RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780554|ref|YP_003064967.1| Holliday junction resolvase
[Candidatus Liberibacter asiaticus str. psy62]
(169 letters)
>1hjr_A Holliday junction resolvase (RUVC); site-specific recombinase;
2.50A {Escherichia coli} SCOP: c.55.3.6
Length = 158
Score = 158 bits (400), Expect = 7e-40
Identities = 62/154 (40%), Positives = 96/154 (62%), Gaps = 1/154 (0%)
Query: 7 IIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPE 66
I+GIDPG R TG+G++ G L ++ SG I L RL +Y G+T++I ++P+
Sbjct: 3 ILGIDPGSRVTGYGVIRQVGRQLSYLGSGCI-RTKVDDLPSRLKLIYAGVTEIITQFQPD 61
Query: 67 EAAVEQVFVNKDAVATLKLGQARAIAILSPALARIPVSEYAPNTIKKAVIGVGHGDKKQI 126
A+EQVF+ K+A + LKLGQAR +AI++ +PV EYA +K+ V+G+G +K Q+
Sbjct: 62 YFAIEQVFMAKNADSALKLGQARGVAIVAAVNQELPVFEYAARQVKQTVVGIGSAEKSQV 121
Query: 127 HMMLKMLMPESFFKGKDAADALAIAVCHAYHANS 160
M++ L+ DAADALAIA+ H + + +
Sbjct: 122 QHMVRTLLKLPANPQADAADALAIAITHCHVSQN 155
>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 = 45.3 bits (107), Expect = 7e-06
Identities = 45/234 (19%), Positives = 69/234 (29%), Gaps = 100/234 (42%)
Query: 6 RIIGIDPG-LRR-----TG--WGIVDVAGDNLCFVSSGT--------IVSCVRQSLAFRL 49
+++G PG LR TG G+V A ++ + + + F +
Sbjct: 254 KLLGFTPGELRSYLKGATGHSQGLV-TA----VAIAETDSWESFFVSVRKAIT--VLFFI 306
Query: 50 ---CQLY------------------EG---------------LTDVIK--NWR-PEEAAV 70
C EG + D + N P V
Sbjct: 307 GVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQV 366
Query: 71 EQVFVN--KDAVAT----------LKLGQARAIAILSPALARIPVSEYAPNTIKKAVIG- 117
E VN K+ V + L L +A+A + L + RIP SE +K
Sbjct: 367 EISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQS--RIPFSE------RKLKFSN 418
Query: 118 ----VG---HGD--KKQIHMMLKMLMPESF-FKGKDAADALAIAVCHAYHANSG 161
V H ++ K L+ + F KD + I V Y G
Sbjct: 419 RFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKD----IQIPV---YDTFDG 465
Score = 28.8 bits (64), Expect = 0.66
Identities = 20/83 (24%), Positives = 36/83 (43%), Gaps = 28/83 (33%)
Query: 2 RKSIRIIGIDPGL------------------RRTGW--GIVDVAGDNLCFVSSGTI--VS 39
R + +I I+PG +RTGW IV+ +N +V++G + +
Sbjct: 1804 RSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALD 1863
Query: 40 CVRQSLAF-RLCQLYEGLTDVIK 61
V L F +L ++ D+I+
Sbjct: 1864 TVTNVLNFIKLQKI-----DIIE 1881
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 35.0 bits (79), Expect = 0.008
Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 15/39 (38%)
Query: 112 KKAVIGVGHGDKKQIHMMLKMLMPESFFKGKDAADALAI 150
K+A+ K++ LK+ D+A ALAI
Sbjct: 19 KQAL--------KKLQASLKLY-------ADDSAPALAI 42
Score = 31.1 bits (69), Expect = 0.14
Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 10/34 (29%)
Query: 66 EEAAVEQVFVNKDAVATLKLGQARAIAILSPALA 99
E+ A++++ A+LKL A A PALA
Sbjct: 18 EKQALKKL------QASLKL-YADDSA---PALA 41
>1vhx_A Putative holliday junction resolvase; structural genomics,
hydrolase; 1.96A {Bacillus subtilis} SCOP: c.55.3.8
Length = 150
Score = 32.0 bits (72), Expect = 0.081
Identities = 14/68 (20%), Positives = 31/68 (45%), Gaps = 9/68 (13%)
Query: 4 SIRIIGIDPGLRRTGWGIVDVA-GDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKN 62
S+RI+G+D G + G VA D + + + G + + L+++IK+
Sbjct: 2 SLRILGLDLGTKTLG-----VALSDEMGWTAQGIETIKINE---AEGDYGLSRLSELIKD 53
Query: 63 WRPEEAAV 70
+ ++ +
Sbjct: 54 YTIDKIVL 61
>1ldd_A APC2WHB, anaphase promoting complex; ubiquitin, ligase,
ubiquitination, ring finger, winged-helix; 2.00A
{Saccharomyces cerevisiae} SCOP: a.4.5.34
Length = 74
Score = 30.9 bits (70), Expect = 0.17
Identities = 5/15 (33%), Positives = 10/15 (66%)
Query: 124 KQIHMMLKMLMPESF 138
+IH LK+ +P+ +
Sbjct: 26 HKIHSFLKITVPKDW 40
>1nu0_A Hypothetical protein YQGF; structural genomics, structure 2
function project, S2F, unknown function; 1.60A
{Escherichia coli} SCOP: c.55.3.8 PDB: 1nmn_A 1ovq_A
Length = 138
Score = 30.7 bits (69), Expect = 0.19
Identities = 9/65 (13%), Positives = 20/65 (30%), Gaps = 9/65 (13%)
Query: 6 RIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRP 65
++ D G + G + + A + + ++K W+P
Sbjct: 4 TLMAFDFGTKSIGVAVGQ---------RITGTARPLPAIKAQDGTPDWNIIERLLKEWQP 54
Query: 66 EEAAV 70
+E V
Sbjct: 55 DEIIV 59
>1iv0_A Hypothetical protein; rnaseh-like, YQGF, structural genomics,
riken structural genomics/proteomics initiative, RSGI,
unknown function; NMR {Thermus thermophilus} SCOP:
c.55.3.8
Length = 98
Score = 29.0 bits (65), Expect = 0.59
Identities = 11/52 (21%), Positives = 19/52 (36%), Gaps = 8/52 (15%)
Query: 6 RIIGIDPGLRRTGWGIVDVA-GDNLCFVSSG--TIVSCVRQSLAFRLCQLYE 54
R+ +D G R G +A G+ ++SG +V + L
Sbjct: 2 RVGALDVGEARIG-----LAVGEEGVPLASGRGYLVRKTLEEDVEALLDFVR 48
>3myr_B Nickel-dependent hydrogenase large subunit; [NIFE] hydrogenase,
photosynthetic P sulfur bacterium, iron-sulfur cluster,
NI-A state; HET: SF4; 2.10A {Allochromatium vinosum}
Length = 561
Score = 26.7 bits (58), Expect = 2.5
Identities = 10/31 (32%), Positives = 13/31 (41%), Gaps = 5/31 (16%)
Query: 136 ESFFKGKDAADALAIA-----VCHAYHANSG 161
E+ KG+D DA A VC H +
Sbjct: 42 ETILKGRDPRDAWAFVQRICGVCTLVHGIAS 72
>2uv9_A Fatty acid synthase alpha subunits; fungal, dehydratase, enoyl
reductase, ketoacyl synthase, ketoacyl reductase; 3.1A
{Thermomyces lanuginosus} PDB: 2uvb_A*
Length = 1878
Score = 26.9 bits (59), Expect = 2.5
Identities = 20/106 (18%), Positives = 43/106 (40%), Gaps = 14/106 (13%)
Query: 64 RPEEAAVEQVFVNKDAVATLKLGQARAIAILSPALARI-----PVSEYAPNTIKKAVIGV 118
+PE+ ++++ + A +LG+ S +AR P + ++K +
Sbjct: 200 KPEDTPLDELGASMQATFDGQLGKQ-----SSSLIARFVSSKMP-GGFNITAVRKYLETR 253
Query: 119 -GHGDKKQIHMMLKML--MPESFFKGKDAADALAIAVCHAYHANSG 161
G G +Q ++L + P S + A A + + Y + +G
Sbjct: 254 WGLGPGRQDGVLLFAITAEPPSRLGSEADAKAYFDNLANKYASYAG 299
>2az4_A Hypothetical protein EF2904; structural genomics, PSI, protein
structure initiative, midwest center for structural
genomics, MCSG; 2.00A {Enterococcus faecalis V583} SCOP:
d.157.1.10
Length = 429
Score = 25.3 bits (54), Expect = 8.0
Identities = 3/21 (14%), Positives = 10/21 (47%)
Query: 119 GHGDKKQIHMMLKMLMPESFF 139
GH + + ++ ++ P+
Sbjct: 381 GHAIPEDLDKIIALIEPQVLV 401
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
0.323 0.136 0.406
Gapped
Lambda K H
0.267 0.0493 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,490,617
Number of extensions: 64036
Number of successful extensions: 179
Number of sequences better than 10.0: 1
Number of HSP's gapped: 176
Number of HSP's successfully gapped: 16
Length of query: 169
Length of database: 5,693,230
Length adjustment: 86
Effective length of query: 83
Effective length of database: 3,608,246
Effective search space: 299484418
Effective search space used: 299484418
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.8 bits)