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= 014337
(426 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1S31|A Chain A, Crystal Structure Analysis Of The Human Tub Protein
(isoform A) Spanning Residues 289 Through 561
Length = 273
Score = 175 bits (444), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 113/315 (35%), Positives = 162/315 (51%), Gaps = 70/315 (22%)
Query: 117 QPGPRDGTIQCFIKRDKSNLTYHLFLCLSPALLVENGK--FLLSAKRTRRTTCTEYVISM 174
+P P+ TI+C I RDK + +F L E+GK FLL+ ++ +++ + Y+IS+
Sbjct: 24 RPAPQGITIKCRITRDKKGMDRGMFPTYFLHLDREDGKKVFLLAGRKRKKSKTSNYLISV 83
Query: 175 DADNISRSSSTYIGKLRSNFLGTKFIIYD--TQPPYNSAQLSPPGRSRRFYSKKVSPKVP 232
D ++SR +YIGKLRSN +GTKF +YD P S+ G R+
Sbjct: 84 DPTDLSRGGDSYIGKLRSNLMGTKFTVYDNGVNPQKASSSTLESGTLRQ----------- 132
Query: 233 TGSYNIAQVSYELNVLGTRGPRRMHCTMHSIPASALEPG-GSVPGQAELNPRSLEDSFRN 291
+A V YE NVLG +GPR+M S + PG V + + PR+ ++
Sbjct: 133 ----ELAAVCYETNVLGFKGPRKM---------SVIVPGMNMVHERVSIRPRNEHETLL- 178
Query: 292 FSKSIDVSTEFSSSRFSDIVGPRDEEDEGKDRPLILRNKAPRWHEQLQCWCLNFRGRVTV 351
+R+ +++ + + L+NK P W++ Q + LNF GRVT
Sbjct: 179 -------------ARW---------QNKNTESIIELQNKTPVWNDDTQSYVLNFHGRVTQ 216
Query: 352 ASVKNFQLIXXXXXXXXXXXXXXXXXXXXXDHDKIILQFGKVGKDMFTMDYRYPLSAFQA 411
ASVKNFQ+I D D I++QFG+V +D+FTMDY YPL A QA
Sbjct: 217 ASVKNFQIIHGN------------------DPDYIVMQFGRVAEDVFTMDYNYPLCALQA 258
Query: 412 FAICLSSFDTKLACE 426
FAI LSSFD+KLACE
Sbjct: 259 FAIALSSFDSKLACE 273
>pdb|1C8Z|A Chain A, C-Terminal Domain Of Mouse Brain Tubby Protein
Length = 265
Score = 174 bits (440), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 113/315 (35%), Positives = 162/315 (51%), Gaps = 70/315 (22%)
Query: 117 QPGPRDGTIQCFIKRDKSNLTYHLFLCLSPALLVENGK--FLLSAKRTRRTTCTEYVISM 174
+P P+ TI+C I RDK + +F L E+GK FLL+ ++ +++ + Y+IS+
Sbjct: 16 RPAPQGITIKCRITRDKKGMDRGMFPTYFLHLDREDGKKVFLLAGRKRKKSKTSNYLISV 75
Query: 175 DADNISRSSSTYIGKLRSNFLGTKFIIYD--TQPPYNSAQLSPPGRSRRFYSKKVSPKVP 232
D ++SR +YIGKLRSN +GTKF +YD P S+ G R+
Sbjct: 76 DPTDLSRGGDSYIGKLRSNLMGTKFTVYDNGVNPQKASSSTLESGTLRQ----------- 124
Query: 233 TGSYNIAQVSYELNVLGTRGPRRMHCTMHSIPASALEPG-GSVPGQAELNPRSLEDSFRN 291
+A V YE NVLG +GPR+M S + PG V + + PR+ ++
Sbjct: 125 ----ELAAVCYETNVLGFKGPRKM---------SVIVPGMNMVHERVCIRPRNEHETLL- 170
Query: 292 FSKSIDVSTEFSSSRFSDIVGPRDEEDEGKDRPLILRNKAPRWHEQLQCWCLNFRGRVTV 351
+R+ +++ + + L+NK P W++ Q + LNF GRVT
Sbjct: 171 -------------ARW---------QNKNTESIIELQNKTPVWNDDTQSYVLNFHGRVTQ 208
Query: 352 ASVKNFQLIXXXXXXXXXXXXXXXXXXXXXDHDKIILQFGKVGKDMFTMDYRYPLSAFQA 411
ASVKNFQ+I D D I++QFG+V +D+FTMDY YPL A QA
Sbjct: 209 ASVKNFQIIHGN------------------DPDYIVMQFGRVAEDVFTMDYNYPLCALQA 250
Query: 412 FAICLSSFDTKLACE 426
FAI LSSFD+KLACE
Sbjct: 251 FAIALSSFDSKLACE 265
>pdb|1I7E|A Chain A, C-Terminal Domain Of Mouse Brain Tubby Protein Bound To
Phosphatidylinositol 4,5-Bis-Phosphate
Length = 265
Score = 172 bits (437), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 112/315 (35%), Positives = 162/315 (51%), Gaps = 70/315 (22%)
Query: 117 QPGPRDGTIQCFIKRDKSNLTYHLFLCLSPALLVENGK--FLLSAKRTRRTTCTEYVISM 174
+P P+ TI+C I RDK + +F L E+GK FLL+ ++ +++ + Y+IS+
Sbjct: 16 RPAPQGITIKCRITRDKKGMDRGMFPTYFLHLDREDGKKVFLLAGRKRKKSKTSNYLISV 75
Query: 175 DADNISRSSSTYIGKLRSNFLGTKFIIYD--TQPPYNSAQLSPPGRSRRFYSKKVSPKVP 232
D ++SR +YIGKLRSN +GTKF +YD P S+ G R+
Sbjct: 76 DPTDLSRGGDSYIGKLRSNLMGTKFTVYDNGVNPQKASSSTLESGTLRQ----------- 124
Query: 233 TGSYNIAQVSYELNVLGTRGPRRMHCTMHSIPASALEPG-GSVPGQAELNPRSLEDSFRN 291
+A V YE NVLG +GPR+M S + PG V + + PR+ ++
Sbjct: 125 ----ELAAVCYETNVLGFKGPRKM---------SVIVPGMNMVHERVCIRPRNEHETLL- 170
Query: 292 FSKSIDVSTEFSSSRFSDIVGPRDEEDEGKDRPLILRNKAPRWHEQLQCWCLNFRGRVTV 351
+R+ +++ + + L+NK P W++ + + LNF GRVT
Sbjct: 171 -------------ARW---------QNKNTESIIELQNKTPVWNDDTESYVLNFHGRVTQ 208
Query: 352 ASVKNFQLIXXXXXXXXXXXXXXXXXXXXXDHDKIILQFGKVGKDMFTMDYRYPLSAFQA 411
ASVKNFQ+I D D I++QFG+V +D+FTMDY YPL A QA
Sbjct: 209 ASVKNFQIIHGN------------------DPDYIVMQFGRVAEDVFTMDYNYPLCALQA 250
Query: 412 FAICLSSFDTKLACE 426
FAI LSSFD+KLACE
Sbjct: 251 FAIALSSFDSKLACE 265
>pdb|2FIM|A Chain A, Structure Of The C-Terminal Domain Of Human Tubby-Like
Protein 1
pdb|2FIM|B Chain B, Structure Of The C-Terminal Domain Of Human Tubby-Like
Protein 1
Length = 276
Score = 169 bits (427), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 112/314 (35%), Positives = 155/314 (49%), Gaps = 72/314 (22%)
Query: 117 QPGPRDGTIQCFIKRDKSNLTYHLFLCLSPALLVENGKFLLSAKRTRRTTCTEYVISMDA 176
+P P+ T++C + RDK + ++ L E FLL+ ++ +R+ Y+IS+D
Sbjct: 31 RPAPQGRTVRCRLTRDKKGMDRGMYPSYFLHLDTEKKVFLLAGRKRKRSKTANYLISIDP 90
Query: 177 DNISRSSSTYIGKLRSNFLGTKFIIYDT-QPPYNSAQLSPPGRSRRFYSKKVSPKVPTGS 235
N+SR +IGKLRSN LG +F ++D Q P +R YS V+ +
Sbjct: 91 TNLSRGGENFIGKLRSNLLGNRFTVFDNGQNP------------QRGYSTNVA----SLR 134
Query: 236 YNIAQVSYELNVLGTRGPRRMHCTMHSIPASALEPGGSVPGQ-AELNPRSLEDSF--RNF 292
+A V YE NVLG RGPRRM + + PG S + + PR+ D R
Sbjct: 135 QELAAVIYETNVLGFRGPRRM---------TVIIPGMSAENERVPIRPRNASDGLLVRWQ 185
Query: 293 SKSIDVSTEFSSSRFSDIVGPRDEEDEGKDRPLILRNKAPRWHEQLQCWCLNFRGRVTVA 352
+K+++ E L NK P W++ + LNF+GRVT A
Sbjct: 186 NKTLESLIE-------------------------LHNKPPVWNDDSGSYTLNFQGRVTQA 220
Query: 353 SVKNFQLIXXXXXXXXXXXXXXXXXXXXXDHDKIILQFGKVGKDMFTMDYRYPLSAFQAF 412
SVKNFQ++ D D I+LQFG+V +D FT+DYRYPL A QAF
Sbjct: 221 SVKNFQIVHAD------------------DPDYIVLQFGRVAEDAFTLDYRYPLCALQAF 262
Query: 413 AICLSSFDTKLACE 426
AI LSSFD KLACE
Sbjct: 263 AIALSSFDGKLACE 276
>pdb|3C5N|A Chain A, Structure Of Human Tulp1 In Complex With Ip3
pdb|3C5N|B Chain B, Structure Of Human Tulp1 In Complex With Ip3
Length = 246
Score = 158 bits (400), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 150/308 (48%), Gaps = 72/308 (23%)
Query: 117 QPGPRDGTIQCFIKRDKSNLTYHLFLCLSPALLVENGKFLLSAKRTRRTTCTEYVISMDA 176
+P P+ T++C + RDK + ++ L E FLL+ ++ +R+ Y+IS+D
Sbjct: 7 RPAPQGRTVRCRLTRDKKGMDRGMYPSYFLHLDTEKKVFLLAGRKRKRSKTANYLISIDP 66
Query: 177 DNISRSSSTYIGKLRSNFLGTKFIIYDT-QPPYNSAQLSPPGRSRRFYSKKVSPKVPTGS 235
N+SR +IGKLRSN LG +F ++D Q P +R YS V+ +
Sbjct: 67 TNLSRGGENFIGKLRSNLLGNRFTVFDNGQNP------------QRGYSTNVA----SLR 110
Query: 236 YNIAQVSYELNVLGTRGPRRMHCTMHSIPASALEPGGSVPGQ-AELNPRSLEDSF--RNF 292
+A V YE NVLG RGPRRM + + PG S + + PR+ D R
Sbjct: 111 QELAAVIYETNVLGFRGPRRM---------TVIIPGMSAENERVPIRPRNASDGLLVRWQ 161
Query: 293 SKSIDVSTEFSSSRFSDIVGPRDEEDEGKDRPLILRNKAPRWHEQLQCWCLNFRGRVTVA 352
+K+++ E L NK P W++ + LNF+GRVT A
Sbjct: 162 NKTLESLIE-------------------------LHNKPPVWNDDSGSYTLNFQGRVTQA 196
Query: 353 SVKNFQLIXXXXXXXXXXXXXXXXXXXXXDHDKIILQFGKVGKDMFTMDYRYPLSAFQAF 412
SVKNFQ++ D D I+LQFG+V +D FT+DYRYPL A QAF
Sbjct: 197 SVKNFQIVHAD------------------DPDYIVLQFGRVAEDAFTLDYRYPLCALQAF 238
Query: 413 AICLSSFD 420
AI LSSFD
Sbjct: 239 AIALSSFD 246
>pdb|3ZXA|C Chain C, Structure And Assembly Of Turnip Crinkle Virus I. X-Ray
Crystallographic Structure Analysis At 3.2 A Resolution
pdb|3ZX8|A Chain A, Cryo-Em Reconstruction Of Native And Expanded Turnip
Crinkle Virus
pdb|3ZX8|B Chain B, Cryo-Em Reconstruction Of Native And Expanded Turnip
Crinkle Virus
pdb|3ZX8|C Chain C, Cryo-Em Reconstruction Of Native And Expanded Turnip
Crinkle Virus
pdb|3ZX9|A Chain A, Cryo-Em Reconstruction Of Native And Expanded Turnip
Crinkle Virus
pdb|3ZX9|B Chain B, Cryo-Em Reconstruction Of Native And Expanded Turnip
Crinkle Virus
pdb|3ZX9|C Chain C, Cryo-Em Reconstruction Of Native And Expanded Turnip
Crinkle Virus
Length = 347
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 10/56 (17%)
Query: 164 RTTCTEYVISMDADNISRSSSTYIGKLRSNFLGTKFIIYDTQPPYNSAQLSP--PG 217
R T+ +S D I+RS S I L+ N DT+P Y +A L+P PG
Sbjct: 67 REVSTQPRVSTARDGITRSGSELITTLKKN--------TDTEPKYTTAVLNPSEPG 114
>pdb|2B64|Y Chain Y, 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf1
From A Crystal Structure Of The Whole Ribosomal Complex.
This File Contains The 30s Subunit, Trnas, Mrna And
Release Factor Rf1 From A Crystal Structure Of The Whole
Ribosomal Complex". The Entire Crystal Structure
Contains One 70s Ribosome, Trnas, Mrna And Release
Factor Rf1 And Is Described In Remark 400.
pdb|3D5A|X Chain X, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 30s Subunit, Release
Factor 1 (Rf1), Two Trna, And Mrna Molecules Of One 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes As Described In Remark 400.
pdb|3D5C|X Chain X, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 30s Subunit, Release
Factor 1 (Rf1), Two Trna, And Mrna Molecules Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes As Described In Remark 400.
pdb|3MR8|V Chain V, Recognition Of The Amber Stop Codon By Release Factor Rf1.
This Entry 3mr8 Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 3ms1.
Molecule B In The Same Asymmetric Unit Is Deposited As
3mrz (50s) And 3ms0 (30s).
pdb|3MS0|V Chain V, Recognition Of The Amber Stop Codon By Release Factor Rf1.
This Entry 3ms0 Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 3mrz.
Molecule A In The Same Asymmetric Unit Is Deposited As
3mr8 (30s) And 3ms1 (50s)
Length = 354
Score = 28.9 bits (63), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 23/54 (42%), Gaps = 1/54 (1%)
Query: 1 MSFRSIVRDVR-DGFGSLSRRSFEVRLPGHHGRGKSHGSVHELHDQPVVIQNSR 53
M F + V D G S+ FEVR PG +G K VH + PV R
Sbjct: 138 MGFETEVLDSHPTDLGGFSKVVFEVRGPGAYGTFKYESGVHRVQRVPVTETQGR 191
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
0.321 0.136 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,390,943
Number of Sequences: 62578
Number of extensions: 489876
Number of successful extensions: 908
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 884
Number of HSP's gapped (non-prelim): 13
length of query: 426
length of database: 14,973,337
effective HSP length: 102
effective length of query: 324
effective length of database: 8,590,381
effective search space: 2783283444
effective search space used: 2783283444
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)