RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9817
(231 letters)
>3t5x_A PCI domain-containing protein 2; PCI, mRNA nuclear export,
transcription; 2.12A {Homo sapiens}
Length = 203
Score = 125 bits (314), Expect = 7e-36
Identities = 24/151 (15%), Positives = 62/151 (41%), Gaps = 7/151 (4%)
Query: 83 SAFPENASNNEWARFHFYLGRIKAVRLEYSTAHKNLVQALRKAPQTAAVGFRQTTQKLAV 142
S ++ S + + +Y+GR ++ A + L A ++ + ++ +
Sbjct: 2 SHMKDDYSTAQRVTYKYYVGRKAMFDSDFKQAEEYLSFAFEHCHRS-SQKNKRMILIYLL 60
Query: 143 VVELLLGDIPDRQIFRQAVLRRALSPYFQLTQAVRMGELQKFNEVLTTYGNQFRTDYTFK 202
V++LLG +P ++ ++ L + ++T+AV G L +E L + F F
Sbjct: 61 PVKMLLGHMPTVELLKK----YHLMQFAEVTRAVSEGNLLLLHEALAKHEAFFIRCGIFL 116
Query: 203 LILRLRHNVIKTAIRSIGASY--SRITPAKI 231
++ +L+ + + + +++
Sbjct: 117 ILEKLKIITYRNLFKKVYLLLKTHQLSLDAF 147
>3t5v_B Nuclear mRNA export protein THP1; PCI, mRNA nuclear export, mRNA,
nuclear, transcription; 2.90A {Saccharomyces cerevisiae}
Length = 455
Score = 127 bits (319), Expect = 1e-34
Identities = 27/183 (14%), Positives = 56/183 (30%), Gaps = 12/183 (6%)
Query: 59 LINCLLRNYLHYNLYDQADKLVK----KSAFP--ENASNNEWARFHFYLGRIKAVRLEYS 112
L+N L Y + K KS ++ + + LGR + +
Sbjct: 178 LVNKLNNIYFRIESPQLCSNIFKNFQPKSMLAHFNEYQLDQQIEYRYLLGRYYLLNSQVH 237
Query: 113 TAHKNLVQALRKAPQTAAVGFRQTTQK-----LAVVVELLLGDIPDRQIFRQAVLRRALS 167
A +A + T + L+LG + R + + +
Sbjct: 238 NAFVQFNEAFQSLLNLPLTNQAITRNGTRILNYMIPTGLILGKMVKWGPLRPFLSQETID 297
Query: 168 PYFQLTQAVRMGELQKFNEVLTTYGNQFRTDYTFKLIL-RLRHNVIKTAIRSIGASYSRI 226
+ L + VR G +Q + L ++L +L + I+++ S++
Sbjct: 298 NWSVLYKHVRYGNIQGVSLWLRQNERHLCARQLLIVLLEKLPMVTYRNLIKTVIKSWTTE 357
Query: 227 TPA 229
Sbjct: 358 WGQ 360
>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 = 42.2 bits (98), Expect = 6e-05
Identities = 28/183 (15%), Positives = 55/183 (30%), Gaps = 11/183 (6%)
Query: 59 LINCLLRNYLHYNLYDQADKLVKKSAFPENASNNEWARFHFYL----GRIKAVRLEYSTA 114
+ + Y + +A + + NA A ++ TA
Sbjct: 141 VQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGALDLQSGILHAADERDFKTA 200
Query: 115 HKNLVQALRKAPQTAAVGFRQTTQKLAVVVELLLGDIPDRQIFRQAVLR-----RALSPY 169
+A + T+ K ++ +++LG D L R +
Sbjct: 201 FSYFYEAFEGFD-SVDSVKALTSLKYMLLCKIMLGQSDDVNQLVSGKLAITYSGRDIDAM 259
Query: 170 FQLTQAVRMGELQKFNEVLTTYGNQFRTDYTFKLILR-LRHNVIKTAIRSIGASYSRITP 228
+ +A L F L Y + D + L L +++ + I YSR+
Sbjct: 260 KSVAEASHKRSLADFQAALKEYKKELAEDVIVQAHLGTLYDTMLEQNLCRIIEPYSRVQV 319
Query: 229 AKI 231
A +
Sbjct: 320 AHV 322
>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 = 41.6 bits (97), Expect = 1e-04
Identities = 32/196 (16%), Positives = 53/196 (27%), Gaps = 54/196 (27%)
Query: 37 RSFLNAR---LRIATLRNDFEGQAVLINCLLRNYLHYNLYDQADKLVKK---SAFPENAS 90
+L A L + + V L++NY A + K SA
Sbjct: 93 NCYLEGNDIHALAAKLLQENDTTLVKTKELIKNY--ITARIMAKRPFDKKSNSALFRAVG 150
Query: 91 NNEWARFH--F--------YLGRIKAVRLEYST----------AHKNLVQALRKAPQTAA 130
A+ F Y + +R Y T + L + A
Sbjct: 151 EGN-AQLVAIFGGQGNTDDYF---EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAE 206
Query: 131 VGFRQTTQKLAVVVELLLG--DIPDRQIFRQAVLRRALS-PYFQLTQAV----------- 176
F Q ++E L + PD+ +S P + Q
Sbjct: 207 KVFTQGLN----ILEWLENPSNTPDKDYLLSI----PISCPLIGVIQLAHYVVTAKLLGF 258
Query: 177 RMGELQKFNEVLTTYG 192
GEL+ + + T +
Sbjct: 259 TPGELRSYLKGATGHS 274
Score = 31.2 bits (70), Expect = 0.36
Identities = 23/139 (16%), Positives = 41/139 (29%), Gaps = 53/139 (38%)
Query: 109 LEYS----TAHKNLVQALRKAPQTAAVGFRQT----TQKLAV------VVELL---LGDI 151
LE+ TA + L++ F + T+ A EL+ LG
Sbjct: 16 LEHVLLVPTASFFIASQLQEQ-------FNKILPEPTEGFAADDEPTTPAELVGKFLG-- 66
Query: 152 PDRQIFRQAVLRRALSPYFQLTQAVRMGELQKFNEVLTTYGNQFRTDYTFKLILRLRHNV 211
+ ++ V ++ +F++VL +F Y L N
Sbjct: 67 ------------------Y-VSSLVEPSKVGQFDQVLNLCLTEFENCY-------LEGND 100
Query: 212 IKTAIRSIGASYSRITPAK 230
I + + T K
Sbjct: 101 IHALAAKLLQE-NDTTLVK 118
Score = 30.4 bits (68), Expect = 0.53
Identities = 15/69 (21%), Positives = 28/69 (40%), Gaps = 12/69 (17%)
Query: 171 QLTQAVRMG-EL----QKFNEVLTTYGNQFRTDYTFKLILRLRHNVIKTAI-------RS 218
Q +Q MG +L + +V N F+ Y F ++ + +N + I +
Sbjct: 1624 QGSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKR 1683
Query: 219 IGASYSRIT 227
I +YS +
Sbjct: 1684 IRENYSAMI 1692
Score = 27.3 bits (60), Expect = 5.0
Identities = 38/199 (19%), Positives = 66/199 (33%), Gaps = 63/199 (31%)
Query: 71 NLYDQADKLVKKS---AFPENASNN-EWARFHFYLGRIKAVRLEYST-AHKNLVQALRKA 125
+++++AD K + + + NN HF + K +R YS + +V K
Sbjct: 1644 DVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKT 1703
Query: 126 --------PQTAAVGFR-------QT--TQK--LAV---VVELLL--GDIPDRQIFRQAV 161
+ + FR T TQ + E L G IP F
Sbjct: 1704 EKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATF---- 1759
Query: 162 LRRA-LSPYFQLTQAVRMGE---LQKFNEVLTTYGNQFRTDYTFKLILRLRHNVIKTAI- 216
A S L GE L +V++ + ++ + R ++ A+
Sbjct: 1760 ---AGHS----L------GEYAALASLADVMS-----IES--LVEV-VFYRGMTMQVAVP 1798
Query: 217 -RSIGAS-YS--RITPAKI 231
+G S Y I P ++
Sbjct: 1799 RDELGRSNYGMIAINPGRV 1817
>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like
repeat, protein transport; 2.90A {Saccharomyces
cerevisiae} SCOP: a.118.8.1
Length = 292
Score = 34.6 bits (79), Expect = 0.018
Identities = 27/191 (14%), Positives = 60/191 (31%), Gaps = 18/191 (9%)
Query: 16 AAKCYFYHSRVHELTNNLDKVRSFLNARLRIATLRNDFEGQAVLINCLLRNYLH-YNLYD 74
A Y + + N L ++I T R F A L + + Y
Sbjct: 76 AGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYA 135
Query: 75 QADKLVKKSA--FPENASNNEWARFHFYLGRIKAVRLEYSTAHKNLVQALRKAPQTAAVG 132
+A + + + ++ S + +KA+ +Y A + ++ +
Sbjct: 136 KAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQ 195
Query: 133 FRQTTQKL-AVVVELLLGDIPD-RQIFRQAVLRRALSPYF----------QLTQAVRMGE 180
+ L + +L D + ++ ++ P F L AV G+
Sbjct: 196 WSLKDYFLKKGLCQLAATDAVAAARTLQEG---QSEDPNFADSRESNFLKSLIDAVNEGD 252
Query: 181 LQKFNEVLTTY 191
++ +E +
Sbjct: 253 SEQLSEHCKEF 263
>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein
superhelix, transc activator; 1.45A {Escherichia coli}
SCOP: a.118.8.2
Length = 373
Score = 33.0 bits (75), Expect = 0.075
Identities = 22/155 (14%), Positives = 45/155 (29%), Gaps = 2/155 (1%)
Query: 9 RRTSDLIAAKCYFYHSRVHELTNNLDKVRSFLNARLRIATLRNDFEG-QAVLINCLLRNY 67
+C + +LD RS LN + + + +
Sbjct: 166 SSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYW 225
Query: 68 LHYNLYDQADKLVKKSAFPENASNNEWARFHFYLGRIKAVRLEYSTAHKNLVQALRKAPQ 127
A ++ +A PE A+N+ + R + + E+ A L + A
Sbjct: 226 QMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARS 285
Query: 128 TAAVGFRQTTQKLAVVVELLLGDIPD-RQIFRQAV 161
+ L + G D +++ A+
Sbjct: 286 LRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDAL 320
>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide
repeat, response regulator helix-turn-HELX binding,
3-helix bundle; 2.30A {Bacillus subtilis}
Length = 383
Score = 31.7 bits (72), Expect = 0.19
Identities = 15/129 (11%), Positives = 35/129 (27%), Gaps = 3/129 (2%)
Query: 3 KITSENRRTSDLIAAKCYFYHSRVHELTNNLDKVRSFLNARLRIATLRNDFEGQAVLINC 62
+I + R + L+ F+ F D +A
Sbjct: 89 EIDKKQARLTGLLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFK 148
Query: 63 LLRNYLHYNLYDQADKLVKKSA--FPENASNN-EWARFHFYLGRIKAVRLEYSTAHKNLV 119
+ +Y + + +++ + E+ + N + H +Y A +
Sbjct: 149 MSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQ 208
Query: 120 QALRKAPQT 128
+A A
Sbjct: 209 KAYSMAEAE 217
Score = 29.0 bits (65), Expect = 1.3
Identities = 12/115 (10%), Positives = 35/115 (30%), Gaps = 2/115 (1%)
Query: 16 AAKCYFYHSRVHELTNNLDKVRSFLNARLRIATLRNDFEGQAVLINCLLRNYLHYNLYDQ 75
+C+ + + S +A + + + + Y+
Sbjct: 183 LLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYED 242
Query: 76 ADKLVKKSA--FPENASNNEWARFHFYLGRIKAVRLEYSTAHKNLVQALRKAPQT 128
A K++ F E+ + +F + +I + AH+ + + + +
Sbjct: 243 AIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKA 297
Score = 28.2 bits (63), Expect = 2.3
Identities = 7/108 (6%), Positives = 24/108 (22%)
Query: 17 AKCYFYHSRVHELTNNLDKVRSFLNARLRIATLRNDFEGQAVLINCLLRNYLHYNLYDQA 76
+ + + + + + + N + + + D+A
Sbjct: 224 GRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKA 283
Query: 77 DKLVKKSAFPENASNNEWARFHFYLGRIKAVRLEYSTAHKNLVQALRK 124
+ K + + F + + A + L
Sbjct: 284 HEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLES 331
>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 = 0.25
Identities = 27/198 (13%), Positives = 58/198 (29%), Gaps = 46/198 (23%)
Query: 33 LDKVRSFLNARL--RIATLRNDFEGQAVLINCLLRNYLHYNLYDQADKLVKKSAFPENA- 89
D +S L+ I ++ G L LL + +++V+K F E
Sbjct: 39 QDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLL---------SKQEEMVQK--FVEEVL 87
Query: 90 -SNNEW--ARFHFYLGRIKAVRLEYSTAHKNL---VQALRKAPQTAAVGFRQTTQKLAVV 143
N ++ + + + Y L Q K + R Q +
Sbjct: 88 RINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS-----RL--QPYLKL 140
Query: 144 VELLLGDIPDRQIFRQ-------AVLRRALSPYFQLTQAVRMGELQK--FNEVL-TTYGN 193
+ LL P + + + AL ++Q ++ N
Sbjct: 141 RQALLELRPAKNVLIDGVLGSGKTWV--AL-------DVCLSYKVQCKMDFKIFWLNLKN 191
Query: 194 QFRTDYTFKLILRLRHNV 211
+ +++ +L + +
Sbjct: 192 CNSPETVLEMLQKLLYQI 209
Score = 28.7 bits (63), Expect = 2.2
Identities = 25/167 (14%), Positives = 52/167 (31%), Gaps = 35/167 (20%)
Query: 20 YFYHSRVHELTNNLDKVRSFLNARLRIA-TLRNDFEGQAVLINCLLRNYLH----YNLY- 73
S EL L+ + L+ + + F+ ++ L Y + ++L
Sbjct: 426 ISIPSIYLELKVKLENEYA-LHRSIVDHYNIPKTFDSDDLIPPYL-DQYFYSHIGHHLKN 483
Query: 74 -DQADKL----------------VKKSAFPENAS---NNEWARFHFYLGRIKAVRLEYST 113
+ +++ ++ + NAS N + FY I +Y
Sbjct: 484 IEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYER 543
Query: 114 AHKNLVQALRKAPQTAAVGFRQTTQKLAVVVELLLGDIPDRQIFRQA 160
++ L K + K ++ + L D IF +A
Sbjct: 544 LVNAILDFLPKIEENLICS------KYTDLLRIALMA-EDEAIFEEA 583
>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus
thuringiensis serovar ISRAELE35646}
Length = 293
Score = 28.6 bits (63), Expect = 1.7
Identities = 9/117 (7%), Positives = 30/117 (25%), Gaps = 3/117 (2%)
Query: 4 ITSENRRTSDLIAAKCYFYHSRVHELTNNLDKVRSFLN-ARLRIATLRNDFEGQAVLINC 62
+ + + ++ L K ++ L ++ E +
Sbjct: 142 LNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYN 201
Query: 63 LLRNYLHYNLYDQADKLVKKS--AFPENASNNEWARFHFYLGRIKAVRLEYSTAHKN 117
+ + Y+++ V K+ S + ++ G ++
Sbjct: 202 HAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIED 258
>3q15_A PSP28, response regulator aspartate phosphatase H;
tetratricopeptide repeat, 3-helix bundle, phosphorelay
signa transduction, phosphatase; 2.19A {Bacillus
subtilis}
Length = 378
Score = 28.2 bits (63), Expect = 2.1
Identities = 15/113 (13%), Positives = 35/113 (30%), Gaps = 1/113 (0%)
Query: 17 AKCYFYHSRVHELTNNLDKVRSFLNARLRIATLRNDFEGQAVLINCLLRNYLHYNLYDQA 76
+ F + ++ + DK L A L +A + A+ + + +Y A
Sbjct: 182 IQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMA 241
Query: 77 DKLVKKS-AFPENASNNEWARFHFYLGRIKAVRLEYSTAHKNLVQALRKAPQT 128
+ +K+ + + F L + A + + + L
Sbjct: 242 VEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITAR 294
>3msw_A Uncharacterized protein; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; HET: MSE; 1.90A {Bacteroides fragilis}
Length = 145
Score = 27.5 bits (60), Expect = 2.8
Identities = 12/52 (23%), Positives = 15/52 (28%), Gaps = 3/52 (5%)
Query: 64 LRNYLHYNL-YDQADKLVKKSAFPENASNNEWARFHF--YLGRIKAVRLEYS 112
L Y YD + KS + N N W +EYS
Sbjct: 35 LNPVKMYKYSYDTDQQKTVKSTYAWNIFKNTWETESRTVISRYETETSVEYS 86
>3gqw_A Fatty acid AMP ligase; FAAL, E. coli, ATP-dependent binding enzyme
family,, structural genomics, PSI-2, protein structure
initiative; HET: ZZ9; 3.00A {Escherichia coli O6} PDB:
3pbk_A*
Length = 576
Score = 26.9 bits (60), Expect = 6.2
Identities = 9/59 (15%), Positives = 22/59 (37%), Gaps = 1/59 (1%)
Query: 119 VQALRKAPQTAAVGFRQTTQKLAVVVELLLGDIPDRQIFRQAVLRRALSPYFQLTQAVR 177
+ + A+ F +K+ + ++ + D R A+ + F +T A+
Sbjct: 480 AEQEPEIHSGDAIAFVTAQEKIILQIQCRISDEERRGQLIHAL-AARIQSEFGVTAAID 537
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
0.325 0.136 0.387
Gapped
Lambda K H
0.267 0.0633 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,419,038
Number of extensions: 197117
Number of successful extensions: 548
Number of sequences better than 10.0: 1
Number of HSP's gapped: 538
Number of HSP's successfully gapped: 27
Length of query: 231
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 141
Effective length of database: 4,188,903
Effective search space: 590635323
Effective search space used: 590635323
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: 56 (25.6 bits)