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= psy15173
         (131 letters)

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

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



>pdb|3UMV|A Chain A, Eukaryotic Class Ii Cpd Photolyase Structure Reveals A
           Basis For Improved Uv-Tolerance In Plants
 pdb|3UMV|B Chain B, Eukaryotic Class Ii Cpd Photolyase Structure Reveals A
           Basis For Improved Uv-Tolerance In Plants
          Length = 506

 Score = 75.5 bits (184), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 33/59 (55%), Positives = 42/59 (71%)

Query: 72  QRAVLEVRRVLPKHSKAVDSFCEEAIVRRELADNFCYYNKNYDKVEGAFDWAKKTLNDH 130
           QR  LE ++      K+VD+F EE +VRRELADNFCYY   YD + GA++WA+KTL DH
Sbjct: 296 QRCALEAKKCRHLSPKSVDAFLEELVVRRELADNFCYYQPQYDSLSGAWEWARKTLMDH 354



 Score = 31.6 bits (70), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 1/64 (1%)

Query: 20  FHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLPKDVPLIQRAVLEVR 79
           F    GG  EI P  V++     +V DF PLR      D +  DL ++ P +    ++  
Sbjct: 111 FFLFTGGPAEI-PALVQRLGASTLVADFSPLRPVREALDAVVGDLRREAPGVAVHQVDAH 169

Query: 80  RVLP 83
            V+P
Sbjct: 170 NVVP 173


>pdb|2XRY|A Chain A, X-Ray Structure Of Archaeal Class Ii Cpd Photolyase From
           Methanosarcina Mazei
 pdb|2XRZ|A Chain A, X-Ray Structure Of Archaeal Class Ii Cpd Photolyase From
           Methanosarcina Mazei In Complex With Intact Cpd-Lesion
 pdb|2XRZ|B Chain B, X-Ray Structure Of Archaeal Class Ii Cpd Photolyase From
           Methanosarcina Mazei In Complex With Intact Cpd-Lesion
          Length = 482

 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 26/60 (43%), Positives = 38/60 (63%), Gaps = 1/60 (1%)

Query: 72  QRAVLEVRRVLPKHSKAVDSFCEEAIVRRELADNFCYYNKNYDKVEGAFDWAKKTLNDHR 131
           QR VLEV +    +  +  +F +E ++ +E++DNFCYYN  YD  E    WAK++LN HR
Sbjct: 297 QRVVLEVEKA-ESNPGSKKAFLDEILIWKEISDNFCYYNPGYDGFESFPSWAKESLNAHR 355



 Score = 35.8 bits (81), Expect = 0.007,   Method: Compositional matrix adjust.
 Identities = 25/94 (26%), Positives = 42/94 (44%), Gaps = 11/94 (11%)

Query: 5   GLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64
           GL+E+     +  I   FL G   E + +FV+ +  G +V DF PLR    W + +   +
Sbjct: 93  GLQELEVSLSRKKIPSFFLRGDPGEKISRFVKDYNAGTLVTDFSPLRIKNQWIEKVISGI 152

Query: 65  PKDVPLIQRAVLEVRRVLP------KHSKAVDSF 92
              +P  +   ++   V+P      KH  A  +F
Sbjct: 153 --SIPFFE---VDAHNVVPCWEASQKHEYAAHTF 181


>pdb|3SWX|A Chain A, Crystal Structure Of A Probable Enoyl-Coa
           HydrataseISOMERASE FROM Mycobacterium Abscessus
 pdb|3SWX|B Chain B, Crystal Structure Of A Probable Enoyl-Coa
           HydrataseISOMERASE FROM Mycobacterium Abscessus
 pdb|3SWX|C Chain C, Crystal Structure Of A Probable Enoyl-Coa
           HydrataseISOMERASE FROM Mycobacterium Abscessus
          Length = 265

 Score = 30.0 bits (66), Expect = 0.41,   Method: Compositional matrix adjust.
 Identities = 18/64 (28%), Positives = 34/64 (53%), Gaps = 4/64 (6%)

Query: 35  VEKHKLGAVVIDFMPLREHMGWADTLKKDLPKDVPLIQRAVLEVRRVLPKHSKAVDSFCE 94
           VE H++G +V + +P+ EH+  A  + + + +  PL  +A L   R+  +     D+  E
Sbjct: 176 VEAHRIG-IVQEIVPVGEHVDTAIAIAQTIARQAPLGVQATLRNARLAVREG---DAAAE 231

Query: 95  EAIV 98
           E +V
Sbjct: 232 EQLV 235


>pdb|1VRD|A Chain A, Crystal Structure Of Inosine-5'-Monophosphate
           Dehydrogenase (Tm1347) From Thermotoga Maritima At 2.18
           A Resolution
 pdb|1VRD|B Chain B, Crystal Structure Of Inosine-5'-Monophosphate
           Dehydrogenase (Tm1347) From Thermotoga Maritima At 2.18
           A Resolution
          Length = 494

 Score = 28.9 bits (63), Expect = 0.83,   Method: Composition-based stats.
 Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 3/68 (4%)

Query: 64  LPKDVPLIQRAVLEVRRVLPKHSKAVDSFCEEAIVR---RELADNFCYYNKNYDKVEGAF 120
           LPKDV +  R   ++R  +P  S A+D+  E A+ +   RE      + N   D+     
Sbjct: 32  LPKDVKIDTRLTRQIRINIPLVSAAMDTVTEAALAKALAREGGIGIIHKNLTPDEQARQV 91

Query: 121 DWAKKTLN 128
              KKT N
Sbjct: 92  SIVKKTEN 99


>pdb|1X87|A Chain A, 2.4a X-Ray Structure Of Urocanase Protein Complexed With
           Nad
 pdb|1X87|B Chain B, 2.4a X-Ray Structure Of Urocanase Protein Complexed With
           Nad
          Length = 551

 Score = 27.3 bits (59), Expect = 2.6,   Method: Composition-based stats.
 Identities = 31/99 (31%), Positives = 42/99 (42%), Gaps = 15/99 (15%)

Query: 7   KEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMP--LREHMGWADTLKKDL 64
           K+  E+ K L+I    L+G A E+LP+ VE          F+P  L +     D L   +
Sbjct: 222 KQAKEEKKALSIG---LVGNAAEVLPRLVET--------GFVPDVLTDQTSAHDPLNGYI 270

Query: 65  PKDVPLIQRAVLEVRRVLPKHSKAVDSFCEEAIVRRELA 103
           P  + L + A L  R   PK   A       A VR  LA
Sbjct: 271 PAGLTLDEAAELRARD--PKQYIARAKQSIAAHVRAXLA 307


>pdb|1WH7|A Chain A, Solution Structure Of Homeobox Domain Of Arabidopsis
           Thaliana Hypothetical Protein F22k18.140
          Length = 80

 Score = 26.9 bits (58), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 12/31 (38%), Positives = 17/31 (54%)

Query: 88  AVDSFCEEAIVRRELADNFCYYNKNYDKVEG 118
           AV+ FC E  VRR++   + + NKN     G
Sbjct: 50  AVEQFCAETGVRRQVLKIWMHNNKNSGPSSG 80


>pdb|4D9I|A Chain A, Crystal Structure Of Holo Diaminopropionate Ammonia Lyase
           From Escherichia Coli
 pdb|4D9I|B Chain B, Crystal Structure Of Holo Diaminopropionate Ammonia Lyase
           From Escherichia Coli
 pdb|4D9N|A Chain A, Crystal Structure Of Diaminopropionate Ammonia Lyase From
           Escherichia Coli In Complex With D-Serine
 pdb|4D9N|B Chain B, Crystal Structure Of Diaminopropionate Ammonia Lyase From
           Escherichia Coli In Complex With D-Serine
          Length = 398

 Score = 25.4 bits (54), Expect = 9.9,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 27/54 (50%), Gaps = 2/54 (3%)

Query: 4   LGLKE--VHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMG 55
            G+K+  V ++ K+  +    ++GGA+ I     EK+ L    + F  L+  +G
Sbjct: 57  FGVKKILVKDESKRFGLNAFXMLGGAYAIAQLLCEKYHLDIETLSFEHLKNAIG 110


  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
   0.323    0.140    0.432 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,076,785
Number of Sequences: 62578
Number of extensions: 155361
Number of successful extensions: 351
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 339
Number of HSP's gapped (non-prelim): 15
length of query: 131
length of database: 14,973,337
effective HSP length: 88
effective length of query: 43
effective length of database: 9,466,473
effective search space: 407058339
effective search space used: 407058339
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 46 (22.3 bits)