RPS-BLAST 2.2.22 [Sep-27-2009]

Database: scop70_1_75 
           13,730 sequences; 2,407,596 total letters

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

Query= gi|254780440|ref|YP_003064853.1| transcription elongation
factor GreA [Candidatus Liberibacter asiaticus str. psy62]
         (158 letters)



>d1grja1 a.2.1.1 (A:2-79) GreA transcript cleavage protein,
          N-terminal domain {Escherichia coli [TaxId: 562]}
          Length = 78

 Score = 89.0 bits (221), Expect = 2e-19
 Identities = 36/76 (47%), Positives = 55/76 (72%)

Query: 4  KIPVTSKGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRM 63
           IP+T +G +K+++EL + +   RP II AI+EAR +GDL ENAEY AA+E Q   EGR+
Sbjct: 2  AIPMTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRI 61

Query: 64 AELENIITRAEVIDIS 79
           ++E  ++ A+VID++
Sbjct: 62 KDIEAKLSNAQVIDVT 77


>d1grja2 d.26.1.2 (A:80-158) GreA transcript cleavage factor,
           C-terminal domain {Escherichia coli [TaxId: 562]}
          Length = 79

 Score = 86.7 bits (215), Expect = 9e-19
 Identities = 34/75 (45%), Positives = 56/75 (74%)

Query: 84  DRIAFGATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSISSPIARALIGKELGDIISVNA 143
            R+ FGATV+++  +S +++ Y+IVGD EAD +  L+S++SPIAR LIGKE  D++ +  
Sbjct: 5   GRVIFGATVTVLNLDSDEEQTYRIVGDDEADFKQNLISVNSPIARGLIGKEEDDVVVIKT 64

Query: 144 PGGEKTYEILQVLWI 158
           PGGE  +E+++V ++
Sbjct: 65  PGGEVEFEVIKVEYL 79


>d2f23a2 d.26.1.2 (A:78-156) GreA transcript cleavage factor,
           C-terminal domain {Thermus thermophilus [TaxId: 274]}
          Length = 79

 Score = 84.1 bits (208), Expect = 5e-18
 Identities = 24/76 (31%), Positives = 48/76 (63%), Gaps = 2/76 (2%)

Query: 82  SGDRIAFGATVSLVEKNSGDKKNYQIVGDQEADVQSGL--VSISSPIARALIGKELGDII 139
           SG+ I  G+ V L +  SG++ + Q+V   EA+V      +S +SP+ +AL+G  +GD++
Sbjct: 2   SGEVIGLGSVVELEDPLSGERLSVQVVSPAEANVLDTPMKISDASPMGKALLGHRVGDVL 61

Query: 140 SVNAPGGEKTYEILQV 155
           S++ P G++ + ++ +
Sbjct: 62  SLDTPKGKREFRVVAI 77


>d2f23a1 a.2.1.1 (A:3-77) GreA transcript cleavage protein,
          N-terminal domain {Thermus thermophilus [TaxId: 274]}
          Length = 75

 Score = 77.9 bits (192), Expect = 4e-16
 Identities = 19/74 (25%), Positives = 43/74 (58%), Gaps = 1/74 (1%)

Query: 4  KIPVTSKGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRM 63
          ++ +T  G++++ Q+L  R++E      K + E     D  +++  +AAK+ +   E R+
Sbjct: 2  EVKLTKAGYERLMQQLE-RERERLQEATKILQELMESSDDYDDSGLEAAKQEKARIEARI 60

Query: 64 AELENIITRAEVID 77
            LE+I++RA +++
Sbjct: 61 DSLEDILSRAVILE 74


>d1iq6a_ d.38.1.4 (A:) (R)-specific enoyl-CoA hydratase {Aeromonas
          caviae [TaxId: 648]}
          Length = 132

 Score = 24.7 bits (53), Expect = 4.4
 Identities = 10/30 (33%), Positives = 14/30 (46%)

Query: 56 QNLNEGRMAELENIITRAEVIDISTMSGDR 85
          Q+L  G+ A L      AEV   + +S D 
Sbjct: 2  QSLEVGQKARLSKRFGAAEVAAFAALSEDF 31


>d1nuwa_ e.7.1.1 (A:) Fructose-1,6-bisphosphatase {Pig (Sus scrofa)
           [TaxId: 9823]}
          Length = 328

 Score = 24.1 bits (52), Expect = 5.7
 Identities = 8/34 (23%), Positives = 16/34 (47%)

Query: 114 DVQSGLVSISSPIARALIGKELGDIISVNAPGGE 147
            + + + +IS+ + +A I    G   S N  G +
Sbjct: 29  SLCTAVKAISTAVRKAGIAHLYGIAGSTNVTGDQ 62


>d2b3na1 d.38.1.4 (A:6-159) Hypothetical protein AF1124 {Archaeon
          Archaeoglobus fulgidus [TaxId: 2234]}
          Length = 154

 Score = 24.3 bits (52), Expect = 6.0
 Identities = 9/28 (32%), Positives = 12/28 (42%)

Query: 58 LNEGRMAELENIITRAEVIDISTMSGDR 85
          L EG   E E  +   +V     +SGD 
Sbjct: 31 LKEGYRFEYEKKLCEIDVAMFGLISGDL 58


>d1omoa_ c.2.1.13 (A:) Archaeal alanine dehydrogenase {Archaeon
           Archaeoglobus fulgidus [TaxId: 2234]}
          Length = 320

 Score = 23.7 bits (50), Expect = 7.8
 Identities = 23/140 (16%), Positives = 45/140 (32%), Gaps = 19/140 (13%)

Query: 31  IKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAEVIDISTMSGDRIAFGA 90
           +  I E +AY    + A+ +     ++       +     +R +V+  +T S   +    
Sbjct: 147 VFDIGEVKAYDVREKAAK-KFVSYCEDRGISASVQPAEEASRCDVLVTTTPSRKPVVKAE 205

Query: 91  TVS---------------LVEKNSGDKKNYQIVGDQEADVQSGLVSI---SSPIARALIG 132
            V                        KK   +V D E     G +++      I    + 
Sbjct: 206 WVEEGTHINAIGADGPGKQELDVEILKKAKIVVDDLEQAKHGGEINVAVSKGVIGVEDVH 265

Query: 133 KELGDIISVNAPGGEKTYEI 152
             +G++I+    G E   EI
Sbjct: 266 ATIGEVIAGLKDGRESDEEI 285


>d1dd5a_ d.67.3.1 (A:) Ribosome recycling factor, RRF {Thermotoga
           maritima [TaxId: 2336]}
          Length = 184

 Score = 23.4 bits (50), Expect = 9.6
 Identities = 11/48 (22%), Positives = 23/48 (47%)

Query: 27  RPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAE 74
           R  I+K I E +  G + E+   +   E+Q L +  + +L+ +    +
Sbjct: 131 RREILKKIKEDQKEGLIPEDDAKRLENEIQKLTDEFIEKLDEVFEIKK 178


  Database: scop70_1_75
    Posted date:  Mar 27, 2010  6:21 PM
  Number of letters in database: 2,407,596
  Number of sequences in database:  13,730
  
Lambda     K      H
   0.312    0.131    0.354 

Gapped
Lambda     K      H
   0.267   0.0641    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 553,800
Number of extensions: 23498
Number of successful extensions: 70
Number of sequences better than 10.0: 1
Number of HSP's gapped: 68
Number of HSP's successfully gapped: 23
Length of query: 158
Length of database: 2,407,596
Length adjustment: 78
Effective length of query: 80
Effective length of database: 1,336,656
Effective search space: 106932480
Effective search space used: 106932480
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 49 (22.8 bits)