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= 026295
(240 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EWE|A Chain A, Crystal Structure Of The Nup85SEH1 COMPLEX
pdb|3EWE|C Chain C, Crystal Structure Of The Nup85SEH1 COMPLEX
Length = 349
Score = 57.4 bits (137), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 36/141 (25%), Positives = 70/141 (49%), Gaps = 5/141 (3%)
Query: 17 WNYCGQRLATGSTDGTLSIXXXXXXXXXXXTCNLKTKVHAGAILKVVWVPPEFGDAVACI 76
+++ G+ +AT S+D + + + + H +I+ + W PE+G +A
Sbjct: 17 YDFYGRHVATCSSDQHIKVFKLDKDTSNWELSD-SWRAHDSSIVAIDWASPEYGRIIASA 75
Query: 77 CSDGSLLLWEEIV--EDAQPLQW-KLCKSFESTSTQVLDVQFGVSSTSLKLVAAYSDGHV 133
D ++ LWEE E+ +W KLC + + + V+F + LKL +DG +
Sbjct: 76 SYDKTVKLWEEDPDQEECSGRRWNKLC-TLNDSKGSLYSVKFAPAHLGLKLACLGNDGIL 134
Query: 134 KVYELLDPLILKNWQLQAEFQ 154
++Y+ L+P L++W L +E +
Sbjct: 135 RLYDALEPSDLRSWTLTSEMK 155
>pdb|3F3F|A Chain A, Crystal Structure Of The Nucleoporin Pair Nup85-Seh1,
Space Group P21
pdb|3F3F|B Chain B, Crystal Structure Of The Nucleoporin Pair Nup85-Seh1,
Space Group P21
pdb|3F3F|E Chain E, Crystal Structure Of The Nucleoporin Pair Nup85-Seh1,
Space Group P21
pdb|3F3F|F Chain F, Crystal Structure Of The Nucleoporin Pair Nup85-Seh1,
Space Group P21
pdb|3F3G|A Chain A, Crystal Structure Of The Nucleoporin Pair Nup85-Seh1,
Space Group P212121
pdb|3F3G|B Chain B, Crystal Structure Of The Nucleoporin Pair Nup85-Seh1,
Space Group P212121
pdb|3F3G|E Chain E, Crystal Structure Of The Nucleoporin Pair Nup85-Seh1,
Space Group P212121
pdb|3F3G|F Chain F, Crystal Structure Of The Nucleoporin Pair Nup85-Seh1,
Space Group P212121
Length = 351
Score = 57.4 bits (137), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 36/141 (25%), Positives = 70/141 (49%), Gaps = 5/141 (3%)
Query: 17 WNYCGQRLATGSTDGTLSIXXXXXXXXXXXTCNLKTKVHAGAILKVVWVPPEFGDAVACI 76
+++ G+ +AT S+D + + + + H +I+ + W PE+G +A
Sbjct: 19 YDFYGRHVATCSSDQHIKVFKLDKDTSNWELSD-SWRAHDSSIVAIDWASPEYGRIIASA 77
Query: 77 CSDGSLLLWEEIV--EDAQPLQW-KLCKSFESTSTQVLDVQFGVSSTSLKLVAAYSDGHV 133
D ++ LWEE E+ +W KLC + + + V+F + LKL +DG +
Sbjct: 78 SYDKTVKLWEEDPDQEECSGRRWNKLC-TLNDSKGSLYSVKFAPAHLGLKLACLGNDGIL 136
Query: 134 KVYELLDPLILKNWQLQAEFQ 154
++Y+ L+P L++W L +E +
Sbjct: 137 RLYDALEPSDLRSWTLTSEMK 157
>pdb|3F3P|A Chain A, Crystal Structure Of The Nucleoporin Pair Nup85-Seh1,
Space Group P21212
pdb|3F3P|B Chain B, Crystal Structure Of The Nucleoporin Pair Nup85-Seh1,
Space Group P21212
pdb|3F3P|E Chain E, Crystal Structure Of The Nucleoporin Pair Nup85-Seh1,
Space Group P21212
pdb|3F3P|F Chain F, Crystal Structure Of The Nucleoporin Pair Nup85-Seh1,
Space Group P21212
pdb|3F3P|I Chain I, Crystal Structure Of The Nucleoporin Pair Nup85-Seh1,
Space Group P21212
pdb|3F3P|J Chain J, Crystal Structure Of The Nucleoporin Pair Nup85-Seh1,
Space Group P21212
Length = 351
Score = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 36/141 (25%), Positives = 70/141 (49%), Gaps = 5/141 (3%)
Query: 17 WNYCGQRLATGSTDGTLSIXXXXXXXXXXXTCNLKTKVHAGAILKVVWVPPEFGDAVACI 76
+++ G+ +AT S+D + + + + H +I+ + W PE+G +A
Sbjct: 19 YDFYGRHVATCSSDQHIKVFKLDKDTSNWELSD-SWRAHDSSIVAIDWASPEYGRIIASA 77
Query: 77 CSDGSLLLWEEIV--EDAQPLQW-KLCKSFESTSTQVLDVQFGVSSTSLKLVAAYSDGHV 133
D ++ LWEE E+ +W KLC + + + V+F + LKL +DG +
Sbjct: 78 SYDKTVKLWEEDPDQEECSGRRWNKLC-TLNDSKGSLYSVKFAPAHLGLKLACLGNDGIL 136
Query: 134 KVYELLDPLILKNWQLQAEFQ 154
++Y+ L+P L++W L +E +
Sbjct: 137 RLYDALEPSDLRSWTLTSEXK 157
>pdb|2PM6|B Chain B, Crystal Structure Of Yeast Sec1331 EDGE ELEMENT OF THE
Copii Vesicular Coat, Native Version
pdb|2PM6|D Chain D, Crystal Structure Of Yeast Sec1331 EDGE ELEMENT OF THE
Copii Vesicular Coat, Native Version
pdb|3IKO|A Chain A, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3IKO|D Chain D, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3IKO|G Chain G, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3MZK|A Chain A, Sec13SEC16 COMPLEX, S.CEREVISIAE
pdb|3MZK|D Chain D, Sec13SEC16 COMPLEX, S.CEREVISIAE
pdb|3MZL|A Chain A, Sec13SEC31 EDGE ELEMENT, LOOP DELETION MUTANT
pdb|3MZL|C Chain C, Sec13SEC31 EDGE ELEMENT, LOOP DELETION MUTANT
pdb|3MZL|E Chain E, Sec13SEC31 EDGE ELEMENT, LOOP DELETION MUTANT
pdb|3MZL|G Chain G, Sec13SEC31 EDGE ELEMENT, LOOP DELETION MUTANT
Length = 297
Score = 53.9 bits (128), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 57/225 (25%), Positives = 88/225 (39%), Gaps = 30/225 (13%)
Query: 18 NYCGQRLATGSTDGTLSIXXXXXXXXXXXTCNLKTKVHAGAILKVVWVPPEFGDAVACIC 77
+Y G+RLAT S+D T+ I H G + +V W P+FG +A
Sbjct: 18 DYYGKRLATCSSDKTIKIFEVEGETHKLIDT---LTGHEGPVWRVDWAHPKFGTILASCS 74
Query: 78 SDGSLLLWEEIVEDAQPLQWKLCKSFESTSTQVLDVQFGVSSTSLKLVAAYSDGHVKVYE 137
DG +L+W+E + +W S V VQ+ L+ A SDG V V E
Sbjct: 75 YDGKVLIWKE-----ENGRWSQIAVHAVHSASVNSVQWAPHEYGPLLLVASSDGKVSVVE 129
Query: 138 LLDPLILKNWQLQAEFQNAIDSVTMFRKASCISASISWNP----QKGENQGSSFVLGFNS 193
+N S + + S SW P + GE+ G+ F +
Sbjct: 130 FK--------------ENGTTSPIIIDAHAIGVNSASWAPATIEEDGEHNGTKESRKFVT 175
Query: 194 DTPQLNSSKVWEFDEAHNRWLPVAELALPEDRSDEVYAVAWALNI 238
N K+W+++ ++ + L E SD V VAW+ +
Sbjct: 176 GGAD-NLVKIWKYNSDAQTYVLESTL---EGHSDWVRDVAWSPTV 216
>pdb|3JRP|A Chain A, Sec13 With Nup145c (Aa109-179) Insertion Blade
Length = 379
Score = 53.9 bits (128), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 57/225 (25%), Positives = 88/225 (39%), Gaps = 30/225 (13%)
Query: 18 NYCGQRLATGSTDGTLSIXXXXXXXXXXXTCNLKTKVHAGAILKVVWVPPEFGDAVACIC 77
+Y G+RLAT S+D T+ I H G + +V W P+FG +A
Sbjct: 20 DYYGKRLATCSSDKTIKIFEVEGETHKLIDT---LTGHEGPVWRVDWAHPKFGTILASCS 76
Query: 78 SDGSLLLWEEIVEDAQPLQWKLCKSFESTSTQVLDVQFGVSSTSLKLVAAYSDGHVKVYE 137
DG +L+W+E + +W S V VQ+ L+ A SDG V V E
Sbjct: 77 YDGKVLIWKE-----ENGRWSQIAVHAVHSASVNSVQWAPHEYGPLLLVASSDGKVSVVE 131
Query: 138 LLDPLILKNWQLQAEFQNAIDSVTMFRKASCISASISWNP----QKGENQGSSFVLGFNS 193
+N S + + S SW P + GE+ G+ F +
Sbjct: 132 FK--------------ENGTTSPIIIDAHAIGVNSASWAPATIEEDGEHNGTKESRKFVT 177
Query: 194 DTPQLNSSKVWEFDEAHNRWLPVAELALPEDRSDEVYAVAWALNI 238
N K+W+++ ++ + L E SD V VAW+ +
Sbjct: 178 GGAD-NLVKIWKYNSDAQTYVLESTL---EGHSDWVRDVAWSPTV 218
>pdb|2PM9|B Chain B, Crystal Structure Of Yeast Sec1331 VERTEX ELEMENT OF THE
Copii Vesicular Coat
Length = 297
Score = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 55/225 (24%), Positives = 88/225 (39%), Gaps = 30/225 (13%)
Query: 18 NYCGQRLATGSTDGTLSIXXXXXXXXXXXTCNLKTKVHAGAILKVVWVPPEFGDAVACIC 77
+Y G+R+AT S+D T+ I H G + +V W P+FG +A
Sbjct: 18 DYYGKRMATCSSDKTIKIFEVEGETHKLIDT---LTGHEGPVWRVDWAHPKFGTILASCS 74
Query: 78 SDGSLLLWEEIVEDAQPLQWKLCKSFESTSTQVLDVQFGVSSTSLKLVAAYSDGHVKVYE 137
DG +++W+E + +W S V VQ+ L+ A SDG V V E
Sbjct: 75 YDGKVMIWKE-----ENGRWSQIAVHAVHSASVNSVQWAPHEYGPMLLVASSDGKVSVVE 129
Query: 138 LLDPLILKNWQLQAEFQNAIDSVTMFRKASCISASISWNP----QKGENQGSSFVLGFNS 193
+N S + + S SW P + GE+ G+ F +
Sbjct: 130 FK--------------ENGTTSPIIIDAHAIGVNSASWAPATIEEDGEHNGTKESRKFVT 175
Query: 194 DTPQLNSSKVWEFDEAHNRWLPVAELALPEDRSDEVYAVAWALNI 238
N K+W+++ ++ + L E SD V VAW+ +
Sbjct: 176 GGAD-NLVKIWKYNSDAQTYVLESTL---EGHSDWVRDVAWSPTV 216
>pdb|3JRO|A Chain A, Nup84-Nup145c-Sec13 Edge Element Of The Npc Lattice
Length = 753
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 57/222 (25%), Positives = 87/222 (39%), Gaps = 30/222 (13%)
Query: 18 NYCGQRLATGSTDGTLSIXXXXXXXXXXXTCNLKTKVHAGAILKVVWVPPEFGDAVACIC 77
+Y G+RLAT S+D T+ I H G + +V W P+FG +A
Sbjct: 18 DYYGKRLATCSSDKTIKIFEVEGETHKLIDT---LTGHEGPVWRVDWAHPKFGTILASCS 74
Query: 78 SDGSLLLWEEIVEDAQPLQWKLCKSFESTSTQVLDVQFGVSSTSLKLVAAYSDGHVKVYE 137
DG +L+W+E + +W S V VQ+ L+ A SDG V V E
Sbjct: 75 YDGKVLIWKE-----ENGRWSQIAVHAVHSASVNSVQWAPHEYGPLLLVASSDGKVSVVE 129
Query: 138 LLDPLILKNWQLQAEFQNAIDSVTMFRKASCISASISWNP----QKGENQGSSFVLGFNS 193
+N S + + S SW P + GE+ G+ F +
Sbjct: 130 FK--------------ENGTTSPIIIDAHAIGVNSASWAPATIEEDGEHNGTKESRKFVT 175
Query: 194 DTPQLNSSKVWEFDEAHNRWLPVAELALPEDRSDEVYAVAWA 235
N K+W+++ ++ + L E SD V VAW+
Sbjct: 176 GGAD-NLVKIWKYNSDAQTYVLESTL---EGHSDWVRDVAWS 213
>pdb|2PM7|B Chain B, Crystal Structure Of Yeast Sec1331 EDGE ELEMENT OF THE
Copii Vesicular Coat, Selenomethionine Version
pdb|2PM7|D Chain D, Crystal Structure Of Yeast Sec1331 EDGE ELEMENT OF THE
Copii Vesicular Coat, Selenomethionine Version
Length = 297
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 55/225 (24%), Positives = 86/225 (38%), Gaps = 30/225 (13%)
Query: 18 NYCGQRLATGSTDGTLSIXXXXXXXXXXXTCNLKTKVHAGAILKVVWVPPEFGDAVACIC 77
+Y G+R AT S+D T+ I H G + +V W P+FG +A
Sbjct: 18 DYYGKRXATCSSDKTIKIFEVEGETHKLIDT---LTGHEGPVWRVDWAHPKFGTILASCS 74
Query: 78 SDGSLLLWEEIVEDAQPLQWKLCKSFESTSTQVLDVQFGVSSTSLKLVAAYSDGHVKVYE 137
DG + +W+E + +W S V VQ+ L+ A SDG V V E
Sbjct: 75 YDGKVXIWKE-----ENGRWSQIAVHAVHSASVNSVQWAPHEYGPXLLVASSDGKVSVVE 129
Query: 138 LLDPLILKNWQLQAEFQNAIDSVTMFRKASCISASISWNP----QKGENQGSSFVLGFNS 193
+N S + + S SW P + GE+ G+ F +
Sbjct: 130 FK--------------ENGTTSPIIIDAHAIGVNSASWAPATIEEDGEHNGTKESRKFVT 175
Query: 194 DTPQLNSSKVWEFDEAHNRWLPVAELALPEDRSDEVYAVAWALNI 238
N K+W+++ ++ + L E SD V VAW+ +
Sbjct: 176 GGAD-NLVKIWKYNSDAQTYVLESTL---EGHSDWVRDVAWSPTV 216
>pdb|3BG0|A Chain A, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG0|D Chain D, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG0|E Chain E, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG0|H Chain H, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|A Chain A, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|D Chain D, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|E Chain E, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|H Chain H, Architecture Of A Coat For The Nuclear Pore Membrane
Length = 316
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 52/230 (22%), Positives = 84/230 (36%), Gaps = 34/230 (14%)
Query: 18 NYCGQRLATGSTDGTLSIXXXXXXXXXXXTCNLKTKVHAGAILKVVWVPPEFGDAVACIC 77
+Y G RLAT S+D ++ I + H G + +V W P +G+ +A
Sbjct: 22 DYYGTRLATCSSDRSVKIFDVRNGGQILIA---DLRGHEGPVWQVAWAHPMYGNILASCS 78
Query: 78 SDGSLLLWEEIVEDAQPLQWKLCKSFESTSTQVLDVQFGVSSTSLKLVAAYSDGHVKVYE 137
D +++W E + W+ + V V + L L SDG + +
Sbjct: 79 YDRKVIIWRE-----ENGTWEKSHEHAGHDSSVNSVCWAPHDYGLILACGSSDGAISLL- 132
Query: 138 LLDPLILKNWQLQAEFQNAIDSVTMFRKASCISASISWNP--------QKGENQGSSFVL 189
E Q + + C ++SW P Q +++
Sbjct: 133 ----------TYTGEGQWEVKKINNAHTIGC--NAVSWAPAVVPGSLIDHPSGQKPNYIK 180
Query: 190 GFNSDTPQLNSSKVWEFDEAHNRWLPVAELALPEDRSDEVYAVAWALNIG 239
F S N K+W+ +E +W +L E SD V VAWA +IG
Sbjct: 181 RFASGGCD-NLIKLWK-EEEDGQWKEEQKL---EAHSDWVRDVAWAPSIG 225
>pdb|3FM0|A Chain A, Crystal Structure Of Wd40 Protein Ciao1
Length = 345
Score = 33.9 bits (76), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 37/123 (30%), Positives = 53/123 (43%), Gaps = 13/123 (10%)
Query: 16 SWNYCGQRLATGSTDGTLSIXXXXXXXXXXXTCNLKTKVHAGAILKVVWVPPEFGDAVAC 75
+W+ CG LA+ S D T I C + H + V W P G+ +A
Sbjct: 68 AWSPCGNYLASASFDATTCIWKKNQDDFE---CVTTLEGHENEVKSVAWAPS--GNLLAT 122
Query: 76 ICSDGSLLLWEEIVEDAQPLQWKLCKSFESTSTQVLDVQFGVSSTSLKLVAAYS-DGHVK 134
D S+ +WE ED C S ++ TQ DV+ V S +L+A+ S D VK
Sbjct: 123 CSRDKSVWVWEVDEEDEYE-----CVSVLNSHTQ--DVKHVVWHPSQELLASASYDDTVK 175
Query: 135 VYE 137
+Y
Sbjct: 176 LYR 178
>pdb|2DP3|A Chain A, Crystal Structure Of A Double Mutant (C202aA198V) OF
TRIOSEPHOSPHATE Isomerase From Giardia Lamblia
Length = 257
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/100 (23%), Positives = 42/100 (42%), Gaps = 17/100 (17%)
Query: 81 SLLLWEEIVEDAQPLQWKLCKSFESTSTQVLDVQFGVSSTSLKLVAAYSDGHVKVY---- 136
S +LW+E+V +P+ W + +T Q +V G+ ++ VAA H+++
Sbjct: 158 SKMLWKEVVIAYEPV-WSIGTGVVATPEQAEEVHVGLRKWFVEKVAAEGAQHIRIIYGGS 216
Query: 137 ------------ELLDPLILKNWQLQAEFQNAIDSVTMFR 164
+D ++ L+ EF ID +T R
Sbjct: 217 ANGSNCEKLGQCPNIDGFLVGGASLKPEFMTMIDILTKTR 256
>pdb|2YC6|A Chain A, Crystal Structure Of A Triple Mutant (A198v, C202a And
C222n) Of Triosephosphate Isomerase From Giardia Lamblia
Complexed With 2-Phosphoglycolic Acid
Length = 257
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/100 (23%), Positives = 42/100 (42%), Gaps = 17/100 (17%)
Query: 81 SLLLWEEIVEDAQPLQWKLCKSFESTSTQVLDVQFGVSSTSLKLVAAYSDGHVKVY---- 136
S +LW+E+V +P+ W + +T Q +V G+ ++ VAA H+++
Sbjct: 158 SKMLWKEVVIAYEPV-WSIGTGVVATPEQAEEVHVGLRKWFVEKVAAEGAQHIRIIYGGS 216
Query: 137 ------------ELLDPLILKNWQLQAEFQNAIDSVTMFR 164
+D ++ L+ EF ID +T R
Sbjct: 217 ANGSNNEKLGQCPNIDGFLVGGASLKPEFMTMIDILTKTR 256
>pdb|2HES|X Chain X, Cytosolic Iron-sulphur Assembly Protein- 1
Length = 330
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 56/233 (24%), Positives = 90/233 (38%), Gaps = 35/233 (15%)
Query: 10 KGTTSSSWNYCGQRLATGSTDGTLSIXXXXXXXXXXXTCNLKTKV--HAGAILKVVWVPP 67
K S +W LA GS D T+SI +L + H + V W
Sbjct: 59 KAIRSVAWRPHTSLLAAGSFDSTVSIWAKEESADRTFEMDLLAIIEGHENEVKGVAWSND 118
Query: 68 EFGDAVACICSDGSLLLWEEIVEDAQPLQWKLCKSFESTSTQVLDVQFGVSSTSLKLVAA 127
G +A D S+ +WE E + + C S +Q DV+ + S L+A+
Sbjct: 119 --GYYLATCSRDKSVWIWE-TDESGEEYE---CISVLQEHSQ--DVKHVIWHPSEALLAS 170
Query: 128 YS-DGHVKVYELLDPLILKNWQLQAEFQNAIDSVTMFRKASCISASISWNPQKGENQGSS 186
S D V++++ D +W+ A +V W+ + +G
Sbjct: 171 SSYDDTVRIWKDYDD----DWECVAVLNGHEGTV--------------WSSDFDKTEGV- 211
Query: 187 FVLGFNSDTPQLNSSKVWEF--DEAHNRWLPVAELALPEDRSDEVYAVAWALN 237
F L SD + +VW++ D+ ++ V E LP+ +VY VAW N
Sbjct: 212 FRLCSGSDDSTV---RVWKYMGDDEDDQQEWVCEAILPDVHKRQVYNVAWGFN 261
>pdb|1NR0|A Chain A, Two Seven-Bladed Beta-Propeller Domains Revealed By The
Structure Of A C. Elegans Homologue Of Yeast Actin
Interacting Protein 1 (Aip1).
pdb|1PEV|A Chain A, Crystal Structure Of The Actin Interacting Protein From
Caenorhabditis Elegans
Length = 611
Score = 27.3 bits (59), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 38/87 (43%), Gaps = 16/87 (18%)
Query: 50 LKTKVHAGAILKVVWVPPEFGDAVACICSDGSLLLWEEI---VEDAQPLQWKLCKSFEST 106
LK H+G++ + W P G +A +D ++ +W VE P+
Sbjct: 233 LKNVAHSGSVFGLTWSPD--GTKIASASADKTIKIWNVATLKVEKTIPV----------- 279
Query: 107 STQVLDVQFGVSSTSLKLVAAYSDGHV 133
T++ D Q G+ T LV+ ++G +
Sbjct: 280 GTRIEDQQLGIIWTKQALVSISANGFI 306
>pdb|1QBK|B Chain B, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear
Transport Complex
Length = 890
Score = 26.9 bits (58), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 20/29 (68%), Gaps = 1/29 (3%)
Query: 142 LILKNWQLQAEFQNAIDSVTMFRKASCIS 170
LILKN ++A FQN + VT F K+ C++
Sbjct: 70 LILKN-NVKAHFQNFPNGVTDFIKSECLN 97
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
0.316 0.130 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,207,928
Number of Sequences: 62578
Number of extensions: 264209
Number of successful extensions: 668
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 632
Number of HSP's gapped (non-prelim): 28
length of query: 240
length of database: 14,973,337
effective HSP length: 96
effective length of query: 144
effective length of database: 8,965,849
effective search space: 1291082256
effective search space used: 1291082256
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)