RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3860
(119 letters)
>3tig_A TTL protein; ATP-grAsp, ligase, tubulin; 2.50A {Silurana} PDB:
3tii_A* 3tin_A*
Length = 380
Score = 58.9 bits (142), Expect = 1e-11
Identities = 31/136 (22%), Positives = 46/136 (33%), Gaps = 33/136 (24%)
Query: 1 MANLESKAILAYHLNRMK------YFFPDEYNIFPKSWSLPRQWKEVISYNREHADETL- 53
L KA L + +FP+ Y I+P + P + +A T
Sbjct: 71 ADKLCRKASLVKLIKTSPELTETCTWFPESYVIYPTNEKTPAMRARNGLPDLANAPRTDE 130
Query: 54 --------------------ILKPTRGAEGKGIKILNFIPE----HEVMDQDASCQVYLS 89
I K + GA+G+GI I + E + Q Q YL
Sbjct: 131 REEFRSSFNKKKENEEGNVWIAKSSSGAKGEGILISSDATELLDFIDNQGQVHVIQKYLE 190
Query: 90 NVLLIN--GFKFDLRV 103
+ LL+ KFD+R
Sbjct: 191 SPLLLEPGHRKFDIRS 206
>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 = 31.4 bits (70), Expect = 0.053
Identities = 16/135 (11%), Positives = 40/135 (29%), Gaps = 56/135 (41%)
Query: 10 LAYHLNRMKYFFPDEYNIFPK-----------------SWSLP----------RQWKEVI 42
+ +HL +++ P+ +F +W+ + +K I
Sbjct: 477 IGHHLKNIEH--PERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYI 534
Query: 43 SYNREHADETLILKPTRGAEGKGIKILNFIPEHE--VMDQDASC--QVYLSNVLLINGFK 98
N + + IL+F+P+ E ++ + ++ L
Sbjct: 535 CDNDPKYERLVNA------------ILDFLPKIEENLICSKYTDLLRIALMA-------- 574
Query: 99 FDLRVKRYAVEKYRQ 113
+ E ++Q
Sbjct: 575 ---EDEAIFEEAHKQ 586
Score = 29.1 bits (64), Expect = 0.37
Identities = 11/44 (25%), Positives = 16/44 (36%), Gaps = 7/44 (15%)
Query: 18 KYFFPDEYNIFPKSWSLPRQ-----WKEVISYNREHADETLILK 56
K F D ++FP S +P W +VI + L
Sbjct: 373 KMF--DRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY 414
>2io8_A Bifunctional glutathionylspermidine synthetase/amidase; ligase,
hydrolase; HET: ADP; 2.10A {Escherichia coli} SCOP:
c.30.1.7 d.3.1.15 d.142.1.8 PDB: 2io7_A* 2io9_A* 2ioa_A*
2iob_A 3o98_A*
Length = 619
Score = 27.7 bits (61), Expect = 0.90
Identities = 16/78 (20%), Positives = 26/78 (33%), Gaps = 16/78 (20%)
Query: 4 LESKAILAYHLNRMKYFFPDEYNIFPKSWSLPRQWKEVISYNREHADETLILKPTRGAEG 63
+KAIL + FP + + N E +KP G G
Sbjct: 495 PGNKAILPI----LWSLFPHHRYLLDTD----------FTVNDELVKTGYAVKPIAGRCG 540
Query: 64 KGIKILNFIPEHEVMDQD 81
I +++ EV+D+
Sbjct: 541 SNIDLVS--HHEEVLDKT 556
>1i7d_A DNA topoisomerase III; decatenating enzyme, protein-DNA complex,
single-stranded DNA, isomerase/DNA complex; HET: DNA;
2.05A {Escherichia coli} SCOP: e.10.1.1 PDB: 2o5c_A*
2o54_A* 2o59_A* 2o19_A* 2o5e_A* 1d6m_A*
Length = 659
Score = 27.2 bits (61), Expect = 1.6
Identities = 9/33 (27%), Positives = 13/33 (39%), Gaps = 8/33 (24%)
Query: 13 HLNRMKYFFPDEYNIFPKSWSL------PRQWK 39
HL PD Y+ W+L P +W+
Sbjct: 44 HLLEQAQ--PDAYDSRYARWNLADLPIVPEKWQ 74
>1gsa_A Glutathione synthetase; ligase; HET: ADP GSH; 2.00A {Escherichia
coli} SCOP: c.30.1.3 d.142.1.1 PDB: 1gsh_A 2glt_A 1glv_A
Length = 316
Score = 25.7 bits (57), Expect = 3.8
Identities = 19/82 (23%), Positives = 31/82 (37%), Gaps = 28/82 (34%)
Query: 36 RQWKEVISYNREHADETLILKPTRGAEGKGI-----------KILNFIPEHE---VMDQD 81
R ++ ++ +H+D +ILKP G G I I + EH M
Sbjct: 142 RNKAQLKAFWEKHSD--IILKPLDGMGGASIFRVKEGDPNLGVIAETLTEHGTRYCM--- 196
Query: 82 ASCQVYLSNV-------LLING 96
Q YL + L+++G
Sbjct: 197 --AQNYLPAIKDGDKRVLVVDG 216
>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 = 25.7 bits (55), Expect = 4.0
Identities = 7/33 (21%), Positives = 11/33 (33%), Gaps = 14/33 (42%)
Query: 5 ESKAI--LAYHLNRMKYFFPDEYNIFPKSWSLP 35
E +A+ L +K + D S P
Sbjct: 18 EKQALKKLQ---ASLKLYADD---------SAP 38
>3df7_A Putative ATP-grAsp superfamily protein; putative protein, PSI-II,
nysgrc., structural genomics, protein structure
initiative; 1.87A {Archaeoglobus fulgidus}
Length = 305
Score = 25.8 bits (56), Expect = 4.3
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 53 LILKPTRGAEGKGIKILNFIPEHEVM 78
I+KP G+GI + +P+ +
Sbjct: 136 FIIKPRTACAGEGIGFSDEVPDGHIA 161
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 25.8 bits (56), Expect = 4.8
Identities = 11/60 (18%), Positives = 21/60 (35%), Gaps = 18/60 (30%)
Query: 33 SLPRQWKEVISYNREHADETLILKP----------TRGAEGKGIKI-----LNFIPEHEV 77
LP +W+ + H L P R +G G+++ L+ P+ +
Sbjct: 485 RLPVKWETTTQFKATHI---LDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDY 541
>1kjq_A GART 2, phosphoribosylglycinamide formyltransferase 2, 5'-;
ATP-grAsp, purine biosynthesis, nucleotide; HET: ADP
MPO; 1.05A {Escherichia coli} SCOP: b.84.2.1 c.30.1.1
d.142.1.2 PDB: 1kj9_A* 1kji_A* 1kjj_A* 1kj8_A* 1eyz_A*
1ez1_A*
Length = 391
Score = 25.2 bits (56), Expect = 6.3
Identities = 6/13 (46%), Positives = 8/13 (61%)
Query: 53 LILKPTRGAEGKG 65
I+KP + GKG
Sbjct: 151 CIVKPVMSSSGKG 163
>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase,
translation; HET: ADP; 2.05A {Sulfolobus solfataricus}
Length = 538
Score = 25.0 bits (55), Expect = 8.4
Identities = 9/39 (23%), Positives = 17/39 (43%)
Query: 54 ILKPTRGAEGKGIKILNFIPEHEVMDQDASCQVYLSNVL 92
+ G+ +IL++ P+ + D + Q YL N
Sbjct: 317 EITADEGSVTPEKQILSYKPQRIFPNYDGTVQQYLENAS 355
>2p0a_A Synapsin-3, synapsin III; neurotransmitter release, schizophrenia,
vesicle T structural genomics, structural genomics
consortium, SGC, neuropeptide; HET: ANP; 1.90A {Homo
sapiens}
Length = 344
Score = 24.8 bits (53), Expect = 9.9
Identities = 14/104 (13%), Positives = 35/104 (33%), Gaps = 7/104 (6%)
Query: 1 MANLESKAILAYHLNRMKYFFPDEYNIFPKSWSLPRQWKEVISYNREHADETLILKPTRG 60
+ N SK + L ++ + K + + + +++K
Sbjct: 125 VYNFCSKPWVFSQLIKIFHSLGP-----EKFPLVEQTFFPNHKPMVTAPHFPVVVKLGHA 179
Query: 61 AEGKGIKILNFIPE-HEVMDQDASCQVYLSNVLLINGFKFDLRV 103
G G + + ++ A + Y + I+ K+D+R+
Sbjct: 180 HAGMGKIKVENQLDFQDITSVVAMAKTYATTEAFID-SKYDIRI 222
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
0.322 0.138 0.417
Gapped
Lambda K H
0.267 0.0840 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,854,248
Number of extensions: 97573
Number of successful extensions: 214
Number of sequences better than 10.0: 1
Number of HSP's gapped: 212
Number of HSP's successfully gapped: 18
Length of query: 119
Length of database: 6,701,793
Length adjustment: 81
Effective length of query: 38
Effective length of database: 4,440,192
Effective search space: 168727296
Effective search space used: 168727296
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 (21.9 bits)
S2: 51 (23.2 bits)