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= 046417
(595 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 48/198 (24%), Positives = 80/198 (40%), Gaps = 36/198 (18%)
Query: 57 SFLNCLQTTDSSSKSPVRKQCVNLLTLLSRSHGDSLSPHLSKMISTVSCRLRDPDSSVR- 115
SF+ L + VRK L +L D L PH+ ++ + R +D D +V
Sbjct: 215 SFIENLFALAGDEEPEVRKNVCRALVMLLEVRMDRLLPHMHNIVEYMLQRTQDQDENVAL 274
Query: 116 SACVAATTAMSLNITKPSFSVLSKPL---------------IELILVEQDVNSQVGG--- 157
AC T I K VL + L I++IL++ DV GG
Sbjct: 275 EACEFWLTLAEQPICK---DVLVRHLPKLIPVLVNGMKYSDIDIILLKGDVEGGSGGDDT 331
Query: 158 ------AMCLAAAIDAAPNPEVEQLR-KLLPRLGKAVRIEGFKAKAAVLGVIGSVVRVGG 210
C AAA+D N ++L +LP L + + + K + + V+G++
Sbjct: 332 ISDWNLRKCSAAALDVLANVYRDELLPHILPLLKELLFHHEWVVKESGILVLGAI----- 386
Query: 211 ARSKGVLDWLVPCLVEFL 228
++G + ++P L E +
Sbjct: 387 --AEGCMQGMIPYLPELI 402
>pdb|2H4M|A Chain A, Karyopherin Beta2TRANSPORTIN-M9nls
pdb|2H4M|B Chain B, Karyopherin Beta2TRANSPORTIN-M9nls
Length = 865
Score = 35.8 bits (81), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 50/195 (25%), Positives = 76/195 (38%), Gaps = 13/195 (6%)
Query: 57 SFLNCLQTTDSSSKSPVRKQCVNLLTLLSRSHGDSLSPHLSKMISTVSCRLRDPDSSVR- 115
SF+ L + VRK L +L D L PH+ ++ + R +D D +V
Sbjct: 215 SFIENLFALAGDEEPEVRKNVCRALVMLLEVRMDRLLPHMHNIVEYMLQRTQDQDENVAL 274
Query: 116 SACVAATTAMSLNITKPSFSVLSKPLIELI--LVEQDVNSQVGGAMCLAAAIDAAPNPEV 173
AC T I K VL + L +LI LV S + + + P+
Sbjct: 275 EACEFWLTLAEQPICK---DVLVRHLPKLIPVLVNGMKYSDIDIILLKGDVEEDETIPDS 331
Query: 174 EQLRKLLPRLGKAVRIEGF-KAKAAVLGVIGSVVRVGGARSKGVLDWLVPCLVEFLCCDD 232
EQ G + K AA L V+ +V R +L ++P L E L +
Sbjct: 332 EQDIGGSGGSGDTISDWNLRKCSAAALDVLANVYR------DELLPHILPLLKELLFHHE 385
Query: 233 WATRKAAAEVLGKVA 247
W +++ VLG +A
Sbjct: 386 WVVKESGILVLGAIA 400
>pdb|3MKQ|A Chain A, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
Of The Copi Vesicular Coat
pdb|3MKQ|C Chain C, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
Of The Copi Vesicular Coat
pdb|3MKQ|E Chain E, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
Of The Copi Vesicular Coat
Length = 814
Score = 33.1 bits (74), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 35/157 (22%), Positives = 65/157 (41%), Gaps = 20/157 (12%)
Query: 312 SSGCFP------SITKSSQNVGLRTPQPKKMVPTSRSPASDSSYGTTSKTEISFKSNNRK 365
+SGC S+ +S+ N L T Q + + P D Y T+ +++ K + +
Sbjct: 157 ASGCLDRTVKVWSLGQSTPNFTLTTGQERGVNYVDYYPLPDKPYMITASDDLTIKIWDYQ 216
Query: 366 SGASILCKSADGKSSDWKVEIAVPRTPSSI-----GTCEVHNRTSDSKDAKLGEVENNVN 420
+ + + + +G S+ + P P I GT ++ N ++ +VE +N
Sbjct: 217 TKSCV--ATLEGHMSNVSFAVFHPTLPIIISGSEDGTLKIWNSST-------YKVEKTLN 267
Query: 421 CQPEKKMVIYSKIRDDKMYKCGGFKSGSRVVPYSDDE 457
E+ I + K Y GF +G V+ +DE
Sbjct: 268 VGLERSWCIATHPTGRKNYIASGFDNGFTVLSLGNDE 304
>pdb|2YNP|A Chain A, Yeast Betaprime Cop 1-604 With Ktktn Motif
Length = 604
Score = 32.3 bits (72), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 35/157 (22%), Positives = 65/157 (41%), Gaps = 20/157 (12%)
Query: 312 SSGCFP------SITKSSQNVGLRTPQPKKMVPTSRSPASDSSYGTTSKTEISFKSNNRK 365
+SGC S+ +S+ N L T Q + + P D Y T+ +++ K + +
Sbjct: 157 ASGCLDRTVKVWSLGQSTPNFTLTTGQERGVNYVDYYPLPDKPYMITASDDLTIKIWDYQ 216
Query: 366 SGASILCKSADGKSSDWKVEIAVPRTPSSI-----GTCEVHNRTSDSKDAKLGEVENNVN 420
+ + + + +G S+ + P P I GT ++ N ++ +VE +N
Sbjct: 217 TKSCV--ATLEGHMSNVSFAVFHPTLPIIISGSEDGTLKIWNSST-------YKVEKTLN 267
Query: 421 CQPEKKMVIYSKIRDDKMYKCGGFKSGSRVVPYSDDE 457
E+ I + K Y GF +G V+ +DE
Sbjct: 268 VGLERSWCIATHPTGRKNYIASGFDNGFTVLSLGNDE 304
>pdb|2YNO|A Chain A, Yeast Betaprime Cop 1-304h6
pdb|2YNO|B Chain B, Yeast Betaprime Cop 1-304h6
Length = 310
Score = 32.0 bits (71), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 35/157 (22%), Positives = 65/157 (41%), Gaps = 20/157 (12%)
Query: 312 SSGCFP------SITKSSQNVGLRTPQPKKMVPTSRSPASDSSYGTTSKTEISFKSNNRK 365
+SGC S+ +S+ N L T Q + + P D Y T+ +++ K + +
Sbjct: 157 ASGCLDRTVKVWSLGQSTPNFTLTTGQERGVNYVDYYPLPDKPYMITASDDLTIKIWDYQ 216
Query: 366 SGASILCKSADGKSSDWKVEIAVPRTPSSI-----GTCEVHNRTSDSKDAKLGEVENNVN 420
+ + + + +G S+ + P P I GT ++ N ++ +VE +N
Sbjct: 217 TKSCV--ATLEGHMSNVSFAVFHPTLPIIISGSEDGTLKIWNSST-------YKVEKTLN 267
Query: 421 CQPEKKMVIYSKIRDDKMYKCGGFKSGSRVVPYSDDE 457
E+ I + K Y GF +G V+ +DE
Sbjct: 268 VGLERSWCIATHPTGRKNYIASGFDNGFTVLSLGNDE 304
>pdb|2YNN|A Chain A, Yeast Betaprime Cop 1-304 With Ktktn Motif
Length = 304
Score = 32.0 bits (71), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 35/157 (22%), Positives = 65/157 (41%), Gaps = 20/157 (12%)
Query: 312 SSGCFP------SITKSSQNVGLRTPQPKKMVPTSRSPASDSSYGTTSKTEISFKSNNRK 365
+SGC S+ +S+ N L T Q + + P D Y T+ +++ K + +
Sbjct: 157 ASGCLDRTVKVWSLGQSTPNFTLTTGQERGVNYVDYYPLPDKPYMITASDDLTIKIWDYQ 216
Query: 366 SGASILCKSADGKSSDWKVEIAVPRTPSSI-----GTCEVHNRTSDSKDAKLGEVENNVN 420
+ + + + +G S+ + P P I GT ++ N ++ +VE +N
Sbjct: 217 TKSCV--ATLEGHMSNVSFAVFHPTLPIIISGSEDGTLKIWNSST-------YKVEKTLN 267
Query: 421 CQPEKKMVIYSKIRDDKMYKCGGFKSGSRVVPYSDDE 457
E+ I + K Y GF +G V+ +DE
Sbjct: 268 VGLERSWCIATHPTGRKNYIASGFDNGFTVLSLGNDE 304
>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 = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 51/222 (22%), Positives = 80/222 (36%), Gaps = 42/222 (18%)
Query: 57 SFLNCLQTTDSSSKSPVRKQCVNLLTLLSRSHGDSLSPHLSKMISTVSCRLRDPDSSVR- 115
SF+ L + VRK L +L D L PH+ ++ + R +D D +V
Sbjct: 215 SFIENLFALAGDEEPEVRKNVCRALVMLLEVRMDRLLPHMHNIVEYMLQRTQDQDENVAL 274
Query: 116 SACVAATTAMSLNITKPSFSVLSKPLIELI--LVEQDVNSQVGGAMCLAAAIDAAPNPEV 173
AC T I K VL + L +LI LV S + + + P+
Sbjct: 275 EACEFWLTLAEQPICK---DVLVRHLPKLIPVLVNGMKYSDIDIILLKGDVEEDETIPDS 331
Query: 174 EQLRKLLPRLGKAVRIEG----------------------------FKAKAAVLGVIGSV 205
EQ + PR ++ + K AA L V+ +V
Sbjct: 332 EQ--DIRPRFHRSRTVAQQHDEDGIEEEDDDDDEIDDDDTISDWNLRKCSAAALDVLANV 389
Query: 206 VRVGGARSKGVLDWLVPCLVEFLCCDDWATRKAAAEVLGKVA 247
R +L ++P L E L +W +++ VLG +A
Sbjct: 390 YR------DELLPHILPLLKELLFHHEWVVKESGILVLGAIA 425
>pdb|3OCD|A Chain A, Diheme Soxax - C236m Mutant
pdb|3OCD|C Chain C, Diheme Soxax - C236m Mutant
Length = 275
Score = 30.4 bits (67), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 21/42 (50%)
Query: 18 DLKQRVITCLNKLADRDTLPVATAELESIARTLTQDSFSSFL 59
DL+QR++ C+ + RDT P+ RT + +F+
Sbjct: 102 DLEQRLLWCMETIQGRDTKPLVAKPFSGPGRTSDMEDLVAFI 143
>pdb|3OA8|A Chain A, Diheme Soxax
pdb|3OA8|C Chain C, Diheme Soxax
pdb|3OA8|E Chain E, Diheme Soxax
Length = 275
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 21/42 (50%)
Query: 18 DLKQRVITCLNKLADRDTLPVATAELESIARTLTQDSFSSFL 59
DL+QR++ C+ + RDT P+ RT + +F+
Sbjct: 102 DLEQRLLWCMETIQGRDTKPLVAKPFSGPGRTSDMEDLVAFI 143
>pdb|2ZBK|B Chain B, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
pdb|2ZBK|D Chain D, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
pdb|2ZBK|F Chain F, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
pdb|2ZBK|H Chain H, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
Length = 530
Score = 28.9 bits (63), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 1/55 (1%)
Query: 436 DKMYKCGGFKSGSRVVPYSDDEMSDFVHHNGIDEDFDYPKDPEDLSLIREQLLQI 490
DK+ + G K +V +++E++ V DEDF P + LS+I E L+++
Sbjct: 271 DKILELAGLKPNKKVKNLTEEEITRLVETFKKDEDFRSP-SADSLSVIGEDLIEL 324
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
0.314 0.129 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,662,517
Number of Sequences: 62578
Number of extensions: 587910
Number of successful extensions: 1418
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1401
Number of HSP's gapped (non-prelim): 29
length of query: 595
length of database: 14,973,337
effective HSP length: 104
effective length of query: 491
effective length of database: 8,465,225
effective search space: 4156425475
effective search space used: 4156425475
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 54 (25.4 bits)