RPS-BLAST 2.2.22 [Sep-27-2009]

Database: pdb70 
           24,244 sequences; 5,693,230 total letters

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

Query= gi|254780490|ref|YP_003064903.1| site-specific tyrosine
recombinase XerC [Candidatus Liberibacter asiaticus str. psy62]
         (67 letters)



>1a0p_A Site-specific recombinase XERD; DNA binding, DNA recombination;
           2.50A {Escherichia coli} SCOP: a.60.9.1 d.163.1.1
          Length = 290

 Score = 71.4 bits (173), Expect = 4e-14
 Identities = 29/50 (58%), Positives = 42/50 (84%)

Query: 4   TAHTLRHSFATHLLSNGGDLRSIQSILGHSRLSTTQIYTNVNSKRMMEIY 53
           + H LRH+FATHLL++G DLR +Q +LGHS LSTTQIYT+V ++R+ +++
Sbjct: 240 SPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLH 289


>2a3v_A Site-specific recombinase INTI4; protein-DNA complex,
           recombination; HET: DNA; 2.80A {Vibrio cholerae o1
           biovar eltor str}
          Length = 320

 Score = 69.8 bits (169), Expect = 1e-13
 Identities = 27/51 (52%), Positives = 35/51 (68%)

Query: 4   TAHTLRHSFATHLLSNGGDLRSIQSILGHSRLSTTQIYTNVNSKRMMEIYD 54
           T HTLRHSFATHLL  G D+R++Q  LGH+ + TTQIYT+V  +    +  
Sbjct: 265 TCHTLRHSFATHLLEVGADIRTVQEQLGHTDVKTTQIYTHVLDRGASGVLS 315


>1xo0_A Recombinase CRE; CRE recombinase, holliday junction,
           recombination,complex (recombinase/DNA), hydrolase,
           ligase/DNA complex; 2.00A {Enterobacteria phage P1}
           SCOP: a.60.9.1 d.163.1.1 PDB: 3crx_A* 1kbu_A 1ma7_A
           1q3u_A* 1q3v_A* 2crx_A* 1ouq_A* 1nzb_A* 1xns_A 5crx_A*
           1f44_A* 2hof_A 2hoi_A 4crx_A* 1drg_A 3c29_A* 3c28_A
           1crx_A* 1pvr_A 1pvq_A ...
          Length = 324

 Score = 63.4 bits (152), Expect = 1e-11
 Identities = 7/49 (14%), Positives = 15/49 (30%)

Query: 4   TAHTLRHSFATHLLSNGGDLRSIQSILGHSRLSTTQIYTNVNSKRMMEI 52
           + H+ R   A  +   G  +  I    G + ++    Y          +
Sbjct: 268 SGHSARVGAARDMARAGVSIPEIMQAGGWTNVNIVMNYIRNLDSETGAM 316


>3nkh_A Integrase; alpha-fold, MRSA protein, structural genomics, PSI-2,
           protei structure initiative; 2.50A {Staphylococcus
           aureus subsp}
          Length = 244

 Score = 61.8 bits (149), Expect = 4e-11
 Identities = 17/53 (32%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 4   TAHTLRHSFATHLLSNGGDLRSIQSILGHSRLSTT-QIYTNVNSKRMMEIYDQ 55
           ++H LRHS  + L   G  L++I   +GHS   TT  IY++V  +   ++ ++
Sbjct: 185 SSHILRHSHISLLSQQGVSLKAIMDRVGHSDHRTTLSIYSHVTEQMDKDMMNK 237


>1z1b_A Integrase; protein-DNA complex, DNA binding protein/DNA complex;
           HET: PTR; 3.80A {Enterobacteria phage lambda} SCOP:
           d.10.1.4 d.163.1.1 PDB: 1z1g_A 1kjk_A 2wcc_3*
          Length = 356

 Score = 54.9 bits (130), Expect = 4e-09
 Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 1/49 (2%)

Query: 4   TAHTLRHSFATHLLSNGGDLRSIQSILGHSRLSTTQIYTNVNSKRMMEI 52
           T H LR   +  L       +  Q +LGH   +    Y +   +   +I
Sbjct: 306 TFHELRS-LSARLYEKQISDKFAQHLLGHKSDTMASQYRDDRGREWDKI 353


>1z19_A Integrase; protein-DNA complex, DNA binding protein/DNA complex;
           HET: PTR; 2.80A {Enterobacteria phage lambda} PDB:
           1p7d_A*
          Length = 283

 Score = 52.6 bits (124), Expect = 2e-08
 Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 1/50 (2%)

Query: 4   TAHTLRHSFATHLLSNGGDLRSIQSILGHSRLSTTQIYTNVNSKRMMEIY 53
           T H LR   +  L       +  Q +LGH   +    Y +   +   +I 
Sbjct: 233 TFHELRS-LSARLYEKQISDKFAQHLLGHKSDTMASQYRDDRGREWDKIE 281


>1ae9_A Lambda integrase; DNA recombination, site-specific recombination;
           1.90A {Bacteriophage lambda} SCOP: d.163.1.1
          Length = 179

 Score = 44.8 bits (104), Expect = 5e-06
 Identities = 7/47 (14%), Positives = 15/47 (31%)

Query: 6   HTLRHSFATHLLSNGGDLRSIQSILGHSRLSTTQIYTNVNSKRMMEI 52
                S +  L       +  Q +LGH   +    + +   +   +I
Sbjct: 131 FHELRSLSARLYEKQISDKFAQHLLGHKSDTMASQFRDDRGREWDKI 177


>1aih_A HP1 integrase; DNA integration, recombination; 2.50A {Bacteriophage
           HP1} SCOP: d.163.1.1
          Length = 170

 Score = 40.5 bits (93), Expect = 1e-04
 Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 1/55 (1%)

Query: 4   TAHTLRHSFATHLLSNGGDLRSIQSILGHSRLSTTQIYTNVNSKRMMEIYDQTHP 58
             H LRH+FA+H + NGG++  ++ ILGHS +  T  Y +     +     + +P
Sbjct: 111 LTHVLRHTFASHFMMNGGNILVLKEILGHSTIEMTMRYAHFAPSHLESAV-KFNP 164


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
           acyl-carrier-protein, beta-ketoacyl reductase,
           beta-ketoacyl synthase, dehydratase; 4.00A
           {Saccharomyces cerevisiae}
          Length = 2006

 Score = 26.8 bits (59), Expect = 1.3
 Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 9/48 (18%)

Query: 12  FATHLLSNGGDLRSIQ-SILGHSRLSTTQIYT-NVNSKRMMEIYDQTH 57
           + T    +G DLR +  SI    R+    I    V  +   + +  TH
Sbjct: 460 YDTF---DGSDLRVLSGSIS--ERI-VDCIIRLPVKWETTTQ-FKATH 500



 Score = 25.3 bits (55), Expect = 3.5
 Identities = 12/83 (14%), Positives = 24/83 (28%), Gaps = 33/83 (39%)

Query: 10  HSFATHLL-SNGGDLRSIQSIL----------------GH-SRL------STTQIYT--- 42
           H+ A  LL  N   L   + ++                   S L         Q+     
Sbjct: 102 HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFG 161

Query: 43  ---NVNS--KRMMEIYDQTHPSI 60
              N +   + + ++Y  T+  +
Sbjct: 162 GQGNTDDYFEELRDLYQ-TYHVL 183


  Database: pdb70
    Posted date:  Jan 26, 2011 11:21 AM
  Number of letters in database: 5,693,230
  Number of sequences in database:  24,244
  
Lambda     K      H
   0.314    0.124    0.341 

Gapped
Lambda     K      H
   0.267   0.0466    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 464,784
Number of extensions: 13572
Number of successful extensions: 52
Number of sequences better than 10.0: 1
Number of HSP's gapped: 50
Number of HSP's successfully gapped: 14
Length of query: 67
Length of database: 5,693,230
Length adjustment: 37
Effective length of query: 30
Effective length of database: 4,796,202
Effective search space: 143886060
Effective search space used: 143886060
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: 41 (21.6 bits)
S2: 50 (23.7 bits)