RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780976|ref|YP_003065389.1| Holliday junction resolvase
YqgF [Candidatus Liberibacter asiaticus str. psy62]
(160 letters)
>1nu0_A Hypothetical protein YQGF; structural genomics, structure 2
function project, S2F, unknown function; 1.60A
{Escherichia coli} (A:)
Length = 138
Score = 126 bits (319), Expect = 1e-30
Identities = 41/136 (30%), Positives = 62/136 (45%), Gaps = 1/136 (0%)
Query: 16 NQPIASIDLGTKRIGLAISDPGRRFAHPRPFLVRKKVTQTALELLSFITTENIAAFIIGL 75
+ + + D GTK IG+A+ A P P + + T + + I+GL
Sbjct: 2 SGTLXAFDFGTKSIGVAVGQRITGTARPLPAIKAQDGTPDWNIIERLLKEWQPDEIIVGL 61
Query: 76 PLNMNGSEGPRVHSTRAFVHNMIDRKVYVPFVFWDERLTTVSAQQILIDMNVSRKKRIQK 135
PLN +G+E P R F N I + V DERL+TV A+ L + R K
Sbjct: 62 PLNXDGTEQPLTARARKFA-NRIHGRFGVEVKLHDERLSTVEARSGLFEQGGYRALNKGK 120
Query: 136 VDSIAAALILQEVLDR 151
VDS +A +IL+ ++
Sbjct: 121 VDSASAVIILESYXEQ 136
>1vhx_A Putative holliday junction resolvase; structural genomics,
hydrolase; 1.96A {Bacillus subtilis} (A:)
Length = 150
Score = 103 bits (259), Expect = 1e-23
Identities = 50/144 (34%), Positives = 74/144 (51%), Gaps = 3/144 (2%)
Query: 19 IASIDLGTKRIGLAISDPGRRFAHPRPFLVRKKVTQTAL--ELLSFITTENIAAFIIGLP 76
I +DLGTK +G+A+SD A + + L I I ++G P
Sbjct: 5 ILGLDLGTKTLGVALSDEXGWTAQGIETIKINEAEGDYGLSRLSELIKDYTIDKIVLGFP 64
Query: 77 LNMNGSEGPRVHSTRAFVHNMIDRKVYVPFVFWDERLTTVSAQQILIDMNVSRKKRIQKV 136
N NG+ GPR +++ F +++ VP V WDERLTT +A++ LI +VSR+KR + +
Sbjct: 65 KNXNGTVGPRGEASQTFA-KVLETTYNVPVVLWDERLTTXAAEKXLIAADVSRQKRKKVI 123
Query: 137 DSIAAALILQEVLDRISFLESSKG 160
D AA ILQ LD ++ S
Sbjct: 124 DKXAAVXILQGYLDSLNEGGSHHH 147
>1iv0_A Hypothetical protein; rnaseh-like, YQGF, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, unknown function; NMR {Thermus
thermophilus} (A:)
Length = 98
Score = 94.8 bits (236), Expect = 4e-21
Identities = 32/97 (32%), Positives = 48/97 (49%), Gaps = 2/97 (2%)
Query: 19 IASIDLGTKRIGLAISDPGRRFAHPRPFLVRKKVTQTALELLSFITTENIAAFIIGLPLN 78
+ ++D+G RIGLA+ + G A R +LVRK + + LL F+ E + ++GLPL
Sbjct: 3 VGALDVGEARIGLAVGEEGVPLASGRGYLVRKTLEEDVEALLDFVRREGLGKLVVGLPLR 62
Query: 79 MNGSEGPRVHSTRAFVHNMIDRKVYVPFVFWDERLTT 115
+ E + V + R V WDER TT
Sbjct: 63 TDLKESAQAGKVLPLVEAL--RARGVEVELWDERFTT 97
>3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF
domain, transcription, RNA binding protein; 2.27A
{Pseudomonas aeruginosa} (A:326-467)
Length = 142
Score = 73.5 bits (180), Expect = 1e-14
Identities = 20/144 (13%), Positives = 45/144 (31%), Gaps = 11/144 (7%)
Query: 17 QPIASIDLGTK-RIGLAISDPGRRFAH---PRPFLVRKKVTQTALELLSFITTENIAAFI 72
+ +D G + + +A+ D + P + + QT L + +
Sbjct: 4 RATLGLDPGLRTGVKVAVVDATGKLLDTATVYPHAPKNQWDQTLAVLAALCAKHQVELIA 63
Query: 73 IGLPLNMNGSEGPRVHSTRAFVHNMIDRKVYVPFVFWDERLTTVSAQQILIDMNVSRKKR 132
IG NG+ + + + E +V + L +
Sbjct: 64 IG-----NGTASRETDKLAGELIKKYPGMK-LTKIMVSEAGASVYSASELAAKE-FPELD 116
Query: 133 IQKVDSIAAALILQEVLDRISFLE 156
+ +++ A LQ+ L + +E
Sbjct: 117 VSLRGAVSIARRLQDPLAELVKIE 140
>3gg9_A D-3-phosphoglycerate dehydrogenase oxidoreductase protein;
structural genomics, PSI-2, protein structure
initiative; 1.90A {Ralstonia solanacearum}
(A:1-107,A:303-352)
Length = 157
Score = 28.7 bits (64), Expect = 0.38
Identities = 9/45 (20%), Positives = 17/45 (37%)
Query: 52 VTQTALELLSFITTENIAAFIIGLPLNMNGSEGPRVHSTRAFVHN 96
V + + E+ I +NI + G ++ RA H+
Sbjct: 109 VERESYEMYFGIAFQNILDILQGNVDSVANPTALAPALIRAEGHH 153
>3c7b_B Sulfite reductase, dissimilatory-type subunit beta;
alpha/beta fold, 4Fe-4S, heme, iron, iron-sulfur,
membrane, metal-binding; HET: SRM; 2.00A {Archaeoglobus
fulgidus} (B:130-366)
Length = 237
Score = 27.8 bits (61), Expect = 0.79
Identities = 6/23 (26%), Positives = 12/23 (52%)
Query: 93 FVHNMIDRKVYVPFVFWDERLTT 115
F ++ID P+ + + R +T
Sbjct: 211 FTQHLIDDYRITPYFYSEFRAST 233
>3cp8_A TRNA uridine 5-carboxymethylaminomethyl modification enzyme
GIDA; rossmann fold, FAD-binding domain,
dinucleotide-binding motif; HET: FAD; 3.20A {Chlorobium
tepidum} (A:59-130,A:450-474)
Length = 97
Score = 26.3 bits (58), Expect = 2.1
Identities = 10/25 (40%), Positives = 14/25 (56%), Gaps = 4/25 (16%)
Query: 79 MNGSEGPRVHSTRAFVHNMIDRKVY 103
+N S+GP +HS RA D+ Y
Sbjct: 41 LNRSKGPAMHSPRA----QADKTQY 61
>1kcf_A Hypothetical 30.2 KD protein C25G10.02 in chromosome I;
beta-alpha-beta motif, RUVC resolvase family,
hydrolase; 2.30A {Schizosaccharomyces pombe} (A:)
Length = 258
Score = 25.3 bits (55), Expect = 4.3
Identities = 9/37 (24%), Positives = 14/37 (37%), Gaps = 1/37 (2%)
Query: 5 LIEDLVKS-LKPNQPIASIDLGTKRIGLAISDPGRRF 40
L+ +V S + P + IDLG K +
Sbjct: 27 LLRRIVDSPIYPTSRVLGIDLGIKNFSYCFASQNEDS 63
>3ces_A MNMG, tRNA uridine 5-carboxymethylaminomethyl modification
enzyme GIDA, GIDA; tRNA modification, FAD binding
domain, structural genomics; 2.41A {Escherichia coli}
PDB: 3cp2_A (A:66-137,A:425-480)
Length = 128
Score = 25.1 bits (55), Expect = 5.0
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 4/25 (16%)
Query: 79 MNGSEGPRVHSTRAFVHNMIDRKVY 103
+N S+GP V +TRA DR +Y
Sbjct: 41 LNASKGPAVRATRA----QADRVLY 61
>2zxi_A TRNA uridine 5-carboxymethylaminomethyl modification enzyme
MNMG; 5-carboxymethylaminomethyl uridine, wobble
uridine, FAD, FAD-binding protein; HET: FAD; 2.30A
{Aquifex aeolicus} PDB: 2zxh_A* 2e57_A*
(A:65-136,A:430-485)
Length = 128
Score = 25.1 bits (55), Expect = 5.0
Identities = 9/25 (36%), Positives = 12/25 (48%), Gaps = 4/25 (16%)
Query: 79 MNGSEGPRVHSTRAFVHNMIDRKVY 103
+N +G V S RA D+K Y
Sbjct: 41 LNTRKGKAVQSPRA----QADKKRY 61
>1eex_A Propanediol dehydratase; coenzyme B12, potassium ION, TIM
barrel, lyase; HET: COY; 1.70A {Klebsiella oxytoca}
(A:17-136,A:217-337)
Length = 241
Score = 24.8 bits (54), Expect = 5.6
Identities = 10/35 (28%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 122 LIDMNVSRKKRIQKVDSIAAALILQEVLDRISFLE 156
L D NV R + + ++ A I+ EV+ ++ +E
Sbjct: 75 LCDPNVKRSEIVPLTTAMTPAKIV-EVVSHMNVVE 108
>1ec7_A Glucarate dehydratase; lyase; 1.90A {Escherichia coli}
(A:1-135,A:399-446)
Length = 183
Score = 24.2 bits (52), Expect = 9.5
Identities = 7/15 (46%), Positives = 9/15 (60%)
Query: 35 DPGRRFAHPRPFLVR 49
PG F + RP +VR
Sbjct: 169 IPGWTFDNKRPCMVR 183
Database: mmdb70
Posted date: Jun 20, 2010 3:12 AM
Number of letters in database: 4,956,049
Number of sequences in database: 33,805
Lambda K H
0.323 0.138 0.385
Gapped
Lambda K H
0.267 0.0654 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,119,319
Number of extensions: 45805
Number of successful extensions: 141
Number of sequences better than 10.0: 1
Number of HSP's gapped: 136
Number of HSP's successfully gapped: 16
Length of query: 160
Length of database: 4,956,049
Length adjustment: 82
Effective length of query: 78
Effective length of database: 2,184,039
Effective search space: 170355042
Effective search space used: 170355042
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: 51 (23.6 bits)