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= psy17507
(1121 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2Q5X|A Chain A, Crystal Structure Of The C-Terminal Domain Of Hnup98
Length = 155
Score = 147 bits (371), Expect = 3e-35, Method: Composition-based stats.
Identities = 70/151 (46%), Positives = 98/151 (64%), Gaps = 3/151 (1%)
Query: 546 LTRKGYFVSPTLNELKQLKTKNGPCIVEGFTIGHEEFGSICFLESIDISELNNVDLDSIV 605
LT+ GY+ P++++L ++ + G CIV FTIG + +GSI F ++++ LN LD IV
Sbjct: 4 LTKVGYYTIPSMDDLAKITNEKGECIVSDFTIGRKGYGSIYFEGDVNLTNLN---LDDIV 60
Query: 606 EFRFKEVVLYPDDANKPPVGTALNRPAKVTLLKVWPKDKSTGELIKDVQKIKNMNYEAIV 665
R KEVV+Y DD KPPVG LNR A+VTL VWP DK++ LIK ++ ++NYE +
Sbjct: 61 HIRRKEVVVYLDDNQKPPVGEGLNRKAEVTLDGVWPTDKTSRCLIKSPDRLADINYEGRL 120
Query: 666 IRACTRMNVEFVSYQPETGSWCFKVQHFSKY 696
+ +F Y+PETGSW FKV HF+KY
Sbjct: 121 EAVSRKQGAQFKEYRPETGSWVFKVSHFAKY 151
>pdb|2Q5Y|A Chain A, Crystal Structure Of The C-Terminal Domain Of Hnup98
pdb|2Q5Y|C Chain C, Crystal Structure Of The C-Terminal Domain Of Hnup98
Length = 152
Score = 141 bits (356), Expect = 2e-33, Method: Composition-based stats.
Identities = 68/148 (45%), Positives = 95/148 (64%), Gaps = 3/148 (2%)
Query: 546 LTRKGYFVSPTLNELKQLKTKNGPCIVEGFTIGHEEFGSICFLESIDISELNNVDLDSIV 605
LT+ GY+ P++++L ++ + G CIV FTIG + +GSI F ++++ LN LD IV
Sbjct: 8 LTKVGYYTIPSMDDLAKITNEKGECIVSDFTIGRKGYGSIYFEGDVNLTNLN---LDDIV 64
Query: 606 EFRFKEVVLYPDDANKPPVGTALNRPAKVTLLKVWPKDKSTGELIKDVQKIKNMNYEAIV 665
R KEVV+Y DD KPPVG LNR A+VTL VWP DK++ LIK ++ ++NYE +
Sbjct: 65 HIRRKEVVVYLDDNQKPPVGEGLNRKAEVTLDGVWPTDKTSRCLIKSPDRLADINYEGRL 124
Query: 666 IRACTRMNVEFVSYQPETGSWCFKVQHF 693
+ +F Y+PETGSW FKV HF
Sbjct: 125 EAVSRKQGAQFKEYRPETGSWVFKVSHF 152
>pdb|3TKN|C Chain C, Structure Of The Nup82-Nup159-Nup98 Heterotrimer
pdb|3TKN|F Chain F, Structure Of The Nup82-Nup159-Nup98 Heterotrimer
pdb|3TKN|I Chain I, Structure Of The Nup82-Nup159-Nup98 Heterotrimer
Length = 152
Score = 141 bits (355), Expect = 2e-33, Method: Composition-based stats.
Identities = 67/148 (45%), Positives = 95/148 (64%), Gaps = 3/148 (2%)
Query: 546 LTRKGYFVSPTLNELKQLKTKNGPCIVEGFTIGHEEFGSICFLESIDISELNNVDLDSIV 605
LT+ GY+ P++++L ++ + G CIV FTIG + +GSI F ++++ LN LD IV
Sbjct: 8 LTKVGYYTIPSMDDLAKITNEKGECIVSDFTIGRKGYGSIYFEGDVNLTNLN---LDDIV 64
Query: 606 EFRFKEVVLYPDDANKPPVGTALNRPAKVTLLKVWPKDKSTGELIKDVQKIKNMNYEAIV 665
R KEV++Y DD KPPVG LNR A+VTL VWP DK++ LIK ++ ++NYE +
Sbjct: 65 HIRRKEVIVYVDDNQKPPVGEGLNRKAEVTLDGVWPTDKTSRCLIKSPDRLADINYEGRL 124
Query: 666 IRACTRMNVEFVSYQPETGSWCFKVQHF 693
+ +F Y+PETGSW FKV HF
Sbjct: 125 EAVSRKQGAQFKEYRPETGSWVFKVSHF 152
>pdb|1KO6|A Chain A, Crystal Structure Of C-Terminal Autoproteolytic Domain Of
Nucleoporin Nup98
pdb|1KO6|C Chain C, Crystal Structure Of C-Terminal Autoproteolytic Domain Of
Nucleoporin Nup98
Length = 187
Score = 140 bits (353), Expect = 4e-33, Method: Composition-based stats.
Identities = 68/148 (45%), Positives = 95/148 (64%), Gaps = 3/148 (2%)
Query: 546 LTRKGYFVSPTLNELKQLKTKNGPCIVEGFTIGHEEFGSICFLESIDISELNNVDLDSIV 605
LT+ GY+ P++++L ++ + G CIV FTIG + +GSI F ++++ LN LD IV
Sbjct: 43 LTKVGYYTIPSMDDLAKITNEKGECIVSDFTIGRKGYGSIYFEGDVNLTNLN---LDDIV 99
Query: 606 EFRFKEVVLYPDDANKPPVGTALNRPAKVTLLKVWPKDKSTGELIKDVQKIKNMNYEAIV 665
R KEVV+Y DD KPPVG LNR A+VTL VWP DK++ LIK ++ ++NYE +
Sbjct: 100 HIRRKEVVVYLDDNQKPPVGEGLNRKAEVTLDGVWPTDKTSRCLIKSPDRLADINYEGRL 159
Query: 666 IRACTRMNVEFVSYQPETGSWCFKVQHF 693
+ +F Y+PETGSW FKV HF
Sbjct: 160 EAVSRKQGAQFKEYRPETGSWVFKVSHF 187
>pdb|3NF5|A Chain A, Crystal Structure Of The C-Terminal Domain Of Nuclear Pore
Complex Component Nup116 From Candida Glabrata
pdb|3NF5|B Chain B, Crystal Structure Of The C-Terminal Domain Of Nuclear Pore
Complex Component Nup116 From Candida Glabrata
Length = 164
Score = 75.1 bits (183), Expect = 2e-13, Method: Composition-based stats.
Identities = 47/151 (31%), Positives = 80/151 (52%), Gaps = 5/151 (3%)
Query: 543 DFKLTRKGYFVSPTLNELKQLKTKNGPCIVEGFTIGHEEFGSICFLESIDISELNNVDL- 601
D + + Y++SP+L+ L L +K VE +G++++G I FL+ +D+S++ +
Sbjct: 8 DLEFVDENYYISPSLDTLATL-SKYEIQKVENLVVGNKQYGKIEFLDPVDLSDIPLGSIC 66
Query: 602 DSIVEFRFKEVVLYPDDANKPPVGTALNRPAKVTLLKVWPKDKSTGELIKDVQKIKNMNY 661
D +V F+ V+LY + N P G LN A+++ +P DKST + IKD Y
Sbjct: 67 DDLVVFQPXSVLLYNNSTNVPEKGKGLNVRARISCYNCYPLDKSTRKPIKDPNHRIXERY 126
Query: 662 EAIVIRACTRMNVEFVSYQPETGSWCFKVQH 692
+ + + F SY P +G++CF V H
Sbjct: 127 SEKLKKI---PHTHFESYDPASGTYCFTVDH 154
>pdb|3KEP|A Chain A, Crystal Structure Of The Autoproteolytic Domain From The
Nuclear Pore Complex Component Nup145 From Saccharomyces
Cerevisiae
pdb|3KEP|B Chain B, Crystal Structure Of The Autoproteolytic Domain From The
Nuclear Pore Complex Component Nup145 From Saccharomyces
Cerevisiae
pdb|3KES|A Chain A, Crystal Structure Of The Autoproteolytic Domain From The
Nuclear Pore Complex Component Nup145 From Saccharomyces
Cerevisiae In The Hexagonal, P61 Space Group
pdb|3KES|B Chain B, Crystal Structure Of The Autoproteolytic Domain From The
Nuclear Pore Complex Component Nup145 From Saccharomyces
Cerevisiae In The Hexagonal, P61 Space Group
Length = 174
Score = 71.6 bits (174), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 54/149 (36%), Positives = 75/149 (50%), Gaps = 8/149 (5%)
Query: 550 GYFVSPTLNELKQLKTKNGPCIVEGFTIGHEEFGSICFLESIDISELNNVDLDS----IV 605
GY+ SP+ +L++L K V F IG +G I F +D++ + IV
Sbjct: 21 GYWCSPSPEQLERLSLKQ-LAAVSNFVIGRRGYGCITFQHDVDLTAFTKSFREELFGKIV 79
Query: 606 EFRF-KEVVLYPDDANKPPVGTALNRPAKVTLLKVWPKDKSTGELIKDVQKIKNMNYEAI 664
FR K V +YPD+A KP +G LN PA +TL V+P DK T + KD K
Sbjct: 80 IFRSSKTVEVYPDEATKPXIGHGLNVPAIITLENVYPVDKKTKKPXKDTTKFAEFQVFDR 139
Query: 665 VIRACTRMNVEFVSYQPETGSWCFKVQHF 693
+R+ N ++SY P G+W FKV HF
Sbjct: 140 KLRSXREXN--YISYNPFGGTWTFKVNHF 166
>pdb|3PBP|B Chain B, Structure Of The Yeast Heterotrimeric Nup82-Nup159-Nup116
Nucleoporin Complex
pdb|3PBP|E Chain E, Structure Of The Yeast Heterotrimeric Nup82-Nup159-Nup116
Nucleoporin Complex
pdb|3PBP|H Chain H, Structure Of The Yeast Heterotrimeric Nup82-Nup159-Nup116
Nucleoporin Complex
pdb|3PBP|K Chain K, Structure Of The Yeast Heterotrimeric Nup82-Nup159-Nup116
Nucleoporin Complex
Length = 148
Score = 66.2 bits (160), Expect = 9e-11, Method: Composition-based stats.
Identities = 46/152 (30%), Positives = 78/152 (51%), Gaps = 19/152 (12%)
Query: 549 KGYFVSPTLNELKQ---LKTKNGPCIVEGFTIGHEEFGSICFLESIDISELNNVDLDS-I 604
+ Y++SP+L+ L L+ + P +V +GH+ +G I FLE +D++ + L I
Sbjct: 3 ENYYISPSLDTLSSYSLLQLRKVPHLV----VGHKSYGKIEFLEPVDLAGIPLTSLGGVI 58
Query: 605 VEFRFKEVVLYPDDANKPPVGTALNRPAKVTLLKVWPKDKSTGELIKDVQKIKNMNYEAI 664
+ F K ++Y + N+P G +N A++T +P DKST + IKD +
Sbjct: 59 ITFEPKTCIIYANLPNRPKRGEGINVRARITCFNCYPVDKSTRKPIKDPN-------HQL 111
Query: 665 VIRACTRM----NVEFVSYQPETGSWCFKVQH 692
V R R+ N +F SY ++G++ F V H
Sbjct: 112 VKRHIERLKKNPNSKFESYDADSGTYVFIVNH 143
>pdb|2AIV|A Chain A, Multiple Conformations In The Ligand-Binding Site Of The
Yeast Nuclear Pore Targeting Domain Of Nup116p
Length = 149
Score = 66.2 bits (160), Expect = 1e-10, Method: Composition-based stats.
Identities = 46/152 (30%), Positives = 78/152 (51%), Gaps = 19/152 (12%)
Query: 549 KGYFVSPTLNELKQ---LKTKNGPCIVEGFTIGHEEFGSICFLESIDISELNNVDLDS-I 604
+ Y++SP+L+ L L+ + P +V +GH+ +G I FLE +D++ + L I
Sbjct: 4 ENYYISPSLDTLSSYSLLQLRKVPHLV----VGHKSYGKIEFLEPVDLAGIPLTSLGGVI 59
Query: 605 VEFRFKEVVLYPDDANKPPVGTALNRPAKVTLLKVWPKDKSTGELIKDVQKIKNMNYEAI 664
+ F K ++Y + N+P G +N A++T +P DKST + IKD +
Sbjct: 60 ITFEPKTCIIYANLPNRPKRGEGINVRARITCFNCYPVDKSTRKPIKDPN-------HQL 112
Query: 665 VIRACTRM----NVEFVSYQPETGSWCFKVQH 692
V R R+ N +F SY ++G++ F V H
Sbjct: 113 VKRHIERLKKNPNSKFESYDADSGTYVFIVNH 144
>pdb|1UYP|A Chain A, The Three-Dimensional Structure Of Beta-Fructosidase
(Invertase) From Thermotoga Maritima
pdb|1UYP|B Chain B, The Three-Dimensional Structure Of Beta-Fructosidase
(Invertase) From Thermotoga Maritima
pdb|1UYP|C Chain C, The Three-Dimensional Structure Of Beta-Fructosidase
(Invertase) From Thermotoga Maritima
pdb|1UYP|D Chain D, The Three-Dimensional Structure Of Beta-Fructosidase
(Invertase) From Thermotoga Maritima
pdb|1UYP|E Chain E, The Three-Dimensional Structure Of Beta-Fructosidase
(Invertase) From Thermotoga Maritima
pdb|1UYP|F Chain F, The Three-Dimensional Structure Of Beta-Fructosidase
(Invertase) From Thermotoga Maritima
Length = 432
Score = 32.0 bits (71), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 38/77 (49%), Gaps = 10/77 (12%)
Query: 581 EFGSICFLESIDISELNNVDLDSIVEFRFKEVVLYPDDANKPPV-GTALNRPAKVTLLKV 639
E+G+IC+ ++ D +V +R V LYPDD G+A+ + K+ L+
Sbjct: 40 EWGNICWGHAVS---------DDLVHWRHLPVALYPDDETHGVFSGSAVEKDGKMFLVYT 90
Query: 640 WPKDKSTGELIKDVQKI 656
+ +D + + K+ Q +
Sbjct: 91 YYRDPTHNKGEKETQCV 107
>pdb|1W2T|A Chain A, Beta-Fructosidase From Thermotoga Maritima In Complex With
Raffinose
pdb|1W2T|B Chain B, Beta-Fructosidase From Thermotoga Maritima In Complex With
Raffinose
pdb|1W2T|C Chain C, Beta-Fructosidase From Thermotoga Maritima In Complex With
Raffinose
pdb|1W2T|D Chain D, Beta-Fructosidase From Thermotoga Maritima In Complex With
Raffinose
pdb|1W2T|E Chain E, Beta-Fructosidase From Thermotoga Maritima In Complex With
Raffinose
pdb|1W2T|F Chain F, Beta-Fructosidase From Thermotoga Maritima In Complex With
Raffinose
Length = 432
Score = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 38/77 (49%), Gaps = 10/77 (12%)
Query: 581 EFGSICFLESIDISELNNVDLDSIVEFRFKEVVLYPDDANKPPV-GTALNRPAKVTLLKV 639
E+G+IC+ ++ D +V +R V LYPDD G+A+ + K+ L+
Sbjct: 40 EWGNICWGHAVS---------DDLVHWRHLPVALYPDDETHGVFSGSAVEKDGKMFLVYT 90
Query: 640 WPKDKSTGELIKDVQKI 656
+ +D + + K+ Q +
Sbjct: 91 YYRDPTHNKGEKETQCV 107
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
0.313 0.129 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 31,560,373
Number of Sequences: 62578
Number of extensions: 1302474
Number of successful extensions: 2940
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 2919
Number of HSP's gapped (non-prelim): 18
length of query: 1121
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1012
effective length of database: 8,152,335
effective search space: 8250163020
effective search space used: 8250163020
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 57 (26.6 bits)