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= 040736
(448 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PZD|A Chain A, Crystal Structure Of The Htra2OMI PDZ DOMAIN BOUND TO A
PHAGE-Derived Ligand (Wtmfwv)
pdb|2PZD|B Chain B, Crystal Structure Of The Htra2OMI PDZ DOMAIN BOUND TO A
PHAGE-Derived Ligand (Wtmfwv)
Length = 113
Score = 34.7 bits (78), Expect = 0.10, Method: Composition-based stats.
Identities = 24/82 (29%), Positives = 42/82 (51%), Gaps = 11/82 (13%)
Query: 208 QDAFP----GVLVPEVRALSAASRDGLFPGDVILSVNGNEFPKTGPNVVSELVNAIKKSP 263
+ +FP GVL+ +V S A R GL PGDVIL++ G + + +V +
Sbjct: 27 EPSFPDVQHGVLIHKVILGSPAHRAGLRPGDVILAI-GEQMVQNAEDVYEAV------RT 79
Query: 264 KRNVLLKVARGEQQFEIGVTPD 285
+ + +++ RG + + VTP+
Sbjct: 80 QSQLAVQIRRGRETLTLYVTPE 101
>pdb|1Z86|A Chain A, Solution Structure Of The Pdz Domain Of Alpha-Syntrophin
Length = 87
Score = 34.3 bits (77), Expect = 0.14, Method: Composition-based stats.
Identities = 21/61 (34%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 208 QDAFPGVLVPEVRALSAASRDGLFPGDVILSVNGNEFPKTGPNVVSELVNAIKKSPKRNV 267
++ P ++ + L+A + LF GD ILSVNG + + E V A+KK+ K V
Sbjct: 23 ENKMPILISKIFKGLAADQTEALFVGDAILSVNGEDLSSATHD---EAVQALKKTGKEVV 79
Query: 268 L 268
L
Sbjct: 80 L 80
>pdb|2PDZ|A Chain A, Solution Structure Of The Syntrophin Pdz Domain In Complex
With The Peptide Gvkeslv, Nmr, 15 Structures
Length = 86
Score = 34.3 bits (77), Expect = 0.15, Method: Composition-based stats.
Identities = 21/61 (34%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 208 QDAFPGVLVPEVRALSAASRDGLFPGDVILSVNGNEFPKTGPNVVSELVNAIKKSPKRNV 267
++ P ++ + L+A + LF GD ILSVNG + + E V A+KK+ K V
Sbjct: 23 ENKMPILISKIFKGLAADQTEALFVGDAILSVNGEDLSSATHD---EAVQALKKTGKEVV 79
Query: 268 L 268
L
Sbjct: 80 L 80
>pdb|1QAV|A Chain A, Unexpected Modes Of Pdz Domain Scaffolding Revealed By
Structure Of Nnos-Syntrophin Complex
Length = 90
Score = 34.3 bits (77), Expect = 0.16, Method: Composition-based stats.
Identities = 21/61 (34%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 208 QDAFPGVLVPEVRALSAASRDGLFPGDVILSVNGNEFPKTGPNVVSELVNAIKKSPKRNV 267
++ P ++ + L+A + LF GD ILSVNG + + E V A+KK+ K V
Sbjct: 27 ENKMPILISKIFKGLAADQTEALFVGDAILSVNGEDLSSATHD---EAVQALKKTGKEVV 83
Query: 268 L 268
L
Sbjct: 84 L 84
>pdb|2DM8|A Chain A, Solution Structure Of The Eighth Pdz Domain Of Human Inad-
Like Protein
Length = 116
Score = 34.3 bits (77), Expect = 0.16, Method: Composition-based stats.
Identities = 23/67 (34%), Positives = 38/67 (56%), Gaps = 5/67 (7%)
Query: 213 GVLVPEVRALSAASRDG-LFPGDVILSVNGNEFPKTGPNVVSELVNAIKKSPKRNVLLKV 271
+++ EV AA+RDG L+ GD IL VNG + + E + A++++P++ V L V
Sbjct: 44 AIVIHEVYEEGAAARDGRLWAGDQILEVNGVDLRNSSH---EEAITALRQTPQK-VRLVV 99
Query: 272 ARGEQQF 278
R E +
Sbjct: 100 YRDEAHY 106
>pdb|3NPG|A Chain A, Crystal Structure Of A Protein With Unknown Function From
Duf364 Family (Ph1506) From Pyrococcus Horikoshii At
2.70 A Resolution
pdb|3NPG|B Chain B, Crystal Structure Of A Protein With Unknown Function From
Duf364 Family (Ph1506) From Pyrococcus Horikoshii At
2.70 A Resolution
pdb|3NPG|C Chain C, Crystal Structure Of A Protein With Unknown Function From
Duf364 Family (Ph1506) From Pyrococcus Horikoshii At
2.70 A Resolution
pdb|3NPG|D Chain D, Crystal Structure Of A Protein With Unknown Function From
Duf364 Family (Ph1506) From Pyrococcus Horikoshii At
2.70 A Resolution
Length = 249
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 12/78 (15%)
Query: 75 TCAVSGFDLGSFESVLEAAGVLTAIIIVHESGHFLAAYLQGIHVSKFAVGFGPILAKFSA 134
+C V+G + + +L+ A I+I +G L +L+G V+ LA
Sbjct: 173 SCIVNG----TLDXILDRAKKAKLIVITGPTGQLLPEFLKGTKVTH--------LASXKV 220
Query: 135 NNVEYSLRAFPLGGFVGF 152
N+E +L LG F GF
Sbjct: 221 TNIEKALVKLKLGSFKGF 238
>pdb|3SJN|A Chain A, Crystal Structure Of Enolase Spea_3858 (Target Efi-500646)
From Shewanella Pealeana With Magnesium Bound
pdb|3SJN|B Chain B, Crystal Structure Of Enolase Spea_3858 (Target Efi-500646)
From Shewanella Pealeana With Magnesium Bound
Length = 374
Score = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 36/73 (49%), Gaps = 8/73 (10%)
Query: 100 IIVHESGHFLAAYLQGIHVSKFAVGFGPILAKFSANNVEYSLRAFPLGGFVGFPDNDPES 159
I++H S HFLAA QG + +F+ P+ N +++ GFV D P
Sbjct: 308 ILLHASVHFLAACEQGT-LMEFSQSSSPLFTSLVKNQLQFD------NGFVAVSDA-PGL 359
Query: 160 GIPVDDENLLKNR 172
GI +D+E + K R
Sbjct: 360 GIELDEELIAKYR 372
>pdb|1LCY|A Chain A, Crystal Structure Of The Mitochondrial Serine Protease
Htra2
Length = 325
Score = 33.1 bits (74), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 41/77 (53%), Gaps = 7/77 (9%)
Query: 209 DAFPGVLVPEVRALSAASRDGLFPGDVILSVNGNEFPKTGPNVVSELVNAIKKSPKRNVL 268
D GVL+ +V S A R GL PGDVIL++ G + + +V A++ + +
Sbjct: 253 DVQHGVLIHKVILGSPAHRAGLRPGDVILAI-GEQMVQNAEDV----YEAVRT--QSQLA 305
Query: 269 LKVARGEQQFEIGVTPD 285
+++ RG + + VTP+
Sbjct: 306 VQIRRGRETLTLYVTPE 322
>pdb|2KBS|A Chain A, Solution Structure Of Harmonin Pdz2 In Complex With The
Carboxyl Tail Peptide Of Cadherin23
Length = 92
Score = 32.7 bits (73), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 5/73 (6%)
Query: 206 PVQDAFPGVLVPEVRALSAASRDGLFPGDVILSVNGNEFPKTGPNVVSELVNAIKKSPKR 265
P+Q PG+ + V+ S ++ GL GD I+ VNG +F E VN +K S
Sbjct: 23 PIQK--PGIFISHVKPGSLSAEVGLEIGDQIVEVNGVDFSNLDHK---EAVNVLKSSRSL 77
Query: 266 NVLLKVARGEQQF 278
+ + A G + F
Sbjct: 78 TISIVAAAGRELF 90
>pdb|1Z87|A Chain A, Solution Structure Of The Split Ph-Pdz Supramodule Of
Alpha- Syntrophin
Length = 263
Score = 32.7 bits (73), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 33/109 (30%), Positives = 48/109 (44%), Gaps = 16/109 (14%)
Query: 220 RALSAASRDGLFPGDVILSVNGNEFPKTGPNVVSELVNAIKKSPKRNVLLKVARGEQQFE 279
+ L+A + LF GD ILSVNG + E V A+KK+ K VL E ++
Sbjct: 112 KGLAADQTEALFVGDAILSVNGEDLSSA---THDEAVQALKKTGKEVVL------EVKYM 162
Query: 280 IGVTPD-ENYDGTGKIGVQLSPNVKISKV------LPKNLLEAFRFTAK 321
V+P +N G +G P + + P+NL EA + K
Sbjct: 163 KEVSPYFKNSAGGTSVGWDSPPASPLQRQPSSPGPQPRNLSEAKHVSLK 211
>pdb|2P3W|A Chain A, Crystal Structure Of The Htra3 Pdz Domain Bound To A
Phage-Derived Ligand (Fgrwv)
pdb|2P3W|B Chain B, Crystal Structure Of The Htra3 Pdz Domain Bound To A
Phage-Derived Ligand (Fgrwv)
Length = 112
Score = 32.0 bits (71), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 37/74 (50%), Gaps = 9/74 (12%)
Query: 213 GVLVPEVRALSAASRDGLFPGDVILSVNGNEFPKTGPNVVSELVNAI-KKSPKRNVLLKV 271
G+ V EV S + R G+ GD+I+ VNG + SEL A+ +SP +LL+V
Sbjct: 36 GIYVQEVAPNSPSQRGGIQDGDIIVKVNGRPLVDS-----SELQEAVLTESP---LLLEV 87
Query: 272 ARGEQQFEIGVTPD 285
RG + P+
Sbjct: 88 RRGNDDLLFSIAPE 101
>pdb|2JOA|A Chain A, Htra1 Bound To An Optimized Peptide: Nmr Assignment Of Pdz
Domain And Ligand Resonances
Length = 105
Score = 32.0 bits (71), Expect = 0.67, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 209 DAFPGVLVPEVRALSAASRDGLFPGDVILSVNGNEFPKTGPNVVSELVNAIKKSPKRNVL 268
D G + EV + A GL DVI+S+NG N VS++ IK+ N++
Sbjct: 32 DVISGAYIIEVIPDTPAEAGGLKENDVIISINGQSV--VSANDVSDV---IKRESTLNMV 86
Query: 269 LKVARGEQQFEIGVTPDE 286
++ RG + I V P+E
Sbjct: 87 VR--RGNEDIMITVIPEE 102
>pdb|2YTW|A Chain A, Solution Structure Of The Pdz-Domain Of Human Protease
Htra 1 Precursor
Length = 118
Score = 32.0 bits (71), Expect = 0.81, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 209 DAFPGVLVPEVRALSAASRDGLFPGDVILSVNGNEFPKTGPNVVSELVNAIKKSPKRNVL 268
D G + EV + A GL DVI+S+NG N VS++ IK+ N++
Sbjct: 45 DVISGAYIIEVIPDTPAEAGGLKENDVIISINGQSV--VSANDVSDV---IKRESTLNMV 99
Query: 269 LKVARGEQQFEIGVTPDE 286
++ RG + I V P+E
Sbjct: 100 VR--RGNEDIMITVIPEE 115
>pdb|3NUM|A Chain A, Substrate Induced Remodeling Of The Active Site Regulates
Htra1 Activity
Length = 332
Score = 31.6 bits (70), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 209 DAFPGVLVPEVRALSAASRDGLFPGDVILSVNGNEFPKTGPNVVSELVNAIKKSPKRNVL 268
D G + EV + A GL DVI+S+NG N VS++ IK+ N++
Sbjct: 251 DVISGAYIIEVIPDTPAEAGGLKENDVIISINGQSV--VSANDVSDV---IKRESTLNMV 305
Query: 269 LKVARGEQQFEIGVTPDE 286
++ RG + I V P+E
Sbjct: 306 VR--RGNEDIMITVIPEE 321
>pdb|3NZI|A Chain A, Substrate Induced Remodeling Of The Active Site Regulates
Htra1 Activity
Length = 334
Score = 31.6 bits (70), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 209 DAFPGVLVPEVRALSAASRDGLFPGDVILSVNGNEFPKTGPNVVSELVNAIKKSPKRNVL 268
D G + EV + A GL DVI+S+NG N VS++ IK+ N++
Sbjct: 251 DVISGAYIIEVIPDTPAEAGGLKENDVIISINGQSV--VSANDVSDV---IKRESTLNMV 305
Query: 269 LKVARGEQQFEIGVTPDE 286
++ RG + I V P+E
Sbjct: 306 VR--RGNEDIMITVIPEE 321
>pdb|1X5N|A Chain A, Solution Structure Of The Second Pdz Domain Of Harmonin
Protein
Length = 114
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 5/73 (6%)
Query: 206 PVQDAFPGVLVPEVRALSAASRDGLFPGDVILSVNGNEFPKTGPNVVSELVNAIKKSPKR 265
P+Q PG+ + V+ S ++ GL GD I+ VNG +F E VN +K S
Sbjct: 37 PIQK--PGIFISHVKPGSLSAEVGLEIGDQIVEVNGVDFSNLDHK---EAVNVLKSSRSL 91
Query: 266 NVLLKVARGEQQF 278
+ + A G + F
Sbjct: 92 TISIVAAAGRELF 104
>pdb|4EDJ|A Chain A, Crystal Structure Of The Grasp55 Grasp Domain With A
Phosphomimetic Mutation (S189d)
pdb|4EDJ|B Chain B, Crystal Structure Of The Grasp55 Grasp Domain With A
Phosphomimetic Mutation (S189d)
Length = 209
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 44/87 (50%), Gaps = 3/87 (3%)
Query: 213 GVLVPEVRALSAASRDGLFPG-DVILSVNGNEFPKTGPNVVSELVNAIKKSPKRNVLLKV 271
G V V+ S R GL P D I+S+NG+ K + + +L+ A + P + +L+
Sbjct: 17 GYHVLRVQENSPGHRAGLEPFFDFIVSINGSRLNKDN-DTLKDLLKANVEKPVK-MLIYS 74
Query: 272 ARGEQQFEIGVTPDENYDGTGKIGVQL 298
++ + E VTP + G G +GV +
Sbjct: 75 SKTLELRETSVTPSNLWGGQGLLGVSI 101
>pdb|3STJ|A Chain A, Crystal Structure Of The Protease + Pdz1 Domain Of Degq
From Escherichia Coli
pdb|3STJ|B Chain B, Crystal Structure Of The Protease + Pdz1 Domain Of Degq
From Escherichia Coli
pdb|3STJ|C Chain C, Crystal Structure Of The Protease + Pdz1 Domain Of Degq
From Escherichia Coli
pdb|3STJ|D Chain D, Crystal Structure Of The Protease + Pdz1 Domain Of Degq
From Escherichia Coli
pdb|3STJ|E Chain E, Crystal Structure Of The Protease + Pdz1 Domain Of Degq
From Escherichia Coli
pdb|3STJ|F Chain F, Crystal Structure Of The Protease + Pdz1 Domain Of Degq
From Escherichia Coli
pdb|3STJ|G Chain G, Crystal Structure Of The Protease + Pdz1 Domain Of Degq
From Escherichia Coli
pdb|3STJ|H Chain H, Crystal Structure Of The Protease + Pdz1 Domain Of Degq
From Escherichia Coli
pdb|3STJ|I Chain I, Crystal Structure Of The Protease + Pdz1 Domain Of Degq
From Escherichia Coli
pdb|3STJ|J Chain J, Crystal Structure Of The Protease + Pdz1 Domain Of Degq
From Escherichia Coli
pdb|3STJ|K Chain K, Crystal Structure Of The Protease + Pdz1 Domain Of Degq
From Escherichia Coli
pdb|3STJ|L Chain L, Crystal Structure Of The Protease + Pdz1 Domain Of Degq
From Escherichia Coli
Length = 345
Score = 29.6 bits (65), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 209 DAFPGVLVPEVRALSAASRDGLFPGDVILSVNGNEFPKTGPNVVSELVNAIKKS-PKRNV 267
D G V EV S +++ G+ GD+I S+NG N +EL + I + P V
Sbjct: 260 DVQRGAFVSEVLPGSGSAKAGVKAGDIITSLNGKPL-----NSFAELRSRIATTEPGTKV 314
Query: 268 LLKVARGEQQFEIGVTPD 285
L + R + E+ VT D
Sbjct: 315 KLGLLRNGKPLEVEVTLD 332
>pdb|2VRF|A Chain A, Crystal Structure Of The Human Beta-2-Syntrophin Pdz
Domain
pdb|2VRF|B Chain B, Crystal Structure Of The Human Beta-2-Syntrophin Pdz
Domain
pdb|2VRF|C Chain C, Crystal Structure Of The Human Beta-2-Syntrophin Pdz
Domain
pdb|2VRF|D Chain D, Crystal Structure Of The Human Beta-2-Syntrophin Pdz
Domain
Length = 95
Score = 29.3 bits (64), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 32/61 (52%), Gaps = 12/61 (19%)
Query: 211 FPGVLVPEVRALSAASRDGLFPGDVILSVNGNEFPKTGPNVVSELVNAIKKSPKRNVLLK 270
FPG+ + RAL GD ILSVNG + + + + V A+K++ K VLL+
Sbjct: 37 FPGLAADQSRALRL--------GDAILSVNGTDLRQATHD---QAVQALKRAGK-EVLLE 84
Query: 271 V 271
V
Sbjct: 85 V 85
>pdb|4A8A|A Chain A, Asymmetric Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozyme
pdb|4A8A|B Chain B, Asymmetric Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozyme
pdb|4A8A|C Chain C, Asymmetric Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozyme
pdb|4A8A|D Chain D, Asymmetric Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozyme
pdb|4A8A|E Chain E, Asymmetric Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozyme
pdb|4A8A|F Chain F, Asymmetric Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozyme
pdb|4A8A|G Chain G, Asymmetric Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozyme
pdb|4A8A|H Chain H, Asymmetric Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozyme
pdb|4A8A|I Chain I, Asymmetric Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozyme
pdb|4A8A|J Chain J, Asymmetric Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozyme
pdb|4A8A|K Chain K, Asymmetric Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozyme
pdb|4A8A|L Chain L, Asymmetric Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozyme
pdb|4A8B|A Chain A, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozymes
pdb|4A8B|B Chain B, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozymes
pdb|4A8B|C Chain C, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozymes
pdb|4A8B|D Chain D, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozymes
pdb|4A8B|E Chain E, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozymes
pdb|4A8B|F Chain F, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozymes
pdb|4A8B|G Chain G, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozymes
pdb|4A8B|H Chain H, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozymes
pdb|4A8B|I Chain I, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozymes
pdb|4A8B|J Chain J, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozymes
pdb|4A8B|K Chain K, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozymes
pdb|4A8B|L Chain L, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With Lysozymes
pdb|4A8C|A Chain A, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With A Binding Peptide
pdb|4A8C|B Chain B, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With A Binding Peptide
pdb|4A8C|C Chain C, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With A Binding Peptide
pdb|4A8C|D Chain D, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With A Binding Peptide
pdb|4A8C|E Chain E, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With A Binding Peptide
pdb|4A8C|F Chain F, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With A Binding Peptide
pdb|4A8C|G Chain G, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With A Binding Peptide
pdb|4A8C|H Chain H, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With A Binding Peptide
pdb|4A8C|I Chain I, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With A Binding Peptide
pdb|4A8C|J Chain J, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With A Binding Peptide
pdb|4A8C|K Chain K, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With A Binding Peptide
pdb|4A8C|L Chain L, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 12-Mer
In Complex With A Binding Peptide
pdb|4A9G|A Chain A, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|B Chain B, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|C Chain C, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|D Chain D, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|E Chain E, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|F Chain F, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|G Chain G, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|H Chain H, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|I Chain I, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|J Chain J, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|K Chain K, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|L Chain L, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|M Chain M, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|N Chain N, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|O Chain O, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|P Chain P, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|Q Chain Q, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|R Chain R, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|S Chain S, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|T Chain T, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|U Chain U, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|V Chain V, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|W Chain W, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
pdb|4A9G|Y Chain Y, Symmetrized Cryo-Em Reconstruction Of E. Coli Degq 24-Mer
In Complex With Beta-Casein
Length = 436
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 209 DAFPGVLVPEVRALSAASRDGLFPGDVILSVNGNEFPKTGPNVVSELVNAIKKS-PKRNV 267
D G V EV S +++ G+ GD+I S+NG N +EL + I + P V
Sbjct: 260 DVQRGAFVSEVLPGSGSAKAGVKAGDIITSLNGKPL-----NSFAELRSRIATTEPGTKV 314
Query: 268 LLKVARGEQQFEIGVTPD 285
L + R + E+ VT D
Sbjct: 315 KLGLLRNGKPLEVEVTLD 332
>pdb|3MH4|A Chain A, Htra Proteases Are Activated By A Conserved Mechanism That
Can Be Triggered By Distinct Molecular Cues
pdb|3MH4|B Chain B, Htra Proteases Are Activated By A Conserved Mechanism That
Can Be Triggered By Distinct Molecular Cues
Length = 456
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 209 DAFPGVLVPEVRALSAASRDGLFPGDVILSVNG 241
DA G V +V S+A++ G+ GDVI S+NG
Sbjct: 283 DAQRGAFVSQVLPNSSAAKAGIKAGDVITSLNG 315
>pdb|2ZLE|A Chain A, Cryo-Em Structure Of Degp12OMP
pdb|2ZLE|B Chain B, Cryo-Em Structure Of Degp12OMP
pdb|2ZLE|C Chain C, Cryo-Em Structure Of Degp12OMP
pdb|2ZLE|E Chain E, Cryo-Em Structure Of Degp12OMP
pdb|2ZLE|F Chain F, Cryo-Em Structure Of Degp12OMP
pdb|2ZLE|G Chain G, Cryo-Em Structure Of Degp12OMP
pdb|2ZLE|H Chain H, Cryo-Em Structure Of Degp12OMP
pdb|2ZLE|I Chain I, Cryo-Em Structure Of Degp12OMP
pdb|2ZLE|J Chain J, Cryo-Em Structure Of Degp12OMP
pdb|2ZLE|K Chain K, Cryo-Em Structure Of Degp12OMP
pdb|2ZLE|L Chain L, Cryo-Em Structure Of Degp12OMP
pdb|2ZLE|M Chain M, Cryo-Em Structure Of Degp12OMP
Length = 448
Score = 28.9 bits (63), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 209 DAFPGVLVPEVRALSAASRDGLFPGDVILSVNG 241
DA G V +V S+A++ G+ GDVI S+NG
Sbjct: 283 DAQRGAFVSQVLPNSSAAKAGIKAGDVITSLNG 315
>pdb|4A8D|A Chain A, Degp Dodecamer With Bound Omp
pdb|4A8D|B Chain B, Degp Dodecamer With Bound Omp
pdb|4A8D|C Chain C, Degp Dodecamer With Bound Omp
pdb|4A8D|D Chain D, Degp Dodecamer With Bound Omp
pdb|4A8D|E Chain E, Degp Dodecamer With Bound Omp
pdb|4A8D|F Chain F, Degp Dodecamer With Bound Omp
pdb|4A8D|G Chain G, Degp Dodecamer With Bound Omp
pdb|4A8D|H Chain H, Degp Dodecamer With Bound Omp
pdb|4A8D|I Chain I, Degp Dodecamer With Bound Omp
pdb|4A8D|J Chain J, Degp Dodecamer With Bound Omp
pdb|4A8D|K Chain K, Degp Dodecamer With Bound Omp
pdb|4A8D|L Chain L, Degp Dodecamer With Bound Omp
Length = 448
Score = 28.9 bits (63), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 209 DAFPGVLVPEVRALSAASRDGLFPGDVILSVNG 241
DA G V +V S+A++ G+ GDVI S+NG
Sbjct: 283 DAQRGAFVSQVLPNSSAAKAGIKAGDVITSLNG 315
>pdb|3MH5|A Chain A, Htra Proteases Are Activated By A Conserved Mechanism That
Can Be Triggered By Distinct Molecular Cues
pdb|3MH5|B Chain B, Htra Proteases Are Activated By A Conserved Mechanism That
Can Be Triggered By Distinct Molecular Cues
pdb|3MH6|A Chain A, Htra Proteases Are Activated By A Conserved Mechanism That
Can Be Triggered By Distinct Molecular Cues
Length = 456
Score = 28.9 bits (63), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 209 DAFPGVLVPEVRALSAASRDGLFPGDVILSVNG 241
DA G V +V S+A++ G+ GDVI S+NG
Sbjct: 283 DAQRGAFVSQVLPNSSAAKAGIKAGDVITSLNG 315
>pdb|3RLE|A Chain A, Crystal Structure Of Grasp55 Grasp Domain (residues 7-208)
Length = 209
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 43/87 (49%), Gaps = 3/87 (3%)
Query: 213 GVLVPEVRALSAASRDGLFPG-DVILSVNGNEFPKTGPNVVSELVNAIKKSPKRNVLLKV 271
G V V+ S R GL P D I+S+NG+ K + + +L+ A + P + L+
Sbjct: 17 GYHVLRVQENSPGHRAGLEPFFDFIVSINGSRLNKDN-DTLKDLLKANVEKPVK-XLIYS 74
Query: 272 ARGEQQFEIGVTPDENYDGTGKIGVQL 298
++ + E VTP + G G +GV +
Sbjct: 75 SKTLELRETSVTPSNLWGGQGLLGVSI 101
>pdb|3OTP|A Chain A, Crystal Structure Of The Degp Dodecamer With A Model
Substrate
pdb|3OTP|B Chain B, Crystal Structure Of The Degp Dodecamer With A Model
Substrate
pdb|3OTP|C Chain C, Crystal Structure Of The Degp Dodecamer With A Model
Substrate
pdb|3OTP|D Chain D, Crystal Structure Of The Degp Dodecamer With A Model
Substrate
pdb|3OTP|E Chain E, Crystal Structure Of The Degp Dodecamer With A Model
Substrate
pdb|3OTP|F Chain F, Crystal Structure Of The Degp Dodecamer With A Model
Substrate
Length = 459
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 209 DAFPGVLVPEVRALSAASRDGLFPGDVILSVNG 241
DA G V +V S+A++ G+ GDVI S+NG
Sbjct: 283 DAQRGAFVSQVLPNSSAAKAGIKAGDVITSLNG 315
>pdb|3CS0|A Chain A, Crystal Structure Of Degp24
Length = 448
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 209 DAFPGVLVPEVRALSAASRDGLFPGDVILSVNG 241
DA G V +V S+A++ G+ GDVI S+NG
Sbjct: 283 DAQRGAFVSQVLPNSSAAKAGIKAGDVITSLNG 315
>pdb|1KY9|A Chain A, Crystal Structure Of Degp (Htra)
pdb|1KY9|B Chain B, Crystal Structure Of Degp (Htra)
pdb|3OU0|A Chain A, Re-Refined 3cs0
Length = 448
Score = 28.9 bits (63), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 209 DAFPGVLVPEVRALSAASRDGLFPGDVILSVNG 241
DA G V +V S+A++ G+ GDVI S+NG
Sbjct: 283 DAQRGAFVSQVLPNSSAAKAGIKAGDVITSLNG 315
>pdb|3MH7|A Chain A, Htra Proteases Are Activated By A Conserved Mechanism That
Can Be Triggered By Distinct Molecular Cues
Length = 456
Score = 28.9 bits (63), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 209 DAFPGVLVPEVRALSAASRDGLFPGDVILSVNG 241
DA G V +V S+A++ G+ GDVI S+NG
Sbjct: 283 DAQRGAFVSQVLPNSSAAKAGIKAGDVITSLNG 315
>pdb|2QG1|A Chain A, Crystal Structure Of The 11th Pdz Domain Of Mpdz (Mupp1)
Length = 92
Score = 28.1 bits (61), Expect = 9.7, Method: Composition-based stats.
Identities = 23/62 (37%), Positives = 28/62 (45%), Gaps = 5/62 (8%)
Query: 213 GVLVPEVRALSAASRDG-LFPGDVILSVNGNEFPKTGPNVVSELVNAIKKSPKRNVLLKV 271
GV V ++ A DG L GD IL VNG + N E V A+ K V L+V
Sbjct: 30 GVFVSDIVKGGIADADGRLMQGDQILMVNGEDV----RNATQEAVAALLKCSLGTVTLEV 85
Query: 272 AR 273
R
Sbjct: 86 GR 87
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 0.139 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,938,666
Number of Sequences: 62578
Number of extensions: 402452
Number of successful extensions: 1097
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 1075
Number of HSP's gapped (non-prelim): 45
length of query: 448
length of database: 14,973,337
effective HSP length: 102
effective length of query: 346
effective length of database: 8,590,381
effective search space: 2972271826
effective search space used: 2972271826
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: 53 (25.0 bits)