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= 020624
         (323 letters)

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

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



>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
           Northeast Structural Genomics Consortium Target Ht2b
          Length = 52

 Score = 32.7 bits (73), Expect = 0.24,   Method: Composition-based stats.
 Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 5/48 (10%)

Query: 169 QTCGVCSKLLSELCVVA-VLTCGHLYHADCLENITAEINKYDPACPVC 215
           Q C +C + +    VVA VL CGHL H  C E +  E  +    CP+C
Sbjct: 6   QNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYR----CPLC 49


>pdb|1ROW|A Chain A, Structure Of Ssp-19, An Msp-Domain Protein Like Family
           Member In Caenorhabditis Elegans
 pdb|1ROW|B Chain B, Structure Of Ssp-19, An Msp-Domain Protein Like Family
           Member In Caenorhabditis Elegans
          Length = 109

 Score = 29.6 bits (65), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 31/66 (46%), Gaps = 4/66 (6%)

Query: 210 PACPVCTLGEKKTHKL-SERALKSEMESKARNNKRWKNRIVDSNLD---SNSVVLDRHKG 265
           PAC V   G   THKL +  A K   + K+ NN  ++   V   +D   S  VV+ R  G
Sbjct: 8   PACTVPAAGVSSTHKLVNGGAEKIVFKIKSSNNNEYRIAPVFGFVDPSGSKDVVITRTAG 67

Query: 266 SWNEGK 271
           +  E K
Sbjct: 68  APKEDK 73


>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
          Length = 69

 Score = 28.9 bits (63), Expect = 3.7,   Method: Composition-based stats.
 Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 4/45 (8%)

Query: 171 CGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVC 215
           C +C  +L E   V  L C HL+H  C++       K    CP+C
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKK----CPIC 57


>pdb|1MM3|A Chain A, Solution Structure Of The 2nd Phd Domain From Mi2b With C-
           Terminal Loop Replaced By Corresponding Loop From Wstf
          Length = 61

 Score = 27.7 bits (60), Expect = 8.8,   Method: Composition-based stats.
 Identities = 17/49 (34%), Positives = 20/49 (40%), Gaps = 3/49 (6%)

Query: 168 MQTCGVCSKLLSELCVVAVLTCGHLYHADCLENITAEINKYDPACPVCT 216
           M+ C VC      LC     TC   YH  CL     E+   +  CP CT
Sbjct: 9   MEFCRVCKDGGELLCCD---TCPSSYHIHCLRPALYEVPDGEWQCPRCT 54


>pdb|2ECM|A Chain A, Solution Structure Of The Ring Domain Of The Ring Finger
           And Chy Zinc Finger Domain-Containing Protein 1 From Mus
           Musculus
          Length = 55

 Score = 27.7 bits (60), Expect = 9.6,   Method: Compositional matrix adjust.
 Identities = 14/34 (41%), Positives = 18/34 (52%), Gaps = 4/34 (11%)

Query: 183 VVAVLTCGHLYHADCLENITAEINKYDPACPVCT 216
           V  VL CGHL H  C E +  E  +    CP+C+
Sbjct: 21  VAHVLPCGHLLHRTCYEEMLKEGYR----CPLCS 50


  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    0.128    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,417,810
Number of Sequences: 62578
Number of extensions: 218621
Number of successful extensions: 289
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 286
Number of HSP's gapped (non-prelim): 14
length of query: 323
length of database: 14,973,337
effective HSP length: 99
effective length of query: 224
effective length of database: 8,778,115
effective search space: 1966297760
effective search space used: 1966297760
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (24.3 bits)