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= 028997
(200 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2EC1|A Chain A, Solution Structure Of The Ranbd1 Domain From Human
Nucleoporin 50 Kda
Length = 125
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 53/118 (44%), Gaps = 18/118 (15%)
Query: 81 KCKLYVKSSDPADKDTWKDRGTGQLSIKCKEGISKGTKESKPTILVRND--VGRVLLNAL 138
KCKL+ K + +K++G G L +K T K +LVR D +G +LLN L
Sbjct: 19 KCKLFYKKDN-----EFKEKGIGTLHLK-------PTANQKTQLLVRADTNLGNILLNVL 66
Query: 139 LYPGIK-TNLQKNSIVAIFHTXXXXXXXXXXXXXXXRTFLIRTKTEEDRNKLATAIQE 195
+ P + T KN+++ + T LIR KT ED ++L + E
Sbjct: 67 IPPNMPCTRTGKNNVLIV---CVPNPPIDEKNATMPVTMLIRVKTSEDADELHKILLE 121
>pdb|4GMX|B Chain B, Crystal Structure Of Kpt185 In Complex With
Crm1-Ran-Ranbp1
Length = 141
Score = 31.6 bits (70), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 35/67 (52%), Gaps = 10/67 (14%)
Query: 76 VVHEVKCKLYVKSSDPADKDTWKDRGTGQLSIKCKEGISKGTKESKPTILVRND-VGRVL 134
V+++V+ KL+ AD WK+RGTG CK K K +K IL+R D ++
Sbjct: 25 VLYKVRAKLF---RFDADAKEWKERGTGD----CK--FLKNKKTNKVRILMRRDKTLKIC 75
Query: 135 LNALLYP 141
N ++ P
Sbjct: 76 ANHIIAP 82
>pdb|1Q16|B Chain B, Crystal Structure Of Nitrate Reductase A, Narghi, From
Escherichia Coli
pdb|1R27|B Chain B, Crystal Structure Of Nargh Complex
pdb|1R27|D Chain D, Crystal Structure Of Nargh Complex
pdb|1SIW|B Chain B, Crystal Structure Of The Apomolybdo-Narghi
pdb|1Y5I|B Chain B, The Crystal Structure Of The Narghi Mutant Nari-K86a
pdb|1Y5L|B Chain B, The Crystal Structure Of The Narghi Mutant Nari-H66y
pdb|1Y5N|B Chain B, The Crystal Structure Of The Narghi Mutant Nari-K86a In
Complex With Pentachlorophenol
pdb|3IR5|B Chain B, Crystal Structure Of Narghi Mutant Narg-H49c
pdb|3IR6|B Chain B, Crystal Structure Of Narghi Mutant Narg-H49s
pdb|3IR7|B Chain B, Crystal Structure Of Narghi Mutant Narg-R94s
Length = 512
Score = 31.2 bits (69), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 10/83 (12%)
Query: 63 SPSLKKSEERGIIVVHEVKCKLY--VKSSDPADK--DTWKDRGTGQLSIKCKEGISKGTK 118
S ++ K EE GI+++ + KC+ + + P K WK G + I C I G
Sbjct: 198 SGAIYKREEDGIVLIDQDKCRGWRMCITGCPYKKIYFNWKS-GKSEKCIFCYPRIEAG-- 254
Query: 119 ESKPTILVRNDVGRV-LLNALLY 140
+PT+ VGR+ L LLY
Sbjct: 255 --QPTVCSETCVGRIRYLGVLLY 275
>pdb|1Y4Z|B Chain B, The Crystal Structure Of Nitrate Reductase A, Narghi, In
Complex With The Q-Site Inhibitor Pentachlorophenol
Length = 512
Score = 31.2 bits (69), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 10/83 (12%)
Query: 63 SPSLKKSEERGIIVVHEVKCKLY--VKSSDPADK--DTWKDRGTGQLSIKCKEGISKGTK 118
S ++ K EE GI+++ + KC+ + + P K WK G + I C I G
Sbjct: 198 SGAIYKREEDGIVLIDQDKCRGWRMCITGCPYKKIYFNWKS-GKSEKCIFCYPRIEAG-- 254
Query: 119 ESKPTILVRNDVGRV-LLNALLY 140
+PT+ VGR+ L LLY
Sbjct: 255 --QPTVCSETCVGRIRYLGVLLY 275
>pdb|3EGW|B Chain B, The Crystal Structure Of The Narghi Mutant Narh - C16a
Length = 509
Score = 31.2 bits (69), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 10/83 (12%)
Query: 63 SPSLKKSEERGIIVVHEVKCKLY--VKSSDPADK--DTWKDRGTGQLSIKCKEGISKGTK 118
S ++ K EE GI+++ + KC+ + + P K WK G + I C I G
Sbjct: 198 SGAIYKREEDGIVLIDQDKCRGWRMCITGCPYKKIYFNWKS-GKSEKCIFCYPRIEAG-- 254
Query: 119 ESKPTILVRNDVGRV-LLNALLY 140
+PT+ VGR+ L LLY
Sbjct: 255 --QPTVCSETCVGRIRYLGVLLY 275
>pdb|3M1I|B Chain B, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With
Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp)
Length = 191
Score = 31.2 bits (69), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 10/67 (14%)
Query: 76 VVHEVKCKLYVKSSDPADKDTWKDRGTGQLSIKCKEGISKGTKESKPTILVRND-VGRVL 134
V+++V+ KL+ +D + WK+RGTG CK K K +K IL+R D ++
Sbjct: 75 VLYKVRAKLFRFDADAKE---WKERGTGD----CK--FLKNKKTNKVRILMRRDKTLKIC 125
Query: 135 LNALLYP 141
N ++ P
Sbjct: 126 ANHIIAP 132
>pdb|4HAT|B Chain B, Crystal Structure Of Crm1 Inhibitor Leptomycin B In
Complex With Crm1- Ran-ranbp1
pdb|4HAU|B Chain B, Crystal Structure Of Crm1 Inhibitor Ratjadone A In Complex
With Crm1- Ran-ranbp1
pdb|4HAV|B Chain B, Crystal Structure Of Crm1 Inhibitor Anguinomycin A In
Complex With Crm1-ran-ranbp1
pdb|4HAW|B Chain B, Crystal Structure Of Crm1 Inhibitor Leptomycin B In
Complex With Crm1(k548a)-ran-ranbp1
pdb|4HAX|B Chain B, Crystal Structure Of Crm1 Inhibitor Ratjadone A In Complex
With Crm1(k579a)-ran-ranbp1
pdb|4HAY|B Chain B, Crystal Structure Of Crm1 Inhibitor Leptomycin B In
Complex With Crm1(k548e,k579q)-ran-ranbp1
pdb|4HAZ|B Chain B, Crystal Structure Of Crm1 Inhibitor Leptomycin B In
Complex With Crm1(r543s,k548e,k579q)-ran-ranbp1
pdb|4HB0|B Chain B, Crystal Structure Of Crm1 Inhibitor Leptomycin B In
Complex With
Crm1(k541q,k542q,r543s,k545q,k548q,k579q)-ran-ranbp1
pdb|4HB2|B Chain B, Crystal Structure Of Crm1-ran-ranbp1
pdb|4HB3|B Chain B, Crystal Structure Of Crm1(t539s)-ran-ranbp1 Soaked In
Excess Crm1 Inhibitor Leptomycin B
pdb|4HB4|B Chain B, Crystal Structure Of Crm1 Inhibitor Leptomycin B In
Complex With Crm1(537dltvk541/glceq)-ran-ranbp1
Length = 140
Score = 30.8 bits (68), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 35/67 (52%), Gaps = 10/67 (14%)
Query: 76 VVHEVKCKLYVKSSDPADKDTWKDRGTGQLSIKCKEGISKGTKESKPTILVRND-VGRVL 134
V+++V+ KL+ D + WK+RGTG CK K K +K IL+R D ++
Sbjct: 24 VLYKVRAKLFRFDKDAKE---WKERGTGD----CK--FLKNKKTNKVRILMRRDKTLKIC 74
Query: 135 LNALLYP 141
N ++ P
Sbjct: 75 ANHIIAP 81
>pdb|4GPT|B Chain B, Crystal Structure Of Kpt251 In Complex With
Crm1-ran-ranbp1
Length = 140
Score = 30.8 bits (68), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 35/67 (52%), Gaps = 10/67 (14%)
Query: 76 VVHEVKCKLYVKSSDPADKDTWKDRGTGQLSIKCKEGISKGTKESKPTILVRND-VGRVL 134
V+++V+ KL+ D + WK+RGTG CK K K +K IL+R D ++
Sbjct: 24 VLYKVRAKLFRFDKDAKE---WKERGTGD----CK--FLKNKKTNKVRILMRRDKTLKIC 74
Query: 135 LNALLYP 141
N ++ P
Sbjct: 75 ANHIIAP 81
>pdb|2Y8F|A Chain A, Structure Of The Ran-Binding Domain From Human Ranbp3
(Wild Type)
pdb|2Y8F|B Chain B, Structure Of The Ran-Binding Domain From Human Ranbp3
(Wild Type)
pdb|2Y8F|C Chain C, Structure Of The Ran-Binding Domain From Human Ranbp3
(Wild Type)
pdb|2Y8F|D Chain D, Structure Of The Ran-Binding Domain From Human Ranbp3
(Wild Type)
Length = 138
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 38/72 (52%), Gaps = 8/72 (11%)
Query: 77 VHEVKCKLYV--KSSDPADKDTWKDRGTGQLSIKCKEGISKGTKESKPTILVRNDVGRVL 134
V +++CKL+V K+S +W +RG G L + GT +S+ + + + R++
Sbjct: 17 VLQMQCKLFVFDKTSQ-----SWVERGRGLLRLNDMASTDDGTLQSRLVMRTQGSL-RLI 70
Query: 135 LNALLYPGIKTN 146
LN L+ ++ +
Sbjct: 71 LNTKLWAQMQID 82
>pdb|2CRF|A Chain A, Solution Structure Of The Ran_bp1 Domain Of Ran-Binding
Protein-3
Length = 150
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 34/67 (50%), Gaps = 8/67 (11%)
Query: 77 VHEVKCKLYVKSSDPADK--DTWKDRGTGQLSIKCKEGISKGTKESKPTILVRNDVGRVL 134
V +++CKL+V DK +W +RG G L + GT +S+ + + + R++
Sbjct: 29 VLQMQCKLFV-----FDKTSQSWVERGRGLLRLNDMASTDDGTLQSRLVMRTQGSL-RLI 82
Query: 135 LNALLYP 141
LN L+
Sbjct: 83 LNTKLWA 89
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
0.310 0.127 0.349
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,090,906
Number of Sequences: 62578
Number of extensions: 181239
Number of successful extensions: 269
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 268
Number of HSP's gapped (non-prelim): 16
length of query: 200
length of database: 14,973,337
effective HSP length: 94
effective length of query: 106
effective length of database: 9,091,005
effective search space: 963646530
effective search space used: 963646530
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 49 (23.5 bits)