RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13058
(238 letters)
>2x19_B Importin-13; nuclear transport, protein transport; HET: GTP; 2.80A
{Homo sapiens} PDB: 2xwu_B
Length = 963
Score = 114 bits (286), Expect = 2e-29
Identities = 67/226 (29%), Positives = 102/226 (45%), Gaps = 25/226 (11%)
Query: 4 QPSLDTVYAVVHTLYLNPNKTEKEKASQWLHQLQKSIYAWKIADEMLRHIYAWKIADEML 63
+++ V +H LY +PN K A +WL Q Q S AW + ++L
Sbjct: 20 DFTVENVEKALHQLYYDPNIENKNLAQKWLMQAQVSPQAWHFSWQLL------------- 66
Query: 64 LHQNELGLEAVYFSAQTMRQKVQNAFFELPSESHVSLRDSLIEHLCRTNDTSGKNIITQL 123
Q + E YF A + K+ + ++P++ + SL+ L + R S K ++T+L
Sbjct: 67 --QPDKVPEIQYFGASALHIKISRYWSDIPTDQYESLKAQLFTQITRFASGS-KIVLTRL 123
Query: 124 ALALADLALQM--SAWEKPVVYIIEKLSHKGS-------ILALLEVLTVLPEEVNVLKLG 174
+ALA LAL M AW V ++ + S LALLE+LTVLPEE +L
Sbjct: 124 CVALASLALSMMPDAWPCAVADMVRLFQAEDSPVDGQGRCLALLELLTVLPEEFQTSRLP 183
Query: 175 KNRREEFEEELKAAGPIVIEFLKTCQANCGDNVSLQTKVLKCFTSW 220
+ R+ L V L+ ++ KVLKCF+SW
Sbjct: 184 QYRKGLVRTSLAVECGAVFPLLEQLLQQPSSPSCVRQKVLKCFSSW 229
>3m1i_C Exportin-1; heat repeat, GTP-binding, nucleotide-binding, NUCL
protein transport, transport, cytoplasm, GTPase
activation; HET: GTP; 2.00A {Saccharomyces cerevisiae}
PDB: 2l1l_B
Length = 1049
Score = 96.9 bits (240), Expect = 4e-23
Identities = 34/238 (14%), Positives = 85/238 (35%), Gaps = 30/238 (12%)
Query: 2 ESQP-SLDTVYAVVHTLYLNPNKTEKEKASQWLHQLQKSIYAWKIADEMLRHIYAWKIAD 60
S + + VV T Y + ++++A + L + Q + AW+ AD++L
Sbjct: 9 FSNDLDIALLDQVVSTFY-QGSGVQQKQAQEILTKFQDNPDAWQKADQIL---------- 57
Query: 61 EMLLHQNELGLEAVYFSAQTMRQKVQNAFFELPSESHVSLRDSLIEHLCR-----TNDTS 115
Q ++ + + + + + + LP++ + +R+ ++ + +
Sbjct: 58 -----QFSTNPQSKFIALSILDKLITRKWKLLPNDHRIGIRNFVVGMIISMCQDDEVFKT 112
Query: 116 GKNIITQLALALADLALQM--SAWEKPVVYIIEKLSHKGS-ILALLEVLTVLPEEVNVL- 171
KN+I + L L + Q W + + +I S + + VL +L EEV
Sbjct: 113 QKNLINKSDLTLVQILKQEWPQNWPEFIPELIGSSSSSVNVCENNMIVLKLLSEEVFDFS 172
Query: 172 --KLGKNRREEFEEELKAAGPIVIEFLKTCQANCGDNVSLQT--KVLKCFTSWSSGSL 225
++ + + + + + + + + + L + W
Sbjct: 173 AEQMTQAKALHLKNSMSKEFEQIFKLCFQVLEQGSSSSLIVATLESLLRYLHWIPYRY 230
>2x1g_F Cadmus; transport protein, developmental protein, mRNA processing,
nuclear transport, mRNA splicing, mRNA transport; 3.35A
{Drosophila melanogaster}
Length = 971
Score = 95.5 bits (236), Expect = 9e-23
Identities = 47/236 (19%), Positives = 91/236 (38%), Gaps = 32/236 (13%)
Query: 1 MESQPSLDTVYAVVHTLYLNPNKTEKEKASQWLHQLQKSIYAWKIADEMLRHIYAWKIAD 60
ME + + V + Y N + +WL + S AW+ + +++
Sbjct: 1 MEP-IDIARLEEAVVSFY-RSNSQNQAITHEWLTDAEASPQAWQFSWQLM---------- 48
Query: 61 EMLLHQNELGLEAVYFSAQTMRQKVQNAFFELPSESHVSLRDSLIEHLCRTNDTSGKNII 120
Q E +F A T+ K+ + E+P E+ L+ ++E + R K ++
Sbjct: 49 -----QLGKSQEVQFFGAITLHSKLMKHWHEVPPENREELKQKILESIVRFAGGP-KIVL 102
Query: 121 TQLALALADLALQMSA-WEKPVVYIIEKLSHKGS--------ILALLEVLTVLPEEVNVL 171
+L ++L + M W + +I ++ + +LEVLT +PEE V+
Sbjct: 103 NRLCISLGAYIVHMLGEWPGAIEEVINTFQNQRMPNVSADVQLWIMLEVLTAIPEEAQVI 162
Query: 172 KLGKNR---REEFEEELKAAGPIVIEFLKTC--QANCGDNVSLQTKVLKCFTSWSS 222
R R E + ++ V +LK + + S + +KC +W
Sbjct: 163 HTSVKRVVLRAEIAKRVQLVIHTVERYLKLQMNRVWDAEAYSNMNRAVKCVGTWIK 218
>3ibv_A Exportin-T; karyopherin, heat repeat, cytoplasm, nucleus, RNA-
binding, transport, tRNA processing, tRNA-binding, RNA
binding protein; 3.10A {Schizosaccharomyces pombe} PDB:
3icq_T*
Length = 980
Score = 94.6 bits (234), Expect = 2e-22
Identities = 42/236 (17%), Positives = 77/236 (32%), Gaps = 30/236 (12%)
Query: 1 MESQPSLDTVYAVVHTLYLNPNKTEKEKASQWLHQLQKSIYAWKIADEMLRHIYAWKIAD 60
M +Q D AV L + K++A+ ++ L+ S WKI E+
Sbjct: 3 MSAQ---DVENAVEAALDPSVGPIIKQQATDFIGSLRSSSTGWKICHEIF---------- 49
Query: 61 EMLLHQNELGLEAVYFSAQTMRQKVQNAFFELPSESHVSLRDSLIEHLCRTNDTSGKNII 120
+ + QT+ +KV+ E +RDS+ ++ + I
Sbjct: 50 ---SEKTKYKPSTRLICLQTLSEKVREWNNESNLLELQMIRDSVWSYIKELSFLDEPAYI 106
Query: 121 ---TQLALALADLALQMSAWEKPVVYIIEKLSHKGS---ILALLEVLTVLPEEVNVLKLG 174
Q L L L L S W + ++ L+VL + +E+ +
Sbjct: 107 SNAVQHLLTLLFLQLYPSNWNDFFASLQGVIAASSQSEFSNFYLKVLLSIGDEIADSLVL 166
Query: 175 KNRREEFE-EELKAA-----GPIVIEFLKTCQANC--GDNVSLQTKVLKCFTSWSS 222
K + + +K A ++ F+ N L+ + W S
Sbjct: 167 KTDVQIQKDNLVKDAIRANDMSDIVSFVYEMMLAYSNAKNYGTVGLCLQVYAQWVS 222
>3gjx_A Exportin-1; transport, cytoplasm, nucleus, RNA-binding,
acetylation, GTP-binding, HOST-virus interaction,
nucleotide-binding, phosphoprotein; HET: GTP; 2.50A {Mus
musculus} PDB: 3nby_A* 3nbz_A* 3nc0_A* 3nc1_A* 3gb8_A
Length = 1073
Score = 93.4 bits (231), Expect = 5e-22
Identities = 34/233 (14%), Positives = 82/233 (35%), Gaps = 29/233 (12%)
Query: 2 ESQP-SLDTVYAVVHTLYLNPNKTEKEKASQWLHQLQKSIYAWKIADEMLRHIYAWKIAD 60
SQ ++ + VV+ LY + ++ A + L L++ AW D +L
Sbjct: 21 FSQKLDINLLDNVVNCLY-HGEGAQQRMAQEVLTHLKEHPDAWTRVDTIL---------- 69
Query: 61 EMLLHQNELGLEAVYFSAQTMRQKVQNAFFELPSESHVSLRDSLIEHLCRTNDTSG---- 116
+ + Y+ Q + ++ + LP ++ ++ + +T+
Sbjct: 70 -----EFSQNMNTKYYGLQILENVIKTRWKILPRNQCEGIKKYVVGLIIKTSSDPTCVEK 124
Query: 117 -KNIITQLALALADLALQM--SAWEKPVVYIIEKLSHKGSILAL-LEVLTVLPEEVNVL- 171
K I +L + L + Q W + I+ S+ + +L +L EEV
Sbjct: 125 EKVYIGKLNMILVQILKQEWPKHWPTFISDIVGASRTSESLCQNNMVILKLLSEEVFDFS 184
Query: 172 --KLGKNRREEFEEELKAAGPIVIEFLKTCQANCGDNVSLQTKVLKCFTSWSS 222
++ + + + ++ + + + + N L L+ + +
Sbjct: 185 SGQITQVKAKHLKDSMCNEFSQIFQLCQFV-MENSQNAPLVHATLETLLRFLN 236
>3a6p_A Exportin-5; exportin-5, RANGTP, nuclearexport, importin-BE family,
nucleus, phosphoprotein, protein transport; HET: GTP;
2.92A {Homo sapiens}
Length = 1204
Score = 72.4 bits (176), Expect = 8e-15
Identities = 30/244 (12%), Positives = 80/244 (32%), Gaps = 23/244 (9%)
Query: 2 ESQPSLDTVYAVVHTLY-LNPNKTEKEKASQWLHQLQKSIYAWKIADEMLRHIYAWKIAD 60
+ + + V + N + + +A ++ + ++
Sbjct: 5 QVNALCEQLVKAVTVMMDPNSTQRYRLEALKFCEEFKEKCPICVPCGL------------ 52
Query: 61 EMLLHQNELGLEAVYFSAQTMRQKVQNAFFELPSESHVSLRDSLIEHLCR---TNDTSGK 117
L + +F Q + V+ + + V L++S++E +
Sbjct: 53 --RLAEKTQVAIVRHFGLQILEHVVKFRWNGMSRLEKVYLKNSVMELIANGTLNILEEEN 110
Query: 118 NIITQLALALADLALQM--SAWEKPVVYIIEKLSHKGSILAL-LEVLTVLPEEV-NVLKL 173
+I L+ + ++ + W ++ + + L + +L L E+V L
Sbjct: 111 HIKDALSRIVVEMIKREWPQHWPDMLIELDTLSKQGETQTELVMFILLRLAEDVVTFQTL 170
Query: 174 GKNRREEFEEELKAAGPIVIEFLKTC-QANCGDNVSLQTKVLKCFTSWSSGSLHDAATDC 232
RR + ++ L + FL Q N ++T + + ++ + AA +
Sbjct: 171 PPQRRRDIQQTLTQNMERIFSFLLNTLQENVNKYQQVKTDTSQESKAQANCRVGVAALNT 230
Query: 233 VSAL 236
++
Sbjct: 231 LAGY 234
>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 = 57.4 bits (138), Expect = 1e-09
Identities = 50/267 (18%), Positives = 82/267 (30%), Gaps = 98/267 (36%)
Query: 37 QKSIYA---WKIADEMLRHIYAWKIADEMLLHQNELGLEAVYFSA---QTMRQKVQNAFF 90
+ S A W AD + Y + I D ++ N + L ++F + +R+ F
Sbjct: 1637 KTSKAAQDVWNRADNHFKDTYGFSILD--IVINNPVNL-TIHFGGEKGKRIRENYSAMIF 1693
Query: 91 ELPSESHVSLR---DSLIEHLCRT---------NDTSGKNIITQLALALADLALQMSAWE 138
E + + + EH + T TQ AL L + A
Sbjct: 1694 ETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQ----FTQPALTLMEKA------- 1742
Query: 139 KPVVYIIEKLSHKGSI----------L----ALLEVLTVLPEEVNVLKLGKNR------- 177
E L KG I L AL + V+ E +++++ R
Sbjct: 1743 -----AFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIE-SLVEVVFYRGMTMQVA 1796
Query: 178 --REE-------------------FEEELKAAGPIVIEFLKT----CQ-ANCGDNVSLQT 211
R+E F +E A +V K + N NV Q
Sbjct: 1797 VPRDELGRSNYGMIAINPGRVAASFSQE--ALQYVVERVGKRTGWLVEIVN--YNVENQQ 1852
Query: 212 KVLKCFTSWSSGSLH--DAATDCVSAL 236
V +G L D T+ ++ +
Sbjct: 1853 YVA-------AGDLRALDTVTNVLNFI 1872
Score = 30.8 bits (69), Expect = 0.42
Identities = 27/202 (13%), Positives = 60/202 (29%), Gaps = 73/202 (36%)
Query: 2 ESQPSLDTVYAVVHTLY----LNPNKTEKEKASQWLHQLQK---SIYA-----------W 43
E+ +L ++ + +K+ S + + + A +
Sbjct: 111 ENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYF 170
Query: 44 KIADEMLRHIYA---------WKIADEML--LHQNELGLEAVYFSAQTMRQKVQNAFFEL 92
+E LR +Y K + E L L + L E V+ + + ++N
Sbjct: 171 ---EE-LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPS-NT 225
Query: 93 PSESH-----VSLRDSLIE-----H---LCRTNDTS--------------GKNIITQLAL 125
P + + +S LI H + + + ++T +A+
Sbjct: 226 PDKDYLLSIPISC--PLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAI 283
Query: 126 ALAD----------LALQMSAW 137
A D A+ + +
Sbjct: 284 AETDSWESFFVSVRKAITVLFF 305
Score = 30.8 bits (69), Expect = 0.52
Identities = 18/77 (23%), Positives = 28/77 (36%), Gaps = 27/77 (35%)
Query: 62 ML----LHQNELGLEAVYFSAQTMRQKVQNAFFELPSESHVSLRDSLIEHLCRTNDTSGK 117
ML L Q ++ Q K N+ LP+ V + SL+ N K
Sbjct: 338 MLSISNLTQEQV---------QDYVNKT-NS--HLPAGKQVEI--SLV------N--GAK 375
Query: 118 N-IITQLALALADLALQ 133
N +++ +L L L
Sbjct: 376 NLVVSGPPQSLYGLNLT 392
Score = 30.4 bits (68), Expect = 0.65
Identities = 31/200 (15%), Positives = 58/200 (29%), Gaps = 89/200 (44%)
Query: 3 SQ--PSLDTVYAVV----HTLYLNPNKTEKEKASQWLHQLQKSIYAWKIADEMLRHIYAW 56
S+ + V H+ L P AS I +++++ ++
Sbjct: 410 SERKLKFSNRFLPVASPFHSHLLVP-------ASD------------LINKDLVKNNVSF 450
Query: 57 KIADEMLLHQNELGLEAVY--FSAQTMRQKVQNAFFELPSESHVSLRDSLIEHLCRTNDT 114
+ ++ + VY F +R L S+ E +
Sbjct: 451 --------NAKDIQI-PVYDTFDGSDLR----------------VLSGSISERIVDC--- 482
Query: 115 SGKNIITQLALALADLALQMSAWEKPVVYIIEKLSHKGSILAL-------LEVLTVLPEE 167
I +L + WE + K +H IL L VLT ++
Sbjct: 483 -----IIRLPV---K-------WETTTQF---KATH---ILDFGPGGASGLGVLTHRNKD 521
Query: 168 ---VNVL---KLGKNRREEF 181
V V+ L N +++
Sbjct: 522 GTGVRVIVAGTLDINPDDDY 541
>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 = 47.5 bits (112), Expect = 2e-06
Identities = 42/233 (18%), Positives = 78/233 (33%), Gaps = 46/233 (19%)
Query: 12 AVVHTLYLNPNKTEKEKASQW-LHQLQKSIYAWKIADEMLRHIYAWKIADEMLLHQNELG 70
+ + ++ + W L Q+ + K +E+LR Y + + + Q +
Sbjct: 49 EEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQ-KFVEEVLRINYKF-LMSPIKTEQRQPS 106
Query: 71 LEAVYFSAQTMRQKVQNAFFELPSESHVS---LRDSLIEHLCRTNDT----------SGK 117
+ + Q R ++ N ++ ++ +VS L + L SGK
Sbjct: 107 MMTRMYIEQ--RDRLYND-NQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK 163
Query: 118 NIITQLAL-ALADLALQMSAWEKPVVYIIEKLSHKGSILALLEVLTVL-----PEEVNVL 171
T +AL +Q + + ++ L + S +LE+L L P +
Sbjct: 164 ---TWVALDVCLSYKVQ-CKMDFKIFWL--NLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217
Query: 172 KLGKN---RREEFEEELKAAGPIVIEFLKTCQ-ANC---GDNVSLQTKVLKCF 217
N R + EL+ LK+ NC NV K F
Sbjct: 218 DHSSNIKLRIHSIQAELR-------RLLKSKPYENCLLVLLNVQ-NAKAWNAF 262
Score = 42.1 bits (98), Expect = 1e-04
Identities = 55/281 (19%), Positives = 93/281 (33%), Gaps = 75/281 (26%)
Query: 6 SLDTVYAVVHTLY--LNPNKTEKEKASQWLHQLQKSIYAWKIADEMLRHIYAWKIADEML 63
S +TV ++ L ++PN T + S + SI A LR + K + L
Sbjct: 194 SPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE------LRRLLKSKPYENCL 247
Query: 64 LH----QNELGLEAVYFSAQTM---RQKVQNAFFELPSESHVSLRDS------------L 104
L QN A S + + R K F + +H+SL L
Sbjct: 248 LVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL 307
Query: 105 IEHL-CRTND--TSGKNI----ITQLALALADLALQMSAWEKPVVYIIEKLSH--KGSIL 155
+++L CR D ++ +A ++ D W+ +KL+ + S+
Sbjct: 308 LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKH---VNCDKLTTIIESSLN 364
Query: 156 AL--------LEVLTVLPEEVN----VLKLGKNRREEFEEELKAAGPIVIEFLKTCQANC 203
L + L+V P + +L L + + + +V + K
Sbjct: 365 VLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV-----VVNKLHKY----- 414
Query: 204 GDNVSLQTKVLKCFTSWSSGSLHD------AATDCVSALHR 238
SL K K T S+ + ALHR
Sbjct: 415 ----SLVEKQPKESTI----SIPSIYLELKVKLENEYALHR 447
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 32.2 bits (73), Expect = 0.18
Identities = 18/125 (14%), Positives = 29/125 (23%), Gaps = 34/125 (27%)
Query: 121 TQLALALADLALQMSAWEKPVVYIIEKLSHK-------GSILALLEVLTVLPEEVNVLKL 173
T L A S P Y + K H GS + + L
Sbjct: 1013 TLFVLVSVVEAFIASGITDP--YEMYKYVHVSEVGNCSGSGMGGVSALR---GMFKDRFK 1067
Query: 174 GKNRREEFEEELKAAGPIVIEFLKTCQANCGD-NVSLQTKVLKCFTSWSSGSLHDAATDC 232
+ + I+ E + L SSG + C
Sbjct: 1068 DEPVQN----------DILQE---SFINTMSAWVNMLLIS--------SSGPIKTPVGAC 1106
Query: 233 VSALH 237
+++
Sbjct: 1107 ATSVE 1111
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 29.6 bits (66), Expect = 1.0
Identities = 19/129 (14%), Positives = 37/129 (28%), Gaps = 26/129 (20%)
Query: 48 EMLRH------IYAWKIADE---MLLHQNELGLEAVYFSAQTMRQKVQNAFFELPSESHV 98
L + + E M+ +R+ V F+E
Sbjct: 323 VALSKYGIDVPVMNLGLGVERLAMISGN-----------FADVREMVYPQFYE------H 365
Query: 99 SLRDSLIEHLCRTNDTSGKNIITQLALALADLALQMSAWEKPVVYIIEKLSHKGSILALL 158
L D + + + + + I L L + ++ + P IEK G +
Sbjct: 366 KLNDRNVASMVKLDKVPVMDEIYDLTKELIESCVKNKDLKSPCELAIEKTFSFGKTKKNV 425
Query: 159 EVLTVLPEE 167
++ EE
Sbjct: 426 KINIFEKEE 434
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 685
Score = 29.2 bits (65), Expect = 1.5
Identities = 19/129 (14%), Positives = 37/129 (28%), Gaps = 26/129 (20%)
Query: 48 EMLRH------IYAWKIADE---MLLHQNELGLEAVYFSAQTMRQKVQNAFFELPSESHV 98
L + + E M+ +R+ V F+E
Sbjct: 323 VALSKYGIDVPVMNLGLGVERLAMISGN-----------FADVREMVYPQFYE------H 365
Query: 99 SLRDSLIEHLCRTNDTSGKNIITQLALALADLALQMSAWEKPVVYIIEKLSHKGSILALL 158
L D + + + + + I L L + ++ + P IEK G +
Sbjct: 366 KLNDRNVASMVKLDKVPVMDEIYDLTKELIESCVKNKDLKSPCELAIEKTFSFGKTKKNV 425
Query: 159 EVLTVLPEE 167
++ EE
Sbjct: 426 KINIFEKEE 434
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 1.5
Identities = 8/48 (16%), Positives = 22/48 (45%), Gaps = 2/48 (4%)
Query: 23 KTEKEKASQWLHQLQKSIYAW--KIADEMLRHIYAWKIADEMLLHQNE 68
K +W + +K + W + ++++ ++ +IAD+ Q +
Sbjct: 103 AASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPD 150
>4edp_A ABC transporter, substrate-binding protein; clostridium PERF ATCC
13124, center for structural genomics of infectious DI
csgid; 1.85A {Clostridium perfringens}
Length = 351
Score = 28.1 bits (63), Expect = 2.4
Identities = 10/93 (10%), Positives = 24/93 (25%), Gaps = 15/93 (16%)
Query: 6 SLDTVYAVVHTLYLNPNKTEKEKASQWLHQLQKSIYAWKI-ADEMLRHIYAWKIADEMLL 64
V ++ E A + L L+ ++ + ++ +
Sbjct: 178 GPAMVEIAAEKAGVDVKTDNGEAAFKELEALKPNVVKTYSKSSDLA-----------NMF 226
Query: 65 HQNELGLEAVYFS--AQTMRQKVQNAFFELPSE 95
E+ AV T+ + +P
Sbjct: 227 SNGEIVA-AVASDFAFGTISKAKPEVINVIPES 258
>2odr_A Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 665
Score = 28.0 bits (62), Expect = 2.9
Identities = 19/129 (14%), Positives = 37/129 (28%), Gaps = 26/129 (20%)
Query: 48 EMLRH------IYAWKIADE---MLLHQNELGLEAVYFSAQTMRQKVQNAFFELPSESHV 98
L + + E M+ +R+ V F+E
Sbjct: 323 VALSKYGIDVPVMNLGLGVERLAMISGN-----------FADVREMVYPQFYE------H 365
Query: 99 SLRDSLIEHLCRTNDTSGKNIITQLALALADLALQMSAWEKPVVYIIEKLSHKGSILALL 158
L D + + + + + I L L + ++ + P IEK G +
Sbjct: 366 KLNDRNVASMVKLDKVPVMDEIYDLTKELIESCVKNKDLKSPCELAIEKTFSFGKTKKNV 425
Query: 159 EVLTVLPEE 167
++ EE
Sbjct: 426 KINIFEKEE 434
>2odr_B Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 648
Score = 27.6 bits (61), Expect = 4.4
Identities = 19/129 (14%), Positives = 37/129 (28%), Gaps = 26/129 (20%)
Query: 48 EMLRH------IYAWKIADE---MLLHQNELGLEAVYFSAQTMRQKVQNAFFELPSESHV 98
L + + E M+ +R+ V F+E
Sbjct: 323 VALSKYGIDVPVMNLGLGVERLAMISGN-----------FADVREMVYPQFYE------H 365
Query: 99 SLRDSLIEHLCRTNDTSGKNIITQLALALADLALQMSAWEKPVVYIIEKLSHKGSILALL 158
L D + + + + + I L L + ++ + P IEK G +
Sbjct: 366 KLNDRNVASMVKLDKVPVMDEIYDLTKELIESCVKNKDLKSPCELAIEKTFSFGKTKKNV 425
Query: 159 EVLTVLPEE 167
++ EE
Sbjct: 426 KINIFEKEE 434
>3f0h_A Aminotransferase; RER070207000802, structural genomics, JOIN for
structural genomics, JCSG; HET: MSE LLP; 1.70A
{Eubacterium rectale}
Length = 376
Score = 27.2 bits (61), Expect = 4.6
Identities = 8/50 (16%), Positives = 14/50 (28%), Gaps = 6/50 (12%)
Query: 52 HIYAWKIADEMLLHQNELGLEAVYFSAQTMRQKVQNAF----FELPSESH 97
+ + + G +A + + FEL SES
Sbjct: 259 ILLQINERLKEIK--KHGGADAEVARIASQAADFRAKIKDLPFELVSESP 306
>2w2k_A D-mandelate dehydrogenase; 2-hydroxyacid dehydrogenase,
oxidoreductase; 1.85A {Rhodotorula graminis} PDB:
2w2l_A* 2w2l_D* 2w2k_B
Length = 348
Score = 26.9 bits (60), Expect = 7.0
Identities = 7/55 (12%), Positives = 20/55 (36%), Gaps = 8/55 (14%)
Query: 134 MSAWEKPVVYIIEKLSHKGSILALLEVLTVLPEEVNVLKLGKNRREEFEEELKAA 188
M +P V ++ L ++ + ++ V+ + F++ L+
Sbjct: 1 MP---RPRVLLLGDP-----ARHLDDLWSDFQQKFEVIPANLTTHDGFKQALREK 47
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
0.317 0.130 0.379
Gapped
Lambda K H
0.267 0.0688 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,518,184
Number of extensions: 199625
Number of successful extensions: 608
Number of sequences better than 10.0: 1
Number of HSP's gapped: 597
Number of HSP's successfully gapped: 26
Length of query: 238
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 147
Effective length of database: 4,160,982
Effective search space: 611664354
Effective search space used: 611664354
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.4 bits)