RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy396
(239 letters)
>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha
solenoid, regulatory PART LID, hydrolase, protein
binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A
Length = 394
Score = 117 bits (294), Expect = 3e-31
Identities = 27/219 (12%), Positives = 80/219 (36%), Gaps = 9/219 (4%)
Query: 16 AYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIALPRYNLRKKLM 75
++ R + A F + F+S + + T ++Y +L ++ ++ + +
Sbjct: 185 QSGILHAADERDFKTAFSYFYEAFEGFDSVDSVKALTSLKYMLLCKIMLGQSDDVNQLVS 244
Query: 76 HHGVMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLNPHYRHYVQEMR 135
+ + ++ + + +F L ++++ D ++ H M
Sbjct: 245 GKLAITYSGR-DIDAMKSVAEASHKRSLADFQAALKEYKKELAEDVIVQAHLGTLYDTML 303
Query: 136 LRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSHI 195
+ +I++ Y + + ++A+ + + +EK++++ + +D G ++
Sbjct: 304 EQNLCRIIEPYSRVQVAHVAESIQLPMPQVEKKLSQMILDKKFSGILDQGEGVLIVFEE- 362
Query: 196 SEKGDCRSEAPEASLDRGILYQTTVKRGDIFLNRLKKLA 234
+ E L+ V D + KKL+
Sbjct: 363 ----TPVDKTYERVLETIQSMGKVV---DTLYQKAKKLS 394
>1ufm_A COP9 complex subunit 4; helix-turn-helix, structural genomics,
riken structural genomics/proteomics initiative, RSGI,
signaling protein; NMR {Mus musculus} SCOP: a.4.5.47
Length = 84
Score = 39.0 bits (91), Expect = 9e-05
Identities = 12/60 (20%), Positives = 24/60 (40%), Gaps = 3/60 (5%)
Query: 131 VQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVV 190
V E L + + Y +++ + + + EK ++ GR+ ID + G V
Sbjct: 16 VIEHNLLS---ASKLYNNITFEELGALLEIPAAKAEKIASQMITEGRMNGFIDQIDGIVH 72
>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 = 37.7 bits (87), Expect = 0.003
Identities = 48/311 (15%), Positives = 94/311 (30%), Gaps = 109/311 (35%)
Query: 14 LKAYEGVYCLAIRQYCRAAE--LF-------VDVVPTF------ESY--ELAEFGTIIRY 56
+K Y +A R + + + LF +V F + Y EL + Y
Sbjct: 123 IKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQT--Y 180
Query: 57 -TVLACMIALPRYNLRKKLMHHGVMAQALHSQYRDLR------------EYFVS------ 97
++ +I L +L+ + A+ + +Q ++ +Y +S
Sbjct: 181 HVLVGDLIKFSAETL-SELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCP 239
Query: 98 ---LYD-GHYFEFLKCLAAVEQDMKRDPL--LNPH-------------------YRHYVQ 132
+ HY K L ++ R L H + +
Sbjct: 240 LIGVIQLAHYVVTAKLLGFTPGEL-RSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRK 298
Query: 133 EMR------LRAYKQILQAYRSLSLK----------------YMAQCFGVSVEFIEKEVA 170
+ +R Y +AY + SL M ++ E ++ V
Sbjct: 299 AITVLFFIGVRCY----EAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVN 354
Query: 171 RFAAAGRLQCKIDSVA---G--NVVTTSH-ISEKGDC---RSEAPEASLDRGILYQTTV- 220
+ + ++ ++ G N+V + S G R + LD Q+ +
Sbjct: 355 KTNSHLPAGKQV-EISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD-----QSRIP 408
Query: 221 --KRGDIFLNR 229
+R F NR
Sbjct: 409 FSERKLKFSNR 419
Score = 32.3 bits (73), Expect = 0.13
Identities = 22/160 (13%), Positives = 42/160 (26%), Gaps = 52/160 (32%)
Query: 68 YNLRKKLMHHGVMAQ------ALHSQYRDLREYF--------------------VSLYDG 101
Y+ R + HG + A L+E F L G
Sbjct: 4 YSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELV-G 62
Query: 102 HYFEFLKCLAAVEQDMKRDPLLNPHYRHYVQ-------------------EMRLRAYKQI 142
+ ++ L + + D +LN + + L K++
Sbjct: 63 KFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKEL 122
Query: 143 LQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKI 182
++ Y A+ + A F A G ++
Sbjct: 123 IKNY------ITARIMAKRPFDKKSNSALFRAVGEGNAQL 156
Score = 31.2 bits (70), Expect = 0.34
Identities = 33/276 (11%), Positives = 73/276 (26%), Gaps = 81/276 (29%)
Query: 12 NKLKAYEGVYCLAI----RQYCRAAEL--FVDVVPTFESYELAEFGTIIRYTVLACMIAL 65
+K+ ++ V L + Y ++ + L + +I+ + A ++A
Sbjct: 75 SKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAK 134
Query: 66 PRYNLRKK--LMHH------GVMA---------------QALHSQYRDLREYFVSLYDGH 102
++ + L ++A + L+ Y L +
Sbjct: 135 RPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAET 194
Query: 103 YFEFLKCLAAVEQDMKRDPLLNPHYRHYVQEMR-LRAYKQILQAYRSLSLKYMAQCFGVS 161
L L D + + + L + Y+ +S
Sbjct: 195 ----LSELIRTTLDA------EKVFTQGLNILEWLE------NPSNTPDKDYLLSIP-IS 237
Query: 162 VEFIE-KEVARFAAAGRLQCK-----IDSVAG------NVVTTSHISEKGD--------- 200
I ++A + +L + G +VT I+E
Sbjct: 238 CPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVR 297
Query: 201 ----------CRS--EAPEASLDRGILYQTTVKRGD 224
R P SL IL + +++ +
Sbjct: 298 KAITVLFFIGVRCYEAYPNTSLPPSIL-EDSLENNE 332
Score = 27.3 bits (60), Expect = 6.5
Identities = 27/168 (16%), Positives = 48/168 (28%), Gaps = 53/168 (31%)
Query: 72 KKLMHH--GVMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLNPHYRH 129
L H G + + Y + F ++ DG + K + + + +R
Sbjct: 1670 VNLTIHFGGEKGKRIRENYSAMI--FETIVDG-KLKTEKIFKEINEH-----STSYTFRS 1721
Query: 130 YVQEMRLRAYKQ---------ILQAYRSLSL----KYMAQCFGVSV-EFIEKEVARFAAA 175
+ + Q + +S L A G S+ E+ A + A
Sbjct: 1722 EKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFA---GHSLGEY----AALASLA 1774
Query: 176 GRLQCKIDSVAGNVVTTSHISEKGDCRSEAPEASLDRGILYQTTVKRG 223
+ I+S+ VV RG+ Q V R
Sbjct: 1775 DVM--SIESLV-EVV---FY----------------RGMTMQVAVPRD 1800
>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 = 37.1 bits (85), Expect = 0.005
Identities = 37/217 (17%), Positives = 70/217 (32%), Gaps = 63/217 (29%)
Query: 76 HHGVM---AQALHSQYRDL----REYFVSLYDGHYFE-FLK-CLAAVEQDMKRDPLLNPH 126
HH M QY+D+ + FV +D + K L+ E D +++
Sbjct: 3 HHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEID---HIIMSKD 59
Query: 127 -------------------YRHYVQEMRLRAYKQILQAYRS-------LSLKYMAQ---C 157
+ +V+E+ YK ++ ++ ++ Y+ Q
Sbjct: 60 AVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL 119
Query: 158 FGVSVEFIEKEVARFAAAGRLQCKI--DSVAGNVVTTSHISEKGD------------CRS 203
+ + F + V+R +L+ + A NV+ G C S
Sbjct: 120 YNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLI--D----GVLGSGKTWVALDVCLS 173
Query: 204 EAPEASLDRGILYQT--TVKRGDIFLNRLKKLARVID 238
+ +D I + + L L+KL ID
Sbjct: 174 YKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQID 210
Score = 31.7 bits (71), Expect = 0.24
Identities = 13/96 (13%), Positives = 33/96 (34%), Gaps = 18/96 (18%)
Query: 68 YNLRKKLMHHGVMAQALH----SQYRDLREY----FVSLY-DGHYFEFL-----KCLAAV 113
++ +L ALH Y + + + Y D +++ +
Sbjct: 429 PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPE 488
Query: 114 EQDMKRDPLLNPHYRHYVQEMRLRAYKQILQAYRSL 149
+ R L+ +R ++++ ++R A S+
Sbjct: 489 RMTLFRMVFLD--FR-FLEQ-KIRHDSTAWNASGSI 520
>3t5v_A Nuclear mRNA export protein SAC3; PCI, mRNA nuclear export, mRNA,
nuclear, transcription; 2.90A {Saccharomyces cerevisiae}
Length = 316
Score = 29.8 bits (66), Expect = 0.65
Identities = 16/116 (13%), Positives = 34/116 (29%), Gaps = 8/116 (6%)
Query: 40 PTFESYELAEFGTIIRYTVLACMIALPRYNLRKKLMHH--GVMAQALHSQYRDLREYFVS 97
F +Y L I + LP++ + KL+ +S Y +
Sbjct: 116 AEFRAYALLSK--IRDPQYDENIQRLPKHIFQDKLVQMALCFRRVISNSAYTERGFVKTE 173
Query: 98 LYDGHYFEFLKCLAAVEQDMKRDPLLNPHYRHYVQEMRLRAYKQILQAYRSLSLKY 153
Y F + + Q L+ + ++ ++R A + +
Sbjct: 174 NCLNFYARFFQLM----QSPSLPLLMGFFLQMHLTDIRFYALRALSHTLNKKHKPI 225
>1j5y_A Transcriptional regulator, biotin repressor famil; structural
genomics, TM1602, BIOT repressor family, JCSG, conserved
hypothetical protein; 2.30A {Thermotoga maritima} SCOP:
a.4.5.1 d.94.2.1
Length = 187
Score = 28.7 bits (64), Expect = 1.4
Identities = 13/59 (22%), Positives = 30/59 (50%), Gaps = 5/59 (8%)
Query: 123 LNPHYRHYVQEM----RLRAYKQILQAYRS-LSLKYMAQCFGVSVEFIEKEVARFAAAG 176
++ H+ H + RL++ +IL+ + +S +A+ VS + I +++A + G
Sbjct: 6 IHHHHHHMHMKTVRQERLKSIVRILERSKEPVSGAQLAEELSVSRQVIVQDIAYLRSLG 64
>3dgz_A Thioredoxin reductase 2; oxidoreductase, rossmann, flavoprotein,
FAD, mitochondrion, redox-active center, selenium,
selenocysteine, transit PEPT; HET: FAD NA7; 2.25A {Mus
musculus} PDB: 1zkq_A* 1zdl_A*
Length = 488
Score = 28.3 bits (64), Expect = 2.3
Identities = 20/125 (16%), Positives = 37/125 (29%), Gaps = 35/125 (28%)
Query: 72 KKLMHHG-VMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLNPHYRHY 130
KKLMH ++ + D Y + + AV+ +K LN +R
Sbjct: 61 KKLMHQAALLGGMIR----DAHHYGWEVAQPVQHNWKTMAEAVQNHVKS---LNWGHRVQ 113
Query: 131 VQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVV 190
L+ K V++ + A F ++ ++
Sbjct: 114 -----LQDRK---------------------VKYFNIK-ASFVDEHTVRGVDKGGKATLL 146
Query: 191 TTSHI 195
+ HI
Sbjct: 147 SAEHI 151
>3dgh_A TRXR-1, thioredoxin reductase 1, mitochondrial; oxidoreductase,
rossmann, flavoprotein, alternative initiati
mitochondrion, NADP; HET: FAD; 1.75A {Drosophila
melanogaster} PDB: 2nvk_X* 3dh9_A*
Length = 483
Score = 27.9 bits (63), Expect = 3.0
Identities = 14/63 (22%), Positives = 31/63 (49%), Gaps = 8/63 (12%)
Query: 72 KKLMHHG-VMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLNPHYRHY 130
KKLMH ++ +A+H + Y ++ D ++ K + +V+ +K +N R
Sbjct: 65 KKLMHQASLLGEAVH----EAAAYGWNVDDKIKPDWHKLVQSVQNHIKS---VNWVTRVD 117
Query: 131 VQE 133
+++
Sbjct: 118 LRD 120
>2iv2_X Formate dehydrogenase H; oxidoreductase, 4Fe-4S, anaerobic,
complete proteome, direct protein sequencing, Fe4S4,
iron, iron sulfur cluster; HET: 2MD MGD; 2.27A
{Escherichia coli} SCOP: b.52.2.2 c.81.1.1 PDB: 1fdi_A*
1fdo_A* 1aa6_A*
Length = 715
Score = 27.5 bits (62), Expect = 4.0
Identities = 11/41 (26%), Positives = 21/41 (51%), Gaps = 5/41 (12%)
Query: 138 AYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVAR-FAAAGR 177
Y++I++ Y + + + GVS I ++ AR +A A
Sbjct: 254 EYRKIVEGY---TPESVEDITGVSASEI-RQAARMYAQAKS 290
>3qfa_A Thioredoxin reductase 1, cytoplasmic; protein-protein complex,
rossmann fold, HO pyridine nucleotide disulfide
oxidoreductase, electron TRAN oxidoreductase; HET: FAD;
2.20A {Homo sapiens} PDB: 3qfb_A* 2j3n_A* 2zzc_A*
2zzb_A* 2zz0_A* 2cfy_A* 1h6v_A* 3ean_A* 3eao_A*
Length = 519
Score = 27.2 bits (61), Expect = 5.4
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 8/63 (12%)
Query: 72 KKLMHHG-VMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLNPHYRHY 130
KKLMH ++ QAL D R Y + + ++ + + AV+ + LN YR
Sbjct: 87 KKLMHQAALLGQALQ----DSRNYGWKVEETVKHDWDRMIEAVQNHIGS---LNWGYRVA 139
Query: 131 VQE 133
++E
Sbjct: 140 LRE 142
>1uoc_A POP2; hydrolase, DEDD nuclease, mRNA degradation, poly(A) tail,
transcription regulation, repressor, phosphorylation.;
2.3A {Saccharomyces cerevisiae} SCOP: c.55.3.9
Length = 289
Score = 26.5 bits (58), Expect = 7.5
Identities = 10/64 (15%), Positives = 21/64 (32%), Gaps = 6/64 (9%)
Query: 73 KLMHHGVMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLNPHYRHYVQ 132
++ + M + +Y + YD L + + Q+ K L + Q
Sbjct: 172 NILMNDSMPNNKEDFEWWVHQYMPNFYD------LNLVYKIIQEFKNPQLQQSSQQQQQQ 225
Query: 133 EMRL 136
+ L
Sbjct: 226 QYSL 229
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
0.326 0.138 0.412
Gapped
Lambda K H
0.267 0.0577 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,873,323
Number of extensions: 231994
Number of successful extensions: 635
Number of sequences better than 10.0: 1
Number of HSP's gapped: 628
Number of HSP's successfully gapped: 26
Length of query: 239
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 148
Effective length of database: 4,160,982
Effective search space: 615825336
Effective search space used: 615825336
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 56 (25.7 bits)