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= 045385
(188 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DOS|A Chain A, Structural Basis For The Recognition Of Lys48-Linked
Polyubiquitin Chain By The Josephin Domain Of Ataxin-3,
A Putative Deubiquitinating Enzyme
Length = 176
Score = 155 bits (393), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 73/167 (43%), Positives = 107/167 (64%)
Query: 10 LYHEVQESKLCAVHCVNTVLQGPFFSEFDLAALASDLDRSERQVMLEGRVPAASSGDFLT 69
++HE QE LCA HC+N +LQG +FS +L+++A LD ER M EG V + FL
Sbjct: 9 IFHEKQEGSLCAQHCLNNLLQGEYFSPVELSSIAHQLDEEERMRMAEGGVTSEDYRTFLQ 68
Query: 70 EESHNVSLDGDFSIQVLQKALEVWDLQVIPLNCPIAEPAQIDPELENAFICHLHDHWFCI 129
+ S N+ G FSIQV+ AL+VW L++I N P + +IDP E +FIC+ +HWF +
Sbjct: 69 QPSGNMDDSGFFSIQVISNALKVWGLELILFNSPEYQRLRIDPINERSFICNYKEHWFTV 128
Query: 130 RKVNGEWYNFDSLYAAPEHLSKFYLSAYLDSLKGFGWSIFIVRGNFP 176
RK+ +W+N +SL PE +S YL+ +L L+ G+SIF+V+G+ P
Sbjct: 129 RKLGKQWFNLNSLLTGPELISDTYLALFLAQLQQEGYSIFVVKGDLP 175
>pdb|2AGA|A Chain A, De-Ubiquitinating Function Of Ataxin-3: Insights From The
Solution Structure Of The Josephin Domain
Length = 190
Score = 155 bits (393), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 73/167 (43%), Positives = 107/167 (64%)
Query: 10 LYHEVQESKLCAVHCVNTVLQGPFFSEFDLAALASDLDRSERQVMLEGRVPAASSGDFLT 69
++HE QE LCA HC+N +LQG +FS +L+++A LD ER M EG V + FL
Sbjct: 9 IFHEKQEGSLCAQHCLNNLLQGEYFSPVELSSIAHQLDEEERMRMAEGGVTSEDYRTFLQ 68
Query: 70 EESHNVSLDGDFSIQVLQKALEVWDLQVIPLNCPIAEPAQIDPELENAFICHLHDHWFCI 129
+ S N+ G FSIQV+ AL+VW L++I N P + +IDP E +FIC+ +HWF +
Sbjct: 69 QPSGNMDDSGFFSIQVISNALKVWGLELILFNSPEYQRLRIDPINERSFICNYKEHWFTV 128
Query: 130 RKVNGEWYNFDSLYAAPEHLSKFYLSAYLDSLKGFGWSIFIVRGNFP 176
RK+ +W+N +SL PE +S YL+ +L L+ G+SIF+V+G+ P
Sbjct: 129 RKLGKQWFNLNSLLTGPELISDTYLALFLAQLQQEGYSIFVVKGDLP 175
>pdb|2JRI|A Chain A, Solution Structure Of The Josephin Domain Of Ataxin-3 In
Complex With Ubiquitin Molecule.
pdb|1YZB|A Chain A, Solution Structure Of The Josephin Domain Of Ataxin-3
Length = 182
Score = 155 bits (393), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 73/167 (43%), Positives = 107/167 (64%)
Query: 10 LYHEVQESKLCAVHCVNTVLQGPFFSEFDLAALASDLDRSERQVMLEGRVPAASSGDFLT 69
++HE QE LCA HC+N +LQG +FS +L+++A LD ER M EG V + FL
Sbjct: 4 IFHEKQEGSLCAQHCLNNLLQGEYFSPVELSSIAHQLDEEERMRMAEGGVTSEDYRTFLQ 63
Query: 70 EESHNVSLDGDFSIQVLQKALEVWDLQVIPLNCPIAEPAQIDPELENAFICHLHDHWFCI 129
+ S N+ G FSIQV+ AL+VW L++I N P + +IDP E +FIC+ +HWF +
Sbjct: 64 QPSGNMDDSGFFSIQVISNALKVWGLELILFNSPEYQRLRIDPINERSFICNYKEHWFTV 123
Query: 130 RKVNGEWYNFDSLYAAPEHLSKFYLSAYLDSLKGFGWSIFIVRGNFP 176
RK+ +W+N +SL PE +S YL+ +L L+ G+SIF+V+G+ P
Sbjct: 124 RKLGKQWFNLNSLLTGPELISDTYLALFLAQLQQEGYSIFVVKGDLP 170
>pdb|3O65|A Chain A, Crystal Structure Of A Josephin-Ubiquitin Complex:
Evolutionary Restraints On Ataxin-3 Deubiquitinating
Activity
pdb|3O65|C Chain C, Crystal Structure Of A Josephin-Ubiquitin Complex:
Evolutionary Restraints On Ataxin-3 Deubiquitinating
Activity
pdb|3O65|E Chain E, Crystal Structure Of A Josephin-Ubiquitin Complex:
Evolutionary Restraints On Ataxin-3 Deubiquitinating
Activity
pdb|3O65|G Chain G, Crystal Structure Of A Josephin-Ubiquitin Complex:
Evolutionary Restraints On Ataxin-3 Deubiquitinating
Activity
Length = 191
Score = 134 bits (337), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 71/168 (42%), Positives = 99/168 (58%)
Query: 9 MLYHEVQESKLCAVHCVNTVLQGPFFSEFDLAALASDLDRSERQVMLEGRVPAASSGDFL 68
++HE QE LCA HC+N +LQG +FS +LA++A LD ER EG V + FL
Sbjct: 4 FIFHEKQEGFLCAQHCLNNLLQGEYFSPVELASIAHQLDEEERXRXAEGGVTSEEYLAFL 63
Query: 69 TEESHNVSLDGDFSIQVLQKALEVWDLQVIPLNCPIAEPAQIDPELENAFICHLHDHWFC 128
+ S N G FSIQV+ AL+ W L++I N P + IDP E +FIC+ HWF
Sbjct: 64 QQPSENXDDTGFFSIQVISNALKFWGLEIIHFNNPEYQKLGIDPINERSFICNYKQHWFT 123
Query: 129 IRKVNGEWYNFDSLYAAPEHLSKFYLSAYLDSLKGFGWSIFIVRGNFP 176
IRK W+N +SL A PE +S L+ +L L+ +S+F+V+G+ P
Sbjct: 124 IRKFGKHWFNLNSLLAGPELISDTCLANFLARLQQQAYSVFVVKGDLP 171
>pdb|3B4U|A Chain A, Crystal Structure Of Dihydrodipicolinate Synthase From
Agrobacterium Tumefaciens Str. C58
pdb|3B4U|B Chain B, Crystal Structure Of Dihydrodipicolinate Synthase From
Agrobacterium Tumefaciens Str. C58
Length = 294
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 30/62 (48%)
Query: 38 DLAALASDLDRSERQVMLEGRVPAASSGDFLTEESHNVSLDGDFSIQVLQKALEVWDLQV 97
DLA L D R V L G+ + +FLT+E +++DG +++ +E+ V
Sbjct: 187 DLAILIGDERDLARGVRLGGQGAISGVANFLTQEVRAMAVDGKDDPRIVDLVVELLKFPV 246
Query: 98 IP 99
P
Sbjct: 247 TP 248
>pdb|4GVL|A Chain A, Crystal Structure Of The Gsuk Rck Domain
pdb|4GVL|B Chain B, Crystal Structure Of The Gsuk Rck Domain
pdb|4GVL|C Chain C, Crystal Structure Of The Gsuk Rck Domain
pdb|4GVL|D Chain D, Crystal Structure Of The Gsuk Rck Domain
Length = 462
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 121 HLHDHWFCIRKVNGEWYNFDSLYAA 145
HLH H + + NGE N D LYAA
Sbjct: 328 HLHSHIRIVARANGEE-NVDQLYAA 351
>pdb|2OXE|A Chain A, Structure Of The Human Pancreatic Lipase-Related Protein 2
pdb|2OXE|B Chain B, Structure Of The Human Pancreatic Lipase-Related Protein 2
Length = 466
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%)
Query: 65 GDFLTEESHNVSLDGDFSIQVLQKALEVWDLQVIPLNCPIAEPAQI 110
G + SH ++D DF++ +QK +W+ + I L+ P +QI
Sbjct: 379 GSLKPDASHTCAIDVDFNVGKIQKVKFLWNKRGINLSEPKLGASQI 424
>pdb|2PVS|A Chain A, Structure Of Human Pancreatic Lipase Related Protein 2
Mutant N336q
pdb|2PVS|B Chain B, Structure Of Human Pancreatic Lipase Related Protein 2
Mutant N336q
Length = 452
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%)
Query: 65 GDFLTEESHNVSLDGDFSIQVLQKALEVWDLQVIPLNCPIAEPAQI 110
G + SH ++D DF++ +QK +W+ + I L+ P +QI
Sbjct: 377 GSLKPDASHTCAIDVDFNVGKIQKVKFLWNKRGINLSEPKLGASQI 422
>pdb|1VQ0|A Chain A, Crystal Structure Of 33 Kda Chaperonin (Heat Shock Protein
33 Homolog) (Hsp33) (Tm1394) From Thermotoga Maritima At
2.20 A Resolution
pdb|1VQ0|B Chain B, Crystal Structure Of 33 Kda Chaperonin (Heat Shock Protein
33 Homolog) (Hsp33) (Tm1394) From Thermotoga Maritima At
2.20 A Resolution
Length = 302
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 39/75 (52%), Gaps = 6/75 (8%)
Query: 29 LQGPFFSEFDLAA--LASDLDRSERQVMLEGRVPAASSGDFLTEESHNVSLDGDFSIQVL 86
L+ PF S+ L + +A DL + ++P+A S L + S V + G F++Q++
Sbjct: 133 LKTPFVSQVPLVSGEIAEDL---AYYFAVSEQIPSAFSIGVLVD-SDGVKIAGGFAVQII 188
Query: 87 QKALEVWDLQVIPLN 101
+ LE +++I N
Sbjct: 189 DRTLEQEKVEMIEKN 203
>pdb|3FEQ|A Chain A, Crystal Structure Of Uncharacterized Protein Eah89906
pdb|3FEQ|B Chain B, Crystal Structure Of Uncharacterized Protein Eah89906
pdb|3FEQ|C Chain C, Crystal Structure Of Uncharacterized Protein Eah89906
pdb|3FEQ|D Chain D, Crystal Structure Of Uncharacterized Protein Eah89906
pdb|3FEQ|E Chain E, Crystal Structure Of Uncharacterized Protein Eah89906
pdb|3FEQ|F Chain F, Crystal Structure Of Uncharacterized Protein Eah89906
pdb|3FEQ|G Chain G, Crystal Structure Of Uncharacterized Protein Eah89906
pdb|3FEQ|H Chain H, Crystal Structure Of Uncharacterized Protein Eah89906
pdb|3FEQ|I Chain I, Crystal Structure Of Uncharacterized Protein Eah89906
pdb|3FEQ|J Chain J, Crystal Structure Of Uncharacterized Protein Eah89906
pdb|3FEQ|K Chain K, Crystal Structure Of Uncharacterized Protein Eah89906
pdb|3FEQ|L Chain L, Crystal Structure Of Uncharacterized Protein Eah89906
pdb|3FEQ|M Chain M, Crystal Structure Of Uncharacterized Protein Eah89906
pdb|3FEQ|N Chain N, Crystal Structure Of Uncharacterized Protein Eah89906
pdb|3FEQ|O Chain O, Crystal Structure Of Uncharacterized Protein Eah89906
pdb|3FEQ|P Chain P, Crystal Structure Of Uncharacterized Protein Eah89906
Length = 423
Score = 27.3 bits (59), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 8/53 (15%)
Query: 71 ESHNVSLDGDFSIQVLQKALEVWDLQVIPLNCPIAEPAQIDPELENAFICHLH 123
E H+V +DG+ ++V + +++ + Q I + P ID CH+H
Sbjct: 23 EHHHVVIDGERIVEVTDRPVDLPNAQAIDVRGKTVMPGFID--------CHVH 67
>pdb|3N2C|A Chain A, Crystal Structure Of Prolidase Eah89906 Complexed With N-
Methylphosphonate-L-Proline
pdb|3N2C|B Chain B, Crystal Structure Of Prolidase Eah89906 Complexed With N-
Methylphosphonate-L-Proline
pdb|3N2C|C Chain C, Crystal Structure Of Prolidase Eah89906 Complexed With N-
Methylphosphonate-L-Proline
pdb|3N2C|D Chain D, Crystal Structure Of Prolidase Eah89906 Complexed With N-
Methylphosphonate-L-Proline
pdb|3N2C|E Chain E, Crystal Structure Of Prolidase Eah89906 Complexed With N-
Methylphosphonate-L-Proline
pdb|3N2C|F Chain F, Crystal Structure Of Prolidase Eah89906 Complexed With N-
Methylphosphonate-L-Proline
pdb|3N2C|G Chain G, Crystal Structure Of Prolidase Eah89906 Complexed With N-
Methylphosphonate-L-Proline
pdb|3N2C|H Chain H, Crystal Structure Of Prolidase Eah89906 Complexed With N-
Methylphosphonate-L-Proline
pdb|3N2C|I Chain I, Crystal Structure Of Prolidase Eah89906 Complexed With N-
Methylphosphonate-L-Proline
pdb|3N2C|J Chain J, Crystal Structure Of Prolidase Eah89906 Complexed With N-
Methylphosphonate-L-Proline
pdb|3N2C|K Chain K, Crystal Structure Of Prolidase Eah89906 Complexed With N-
Methylphosphonate-L-Proline
pdb|3N2C|L Chain L, Crystal Structure Of Prolidase Eah89906 Complexed With N-
Methylphosphonate-L-Proline
pdb|3N2C|M Chain M, Crystal Structure Of Prolidase Eah89906 Complexed With N-
Methylphosphonate-L-Proline
pdb|3N2C|N Chain N, Crystal Structure Of Prolidase Eah89906 Complexed With N-
Methylphosphonate-L-Proline
pdb|3N2C|O Chain O, Crystal Structure Of Prolidase Eah89906 Complexed With N-
Methylphosphonate-L-Proline
pdb|3N2C|P Chain P, Crystal Structure Of Prolidase Eah89906 Complexed With N-
Methylphosphonate-L-Proline
Length = 423
Score = 27.3 bits (59), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 8/53 (15%)
Query: 71 ESHNVSLDGDFSIQVLQKALEVWDLQVIPLNCPIAEPAQIDPELENAFICHLH 123
E H+V +DG+ ++V + +++ + Q I + P ID CH+H
Sbjct: 23 EHHHVVIDGERIVEVTDRPVDLPNAQAIDVRGKTVMPGFID--------CHVH 67
>pdb|4GX5|A Chain A, Gsuk Channel
pdb|4GX5|B Chain B, Gsuk Channel
pdb|4GX5|C Chain C, Gsuk Channel
pdb|4GX5|D Chain D, Gsuk Channel
Length = 565
Score = 27.3 bits (59), Expect = 4.7, Method: Composition-based stats.
Identities = 13/25 (52%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 121 HLHDHWFCIRKVNGEWYNFDSLYAA 145
HLH H + + NGE N D LYAA
Sbjct: 431 HLHSHIRIVARANGE-ENVDQLYAA 454
>pdb|4GX0|A Chain A, Crystal Structure Of The Gsuk L97d Mutant
pdb|4GX0|B Chain B, Crystal Structure Of The Gsuk L97d Mutant
pdb|4GX0|C Chain C, Crystal Structure Of The Gsuk L97d Mutant
pdb|4GX0|D Chain D, Crystal Structure Of The Gsuk L97d Mutant
pdb|4GX1|A Chain A, Crystal Structure Of The Gsuk Bound To Adp
pdb|4GX1|B Chain B, Crystal Structure Of The Gsuk Bound To Adp
pdb|4GX1|C Chain C, Crystal Structure Of The Gsuk Bound To Adp
pdb|4GX1|D Chain D, Crystal Structure Of The Gsuk Bound To Adp
pdb|4GX2|A Chain A, Gsuk Channel Bound To Nad
pdb|4GX2|B Chain B, Gsuk Channel Bound To Nad
pdb|4GX2|C Chain C, Gsuk Channel Bound To Nad
pdb|4GX2|D Chain D, Gsuk Channel Bound To Nad
Length = 565
Score = 27.3 bits (59), Expect = 4.7, Method: Composition-based stats.
Identities = 13/25 (52%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 121 HLHDHWFCIRKVNGEWYNFDSLYAA 145
HLH H + + NGE N D LYAA
Sbjct: 431 HLHSHIRIVARANGE-ENVDQLYAA 454
>pdb|1PL5|A Chain A, Crystal Structure Analysis Of The Sir4p C-Terminal Coiled
Coil
pdb|1PL5|S Chain S, Crystal Structure Analysis Of The Sir4p C-Terminal Coiled
Coil
Length = 142
Score = 26.9 bits (58), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 41/87 (47%), Gaps = 2/87 (2%)
Query: 31 GPFFSEFDLAALASDLDRSERQVMLEGRVPAASSGDFLTEESHNVSLDGD--FSIQVLQK 88
G F + L+ AS LD E+Q+ + + + S + + E SL GD F+ + L+
Sbjct: 54 GLSFVDIVLSKAASALDEKEKQLAVANEIIRSLSDEVMRNEIRITSLQGDLTFTKKCLEN 113
Query: 89 ALEVWDLQVIPLNCPIAEPAQIDPELE 115
A + +N + + Q++ E++
Sbjct: 114 ARSQISEKDAKINKLMEKDFQVNKEIK 140
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
0.320 0.136 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,870,334
Number of Sequences: 62578
Number of extensions: 229069
Number of successful extensions: 410
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 401
Number of HSP's gapped (non-prelim): 15
length of query: 188
length of database: 14,973,337
effective HSP length: 93
effective length of query: 95
effective length of database: 9,153,583
effective search space: 869590385
effective search space used: 869590385
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)