RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1676
(343 letters)
>3t5v_B Nuclear mRNA export protein THP1; PCI, mRNA nuclear export, mRNA,
nuclear, transcription; 2.90A {Saccharomyces cerevisiae}
Length = 455
Score = 175 bits (445), Expect = 2e-51
Identities = 43/278 (15%), Positives = 88/278 (31%), Gaps = 41/278 (14%)
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---------------------- 205
+ L + VR G +Q + L ++L
Sbjct: 298 NWSVLYKHVRYGNIQGVSLWLRQNERHLCARQLLIVLLEKLPMVTYRNLIKTVIKSWTTE 357
Query: 206 ----RLRHNVIKTAIR-SIGASYSRITPTKIAEKLGLESPEDAEFIIAKAIRDGVIEATL 260
+L +++I+ ++ SIG ++ +I G+ SP++ E ++ I G++ A
Sbjct: 358 WGQNKLPYSLIERVLQLSIGPTFEDPGAQEITIYNGIHSPKNVENVLVTLINLGLLRANC 417
Query: 261 DREKGYMQSKESADIYCTVEPQLAFHQRIAFCLDLHNQ 298
+ K++ I E ++RI H+
Sbjct: 418 FPQLQLCVVKKTTMIQ---EIVPPVNERITKMFPAHSH 452
>3t5x_A PCI domain-containing protein 2; PCI, mRNA nuclear export,
transcription; 2.12A {Homo sapiens}
Length = 203
Score = 155 bits (394), Expect = 2e-46
Identities = 31/192 (16%), Positives = 76/192 (39%), Gaps = 12/192 (6%)
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--SRITPTKIAEKLGLESPED-----AEFIIAKAIRDGV 255
++ +L+ + + + +++ L ED + I+A I G
Sbjct: 117 ILEKLKIITYRNLFKKVYLLLKTHQLSLDAFLVALKFMQVEDVDIDEVQCILANLIYMGH 176
Query: 256 IEATLDREKGYM 267
++ + + +
Sbjct: 177 VKGYISHQHQKL 188
>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 = 66.4 bits (161), Expect = 2e-12
Identities = 36/226 (15%), Positives = 71/226 (31%), Gaps = 12/226 (5%)
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 FQLTQAVRMGELQKFNEVLTTYGNQFRTDYTFKL-ILRLRHNVIKTAIRSIGASYSRITP 228
+ +A L F L Y + D + + L +++ + I YSR+
Sbjct: 260 KSVAEASHKRSLADFQAALKEYKKELAEDVIVQAHLGTLYDTMLEQNLCRIIEPYSRVQV 319
Query: 229 TKIAEKLGLESPEDAEFIIAKAIRDGVIEATLDREKGYMQSKESAD 274
+AE + L E +++ I D LD+ +G + E
Sbjct: 320 AHVAESIQLP-MPQVEKKLSQMILDKKFSGILDQGEGVLIVFEETP 364
>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 = 48.6 bits (116), Expect = 7e-08
Identities = 16/70 (22%), Positives = 34/70 (48%), Gaps = 3/70 (4%)
Query: 207 LRHNVIKTAIRSIGASYSRITPTKIAEKLGLESPEDAEFIIAKAIRDGVIEATLDREKG- 265
L VI+ + S Y+ IT ++ L + AE I ++ I +G + +D+ G
Sbjct: 12 LDRAVIEHNLLSASKLYNNITFEELGALLEI-PAAKAEKIASQMITEGRMNGFIDQIDGI 70
Query: 266 -YMQSKESAD 274
+ +++E++
Sbjct: 71 VHFETREASG 80
>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 = 46.6 bits (110), Expect = 1e-05
Identities = 63/370 (17%), Positives = 105/370 (28%), Gaps = 125/370 (33%)
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 RMGELQKFNEVLTTYGNQF---------RTDYTFKLILRLRHNVIKTAIR---SIGA--- 221
GEL+ + + T + + +F ++ AI IG
Sbjct: 259 TPGELRSYLKGATGHSQGLVTAVAIAETDSWESF-------FVSVRKAITVLFFIGVRCY 311
Query: 222 -SYSR--ITPTKIAEKL----GLESPEDAEFIIAKAIRDGVIEATLDREKGYMQSKESAD 274
+Y + P+ + + L G+ SP +I + L +E Q ++ +
Sbjct: 312 EAYPNTSLPPSILEDSLENNEGVPSP-------MLSISN------LTQE----QVQDYVN 354
Query: 275 IYCTVEPQLAFHQRIAFCLDLHN---QSVKAMRYPPKS-YGKDLESAEERREREQQDLEL 330
+ P I+ L N V + PP+S YG L +L L
Sbjct: 355 KTNSHLPA-GKQVEIS----LVNGAKNLVVSG--PPQSLYG--L------------NLTL 393
Query: 331 AKEMAEEDDD 340
K A D
Sbjct: 394 RKAKAPSGLD 403
Score = 44.3 bits (104), Expect = 5e-05
Identities = 40/251 (15%), Positives = 78/251 (31%), Gaps = 92/251 (36%)
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-------LEGN- 99
Query: 212 IKTAIRSIGASYSRITPTKIAEKLGL----------------ESPEDAEFIIAKAIRDGV 255
I ++ A + T + + L + A F +A+ +G
Sbjct: 100 ---DIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALF---RAVGEG- 152
Query: 256 IEATL--------DREKGYMQSKESADIYCTVEPQLA-FHQRIAFCL-DLHNQSVKAMRY 305
A L + + Y +E D+Y T + + A L +L ++ A +
Sbjct: 153 -NAQLVAIFGGQGNTDD-YF--EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKV 208
Query: 306 PPKSYGKDLES 316
+ G ++
Sbjct: 209 FTQ--GLNILE 217
Score = 36.2 bits (83), Expect = 0.016
Identities = 56/303 (18%), Positives = 89/303 (29%), Gaps = 106/303 (34%)
Query: 16 AAKCYFYH-SRVHELTNNLDKVRSFLNARLRIATLRNDFEGQA---VLINCLLRNYLHYN 71
A F+ R +E N L + +L N+ EG + I+ L +
Sbjct: 299 AITVLFFIGVRCYEAYPNTS-----LPPSILEDSLENN-EGVPSPMLSISNLTQ------ 346
Query: 72 LYDQADKLVKK--SAFPENAS------NNEWARFHFYL-GRIKAVRLEYSTAHKNLVQAL 122
+Q V K S P N + + G ++ L L L
Sbjct: 347 --EQVQDYVNKTNSHLPAGKQVEISLVN---GAKNLVVSGPPQS--LY------GLNLTL 393
Query: 123 RKAPQTAAVGFRQTTQKLAVVVELLLGDIPDRQIFRQAVLR-RAL-------SPYFQLTQ 174
RKA A G Q+ IP + R+ R L S L
Sbjct: 394 RKA--KAPSGLDQSR-------------IPFSE--RKLKFSNRFLPVASPFHSHL--LVP 434
Query: 175 AVRM--GELQKFNE----------VLTTY-GNQFR------TDYTFKLILRLR---HNVI 212
A + +L K N V T+ G+ R ++ I+RL
Sbjct: 435 ASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTT 494
Query: 213 KTAIRSI-----GASYSRITP--TKIAEKLGLESPEDAEFIIAKAIRDGVIEATLDREKG 265
+ I G + S + + + G I+A G ++ D + G
Sbjct: 495 QFKATHILDFGPGGA-SGLGVLTHRNKDGTG------VRVIVA-----GTLDINPDDDYG 542
Query: 266 YMQ 268
+ Q
Sbjct: 543 FKQ 545
Score = 33.1 bits (75), Expect = 0.15
Identities = 22/120 (18%), Positives = 42/120 (35%), Gaps = 26/120 (21%)
Query: 171 QLTQAVRMG-EL----QKFNEVLTTYGNQFRTDYTFKLILRLRHNVIKTAI-------RS 218
Q +Q MG +L + +V N F+ Y F ++ + +N + I +
Sbjct: 1624 QGSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKR 1683
Query: 219 IGASYSRITPTKIAEKLGLESPEDAEFIIAKAIRDGVIEATLDREKGYMQSKESADIYCT 278
I +YS + E+ D + + + I + E + Y E + T
Sbjct: 1684 IRENYSAMI---------FETIVDGK-LKTEKIFKEINEHSTS----YTFRSEKGLLSAT 1729
Score = 30.4 bits (68), Expect = 1.0
Identities = 32/213 (15%), Positives = 71/213 (33%), Gaps = 69/213 (32%)
Query: 98 HFYLGRIKAVRLEYSTAHKNLVQAL--------RKAPQTAAVGFR-QTTQKL-----AVV 143
Y KA + ++ A + P + F + +++ A++
Sbjct: 1634 DLY-KTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMI 1692
Query: 144 VELLL-GDIPDRQIFRQAVLRRALSPY-FQLTQAVRMGELQKFNEVLTTYGNQFRTDYT- 200
E ++ G + +IF++ + + Y F+ E +L T +T
Sbjct: 1693 FETIVDGKLKTEKIFKE--INEHSTSYTFR-------SE----KGLL------SATQFTQ 1733
Query: 201 ----------FKLILRLRHNVIKTAIR---SIG-----ASYSRITPTKIAEKL----GL- 237
F+ L+ + + A S+G AS + + + ++ G+
Sbjct: 1734 PALTLMEKAAFED-LKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMT 1792
Query: 238 ---ESPED----AEFIIAKAIRDGVIEATLDRE 263
P D + + + AI G + A+ +E
Sbjct: 1793 MQVAVPRDELGRSNYGMI-AINPGRVAASFSQE 1824
>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 = 45.2 bits (106), Expect = 3e-05
Identities = 67/420 (15%), Positives = 127/420 (30%), Gaps = 159/420 (37%)
Query: 1 MSKITSENRRTSDLIAAKCYFYHSRVHELTNNLDKVRSFLNARLR-IATLRNDFE----- 54
MS I +E R+ S + Y + L N+ + +RL+ LR
Sbjct: 95 MSPIKTEQRQPSMMTRM----YIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPA 150
Query: 55 -----------GQAVLINCLLRNY---------LHY-----------------NLYDQAD 77
G+ + + +Y + + L Q D
Sbjct: 151 KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQID 210
Query: 78 KLVKKSAFPENASNNEWARFHFYLGRIKAVRLEYSTAHKN--LV---------------- 119
++ +++SN + R H ++ RL S ++N LV
Sbjct: 211 P--NWTSRSDHSSNIK-LRIHSIQAELR--RLLKSKPYENCLLVLLNVQNAKAWNAFNLS 265
Query: 120 -QAL---RKAPQTAAVGFRQTTQK-----------------LAVVVELLLGDIPDRQIFR 158
+ L R T + TT L ++ D+P R
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP-----R 320
Query: 159 QAVLRRALSPYFQLTQAVRM-GELQKFNEVLTTYGNQFRTDYTFKLILRLRHNVIKTAIR 217
+ + +P + + + E + + L T+ + ++ KL +I++++
Sbjct: 321 EVL---TTNP-----RRLSIIAESIR--DGLATW-DNWKHVNCDKL-----TTIIESSLN 364
Query: 218 SIGASYSR-------ITP--TKIAEKLGLE------SPEDAEFIIAKAIRDGVIEATLDR 262
+ + R + P I L L D ++ K + ++E
Sbjct: 365 VLEPAEYRKMFDRLSVFPPSAHIPTIL-LSLIWFDVIKSDVMVVVNKLHKYSLVEK---- 419
Query: 263 EKGYMQSKESA----DIY----CTVEPQLAFHQRIAFCLDLHNQSVKAMRY-PPKSYGKD 313
Q KES IY +E + A H+ I +D Y PK++ D
Sbjct: 420 -----QPKESTISIPSIYLELKVKLENEYALHRSI---VD---------HYNIPKTFDSD 462
Score = 28.7 bits (63), Expect = 4.1
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
>3chm_A COP9 signalosome complex subunit 7; heat/ARM repeats, winged helix
motif, developmental protein, phosphoprotein; 1.50A
{Arabidopsis thaliana}
Length = 169
Score = 35.3 bits (81), Expect = 0.012
Identities = 16/96 (16%), Positives = 32/96 (33%), Gaps = 10/96 (10%)
Query: 167 SPYFQLTQAVRMGELQKFNEVLTTYGNQFRTDYTFKLILRLRHNVIKTAIRSIGASYSRI 226
S Y L + G + T D KL + ++ S +
Sbjct: 60 SVYLDLLRLFAHGTWGDYKCNATRL-PHLSPDQILKLKQ--------LTVLTLAESNKVL 110
Query: 227 TPTKIAEKLGLESPEDAE-FIIAKAIRDGVIEATLD 261
+ +L + + + E F+I + + G++ LD
Sbjct: 111 PYDTLMVELDVSNVRELEDFLINECMYAGIVRGKLD 146
>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 = 32.6 bits (74), Expect = 0.17
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
>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 = 32.3 bits (73), Expect = 0.19
Identities = 28/190 (14%), Positives = 57/190 (30%), Gaps = 16/190 (8%)
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-AVVVELLLGDIPDRQIFRQAVLRRALSPYF----------QLTQAVRMGEL 181
+ L + +L D Q + P F L AV G+
Sbjct: 196 WSLKDYFLKKGLCQLAATDAVAAARTLQEGQ--SEDPNFADSRESNFLKSLIDAVNEGDS 253
Query: 182 QKFNEVLTTY 191
++ +E +
Sbjct: 254 EQLSEHCKEF 263
>3t5v_A Nuclear mRNA export protein SAC3; PCI, mRNA nuclear export, mRNA,
nuclear, transcription; 2.90A {Saccharomyces cerevisiae}
Length = 316
Score = 32.1 bits (72), Expect = 0.23
Identities = 8/89 (8%), Positives = 31/89 (34%), Gaps = 1/89 (1%)
Query: 157 FRQAVLRRALSPYFQLTQAVRMGELQKFNEVLTTYGNQFRTDYTFKLIL-RLRHNVIKTA 215
FR+ + A + + + +F +++ + + ++ L +R ++
Sbjct: 155 FRRVISNSAYTERGFVKTENCLNFYARFFQLMQSPSLPLLMGFFLQMHLTDIRFYALRAL 214
Query: 216 IRSIGASYSRITPTKIAEKLGLESPEDAE 244
++ + I + L + ++
Sbjct: 215 SHTLNKKHKPIPFIYLENMLLFNNRQEII 243
>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 = 31.1 bits (69), Expect = 0.27
Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 20/49 (40%)
Query: 213 KTAIRSIGASYSRITPTKIAEKLGLESPEDAEFIIAKAIRDGVIEATLD 261
K A++ K+ L L + + A A AI+ AT++
Sbjct: 19 KQALK------------KLQASLKLYADDSAP---ALAIK-----ATME 47
Score = 27.2 bits (59), Expect = 5.2
Identities = 7/20 (35%), Positives = 11/20 (55%), Gaps = 2/20 (10%)
Query: 298 QSVKAMRYPPKSYGKDLESA 317
Q++K ++ K Y D SA
Sbjct: 20 QALKKLQASLKLYADD--SA 37
>3my7_A Alcohol dehydrogenase/acetaldehyde dehydrogenase; ACDH, PSI, MCSG,
structural genomics, midwest center for STR genomics;
2.30A {Vibrio parahaemolyticus}
Length = 452
Score = 31.9 bits (73), Expect = 0.29
Identities = 10/37 (27%), Positives = 17/37 (45%)
Query: 228 PTKIAEKLGLESPEDAEFIIAKAIRDGVIEATLDREK 264
T IAE G++ P D + +I + + + EK
Sbjct: 301 ATAIAEMAGVKVPADTKVLIGEGLGKVSYDDAFAHEK 337
>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 = 31.3 bits (71), Expect = 0.44
Identities = 15/129 (11%), Positives = 32/129 (24%), Gaps = 3/129 (2%)
Query: 3 KITSENRRTSDLIAAKCYFYHSRVHELTNNLDKVRSFLNARLRIATLRNDFEGQAVLINC 62
+I + R + L+ F+ F D +A
Sbjct: 89 EIDKKQARLTGLLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFK 148
Query: 63 LLRNYLHYNLYDQADKLVKKS---AFPENASNNEWARFHFYLGRIKAVRLEYSTAHKNLV 119
+ +Y + + +++ A N + H +Y A +
Sbjct: 149 MSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQ 208
Query: 120 QALRKAPQT 128
+A A
Sbjct: 209 KAYSMAEAE 217
Score = 28.6 bits (64), Expect = 2.7
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 = 27.9 bits (62), Expect = 4.8
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
>1r3d_A Conserved hypothetical protein VC1974; structural genomics,
hydrolase, NYSGXRC, NEW YORK SGX research center for
structural genomics, PSI; 1.90A {Vibrio cholerae} SCOP:
c.69.1.35
Length = 264
Score = 29.6 bits (67), Expect = 1.3
Identities = 8/37 (21%), Positives = 17/37 (45%), Gaps = 2/37 (5%)
Query: 307 PKSYGKDLESAEERREREQQDLELAKEMAEEDDDGFP 343
+G L+ EE+ R Q D + A+ +++ +
Sbjct: 119 GGHFG--LQENEEKAARWQHDQQWAQRFSQQPIEHVL 153
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.2 bits (62), Expect = 2.6
Identities = 7/23 (30%), Positives = 10/23 (43%)
Query: 315 ESAEERREREQQDLELAKEMAEE 337
E R+ RE+Q L + A
Sbjct: 83 EPESIRKWREEQRKRLQELDAAS 105
Score = 28.2 bits (62), Expect = 3.4
Identities = 4/25 (16%), Positives = 12/25 (48%)
Query: 318 EERREREQQDLELAKEMAEEDDDGF 342
+E + + +E A++D + +
Sbjct: 99 QELDAASKVMEQEWREKAKKDLEEW 123
>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold,
ligase; 2.80A {Shigella flexneri 2A}
Length = 571
Score = 28.8 bits (64), Expect = 3.1
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 4/53 (7%)
Query: 279 VEPQLAFHQRIAFCLDLHNQSVKAMRYPPKSY--GKDLESAEER-REREQQDL 328
+E LAF +A L L K MR+ S DL +AE R RE+ +
Sbjct: 425 IEVYLAFQTMLAEKLQLSTAV-KEMRFYGVSGVTANDLRTAEAMVRSREENEF 476
>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 = 27.9 bits (61), Expect = 3.1
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
>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus
thuringiensis serovar ISRAELE35646}
Length = 293
Score = 28.6 bits (63), Expect = 3.4
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
>3k9d_A LMO1179 protein, aldehyde dehydrogenase; structural genomics,
PSI-2, protein initiative; 2.00A {Listeria
monocytogenes}
Length = 464
Score = 28.5 bits (64), Expect = 3.5
Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 1/47 (2%)
Query: 218 SIGASYSRITPTKIAEKLGLESPEDAEFIIAKAIRDGVIEATLDREK 264
S+ + + IA GL P DA +IA+ + G + REK
Sbjct: 297 SMNPAIVGKSVQHIANLAGLTVPADARVLIAEETKVG-AKIPYSREK 342
>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 = 4.1
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
>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat,
asymmetric homodimer, glycoprotein, immune system; HET:
NAG FUC; 26.00A {Homo sapiens}
Length = 844
Score = 27.8 bits (62), Expect = 7.1
Identities = 6/81 (7%), Positives = 20/81 (24%), Gaps = 29/81 (35%)
Query: 87 ENASNNEWARFHFYLGRIKAVRLEYSTAHKNLVQALRKAPQTAAVGFRQTTQKLAVVVEL 146
+ + W F A + + ++ +
Sbjct: 738 RHFLRDGWCLEAFSY------------AQGRCLS-----------------DLNSALIMV 768
Query: 147 LLGDIPDRQIFRQAVLRRALS 167
++G + Q+ + +R +
Sbjct: 769 VVGSLSQYQLMKHQSIRGFVQ 789
>2hrz_A AGR_C_4963P, nucleoside-diphosphate-sugar epimerase; agrobacterium
tumefa structural genomics, PSI-2, protein structure
initiative; 1.85A {Agrobacterium tumefaciens}
Length = 342
Score = 27.4 bits (61), Expect = 7.7
Identities = 10/39 (25%), Positives = 15/39 (38%)
Query: 215 AIRSIGASYSRITPTKIAEKLGLESPEDAEFIIAKAIRD 253
I + ++ K A +LG + E II I D
Sbjct: 297 MIMRMCEGWAPGFEAKRARELGFTAESSFEEIIQVHIED 335
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
0.321 0.134 0.380
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: 5,215,932
Number of extensions: 318478
Number of successful extensions: 945
Number of sequences better than 10.0: 1
Number of HSP's gapped: 930
Number of HSP's successfully gapped: 52
Length of query: 343
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 249
Effective length of database: 4,077,219
Effective search space: 1015227531
Effective search space used: 1015227531
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: 58 (26.3 bits)