BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy13568
(485 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4ARZ|A Chain A, The Crystal Structure Of Gtr1p-Gtr2p Complexed With
Gtp-Gdp
Length = 310
Score = 170 bits (431), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 93/223 (41%), Positives = 126/223 (56%), Gaps = 48/223 (21%)
Query: 31 LEVEHSHVRFLGNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRD 90
++VEHSH+RFLGN+ LNLWDCGGQ+ FMENYFT Q+D+IF+ V VLI+VFDVES E+ +D
Sbjct: 42 IDVEHSHLRFLGNMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKD 101
Query: 91 LHYYQSCLEAMLHNSPDSKVFCLIHKIDLVHENQRD------------------------ 126
+ + L+ + SPD+K+F L+HK+DLV ++R+
Sbjct: 102 IEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIG 161
Query: 127 -----------VAWSSIVYQLIPNVKELEQSLHLFATLMDGDEVLLFERATFLVISHCQR 175
AWS IV LIPN+ + +L F +M+ E++LFER TFLVI
Sbjct: 162 FPTSIWDESLYKAWSQIVCSLIPNMSNHQSNLKKFKEIMNALEIILFERTTFLVICSSNG 221
Query: 176 KEHRDIH-------------RFEKISNIIKQFKLSCRLVYSLF 205
+ + H RFEKISNI+K FK SC + S F
Sbjct: 222 ENSNENHDSSDNNNVLLDPKRFEKISNIMKNFKQSCTKLKSGF 264
>pdb|3R7W|A Chain A, Crystal Structure Of Gtr1p-Gtr2p Complex
pdb|3R7W|C Chain C, Crystal Structure Of Gtr1p-Gtr2p Complex
Length = 307
Score = 160 bits (405), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 91/223 (40%), Positives = 120/223 (53%), Gaps = 48/223 (21%)
Query: 31 LEVEHSHVRFLGNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRD 90
++VEHSH+RFLGN LNLWDCGGQ+ F ENYFT Q+D+IF+ V VLI+VFDVES E+ +D
Sbjct: 39 IDVEHSHLRFLGNXTLNLWDCGGQDVFXENYFTKQKDHIFQXVQVLIHVFDVESTEVLKD 98
Query: 91 LHYYQSCLEAMLHNSPDSKVFCLIHKIDLVHENQRD------------------------ 126
+ + L+ + SPD+K+F L+HK DLV ++R+
Sbjct: 99 IEIFAKALKQLRKYSPDAKIFVLLHKXDLVQLDKREELFQIXXKNLSETSSEFGFPNLIG 158
Query: 127 -----------VAWSSIVYQLIPNVKELEQSLHLFATLMDGDEVLLFERATFLVISHCQR 175
AWS IV LIPN + +L F + + E++LFER TFLVI
Sbjct: 159 FPTSIWDESLYKAWSQIVCSLIPNXSNHQSNLKKFKEIXNALEIILFERTTFLVICSSNG 218
Query: 176 KEHRDIH-------------RFEKISNIIKQFKLSCRLVYSLF 205
+ + H RFEKISNI K FK SC + S F
Sbjct: 219 ENSNENHDSSDNNNVLLDPKRFEKISNIXKNFKQSCTKLKSGF 261
>pdb|3LLU|A Chain A, Crystal Structure Of The Nucleotide-Binding Domain Of Ras-
Related Gtp-Binding Protein C
Length = 196
Score = 35.8 bits (81), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 38/86 (44%), Gaps = 8/86 (9%)
Query: 47 NLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAMLHNSP 106
+WD GQ F + F + IFR LIYV D + ++ + + +A N P
Sbjct: 72 QIWDFPGQMDFFDPTFDYEM--IFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVN-P 128
Query: 107 DSKVFCLIHKIDLVH-----ENQRDV 127
D IHK+D + E QRD+
Sbjct: 129 DMNFEVFIHKVDGLSDDHKIETQRDI 154
>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex
With Gdp
Length = 192
Score = 35.0 bits (79), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 31/126 (24%), Positives = 58/126 (46%), Gaps = 11/126 (8%)
Query: 4 RNSQFAAFIDEFTSNTFVMVVISDPNILEVEHSHVRFLGNLV-LNLWDCGGQEAFMENYF 62
R + ++ FT +TF S + + + V G + L +WD GQE F N
Sbjct: 35 RGVGKTSLMERFTDDTFCEACKSTVGV-DFKIKTVELRGKKIRLQIWDTAGQERF--NSI 91
Query: 63 TSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAMLHNSPDSKVFCLIHKIDLVHE 122
TS +R+ +I V+D+ +E DL + ++ + S D+++ + +K+D E
Sbjct: 92 TSA---YYRSAKGIILVYDITKKETFDDLPKWMKMIDK--YASEDAELLLVGNKLDC--E 144
Query: 123 NQRDVA 128
R++
Sbjct: 145 TDREIT 150
>pdb|2BKU|A Chain A, Kap95p:rangtp Complex
pdb|2BKU|C Chain C, Kap95p:rangtp Complex
Length = 177
Score = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 41/93 (44%), Gaps = 11/93 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAM 101
G + N+WD GQE F RD + I +FDV SR +++ + L +
Sbjct: 57 GPIKFNVWDTAGQEK-----FGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 111
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVY 134
N P V C +K+D+ R V SIV+
Sbjct: 112 CENIPI--VLCG-NKVDI---KDRKVKAKSIVF 138
>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its
Cargo (Kap60p) And Rangtp
Length = 176
Score = 33.9 bits (76), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 41/93 (44%), Gaps = 11/93 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAM 101
G + N+WD GQE F RD + I +FDV SR +++ + L +
Sbjct: 57 GPIKFNVWDTAGQEK-----FGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 111
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVY 134
N P V C +K+D+ R V SIV+
Sbjct: 112 CENIPI--VLCG-NKVDI---KDRKVKAKSIVF 138
>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b
Length = 191
Score = 33.1 bits (74), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 44/86 (51%), Gaps = 11/86 (12%)
Query: 43 NLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLE-AM 101
+ L +WD GQE+F S + +R A + V+D+ RE ++ S LE A
Sbjct: 69 QIKLQIWDTAGQESFR-----SITRSYYRGAAGALLVYDITRRET---FNHLTSWLEDAR 120
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDV 127
H+S + + + +K DL E++RDV
Sbjct: 121 QHSSSNMVIMLIGNKSDL--ESRRDV 144
>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex
pdb|1RRP|C Chain C, Structure Of The Ran-Gppnhp-Ranbd1 Complex
Length = 204
Score = 33.1 bits (74), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 41/93 (44%), Gaps = 11/93 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAM 101
G + N+WD GQE F RD + I +FDV SR +++ + L +
Sbjct: 50 GPIKFNVWDTAGQEK-----FGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 104
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVY 134
N P V C +K+D+ R V SIV+
Sbjct: 105 CENIP--IVLCG-NKVDI---KDRKVKAKSIVF 131
>pdb|1BYU|A Chain A, Canine Gdp-Ran
pdb|1BYU|B Chain B, Canine Gdp-Ran
Length = 216
Score = 32.7 bits (73), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 41/93 (44%), Gaps = 11/93 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAM 101
G + N+WD GQE F RD + I +FDV SR +++ + L +
Sbjct: 57 GPIKFNVWDTAGQEK-----FGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 111
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVY 134
N P V C +K+D+ R V SIV+
Sbjct: 112 CENIP--IVLCG-NKVDI---KDRKVKAKSIVF 138
>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex
pdb|1A2K|D Chain D, Gdpran-Ntf2 Complex
pdb|1A2K|E Chain E, Gdpran-Ntf2 Complex
pdb|1IBR|A Chain A, Complex Of Ran With Importin Beta
pdb|1IBR|C Chain C, Complex Of Ran With Importin Beta
pdb|1I2M|A Chain A, Ran-Rcc1-So4 Complex
pdb|1I2M|C Chain C, Ran-Rcc1-So4 Complex
pdb|1K5D|A Chain A, Crystal Structure Of Ran-Gppnhp-Ranbp1-Rangap Complex
pdb|1K5D|D Chain D, Crystal Structure Of Ran-Gppnhp-Ranbp1-Rangap Complex
pdb|1K5D|G Chain G, Crystal Structure Of Ran-Gppnhp-Ranbp1-Rangap Complex
pdb|1K5D|J Chain J, Crystal Structure Of Ran-Gppnhp-Ranbp1-Rangap Complex
pdb|1K5G|A Chain A, Crystal Structure Of Ran-Gdp-Alfx-Ranbp1-Rangap Complex
pdb|1K5G|D Chain D, Crystal Structure Of Ran-Gdp-Alfx-Ranbp1-Rangap Complex
pdb|1K5G|G Chain G, Crystal Structure Of Ran-Gdp-Alfx-Ranbp1-Rangap Complex
pdb|1K5G|J Chain J, Crystal Structure Of Ran-Gdp-Alfx-Ranbp1-Rangap Complex
pdb|3CH5|A Chain A, The Crystal Structure Of The Rangdp-Nup153znf2 Complex
pdb|3A6P|C Chain C, Crystal Structure Of Exportin-5:rangtp:pre-Mirna Complex
pdb|3A6P|H Chain H, Crystal Structure Of Exportin-5:rangtp:pre-Mirna Complex
pdb|4GPT|A Chain A, Crystal Structure Of Kpt251 In Complex With
Crm1-ran-ranbp1
pdb|4GMX|A Chain A, Crystal Structure Of Kpt185 In Complex With
Crm1-Ran-Ranbp1
pdb|4HAT|A Chain A, Crystal Structure Of Crm1 Inhibitor Leptomycin B In
Complex With Crm1- Ran-ranbp1
pdb|4HAU|A Chain A, Crystal Structure Of Crm1 Inhibitor Ratjadone A In Complex
With Crm1- Ran-ranbp1
pdb|4HAV|A Chain A, Crystal Structure Of Crm1 Inhibitor Anguinomycin A In
Complex With Crm1-ran-ranbp1
pdb|4HAW|A Chain A, Crystal Structure Of Crm1 Inhibitor Leptomycin B In
Complex With Crm1(k548a)-ran-ranbp1
pdb|4HAX|A Chain A, Crystal Structure Of Crm1 Inhibitor Ratjadone A In Complex
With Crm1(k579a)-ran-ranbp1
pdb|4HAY|A Chain A, Crystal Structure Of Crm1 Inhibitor Leptomycin B In
Complex With Crm1(k548e,k579q)-ran-ranbp1
pdb|4HAZ|A Chain A, Crystal Structure Of Crm1 Inhibitor Leptomycin B In
Complex With Crm1(r543s,k548e,k579q)-ran-ranbp1
pdb|4HB0|A Chain A, Crystal Structure Of Crm1 Inhibitor Leptomycin B In
Complex With
Crm1(k541q,k542q,r543s,k545q,k548q,k579q)-ran-ranbp1
pdb|4HB2|A Chain A, Crystal Structure Of Crm1-ran-ranbp1
pdb|4HB3|A Chain A, Crystal Structure Of Crm1(t539s)-ran-ranbp1 Soaked In
Excess Crm1 Inhibitor Leptomycin B
pdb|4HB4|A Chain A, Crystal Structure Of Crm1 Inhibitor Leptomycin B In
Complex With Crm1(537dltvk541/glceq)-ran-ranbp1
Length = 216
Score = 32.7 bits (73), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 41/93 (44%), Gaps = 11/93 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAM 101
G + N+WD GQE F RD + I +FDV SR +++ + L +
Sbjct: 57 GPIKFNVWDTAGQEK-----FGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 111
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVY 134
N P V C +K+D+ R V SIV+
Sbjct: 112 CENIP--IVLCG-NKVDI---KDRKVKAKSIVF 138
>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp
pdb|3GJ0|B Chain B, Crystal Structure Of Human Rangdp
pdb|3GJ3|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf2 Complex
Length = 221
Score = 32.7 bits (73), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 41/93 (44%), Gaps = 11/93 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAM 101
G + N+WD GQE F RD + I +FDV SR +++ + L +
Sbjct: 62 GPIKFNVWDTAGQEK-----FGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 116
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVY 134
N P V C +K+D+ R V SIV+
Sbjct: 117 CENIP--IVLCG-NKVDI---KDRKVKAKSIVF 143
>pdb|3EA5|A Chain A, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt
The Gtp- Bound Conformation: Implications For Nuclear
Import Complex Assembly Dynamics
pdb|3EA5|C Chain C, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt
The Gtp- Bound Conformation: Implications For Nuclear
Import Complex Assembly Dynamics
Length = 216
Score = 32.3 bits (72), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 41/93 (44%), Gaps = 11/93 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAM 101
G + N+WD GQE F RD + I +FDV SR +++ + L +
Sbjct: 57 GPIKFNVWDTAGQEK-----FGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 111
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVY 134
N P V C +K+D+ R V SIV+
Sbjct: 112 CENIP--IVLCG-NKVDI---KDRKVKAKSIVF 138
>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex
pdb|3GJ4|C Chain C, Crystal Structure Of Human Rangdp-Nup153znf3 Complex
pdb|3GJ5|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf4 Complex
pdb|3GJ5|C Chain C, Crystal Structure Of Human Rangdp-Nup153znf4 Complex
pdb|3GJ6|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf1 Complex
pdb|3GJ7|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf12 Complex
pdb|3GJ7|C Chain C, Crystal Structure Of Human Rangdp-Nup153znf12 Complex
pdb|3GJ8|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf34 Complex
pdb|3GJ8|C Chain C, Crystal Structure Of Human Rangdp-Nup153znf34 Complex
Length = 221
Score = 32.3 bits (72), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 41/93 (44%), Gaps = 11/93 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAM 101
G + N+WD GQE F RD + I +FDV SR +++ + L +
Sbjct: 62 GPIKFNVWDTAGQEK-----FGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 116
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVY 134
N P V C +K+D+ R V SIV+
Sbjct: 117 CENIP--IVLCG-NKVDI---KDRKVKAKSIVF 143
>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b
Length = 188
Score = 32.0 bits (71), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 5/45 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRE 86
GN+ + LWD GGQ F S + R V+ ++Y+ D +E
Sbjct: 65 GNVTIKLWDIGGQP-----RFRSMWERYCRGVSAIVYMVDAADQE 104
>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b
(Arl10b)
Length = 193
Score = 32.0 bits (71), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 5/45 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRE 86
GN+ + LWD GGQ F S + R V+ ++Y+ D +E
Sbjct: 74 GNVTIKLWDIGGQP-----RFRSMWERYCRGVSAIVYMVDAADQE 113
>pdb|2ZEJ|A Chain A, Structure Of The Roc Domain From The Parkinson's
Disease-associated Leucine-rich Repeat Kinase 2 Reveals
A Dimeric Gtpase
pdb|2ZEJ|B Chain B, Structure Of The Roc Domain From The Parkinson's
Disease-associated Leucine-rich Repeat Kinase 2 Reveals
A Dimeric Gtpase
Length = 184
Score = 32.0 bits (71), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 47/98 (47%), Gaps = 13/98 (13%)
Query: 43 NLVLNLWDCGGQEAFMEN--YFTSQRDNIFRNVAVLIYVFDVESRELDRDL-HYYQSCLE 99
+LVLN+WD G+E F +F +QR A+ + V+D+ + + D + ++
Sbjct: 55 DLVLNVWDFAGREEFYSTHPHFXTQR-------ALYLAVYDLSKGQAEVDAXKPWLFNIK 107
Query: 100 AMLHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVYQLI 137
A +SP V + +D+ E QR S I +L+
Sbjct: 108 ARASSSP---VILVGTHLDVSDEKQRKACXSKITKELL 142
>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear
Transport Complex
Length = 216
Score = 32.0 bits (71), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 40/93 (43%), Gaps = 11/93 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAM 101
G + N+WD GQE F RD + I FDV SR +++ + L +
Sbjct: 57 GPIKFNVWDTAGQEK-----FGGLRDGYYIQAQCAIIXFDVTSRVTYKNVPNWHRDLVRV 111
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVY 134
N P V C +K+D+ R V SIV+
Sbjct: 112 CENIP--IVLCG-NKVDI---KDRKVKAKSIVF 138
>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c
Length = 186
Score = 31.6 bits (70), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 5/45 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRE 86
GN+ + +WD GGQ F S + R V ++Y+ D RE
Sbjct: 65 GNVTIKIWDIGGQP-----RFRSMWERYCRGVNAIVYMIDAADRE 104
>pdb|3D6T|B Chain B, Structure Of The Roc Domain From The Parkinson's
Disease-Associated Leucine-Rich Repeat Kinase 2 Reveals
A Dimeric Gtpase
Length = 171
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 47/98 (47%), Gaps = 13/98 (13%)
Query: 43 NLVLNLWDCGGQEAFMEN--YFTSQRDNIFRNVAVLIYVFDVESRELDRDL-HYYQSCLE 99
+LVLN+WD G+E F +F +QR A+ + V+D+ + + D + ++
Sbjct: 53 DLVLNVWDFAGREEFYSTHPHFXTQR-------ALYLAVYDLSKGQAEVDAXKPWLFNIK 105
Query: 100 AMLHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVYQLI 137
A +SP V + +D+ E QR S I +L+
Sbjct: 106 ARASSSP---VILVGTHLDVSDEKQRKACXSKITKELL 140
>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant
pdb|1QG4|B Chain B, Canine Gdp-Ran F72y Mutant
Length = 216
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 41/93 (44%), Gaps = 11/93 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAM 101
G + N+WD GQE + RD + I +FDV SR +++ + L +
Sbjct: 57 GPIKFNVWDTAGQEK-----YGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 111
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVY 134
N P V C +K+D+ R V SIV+
Sbjct: 112 CENIP--IVLCG-NKVDI---KDRKVKAKSIVF 138
>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp
pdb|2O52|B Chain B, Crystal Structure Of Human Rab4b In Complex With Gdp
Length = 200
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 36/79 (45%), Gaps = 7/79 (8%)
Query: 46 LNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAMLHNS 105
L +WD GQE F S + +R A + V+D+ SRE L + + +A S
Sbjct: 76 LQIWDTAGQE-----RFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLT--DARTLAS 128
Query: 106 PDSKVFCLIHKIDLVHENQ 124
P+ V +K DL E +
Sbjct: 129 PNIVVILCGNKKDLDPERE 147
>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase
Length = 179
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 46/103 (44%), Gaps = 21/103 (20%)
Query: 30 ILEVEHSHVRFLGNLVLNLWDCGGQE---AFMENYFTSQRDNIFRNVAVLIYVFDVESRE 86
I+EV ++ L +WD GQE A +Y +R A + V+D+ R
Sbjct: 56 IIEVSGQKIK------LQIWDTAGQERFRAVTRSY--------YRGAAGALMVYDITRRS 101
Query: 87 LDRDLHYYQSCLEAMLHNSPDSKVFCLIHKIDLVHENQRDVAW 129
L + + +A +P++ + + +K DL E QRDV +
Sbjct: 102 TYNHLSSWLT--DARNLTNPNTVIILIGNKADL--EAQRDVTY 140
>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant
Length = 216
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 40/93 (43%), Gaps = 11/93 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAM 101
G + N+WD GQE F D + I +FDV SR +++ + L +
Sbjct: 57 GPIKFNVWDTAGQEK-----FGGLEDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 111
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVY 134
N P V C +K+D+ R V SIV+
Sbjct: 112 CENIP--IVLCG-NKVDI---KDRKVKAKSIVF 138
>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear
Export Complex
pdb|3NBY|F Chain F, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear
Export Complex
pdb|3NBZ|C Chain C, Crystal Structure Of The Hiv-1 Rev Nes-Crm1-Rangtp Nuclear
Export Complex (Crystal I)
pdb|3NBZ|F Chain F, Crystal Structure Of The Hiv-1 Rev Nes-Crm1-Rangtp Nuclear
Export Complex (Crystal I)
pdb|3NC0|C Chain C, Crystal Structure Of The Hiv-1 Rev Nes-Crm1-Rangtp Nuclear
Export Complex (Crystal Ii)
pdb|3NC0|F Chain F, Crystal Structure Of The Hiv-1 Rev Nes-Crm1-Rangtp Nuclear
Export Complex (Crystal Ii)
Length = 176
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 40/93 (43%), Gaps = 11/93 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAM 101
G + N+WD G E F RD + I +FDV SR +++ + L +
Sbjct: 53 GPIKFNVWDTAGLEKF-----GGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 107
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVY 134
N P V C +K+D+ R V SIV+
Sbjct: 108 CENIPI--VLCG-NKVDI---KDRKVKAKSIVF 134
>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex
Length = 182
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 40/93 (43%), Gaps = 11/93 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAM 101
G + N+WD G E F RD + I +FDV SR +++ + L +
Sbjct: 59 GPIKFNVWDTAGLEKF-----GGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 113
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVY 134
N P V C +K+D+ R V SIV+
Sbjct: 114 CENIPI--VLCG-NKVDI---KDRKVKAKSIVF 140
>pdb|1WOV|A Chain A, Crystal Strucure Of Heme Oxygenase-2 From Synechocystis
Sp. Pcc 6803 In Complex With Heme
pdb|1WOV|B Chain B, Crystal Strucure Of Heme Oxygenase-2 From Synechocystis
Sp. Pcc 6803 In Complex With Heme
pdb|1WOW|A Chain A, Crystal Structure Of Heme Oxygenase-2 From Synechocystis
Sp. Pcc 6803 Complexed With Heme In Ferrous Form
pdb|1WOW|B Chain B, Crystal Structure Of Heme Oxygenase-2 From Synechocystis
Sp. Pcc 6803 Complexed With Heme In Ferrous Form
pdb|1WOX|A Chain A, Crystal Structure Of Heme Oxygenase-2 From Synechocystis
Sp. Pcc 6803 In Complex With Heme And No
pdb|1WOX|B Chain B, Crystal Structure Of Heme Oxygenase-2 From Synechocystis
Sp. Pcc 6803 In Complex With Heme And No
Length = 250
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 34/137 (24%), Positives = 59/137 (43%), Gaps = 9/137 (6%)
Query: 61 YFTSQRDNIFRNVAV----LIYVFDVES-RELDRDLHYYQSCLEAMLHNSPDSKVFCLIH 115
Y T Q + N A L + + E R+L +L+Y S LEA L D+++ I+
Sbjct: 10 YGTQQSHTLAENTAYMKCFLKGIVEREPFRQLLANLYYLYSALEAALRQHRDNEIISAIY 69
Query: 116 KIDLVHENQRDVAWSSIVYQLIPNVKELEQSLHLFATLMDGDEVLLFERATFLVISHCQR 175
+L N+ D + Y PN +++ Q +D + + L I+HC
Sbjct: 70 FPEL---NRTDKLAEDLTYYYGPNWQQIIQPTPCAKIYVDRLKTIAASEPELL-IAHCYT 125
Query: 176 KEHRDIHRFEKISNIIK 192
+ D+ + + NII+
Sbjct: 126 RYLGDLSGGQSLKNIIR 142
>pdb|3ICQ|B Chain B, Karyopherin Nuclear State
pdb|3ICQ|C Chain C, Karyopherin Nuclear State
Length = 171
Score = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 41/93 (44%), Gaps = 11/93 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAM 101
G + ++WD G E F RD + N I +FDV SR +++ + L +
Sbjct: 51 GEIKFDVWDTAGLEKF-----GGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRV 105
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVY 134
N P V C +K+D+ +R V +I +
Sbjct: 106 CENIPI--VLCG-NKVDV---KERKVKAKTITF 132
>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex
Length = 172
Score = 29.3 bits (64), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 41/93 (44%), Gaps = 11/93 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAM 101
G + ++WD G E F RD + N I +FDV SR +++ + L +
Sbjct: 52 GEIKFDVWDTAGLEKF-----GGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRV 106
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVY 134
N P V C +K+D+ +R V +I +
Sbjct: 107 CENIPI--VLCG-NKVDV---KERKVKAKTITF 133
>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form
pdb|1LF5|A Chain A, Crystal Structure Of Rasa59g In The Gdp-Bound Form
pdb|1NVU|Q Chain Q, Structural Evidence For Feedback Activation By Rasgtp Of
The Ras-Specific Nucleotide Exchange Factor Sos
pdb|1NVU|R Chain R, Structural Evidence For Feedback Activation By Rasgtp Of
The Ras-Specific Nucleotide Exchange Factor Sos
pdb|1NVX|Q Chain Q, Structural Evidence For Feedback Activation By Rasgtp Of
The Ras-Specific Nucleotide Exchange Factor Sos
pdb|1NVX|R Chain R, Structural Evidence For Feedback Activation By Rasgtp Of
The Ras-Specific Nucleotide Exchange Factor Sos
Length = 166
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 27/111 (24%), Positives = 49/111 (44%), Gaps = 18/111 (16%)
Query: 11 FIDEFTSNTFVMVVISDPNILEVEHSHVRFLG-NLVLNLWDCGGQEAFMENYFTSQRDNI 69
F+DE+ DP I + V G +L++ D GGQE + ++ RD
Sbjct: 28 FVDEY-----------DPTIEDSYRKQVVIDGETCLLDILDTGGQEEY-----SAMRDQY 71
Query: 70 FRNVAVLIYVFDVESRELDRDLHYYQSCLEAMLHNSPDSKVFCLIHKIDLV 120
R + VF + + + D+H Y+ ++ + +S D + + +K DL
Sbjct: 72 MRTGEGFLCVFAINNTKSFEDIHQYREQIK-RVKDSDDVPMVLVGNKCDLA 121
>pdb|1KSJ|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Semet)
Length = 186
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 32/64 (50%), Gaps = 11/64 (17%)
Query: 29 NILEVEHSHVRFLGNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELD 88
NI +EH + LN+WD GGQ++ + +Y+ N F + LI+V D R+
Sbjct: 53 NIKTLEHRGFK------LNIWDVGGQKS-LRSYWR----NYFESTDGLIWVVDSADRQRX 101
Query: 89 RDLH 92
+D
Sbjct: 102 QDCQ 105
>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant
pdb|3RAN|C Chain C, Canine Gdp-Ran Q69l Mutant
pdb|3RAN|D Chain D, Canine Gdp-Ran Q69l Mutant
pdb|3RAN|B Chain B, Canine Gdp-Ran Q69l Mutant
pdb|3GJX|C Chain C, Crystal Structure Of The Nuclear Export Complex Crm1-
Snurportin1-Rangtp
pdb|3GJX|F Chain F, Crystal Structure Of The Nuclear Export Complex Crm1-
Snurportin1-Rangtp
Length = 216
Score = 29.3 bits (64), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 40/93 (43%), Gaps = 11/93 (11%)
Query: 42 GNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRELDRDLHYYQSCLEAM 101
G + N+WD G E F RD + I +FDV SR +++ + L +
Sbjct: 57 GPIKFNVWDTAGLEKF-----GGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV 111
Query: 102 LHNSPDSKVFCLIHKIDLVHENQRDVAWSSIVY 134
N P V C +K+D+ R V SIV+
Sbjct: 112 CENIP--IVLCG-NKVDI---KDRKVKAKSIVF 138
>pdb|1FZQ|A Chain A, Crystal Structure Of Murine Arl3-Gdp
Length = 181
Score = 28.9 bits (63), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 5/41 (12%)
Query: 46 LNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRE 86
LN+WD GGQ + Y+ S F N +LIYV D R+
Sbjct: 62 LNVWDIGGQRK-IRPYWRS----YFENTDILIYVIDSADRK 97
>pdb|4GOJ|A Chain A, The Crystal Structure Of Full Length Arl3gppnhp In
Complex With Unc119a
pdb|4GOJ|B Chain B, The Crystal Structure Of Full Length Arl3gppnhp In
Complex With Unc119a
Length = 189
Score = 28.9 bits (63), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 5/41 (12%)
Query: 46 LNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRE 86
LN+WD GGQ + Y+ S F N +LIYV D R+
Sbjct: 63 LNVWDIGGQRK-IRPYWRS----YFENTDILIYVIDSADRK 98
>pdb|1KSH|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Native)
Length = 186
Score = 28.5 bits (62), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 11/58 (18%)
Query: 29 NILEVEHSHVRFLGNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRE 86
NI +EH + LN+WD GGQ++ + +Y+ N F + LI+V D R+
Sbjct: 53 NIKTLEHRGFK------LNIWDVGGQKS-LRSYWR----NYFESTDGLIWVVDSADRQ 99
>pdb|221P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants:
Molecular Basis For Their Inability To Function As
Signal Switch Molecules
Length = 166
Score = 28.5 bits (62), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 27/111 (24%), Positives = 48/111 (43%), Gaps = 18/111 (16%)
Query: 11 FIDEFTSNTFVMVVISDPNILEVEHSHVRFLG-NLVLNLWDCGGQEAFMENYFTSQRDNI 69
F+DE+ DP I E V G +L++ D GQE + ++ RD
Sbjct: 28 FVDEY-----------DPTIEESYRKQVVIDGETCLLDILDTAGQEEY-----SAMRDQY 71
Query: 70 FRNVAVLIYVFDVESRELDRDLHYYQSCLEAMLHNSPDSKVFCLIHKIDLV 120
R + VF + + + D+H Y+ ++ + +S D + + +K DL
Sbjct: 72 MRTGEGFLCVFAINNTKSFEDIHQYREQIK-RVKDSDDVPMVLVGNKCDLA 121
>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a
Length = 175
Score = 28.5 bits (62), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 11/60 (18%)
Query: 27 DPNILEVEHSHVRFLGNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRE 86
I+ V +V+ L +WD GQE F S + +R A + V+D+ SRE
Sbjct: 49 GSKIINVGGKYVK------LQIWDTAGQE-----RFRSVTRSYYRGAAGALLVYDITSRE 97
>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a
pdb|2BME|A Chain A, High Resolution Structure Of Gppnhp-Bound Human Rab4a
pdb|2BME|B Chain B, High Resolution Structure Of Gppnhp-Bound Human Rab4a
pdb|2BME|C Chain C, High Resolution Structure Of Gppnhp-Bound Human Rab4a
pdb|2BME|D Chain D, High Resolution Structure Of Gppnhp-Bound Human Rab4a
Length = 186
Score = 28.5 bits (62), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 5/41 (12%)
Query: 46 LNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRE 86
L +WD GQE F S + +R A + V+D+ SRE
Sbjct: 61 LQIWDTAGQE-----RFRSVTRSYYRGAAGALLVYDITSRE 96
>pdb|1KSG|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 1
Length = 186
Score = 28.5 bits (62), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 11/58 (18%)
Query: 29 NILEVEHSHVRFLGNLVLNLWDCGGQEAFMENYFTSQRDNIFRNVAVLIYVFDVESRE 86
NI +EH + LN+WD GGQ++ + +Y+ N F + LI+V D R+
Sbjct: 53 NIKTLEHRGFK------LNIWDVGGQKS-LRSYWR----NYFESTDGLIWVVDSADRQ 99
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.336 0.147 0.463
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,600,485
Number of Sequences: 62578
Number of extensions: 641864
Number of successful extensions: 2047
Number of sequences better than 100.0: 65
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 63
Number of HSP's that attempted gapping in prelim test: 2021
Number of HSP's gapped (non-prelim): 69
length of query: 485
length of database: 14,973,337
effective HSP length: 103
effective length of query: 382
effective length of database: 8,527,803
effective search space: 3257620746
effective search space used: 3257620746
T: 11
A: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 53 (25.0 bits)