RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4089
(223 letters)
>1w9c_A CRM1 protein, exportin 1; nuclear protein, nuclear export complex;
2.3A {Homo sapiens} SCOP: a.118.1.19
Length = 321
Score = 249 bits (637), Expect = 3e-83
Identities = 135/196 (68%), Positives = 156/196 (79%), Gaps = 2/196 (1%)
Query: 1 MINKDFEEYPEHRTNFFLLLQAVNLHCFPAFLLIPQPQFKLVLDSIIWAFKHTMRNVADT 60
MINKDFEEYPEHRTNFFLLLQAVN HCFPAFL IP QFKLVLDSIIWAFKHTMRNVADT
Sbjct: 127 MINKDFEEYPEHRTNFFLLLQAVNSHCFPAFLAIPPTQFKLVLDSIIWAFKHTMRNVADT 186
Query: 61 GLMILHQLLVNVCHDAQSAAQSFYVTYFTEILTHVFSVVTDTSHSASLAHHAQILSYMFK 120
GL IL LL NV + ++AAQSFY TYF +IL H+FSVVTDTSH+A L HA IL+YMF
Sbjct: 187 GLQILFTLLQNVAQE-EAAAQSFYQTYFCDILQHIFSVVTDTSHTAGLTMHASILAYMFN 245
Query: 121 LVETREVAAPL-APGVTDNVVYVQEFVARTLKSAFPHLTENQIKVTVQGMFDFNNDLPAF 179
LVE +++ L +N +++QE+VA LKSAFPHL + Q+K+ V G+F N D+PAF
Sbjct: 246 LVEEGKISTSLNPGNPVNNQIFLQEYVANLLKSAFPHLQDAQVKLFVTGLFSLNQDIPAF 305
Query: 180 KEHLRDFLVQIREFTG 195
KEHLRDFLVQI+EF G
Sbjct: 306 KEHLRDFLVQIKEFAG 321
>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 = 247 bits (632), Expect = 2e-76
Identities = 153/223 (68%), Positives = 179/223 (80%), Gaps = 2/223 (0%)
Query: 1 MINKDFEEYPEHRTNFFLLLQAVNLHCFPAFLLIPQPQFKLVLDSIIWAFKHTMRNVADT 60
MINKDFEEYPEHRTNFFLLLQAVN HCFPAFL IP QFKLVLDSIIWAFKHTMRNVADT
Sbjct: 835 MINKDFEEYPEHRTNFFLLLQAVNSHCFPAFLAIPPAQFKLVLDSIIWAFKHTMRNVADT 894
Query: 61 GLMILHQLLVNVCHDAQSAAQSFYVTYFTEILTHVFSVVTDTSHSASLAHHAQILSYMFK 120
GL IL LL NV ++AAQSFY TYF +IL H+FSVVTDTSH+A L HA IL+YMF
Sbjct: 895 GLQILFTLLQNV-AQEEAAAQSFYQTYFCDILQHIFSVVTDTSHTAGLTMHASILAYMFN 953
Query: 121 LVETREVAAPLAPG-VTDNVVYVQEFVARTLKSAFPHLTENQIKVTVQGMFDFNNDLPAF 179
LVE +++ PL PG +N +++Q++VA LKSAFPHL + Q+K+ V G+F N D+PAF
Sbjct: 954 LVEEGKISTPLNPGNPVNNQMFIQDYVANLLKSAFPHLQDAQVKLFVTGLFSLNQDIPAF 1013
Query: 180 KEHLRDFLVQIREFTGEDDSDLFLDEIEQTLKQAQEKKRQTQL 222
KEHLRDFLVQI+EF GED SDLFL+E E L+QAQE+K + Q+
Sbjct: 1014 KEHLRDFLVQIKEFAGEDTSDLFLEERETALRQAQEEKHKLQM 1056
>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 = 237 bits (605), Expect = 9e-73
Identities = 87/228 (38%), Positives = 122/228 (53%), Gaps = 6/228 (2%)
Query: 1 MINKDFEEYPEHRTNFFLLLQAVNLHCFPAFLLIPQPQFKLVLDSIIWAFKHTMRNVADT 60
MINKDF EYPEHR F+ LL+ +N F AFL +P FKL +D+I WAFKH R+V
Sbjct: 809 MINKDFTEYPEHRVEFYKLLKVINEKSFAAFLELPPAAFKLFVDAICWAFKHNNRDVEVN 868
Query: 61 GLMILHQLLVNVC-HDAQSAAQSFYVTYFTEILTHVFSVVTDTSHSASLAHHAQILSYMF 119
GL I L+ N+ A F+ YF ++ F V+TD+ H + + A +L +
Sbjct: 869 GLQIALDLVKNIERMGNVPFANEFHKNYFFIFVSETFFVLTDSDHKSGFSKQALLLMKLI 928
Query: 120 KLVETREVAAPL-----APGVTDNVVYVQEFVARTLKSAFPHLTENQIKVTVQGMFDFNN 174
LV +++ PL P T N VY+ +++A L +AFPHLT QI + +
Sbjct: 929 SLVYDNKISVPLYQEAEVPQGTSNQVYLSQYLANMLSNAFPHLTSEQIASFLSALTKQYK 988
Query: 175 DLPAFKEHLRDFLVQIREFTGEDDSDLFLDEIEQTLKQAQEKKRQTQL 222
DL FK LRDFLVQI+E G+ LF ++ E L + +R+
Sbjct: 989 DLVVFKGTLRDFLVQIKEVGGDPTDYLFAEDKENALMEQNRLEREKAA 1036
>2x19_B Importin-13; nuclear transport, protein transport; HET: GTP; 2.80A
{Homo sapiens} PDB: 2xwu_B
Length = 963
Score = 109 bits (272), Expect = 1e-27
Identities = 28/205 (13%), Positives = 57/205 (27%), Gaps = 22/205 (10%)
Query: 1 MINKDFEEYPEHRTNFFLLLQAVNLHCFPAFLLIPQPQFKLVLDSIIWAFKHTMRNVADT 60
+ + ++P+ +F LL P L + K V + A K
Sbjct: 778 LFQQGPRDHPDIVDSFMQLLAQALKRK-PDLFLCERLDVKAVFQCAVLALKFPEAPTVKA 836
Query: 61 GLMILHQLLVNVCHDAQSAAQSFYVTYFTEILTHVFSVVTDTSHSASLAHHAQILSYMFK 120
+LL + +L V + + + + A IL + K
Sbjct: 837 SCGFFTELLPRCGE--VESVGKVVQEDGRMLLIAVLEAIGGQASRSLMDCFADILFALNK 894
Query: 121 LVETREVAAPLAPGVTDNVVYVQEFVARTLKSAF---PHLTENQIKVTVQGMFDFNNDLP 177
+ ++ L+ L+ Q Q + +
Sbjct: 895 H----------------CFSLLSMWIKEALQPPGFPSARLSPEQKDTFSQQILRERVNKR 938
Query: 178 AFKEHLRDFLVQIREFTGEDDSDLF 202
KE +++F + R G D + +
Sbjct: 939 RVKEMVKEFTLLCRGLHGTDYTADY 963
>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 = 93.8 bits (232), Expect = 2e-22
Identities = 20/199 (10%), Positives = 63/199 (31%), Gaps = 22/199 (11%)
Query: 1 MINKDFEEYPEHRTNFFLLLQAVNLHCFPAFLLIP--QPQFKLVLDSII-WAFKHTMRNV 57
D + + R ++ + + F + L Q F +++SI+ +A
Sbjct: 798 QGTDDAVKQNDLRKSYISFILQLLNKGFGSILFTEENQVYFDPLINSILHFANLVGEPAT 857
Query: 58 ADTGLMILHQLLVNVCHDAQSAAQSFYVTYFTEILTHVFSVVTDTSHSASLAHHAQILSY 117
+ + ++ +++ + + + + F + + + + +L
Sbjct: 858 QKSSIALVSKMVSLWG---GKDGIAGFENFTLSLTPLCFEMPVNPNFNTRDGQSLVVLGE 914
Query: 118 MFKLVETREVAAPLAPGVTDNVVYVQEFVARTLKSAFP--HLTENQIKVTVQGMFDFNND 175
+ L + + + + FP + + +Q + N D
Sbjct: 915 LAGLQKIILEKLG------------DIYKSYLVTVYFPTVNFPDVMASEYLQAL--SNLD 960
Query: 176 LPAFKEHLRDFLVQIREFT 194
+FK+ + F+ ++
Sbjct: 961 SRSFKQFFQKFIQALKSGN 979
>2x1g_F Cadmus; transport protein, developmental protein, mRNA processing,
nuclear transport, mRNA splicing, mRNA transport; 3.35A
{Drosophila melanogaster}
Length = 971
Score = 90.1 bits (222), Expect = 5e-21
Identities = 20/196 (10%), Positives = 50/196 (25%), Gaps = 16/196 (8%)
Query: 1 MINKDFEEYPEHRTNFFLLLQAVNLHCFPAFLLIPQPQFKLVLDSIIWAFKHTMRNVADT 60
++F + FF L + + P L + ++
Sbjct: 790 TPEQNFSNISDTMETFFGCLTQI-IKKIPQVLEDKTLAYDRLVFYAQRGMTLPESGAIRN 848
Query: 61 GLMILHQLLVNVCHDAQSAAQSFYVTYFTEILTHVFSVVTDTSHSASLAHHAQILSYMFK 120
+ L ++ + A + + L V + + + A IL M +
Sbjct: 849 SIQFLTHFVMQSRNHAH--VTEVVLATGEQTLYTAMMCVGYLTPRSQVDKFADILLAMNR 906
Query: 121 LVETREVAAPLAPGVTDNVVYVQEFVARTLKSAFPHLTENQIKVTVQGMFDFNNDLPAFK 180
A + + +T+ + + +
Sbjct: 907 KY--AAEMAVWMKSLMSTPNFPT-----------QLITDADKTRYTALIIKEKVNKRLLQ 953
Query: 181 EHLRDFLVQIREFTGE 196
+HL + ++ R T +
Sbjct: 954 QHLSEMAMKTRGLTEK 969
>3a6p_A Exportin-5; exportin-5, RANGTP, nuclearexport, importin-BE family,
nucleus, phosphoprotein, protein transport; HET: GTP;
2.92A {Homo sapiens}
Length = 1204
Score = 42.7 bits (99), Expect = 5e-05
Identities = 9/81 (11%), Positives = 20/81 (24%), Gaps = 1/81 (1%)
Query: 1 MINKDFEEYPEHRTNFFLLLQAVNLHCFPAFLLIPQPQFKLVLDSIIWAF-KHTMRNVAD 59
++ K + L + F IP + + +L + +
Sbjct: 850 ILGKAGPSMQQDFYTVEDLATQLLSSAFVNLNNIPDYRLRPMLRVFVKPLVLFCPPEHYE 909
Query: 60 TGLMILHQLLVNVCHDAQSAA 80
+ + L H S
Sbjct: 910 ALVSPILGPLFTYLHMRLSQK 930
>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 = 42.3 bits (99), Expect = 8e-05
Identities = 40/221 (18%), Positives = 71/221 (32%), Gaps = 60/221 (27%)
Query: 32 LLIPQPQFKLVLDSIIWAFKHTMRNVADTGLMILHQLLVNVCHDAQSAAQSFYVTYFTEI 91
LL+P + + ++ + IL + D + + V F
Sbjct: 20 LLVP---------TASFFIASQLQ---EQFNKILPEPTEGFAADDEPTTPAELVGKF--- 64
Query: 92 LTHVFSVVTDTSHSASLAHHAQILSYMFKLVETR--------EVAAPLAPGVTDNVVYVQ 143
L +V S+V + + Q+L+ E +AA L +V +
Sbjct: 65 LGYVSSLV----EPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTK 120
Query: 144 E-----FVARTL---------KSA-FPHLTENQIKVTV----QGMFDFNNDLPAFKEHLR 184
E AR + SA F + E ++ QG N D F+E LR
Sbjct: 121 ELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQG----NTDDY-FEE-LR 174
Query: 185 DFLVQI-REFTGEDDSDLFLDEIEQTLKQ-AQEKKRQTQLY 223
D L Q G+ + +TL + + +++
Sbjct: 175 D-LYQTYHVLVGD-----LIKFSAETLSELIRTTLDAEKVF 209
Score = 40.4 bits (94), Expect = 4e-04
Identities = 40/256 (15%), Positives = 70/256 (27%), Gaps = 62/256 (24%)
Query: 4 KDFEEYPEHRTNFFLLLQAVNLHCFPAFLLIPQPQFKLVLDSIIWAFKHTMRNVADTGLM 63
+FE + L+ ++H A LL + +I + R +A
Sbjct: 89 TEFE------NCY---LEGNDIHALAAKLLQENDTTLVKTKELIKNYITA-RIMAKRPFD 138
Query: 64 ILHQ--LLVNVCHDAQSAAQSFYV---------TYFTEILTHVFSVVTDTSHSASLAH-H 111
L YF E L ++ T L
Sbjct: 139 KKSNSALF----RAVGEGNAQLVAIFGGQGNTDDYFEE-LRDLYQ--TYHVLVGDLIKFS 191
Query: 112 AQILSYMFKLVETREVAAPLAPGVTDNVVYVQEFVART--------LKSA---FPHLTEN 160
A+ LS +L+ T A + + + E++ L S P +
Sbjct: 192 AETLS---ELIRTTLDAEKVFTQGLN----ILEWLENPSNTPDKDYLLSIPISCPLIGVI 244
Query: 161 QI---KVT--VQGM--FDFNNDLPAFKEHLRDFLVQIREFTGEDDSDLFLDEIEQTLK-- 211
Q+ VT + G + + L H + LV D + F + + +
Sbjct: 245 QLAHYVVTAKLLGFTPGELRSYLKGATGHSQG-LVTAVAIAETDSWESFFVSVRKAITVL 303
Query: 212 -----QAQEKKRQTQL 222
+ E T L
Sbjct: 304 FFIGVRCYEAYPNTSL 319
Score = 35.0 bits (80), Expect = 0.020
Identities = 32/174 (18%), Positives = 54/174 (31%), Gaps = 68/174 (39%)
Query: 86 TYFT------------EILTHVFSVVTDTS---HS----ASLAHHAQILSY--MFKLVET 124
T FT E L + D + HS A+LA A ++S + ++V
Sbjct: 1729 TQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFY 1788
Query: 125 REVAAPLAPGVTDNVVYVQEFVARTLKSAFPHLTENQIKVTVQGMFDFNNDLPAFK---E 181
R G T++ A P +++ + GM N A E
Sbjct: 1789 R--------G-------------MTMQVAVP---RDELGRSNYGMIAINPGRVAASFSQE 1824
Query: 182 HLRDFLVQIREFTGE------------------DDSDLFLDEIEQTLKQAQEKK 217
L+ + ++ + TG D L D + L + +K
Sbjct: 1825 ALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRAL--DTVTNVLNFIKLQK 1876
>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 = 41.4 bits (96), Expect = 2e-04
Identities = 30/216 (13%), Positives = 62/216 (28%), Gaps = 57/216 (26%)
Query: 26 HCFPAFLLIPQPQFKLVLDSIIWAFKHT---MRNV-----------ADTGLMILHQLLVN 71
+ + L + + F D K +++ + + +L
Sbjct: 16 YQYKDILSVFEDAFVDNFD-----CKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWT 70
Query: 72 VCHDAQSAAQSFYVTYFTEILTHVFSVVTDTSHSASLAHHAQILSYMFKLVETREVAAPL 131
+ + Q F E+L + + + Y +E R+
Sbjct: 71 LLSKQEEMVQKF----VEEVLRINYKFLMSPIKTEQRQPSMMTRMY----IEQRD----- 117
Query: 132 APGVTDNVVYVQEFVAR-----TLKSAFPHLTENQIKVTVQGMFDFNNDLPAFK-----E 181
DN V+ + V+R L+ A L + V + G+ K +
Sbjct: 118 -RLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAK-NVLIDGVLGSG------KTWVALD 169
Query: 182 HLRDFLVQIR-EFT------GEDDSDLFLDEIEQTL 210
+ VQ + +F +S + E+ Q L
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL 205
Score = 29.1 bits (64), Expect = 1.3
Identities = 24/159 (15%), Positives = 48/159 (30%), Gaps = 46/159 (28%)
Query: 59 DTGLM------ILHQLLVNVCHDAQSAAQSFYVTYFTEILTHVFSVVTDTSHSASLAHHA 112
+TG IL + F ++ + S + H
Sbjct: 10 ETGEHQYQYKDILSVFEDAFVDN-------FDCKDVQDMPKSILSK-EEIDHIIMSKDAV 61
Query: 113 QILSYMFKLVETREVAAPLAPGVTDNVVYVQEFVARTLKSAFPHL-----TENQIKVTVQ 167
+F + +++ + +V Q+FV L+ + L TE + +
Sbjct: 62 SGTLRLFWTLLSKQ----------EEMV--QKFVEEVLRINYKFLMSPIKTEQRQPSMMT 109
Query: 168 GMFD-----FNNDLPAFKEH----------LRDFLVQIR 191
M+ ND F ++ LR L+++R
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELR 148
>2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair,
DNA-binding, endonuclease, metal-BIND excision repair,
DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus
solfataricus}
Length = 346
Score = 29.9 bits (67), Expect = 0.54
Identities = 11/43 (25%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 180 KEHLRDFLVQIREFTGEDDSDLFLDEIEQTLKQAQEKKRQTQL 222
E + + LV F+ E+ ++ + + +K+A+ RQT L
Sbjct: 301 GEDIINILVYEHNFS-EERVKNGIERLTKAIKEAKGASRQTGL 342
>2ipc_A Preprotein translocase SECA subunit; nucleotide binding fold,
ATPase, parallel dimer; 2.80A {Thermus thermophilus}
Length = 997
Score = 28.6 bits (64), Expect = 1.9
Identities = 12/42 (28%), Positives = 19/42 (45%)
Query: 175 DLPAFKEHLRDFLVQIREFTGEDDSDLFLDEIEQTLKQAQEK 216
DL K L D Q+++F + L +E + L +A K
Sbjct: 811 DLEGLKATLLDTAPQLQDFPFAELRALKAEEAVERLVEAALK 852
>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap
DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A
{Homo sapiens} SCOP: a.60.7.1 c.120.1.2
Length = 379
Score = 26.4 bits (58), Expect = 7.7
Identities = 8/43 (18%), Positives = 20/43 (46%), Gaps = 5/43 (11%)
Query: 180 KEHLRDFLVQIREFTGEDDSDLFLDEIEQTLKQAQEKKRQTQL 222
+E L F+ ++F+ E + + L ++++ Q +L
Sbjct: 302 EEELIKFMCGEKQFSEE-----RIRSGVKRLSKSRQGSTQGRL 339
>2l5o_A Putative thioredoxin; structural genomics, unknown function, PSI-2,
protein struct initiative; NMR {Neisseria meningitidis
serogroup B}
Length = 153
Score = 25.7 bits (57), Expect = 9.6
Identities = 14/83 (16%), Positives = 27/83 (32%), Gaps = 17/83 (20%)
Query: 137 DNVVYVQEFVARTLKSAFPHLTENQIKVTVQGMFDFNND-LPAFKEHLRDFLV----QIR 191
D + V+++V F + + V F P L+ +I
Sbjct: 72 DPIESVRQYVKD-YGLPFTVMYDADKAVGQA----FGTQVYPTS------VLIGKKGEIL 120
Query: 192 E-FTGEDDSDLFLDEIEQTLKQA 213
+ + GE D EI+ + +
Sbjct: 121 KTYVGEPDFGKLYQEIDTAWRNS 143
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 0.399
Gapped
Lambda K H
0.267 0.0455 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,252,556
Number of extensions: 183507
Number of successful extensions: 696
Number of sequences better than 10.0: 1
Number of HSP's gapped: 684
Number of HSP's successfully gapped: 26
Length of query: 223
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 133
Effective length of database: 4,188,903
Effective search space: 557124099
Effective search space used: 557124099
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: 55 (25.6 bits)