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= 028583
         (207 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

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



>sp|P0CB19|Y3081_ARATH Uncharacterized protein At3g50808 OS=Arabidopsis thaliana
           GN=At3g50808 PE=4 SV=1
          Length = 110

 Score = 39.7 bits (91), Expect = 0.015,   Method: Compositional matrix adjust.
 Identities = 36/136 (26%), Positives = 55/136 (40%), Gaps = 30/136 (22%)

Query: 73  IQKALDISEVQTYVINSARVLFLNERPQPKGPVGK-GVSHLCEICGRSL--LDPFRFCSL 129
           + + +DIS +  Y IN   ++++N+R        +  V H C+IC   +       FCS+
Sbjct: 1   MSQYMDISGIHLYSINGFPIVYINQRRGNNNHRSRSNVMHKCKICEWEIDAASSALFCSM 60

Query: 130 GCKLEGIKKNGEASFVLSNKNEEEIPQEREGMQRRLPTKEKEELREGRQQDMHRSTPPPT 189
            CK            VL ++ +E +    E       T+  EE+ E            P 
Sbjct: 61  ECKFRS---------VLGSQLDELMENSSE------VTEISEEIDE------------PV 93

Query: 190 HSNSRRRKGIPQRAPF 205
                RRKG P RAPF
Sbjct: 94  MKKRHRRKGSPHRAPF 109


>sp|Q4UMJ0|MFD_RICFE Transcription-repair-coupling factor OS=Rickettsia felis (strain
           ATCC VR-1525 / URRWXCal2) GN=mfd PE=3 SV=1
          Length = 1142

 Score = 31.6 bits (70), Expect = 4.2,   Method: Composition-based stats.
 Identities = 15/42 (35%), Positives = 26/42 (61%)

Query: 67  VVRVAEIQKALDISEVQTYVINSARVLFLNERPQPKGPVGKG 108
           +V    I+  +DI+E  T VI+ A +L L++  Q +G +G+G
Sbjct: 846 LVSTTIIESGIDIAEANTMVIHKADMLGLSQLYQLRGRIGRG 887


>sp|Q92H58|MFD_RICCN Transcription-repair-coupling factor OS=Rickettsia conorii (strain
           ATCC VR-613 / Malish 7) GN=mfd PE=3 SV=1
          Length = 1122

 Score = 31.2 bits (69), Expect = 4.8,   Method: Composition-based stats.
 Identities = 14/42 (33%), Positives = 27/42 (64%)

Query: 67  VVRVAEIQKALDISEVQTYVINSARVLFLNERPQPKGPVGKG 108
           +V    I+  +DI+E  T +I++A +L L++  Q +G +G+G
Sbjct: 847 LVSTTIIESGIDIAEANTMIIHNADMLGLSQLYQLRGRIGRG 888


>sp|A4IF63|TRIM2_BOVIN Tripartite motif-containing protein 2 OS=Bos taurus GN=TRIM2 PE=2
           SV=1
          Length = 744

 Score = 31.2 bits (69), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 12/81 (14%)

Query: 19  CPRHNDSPRNECNMYCLDCMSGAFCFYCRSSRHKDHPVIQIRRSSYHDVVRV--AEIQKA 76
           CP H+    N  + YC  C + A C  C    H +HP + ++     DVV    A +Q  
Sbjct: 118 CPNHDG---NVMDFYCQSCET-AMCRECTEGEHAEHPTVPLK-----DVVEQHKASLQVQ 168

Query: 77  LDISEVQTYVINSARVLFLNE 97
           LD +  +   I+SA + F++E
Sbjct: 169 LDAANRRLPEIDSA-LQFISE 188


>sp|Q9AKD5|MFD_RICTY Transcription-repair-coupling factor OS=Rickettsia typhi (strain
           ATCC VR-144 / Wilmington) GN=mfd PE=3 SV=1
          Length = 1120

 Score = 30.8 bits (68), Expect = 6.3,   Method: Composition-based stats.
 Identities = 13/36 (36%), Positives = 24/36 (66%)

Query: 73  IQKALDISEVQTYVINSARVLFLNERPQPKGPVGKG 108
           I+  +DI+E  T +I++A  L L++  Q +G +G+G
Sbjct: 851 IESGIDITEANTMIIHNADTLGLSQLYQLRGRIGRG 886


>sp|D2GXS7|TRIM2_AILME Tripartite motif-containing protein 2 OS=Ailuropoda melanoleuca
           GN=TRIM2 PE=3 SV=1
          Length = 744

 Score = 30.4 bits (67), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 25/81 (30%), Positives = 38/81 (46%), Gaps = 12/81 (14%)

Query: 19  CPRHNDSPRNECNMYCLDCMSGAFCFYCRSSRHKDHPVIQIRRSSYHDVVR--VAEIQKA 76
           CP H+    N  + YC  C + A C  C    H +HP + ++     DVV    A +Q  
Sbjct: 118 CPNHDG---NVMDFYCQSCET-AMCRECTEGEHAEHPTVPLK-----DVVEQHKASLQVQ 168

Query: 77  LDISEVQTYVINSARVLFLNE 97
           LD    +   I+SA + F++E
Sbjct: 169 LDAVNKRLPEIDSA-LQFISE 188


>sp|P13648|LMNA_CHICK Lamin-A OS=Gallus gallus GN=LMNA PE=2 SV=1
          Length = 657

 Score = 30.4 bits (67), Expect = 9.9,   Method: Composition-based stats.
 Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 2/59 (3%)

Query: 125 RFCSLGCKLEGIKKNGEASFVLSNKNEEEIPQEREGMQRRLPTKEKE--ELREGRQQDM 181
           R  SL  +L  ++K   A      + EE + +EREG +R L  KE+E  E+R   QQ +
Sbjct: 297 RIDSLSAELSQLQKQLAAKEAKLREVEEALSREREGGRRLLAEKEREMAEMRARMQQQL 355


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.321    0.136    0.424 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 80,541,832
Number of Sequences: 539616
Number of extensions: 3326663
Number of successful extensions: 11866
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 36
Number of HSP's that attempted gapping in prelim test: 11810
Number of HSP's gapped (non-prelim): 79
length of query: 207
length of database: 191,569,459
effective HSP length: 112
effective length of query: 95
effective length of database: 131,132,467
effective search space: 12457584365
effective search space used: 12457584365
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: 58 (26.9 bits)