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= 035276
(69 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MMY|A Chain A, Structural And Functional Analysis Of The Interaction
Between The Nucleoporin Nup98 And The Mrna Export Factor
Rae1
pdb|3MMY|C Chain C, Structural And Functional Analysis Of The Interaction
Between The Nucleoporin Nup98 And The Mrna Export Factor
Rae1
pdb|3MMY|E Chain E, Structural And Functional Analysis Of The Interaction
Between The Nucleoporin Nup98 And The Mrna Export Factor
Rae1
pdb|3MMY|G Chain G, Structural And Functional Analysis Of The Interaction
Between The Nucleoporin Nup98 And The Mrna Export Factor
Rae1
Length = 368
Score = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/49 (46%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 21 VLCSTLKDDGITVFSGGCDKQVKTWPLLSGGQPVIVAMHDAPIKTIRLL 69
VL DDG VF+ CDK K W LS Q + +A HDAP+KTI +
Sbjct: 89 VLDVCWSDDGSKVFTASCDKTAKMWD-LSSNQAIQIAQHDAPVKTIHWI 136
>pdb|2PBI|B Chain B, The Multifunctional Nature Of Gbeta5RGS9 REVEALED FROM ITS
CRYSTAL Structure
pdb|2PBI|D Chain D, The Multifunctional Nature Of Gbeta5RGS9 REVEALED FROM ITS
CRYSTAL Structure
Length = 354
Score = 33.9 bits (76), Expect = 0.023, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 20 EVLCSTL--KDDGITVFSGGCDKQVKTWPLLSGGQPVIVAMHDAPIKTIR 67
+VLC L + G T SGGCDK+ W + SG H++ + ++R
Sbjct: 198 DVLCLDLAPSETGNTFVSGGCDKKAMVWDMRSGQCVQAFETHESDVNSVR 247
Score = 25.4 bits (54), Expect = 8.1, Method: Composition-based stats.
Identities = 11/39 (28%), Positives = 21/39 (53%)
Query: 30 GITVFSGGCDKQVKTWPLLSGGQPVIVAMHDAPIKTIRL 68
G +F+G D + W +L G + I+ H+ + T+R+
Sbjct: 296 GRLLFAGYNDYTINVWDVLKGSRVSILFGHENRVSTLRV 334
>pdb|1GXR|A Chain A, Wd40 Region Of Human Groucho/tle1
pdb|1GXR|B Chain B, Wd40 Region Of Human Groucho/tle1
pdb|2CE8|A Chain A, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE8|B Chain B, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE8|C Chain C, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE8|D Chain D, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|A Chain A, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|B Chain B, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|C Chain C, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|D Chain D, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain
Length = 337
Score = 29.6 bits (65), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 23 CSTLKDDGITVFSGGCDKQVKTWPLLSGGQPVIVAMHD 60
C + +DG +++GG D V++W L G Q + HD
Sbjct: 188 CIDISNDGTKLWTGGLDNTVRSWDLREGRQ---LQQHD 222
>pdb|3IZB|AA Chain a, Localization Of The Small Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O2Z|T Chain T, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O30|T Chain T, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5C|GG Chain g, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|GG Chain g, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 319
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 28 DDGITVFSGGCDKQVKTWPL 47
DD +T+ S G DK VK W L
Sbjct: 164 DDSVTIISAGNDKMVKAWNL 183
>pdb|3RFH|A Chain A, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P21
pdb|3RFH|B Chain B, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P21
pdb|3RFH|C Chain C, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P21
pdb|3RFH|D Chain D, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P21
Length = 319
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 28 DDGITVFSGGCDKQVKTWPL 47
DD +T+ S G DK VK W L
Sbjct: 164 DDSVTIISAGNDKMVKAWNL 183
>pdb|3RFG|A Chain A, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P63
pdb|3RFG|B Chain B, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P63
Length = 319
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 28 DDGITVFSGGCDKQVKTWPL 47
DD +T+ S G DK VK W L
Sbjct: 164 DDSVTIISAGNDKMVKAWNL 183
>pdb|1TRJ|A Chain A, Homology Model Of Yeast Rack1 Protein Fitted Into 11.7a
Cryo-em Map Of Yeast 80s Ribosome
Length = 314
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 28 DDGITVFSGGCDKQVKTWPL 47
DD +T+ S G DK VK W L
Sbjct: 164 DDSVTIISAGNDKMVKAWNL 183
>pdb|3JYV|R Chain R, Structure Of The 40s Rrna And Proteins And PE TRNA FOR
EUKARYOTIC Ribosome Based On Cryo-Em Map Of Thermomyces
Lanuginosus Ribosome At 8.9a Resolution
Length = 313
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 28 DDGITVFSGGCDKQVKTWPL 47
DD +T+ S G DK VK W L
Sbjct: 158 DDSVTIISAGNDKMVKAWNL 177
>pdb|3FRX|A Chain A, Crystal Structure Of The Yeast Orthologue Of Rack1, Asc1.
pdb|3FRX|B Chain B, Crystal Structure Of The Yeast Orthologue Of Rack1, Asc1.
pdb|3FRX|C Chain C, Crystal Structure Of The Yeast Orthologue Of Rack1, Asc1.
pdb|3FRX|D Chain D, Crystal Structure Of The Yeast Orthologue Of Rack1, Asc1
Length = 319
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 28 DDGITVFSGGCDKQVKTWPL 47
DD +T+ S G DK VK W L
Sbjct: 164 DDSVTIISAGNDKXVKAWNL 183
>pdb|2VYC|A Chain A, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|B Chain B, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|C Chain C, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|D Chain D, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|E Chain E, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|F Chain F, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|G Chain G, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|H Chain H, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|I Chain I, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|J Chain J, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
Length = 755
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 6/55 (10%)
Query: 4 FGA----AAVATNQNPNKSIEVLCSTLKDDGITVFSGGCDKQVKTWPLLSGGQPV 54
FGA + V N++I C T D+ + V C K ++ +L+G +PV
Sbjct: 218 FGADRSWSVVVGTSGSNRTIMQACMT--DNDVVVVDRNCHKSIEQGLMLTGAKPV 270
>pdb|4AEZ|A Chain A, Crystal Structure Of Mitotic Checkpoint Complex
pdb|4AEZ|D Chain D, Crystal Structure Of Mitotic Checkpoint Complex
pdb|4AEZ|G Chain G, Crystal Structure Of Mitotic Checkpoint Complex
Length = 401
Score = 26.2 bits (56), Expect = 4.6, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 22/49 (44%)
Query: 18 SIEVLCSTLKDDGITVFSGGCDKQVKTWPLLSGGQPVIVAMHDAPIKTI 66
S EV + DG+ + SGG D V+ W S H+A +K +
Sbjct: 217 SSEVCGLAWRSDGLQLASGGNDNVVQIWDARSSIPKFTKTNHNAAVKAV 265
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 26.2 bits (56), Expect = 5.6, Method: Composition-based stats.
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 20 EVLCSTLKDDGITVFSGGCDKQVKTWPLLSG 50
EVLC D + + DK+VK W ++G
Sbjct: 665 EVLCCAFSTDDRFIATCSVDKKVKIWNSMTG 695
>pdb|2OVP|B Chain B, Structure Of The Skp1-Fbw7 Complex
pdb|2OVQ|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegc Complex
pdb|2OVR|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegn Complex
Length = 445
Score = 25.8 bits (55), Expect = 6.3, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 25 TLKDDGITVFSGGCDKQVKTWPLLSG 50
+L+ DGI V SG D ++ W + +G
Sbjct: 284 SLQFDGIHVVSGSLDTSIRVWDVETG 309
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 25.8 bits (55), Expect = 6.6, Method: Composition-based stats.
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 20 EVLCSTLKDDGITVFSGGCDKQVKTWPLLSG 50
EVLC D + + DK+VK W +G
Sbjct: 666 EVLCCAFSSDDSYIATCSADKKVKIWDSATG 696
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 25.8 bits (55), Expect = 6.6, Method: Composition-based stats.
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 20 EVLCSTLKDDGITVFSGGCDKQVKTWPLLSG 50
EVLC D + + DK+VK W +G
Sbjct: 659 EVLCCAFSSDDSYIATCSADKKVKIWDSATG 689
>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 = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 16 NKSIEVLCSTLKDDGITVFSGGCDKQVKTWPLLSG 50
NK+I L S+ DG T+FS + + +W + +G
Sbjct: 324 NKAITALSSSA--DGKTLFSADAEGHINSWDISTG 356
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
0.318 0.133 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,006,361
Number of Sequences: 62578
Number of extensions: 64086
Number of successful extensions: 256
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 214
Number of HSP's gapped (non-prelim): 45
length of query: 69
length of database: 14,973,337
effective HSP length: 39
effective length of query: 30
effective length of database: 12,532,795
effective search space: 375983850
effective search space used: 375983850
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)