BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 021589
         (310 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|1ZKD|A Chain A, X-ray Structure Of The Putative Protein Q6n1p6 From
           Rhodopseudomonas Palustris At The Resolution 2.1 A ,
           Northeast Structural Genomics Consortium Target Rpr58
 pdb|1ZKD|B Chain B, X-ray Structure Of The Putative Protein Q6n1p6 From
           Rhodopseudomonas Palustris At The Resolution 2.1 A ,
           Northeast Structural Genomics Consortium Target Rpr58
          Length = 387

 Score =  150 bits (378), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 76/209 (36%), Positives = 114/209 (54%), Gaps = 21/209 (10%)

Query: 83  ESELVKHLKGIIKFRGGPISVAEYMEEVLTNPKAGFYINRDVFGAEGDFITSPEVSQMFG 142
           ++ L   +K +IK   GP  V  Y E  L +P+ G+Y+ RD  G EGDF TSPE+SQ FG
Sbjct: 4   QTALATEIKRLIK-AAGPXPVWRYXELCLGHPEHGYYVTRDPLGREGDFTTSPEISQXFG 62

Query: 143 EMVGVWAMCLWEQMGQPNRVNLVELGPGRGTLMADLLRGASKFKNFTESLHIHLVECSPT 202
           E++G+W+  +W+   +P  + L+E+GPGRGT  AD LR         +SL +HLVE +P 
Sbjct: 63  ELLGLWSASVWKAADEPQTLRLIEIGPGRGTXXADALRALRVLPILYQSLSVHLVEINPV 122

Query: 203 LQKLQHHNLKCMDENNANDNVEERTISSLAGTPVSWHAALEQVPSGFPTIIVAHEFYDAL 262
           L++ Q   L  +                     + WH + E VP G P +I+A+E++D L
Sbjct: 123 LRQKQQTLLAGIRN-------------------IHWHDSFEDVPEG-PAVILANEYFDVL 162

Query: 263 PVHQFQKTTRGWCEKLVDIAEDSSAASGL 291
           P+HQ  K   GW E++++I        G+
Sbjct: 163 PIHQAIKRETGWHERVIEIGASGELVFGV 191


>pdb|4F3N|A Chain A, High Resolution Native Crystal Structure Of An
           Uncharacterized Acr, Cog1565 Superfamily Protein From
           Burkholderia Thailandensis, Solved By Iodide Ion Sad
 pdb|4G67|A Chain A, Crystal Structure Of A Cog1565 Superfamily Member And
           Likely Methyl Transferase From Burkholderia
           Thailandensis Bound To S-Adenosyl- Homocysteine
          Length = 432

 Score = 62.0 bits (149), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 60/207 (28%), Positives = 87/207 (42%), Gaps = 28/207 (13%)

Query: 86  LVKHLKGIIKFRGGPISVAEYMEEVLTNPKAGFYIN-RDVFGAEGD----FITSPEVSQM 140
           L   L+  I   GG I  + YME VL  P  G+Y      FG   D    F+T+PE+S +
Sbjct: 61  LAASLRAEIASAGGWIPFSRYMERVLYAPGMGYYSGGAQKFGRRADDGSDFVTAPELSPL 120

Query: 141 FGEMVGVWAMCLWEQMGQPNRVNLVELGPGRGTLMADLLRGASKFKNFTESLHIHLVECS 200
           F + +   A  + + +       ++E G G G L A LL   +      E     +V+ S
Sbjct: 121 FAQTL---ARPVAQALDASGTRRVMEFGAGTGKLAAGLL--TALAALGVELDEYAIVDLS 175

Query: 201 PTLQKLQHHNLKCMDENNANDNVEERTISSLAGTPVSWHAALEQVPSGFPTIIVAHEFYD 260
             L+  Q   L       A                V W   L+ +P  F  ++V +E  D
Sbjct: 176 GELRARQRETLGAQAPGLA--------------ARVRW---LDALPERFEGVVVGNEVLD 218

Query: 261 ALPVHQFQKTTRGWCEKLVDIAEDSSA 287
           A+PV    K  RGWCE+ V I +D+ A
Sbjct: 219 AMPVRLVAKQARGWCERGVSI-DDAGA 244


>pdb|2Y3Z|A Chain A, Structure Of Isopropylmalate Dehydrogenase From Thermus
           Thermophilus - Apo Enzyme
 pdb|2Y40|A Chain A, Structure Of Isopropylmalate Dehydrogenase From Thermus
           Thermophilus - Complex With Mn
 pdb|2Y40|B Chain B, Structure Of Isopropylmalate Dehydrogenase From Thermus
           Thermophilus - Complex With Mn
 pdb|2Y41|A Chain A, Structure Of Isopropylmalate Dehydrogenase From Thermus
           Thermophilus - Complex With Ipm And Mn
 pdb|2Y41|B Chain B, Structure Of Isopropylmalate Dehydrogenase From Thermus
           Thermophilus - Complex With Ipm And Mn
 pdb|2Y42|A Chain A, Structure Of Isopropylmalate Dehydrogenase From Thermus
           Thermophilus - Complex With Nadh And Mn
 pdb|2Y42|B Chain B, Structure Of Isopropylmalate Dehydrogenase From Thermus
           Thermophilus - Complex With Nadh And Mn
 pdb|2Y42|C Chain C, Structure Of Isopropylmalate Dehydrogenase From Thermus
           Thermophilus - Complex With Nadh And Mn
 pdb|2Y42|D Chain D, Structure Of Isopropylmalate Dehydrogenase From Thermus
           Thermophilus - Complex With Nadh And Mn
 pdb|4F7I|A Chain A, Structure Of Isopropylmalate Dehydrogenase From Thermus
           Thermophilus In Complex With Ipm, Mn And Nadh
 pdb|4F7I|B Chain B, Structure Of Isopropylmalate Dehydrogenase From Thermus
           Thermophilus In Complex With Ipm, Mn And Nadh
 pdb|4F7I|C Chain C, Structure Of Isopropylmalate Dehydrogenase From Thermus
           Thermophilus In Complex With Ipm, Mn And Nadh
 pdb|4F7I|D Chain D, Structure Of Isopropylmalate Dehydrogenase From Thermus
           Thermophilus In Complex With Ipm, Mn And Nadh
          Length = 359

 Score = 31.6 bits (70), Expect = 0.66,   Method: Compositional matrix adjust.
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 238 WHAALEQVPSGFPTIIVAHEFYDALPVHQFQKTTR 272
           W   +E+V  G+P + + H++ DA+ +H  +   R
Sbjct: 198 WRKTVEEVGRGYPDVALEHQYVDAMAMHLVRSPAR 232


>pdb|1DR8|A Chain A, Structure Of Modified 3-Isopropylmalate Dehydrogenase At
           The C- Terminus, Hd177
 pdb|1DR8|B Chain B, Structure Of Modified 3-Isopropylmalate Dehydrogenase At
           The C- Terminus, Hd177
          Length = 344

 Score = 31.6 bits (70), Expect = 0.66,   Method: Compositional matrix adjust.
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 238 WHAALEQVPSGFPTIIVAHEFYDALPVHQFQKTTR 272
           W   +E+V  G+P + + H++ DA+ +H  +   R
Sbjct: 195 WRKTVEEVGRGYPDVALEHQYVDAMAMHLVRSPAR 229


>pdb|1GC9|A Chain A, The Crystal Structure Of Thermus Thermophilus
           3-Isopropylmalate Dehydrogenase Mutated At 172th From
           Ala To Gly
          Length = 345

 Score = 31.6 bits (70), Expect = 0.66,   Method: Compositional matrix adjust.
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 238 WHAALEQVPSGFPTIIVAHEFYDALPVHQFQKTTR 272
           W   +E+V  G+P + + H++ DA+ +H  +   R
Sbjct: 195 WRKTVEEVGRGYPDVALEHQYVDAMAMHLVRSPAR 229


>pdb|1OSI|A Chain A, Structure Of 3-Isopropylmalate Dehydrogenase
 pdb|1OSI|B Chain B, Structure Of 3-Isopropylmalate Dehydrogenase
 pdb|1OSI|C Chain C, Structure Of 3-Isopropylmalate Dehydrogenase
 pdb|1OSI|D Chain D, Structure Of 3-Isopropylmalate Dehydrogenase
 pdb|1HEX|A Chain A, Structure Of 3-Isopropylmalate Dehydrogenase In Complex
           With Nad+: Ligand-Induced Loop-Closing And Mechanism For
           Cofactor Specificity
 pdb|1XAA|A Chain A, 3-Isopropylmalate Dehydrogenase, Low Temperature (100k)
           Structure
 pdb|1XAB|A Chain A, 3-Isopropylmalate Dehydrogenase, Low Temperature (150k)
           Structure
 pdb|2ZTW|A Chain A, Structure Of 3-Isopropylmalate Dehydrogenase In Complex
           With The Inhibitor And Nad+
          Length = 345

 Score = 31.2 bits (69), Expect = 0.67,   Method: Compositional matrix adjust.
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 238 WHAALEQVPSGFPTIIVAHEFYDALPVHQFQKTTR 272
           W   +E+V  G+P + + H++ DA+ +H  +   R
Sbjct: 195 WRKTVEEVGRGYPDVALEHQYVDAMAMHLVRSPAR 229


>pdb|1IPD|A Chain A, Three-Dimensional Structure Of A Highly Thermostable
           Enzyme, 3- Isopropylmalate Dehydrogenase Of Thermus
           Thermophilus At 2.2 Angstroms Resolution
          Length = 345

 Score = 31.2 bits (69), Expect = 0.67,   Method: Compositional matrix adjust.
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 238 WHAALEQVPSGFPTIIVAHEFYDALPVHQFQKTTR 272
           W   +E+V  G+P + + H++ DA+ +H  +   R
Sbjct: 195 WRKTVEEVGRGYPDVALEHQYVDAMAMHLVRSPAR 229


>pdb|1OSJ|A Chain A, Structure Of 3-isopropylmalate Dehydrogenase
 pdb|1OSJ|B Chain B, Structure Of 3-isopropylmalate Dehydrogenase
          Length = 345

 Score = 31.2 bits (69), Expect = 0.68,   Method: Compositional matrix adjust.
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 238 WHAALEQVPSGFPTIIVAHEFYDALPVHQFQKTTR 272
           W   +E+V  G+P + + H++ DA+ +H  +   R
Sbjct: 195 WRKTVEEVGRGYPDVALEHQYVDAMAMHLVRSPAR 229


>pdb|1G2U|A Chain A, The Structure Of The Mutant, A172v, Of 3-Isopropylmalate
           Dehydrogenase From Thermus Thermophilus Hb8 : Its
           Thermostability And Structure
          Length = 345

 Score = 31.2 bits (69), Expect = 0.69,   Method: Compositional matrix adjust.
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 238 WHAALEQVPSGFPTIIVAHEFYDALPVHQFQKTTR 272
           W   +E+V  G+P + + H++ DA+ +H  +   R
Sbjct: 195 WRKTVEEVGRGYPDVALEHQYVDAMAMHLVRSPAR 229


>pdb|1XAC|A Chain A, Chimera Isopropylmalate Dehydrogenase Between Bacillus
           Subtilis (M) And Thermus Thermophilus (T) From
           N-Terminal: 20% T Middle 20% M Residual 60% T, Mutated
           At S82r. Low Temperature (100k) Structure.
 pdb|1XAD|A Chain A, Chimera Isopropylmalate Dehydrogenase Between Bacillus
           Subtilis (M) And Thermus Thermophilus (T) From
           N-Terminal: 20% T Middle 20% M Residual 60% T, Mutated
           At S82r. Low Temperature (150k) Structure
          Length = 345

 Score = 31.2 bits (69), Expect = 0.70,   Method: Compositional matrix adjust.
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 238 WHAALEQVPSGFPTIIVAHEFYDALPVHQFQKTTR 272
           W   +E+V  G+P + + H++ DA+ +H  +   R
Sbjct: 195 WRKTVEEVGRGYPDVALEHQYVDAMAMHLVRSPAR 229


>pdb|1DR0|A Chain A, Structure Of Modified 3-isopropylmalate Dehydrogenase At
           The C- Terminus, Hd708
 pdb|1DR0|B Chain B, Structure Of Modified 3-isopropylmalate Dehydrogenase At
           The C- Terminus, Hd708
          Length = 346

 Score = 31.2 bits (69), Expect = 0.71,   Method: Compositional matrix adjust.
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 238 WHAALEQVPSGFPTIIVAHEFYDALPVHQFQKTTR 272
           W   +E+V  G+P + + H++ DA+ +H  +   R
Sbjct: 195 WRKTVEEVGRGYPDVALEHQYVDAMAMHLVRSPAR 229


>pdb|1IDM|A Chain A, 3-Isopropylmalate Dehydrogenase, Loop-Deleted Chimera
          Length = 343

 Score = 31.2 bits (69), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 238 WHAALEQVPSGFPTIIVAHEFYDALPVHQFQKTTR 272
           W   +E+V  G+P + + H++ DA+ +H  +   R
Sbjct: 193 WRKTVEEVGRGYPDVALEHQYVDAMAMHLVRSPAR 227


>pdb|1GC8|A Chain A, The Crystal Structure Of Thermus Thermophilus
           3-Isopropylmalate Dehydrogenase Mutated At 172th From
           Ala To Phe
 pdb|1GC8|B Chain B, The Crystal Structure Of Thermus Thermophilus
           3-Isopropylmalate Dehydrogenase Mutated At 172th From
           Ala To Phe
          Length = 345

 Score = 31.2 bits (69), Expect = 0.74,   Method: Compositional matrix adjust.
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 238 WHAALEQVPSGFPTIIVAHEFYDALPVHQFQKTTR 272
           W   +E+V  G+P + + H++ DA+ +H  +   R
Sbjct: 195 WRKTVEEVGRGYPDVALEHQYVDAMAMHLVRSPAR 229


>pdb|1DPZ|A Chain A, Stucture Of Modified 3-Isopropylmalate Dehydrogenase At
           The C- Terminus, Hd711
 pdb|1DPZ|B Chain B, Stucture Of Modified 3-Isopropylmalate Dehydrogenase At
           The C- Terminus, Hd711
          Length = 349

 Score = 31.2 bits (69), Expect = 0.75,   Method: Compositional matrix adjust.
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 238 WHAALEQVPSGFPTIIVAHEFYDALPVHQFQKTTR 272
           W   +E+V  G+P + + H++ DA+ +H  +   R
Sbjct: 195 WRKTVEEVGRGYPDVALEHQYVDAMAMHLVRSPAR 229


>pdb|1WAL|A Chain A, 3-Isopropylmalate Dehydrogenase (Ipmdh) Mutant (M219a)from
           Thermus Thermophilus
          Length = 345

 Score = 30.0 bits (66), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 10/35 (28%), Positives = 19/35 (54%)

Query: 238 WHAALEQVPSGFPTIIVAHEFYDALPVHQFQKTTR 272
           W   +E+V  G+P + + H++ DA  +H  +   R
Sbjct: 195 WRKTVEEVGRGYPDVALEHQYVDAAAMHLVRSPAR 229


>pdb|1XMX|A Chain A, Crystal Structure Of Protein Vc1899 From Vibrio Cholerae
          Length = 385

 Score = 28.1 bits (61), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 37/145 (25%), Positives = 52/145 (35%), Gaps = 38/145 (26%)

Query: 124 VFGAEGDF---ITSPEVSQMFGEMVGVWAMCLWEQMGQPNRVNLVELGPGRGTL--MADL 178
           +FGA G+F     SP++ Q   ++   WA             N +ELGPG  TL  +A  
Sbjct: 150 IFGARGEFNEHQLSPQLDQQLYQLGERWAS------------NALELGPGLATLNYLATT 197

Query: 179 LRGASKFKNFTESLHIHLVECSPTLQKLQHHNLKCMDENNAN-----------DNVEERT 227
            R   K            VE S   Q  +  NL   D   A             N E R 
Sbjct: 198 CRKEQKLD----------VELSDKQQGYRELNLLLSDLVEAKIASYENGILTFINEEARR 247

Query: 228 ISSLAGTPVSWHAALEQVPSGFPTI 252
            ++        H+ ++Q+    PTI
Sbjct: 248 FANGEWLETLVHSTVKQIQDDMPTI 272


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.318    0.133    0.406 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,301,247
Number of Sequences: 62578
Number of extensions: 372811
Number of successful extensions: 727
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 708
Number of HSP's gapped (non-prelim): 16
length of query: 310
length of database: 14,973,337
effective HSP length: 99
effective length of query: 211
effective length of database: 8,778,115
effective search space: 1852182265
effective search space used: 1852182265
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)