RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11634
(178 letters)
>2okv_A Probable D-tyrosyl-tRNA(Tyr) deacylase 1; DNA replication, DUE,
ATPase, tRNA deacylase, hydrolase; 2.00A {Homo sapiens}
Length = 209
Score = 211 bits (540), Expect = 1e-70
Identities = 79/143 (55%), Positives = 103/143 (72%)
Query: 31 VDSNVISSIGMGLCILIGISRHDTEKDMDYIVNKILKLKIFENEEGKRWASSVSDKKYEI 90
V IS+IG G+C+L+GIS DT+K+++++V KIL L++FE+E GK W+ SV DK+YEI
Sbjct: 15 VGGEQISAIGRGICVLLGISLEDTQKELEHMVRKILNLRVFEDESGKHWSKSVMDKQYEI 74
Query: 91 LCISQFTLYHGLKGNGLTFHHAMGGADSEVFYNKFLEKLKTAYDLSKVKDGKFGAHMSVN 150
LC+SQFTL LKGN FH AM +E FYN FLE+L+ Y +KDGKFGA+M V+
Sbjct: 75 LCVSQFTLQCVLKGNKPDFHLAMPTEQAEGFYNSFLEQLRKTYRPELIKDGKFGAYMQVH 134
Query: 151 IVNDGPVTIPLESPSEKSNTPVP 173
I NDGPVTI LESP+ + T P
Sbjct: 135 IQNDGPVTIELESPAPGTATSDP 157
>3ko5_A D-tyrosyl-tRNA(Tyr) deacylase; DTD, ADP, hydrolase; HET: ADP; 2.09A
{Plasmodium falciparum} PDB: 3knp_A 3knf_A* 3ko3_A*
3ko4_A* 3ko7_A* 3ko9_A* 3kob_A* 3koc_A* 3kod_A 3lmt_A
3lmu_A 3lmv_A*
Length = 164
Score = 193 bits (494), Expect = 3e-64
Identities = 54/142 (38%), Positives = 86/142 (60%), Gaps = 2/142 (1%)
Query: 23 KHTPFVCLVDSNVISSIGMGLCILIGISRHDTEKDMDYIVNKILKLKIFENEEGKRWASS 82
K + +IS I GL +GI ++DT +D YI+ K L L+++ N+ W +
Sbjct: 17 KENIGENEKELEIISEIKNGLICFLGIHKNDTWEDALYIIRKCLNLRLWNNDNKT-WDKN 75
Query: 83 VSDKKYEILCISQFTLY-HGLKGNGLTFHHAMGGADSEVFYNKFLEKLKTAYDLSKVKDG 141
V D YE+L +SQFTL+ + KGN FH A ++ +FYNK +++ K Y+ K+K G
Sbjct: 76 VKDLNYELLIVSQFTLFGNTKKGNKPDFHLAKEPNEALIFYNKIIDEFKKQYNDDKIKIG 135
Query: 142 KFGAHMSVNIVNDGPVTIPLES 163
KFG +M++++ NDGPVTI +++
Sbjct: 136 KFGNYMNIDVTNDGPVTIYIDT 157
>2dbo_A D-tyrosyl-tRNA(Tyr) deacylase; D-amino acid, D-tyrosine, structural
genomi NPPSFA, national project on protein structural
and function analyses; 2.76A {Aquifex aeolicus}
Length = 148
Score = 192 bits (490), Expect = 9e-64
Identities = 62/134 (46%), Positives = 86/134 (64%), Gaps = 4/134 (2%)
Query: 31 VDSNVISSIGMGLCILIGISRHDTEKDMDYIVNKILKLKIFENEEGKRWASSVSDKKYEI 90
VD V+ SI GL + +G+ + DTE+D++ +VNKIL L+IFE+E GK + SV D K EI
Sbjct: 15 VDGKVVGSINEGLNVFLGVRKGDTEEDIEKLVNKILNLRIFEDERGK-FQYSVLDIKGEI 73
Query: 91 LCISQFTLYHGL-KGNGLTFHHAMGGADSEVFYNKFLEKLKTAYDLSKVKDGKFGAHMSV 149
L +SQFTLY + KG +F A ++ Y KF++K+K + KV+ G FGA M V
Sbjct: 74 LVVSQFTLYANVKKGRRPSFEEAEEPKRAKELYEKFVDKIKESGL--KVETGIFGAMMDV 131
Query: 150 NIVNDGPVTIPLES 163
I N GPVTI ++S
Sbjct: 132 FIENWGPVTIIIDS 145
>1j7g_A D-tyrosyl-tRNA(Tyr) deacylase; D-Tyr-tRNA(Tyr) deacylase,
structural genomics, hypothetical structure 2 function
project, S2F; 1.64A {Haemophilus influenzae rd KW20}
SCOP: c.110.1.1
Length = 144
Score = 181 bits (462), Expect = 1e-59
Identities = 44/133 (33%), Positives = 64/133 (48%), Gaps = 5/133 (3%)
Query: 31 VDSNVISSIGMGLCILIGISRHDTEKDMDYIVNKILKLKIFENEEGKRWASSVSDKKYEI 90
V I IG GL +L+G+ + D + D + K+L +IF +E K +V + E+
Sbjct: 15 VKGETIGKIGKGLLVLLGVEKEDNREKADKLAEKVLNYRIFSDENDK-MNLNVQQAQGEL 73
Query: 91 LCISQFTLYHGL-KGNGLTFHHAMGGADSEVFYNKFLEKLKTAYDLSKVKDGKFGAHMSV 149
L +SQFTL KG +F A + Y F++K V G+F A M V
Sbjct: 74 LIVSQFTLAADTQKGLRPSFSKGASPALANELYEYFIQKCAEKL---PVSTGQFAADMQV 130
Query: 150 NIVNDGPVTIPLE 162
++ NDGPVT L
Sbjct: 131 SLTNDGPVTFWLN 143
>1jke_A O145, D-Tyr-trnaTyr deacylase, ORF_O145; beta-alpha-barrel,
hydrolase; 1.55A {Escherichia coli} SCOP: c.110.1.1
Length = 145
Score = 179 bits (458), Expect = 6e-59
Identities = 42/133 (31%), Positives = 69/133 (51%), Gaps = 4/133 (3%)
Query: 31 VDSNVISSIGMGLCILIGISRHDTEKDMDYIVNKILKLKIFENEEGKRWASSVSDKKYEI 90
V+ V IG GL +L+G+ + D E+ + + ++L +IF + EGK +V +
Sbjct: 15 VEGEVTGEIGAGLLVLLGVEKDDDEQKANRLCERVLGYRIFSDAEGK-MNLNVQQAGGSV 73
Query: 91 LCISQFTLYHGL-KGNGLTFHHAMGGADSEVFYNKFLEKLKTAYDLSKVKDGKFGAHMSV 149
L +SQFTL +G +F +E Y+ F+E+ + + G+F A M V
Sbjct: 74 LVVSQFTLAADTERGMRPSFSKGASPDRAEALYDYFVERCRQQE--MNTQTGRFAADMQV 131
Query: 150 NIVNDGPVTIPLE 162
++VNDGPVT L+
Sbjct: 132 SLVNDGPVTFWLQ 144
>1tc5_A Probable eukaryotic D-amino acid tRNA deacylase, LMAJ005534AAA;
SGPP, structural genomics, PSI; 1.93A {Leishmania major}
SCOP: c.110.1.1
Length = 194
Score = 146 bits (369), Expect = 4e-45
Identities = 28/171 (16%), Positives = 60/171 (35%), Gaps = 36/171 (21%)
Query: 28 VCLVDSNVISSIGMGLCILIGI-----SRHDTEKDMDYIVNKILKLKIFENEEGKRW--- 79
+ + + + G G+ + I S T++ + + V +L KIF + ++
Sbjct: 23 LLVNNVDKYVRAGRGVMVYIAFLSDRDSAPITDEALRHAVGVLLHTKIFTHFSPEKMINQ 82
Query: 80 -ASSVSDKKYEILCISQFTLYHGLKGNGLTFHHAMGGADSEVFYNKFLEKLKTAYDLSKV 138
S + +IL + Q +L +KG + FH + Y++F ++ A + +
Sbjct: 83 PQSLEECPEMDILIVPQASLGGKVKGRSVQFHQLVAKDVGAALYDRFCHFVRVARGVDES 142
Query: 139 K---------------------------DGKFGAHMSVNIVNDGPVTIPLE 162
+ G FG + ++GP T +
Sbjct: 143 RVDANGAPRSEGDAPKAEGWIKYNSRVISGTFGNRQGLRFESEGPFTHMFD 193
>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 = 31.7 bits (71), Expect = 0.14
Identities = 15/148 (10%), Positives = 44/148 (29%), Gaps = 37/148 (25%)
Query: 55 EKDMDYIVNKI--------LKLKIFENEEGKRWASSVSDKKYEI---------------L 91
+ ++++ I + +++ + + + + KY + L
Sbjct: 88 RINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLEL 147
Query: 92 CISQFTLYHGLKGNG---LT--------FHHAMGGADSEVFYNKFLEKLKTAYDLSKVKD 140
++ L G+ G+G + M ++F+ L ++
Sbjct: 148 RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDF---KIFWLNLKNCNSPETVLEMLQK 204
Query: 141 GKFGAHMSVNIVNDGPVTIPLESPSEKS 168
+ + +D I L S ++
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQA 232
Score = 27.9 bits (61), Expect = 2.5
Identities = 15/70 (21%), Positives = 24/70 (34%), Gaps = 18/70 (25%)
Query: 110 HHAMGGADSEV----FYNK-----FLEKLKTAYDLSKVKDGKFGAHMSVNIVNDGPVTIP 160
HH M D E + K F + +D V+D M +I++ +
Sbjct: 4 HHHM---DFETGEHQYQYKDILSVFEDAFVDNFDCKDVQD------MPKSILSKEEIDHI 54
Query: 161 LESPSEKSNT 170
+ S S T
Sbjct: 55 IMSKDAVSGT 64
>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 = 30.8 bits (69), Expect = 0.28
Identities = 29/157 (18%), Positives = 47/157 (29%), Gaps = 53/157 (33%)
Query: 23 KHTPFVCLVDSNVISSI--GMG-----LCILIGISRHDTEKDMDYIVNKILKLKIFENEE 75
+ P L S + S+ G L I +++ + ++ N L
Sbjct: 312 EAYPNTSLPPSILEDSLENNEGVPSPMLSI-SNLTQEQVQDYVNK-TNSHLP-------A 362
Query: 76 GKRWASSVSDKKYEILCISQFTLYHGLKGNG-----LTFHHAMGGADSEVFYNKFLEKLK 130
GK+ + IS L NG ++ G S N L K K
Sbjct: 363 GKQ------------VEIS---LV-----NGAKNLVVS-----GPPQSLYGLNLTLRKAK 397
Query: 131 --TAYDLSKVKDGKFGAHMSVNIVND-GPVTIPLESP 164
+ D S++ + + N PV P S
Sbjct: 398 APSGLDQSRIPFSE----RKLKFSNRFLPVASPFHSH 430
Score = 30.4 bits (68), Expect = 0.39
Identities = 24/142 (16%), Positives = 38/142 (26%), Gaps = 43/142 (30%)
Query: 38 SIGMGLCILIGISRHDTEKDMD-YIVNKILKLKIFENEEGKRWASSVSDKKYEILCISQF 96
GMG MD Y +K + ++ A + Y F
Sbjct: 1628 EQGMG---------------MDLYKTSKAAQ-DVWNR------ADNHFKDTYG------F 1659
Query: 97 TLYHGLKGN--GLTFHHAMGGADSEVFYNKFLEKLKTAYDLSKVKDGKFGAHMSVNIVND 154
++ + N LT H GG + + A + DGK +N+
Sbjct: 1660 SILDIVINNPVNLTIH--FGGEKGKRIRENYS-----AMIFETIVDGKLKTEKIFKEINE 1712
Query: 155 GPVTIPLESPSEK----SNT-P 171
+ S T P
Sbjct: 1713 HSTSYTFRSEKGLLSATQFTQP 1734
>2g0d_A Nisin biosynthesis protein NISC; alpha toroid, alpha barrel,
biosynthetic protein; 2.21A {Lactococcus lactis subsp}
SCOP: a.102.6.1 PDB: 2g02_A
Length = 409
Score = 26.7 bits (58), Expect = 4.7
Identities = 13/80 (16%), Positives = 25/80 (31%), Gaps = 11/80 (13%)
Query: 55 EKDMDYIVNKILKLKIFENEEGKRWASSVSDKKYEILCISQFTLYHGLKGNGLTFHHAMG 114
+K++ V KI+ + K + TL GL G L
Sbjct: 1 KKNIKRNVEKIIAQWDERTRKNKENFDF-----------GELTLSTGLPGIILMLAELKN 49
Query: 115 GADSEVFYNKFLEKLKTAYD 134
+S+++ K ++
Sbjct: 50 KDNSKIYQKKIDNYIEYIVS 69
>1eg5_A Aminotransferase; PLP-dependent enzymes, iron-sulfur-cluster
synthesis, C-S BE transferase; HET: PLP; 2.00A
{Thermotoga maritima} SCOP: c.67.1.3 PDB: 1ecx_A*
Length = 384
Score = 25.9 bits (58), Expect = 7.9
Identities = 8/21 (38%), Positives = 16/21 (76%)
Query: 45 ILIGISRHDTEKDMDYIVNKI 65
I I + +++TE+++DY + KI
Sbjct: 349 IRISLCKYNTEEEVDYFLKKI 369
>3lvm_A Cysteine desulfurase; structural genomics, montreal-kingston
bacterial structural genomics initiative, BSGI,
transferase; HET: PLP; 2.05A {Escherichia coli} PDB:
3lvk_A* 3lvl_B* 3lvj_A* 1p3w_B*
Length = 423
Score = 26.0 bits (58), Expect = 8.0
Identities = 6/21 (28%), Positives = 12/21 (57%)
Query: 45 ILIGISRHDTEKDMDYIVNKI 65
I + R TE+++DY + +
Sbjct: 372 IRFSLGRFTTEEEIDYTIELV 392
>1s5j_A DNA polymerase I; replication, disulfide bonds, transferase; HET:
DNA; 2.40A {Sulfolobus solfataricus} SCOP: c.55.3.5
e.8.1.1
Length = 847
Score = 26.0 bits (57), Expect = 8.5
Identities = 13/68 (19%), Positives = 23/68 (33%), Gaps = 9/68 (13%)
Query: 45 ILIGISRHDTEK-DMDYIVNKILKLKIFENEE-----GKRWASSVSDKKYEILCISQFTL 98
I++ + + D+ YI + LKL F E GK A ++ ++
Sbjct: 273 IVLT---FNGDDFDLPYIYFRALKLGYFPEEIPIDVAGKDEAKYLAGLHIDLYKFFFNKA 329
Query: 99 YHGLKGNG 106
G
Sbjct: 330 VRNYAFEG 337
>4eb5_A Probable cysteine desulfurase 2; scaffold, transferase-metal
binding protein complex; HET: PLP EPE; 2.53A
{Archaeoglobus fulgidus} PDB: 4eb7_A*
Length = 382
Score = 25.5 bits (57), Expect = 9.9
Identities = 5/21 (23%), Positives = 16/21 (76%)
Query: 45 ILIGISRHDTEKDMDYIVNKI 65
+L+ + R++T++D+D ++ +
Sbjct: 346 LLLTLGRYNTDEDVDRLLEVL 366
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
0.319 0.137 0.414
Gapped
Lambda K H
0.267 0.0853 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,721,551
Number of extensions: 149078
Number of successful extensions: 296
Number of sequences better than 10.0: 1
Number of HSP's gapped: 281
Number of HSP's successfully gapped: 21
Length of query: 178
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 91
Effective length of database: 4,272,666
Effective search space: 388812606
Effective search space used: 388812606
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: 54 (24.4 bits)