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= psy3565
(168 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2D9G|A Chain A, Solution Structure Of The Zf-Ranbp Domain Of
Yy1-Associated Factor 2
Length = 53
Score = 74.7 bits (182), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 32/36 (88%), Positives = 33/36 (91%)
Query: 21 DENYWDCSVCTYRNVAEAFKCSMCDVRKGTSTRKPR 56
DE YWDCSVCT+RN AEAFKC MCDVRKGTSTRKPR
Sbjct: 8 DEGYWDCSVCTFRNSAEAFKCMMCDVRKGTSTRKPR 43
>pdb|3IXS|B Chain B, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
pdb|3IXS|D Chain D, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
pdb|3IXS|F Chain F, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
pdb|3IXS|H Chain H, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
pdb|3IXS|J Chain J, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
pdb|3IXS|L Chain L, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
Length = 37
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 19/31 (61%), Positives = 26/31 (83%)
Query: 105 PKLKHVDRTTAQTLEITVNNLTVKVTEFKPK 135
P+LK+VDR+TAQ L +TV N+TV +T+FK K
Sbjct: 4 PRLKNVDRSTAQQLAVTVGNVTVIITDFKEK 34
>pdb|3GJ8|B Chain B, Crystal Structure Of Human Rangdp-Nup153znf34 Complex
pdb|3GJ8|D Chain D, Crystal Structure Of Human Rangdp-Nup153znf34 Complex
Length = 92
Score = 30.4 bits (67), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 20 KDENYWDCSVCTYRNVAEAFKCSMCDVRK 48
K E WDC VC +N A++ KC C+ K
Sbjct: 61 KPEGSWDCEVCLVQNKADSTKCIACESAK 89
>pdb|3GJ5|B Chain B, Crystal Structure Of Human Rangdp-Nup153znf4 Complex
pdb|3GJ5|D Chain D, Crystal Structure Of Human Rangdp-Nup153znf4 Complex
Length = 34
Score = 30.0 bits (66), Expect = 0.64, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 25 WDCSVCTYRNVAEAFKCSMCDVRK 48
WDC VC +N A++ KC C+ K
Sbjct: 8 WDCEVCLVQNKADSTKCIACESAK 31
>pdb|2L0K|A Chain A, Nmr Solution Structure Of A Transcription Factor Spoiiid
In Complex With Dna
Length = 93
Score = 29.3 bits (64), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 19/37 (51%)
Query: 31 TYRNVAEAFKCSMCDVRKGTSTRKPRITPDLVAQVTQ 67
T R +A+ F S V K + R P I PDL +V +
Sbjct: 22 TVRVIAKEFGVSKSTVHKDLTERLPEINPDLANEVKE 58
>pdb|2K0C|A Chain A, Zinc-Finger 2 Of Nup153
Length = 53
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 25 WDCSVCTYRNVAEAFKCSMCDVRK-GTSTRK 54
WDC C +N EA KC C+ K GT ++
Sbjct: 23 WDCDTCLVQNKPEAVKCVACETPKPGTGVKR 53
>pdb|3CH5|B Chain B, The Crystal Structure Of The Rangdp-Nup153znf2 Complex
Length = 52
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 25 WDCSVCTYRNVAEAFKCSMCDVRK-GTSTR 53
WDC C +N EA KC C+ K GT +
Sbjct: 23 WDCDTCLVQNKPEAVKCVACETPKPGTGVK 52
>pdb|3GJ7|B Chain B, Crystal Structure Of Human Rangdp-Nup153znf12 Complex
pdb|3GJ7|D Chain D, Crystal Structure Of Human Rangdp-Nup153znf12 Complex
Length = 98
Score = 28.5 bits (62), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 25 WDCSVCTYRNVAEAFKCSMCDVRK 48
WDC C +N EA KC C+ K
Sbjct: 73 WDCDTCLVQNKPEAVKCVACETPK 96
>pdb|2EBQ|A Chain A, Solution Structure Of The Second Zf-Ranbp Domain From
Human Nuclear Pore Complex Protein Nup153
Length = 47
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 25 WDCSVCTYRNVAEAFKCSMCDVRK-GTSTRK 54
WDC C +N EA KC C+ K GT ++
Sbjct: 12 WDCDTCLVQNKPEAIKCVACETPKPGTCVKR 42
>pdb|3A9J|C Chain C, Crystal Structure Of The Mouse Tab2-Nzf In Complex With
Lys63-Linked Di-Ubiquitin
Length = 34
Score = 28.1 bits (61), Expect = 2.6, Method: Composition-based stats.
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 25 WDCSVCTYRNVAEAFKCSMCDV 46
W+C+ CT+ N +C C++
Sbjct: 9 WNCTACTFLNHPALIRCEQCEM 30
>pdb|3GJ3|B Chain B, Crystal Structure Of Human Rangdp-Nup153znf2 Complex
Length = 33
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 25 WDCSVCTYRNVAEAFKCSMCDVRK 48
WDC C +N EA KC C+ K
Sbjct: 8 WDCDTCLVQNKPEAVKCVACETPK 31
>pdb|2EBR|A Chain A, Solution Structure Of The Fourth Zf-Ranbp Domain From
Human Nuclear Pore Complex Protein Nup153
Length = 47
Score = 27.7 bits (60), Expect = 2.8, Method: Composition-based stats.
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 25 WDCSVCTYRNVAEAFKCSMCDVRK 48
WDC +C +N A++ KC C+ K
Sbjct: 12 WDCELCLVQNKADSTKCLACESAK 35
>pdb|2GQE|A Chain A, Molecular Characterization Of The Ran Binding Zinc
Finger Domain
Length = 32
Score = 27.7 bits (60), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 25 WDCSVCTYRNVAEAFKCSMCDVRK 48
WDC C +N EA KC C+ K
Sbjct: 8 WDCDTCLVQNKPEAIKCVACETPK 31
>pdb|2WX0|C Chain C, Tab2 Nzf Domain In Complex With Lys63-Linked
Di-Ubiquitin, P21
pdb|2WX0|G Chain G, Tab2 Nzf Domain In Complex With Lys63-Linked
Di-Ubiquitin, P21
pdb|2WX1|C Chain C, Tab2 Nzf Domain In Complex With Lys63-Linked
Tri-Ubiquitin, P212121
Length = 31
Score = 27.3 bits (59), Expect = 4.0, Method: Composition-based stats.
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 25 WDCSVCTYRNVAEAFKCSMCDV 46
W+C+ CT+ N +C C++
Sbjct: 6 WNCTACTFLNHPALIRCEQCEM 27
>pdb|2WWZ|C Chain C, Tab2 Nzf Domain In Complex With Lys63-Linked
Di-Ubiquitin, P212121
Length = 32
Score = 27.3 bits (59), Expect = 4.4, Method: Composition-based stats.
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 25 WDCSVCTYRNVAEAFKCSMCDV 46
W+C+ CT+ N +C C++
Sbjct: 7 WNCTACTFLNHPALIRCEQCEM 28
>pdb|1ZOY|B Chain B, Crystal Structure Of Mitochondrial Respiratory Complex Ii
From Porcine Heart At 2.4 Angstroms
pdb|1ZP0|B Chain B, Crystal Structure Of Mitochondrial Respiratory Complex Ii
Bound With 3-Nitropropionate And
2-Thenoyltrifluoroacetone
pdb|3SFD|B Chain B, Crystal Structure Of Porcine Mitochondrial Respiratory
Complex Ii Bound With Oxaloacetate And Pentachlorophenol
pdb|3SFE|B Chain B, Crystal Structure Of Porcine Mitochondrial Respiratory
Complex Ii Bound With Oxaloacetate And Thiabendazole
Length = 252
Score = 27.3 bits (59), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 93 KFKKHGRRKWNPPKLKHVDRTTAQTLEITVNNLTVKVTEFKPKIKKSILDSDL 145
+ KK +W+P K D+ QT EI +NN V + KIK I DS L
Sbjct: 10 RIKKFAIYRWDPDKTG--DKPHMQTYEIDLNNCGPMVLDALIKIKNEI-DSTL 59
>pdb|3ABV|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With
N-Biphenyl-3-Yl-2-Trifluoromethyl-Benzamide
pdb|3AE1|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With N-Phenyl-2-(Trifluoromethyl)-Benzamide
pdb|3AE2|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With 2-Hydroxy-N-Phenyl-Benzamide
pdb|3AE3|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With 2-Nitro-N-Phenyl-Benzamide
pdb|3AE4|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With 2-Iodo-N-Methyl-Benzamide
pdb|3AE5|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With 2-Methyl-N-(3-Isopropoxy-Phenyl)-Benzamide
pdb|3AE6|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With N-(3-Isopropoxy-Phenyl)-Phthalamicacid
pdb|3AE7|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With 2-Iodo-N-(3-Isopropoxy-Phenyl)-Benzamide
pdb|3AE8|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With
N-(3-Isopropoxy-Phenyl)-2-Trifluoromethylbenzamide
pdb|3AE9|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With
N-(3-Pentafluorophenyloxy-Phenyl)-2-Trifluoromethyl-
Benzamide
pdb|3AEA|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With
N-(3-Dimethylaminomethyl-Phenyl)-2-Trifluoromethyl-
Benzamide
pdb|3AEB|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With
N-(3-Phenoxy-Phenyl)-2-Trifluoromethyl-Benzamide
pdb|3AEC|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With 2-Iodo-N-(1-Methylethyl)-Benzamid
pdb|3AED|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With 2-Iodo-N-Phenyl-Benzamide
pdb|3AEE|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With Atpenin A5
pdb|3AEF|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii With An Empty Quinone-Binding Pocket
pdb|3AEG|B Chain B, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With N-Biphenyl-3-Yl-2-Iodo-Benzamide
Length = 252
Score = 26.9 bits (58), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 93 KFKKHGRRKWNPPKLKHVDRTTAQTLEITVNNLTVKVTEFKPKIKKSILDSDL 145
+ KK +W+P K D+ QT EI +NN V + KIK I DS L
Sbjct: 10 RIKKFAIYRWDPDKTG--DKPHMQTYEIDLNNCGPMVLDALIKIKNEI-DSTL 59
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
0.315 0.129 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,983,018
Number of Sequences: 62578
Number of extensions: 119850
Number of successful extensions: 261
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 239
Number of HSP's gapped (non-prelim): 24
length of query: 168
length of database: 14,973,337
effective HSP length: 92
effective length of query: 76
effective length of database: 9,216,161
effective search space: 700428236
effective search space used: 700428236
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: 48 (23.1 bits)