RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14115
(319 letters)
>2ash_A Queuine tRNA-ribosyltransferase; TM1561, tRNA-guanine, struc
genomics, joint center for structural genomics, JCSG;
1.90A {Thermotoga maritima}
Length = 381
Score = 257 bits (660), Expect = 3e-84
Identities = 81/205 (39%), Positives = 114/205 (55%), Gaps = 4/205 (1%)
Query: 8 DRTVRWLDRCLAAHRNPTTQNIFPIVQGGLDEALRKDCAHQMVEKDVNGFAVGGLSGGEA 67
+RT RW R A + Q +F IVQGG+ LR++ A Q+ +G+A+GGLS GE
Sbjct: 171 ERTYRWALRSKKAFKTEN-QALFGIVQGGIYPDLRRESALQLTSIGFDGYAIGGLSIGEE 229
Query: 68 KEDFWYSVL-VSINCLPKDKPRYVMGIGFAVDLLICCALGADMFDCVFPTRTARFGSALV 126
+ + V++ LP+DKPRY MG G +L G DMFD VFPTR AR G+AL
Sbjct: 230 RSLT-LEMTEVTVEFLPEDKPRYFMGGGSPELILELVDRGVDMFDSVFPTRIARHGTALT 288
Query: 127 RQGQLQLKRDEYATDFTPIDNQCPCSTCARYTRAYLHH-IATVEPSACHLLSVHNIAFQM 185
G+L LK P+D +C C TC +TR+Y+HH E LL++HNI F +
Sbjct: 289 WNGKLNLKASYNKRSLEPVDERCGCYTCKNFTRSYIHHLFDRGEVLGQILLTIHNINFMI 348
Query: 186 RLMREIRESIKEQRFPQYVKQYMKD 210
LM+E+R SI+ F + + ++
Sbjct: 349 SLMKEVRRSIESGTFKELKSKVVEV 373
Score = 89.5 bits (223), Expect = 2e-20
Identities = 30/49 (61%), Positives = 37/49 (75%), Gaps = 1/49 (2%)
Query: 269 GVDVLKKAGGLHKFMGWKRALLTDSGGFQMVSLLKFAEITEEGVKFQSP 317
GV+++K GLH FMGWKR +LTDSGGFQ+ SL K I +EGV F+SP
Sbjct: 78 GVEIIKLHRGLHNFMGWKRPILTDSGGFQVFSLPKI-RIDDEGVVFRSP 125
>3bld_A Queuine tRNA-ribosyltransferase; TGT, PREQ1, glycosyltransferase,
metal-binding, queuosine biosynthesis, tRNA processing;
HET: PRF; 1.19A {Zymomonas mobilis} PDB: 3bl3_A* 1ozq_A*
1ozm_A* 1r5y_A* 1enu_A* 1f3e_A* 1k4h_A* 1n2v_A* 1p0b_A*
1p0d_A 1p0e_A* 1pud_A 1q2r_A* 1q2s_A* 1q4w_A* 1q63_A*
1q65_A* 1q66_A* 1k4g_A* 1s38_A* ...
Length = 386
Score = 255 bits (654), Expect = 3e-83
Identities = 79/208 (37%), Positives = 122/208 (58%), Gaps = 7/208 (3%)
Query: 8 DRTVRWLDRCLAAHRN----PTTQNIFPIVQGGLDEALRKDCAHQMVEKDVNGFAVGGLS 63
+R++RW R A + +F I QG + E LR+ A + E +G+AVGGL+
Sbjct: 173 ERSMRWAKRSRDAFDSRKEQAENAALFGIQQGSVFENLRQQSADALAEIGFDGYAVGGLA 232
Query: 64 GGEAKEDFWYSVL-VSINCLPKDKPRYVMGIGFAVDLLICCALGADMFDCVFPTRTARFG 122
GGE +++ + VL S+ LP DKP Y+MG+G D++ G DMFDCV PTR+ R G
Sbjct: 233 GGEGQDEM-FRVLDFSVPMLPDDKPHYLMGVGKPDDIVGAVERGIDMFDCVLPTRSGRNG 291
Query: 123 SALVRQGQLQLKRDEYATDFTPIDNQCPCSTCARYTRAYLHH-IATVEPSACHLLSVHNI 181
A G + ++ ++ D P+D++C C+ C +++RAY+HH I E L++ HNI
Sbjct: 292 QAFTWDGPINIRNARFSEDLKPLDSECHCAVCQKWSRAYIHHLIRAGEILGAMLMTEHNI 351
Query: 182 AFQMRLMREIRESIKEQRFPQYVKQYMK 209
AF +LM++IR+SI E RF Q+ + +
Sbjct: 352 AFYQQLMQKIRDSISEGRFSQFAQDFRA 379
Score = 94.1 bits (235), Expect = 5e-22
Identities = 27/49 (55%), Positives = 35/49 (71%)
Query: 269 GVDVLKKAGGLHKFMGWKRALLTDSGGFQMVSLLKFAEITEEGVKFQSP 317
G + + K GGLH FMGW R +LTDSGGFQ++SL + +EEGV F+S
Sbjct: 79 GAERIAKLGGLHSFMGWDRPILTDSGGFQVMSLSSLTKQSEEGVTFKSH 127
>1iq8_A Archaeosine tRNA-guanine transglycosylase; (alpha/beta)8 barrel,
riken structural genomics/proteomics initiative, RSGI;
2.20A {Pyrococcus horikoshii} SCOP: b.122.1.1 c.1.20.1
d.17.6.1 PDB: 1it7_A* 1it8_A* 1j2b_A
Length = 582
Score = 215 bits (549), Expect = 2e-65
Identities = 42/224 (18%), Positives = 85/224 (37%), Gaps = 24/224 (10%)
Query: 8 DRTVRWLDRCLAAHRNPTTQNIFPIVQGGLDEALRKDCAHQMVEKDVNGFAVGGLSGGEA 67
+ T+ + +QG LR+ A ++ + +GG+
Sbjct: 147 EITLSRAREAEEIKE----IPMNATIQGSTYTDLRRYAARRLSSMNFEIHPIGGVVPLLE 202
Query: 68 KEDFWY---SVLVSINCLPKDKPRYVMGIGFAVDLLICCALGADMFDCVFPTRTARFGSA 124
F V+ S L D+P ++ G G + + A+G D+FD A+
Sbjct: 203 SYRFRDVVDIVISSKMALRPDRPVHLFGAGHPIVFALAVAMGVDLFDSASYALYAKDDRY 262
Query: 125 LVRQGQLQLKRDEYATDFTPIDNQCPCSTCARYTRAYLHHIATVEPSACHLLSVHNIAFQ 184
+ +G +L +Y C C C++YT L + E + LL++HN+
Sbjct: 263 MTPEGTKRLDELDYFP--------CSCPVCSKYTPQELREMPKEERT--RLLALHNLWVI 312
Query: 185 MRLMREIRESIKEQRFPQYVKQYMKDAYPDENYPRWTIDALRAV 228
++ ++++IKE + V + + ++P A + +
Sbjct: 313 KEEIKRVKQAIKEGELWRLVDERAR-SHP------KLYSAYKRL 349
Score = 82.4 bits (204), Expect = 1e-17
Identities = 10/48 (20%), Positives = 20/48 (41%)
Query: 269 GVDVLKKAGGLHKFMGWKRALLTDSGGFQMVSLLKFAEITEEGVKFQS 316
+ G+H+ + + + DSG FQ++ E ++FQ
Sbjct: 72 ELRRKALELGIHRMLDYNGIIEVDSGSFQLMKYGSIEVSNREIIEFQH 119
>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 = 47.0 bits (111), Expect = 6e-06
Identities = 37/221 (16%), Positives = 79/221 (35%), Gaps = 75/221 (33%)
Query: 110 FDCVFPTRTARFGSALVRQGQLQLKRDEY------ATDFTPIDNQCPCST---CARYTRA 160
+ V TA F A QL ++++ T+ D++ P + ++
Sbjct: 16 LEHVLLVPTASFFIAS------QL-QEQFNKILPEPTEGFAADDE-PTTPAELVGKF--- 64
Query: 161 YLHHIAT-VEPSAC----HLLS---------------VHNIAFQMRLMREIRESIKEQRF 200
L ++++ VEPS +L+ +H +A + L++E ++ + +
Sbjct: 65 -LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAK--LLQENDTTLVKTK- 120
Query: 201 PQYVKQYMK-DAYPDENYPRWTIDAL-RAV---------------NI-----ELTE---- 234
+ +K Y+ + + + AL RAV N EL +
Sbjct: 121 -ELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQT 179
Query: 235 SEPCRSGL-RRSLKCLQISTYLVRSETACAVGYVIGVDVLK 274
L + S + L L+R+ + G+++L+
Sbjct: 180 YHVLVGDLIKFSAETLS---ELIRTTLDAEKVFTQGLNILE 217
>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 = 39.1 bits (90), Expect = 0.002
Identities = 44/348 (12%), Positives = 88/348 (25%), Gaps = 128/348 (36%)
Query: 9 RTVRWLD-RC--LAAHRNPTTQNIFPIVQGGLDEALRKDCAHQMVEKDVNGFAVGGLSGG 65
+ + C L TT+ V L A H ++ +
Sbjct: 257 KAWNAFNLSCKILL-----TTRFK--QVTDFLSAATTT---HISLDHHSMTL-----TPD 301
Query: 66 EAKEDF--WYSVLVSINCLPKDKPRYVMGIGFAVDLLICCALGADMFDCVFPTRTARF-- 121
E K + ++C P+D PR V+ + + + D +
Sbjct: 302 EVKSLLLKY------LDCRPQDLPREVLTT----NPRRLSIIAESIRD--GLATWDNWKH 349
Query: 122 --GSAL--VRQGQL-QLKRDEYATDFT-----PIDNQCPCST------------------ 153
L + + L L+ EY F P P
Sbjct: 350 VNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN 409
Query: 154 -CARYT---------RAYLHHIATVEPSACHLLSVHNIAFQMRLMREIRESIKEQR---- 199
+Y+ + I +L + + L R I + +
Sbjct: 410 KLHKYSLVEKQPKESTISIPSI--------YLELKVKLENEYALHRSIVDHYNIPKTFDS 461
Query: 200 ---FPQYVKQY--------MKDAYPDENYP---------RWTIDA-LRAVNIE------- 231
P Y+ QY +K+ E R+ ++ +R +
Sbjct: 462 DDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRF-LEQKIRHDSTAWNASGSI 520
Query: 232 -------------LTESEPCRSGLRRSLK--CLQISTYLVRSETACAV 264
+ +++P L ++ +I L+ S+ +
Sbjct: 521 LNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLL 568
Score = 34.8 bits (79), Expect = 0.042
Identities = 17/156 (10%), Positives = 48/156 (30%), Gaps = 41/156 (26%)
Query: 129 GQLQLKRDEYATDFTP---IDNQCPCSTCARYTRAYLHHIATVEPSACHLLSVHNIAFQM 185
G+ Q + + + F + C + + I + E H++ +
Sbjct: 12 GEHQYQYKDILSVFEDAFVDNFDC------KDVQDMPKSILSKEEID-HIIMSKDAVSGT 64
Query: 186 RLMREIRESIKEQRFPQYVKQYMKDAYPDENYPRWTIDALRAVNIE----LTESEPCRSG 241
+ S +E+ ++V++ ++ NY + + ++ + R
Sbjct: 65 LRLFWTLLSKQEEMVQKFVEEVLRI-----NYK-FLMSPIKTEQRQPSMMTRMYIEQRDR 118
Query: 242 ---------------------LRRSLKCLQISTYLV 256
LR++L L+ + ++
Sbjct: 119 LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVL 154
>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 = 34.9 bits (79), Expect = 0.011
Identities = 10/44 (22%), Positives = 19/44 (43%), Gaps = 19/44 (43%)
Query: 192 RESIK--EQRFPQYVKQYMKDAYPDENYPRWTIDALRAVN--IE 231
++++K + +K Y A D + P AL A+ +E
Sbjct: 19 KQALKKLQAS----LKLY---A-DD-SAP-----AL-AIKATME 47
Score = 29.1 bits (64), Expect = 0.97
Identities = 11/51 (21%), Positives = 15/51 (29%), Gaps = 30/51 (58%)
Query: 127 RQGQLQLKRDE-----YATDFTP---IDNQCPCSTCARYTRAYLHHIATVE 169
+Q LK+ + YA D P I AT+E
Sbjct: 19 KQ---ALKKLQASLKLYADDSAPALAIK-------------------ATME 47
>1ta9_A Glycerol dehydrogenase; oxidoredu; 1.90A {Schizosaccharomyces
pombe}
Length = 450
Score = 30.6 bits (69), Expect = 0.81
Identities = 7/35 (20%), Positives = 13/35 (37%), Gaps = 1/35 (2%)
Query: 266 YVIGVDVLKKAGGLHKFMGWKRALL-TDSGGFQMV 299
YV G ++ K K A++ D + +
Sbjct: 72 YVQGRHAFTRSYMYVKKWATKSAVVLADQNVWNIC 106
>3ce9_A Glycerol dehydrogenase; NP_348253.1, 3-dehydroquinate syntha
structural genomics, joint center for structural
genomics; HET: MSE; 2.37A {Clostridium acetobutylicum
atcc 824}
Length = 354
Score = 29.0 bits (65), Expect = 1.9
Identities = 11/55 (20%), Positives = 22/55 (40%), Gaps = 6/55 (10%)
Query: 266 YVIGVDVLKKAGGLHKFMGWKRALL-TDSGGFQMV-----SLLKFAEITEEGVKF 314
+G + + G + K +KR L G +++ +K + I E V+
Sbjct: 15 LEVGNNKIYNIGQIIKKGNFKRVSLYFGEGIYELFGETIEKSIKSSNIEIEAVET 69
>3rc1_A Sugar 3-ketoreductase; sugar biosynthesis, TDP binding, NADP
binding binding protein; HET: TLO NAP; 1.71A
{Actinomadura kijaniata} PDB: 3rbv_A* 3rc2_A* 3rcb_A*
3rc7_A* 3rc9_A*
Length = 350
Score = 28.1 bits (63), Expect = 3.7
Identities = 5/18 (27%), Positives = 9/18 (50%)
Query: 184 QMRLMREIRESIKEQRFP 201
Q L+ +R ++ FP
Sbjct: 333 QASLVDAVRTGARDIYFP 350
>2cmg_A Spermidine synthase; transferase, putrescine
aminopropyltransferase, spermidine biosynthesis,
polyamine biosynthesis, SPEE; 2.0A {Helicobacter pylori}
PDB: 2cmh_A
Length = 262
Score = 27.8 bits (62), Expect = 4.1
Identities = 5/24 (20%), Positives = 9/24 (37%)
Query: 116 TRTARFGSALVRQGQLQLKRDEYA 139
++ FG + QL K +
Sbjct: 34 FKSKDFGEIAMLNRQLLFKNFLHI 57
>2nn6_F MTR3, exosome component 6; RNA, exosome, PM/SCL, phosphorolytic,
hydrolase/transferase complex; 3.35A {Homo sapiens}
SCOP: d.14.1.4 d.101.1.1
Length = 272
Score = 27.5 bits (61), Expect = 5.0
Identities = 19/115 (16%), Positives = 33/115 (28%), Gaps = 13/115 (11%)
Query: 122 GSALVRQGQLQLKRDEYATDFTPIDNQCPCSTCARYTRAYLHHIATVEPSACHLLSVHNI 181
GSA + G ++ P + A C
Sbjct: 51 GSAYLEAGGTKV----LCAVSGPRQAEGGERGGGPAGAGGEAPAALRGRLLCDF----RR 102
Query: 182 A-FQMRLMREIRESIKEQRFPQYVKQYMKDAYPDENYPRWTIDALRAVNIELTES 235
A F R R +E+ +++ ++ A YPR ++ V+ L E
Sbjct: 103 APFAGRRRRAPPGGCEERELALALQEALEPAVRLGRYPRAQLE----VSALLLED 153
>3nzt_A Glutamate--cysteine ligase; structural genomics, center for
structural genomics of infec diseases, csgid, alpha and
beta proteins; HET: AMP; 2.00A {Francisella tularensis
subsp}
Length = 525
Score = 27.9 bits (61), Expect = 5.5
Identities = 5/35 (14%), Positives = 14/35 (40%), Gaps = 9/35 (25%)
Query: 184 QMRLMREIRESIKEQR---------FPQYVKQYMK 209
+L + +S+ ++ +Y+ +Y K
Sbjct: 485 VAKLKDQAGQSVAAEKELVANDKISLDEYINRYYK 519
>3tr8_A Oligoribonuclease; transcription, hydrolase; 2.50A {Coxiella
burnetii}
Length = 186
Score = 27.1 bits (59), Expect = 6.0
Identities = 16/97 (16%), Positives = 28/97 (28%), Gaps = 16/97 (16%)
Query: 121 FGSALVRQGQLQLKRDEYATDFTPIDNQCPCSTCARYTRAYLHHIATVEPSACHLLSVHN 180
F V G+ L + D + P + H+ + L
Sbjct: 95 FLEKYVSAGKSPLCGNSVCQDRRFLSRYMPR------LNQFFHYRHLDVTTLKILAQRWA 148
Query: 181 IAFQMRLMRE--------IRESIKEQRFPQYVKQYMK 209
++E IR+SI+E R+ Y +
Sbjct: 149 PQIAAAHIKESQHLALQDIRDSIEELRY--YRAHLLN 183
>2qzs_A Glycogen synthase; glycosyl-transferase, GT-B fold, rossmann fold,
closed-form, ADP and glucose binding, glycogen
biosynthesis; HET: GLC ADP 250; 2.20A {Escherichia coli}
PDB: 2r4t_A* 2r4u_A* 3guh_A* 3cx4_A* 3cop_A* 3d1j_A
Length = 485
Score = 27.5 bits (62), Expect = 6.2
Identities = 8/28 (28%), Positives = 12/28 (42%), Gaps = 7/28 (25%)
Query: 157 YTRAYLHHIATVEPSACHLLSVHNIAFQ 184
Y A +V +VHN+A+Q
Sbjct: 146 YLAARGRPAKSV-------FTVHNLAYQ 166
>3bfj_A 1,3-propanediol oxidoreductase; opportunistic pathogens, decamer,
structural genomics,struct proteomics in europe, spine;
2.70A {Klebsiella pneumoniae}
Length = 387
Score = 27.2 bits (61), Expect = 7.9
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 267 VIGVDVLKKAGGLHKFMGWKRALL-TDSG 294
G + + G + +G K+ALL TD G
Sbjct: 15 FFGPNAISVVGERCQLLGGKKALLVTDKG 43
>3qex_A DNA polymerase, GP43; difluorotoluene nucleoside; HET: DNA DOC DGT;
1.73A {Enterobacteria phage RB69} PDB: 3qei_A* 3qer_A*
3qes_A* 3qet_A* 3qep_A* 3qew_A* 3qev_A* 3s9h_A* 3sq0_A*
3spz_A* 3ne6_A* 3nhg_A* 3si6_A* 3scx_A* 3sjj_A* 3snn_A*
3ngi_A* 3lzi_A* 3lzj_A* 3ndk_A* ...
Length = 903
Score = 27.2 bits (59), Expect = 9.3
Identities = 11/59 (18%), Positives = 21/59 (35%), Gaps = 10/59 (16%)
Query: 185 MRLMREIRESIKEQRFP-----QYVKQYMKDAYPDENYPRWTIDALRAVN--IELTESE 236
MR + + +++ + Y+ D Y E ++ +R N IE S
Sbjct: 65 MRDASQWIKRMEDIGLEALGMDDFKLAYLSDTYNYE--IKYDHTKIRVANFDIE-VTSP 120
>1kq3_A Glycerol dehydrogenase; structural genomics, joint center FO
structural genomics, JCSG, protein structure initiative,
PS oxidoreductase; 1.50A {Thermotoga maritima} SCOP:
e.22.1.2
Length = 376
Score = 26.9 bits (60), Expect = 9.4
Identities = 9/50 (18%), Positives = 15/50 (30%), Gaps = 1/50 (2%)
Query: 266 YVIGVDVLKKAGGLHKFMGWKRALLTDSGGFQMVSLLKFAEI-TEEGVKF 314
YV G + G + ++ D + V F T+ V
Sbjct: 23 YVQGAGAINILEEELSRFGERAFVVIDDFVDKNVLGENFFSSFTKVRVNK 72
>3ox4_A Alcohol dehydrogenase 2; iron, NAD, oxidoreductase; HET: NAD; 2.00A
{Zymomonas mobilis} PDB: 3owo_A*
Length = 383
Score = 27.1 bits (61), Expect = 9.4
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 267 VIGVDVLKKAGGLHKFMGWKRALL-TDSG 294
+G L+KA G+K AL+ +D+
Sbjct: 13 EMGEGSLEKAIKDLNGSGFKNALIVSDAF 41
>1rzu_A Glycogen synthase 1; glycosyl-transferase, GT-B fold, rossmann
fold, ADP-binding, transferase; HET: ADP; 2.30A
{Agrobacterium tumefaciens} SCOP: c.87.1.8 PDB: 1rzv_A
Length = 485
Score = 27.1 bits (61), Expect = 10.0
Identities = 9/25 (36%), Positives = 13/25 (52%), Gaps = 7/25 (28%)
Query: 160 AYLHHIATVEPSACHLLSVHNIAFQ 184
A I ++ L++HNIAFQ
Sbjct: 151 AETPEIPSL-------LTIHNIAFQ 168
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
0.324 0.138 0.430
Gapped
Lambda K H
0.267 0.0642 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,977,502
Number of extensions: 294135
Number of successful extensions: 920
Number of sequences better than 10.0: 1
Number of HSP's gapped: 902
Number of HSP's successfully gapped: 29
Length of query: 319
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 225
Effective length of database: 4,077,219
Effective search space: 917374275
Effective search space used: 917374275
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: 57 (25.9 bits)