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= 042021
         (125 letters)

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

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



>pdb|1WS7|A Chain A, Crystal Structure Of Mavicyanin From Cucurbita Pepo
           Medullosa (Zucchini)
 pdb|1WS7|B Chain B, Crystal Structure Of Mavicyanin From Cucurbita Pepo
           Medullosa (Zucchini)
 pdb|1WS7|C Chain C, Crystal Structure Of Mavicyanin From Cucurbita Pepo
           Medullosa (Zucchini)
 pdb|1WS7|D Chain D, Crystal Structure Of Mavicyanin From Cucurbita Pepo
           Medullosa (Zucchini)
 pdb|1WS8|A Chain A, Crystal Structure Of Mavicyanin From Cucurbita Pepo
           Medullosa (zucchini)
 pdb|1WS8|B Chain B, Crystal Structure Of Mavicyanin From Cucurbita Pepo
           Medullosa (zucchini)
 pdb|1WS8|C Chain C, Crystal Structure Of Mavicyanin From Cucurbita Pepo
           Medullosa (zucchini)
 pdb|1WS8|D Chain D, Crystal Structure Of Mavicyanin From Cucurbita Pepo
           Medullosa (zucchini)
          Length = 109

 Score = 87.4 bits (215), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 42/98 (42%), Positives = 56/98 (57%), Gaps = 2/98 (2%)

Query: 28  VGDDSGWT--VGFDYQAWAKGKVFHVGDKLVFQYPVGAHNVFKVNGTAFQNCQKPPLREA 85
           VGD +GWT  V +DY  WA    FHVGD L+F Y    HNV +V+   F++C       +
Sbjct: 7   VGDSTGWTTLVPYDYAKWASSNKFHVGDSLLFNYNNKFHNVLQVDQEQFKSCNSSSPAAS 66

Query: 86  LTTGNDVIVLATPGRKWYICGVRNHCNYGQKLVITVLP 123
            T+G D I L  PG  +++CG+  HC  GQK+ I V P
Sbjct: 67  YTSGADSIPLKRPGTFYFLCGIPGHCQLGQKVEIKVDP 104


>pdb|1X9R|A Chain A, Umecyanin From Horse Raddish- Crystal Structure Of The
           Oxidised Form
 pdb|1X9R|B Chain B, Umecyanin From Horse Raddish- Crystal Structure Of The
           Oxidised Form
 pdb|1X9U|A Chain A, Umecyanin From Horse Raddish- Crystal Structure Of The
           Reduced Form
 pdb|1X9U|B Chain B, Umecyanin From Horse Raddish- Crystal Structure Of The
           Reduced Form
          Length = 116

 Score = 76.3 bits (186), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 43/98 (43%), Positives = 53/98 (54%), Gaps = 3/98 (3%)

Query: 28  VGDDSGWTVGFD---YQAWAKGKVFHVGDKLVFQYPVGAHNVFKVNGTAFQNCQKPPLRE 84
           VG D  W    D   Y  WA GK F VGD+L F +  G H+V  V   AF NC+K     
Sbjct: 6   VGGDMEWKRPSDPKFYITWATGKTFRVGDELEFDFAAGMHDVAVVTKDAFDNCKKENPIS 65

Query: 85  ALTTGNDVIVLATPGRKWYICGVRNHCNYGQKLVITVL 122
            +TT    I+L T G ++YIC V +HC  GQKL I V+
Sbjct: 66  HMTTPPVKIMLNTTGPQYYICTVGDHCRVGQKLSINVV 103


>pdb|2CBP|A Chain A, Cucumber Basic Protein, A Blue Copper Protein
          Length = 96

 Score = 70.1 bits (170), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 37/95 (38%), Positives = 48/95 (50%), Gaps = 3/95 (3%)

Query: 28  VGDDSGWTVGFDYQAWAKGKVFHVGDKLVFQYPVGAHNVFKVNGTAFQNCQKPPLREALT 87
           VG   GWT  F+ ++W KGK F  GD L+F Y    HNV  VN   F  C  P   +  T
Sbjct: 5   VGGSGGWT--FNTESWPKGKRFRAGDILLFNYNPSMHNVVVVNQGGFSTCNTPAGAKVYT 62

Query: 88  TGNDVIVLATPGRKWYICGVRNHCNYGQKLVITVL 122
           +G D I L   G+ ++IC    HC  G K+ +  L
Sbjct: 63  SGRDQIKLPK-GQSYFICNFPGHCQSGMKIAVNAL 96


>pdb|1JER|A Chain A, Cucumber Stellacyanin, Cu2+, Ph 7.0
          Length = 138

 Score = 64.7 bits (156), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 38/100 (38%), Positives = 52/100 (52%), Gaps = 5/100 (5%)

Query: 28  VGDDSGWTVGFD---YQAWAKGKVFHVGDKLVFQYPVGAHNVFKVNGT-AFQNCQKPPLR 83
           VGD++GW+V      Y  WA GK F VGD L F +P  AHNV ++    +F  C      
Sbjct: 8   VGDNTGWSVPSSPNFYSQWAAGKTFRVGDSLQFNFPANAHNVHEMETKQSFDACNFVNSD 67

Query: 84  EALTTGNDVIV-LATPGRKWYICGVRNHCNYGQKLVITVL 122
             +   + VI  L   G  +++C V  HC+ GQKL I V+
Sbjct: 68  NDVERTSPVIERLDELGMHYFVCTVGTHCSNGQKLSINVV 107


>pdb|1F56|A Chain A, Spinach Plantacyanin
 pdb|1F56|B Chain B, Spinach Plantacyanin
 pdb|1F56|C Chain C, Spinach Plantacyanin
          Length = 91

 Score = 63.5 bits (153), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 32/78 (41%), Positives = 42/78 (53%), Gaps = 1/78 (1%)

Query: 44  AKGKVFHVGDKLVFQYPVGAHNVFKVNGTAFQNCQKPPLREALTTGNDVIVLATPGRKWY 103
           A+GK F  GD LVF+Y  G HNV  VNG  + +C  P      ++G D I L T G+ ++
Sbjct: 14  ARGKSFRAGDVLVFKYIKGQHNVVAVNGRGYASCSAPRGARTYSSGQDRIKL-TRGQNYF 72

Query: 104 ICGVRNHCNYGQKLVITV 121
           IC    HC  G K+ I  
Sbjct: 73  ICSFPGHCGGGMKIAINA 90


>pdb|1AX4|A Chain A, Tryptophanase From Proteus Vulgaris
 pdb|1AX4|B Chain B, Tryptophanase From Proteus Vulgaris
 pdb|1AX4|C Chain C, Tryptophanase From Proteus Vulgaris
 pdb|1AX4|D Chain D, Tryptophanase From Proteus Vulgaris
          Length = 467

 Score = 26.9 bits (58), Expect = 2.8,   Method: Composition-based stats.
 Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 5/34 (14%)

Query: 39  DYQAWAKGKVFHVGDKL-----VFQYPVGAHNVF 67
           +Y  +  G+V ++GD+L       QYP G H VF
Sbjct: 323 EYLHYRIGQVKYLGDRLREAGIPIQYPTGGHAVF 356


>pdb|4FSX|A Chain A, Crystal Structure Of Se-Substituted Zea Mays Zmet2 In
           Complex With Sah
 pdb|4FSX|B Chain B, Crystal Structure Of Se-Substituted Zea Mays Zmet2 In
           Complex With Sah
          Length = 784

 Score = 26.9 bits (58), Expect = 2.9,   Method: Composition-based stats.
 Identities = 12/31 (38%), Positives = 17/31 (54%)

Query: 62  GAHNVFKVNGTAFQNCQKPPLREALTTGNDV 92
           GA N F     A+   QKP L++AL  G+ +
Sbjct: 504 GAPNAFSQCXVAYDETQKPSLKKALLLGDAI 534


>pdb|4FT2|A Chain A, Crystal Structure Of Zea Mays Zmet2 In Complex
           H3(1-15)k9me2 Peptide And Sah
 pdb|4FT2|B Chain B, Crystal Structure Of Zea Mays Zmet2 In Complex
           H3(1-15)k9me2 Peptide And Sah
 pdb|4FT4|B Chain B, Crystal Structure Of Zea Mays Zmet2 In Complex
           H3(1-32)k9me2 Peptide And Sah
 pdb|4FT4|A Chain A, Crystal Structure Of Zea Mays Zmet2 In Complex
           H3(1-32)k9me2 Peptide And Sah
          Length = 784

 Score = 26.6 bits (57), Expect = 3.9,   Method: Composition-based stats.
 Identities = 12/31 (38%), Positives = 17/31 (54%)

Query: 62  GAHNVFKVNGTAFQNCQKPPLREALTTGNDV 92
           GA N F     A+   QKP L++AL  G+ +
Sbjct: 504 GAPNAFSQCMVAYDETQKPSLKKALLLGDAI 534


  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
   0.324    0.141    0.471 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,546,566
Number of Sequences: 62578
Number of extensions: 131830
Number of successful extensions: 209
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 199
Number of HSP's gapped (non-prelim): 10
length of query: 125
length of database: 14,973,337
effective HSP length: 86
effective length of query: 39
effective length of database: 9,591,629
effective search space: 374073531
effective search space used: 374073531
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)