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)