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= 001804
(1011 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WA5|C Chain C, Crystal Structure Of The Exportin Cse1p Complexed With Its
Cargo (Kap60p) And Rangtp
Length = 960
Score = 61.2 bits (147), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 42/149 (28%), Positives = 73/149 (48%), Gaps = 4/149 (2%)
Query: 6 SDLPAIYTLLANSMSRDESIRKPAEAALSQSESRPGFCSCLMEVITAKDLASQVDVRLMA 65
SDL + LA S+ S K +E L Q E++ GF L+ VI + +L + RL
Sbjct: 2 SDLETVAKFLAESVI--ASTAKTSERNLRQLETQDGFGLTLLHVIASTNLP--LSTRLAG 57
Query: 66 SVYFKNSINRYWRNRRDSVGISNEEKVHLRQKLLTHLREENNQVAQMLAVLISKIARFDY 125
+++FKN I R W + + + ++++++ + N + + IS IA D+
Sbjct: 58 ALFFKNFIKRKWVDENGNHLLPANNVELIKKEIVPLMISLPNNLQVQIGEAISSIADSDF 117
Query: 126 PREWPQLFSVLAQQLQAADVLTSHRIFMI 154
P WP L S LA +L D++T+ + +
Sbjct: 118 PDRWPTLLSDLASRLSNDDMVTNKGVLTV 146
>pdb|1Z3H|A Chain A, The Exportin Cse1 In Its Cargo-free, Cytoplasmic State
pdb|1Z3H|B Chain B, The Exportin Cse1 In Its Cargo-free, Cytoplasmic State
Length = 968
Score = 60.8 bits (146), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 42/149 (28%), Positives = 73/149 (48%), Gaps = 4/149 (2%)
Query: 6 SDLPAIYTLLANSMSRDESIRKPAEAALSQSESRPGFCSCLMEVITAKDLASQVDVRLMA 65
SDL + LA S+ S K +E L Q E++ GF L+ VI + +L + RL
Sbjct: 2 SDLETVAKFLAESVI--ASTAKTSERNLRQLETQDGFGLTLLHVIASTNLP--LSTRLAG 57
Query: 66 SVYFKNSINRYWRNRRDSVGISNEEKVHLRQKLLTHLREENNQVAQMLAVLISKIARFDY 125
+++FKN I R W + + + ++++++ + N + + IS IA D+
Sbjct: 58 ALFFKNFIKRKWVDENGNHLLPANNVELIKKEIVPLMISLPNNLQVQIGEAISSIADSDF 117
Query: 126 PREWPQLFSVLAQQLQAADVLTSHRIFMI 154
P WP L S LA +L D++T+ + +
Sbjct: 118 PDRWPTLLSDLASRLSNDDMVTNKGVLTV 146
>pdb|2OT8|A Chain A, Karyopherin Beta2TRANSPORTIN-Hnrnpm Nls Complex
pdb|2OT8|B Chain B, Karyopherin Beta2TRANSPORTIN-Hnrnpm Nls Complex
pdb|4FDD|A Chain A, Crystal Structure Of Kap Beta2-Py-Nls
pdb|4H1K|A Chain A, Crystal Structure Of Human Kap-Beta2 Bound To The Nls Of
Saccharomyces Cerevisiae Nab2
Length = 852
Score = 37.7 bits (86), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 31/138 (22%), Positives = 64/138 (46%), Gaps = 7/138 (5%)
Query: 18 SMSRDESIRKPAEAALSQSESRPGFCSCLMEVITAKDLASQVDVRLMASVYFKNSINRYW 77
S S D +I++ + L Q P F + L+ V+T K + R ++ + KN++ ++
Sbjct: 22 SQSPDTTIQRTVQQKLEQLNQYPDFNNYLIFVLT-KLKSEDEPTRSLSGLILKNNVKAHF 80
Query: 78 RNRRDSVGISNEEKVHLRQKLLTHLREENNQVAQMLAVLISKIARFDYPREWPQLFSVLA 137
+N + G+++ ++ + L ++ + + + + +LI+ IA + WP L L
Sbjct: 81 QNFPN--GVTD----FIKSECLNNIGDSSPLIRATVGILITTIASKGELQNWPDLLPKLC 134
Query: 138 QQLQAADVLTSHRIFMIL 155
L + D T F L
Sbjct: 135 SLLDSEDYNTCEGAFGAL 152
>pdb|2H4M|A Chain A, Karyopherin Beta2TRANSPORTIN-M9nls
pdb|2H4M|B Chain B, Karyopherin Beta2TRANSPORTIN-M9nls
Length = 865
Score = 37.7 bits (86), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 31/138 (22%), Positives = 64/138 (46%), Gaps = 7/138 (5%)
Query: 18 SMSRDESIRKPAEAALSQSESRPGFCSCLMEVITAKDLASQVDVRLMASVYFKNSINRYW 77
S S D +I++ + L Q P F + L+ V+T K + R ++ + KN++ ++
Sbjct: 22 SQSPDTTIQRTVQQKLEQLNQYPDFNNYLIFVLT-KLKSEDEPTRSLSGLILKNNVKAHF 80
Query: 78 RNRRDSVGISNEEKVHLRQKLLTHLREENNQVAQMLAVLISKIARFDYPREWPQLFSVLA 137
+N + G+++ ++ + L ++ + + + + +LI+ IA + WP L L
Sbjct: 81 QNFPN--GVTD----FIKSECLNNIGDSSPLIRATVGILITTIASKGELQNWPDLLPKLC 134
Query: 138 QQLQAADVLTSHRIFMIL 155
L + D T F L
Sbjct: 135 SLLDSEDYNTCEGAFGAL 152
>pdb|1QBK|B Chain B, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear
Transport Complex
Length = 890
Score = 37.4 bits (85), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 31/138 (22%), Positives = 64/138 (46%), Gaps = 7/138 (5%)
Query: 18 SMSRDESIRKPAEAALSQSESRPGFCSCLMEVITAKDLASQVDVRLMASVYFKNSINRYW 77
S S D +I++ + L Q P F + L+ V+T K + R ++ + KN++ ++
Sbjct: 22 SQSPDTTIQRTVQQKLEQLNQYPDFNNYLIFVLT-KLKSEDEPTRSLSGLILKNNVKAHF 80
Query: 78 RNRRDSVGISNEEKVHLRQKLLTHLREENNQVAQMLAVLISKIARFDYPREWPQLFSVLA 137
+N + G+++ ++ + L ++ + + + + +LI+ IA + WP L L
Sbjct: 81 QNFPN--GVTD----FIKSECLNNIGDSSPLIRATVGILITTIASKGELQNWPDLLPKLC 134
Query: 138 QQLQAADVLTSHRIFMIL 155
L + D T F L
Sbjct: 135 SLLDSEDYNTCEGAFGAL 152
>pdb|2QMR|A Chain A, Karyopherin Beta2TRANSPORTIN
pdb|2QMR|B Chain B, Karyopherin Beta2TRANSPORTIN
pdb|2QMR|C Chain C, Karyopherin Beta2TRANSPORTIN
pdb|2QMR|D Chain D, Karyopherin Beta2TRANSPORTIN
pdb|2Z5J|A Chain A, Free Transportin 1
pdb|2Z5K|A Chain A, Complex Of Transportin 1 With Tap Nls
pdb|2Z5M|A Chain A, Complex Of Transportin 1 With Tap Nls, Crystal Form 2
pdb|2Z5N|A Chain A, Complex Of Transportin 1 With Hnrnp D Nls
pdb|2Z5O|A Chain A, Complex Of Transportin 1 With Jktbp Nls
Length = 890
Score = 37.4 bits (85), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 31/138 (22%), Positives = 64/138 (46%), Gaps = 7/138 (5%)
Query: 18 SMSRDESIRKPAEAALSQSESRPGFCSCLMEVITAKDLASQVDVRLMASVYFKNSINRYW 77
S S D +I++ + L Q P F + L+ V+T K + R ++ + KN++ ++
Sbjct: 22 SQSPDTTIQRTVQQKLEQLNQYPDFNNYLIFVLT-KLKSEDEPTRSLSGLILKNNVKAHF 80
Query: 78 RNRRDSVGISNEEKVHLRQKLLTHLREENNQVAQMLAVLISKIARFDYPREWPQLFSVLA 137
+N + G+++ ++ + L ++ + + + + +LI+ IA + WP L L
Sbjct: 81 QNFPN--GVTD----FIKSECLNNIGDSSPLIRATVGILITTIASKGELQNWPDLLPKLC 134
Query: 138 QQLQAADVLTSHRIFMIL 155
L + D T F L
Sbjct: 135 SLLDSEDYNTCEGAFGAL 152
>pdb|3A6P|A Chain A, Crystal Structure Of Exportin-5:rangtp:pre-Mirna Complex
pdb|3A6P|F Chain F, Crystal Structure Of Exportin-5:rangtp:pre-Mirna Complex
Length = 1204
Score = 33.1 bits (74), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 24/121 (19%), Positives = 55/121 (45%), Gaps = 12/121 (9%)
Query: 85 GISNEEKVHLRQKLLT-------HLREENNQVAQMLAVLISKIARFDYPREWPQLFSVLA 137
G+S EKV+L+ ++ ++ EE N + L+ ++ ++ + ++P+ WP + L
Sbjct: 81 GMSRLEKVYLKNSVMELIANGTLNILEEENHIKDALSRIVVEMIKREWPQHWPDMLIELD 140
Query: 138 QQLQAADVLTSHRIFMIL-----FRTLKELSTKRLTADQRNFAEISSHLFDYSWHLWQSD 192
+ + T +F++L T + L +R Q+ + +F + + Q +
Sbjct: 141 TLSKQGETQTELVMFILLRLAEDVVTFQTLPPQRRRDIQQTLTQNMERIFSFLLNTLQEN 200
Query: 193 V 193
V
Sbjct: 201 V 201
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
0.322 0.135 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,982,721
Number of Sequences: 62578
Number of extensions: 1026095
Number of successful extensions: 2260
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 2248
Number of HSP's gapped (non-prelim): 13
length of query: 1011
length of database: 14,973,337
effective HSP length: 108
effective length of query: 903
effective length of database: 8,214,913
effective search space: 7418066439
effective search space used: 7418066439
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (26.2 bits)