RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11244
(102 letters)
>2z1a_A 5'-nucleotidase; metal-binding, nucleotide-binding, hydrolase,
structural genomics, NPPSFA; HET: THM; 1.75A {Thermus
thermophilus} SCOP: d.114.1.1 d.159.1.2
Length = 552
Score = 68.1 bits (167), Expect = 4e-15
Identities = 20/63 (31%), Positives = 38/63 (60%), Gaps = 1/63 (1%)
Query: 5 KPPCPHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYNDKGNIVSWRGDPIL 64
P P GPYP VV + + + VLVVQA + + +GL+ + ++ KG +++++G+ +L
Sbjct: 245 SFPHKELSPAGPYPTVVKNP-EGKDVLVVQAWEWGKVVGLLEVTFDAKGELLAYKGEALL 303
Query: 65 LDK 67
+
Sbjct: 304 MTP 306
>3ztv_A NAD nucleotidase, NADN; hydrolase, NAD pyrophosphatase, NMN
nucleotidase, periplasmi enzyme, CD73; HET: ADN; 1.30A
{Haemophilus influenzae} PDB: 3zu0_A*
Length = 579
Score = 59.1 bits (143), Expect = 7e-12
Identities = 13/76 (17%), Positives = 29/76 (38%), Gaps = 1/76 (1%)
Query: 1 MTGRKPPCPHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYNDKGNIVSWRG 60
+ YP+ + + V V++ AYS +G + ++++ +G R
Sbjct: 231 YGNDELRSLKLPVIYEYPLEFKNP-NGEPVFVMEGWAYSAVVGDLGVKFSPEGIASITRK 289
Query: 61 DPILLDKHIQEVENNT 76
P +L + N+
Sbjct: 290 IPHVLMSSHKLQVKNS 305
>1hp1_A 5'-nucleotidase; metallophosphatase, dinuclear, metalloenzyme,
hydrolase, domain movement; HET: ATP; 1.70A {Escherichia
coli} SCOP: d.114.1.1 d.159.1.2 PDB: 1ush_A 2ush_A
1hpu_A* 1ho5_A* 1oi8_A 1oid_A 1oie_A
Length = 516
Score = 57.4 bits (139), Expect = 2e-11
Identities = 11/60 (18%), Positives = 26/60 (43%), Gaps = 1/60 (1%)
Query: 9 PHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYND-KGNIVSWRGDPILLDK 67
+ K P + +VQA + +Y+G ++ + + +V+++ P+ L K
Sbjct: 237 ENKKQVDYVPGTPCKPDQQNGIWIVQAHEWGKYVGRADFEFRNGEMKMVNYQLIPVNLKK 296
>3gve_A YFKN protein; alpha-beta-BETA-alpha sandwich, structural genomics,
PSI-2, structure initiative; HET: CIT; 1.25A {Bacillus
subtilis subsp}
Length = 341
Score = 46.6 bits (111), Expect = 1e-07
Identities = 20/90 (22%), Positives = 35/90 (38%), Gaps = 6/90 (6%)
Query: 9 PHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYNDKGN---IVSWRGDPILL 65
P + G V N + VV +++ +YLG+I L+ + +G +
Sbjct: 255 PSAEYAGVAQFNVEKGTIN-GIPVVMPSSWGKYLGVIDLKLEKADGSWKVADSKGSIESI 313
Query: 66 DKHIQEVENNTVIELPNHAHCSTLETYGNQ 95
++ N TV H +TLE Y +
Sbjct: 314 AGNVTS-RNETVTNTIQQTHQNTLE-YVRK 341
>3ive_A Nucleotidase; structural genomics, PSI-2, protein structure
initiative, NEW YORK SGX research center for structural
genomics, nysgxrc; HET: CTN; 1.70A {Escherichia coli O6}
PDB: 3ivd_A*
Length = 509
Score = 45.0 bits (107), Expect = 6e-07
Identities = 11/55 (20%), Positives = 22/55 (40%), Gaps = 9/55 (16%)
Query: 16 PYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYNDKGN---IVSWRGDPILLDK 67
P PI V L++ + +G + L Y +K + + ++ I D+
Sbjct: 239 PEPIKVG------NTLILSTDSGGIDVGKLVLDYKEKPHNFTVKNFELKTIYADE 287
>2wdc_A SOXB, sulfur oxidation protein SOXB; sulfur-sulfur hydrolysis,
sulfur oxidation pathway, Cys S-thiosulfonate,
hydrolase; 1.50A {Thermus thermophilus} PDB: 2wdd_A*
2wde_A 2wdf_A
Length = 562
Score = 39.1 bits (91), Expect = 7e-05
Identities = 12/57 (21%), Positives = 21/57 (36%), Gaps = 7/57 (12%)
Query: 10 HDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYNDKGNIVSWRGDPILLD 66
H P P V + +V +A + L + L+ KG I + R + +
Sbjct: 286 HTHDLTPRPWRV------GKTWIVAGSAAGKALMRVDLKL-WKGGIANLRVRVLPVL 335
>3qfk_A Uncharacterized protein; structural genomics, center for structural
genomics of infec diseases, csgid, phosphoesterase,
hydrolase; HET: MSE AKG; 2.05A {Staphylococcus aureus
subsp}
Length = 527
Score = 38.5 bits (90), Expect = 1e-04
Identities = 10/48 (20%), Positives = 19/48 (39%), Gaps = 2/48 (4%)
Query: 28 RQVLVVQAAAYSRYLGLIHLQYNDKGNIV--SWRGDPILLDKHIQEVE 73
+Q V+Q +G + L ++ N+ S P++ D E
Sbjct: 257 KQTAVIQPGTRGTTVGRVVLSTDEYENLSVESCELLPVIDDSTFTIDE 304
>3jyf_A 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'- nucleotidase
bifunctional periplasmic...; APC63187.2; HET: EPE TAM;
2.43A {Klebsiella pneumoniae subsp}
Length = 339
Score = 36.2 bits (84), Expect = 5e-04
Identities = 8/66 (12%), Positives = 20/66 (30%), Gaps = 4/66 (6%)
Query: 9 PHDKPKGPYPIVVTSSVDNRQVLVVQAAAYSRYLGLIHLQYNDKGN---IVSWRGDPILL 65
P + N V V + +LG++ L N+ + + + +
Sbjct: 248 PGKDFANIKGADIAKGTLN-GVPAVMPGMWGDHLGVVDLVLNNDSGKWQVTQSKAEARPI 306
Query: 66 DKHIQE 71
+ +
Sbjct: 307 YDAVAK 312
>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA
replication, MCM complex, AAA+ Pro ATP-binding,
DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}
Length = 595
Score = 26.1 bits (58), Expect = 2.1
Identities = 6/28 (21%), Positives = 12/28 (42%), Gaps = 1/28 (3%)
Query: 8 CPHDKPKGPYPIVVTSSV-DNRQVLVVQ 34
CP G + ++ + + Q V+Q
Sbjct: 165 CPKCGKPGQFRLIPEKTKLIDWQKAVIQ 192
>2vl6_A SSO MCM N-TER, minichromosome maintenance protein MCM; helicase,
hydrolase, zinc-finger, ATP-binding, DNA-BIND ssDNA
binding; 2.8A {Sulfolobus solfataricus}
Length = 268
Score = 25.8 bits (57), Expect = 2.7
Identities = 6/28 (21%), Positives = 12/28 (42%), Gaps = 1/28 (3%)
Query: 8 CPHDKPKGPYPIVVTSSV-DNRQVLVVQ 34
CP G + ++ + + Q V+Q
Sbjct: 171 CPKCGKPGQFRLIPEKTKLIDWQKAVIQ 198
>3g89_A Ribosomal RNA small subunit methyltransferase G; 16S rRNA
methyltransferase, translation, cytoplasm, rRNA
processing; HET: HIC SAM AMP; 1.50A {Thermus
thermophilus} PDB: 3g88_A* 3g8a_A* 3g8b_A*
Length = 249
Score = 25.5 bits (56), Expect = 3.3
Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 34 QAAAYSRYLGLIHLQYNDKGNIVSWRGDPILLDKHI 69
A+SR L+ + + K N+ + RG+ ++ KH
Sbjct: 32 HLEAFSRLYALL-QEASGKVNLTALRGEEEVVVKHF 66
>1xdz_A Methyltransferase GIDB; MCSG, protein structure initiative,
structural genomics, methyltransferase fold, PSI; 1.60A
{Bacillus subtilis} SCOP: c.66.1.20
Length = 240
Score = 25.4 bits (56), Expect = 3.6
Identities = 8/36 (22%), Positives = 17/36 (47%), Gaps = 1/36 (2%)
Query: 34 QAAAYSRYLGLIHLQYNDKGNIVSWRGDPILLDKHI 69
Q + Y ++ +++N+K N+ S + KH
Sbjct: 22 QLEQFELYYDML-VEWNEKINLTSITEKKEVYLKHF 56
>3ey7_A Biphenyl-2,3-DIOL 1,2-dioxygenase III-related protein; integron
cassette protein mobIle metagenome structural genomics,
oxidoreductase, PSI-2; HET: MSE; 1.60A {Vibrio
cholerae} PDB: 3ey8_A*
Length = 133
Score = 24.5 bits (53), Expect = 6.3
Identities = 8/53 (15%), Positives = 16/53 (30%)
Query: 38 YSRYLGLIHLQYNDKGNIVSWRGDPILLDKHIQEVENNTVIELPNHAHCSTLE 90
Y + LG+ + + + + I L + E E A +
Sbjct: 28 YEKVLGMKAVSFGAGRIALEFGHQKINLHQLGNEFEPKAQNVRVGSADLCFIT 80
>3zw5_A Glyoxalase domain-containing protein 5; lyase; 1.60A {Homo
sapiens}
Length = 147
Score = 24.2 bits (52), Expect = 7.9
Identities = 8/55 (14%), Positives = 19/55 (34%)
Query: 35 AAAYSRYLGLIHLQYNDKGNIVSWRGDPILLDKHIQEVENNTVIELPNHAHCSTL 89
YS+ LG+ + + + + + L + +E E +P +
Sbjct: 42 TMFYSKILGMEVMTFKEDRKALCFGDQKFNLHEVGKEFEPKAAHPVPGSLDICLI 96
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.318 0.137 0.426
Gapped
Lambda K H
0.267 0.0538 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,576,073
Number of extensions: 78465
Number of successful extensions: 115
Number of sequences better than 10.0: 1
Number of HSP's gapped: 114
Number of HSP's successfully gapped: 15
Length of query: 102
Length of database: 6,701,793
Length adjustment: 67
Effective length of query: 35
Effective length of database: 4,831,086
Effective search space: 169088010
Effective search space used: 169088010
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 (21.7 bits)
S2: 51 (23.9 bits)