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= 022131
         (302 letters)

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

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



>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Mn
 pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Ca
          Length = 501

 Score = 36.2 bits (82), Expect = 0.021,   Method: Compositional matrix adjust.
 Identities = 31/115 (26%), Positives = 49/115 (42%), Gaps = 10/115 (8%)

Query: 128 GRIEDAEELLGEMVRNGVCPSAETYN-----CFFKEYRGRKDANGAMK----LYRQMKED 178
           G + +A  L  E  RNGV  S   YN     C   E       N  +     +++QM  D
Sbjct: 40  GDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVD 99

Query: 179 GLCVPNMHSYNILIGMFMALNRMDMVREIWNDVKGSGLGPDLDSYTMLIHGLCEK 233
            + VPN  ++     + +A +  +M  ++   +K  G+ P L SY   + G C K
Sbjct: 100 KV-VPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRK 153



 Score = 29.6 bits (65), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 27/122 (22%), Positives = 54/122 (44%), Gaps = 9/122 (7%)

Query: 63  AEKVFDEMRVRGIEPDVTSFSIVLHVYSRAH-------QPQLS--LDKLNFMKEKGICPT 113
           A +++DE R  G++     ++++L+V S A         P LS   D    M    + P 
Sbjct: 45  ALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPN 104

Query: 114 VATYSSVVKCLCSCGRIEDAEELLGEMVRNGVCPSAETYNCFFKEYRGRKDANGAMKLYR 173
            AT+++  +   +    E A +++ +M   G+ P   +Y      +  + DA+ A ++  
Sbjct: 105 EATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDA 164

Query: 174 QM 175
            M
Sbjct: 165 HM 166


>pdb|1JR2|A Chain A, Structure Of Uroporphyrinogen Iii Synthase
 pdb|1JR2|B Chain B, Structure Of Uroporphyrinogen Iii Synthase
          Length = 286

 Score = 30.8 bits (68), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 20/75 (26%), Positives = 31/75 (41%)

Query: 73  RGIEPDVTSFSIVLHVYSRAHQPQLSLDKLNFMKEKGICPTVATYSSVVKCLCSCGRIED 132
           +G+   +T FS     YS  H  +LS D ++ +K   I PT A   +      SC     
Sbjct: 208 QGVPASITFFSPSGLTYSLKHIQELSGDNIDQIKFAAIGPTTARALAAQGLPVSCTAESP 267

Query: 133 AEELLGEMVRNGVCP 147
             + L   +R  + P
Sbjct: 268 TPQALATGIRKALQP 282


>pdb|2PZD|A Chain A, Crystal Structure Of The Htra2OMI PDZ DOMAIN BOUND TO A
          PHAGE-Derived Ligand (Wtmfwv)
 pdb|2PZD|B Chain B, Crystal Structure Of The Htra2OMI PDZ DOMAIN BOUND TO A
          PHAGE-Derived Ligand (Wtmfwv)
          Length = 113

 Score = 29.3 bits (64), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 4/48 (8%)

Query: 30 VEPNVVTYNVLLNGVCRRASLHPSERF----EKTIRNAEKVFDEMRVR 73
          V+  V+ + V+L     RA L P +      E+ ++NAE V++ +R +
Sbjct: 33 VQHGVLIHKVILGSPAHRAGLRPGDVILAIGEQMVQNAEDVYEAVRTQ 80


>pdb|1LCY|A Chain A, Crystal Structure Of The Mitochondrial Serine Protease
           Htra2
          Length = 325

 Score = 28.5 bits (62), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 4/48 (8%)

Query: 30  VEPNVVTYNVLLNGVCRRASLHPSERF----EKTIRNAEKVFDEMRVR 73
           V+  V+ + V+L     RA L P +      E+ ++NAE V++ +R +
Sbjct: 254 VQHGVLIHKVILGSPAHRAGLRPGDVILAIGEQMVQNAEDVYEAVRTQ 301


  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    0.138    0.427 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,962,857
Number of Sequences: 62578
Number of extensions: 357474
Number of successful extensions: 744
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 739
Number of HSP's gapped (non-prelim): 7
length of query: 302
length of database: 14,973,337
effective HSP length: 98
effective length of query: 204
effective length of database: 8,840,693
effective search space: 1803501372
effective search space used: 1803501372
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (24.3 bits)