELKKFAENLERVCIKTV-EDGFMTKDLALLIGPEQDWLSTTDFI 391
           + +       +L  +    K +  LE        E   +T D+    G      +T D I
Sbjct: 276 SVSMMYERMYELSNDDRYIKASRALENAIYLVYKERKALTPDVG---GN----ATTDDLI 328

Query: 392 EKISDNL 398
            +I + L
Sbjct: 329 NEIYNKL 335


>2d1c_A Isocitrate dehydrogenase; structural genomics, NPPSFA, national
           project on protein structural and functional analyses;
           HET: NAP CIT; 1.80A {Thermus thermophilus HB8}
          Length = 496

 Score = 94.7 bits (235), Expect = 4e-20
 Identities = 62/372 (16%), Positives = 111/372 (29%), Gaps = 61/372 (16%)

Query: 36  DIKIEYFDLSIQ-NRDLTDDQVTIDAAHAIKNCGVGIKCATITADQARVKEFNLKKMWKS 94
            +  E  +      R      V  +   +I+   V +K    T               KS
Sbjct: 48  PLAYEVREAGASVFRRGIASGVPQETIESIRKTRVVLKGPLETPV---------GYGEKS 98

Query: 95  PNGTIRNILGGIIFREPI-ICSNVPRLIPGWKKPIIIGRHAFGDQYRATDFQFPSKGKLI 153
            N T+R +        P+    NVP    G    +++ R    D Y              
Sbjct: 99  ANVTLRKLFETYANVRPVREFPNVPTPYAGRGIDLVVVRENVEDLYAG------------ 146

Query: 154 LKFVGDDGQTIEKEVFDSPGSGIAMAMYNLDDSIRNFARAAMQYALARQLPLYLSTKDTI 213
                        E   +P     + + +   S +    A        +  ++ +TK  I
Sbjct: 147 ------------IEHMQTPSVAQTLKLISWKGSEKIVRFAFELARAEGRKKVHCATKSNI 194

Query: 214 LKSYDGRFKNIFNEIFEAEFKNQFDELGITYTHRLIDDMVASSIKWSGGYIWACKNYDGD 273
           +K  +G  K  F ++   E+ +                +V    +     +    N +GD
Sbjct: 195 MKLAEGTLKRAFEQV-AQEYPDIE--AVHIIVDNAAHQLVK---RPEQFEVIVTTNMNGD 248

Query: 274 VQSDIVAQGFGSLGLMTSVLITADGKTMETEAAHGTVTRHYRQHQQGKETSTNSIASIFA 333
           + SD+ +   G LG   S  I  +    E                 GK    N  A + +
Sbjct: 249 ILSDLTSGLIGGLGFAPSANIGNEVAIFEA-------VHGSAPKYAGK-NVINPTAVLLS 300

Query: 334 WTRGLLHRAKLDENAELKKFAENLERVCIKTVEDG-FMTKDLALLIGPEQDWLSTTDFIE 392
               L +  +           + +E   + T+E+G  +T D+            TT++ E
Sbjct: 301 AVMMLRYLEEFATA-------DLIENALLYTLEEGRVLTGDV----VGYDRGAKTTEYTE 349

Query: 393 KISDNLRDALQK 404
            I  NL    +K
Sbjct: 350 AIIQNLGKTPRK 361


>1x0l_A Homoisocitrate dehydrogenase; oxidoreductase, decarboxylating
           dehydrogenase, lysine biosynthesis; 1.85A {Thermus
           thermophilus}
          Length = 333

 Score = 89.8 bits (222), Expect = 1e-18
 Identities = 62/368 (16%), Positives = 111/368 (30%), Gaps = 66/368 (17%)

Query: 35  LDIKIEYFDLSIQNRDLTDDQVTIDAAHAIKNCGVGIKCATITADQARVKEFNLKKMWKS 94
           L ++    +   +  +     V  +    I +C   +  A  +  +           +  
Sbjct: 29  LPLEFVEAEAGWETFERRGTSVPEETVEKILSCHATLFGAATSPTRKVPG-------FFG 81

Query: 95  PNGTIRNILGGIIFREPIICSNVPRLIPGWKKPIIIGRHAFGDQYRATDFQFPSKGKLIL 154
               +R  L       P     VP   PG    ++I R      Y   + ++        
Sbjct: 82  AIRYLRRRLDLYANVRPAKSRPVPGSRPGVD--LVIVRENTEGLYVEQERRY-------- 131

Query: 155 KFVGDDGQTIEKEVFDSPGSGIAMAMYNLDDSIRNFARAAMQYALARQLPLYLS-TKDTI 213
                    ++  + D+  S  A              RAA++ A  R         K  +
Sbjct: 132 ---------LDVAIADAVISKKA---------SERIGRAALRIAEGRPRKTLHIAHKANV 173

Query: 214 LKSYDGRFKNIFNEIFEAEFKNQFDELGITYTHRLIDDMVASSIKW-SGGYIWACKNYDG 272
           L    G F +   E+ +       D   +     ++D+     +       +    N  G
Sbjct: 174 LPLTQGLFLDTVKEVAK-------DFPLVNVQDIIVDNCAMQLVMRPERFDVIVTTNLLG 226

Query: 273 DVQSDIVAQGFGSLGLMTSVLITADGKTMETEAAHGTVTRHYRQHQQGKETSTNSIASIF 332
           D+ SD+ A   G LGL  S        T   E  HG+      +         N  A+I 
Sbjct: 227 DILSDLAAGLVGGLGLAPS--GNIGDTTAVFEPVHGSAPDIAGKGI------ANPTAAIL 278

Query: 333 AWTRGLLHRAKLDENAELKKFAENLERVCIKTVEDGFMTKDLALLIGPEQDWLSTTDFIE 392
           +    L +          K+ A+ +E+     +E G  T DL    G      +T  F E
Sbjct: 279 SAAMMLDYLG-------EKEAAKRVEKAVDLVLERGPRTPDLG---GD----ATTEAFTE 324

Query: 393 KISDNLRD 400
            + + L+ 
Sbjct: 325 AVVEALKS 332


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
           acyl-carrier-protein, beta-ketoacyl reductase,
           beta-ketoacyl synthase, dehydratase; 4.00A
           {Saccharomyces cerevisiae}
          Length = 2006

 Score = 58.0 bits (140), Expect = 4e-09
 Identities = 62/400 (15%), Positives = 115/400 (28%), Gaps = 181/400 (45%)

Query: 120 LIPGWKKPIIIGRHAFGDQYR--------------ATDFQFPSKGKLILKFVG------- 158
           L+P               Q +              A D +  +  +L+ KF+G       
Sbjct: 21  LVP-------TASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVE 73

Query: 159 DDGQTIEKEV-------FDS---PGSGIAMAMYNLDDS-----------IRNF--ARAAM 195
                   +V       F++    G+ I      L              I+N+  AR   
Sbjct: 74  PSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMA 133

Query: 196 QYALARQLP--LYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQ------FDELGITY-TH 246
           +    ++    L+ +  +       G  +     +  A F  Q      F+EL   Y T+
Sbjct: 134 KRPFDKKSNSALFRAVGE-------GNAQ-----LV-AIFGGQGNTDDYFEELRDLYQTY 180

Query: 247 R-LIDDMVASS------------------------IKW------------------SG-- 261
             L+ D++  S                        ++W                  S   
Sbjct: 181 HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPL 240

Query: 262 -G------YIWACKNYD---GDVQSDIV-AQGFGSLGLMTSVLI-TADGKTMET--EAAH 307
            G      Y+   K      G+++S +  A G  S GL+T+V I   D  + E+   +  
Sbjct: 241 IGVIQLAHYVVTAKLLGFTPGELRSYLKGATGH-SQGLVTAVAIAETD--SWESFFVSVR 297

Query: 308 GTVTR----HYRQHQQGKETS------TNSIA----------SIFAWTRGLLHRAKLDE- 346
             +T       R ++    TS       +S+           SI       L + ++ + 
Sbjct: 298 KAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI----SN-LTQEQVQDY 352

Query: 347 ----NAELKKFAENLERVCIKTVEDGFMTKDLALLIGPEQ 382
               N+ L       ++V I            +L+ G + 
Sbjct: 353 VNKTNSHL---PAG-KQVEI------------SLVNGAKN 376



 Score = 41.5 bits (97), Expect = 3e-04
 Identities = 36/252 (14%), Positives = 67/252 (26%), Gaps = 109/252 (43%)

Query: 153 ILKFVGDDGQ------TIEKEVF-DS--PGSGIAMAMYNLDDSIRNFARAAMQYALA--- 200
           +L F+G          ++   +  DS     G+   M  L  SI N  +  +Q  +    
Sbjct: 302 VLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM--L--SISNLTQEQVQDYVNKTN 357

Query: 201 RQLP----LYLS---TKDTI--------LKSYDGRFKNI------------FNEIFEAEF 233
             LP    + +S       +        L   +   +              F+E  + +F
Sbjct: 358 SHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSE-RKLKF 416

Query: 234 KNQFDELGIT------Y----THRLIDDMVASSIKWSGGYIWACKNYDGDVQSDIVAQGF 283
            N+F  L +            +  +  D+V +++ ++                D      
Sbjct: 417 SNRF--LPVASPFHSHLLVPASDLINKDLVKNNVSFNA--------------KD------ 454

Query: 284 GSLGLMTSVLITADGKTMETEAAHGTVTRHYRQHQQGKETSTNSIASIFA--------WT 335
               +   V  T DG  +             R        S +    I          W 
Sbjct: 455 ----IQIPVYDTFDGSDL-------------RVL------SGSISERIVDCIIRLPVKWE 491

Query: 336 RGLLHRAK--LD 345
                +A   LD
Sbjct: 492 TTTQFKATHILD 503



 Score = 39.9 bits (93), Expect = 0.001
 Identities = 44/291 (15%), Positives = 78/291 (26%), Gaps = 155/291 (53%)

Query: 44  LSIQNRDLTDDQV--TIDA--AH---------AIKN--------------CGV-----GI 71
           LSI   +LT +QV   ++   +H         ++ N               G+       
Sbjct: 339 LSI--SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKA 396

Query: 72  KCATITADQARVKEFNLKKMWKSPNGTIRNILGGIIF--REPIICSNVPRLIPGWKKPII 129
           K  +   DQ+R+           P            F  R+    SN  R +P       
Sbjct: 397 KAPS-GLDQSRI-----------P------------FSERKLKF-SN--RFLP------- 422

Query: 130 IGRHA-FGDQY--RATDFQFPSKGKLILKFVGDDGQTIEKEVFDSPGSGIAMAMYNLDDS 186
           +   + F       A+D        LI K +  +  +            I + +Y+  D 
Sbjct: 423 VA--SPFHSHLLVPASD--------LINKDLVKNNVSF-------NAKDIQIPVYDTFDG 465

Query: 187 IRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFEAEFKNQFDELGITYTH 246
                                   D  L+   G   +I                    + 
Sbjct: 466 -----------------------SD--LRVLSG---SI--------------------SE 477

Query: 247 RLIDDMVASS-IKWSGGYIWACKNYDGDVQSDIVAQGFGS-----LGLMTS 291
           R++ D +    +KW          +     + I+   FG      LG++T 
Sbjct: 478 RIV-DCIIRLPVKWE-----TTTQFKA---THILD--FGPGGASGLGVLTH 517


>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
           acid synthase, acyl-carrier-protein, beta-ketoacyl
           reductase, beta-ketoacyl synthase, dehydratase; 4.00A
           {Saccharomyces cerevisiae}
          Length = 1688

 Score = 35.2 bits (80), Expect = 0.025
 Identities = 22/89 (24%), Positives = 35/89 (39%), Gaps = 10/89 (11%)

Query: 295 TADGKTMETEAAHGTVTRHYRQHQQGKETSTNSIASIFAWTR--GLLHRAKLDENAELKK 352
           T  G  M +E+     T   R H +          +I  WTR  GL+    +        
Sbjct: 633 TFGGDGMYSESKLSLETLFNRWHSESWANQLTVCGAIIGWTRGTGLMSANNI-------- 684

Query: 353 FAENLERVCIKTVEDGFMTKDLALLIGPE 381
            AE +E++ ++T     M  +L  L+ PE
Sbjct: 685 IAEGIEKMGVRTFSQKEMAFNLLGLLTPE 713


>1w0d_A 3-isopropylmalate dehydrogenase; oxidoreductase, leucine
           biosynthesis, NAD, structural genomics, PSI, protein
           structure initiative; 1.65A {Mycobacterium tuberculosis}
           SCOP: c.77.1.1 PDB: 2g4o_A
          Length = 337

 Score = 31.0 bits (69), Expect = 0.49
 Identities = 52/341 (15%), Positives = 95/341 (27%), Gaps = 41/341 (12%)

Query: 36  DIKIEYFDLSIQNRDLTDDQVTIDAAHAIKNCGVGIKCATITADQARVKEFNLKKMWKSP 95
            ++   +DL  +    T + +       ++N    +  A                + +  
Sbjct: 30  GVQKTSYDLGARRFHATGEVLPDSVVAELRNHDAILLGAIGDPSVPS------GVLERGL 83

Query: 96  NGTIRNILGGIIFREPIICSNVPRLIPGWKKPIIIGRHAFGDQYRATDFQFPSKGKLILK 155
              +R  L            N+        +P  +               F    +    
Sbjct: 84  LLRLRFELD--------HHINL--------RPARLYPGVASPLSGNPGIDFVVVREGTEG 127

Query: 156 FVGDDGQTIEKEVFDSPGSGIAMAMYNLDDSIRNFARAAMQYALARQLPLYLSTKDTILK 215
               +G  I      +P         N    +R     A + A  R+  L L  K  +L 
Sbjct: 128 PYTGNGGAIR---VGTPNEVATEVSVNTAFGVRRVVADAFERARRRRKHLTLVHKTNVLT 184

Query: 216 SYDGRFKNIFNEIFEAEFKNQFDELGITYTHRLIDDMVASSIKWSGGYIWACKNYDGDVQ 275
              G +    +E+ E     +       Y H     +   +       I    N  GD+ 
Sbjct: 185 FAGGLWLRTVDEVGECYPDVEVA-----YQHVDAATIHMITDPGRFDVI-VTDNLFGDII 238

Query: 276 SDIVAQGFGSLGLMTSVLITADGKTMET-EAAHGTVTRHYRQHQQGKETSTNSIASIFAW 334
           +D+ A   G +GL  S  I A        E  HG+          G+  + +  A+I + 
Sbjct: 239 TDLAAAVCGGIGLAASGNIDATRANPSMFEPVHGSA-----PDIAGQGIA-DPTAAIMSV 292

Query: 335 TRGLLHRAKLDENAELKKFAENLERVCIKTVEDGFMTKDLA 375
              L H   L E+    +    +E        +   T D+ 
Sbjct: 293 ALLLSH---LGEHDAAARVDRAVEAHLATRGSERLATSDVG 330


>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
           photosynthetic reaction center, peripheral antenna; HET:
           CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
          Length = 154

 Score = 30.0 bits (66), Expect = 1.1
 Identities = 11/48 (22%), Positives = 16/48 (33%), Gaps = 26/48 (54%)

Query: 151 KL--ILKFVGDDGQTIEKEVFDSPGSGIAMAMYNLDDSIRNFARAAMQ 196
           KL   LK   DD          +P    A+A+           +A M+
Sbjct: 24  KLQASLKLYADD---------SAP----ALAI-----------KATME 47



 Score = 29.2 bits (64), Expect = 2.0
 Identities = 10/26 (38%), Positives = 15/26 (57%), Gaps = 4/26 (15%)

Query: 343 KLDENAELKKFAEN-LERVCIK-TVE 366
           KL   A LK +A++    + IK T+E
Sbjct: 24  KL--QASLKLYADDSAPALAIKATME 47


>3ofq_U 50S ribosomal protein L24; protein biosynthesis, ribosomes, RNA,
           tRNA, transfer, antibi EXIT, peptidyl, ribosomal
           subunit, large; 3.10A {Escherichia coli} PDB: 2j28_U*
           3fik_U 2wwq_U 3ofr_U* 3i1n_U 1vs8_U 1vs6_U 1vt2_U 3i1p_U
           3i1r_U 3i1t_U 3i20_U 3i22_U 3kcr_U 3orb_U* 3e1b_O 3e1d_O
           2qam_U* 1p85_S 1p86_S ...
          Length = 102

 Score = 28.1 bits (63), Expect = 4.1
 Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 2/57 (3%)

Query: 76  ITADQARVKEFNLKKMWKSPNGTIRNILGGIIFRE-PIICSNVPRLIPGWKKPIIIG 131
           +++ +  V+  NL K  + P     N  GGI+ +E  I  SNV        K   +G
Sbjct: 28  LSSGKVIVEGINLVKKHQKPVPA-LNQPGGIVEKEAAIQVSNVAIFNAATGKADRVG 83


>1ovl_A Orphan nuclear receptor NURR1 (MSe 414, 496, 511); NUUR1, LBD,
           transcription; 2.20A {Homo sapiens} SCOP: a.123.1.1
          Length = 271

 Score = 28.1 bits (62), Expect = 4.2
 Identities = 12/81 (14%), Positives = 33/81 (40%), Gaps = 3/81 (3%)

Query: 329 ASIFAWTRGLLHRAKLDENAELKKFAENLERVCIKTVEDGFMTKDLALLIGPEQDWLSTT 388
            +     R    R   +    + +F+ NL+ + I       +    AL +  E+  L   
Sbjct: 138 CNGVVLHRLQCVRGFGEWIDSIVEFSSNLQNMNIDISAFSCIA---ALAMVTERHGLKEP 194

Query: 389 DFIEKISDNLRDALQKNLSIS 409
             +E++ + + + L+ +++ +
Sbjct: 195 KRVEELQNKIVNCLKDHVTFN 215


>3bj6_A Transcriptional regulator, MARR family; helix-turn-helix,
           trasnscription regulator, structural genomics, PSI-2;
           2.01A {Silicibacter pomeroyi dss-3}
          Length = 152

 Score = 27.8 bits (61), Expect = 4.3
 Identities = 12/95 (12%), Positives = 33/95 (34%), Gaps = 8/95 (8%)

Query: 76  ITADQARVKEFNLKKMWKSPNGTIRNILGGIIFREPIICSNVPRLIPGWKKPIIIGRHAF 135
           +T  Q  +    L+ +  +P  T   +         +    + R++   ++  +I R   
Sbjct: 38  VTVGQRAI----LEGLSLTPGATAPQLGA----ALQMKRQYISRILQEVQRAGLIERRTN 89

Query: 136 GDQYRATDFQFPSKGKLILKFVGDDGQTIEKEVFD 170
            +  R+  +    +G+ I+  +  D         +
Sbjct: 90  PEHARSHRYWLTPRGEAIITAIRADEMAKLALFSE 124


>3jt0_A Lamin-B1; structural genomics, PSI-2, protein structure initiative,
           northeast structural genomics consortium, NESG, HR5546A,
           LMNB1_human; 2.39A {Homo sapiens}
          Length = 144

 Score = 27.6 bits (61), Expect = 4.9
 Identities = 15/108 (13%), Positives = 37/108 (34%), Gaps = 18/108 (16%)

Query: 216 SYDGRFKNIFN------EIFEAEFKNQFDELGITYTHRLIDDMVASSIKWSGGY--IWAC 267
             DG+F  + N       +   E   +  +  ++Y         +  +  +G    IWA 
Sbjct: 34  DVDGKFIRLKNTSEQDQPMGGWEMIRKIGDTSVSYK------YTSRYVLKAGQTVTIWAA 87

Query: 268 K-NYDGDVQSDIVAQG---FGSLGLMTSVLITADGKTMETEAAHGTVT 311
                    +D++ +    +G+   +  +L  + G+ +   +     T
Sbjct: 88  NAGVTASPPTDLIWKNQNSWGTGEDVKVILKNSQGEEVAQRSTVFKTT 135


>3fn9_A Putative beta-galactosidase; structural genomics, glycosidase,
           hydrolase, PSI-2; 2.70A {Bacteroides fragilis nctc 9343}
          Length = 692

 Score = 27.5 bits (60), Expect = 5.4
 Identities = 9/55 (16%), Positives = 18/55 (32%)

Query: 236 QFDELGITYTHRLIDDMVASSIKWSGGYIWACKNYDGDVQSDIVAQGFGSLGLMT 290
            + E   T TH     ++         Y+W   ++   + +          GL+T
Sbjct: 508 FYPETFQTKTHEYQWSIIKDHPYIIASYLWNMFDFAVPMWTRGGVPARNMKGLIT 562


>3kmr_A Retinoic acid receptor alpha; nuclear receptor transcription factor
           ligand binding domain, binding, metal-binding, nucleus,
           phosphoprotein; HET: EQN; 1.80A {Homo sapiens} PDB:
           3kmz_B* 3a9e_B* 1xap_A* 2lbd_A* 3lbd_A* 4lbd_A*
          Length = 266

 Score = 27.7 bits (61), Expect = 5.6
 Identities = 15/71 (21%), Positives = 30/71 (42%), Gaps = 3/71 (4%)

Query: 335 TRGLLHRAKLDENAE-LKKFAENLERVCIKTVEDGFMTKDLALLIGPEQDWLSTTDFIEK 393
            R  +H A      + +  FA  L  + +   E G ++     LI  ++  L   D ++ 
Sbjct: 138 NRTQMHNAGFGPLTDLVFAFANQLLPLEMDDAETGLLSA--ICLICGDRQDLEQPDRVDM 195

Query: 394 ISDNLRDALQK 404
           + + L +AL+ 
Sbjct: 196 LQEPLLEALKV 206


>2uva_G Fatty acid synthase beta subunits; fungal, dehydratase, enoyl
           reductase, ketoacyl synthase, ketoacyl reductase; HET:
           FMN; 3.10A {Thermomyces lanuginosus} PDB: 2uvc_G*
          Length = 2060

 Score = 27.1 bits (60), Expect = 7.1
 Identities = 13/77 (16%), Positives = 36/77 (46%)

Query: 141 ATDFQFPSKGKLILKFVGDDGQTIEKEVFDSPGSGIAMAMYNLDDSIRNFARAAMQYALA 200
           A D +  S  +L+ +++      +++   D+  + + +    L++  R F R    +A+A
Sbjct: 46  AQDDEPSSVVELVARYIAFVAHEVDEGDEDAHPTNLEVLKLILNEFERAFMRGNDVHAIA 105

Query: 201 RQLPLYLSTKDTILKSY 217
             +    + K  ++++Y
Sbjct: 106 ANVAGITAKKIGVVRAY 122


>2wa0_A Melanoma-associated antigen 4; immune system, multiple anomalous
           dispersion, cancer/testis antigen 1.4, melanoma antigen
           family A 4, CT1.4, MAGE-41; 2.30A {Homo sapiens}
          Length = 240

 Score = 27.1 bits (60), Expect = 7.3
 Identities = 10/48 (20%), Positives = 18/48 (37%)

Query: 183 LDDSIRNFARAAMQYALARQLPLYLSTKDTILKSYDGRFKNIFNEIFE 230
             +++ N       + L +     L TK  +L+     +K  F  IF 
Sbjct: 29  FREALSNKVDELAHFLLRKYRAKELVTKAEMLERVIKNYKRCFPVIFG 76


>1q87_A 39 kDa initiator binding protein; INR, core promoter, DNA binding
           protein; 2.32A {Trichomonas vaginalis} SCOP: e.47.1.1
           PDB: 1q88_A 1q89_A
          Length = 221

 Score = 26.9 bits (59), Expect = 7.8
 Identities = 8/41 (19%), Positives = 18/41 (43%)

Query: 293 LITADGKTMETEAAHGTVTRHYRQHQQGKETSTNSIASIFA 333
           L      T+  +        +++Q +Q K+ +   I++I A
Sbjct: 46  LTQKTDGTVMRDFLIEKAAEYFKQPEQPKQNAIEVISAIMA 86


>1s9a_A Pyrocatechase, chlorocatechol 1,2-dioxygenase; beta barrel,
           oxidoreductase; HET: HGP TAM; 2.47A {Rhodococcus opacus}
           SCOP: b.3.6.1
          Length = 257

 Score = 26.9 bits (59), Expect = 9.1
 Identities = 16/79 (20%), Positives = 31/79 (39%), Gaps = 3/79 (3%)

Query: 95  PNGTIRNILGGIIFREPIICSNVPRLIPGWKKPIIIGRHAF-GDQYRATDFQFPSKGKLI 153
             G    ++   + R     +++   I       +I +  F GD Y  +D     K +L+
Sbjct: 173 KAGPTGQLMNSYLGRHSWRPAHIHIRITADGYRPLITQLYFEGDPYLDSDSCSAVKSELV 232

Query: 154 LKF--VGDDGQTIEKEVFD 170
           L    +  DG+T +   F+
Sbjct: 233 LPVNKIDIDGETWQLVDFN 251


  Database: pdb70
    Posted date:  Jan 26, 2011 11:21 AM
  Number of letters in database: 5,693,230
  Number of sequences in database:  24,244
  
Lambda     K      H
   0.320    0.137    0.404 

Gapped
Lambda     K      H
   0.267   0.0697    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 3,698,100
Number of extensions: 177340
Number of successful extensions: 808
Number of sequences better than 10.0: 1
Number of HSP's gapped: 758
Number of HSP's successfully gapped: 43
Length of query: 412
Length of database: 5,693,230
Length adjustment: 95
Effective length of query: 317
Effective length of database: 3,390,050
Effective search space: 1074645850
Effective search space used: 1074645850
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 (26.2 bits)