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= 026811
         (232 letters)

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

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



>pdb|2P1N|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
 pdb|2P1N|F Chain F, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
 pdb|2P1O|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
 pdb|2P1Q|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
          Length = 13

 Score = 33.1 bits (74), Expect = 0.12,   Method: Composition-based stats.
 Identities = 12/13 (92%), Positives = 13/13 (100%)

Query: 95  QVVGWPPVRSYRK 107
           QVVGWPPVR+YRK
Sbjct: 1   QVVGWPPVRNYRK 13


>pdb|3MB3|A Chain A, Crystal Structure Of The Second Bromodomain Of Pleckstrin
           Homology Domain Interacting Protein (Phip)
          Length = 135

 Score = 32.0 bits (71), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 27/107 (25%), Positives = 44/107 (41%), Gaps = 16/107 (14%)

Query: 83  DKDPAKPSANKAQ---VVGWPPVRSYRKNAMAETAAFVKVCMDGAPYLRKVDLKTYKSYQ 139
           D  P +   N+AQ   +  W       K    E    +  C D  P+ + VDL  Y  Y+
Sbjct: 3   DHQPRRRLRNRAQSYDIQAW-------KKQCEELLNLIFQCEDSEPFRQPVDLLEYPDYR 55

Query: 140 ELSDA---LAKMFSSFTMGNYGSQGMIDFMNESKLMDLLNSSDYVPT 183
           ++ D     A +  +   GNY S   ++   + +L+   NS  Y P+
Sbjct: 56  DIIDTPMDFATVRETLEAGNYESP--MELCKDVRLI-FSNSKAYTPS 99


>pdb|3Q2E|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
           Bromodomain And Wd Repeat-Containing Protein 1 Isoform A
           (Wdr9)
          Length = 123

 Score = 29.3 bits (64), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 22/84 (26%), Positives = 36/84 (42%), Gaps = 6/84 (7%)

Query: 102 VRSYRKNAMAETAAFVKVCMDGAPYLRKVDLKTYKSYQELSDA---LAKMFSSFTMGNYG 158
           V S  K    E    +  C D  P+ + VDL  Y  Y+++ D       +  +   GNY 
Sbjct: 7   VESNWKKQCKELVNLIFQCEDSEPFRQPVDLVEYPDYRDIIDTPMDFGTVRETLDAGNYD 66

Query: 159 SQGMIDFMNESKLMDLLNSSDYVP 182
           S   ++F  + +L+   N+  Y P
Sbjct: 67  SP--LEFCKDIRLI-FSNAKAYTP 87


>pdb|1ES6|A Chain A, Crystal Structure Of The Matrix Protein Of Ebola Virus
          Length = 296

 Score = 28.1 bits (61), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 23/94 (24%), Positives = 38/94 (40%), Gaps = 4/94 (4%)

Query: 69  NENFKNPPSNNKNHDKDPAKPSAN----KAQVVGWPPVRSYRKNAMAETAAFVKVCMDGA 124
           N  F  P S N +   +P +P A+     A         ++   AM    +  KV M   
Sbjct: 3   NTGFLTPESVNGDTPSNPLRPIADDTIDHASHTPGSVSSAFILEAMVNVISGPKVLMKQI 62

Query: 125 PYLRKVDLKTYKSYQELSDALAKMFSSFTMGNYG 158
           P    + +   K+Y   S   A M +S+T+ ++G
Sbjct: 63  PIWLPLGVADQKTYSFDSTTAAIMLASYTITHFG 96


>pdb|1GNH|A Chain A, Human C-Reactive Protein
 pdb|1GNH|B Chain B, Human C-Reactive Protein
 pdb|1GNH|C Chain C, Human C-Reactive Protein
 pdb|1GNH|D Chain D, Human C-Reactive Protein
 pdb|1GNH|E Chain E, Human C-Reactive Protein
 pdb|1GNH|F Chain F, Human C-Reactive Protein
 pdb|1GNH|G Chain G, Human C-Reactive Protein
 pdb|1GNH|H Chain H, Human C-Reactive Protein
 pdb|1GNH|I Chain I, Human C-Reactive Protein
 pdb|1GNH|J Chain J, Human C-Reactive Protein
 pdb|1B09|A Chain A, Human C-Reactive Protein Complexed With Phosphocholine
 pdb|1B09|B Chain B, Human C-Reactive Protein Complexed With Phosphocholine
 pdb|1B09|C Chain C, Human C-Reactive Protein Complexed With Phosphocholine
 pdb|1B09|D Chain D, Human C-Reactive Protein Complexed With Phosphocholine
 pdb|1B09|E Chain E, Human C-Reactive Protein Complexed With Phosphocholine
 pdb|1LJ7|A Chain A, Crystal Structure Of Calcium-Depleted Human C-Reactive
           Protein From Perfectly Twinned Data
 pdb|1LJ7|B Chain B, Crystal Structure Of Calcium-Depleted Human C-Reactive
           Protein From Perfectly Twinned Data
 pdb|1LJ7|C Chain C, Crystal Structure Of Calcium-Depleted Human C-Reactive
           Protein From Perfectly Twinned Data
 pdb|1LJ7|D Chain D, Crystal Structure Of Calcium-Depleted Human C-Reactive
           Protein From Perfectly Twinned Data
 pdb|1LJ7|E Chain E, Crystal Structure Of Calcium-Depleted Human C-Reactive
           Protein From Perfectly Twinned Data
 pdb|1LJ7|F Chain F, Crystal Structure Of Calcium-Depleted Human C-Reactive
           Protein From Perfectly Twinned Data
 pdb|1LJ7|G Chain G, Crystal Structure Of Calcium-Depleted Human C-Reactive
           Protein From Perfectly Twinned Data
 pdb|1LJ7|H Chain H, Crystal Structure Of Calcium-Depleted Human C-Reactive
           Protein From Perfectly Twinned Data
 pdb|1LJ7|I Chain I, Crystal Structure Of Calcium-Depleted Human C-Reactive
           Protein From Perfectly Twinned Data
 pdb|1LJ7|J Chain J, Crystal Structure Of Calcium-Depleted Human C-Reactive
           Protein From Perfectly Twinned Data
 pdb|3L2Y|A Chain A, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|B Chain B, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|C Chain C, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|D Chain D, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|E Chain E, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|F Chain F, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|G Chain G, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|H Chain H, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|I Chain I, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|J Chain J, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|K Chain K, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|L Chain L, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|M Chain M, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|N Chain N, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|O Chain O, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|P Chain P, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|Q Chain Q, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|R Chain R, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|S Chain S, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3L2Y|T Chain T, The Structure Of C-Reactive Protein Bound To
           Phosphoethanolamine
 pdb|3PVN|A Chain A, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|B Chain B, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|C Chain C, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|D Chain D, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|E Chain E, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|F Chain F, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|G Chain G, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|H Chain H, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|I Chain I, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|J Chain J, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|K Chain K, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|L Chain L, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|M Chain M, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|N Chain N, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|O Chain O, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|P Chain P, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|Q Chain Q, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|R Chain R, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|S Chain S, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVN|T Chain T, Triclinic Form Of Human C-Reactive Protein In Complex With
           Zinc
 pdb|3PVO|A Chain A, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|B Chain B, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|C Chain C, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|D Chain D, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|E Chain E, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|F Chain F, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|G Chain G, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|H Chain H, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|I Chain I, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|J Chain J, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|K Chain K, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|L Chain L, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|M Chain M, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|N Chain N, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|O Chain O, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|P Chain P, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|Q Chain Q, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|R Chain R, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|S Chain S, Monoclinic Form Of Human C-Reactive Protein
 pdb|3PVO|T Chain T, Monoclinic Form Of Human C-Reactive Protein
          Length = 206

 Score = 28.1 bits (61), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 2/71 (2%)

Query: 114 AAFVKVCMDGAPYLRKVDLKTYKSYQELSDALAKMFSSFTMGNY-GSQGMIDFMNESKLM 172
           +  V+  +DG P +RK   K Y    E S  L +   SF  GN+ GSQ ++  +    + 
Sbjct: 104 SGIVEFWVDGKPRVRKSLKKGYTVGAEASIILGQEQDSFG-GNFEGSQSLVGDIGNVNMW 162

Query: 173 DLLNSSDYVPT 183
           D + S D + T
Sbjct: 163 DFVLSPDEINT 173


>pdb|1H2D|A Chain A, Ebola Virus Matrix Protein Vp40 N-Terminal Domain In
           Complex With Rna (Low-Resolution Vp40[31-212] Variant).
 pdb|1H2D|B Chain B, Ebola Virus Matrix Protein Vp40 N-Terminal Domain In
           Complex With Rna (Low-Resolution Vp40[31-212] Variant)
          Length = 182

 Score = 27.3 bits (59), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 23/94 (24%), Positives = 38/94 (40%), Gaps = 4/94 (4%)

Query: 69  NENFKNPPSNNKNHDKDPAKPSAN----KAQVVGWPPVRSYRKNAMAETAAFVKVCMDGA 124
           N  F  P S N +   +P +P A+     A         ++   AM    +  KV M   
Sbjct: 3   NTGFLTPESVNGDTPSNPLRPIADDTIDHASHTPGSVSSAFILEAMVNVISGPKVLMKQI 62

Query: 125 PYLRKVDLKTYKSYQELSDALAKMFSSFTMGNYG 158
           P    + +   K+Y   S   A M +S+T+ ++G
Sbjct: 63  PIWLPLGVADQKTYSFDSTTAAIMLASYTITHFG 96


>pdb|3BWS|A Chain A, Crystal Structure Of The Leptospiral Antigen Lp49
 pdb|3BWS|B Chain B, Crystal Structure Of The Leptospiral Antigen Lp49
          Length = 433

 Score = 27.3 bits (59), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 40/155 (25%), Positives = 55/155 (35%), Gaps = 12/155 (7%)

Query: 3   AIGLKMDFKETELCLGLPGGGNNKKDEAAALELTPTPKASNKRGFCETAVIDLKLNLQSK 62
           AI +  D KE EL L  PG  N+        EL     A +K G     +   K   Q K
Sbjct: 67  AIPVYKDEKEIELKLSSPGFQNSSYRIRKPEELNEKLIALDKEGITHRFISRFKTGFQPK 126

Query: 63  ESSVDLNENFKNPPSNNKNHDKDPAKPSANKAQVVGWPPVRSYRKN-AMAETAAF----- 116
                 N     P   ++  D        N  Q V   P   Y+K     ET +      
Sbjct: 127 SVRFIDNTRLAIPLLEDEGXD----VLDINSGQTVRLSPPEKYKKKLGFVETISIPEHNE 182

Query: 117 VKVCMDGAPYLRKVDLKT--YKSYQELSDALAKMF 149
           + V    A  +   DLKT  YK+  +L+   +K+ 
Sbjct: 183 LWVSQXQANAVHVFDLKTLAYKATVDLTGKWSKIL 217


>pdb|4DIN|B Chain B, Novel Localization And Quaternary Structure Of The Pka Ri
           Beta Holoenzyme
          Length = 381

 Score = 27.3 bits (59), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 21/89 (23%), Positives = 39/89 (43%), Gaps = 11/89 (12%)

Query: 59  LQSKESSVDLNENFKNPPSNNKNHDKDPAKPSANKAQVVGWPPVRSYRKNAMAETAAFVK 118
           L+ +E+   L     N  S++ + +  P  P+         P V++ R+        + +
Sbjct: 57  LEKEENRQILARQKSNSQSDSHDEEVSPTPPN---------PVVKARRRRGGVSAEVYTE 107

Query: 119 VCMDGAPYLRKVDLKTYKSYQELSDALAK 147
              D   Y+RKV  K YK+   L+ A++K
Sbjct: 108 --EDAVSYVRKVIPKDYKTMTALAKAISK 134


  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
   0.314    0.130    0.384 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,076,354
Number of Sequences: 62578
Number of extensions: 280472
Number of successful extensions: 541
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 537
Number of HSP's gapped (non-prelim): 9
length of query: 232
length of database: 14,973,337
effective HSP length: 96
effective length of query: 136
effective length of database: 8,965,849
effective search space: 1219355464
effective search space used: 1219355464
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.9 bits)