RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3318
(139 letters)
>2vhh_A CG3027-PA; hydrolase; 2.8A {Drosophila melanogaster} PDB: 2vhi_A
Length = 405
Score = 111 bits (278), Expect = 4e-30
Identities = 52/127 (40%), Positives = 80/127 (62%), Gaps = 8/127 (6%)
Query: 1 MSADEPFESVETILQKYIPEDELKLVNAVLYG-EPLKKLYLPN-----SKSNEFNVVGYK 54
MSA E +++ L+K++P DELK V +LYG E + L LP ++ N F++ GY+
Sbjct: 1 MSAFE-LKNLNDCLEKHLPPDELKEVKRILYGVEEDQTLELPTSAKDIAEQNGFDIKGYR 59
Query: 55 FGAKPESSRPPRLVRVGIIQNHIGNSTVSCNVPQERSATYDRVEKLINAAGESGVNVLCL 114
F A+ E +R R+VRVG IQN I T + + ++R A +++V+ +I AA E+G N++C
Sbjct: 60 FTAREEQTRKRRIVRVGAIQNSIVIPT-TAPIEKQREAIWNKVKTMIKAAAEAGCNIVCT 118
Query: 115 QEAWRRP 121
QEAW P
Sbjct: 119 QEAWTMP 125
>1uf5_A N-carbamyl-D-amino acid amidohydrolase; HET: CDT; 1.60A
{Agrobacterium SP} SCOP: d.160.1.2 PDB: 1uf4_A* 1uf7_A*
1uf8_A* 1erz_A 1fo6_A 2ggl_A 2ggk_A
Length = 303
Score = 42.0 bits (99), Expect = 2e-05
Identities = 8/56 (14%), Positives = 16/56 (28%), Gaps = 6/56 (10%)
Query: 66 RLVRVGIIQNHIGNSTVSCNVPQERSATYDRVEKLINAAGESGVNVLCLQEAWRRP 121
R + + + Q + R R+ ++ A G N + E
Sbjct: 2 RQMILAVGQQG------PIARAETREQVVVRLLDMLTKAASRGANFIVFPELALTT 51
>3ivz_A Nitrilase; alpha-beta sandwich, hydrolase; 1.57A {Pyrococcus
abyssi} PDB: 3iw3_A 3ki8_A 3klc_A 1j31_A
Length = 262
Score = 38.4 bits (90), Expect = 3e-04
Identities = 13/55 (23%), Positives = 22/55 (40%), Gaps = 8/55 (14%)
Query: 67 LVRVGIIQNHIGNSTVSCNVPQERSATYDRVEKLINAAGESGVNVLCLQEAWRRP 121
+V+V +Q + E Y + EKLI A + G ++ L E +
Sbjct: 1 MVKVAYVQMNP--------QILEPDKNYSKAEKLIKEASKQGAQLVVLPELFDTG 47
>3hkx_A Amidase; alpha-beta-BETA-alpha:alpha-beta-BETA-alpha dimeric
sandwich hydrolase; 1.66A {Nesterenkonia SP}
Length = 283
Score = 37.2 bits (87), Expect = 7e-04
Identities = 9/66 (13%), Positives = 20/66 (30%), Gaps = 8/66 (12%)
Query: 53 YKFGAKPESSRPPRLVRVGIIQNHIGNSTVSCNVPQERSATYDRVEKLINAAGESGVNVL 112
+ +R+ ++Q+ P + D ++ A E G +L
Sbjct: 6 HHHHHSSGLVIRGSHMRIALMQHTA--------RPLDPQHNLDLIDDAAARASEQGAQLL 57
Query: 113 CLQEAW 118
E +
Sbjct: 58 LTPELF 63
>2dyu_A Formamidase; AMIF, CEK, catalytic triad, helicobacter pylori
aliphatic amidase, hydrolase; 1.75A {Helicobacter
pylori} PDB: 2dyv_A 2e2l_A 2e2k_A
Length = 334
Score = 35.5 bits (82), Expect = 0.003
Identities = 11/62 (17%), Positives = 23/62 (37%), Gaps = 6/62 (9%)
Query: 62 SRPPRLVRVGIIQNHIGNSTVSCNVPQERSATYDRVEKLINA--AGESGVNVLCLQEAWR 119
+P V IQ + N ++ + + + ++A AG GV ++ E
Sbjct: 8 GKPIEGFLVAAIQFPVP----IVNSRKDIDHNIESIIRTLHATKAGYPGVELIIFPEYST 63
Query: 120 RP 121
+
Sbjct: 64 QG 65
>2uxy_A Aliphatic amidase; nitrilase superfamily, hydrolase, acyl transfer,
thiol enzymes, hydroxamic acid; HET: C3Y; 1.25A
{Pseudomonas aeruginosa} PDB: 2plq_A
Length = 341
Score = 35.2 bits (81), Expect = 0.004
Identities = 8/59 (13%), Positives = 20/59 (33%), Gaps = 6/59 (10%)
Query: 62 SRPPRLVRVGIIQNHIGNSTVSCNVPQERSATYDRVEKLIN--AAGESGVNVLCLQEAW 118
S V V ++ + + E ++ ++I G G++++ E
Sbjct: 7 SSSNDTVGVAVVNYKM----PRLHTAAEVLDNARKIAEMIVGMKQGLPGMDLVVFPEYS 61
>1wdu_A TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA binding protein;
2.40A {Bombyx mori} SCOP: d.151.1.1
Length = 245
Score = 32.2 bits (72), Expect = 0.034
Identities = 11/76 (14%), Positives = 20/76 (26%), Gaps = 22/76 (28%)
Query: 52 GYKFGAKPESSRPPRLVRVGIIQ---NHIGNSTVSCNVPQERSATYDRVEKLINAAGESG 108
+ AK P R ++Q + AT +L A
Sbjct: 5 QWNTTAKVRPKNGPPY-R--VLQANLQRK------------KLAT----AELAIEAATRK 45
Query: 109 VNVLCLQEAWRRPDRY 124
+ +QE + +
Sbjct: 46 AAIALIQEPYVGGAKS 61
>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell
division inhibitor, MINC, MINE, cell hydrolase; HET:
ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*
Length = 260
Score = 30.3 bits (69), Expect = 0.18
Identities = 12/45 (26%), Positives = 23/45 (51%), Gaps = 3/45 (6%)
Query: 1 MSADEPFESVETILQKYIPEDELKLVNAVLYGEPLKKLYLPNSKS 45
+S ++ E + L IPED+ ++ A GEP+ + N+ +
Sbjct: 194 LSMEDVLEILRIKLVGVIPEDQ-SVLRASNQGEPV--ILDINADA 235
>3p8k_A Hydrolase, carbon-nitrogen family; HET: PGE; 1.70A {Staphylococcus
aureus subsp}
Length = 281
Score = 29.5 bits (67), Expect = 0.28
Identities = 11/50 (22%), Positives = 19/50 (38%), Gaps = 8/50 (16%)
Query: 69 RVGIIQNHIGNSTVSCNVPQERSATYDRVEKLINAAGESGVNVLCLQEAW 118
+V I Q I V + S ++ + + V+V+ L E W
Sbjct: 22 KVQIYQLPI--------VFGDSSKNETQITQWFEKNMNAEVDVVVLPEMW 63
>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 = 28.8 bits (63), Expect = 0.45
Identities = 8/24 (33%), Positives = 11/24 (45%), Gaps = 6/24 (25%)
Query: 20 EDELKLVNAVLYGEPLKKLYLPNS 43
+ LK + A L KLY +S
Sbjct: 19 KQALKKLQASL------KLYADDS 36
Score = 28.0 bits (61), Expect = 0.89
Identities = 4/27 (14%), Positives = 12/27 (44%), Gaps = 1/27 (3%)
Query: 5 EPFESVETILQKYIPEDELKL-VNAVL 30
+ + ++ L+ Y + L + A +
Sbjct: 20 QALKKLQASLKLYADDSAPALAIKATM 46
>3i41_A Beta-hemolysin; beta toxin, sphingomyelinase, toxin; 1.75A
{Staphylococcus aureus} PDB: 3i46_A 3i48_A 3i5v_A*
3k55_A
Length = 317
Score = 28.5 bits (63), Expect = 0.60
Identities = 5/30 (16%), Positives = 12/30 (40%)
Query: 94 YDRVEKLINAAGESGVNVLCLQEAWRRPDR 123
Y R + + ++ +V+ EA+
Sbjct: 51 YKRADLIGQSSYIKNNDVVIFNEAFDNGAS 80
>1zwx_A SMCL, sphingomyelinase-C; dnase1-like fold, beta-hairpin,
hydrolase; 1.90A {Listeria ivanovii} SCOP: d.151.1.3
Length = 301
Score = 28.5 bits (63), Expect = 0.64
Identities = 6/29 (20%), Positives = 11/29 (37%)
Query: 95 DRVEKLINAAGESGVNVLCLQEAWRRPDR 123
R + + A +V+ L EA+
Sbjct: 33 HRADLIAQADYMKNNDVVILNEAFDTSAS 61
>2w1v_A Nitrilase-2, nitrilase homolog 2; hydrolase; 1.49A {Mus musculus}
Length = 276
Score = 27.9 bits (63), Expect = 1.0
Identities = 12/56 (21%), Positives = 22/56 (39%), Gaps = 9/56 (16%)
Query: 68 VRVGIIQNHIGNSTVSCNVPQERSATYDRVEKLINAAGESGVNVLCLQEAWRRPDR 123
R+ +IQ + + +S R L+ A + G N++ L E + P
Sbjct: 4 FRLALIQLQVSSI---------KSDNLTRACSLVREAAKQGANIVSLPECFNSPYG 50
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 27.8 bits (61), Expect = 1.1
Identities = 10/53 (18%), Positives = 19/53 (35%), Gaps = 4/53 (7%)
Query: 3 ADEPFESVETILQKYIPEDELKLVNAVLYGEPLKKLYLPNSKSNEFNVVGYKF 55
A EPF E I + +P +E+ + N K ++ + +
Sbjct: 167 AYEPF---ENIAIE-LPPNEILFSENNDMDNNNDGVDELNKKCTFWDAISKLY 215
>2ddr_A Sphingomyelin phosphodiesterase; DNAse I like folding, riken
structural genomics/proteomics initiative, RSGI,
structural genomics, hydrolase; 1.40A {Bacillus cereus}
SCOP: d.151.1.3 PDB: 2dds_A 2ddt_A* 2uyr_X
Length = 306
Score = 27.8 bits (61), Expect = 1.3
Identities = 5/32 (15%), Positives = 11/32 (34%)
Query: 92 ATYDRVEKLINAAGESGVNVLCLQEAWRRPDR 123
+R + + A +V+ L E +
Sbjct: 29 GQTERADLIGAADYIKNQDVVILNEVFDNSAS 60
>2ei9_A Non-LTR retrotransposon R1BMKS ORF2 protein; four layered alpha
beta sandwich, gene regulation; 2.00A {Bombyx mori}
Length = 240
Score = 27.7 bits (60), Expect = 1.4
Identities = 8/41 (19%), Positives = 18/41 (43%), Gaps = 4/41 (9%)
Query: 85 NVPQERSATYDRVEKLINAAGESGVNVLCLQEAWRRPDRYG 125
N+ AT +L + A + G++++ +QE +
Sbjct: 14 NLGGAEDAT----RELPSIARDLGLDIVLVQEQYSMVGFLA 50
>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural
genomics, PSI-2, prote structure initiative; HET: ATP;
2.20A {Chlorobium tepidum}
Length = 245
Score = 27.2 bits (61), Expect = 1.8
Identities = 12/44 (27%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 1 MSADEPFESVETILQKYIPEDELKLVNAVLYGEPLKKLYLPNSK 44
+++DE + + + K IP+DE + ++L G+ + K+ P S+
Sbjct: 188 ITSDEIEKVIGRPISKRIPQDEDAMQESLLSGQSVLKVA-PKSQ 230
>3n58_A Adenosylhomocysteinase; ssgcid, hydrolase, structural genomics,
seattle structural G center for infectious disease; HET:
ADN NAD; 2.39A {Brucella melitensis biovar abortus}
Length = 464
Score = 26.9 bits (60), Expect = 2.3
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 111 VLCLQEAWRRPDRYGSQVYLIVK 133
VL E + R D Y ++VY++ K
Sbjct: 398 VLGQIELFTRTDAYKNEVYVLPK 420
>3d64_A Adenosylhomocysteinase; structural genomics, ssgcid,
S-adenosyl-L-homocysteine hydro NAD, one-carbon
metabolism; HET: NAD; 2.30A {Burkholderia pseudomallei}
PDB: 3glq_A*
Length = 494
Score = 26.7 bits (59), Expect = 2.8
Identities = 7/23 (30%), Positives = 12/23 (52%)
Query: 111 VLCLQEAWRRPDRYGSQVYLIVK 133
L E + R Y ++VY++ K
Sbjct: 428 TLAQIELFTRGGEYANKVYVLPK 450
>3ce6_A Adenosylhomocysteinase; protein-substrate complex, dimer of dimers,
NAD binding DOMA amino acid insertional region,
hydrolase; HET: ADN NAD; 1.60A {Mycobacterium
tuberculosis} PDB: 3dhy_A* 2zj0_A* 2ziz_A* 2zj1_A*
Length = 494
Score = 26.3 bits (58), Expect = 4.0
Identities = 7/23 (30%), Positives = 12/23 (52%)
Query: 111 VLCLQEAWRRPDRYGSQVYLIVK 133
+ E W + D Y ++VY + K
Sbjct: 428 TIAQIELWTKNDEYDNEVYRLPK 450
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 26.0 bits (56), Expect = 5.3
Identities = 23/147 (15%), Positives = 40/147 (27%), Gaps = 37/147 (25%)
Query: 5 EPFESVETILQKYIPEDELKLVNAVLYGEPLKKLYLPNSKSNEFNVVGYKFGA--KPESS 62
P E +L KY+ L VL P + + +
Sbjct: 299 TPDEVKS-LLLKYLDCRPQDLPREVLTTNPR--------------RLSI-IAESIRDGLA 342
Query: 63 RPPRLVRVGIIQ-NHIGNSTVSCNVPQERSATYDRVEKLINAAGESGVN----VLCLQEA 117
V + I S+++ P E +DR+ + +L L
Sbjct: 343 TWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF-----PPSAHIPTILLSL--I 395
Query: 118 WRRPDRYGSQV-------YLIVKRQSD 137
W + V Y +V++Q
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVEKQPK 422
>1ems_A Nitfhit, NIT-fragIle histidine triad fusion protein; WORM,
nitrilase, nucleotide-binding protein, cancer; 2.80A
{Caenorhabditis elegans} SCOP: d.13.1.1 d.160.1.1
Length = 440
Score = 25.8 bits (57), Expect = 6.6
Identities = 7/59 (11%), Positives = 17/59 (28%), Gaps = 9/59 (15%)
Query: 60 ESSRPPRLVRVGIIQNHIGNSTVSCNVPQERSATYDRVEKLINAAGESGVNVLCLQEAW 118
+ + + Q + + + +I AGE ++ L E +
Sbjct: 7 RRTMATGRHFIAVCQ---------MTSDNDLEKNFQAAKNMIERAGEKKCEMVFLPECF 56
>1n3l_A Tyrosyl-tRNA synthetase; rossmann fold AS catalytic domain,
unique anticodon recognit domain, dimer, ligase; 1.18A
{Homo sapiens} SCOP: c.26.1.1 PDB: 1q11_A*
Length = 372
Score = 25.5 bits (56), Expect = 6.7
Identities = 10/36 (27%), Positives = 17/36 (47%), Gaps = 3/36 (8%)
Query: 1 MSADEPFESVETILQKYIPEDELKLVNAVLYGEPLK 36
S +E + LQ+ + E++LK +L LK
Sbjct: 5 PSPEEKLHLITRNLQEVLGEEKLK---EILKERELK 37
>2f1n_A CDT B, cytolethal distending toxin subunit B; E.coli, DNAse I,
microbatch; 1.73A {Escherichia coli} SCOP: d.151.1.1
Length = 262
Score = 25.1 bits (54), Expect = 8.1
Identities = 11/26 (42%), Positives = 17/26 (65%), Gaps = 2/26 (7%)
Query: 97 VEKLINAAGESGVNVLCLQEAWRRPD 122
V +LI +GE+ V++L +QEA P
Sbjct: 38 VRQLI--SGENAVDILAVQEAGSPPS 61
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
0.314 0.133 0.382
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,030,766
Number of extensions: 108715
Number of successful extensions: 219
Number of sequences better than 10.0: 1
Number of HSP's gapped: 216
Number of HSP's successfully gapped: 31
Length of query: 139
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 55
Effective length of database: 4,356,429
Effective search space: 239603595
Effective search space used: 239603595
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 52 (24.3 bits)