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= 038801
         (662 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 = 36.6 bits (83), Expect = 0.041,   Method: Compositional matrix adjust.
 Identities = 30/129 (23%), Positives = 56/129 (43%), Gaps = 5/129 (3%)

Query: 185 VDICRKNSNFVAFLKVFEECCRIALDENLDFMKPNIYACN---AALEGCCYGLQSVSDAE 241
           +D+C K  + +  L++++E  R  +  +       +Y C+   AA E        +S   
Sbjct: 33  LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPN--PGLSRGF 90

Query: 242 KVIETMSVLGVRPNESSFGFLAYLYALKGLQEKIVELESLMNEFGFSSQMVFYSSLISGY 301
            + + M V  V PNE++F   A L   K   E   ++   M  FG   ++  Y   + G+
Sbjct: 91  DIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGF 150

Query: 302 VKLGNLESA 310
            + G+ + A
Sbjct: 151 CRKGDADKA 159


>pdb|3IYG|G Chain G, Ca Model Of Bovine TricCCT DERIVED FROM A 4.0 ANGSTROM
           Cryo-Em Map
          Length = 515

 Score = 33.9 bits (76), Expect = 0.31,   Method: Compositional matrix adjust.
 Identities = 28/95 (29%), Positives = 46/95 (48%), Gaps = 12/95 (12%)

Query: 515 IIHAFCKAGRLEDAKRTLRRMIFLQFEPNDQTYLSLINGYVTAEQYFSVLMMWHEIKRKI 574
           +I A+ KA  L+D   TL+++       N  T L++IN  +T +    V+  W  +   I
Sbjct: 110 VISAYRKA--LDDMISTLKKISIPVDTSNRDTMLNIINSSITTK----VISRWSSLACNI 163

Query: 575 STDGQKGIKFEHN---LVDAFLYALVK---GGFFD 603
           + D  K ++FE N    +D   YA V+   GG  +
Sbjct: 164 ALDAVKTVQFEENGRKEIDIKKYARVEKIPGGIIE 198


>pdb|2RFM|A Chain A, Structure Of A Thermophilic Ankyrin Repeat Protein
 pdb|2RFM|B Chain B, Structure Of A Thermophilic Ankyrin Repeat Protein
          Length = 192

 Score = 33.1 bits (74), Expect = 0.47,   Method: Compositional matrix adjust.
 Identities = 39/168 (23%), Positives = 75/168 (44%), Gaps = 19/168 (11%)

Query: 208 ALDENLDFMK--PNIYACNAALEGCCYGLQSVSDAEKVIETMSVLGVRPNESSFGFLAYL 265
           ++++NLDF++   + Y     +  C  G+++  D  K++E    L  +  E   G  A +
Sbjct: 19  SINQNLDFLRNYRDSYNRTPLMVACMLGMENAID--KLVENFDKLEDKDIE---GSTALI 73

Query: 266 YALK----GLQEKIVELESLMNEFGFSSQMVFYSSLISGYVKLGNLESASRTILLCLGGG 321
           +A+K    G+ EK++   S +N   FS +     S+I GY ++        +  L   G 
Sbjct: 74  WAVKNNRLGIAEKLLSKGSNVNTKDFSGKTPLMWSIIFGYSEM--------SYFLLEHGA 125

Query: 322 NMEQSDFSKETYCEVVKGFLQNGNVKGLANLIIEAQKLEPSGIVVDRS 369
           N+   +   ET   V   + ++  VK L  L  +    + +G+  + S
Sbjct: 126 NVNDRNLEGETPLIVASKYGRSEIVKKLLELGADISARDLTGLTAEAS 173


>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Mn
 pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana, Semet Substituted Form With Sr
          Length = 501

 Score = 30.0 bits (66), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 30/130 (23%), Positives = 53/130 (40%), Gaps = 7/130 (5%)

Query: 185 VDICRKNSNFVAFLKVFEECCRIALDENLDFMKPNIYACN---AALEGCC-YGLQSVSDA 240
           +D C K  + +  L++++E  R  +  +       +Y C+   AA E     GL    D 
Sbjct: 33  LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFD- 91

Query: 241 EKVIETMSVLGVRPNESSFGFLAYLYALKGLQEKIVELESLMNEFGFSSQMVFYSSLISG 300
             + +   V  V PNE++F   A L   K   E   +       FG   ++  Y   + G
Sbjct: 92  --IFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFG 149

Query: 301 YVKLGNLESA 310
           + + G+ + A
Sbjct: 150 FCRKGDADKA 159


  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
   0.322    0.135    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,065,776
Number of Sequences: 62578
Number of extensions: 660884
Number of successful extensions: 1571
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1566
Number of HSP's gapped (non-prelim): 13
length of query: 662
length of database: 14,973,337
effective HSP length: 105
effective length of query: 557
effective length of database: 8,402,647
effective search space: 4680274379
effective search space used: 4680274379
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)