RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780295|ref|YP_003064708.1| tRNA pseudouridine synthase A
[Candidatus Liberibacter asiaticus str. psy62]
(247 letters)
>1dj0_A Pseudouridine synthase I; alpha/beta fold, RNA-binding
motif, RNA-modifying enzyme, lyase; 1.50A {Escherichia
coli} (A:)
Length = 264
Score = 208 bits (530), Expect = 6e-55
Identities = 90/246 (36%), Positives = 130/246 (52%), Gaps = 2/246 (0%)
Query: 1 MIRYCMIIEYNGSGYFGWQRQKNGSSIQGSIEKAIFLVTGEIVVVHGAGRTDSGVHALRQ 60
+ + + IEY+GS Y+GWQRQ S+Q +EKA+ V E + V AGRTD+GVH Q
Sbjct: 3 VYKIALGIEYDGSKYYGWQRQNEVRSVQEKLEKALSQVANEPITVFCAGRTDAGVHGTGQ 62
Query: 61 VAHFDLVREWVPVILCKALNAYLKISDTISILNLSIVDKQFHARFSAIRRSYLYRIITRQ 120
V HF+ +NA L I++ + V FHARFSA R Y Y I +
Sbjct: 63 VVHFETTALRKDAAWTLGVNANLP--GDIAVRWVKTVPDDFHARFSATARRYRYIIYNHR 120
Query: 121 APLALEKGRAWLIPKSLDCENMRIAAQHLVGRHDFTTFRSIHCQASSPIRTIDHFDVNSF 180
A+ + LD E M AAQ L+G +DFT+FR++ CQ+ +P R + H +V
Sbjct: 121 LRPAVLSKGVTHFYEPLDAERMHRAAQCLLGENDFTSFRAVQCQSRTPWRNVMHINVTRH 180
Query: 181 GNLIEIRVVARSFLHTQIRSFVGSLKLVGDGKWTSTDLEKALQAQDRKECGPLAPPEGLY 240
G + + + A +F+H +R+ VGSL VG + + + L A+DR A EGLY
Sbjct: 181 GPYVVVDIKANAFVHHMVRNIVGSLMEVGAHNQPESWIAELLAAKDRTLAAATAKAEGLY 240
Query: 241 FDSVEY 246
+V+Y
Sbjct: 241 LVAVDY 246
>1vs3_A TRNA pseudouridine synthase A; TRUA, tRNA modification,
structural genomics, NPPSFA; 2.25A {Thermus thermophilus
HB8} (A:)
Length = 249
Score = 198 bits (504), Expect = 5e-52
Identities = 83/249 (33%), Positives = 119/249 (47%), Gaps = 6/249 (2%)
Query: 1 MIRYCMIIEYNGSGYFGWQRQKNG-SSIQGSIEKAIFLVTGEIVVVHGAGRTDSGVHALR 59
M R ++ EY+G+ + G QRQ G ++QG +E+A+ + AGRTD+GVHAL
Sbjct: 1 MRRLLLLCEYDGTLFAGLQRQGRGLRTVQGELERALPGIGALPKA-VAAGRTDAGVHALA 59
Query: 60 QVAHFDLVREWVPVILCKALNAYLKISDTISILNLSIVDKQFHARFSAIRRSYLYRIITR 119
H D+ + +ALN L + + ++ V FHAR A+ R+Y YRI+ R
Sbjct: 60 MPFHVDVESAIPVEKVPEALNRLLP--EDLKVVGAREVAPDFHARKDALWRAYRYRILVR 117
Query: 120 QAPLALEKGRAWLIPKSLDCENMRIAAQHLVGRHDFTTFRSIHCQASSPIRTIDH--FDV 177
P L + RA + + LD E M A L+GRH+F F +
Sbjct: 118 PHPSPLLRHRALWVRRPLDLEAMEEALSLLLGRHNFLGFAKEETRPGERELLEARLQVAE 177
Query: 178 NSFGNLIEIRVVARSFLHTQIRSFVGSLKLVGDGKWTSTDLEKALQAQDRKECGPLAPPE 237
G + + +SFL Q+R VG+L VG GK L+ L+ DR+ GP AP
Sbjct: 178 GEAGLEVRLYFRGKSFLRGQVRGMVGTLLEVGLGKRPPESLKAILKTADRRLAGPTAPAH 237
Query: 238 GLYFDSVEY 246
GLYF Y
Sbjct: 238 GLYFVEAAY 246
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase,
translation termination, ATP-binding, cytoplasm,
hydrolase, membrane; 2.80A {Schizosaccharomyces pombe}
(A:1-326)
Length = 326
Score = 33.2 bits (75), Expect = 0.030
Identities = 20/208 (9%), Positives = 54/208 (25%), Gaps = 53/208 (25%)
Query: 27 IQGSIEKAIFLV-TGEIVVVHGAGRTDSGVHA--LRQVAHFDLVREWVP--VILCKALNA 81
IQ EKA+ L+ + + G ++ +G A + P + L +
Sbjct: 145 IQ---EKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSREL 201
Query: 82 YLKISDTISILNLSIVDKQFHARFSAIRRSYLYRIITRQAPLALEKGRAWLIPKSLDCEN 141
+I D + +++ ++ ++ + + + + +
Sbjct: 202 ARQIMDVV----------TEMGKYTEVKTAFGIKDSVPKG---AKID-----AQIVIGTP 243
Query: 142 MRIAAQHLVGRHDFTTFRSIHCQASSPIRTIDHFDVNSFGNLI----------------- 184
+ L+ R + + + D G+
Sbjct: 244 GTV--MDLMKR---RQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFS 298
Query: 185 -----EIRVVARSFLHTQIRSFVGSLKL 207
+ A F + + +L
Sbjct: 299 ATFSERVEKYAERFAPNANEIRLKTEEL 326
>2ahx_A P180ERBB4, receptor tyrosine-protein kinase ERBB-4; X-RAY
crystallography, neuregulins, heparin-binding, cell
cycle,signaling protein; HET: NAG NDG; 2.40A {Homo
sapiens} (A:305-488)
Length = 184
Score = 28.9 bits (64), Expect = 0.59
Identities = 12/56 (21%), Positives = 19/56 (33%), Gaps = 3/56 (5%)
Query: 157 TFRSIHCQASSPIRTIDHFDVNSFGNLIEIR---VVARSFLHTQIRSFVGSLKLVG 209
IH + I ID +N F + EI + + S +L +G
Sbjct: 41 LVTGIHGDPYNAIEAIDPEKLNVFRTVREITGFLNIQSWPPNMTDFSVFSNLVTIG 96
>1mox_A Epidermal growth factor receptor; EGFR, receptor, complex,
transferase/growth factor complex; HET: NAG FUC BMA MAN;
2.50A {Homo sapiens} (A:308-501)
Length = 194
Score = 27.9 bits (61), Expect = 1.4
Identities = 4/60 (6%), Positives = 19/60 (31%), Gaps = 3/60 (5%)
Query: 157 TFRSIHCQASSPIRTIDHFDVNSFGNLIEIR---VVARSFLHTQIRSFVGSLKLVGDGKW 213
+ + + +D +++ + EI ++ + +L+++
Sbjct: 41 LPVAFRGDSFTHTPPLDPQELDILKTVKEITGFLLIQAWPENRTDLHAFENLEIIRGRTK 100
>1uc2_A PH1602, hypothetical protein PH1602; structural genomics,
unknown function; HET: SUC; 2.15A {Pyrococcus
horikoshii} (A:)
Length = 481
Score = 26.9 bits (59), Expect = 2.6
Identities = 15/51 (29%), Positives = 21/51 (41%), Gaps = 8/51 (15%)
Query: 27 IQGSIEKAIFLVTGEIV--------VVHGAGRTDSGVHALRQVAHFDLVRE 69
I GS+ A +++ G HGAGR S A RQ + +E
Sbjct: 377 IPGSMGTASYILAGTEGAMKETFGSTCHGAGRVLSRKAATRQYRGDRIRQE 427
>1m6b_A C-, receptor protein-tyrosine kinase ERBB-3; cell surface
receptor, immunity, signaling protein, transferase; HET:
NAG NDG; 2.60A {Homo sapiens} (A:307-490)
Length = 184
Score = 27.0 bits (59), Expect = 2.6
Identities = 9/55 (16%), Positives = 17/55 (30%), Gaps = 3/55 (5%)
Query: 157 TFRSIHCQASSPIRTIDHFDVNSFGNLIEIR---VVARSFLHTQIRSFVGSLKLV 208
++ I +D +N F + EI + H S +L +
Sbjct: 39 LITGLNGDPWHKIPALDPEKLNVFRTVREITGYLNIQSWPPHMHNFSVFSNLTTI 93
>3iv0_A SUSD homolog; NP_809186.1, structural genomics, joint center
for structural genomics, JCSG, protein structure
initiative; HET: MSE; 1.35A {Bacteroides
thetaiotaomicron vpi-5482} (A:1-151,A:285-328)
Length = 195
Score = 25.4 bits (55), Expect = 6.9
Identities = 9/36 (25%), Positives = 15/36 (41%), Gaps = 6/36 (16%)
Query: 55 VHALRQVAHFDLVREWVPVILCKALNAYLKISDTIS 90
R +++F +VR + V Y SD +S
Sbjct: 127 AIFXRSLSYFFIVRAFGDVPY------YTNASDNVS 156
>2jhf_A Alcohol dehydrogenase E chain; oxidoreductase, metal
coordination, NAD, zinc, inhibition, acetylation,
metal-binding; HET: NAD; 1.0A {Equus caballus}
(A:168-322)
Length = 155
Score = 25.2 bits (54), Expect = 8.2
Identities = 10/68 (14%), Positives = 16/68 (23%), Gaps = 3/68 (4%)
Query: 40 GEIVVVHGAGRTDSGVHALRQVAHFDLVREWVPVILCKALNAYLKISDTISILNLSIVDK 99
G V G G ++ + V + K A K +N K
Sbjct: 25 GSTCAVFGLG---GVGLSVIMGCKAAGAARIIGVDINKDKFAKAKEVGATECVNPQDYKK 81
Query: 100 QFHARFSA 107
+
Sbjct: 82 PIQEVLTE 89
>2v9k_A Uncharacterized protein FLJ32312; pseudouridine synthase,
PUS10, RNA modification, thump domain, lyase; HET: EPE;
2.0A {Homo sapiens} (A:1-410)
Length = 410
Score = 25.0 bits (54), Expect = 8.8
Identities = 18/85 (21%), Positives = 29/85 (34%), Gaps = 7/85 (8%)
Query: 22 KNGSSIQGSIEKAIF-LVTGEIVVVHGAGRTDSGVHALRQVAHFDLV-----REWVPVIL 75
K SS++ I + + E +GR D V L F + R
Sbjct: 314 KLESSVEELISDHLLAVFKAESFNFSSSGREDVDVRTLGNGRPFAIELVNPHRVHFTSQE 373
Query: 76 CKAL-NAYLKISDTISILNLSIVDK 99
K L S+ I + +L +V +
Sbjct: 374 IKELQQKINNSSNKIQVRDLQLVTR 398
>2epg_A Hypothetical protein TTHA1785; alpha-beta fold, structural
genomics, NPPSFA; 2.10A {Thermus thermophilus HB8} (A:)
Length = 487
Score = 25.0 bits (54), Expect = 9.9
Identities = 12/51 (23%), Positives = 20/51 (39%), Gaps = 8/51 (15%)
Query: 27 IQGSIEKAIFLVTGEI--------VVVHGAGRTDSGVHALRQVAHFDLVRE 69
+ G + +++ G HGAGR S A + +LV+E
Sbjct: 383 VPGDXGRYSYVLAGTEKAXEVSFGSSCHGAGRKXSRHQAKKVARERNLVKE 433
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
0.325 0.138 0.421
Gapped
Lambda K H
0.267 0.0531 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,962,626
Number of extensions: 86069
Number of successful extensions: 320
Number of sequences better than 10.0: 1
Number of HSP's gapped: 317
Number of HSP's successfully gapped: 15
Length of query: 247
Length of database: 4,956,049
Length adjustment: 86
Effective length of query: 161
Effective length of database: 2,048,819
Effective search space: 329859859
Effective search space used: 329859859
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.7 bits)