RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

Query= gi|254780804|ref|YP_003065217.1| DNA polymerase III subunit
delta [Candidatus Liberibacter asiaticus str. psy62]
         (352 letters)



>gnl|CDD|31655 COG1466, HolA, DNA polymerase III, delta subunit [DNA replication,
           recombination, and repair].
          Length = 334

 Score =  103 bits (259), Expect = 5e-23
 Identities = 68/317 (21%), Positives = 143/317 (45%), Gaps = 11/317 (3%)

Query: 23  VFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSK 82
           V++ YG D+GL+ E  +   K       D F        + + + +   +E+ S SLF +
Sbjct: 18  VYLLYGEDEGLLEEAADAILKRA---LADGFDENYSFFDDSELDWADLLSELESPSLFGE 74

Query: 83  KKIILI---ENLSTEKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLA 139
           K+++++   E    + K L  LE   +    + +++++SN++ K   L K  +K    + 
Sbjct: 75  KRLVVLKNAEKKPNKDKNLALLELAALLPSTDLLLLVESNKLDKAKKLTKWLKKLAKAVV 134

Query: 140 ISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDI 199
           + C P ++  L   I++        I +EA Q+LL  LGG+ +A   E++KL+ Y   D 
Sbjct: 135 VECKPLDEAELPQWIKKRAKELGLKIDQEAIQLLLEALGGNLLAIAQEIEKLALYA-GDK 193

Query: 200 LITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLADFFLASKMPSHALLHGFLQKFQ 259
            IT + V++++ D     I ++ +A ++G +  A+ L    L        LL    ++F+
Sbjct: 194 EITLEDVEEVVSDVAEFNIFDLADALLKGDVKKALRLLRDLLLEGEEPLKLLAALTRQFR 253

Query: 260 LLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDHRIHL 319
           LL ++  + E      +         I   ++ + +++ R  +   + + L ++  ++  
Sbjct: 254 LLLQLKALAEKGKSLQQAAKS---LGIPYRRKKLFKKAARRLSLKQLLKAL-RLLAQLDY 309

Query: 320 ARKKKYLEKNIIFQTIL 336
             K  Y +     +  L
Sbjct: 310 QIKTGYGDPVWALELFL 326


>gnl|CDD|177096 CHL00204, ycf1, Ycf1; Provisional.
          Length = 1832

 Score = 31.2 bits (71), Expect = 0.48
 Identities = 38/146 (26%), Positives = 62/146 (42%), Gaps = 26/146 (17%)

Query: 12   KSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFW 71
            K TK   +  F+F+     K +I EL    K+N  I       +  LN  + +K+ S   
Sbjct: 952  KETKKWIIKSFLFL-----KRIIKEL---SKRNP-ILLFGLREIYELNETKKEKD-SIIS 1001

Query: 72   NEINSTSLFSKKKIILIENLSTEKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIA 131
            N++   S    + +    +  TEKK         IK++ +    I+ N+I+K   + K  
Sbjct: 1002 NQMIHESSVQIRSMEWTNSSLTEKK---------IKDLTDRTKTIR-NQIEK---ITKEK 1048

Query: 132  EKFTSVLAISCYPDNKIHLMDLIEES 157
            +K T+ + IS    NK      I ES
Sbjct: 1049 KKITNTINISP---NKTSYDSKIIES 1071


>gnl|CDD|31326 COG1131, CcmA, ABC-type multidrug transport system, ATPase
           component [Defense mechanisms].
          Length = 293

 Score = 28.4 bits (63), Expect = 3.3
 Identities = 15/80 (18%), Positives = 35/80 (43%)

Query: 106 IKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSI 165
            + +C+ +II+   +I    T  ++ EKF     I   P+       L    L+ G++ +
Sbjct: 200 AEELCDRVIILNDGKIIAEGTPEELKEKFGGKGVIELEPERLELAELLEGLKLVKGEEEL 259

Query: 166 SKEAKQILLANLGGDRIASR 185
           ++  + +L   +  + I  +
Sbjct: 260 AEILEALLEEGVKIESIEVK 279


>gnl|CDD|147223 pfam04943, Pox_F11, Poxvirus F11 protein.  The protein F11 is an
           early virus protein.
          Length = 366

 Score = 27.8 bits (62), Expect = 4.1
 Identities = 9/63 (14%), Positives = 22/63 (34%), Gaps = 8/63 (12%)

Query: 62  EIQKNISTFWNEINSTSLFSKKKIILIENLSTEKKVLDCLEEIIIKNICNHIIIIKSNEI 121
           E+  +I   W+E         KK+    +   +    + ++  I+  I      +  + +
Sbjct: 301 ELLSSIPELWDEY--------KKLASDVSSLLDYGQNEYIDTYILGLISRCEAGMYRDTL 352

Query: 122 KKN 124
             N
Sbjct: 353 VNN 355


>gnl|CDD|144153 pfam00450, Peptidase_S10, Serine carboxypeptidase. 
          Length = 415

 Score = 27.6 bits (62), Expect = 4.8
 Identities = 7/47 (14%), Positives = 18/47 (38%), Gaps = 7/47 (14%)

Query: 262 EKIHIIK-------ECSNISFEKIIQKTEKNIIPMKRNILQESLRIW 301
           + +H           C++           K+++P+   +L+  LR+ 
Sbjct: 288 KALHANVGSVGEWSRCNDEVNNWYGDDISKSMLPILPKLLEGGLRVL 334


>gnl|CDD|38940 KOG3736, KOG3736, KOG3736, Polypeptide
           N-acetylgalactosaminyltransferase [Posttranslational
           modification, protein turnover, chaperones].
          Length = 578

 Score = 27.6 bits (61), Expect = 5.7
 Identities = 16/52 (30%), Positives = 26/52 (50%)

Query: 69  TFWNEINSTSLFSKKKIILIENLSTEKKVLDCLEEIIIKNICNHIIIIKSNE 120
           T  + IN T  +  K+IIL+++ S    + D LEE + +     I+  K  E
Sbjct: 161 TVHSVINRTPPYLLKEIILVDDFSDRDHLKDKLEEYVKRFSKVRILRTKKRE 212


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.323    0.137    0.386 

Gapped
Lambda     K      H
   0.267   0.0607    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,107,869
Number of extensions: 222704
Number of successful extensions: 535
Number of sequences better than 10.0: 1
Number of HSP's gapped: 528
Number of HSP's successfully gapped: 28
Length of query: 352
Length of database: 6,263,737
Length adjustment: 95
Effective length of query: 257
Effective length of database: 4,210,882
Effective search space: 1082196674
Effective search space used: 1082196674
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 58 (26.4 bits)