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= psy16076
(161 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1RY4|A Chain A, Nmr Structure Of The Crib-Pdz Module Of Par-6
Length = 128
Score = 75.9 bits (185), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 37/51 (72%), Positives = 45/51 (88%), Gaps = 1/51 (1%)
Query: 95 FLRVSQIIDVDVVPETCRRVRLLKSPNSERPLGFYIRDGTSLRVTSTGLDK 145
F +VS IIDVD+VPET RRVRLLK S++PLGFYIRDGTS+RVT++GL+K
Sbjct: 15 FRQVSAIIDVDIVPETHRRVRLLKH-GSDKPLGFYIRDGTSVRVTASGLEK 64
>pdb|2LC6|A Chain A, Solution Structure Of Par-6 Q144cL164C
Length = 128
Score = 72.0 bits (175), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 36/51 (70%), Positives = 43/51 (84%), Gaps = 1/51 (1%)
Query: 95 FLRVSQIIDVDVVPETCRRVRLLKSPNSERPLGFYIRDGTSLRVTSTGLDK 145
F VS IIDVD+VPET RRVRL K S++PLGFYIRDGTS+RVT++GL+K
Sbjct: 15 FRCVSAIIDVDIVPETHRRVRLCKH-GSDKPLGFYIRDGTSVRVTASGLEK 64
>pdb|1NF3|C Chain C, Structure Of Cdc42 In A Complex With The Gtpase-Binding
Domain Of The Cell Polarity Protein, Par6
pdb|1NF3|D Chain D, Structure Of Cdc42 In A Complex With The Gtpase-Binding
Domain Of The Cell Polarity Protein, Par6
Length = 128
Score = 67.0 bits (162), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 34/57 (59%), Positives = 43/57 (75%), Gaps = 1/57 (1%)
Query: 90 ALLNSFLRVSQIIDVDVVPETCRRVRLLKSPNSERPLGFYIRDGTSLRVTSTGLDKF 146
++ F VS IIDVD++PET RRVRL K +E+PLGFYIRDG+S+RVT GL+K
Sbjct: 9 SMPQDFRPVSSIIDVDILPETHRRVRLCKY-GTEKPLGFYIRDGSSVRVTPHGLEKV 64
>pdb|1WMH|B Chain B, Crystal Structure Of A Pb1 Domain Complex Of Protein
Kinase C Iota And Par6 Alpha
Length = 86
Score = 58.5 bits (140), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 26/63 (41%), Positives = 39/63 (61%)
Query: 32 FDAEFRRFSVPKPDISTYNEFKILVEKLHHLDEIPFHLTYIATDGDLLPINNDSNLGKAL 91
FDAEFRRF++P+ +S + EF L+ +H + + L Y GDLLP+ ND +L +AL
Sbjct: 13 FDAEFRRFALPRASVSGFQEFSRLLRAVHQIPGLDVLLGYTDAHGDLLPLTNDDSLHRAL 72
Query: 92 LNS 94
+
Sbjct: 73 ASG 75
>pdb|1RZX|A Chain A, Crystal Structure Of A Par-6 Pdz-Peptide Complex
Length = 98
Score = 56.2 bits (134), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 27/37 (72%), Positives = 33/37 (89%), Gaps = 1/37 (2%)
Query: 109 ETCRRVRLLKSPNSERPLGFYIRDGTSLRVTSTGLDK 145
ET RRVRLLK S++PLGFYIRDGTS+RVT++GL+K
Sbjct: 1 ETHRRVRLLKH-GSDKPLGFYIRDGTSVRVTASGLEK 36
>pdb|1X8S|A Chain A, Structure Of The Par-6 Pdz Domain With A Pals1 Internal
Ligand
pdb|2LC7|A Chain A, Solution Structure Of The Isolated Par-6 Pdz Domain
Length = 102
Score = 55.8 bits (133), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 27/37 (72%), Positives = 33/37 (89%), Gaps = 1/37 (2%)
Query: 109 ETCRRVRLLKSPNSERPLGFYIRDGTSLRVTSTGLDK 145
ET RRVRLLK S++PLGFYIRDGTS+RVT++GL+K
Sbjct: 3 ETHRRVRLLKH-GSDKPLGFYIRDGTSVRVTASGLEK 38
>pdb|1Q8I|A Chain A, Crystal Structure Of Escherichia Coli Dna Polymerase Ii
Length = 783
Score = 29.3 bits (64), Expect = 1.1, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 28/48 (58%), Gaps = 4/48 (8%)
Query: 37 RRFSVPKPDISTYN--EFKILVEKLHHLDEIPFHLTYIATDGDLLPIN 82
RRF+ KP ++TYN + +++ + H + +PF L +G LP++
Sbjct: 319 RRFAEDKPALATYNLKDCELVTQIFHKTEIMPFLLERATVNG--LPVD 364
>pdb|4GE1|A Chain A, Structure Of The Tryptamine Complex Of The Amine Binding
Protein Of Rhodnius Prolixus
pdb|4GE1|B Chain B, Structure Of The Tryptamine Complex Of The Amine Binding
Protein Of Rhodnius Prolixus
pdb|4GE1|C Chain C, Structure Of The Tryptamine Complex Of The Amine Binding
Protein Of Rhodnius Prolixus
pdb|4GE1|D Chain D, Structure Of The Tryptamine Complex Of The Amine Binding
Protein Of Rhodnius Prolixus
pdb|4GET|A Chain A, Crystal Structure Of Biogenic Amine Binding Protein From
Rhodnius Prolixus
pdb|4GET|B Chain B, Crystal Structure Of Biogenic Amine Binding Protein From
Rhodnius Prolixus
pdb|4GET|C Chain C, Crystal Structure Of Biogenic Amine Binding Protein From
Rhodnius Prolixus
pdb|4GET|D Chain D, Crystal Structure Of Biogenic Amine Binding Protein From
Rhodnius Prolixus
Length = 197
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 36/77 (46%), Gaps = 4/77 (5%)
Query: 3 EKNV-KFISHYSYPQGITTVYHKYN--AFTLSFDAEFRRFSVPKPDISTYNEFKILVEK- 58
+KN KF+ + I V+ YN A T S+D F + S + Y ++VEK
Sbjct: 40 DKNCTKFLHQKTADGKIKEVFSNYNPNAKTYSYDISFAKVSDFDGNNGKYTAKNVIVEKD 99
Query: 59 LHHLDEIPFHLTYIATD 75
+DE ++YI TD
Sbjct: 100 GRKIDERTLQVSYIDTD 116
>pdb|4HFO|A Chain A, Biogenic Amine-binding Protein Selenomethionine Derivative
pdb|4HFO|B Chain B, Biogenic Amine-binding Protein Selenomethionine Derivative
pdb|4HFO|C Chain C, Biogenic Amine-binding Protein Selenomethionine Derivative
pdb|4HFO|D Chain D, Biogenic Amine-binding Protein Selenomethionine Derivative
pdb|4HFO|I Chain I, Biogenic Amine-binding Protein Selenomethionine Derivative
pdb|4HFO|J Chain J, Biogenic Amine-binding Protein Selenomethionine Derivative
pdb|4HFO|K Chain K, Biogenic Amine-binding Protein Selenomethionine Derivative
pdb|4HFO|L Chain L, Biogenic Amine-binding Protein Selenomethionine Derivative
Length = 195
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 36/77 (46%), Gaps = 4/77 (5%)
Query: 3 EKNV-KFISHYSYPQGITTVYHKYN--AFTLSFDAEFRRFSVPKPDISTYNEFKILVEK- 58
+KN KF+ + I V+ YN A T S+D F + S + Y ++VEK
Sbjct: 38 DKNCTKFLHQKTADGKIKEVFSNYNPNAKTYSYDISFAKVSDFDGNNGKYTAKNVIVEKD 97
Query: 59 LHHLDEIPFHLTYIATD 75
+DE ++YI TD
Sbjct: 98 GRKIDERTLQVSYIDTD 114
>pdb|3IWK|A Chain A, Crystal Structure Of Aminoaldehyde Dehydrogenase 1 From
Pisum Sativum (Psamadh1)
pdb|3IWK|B Chain B, Crystal Structure Of Aminoaldehyde Dehydrogenase 1 From
Pisum Sativum (Psamadh1)
pdb|3IWK|C Chain C, Crystal Structure Of Aminoaldehyde Dehydrogenase 1 From
Pisum Sativum (Psamadh1)
pdb|3IWK|D Chain D, Crystal Structure Of Aminoaldehyde Dehydrogenase 1 From
Pisum Sativum (Psamadh1)
pdb|3IWK|E Chain E, Crystal Structure Of Aminoaldehyde Dehydrogenase 1 From
Pisum Sativum (Psamadh1)
pdb|3IWK|F Chain F, Crystal Structure Of Aminoaldehyde Dehydrogenase 1 From
Pisum Sativum (Psamadh1)
pdb|3IWK|G Chain G, Crystal Structure Of Aminoaldehyde Dehydrogenase 1 From
Pisum Sativum (Psamadh1)
pdb|3IWK|H Chain H, Crystal Structure Of Aminoaldehyde Dehydrogenase 1 From
Pisum Sativum (Psamadh1)
pdb|3IWK|I Chain I, Crystal Structure Of Aminoaldehyde Dehydrogenase 1 From
Pisum Sativum (Psamadh1)
pdb|3IWK|J Chain J, Crystal Structure Of Aminoaldehyde Dehydrogenase 1 From
Pisum Sativum (Psamadh1)
pdb|3IWK|K Chain K, Crystal Structure Of Aminoaldehyde Dehydrogenase 1 From
Pisum Sativum (Psamadh1)
pdb|3IWK|L Chain L, Crystal Structure Of Aminoaldehyde Dehydrogenase 1 From
Pisum Sativum (Psamadh1)
Length = 503
Score = 28.5 bits (62), Expect = 1.7, Method: Composition-based stats.
Identities = 21/92 (22%), Positives = 46/92 (50%), Gaps = 11/92 (11%)
Query: 73 ATDGDLLPINNDSN--LGKALLNSFL----RVSQIIDVDVVPETCRRVRLLKSPNSERPL 126
+T+ + + + ND++ LG A++++ L R+S+ + +V C + +++P
Sbjct: 405 STEEEAINLANDTHYGLGSAVMSNDLERCERLSKALQAGIVWINCAQPSFIQAP-----W 459
Query: 127 GFYIRDGTSLRVTSTGLDKFLRISSSTKYIND 158
G R G + GL+ +L + T+Y +D
Sbjct: 460 GGIKRSGFGRELGEWGLENYLSVKQVTRYTSD 491
>pdb|3K5L|A Chain A, Crystal Structure Of E.Coli Pol Ii-Abasic Dna-Datp Lt(0,
3) Ternary Complex
pdb|3K5M|A Chain A, Crystal Structure Of E.Coli Pol Ii-Abasic Dna-Ddgtp Lt(-2,
2) Ternary Complex
pdb|3K5N|A Chain A, Crystal Structure Of E.Coli Pol Ii-Abasic Dna Binary
Complex
pdb|3K5N|B Chain B, Crystal Structure Of E.Coli Pol Ii-Abasic Dna Binary
Complex
pdb|3K5O|A Chain A, Crystal Structure Of E.Coli Pol Ii
pdb|3K5O|B Chain B, Crystal Structure Of E.Coli Pol Ii
pdb|3K57|A Chain A, Crystal Structure Of E.Coli Pol Ii-Normal Dna-Datp Ternary
Complex
pdb|3K58|A Chain A, Crystal Structure Of E.Coli Pol Ii-Normal Dna-Dttp Ternary
Complex
pdb|3K59|A Chain A, Crystal Structure Of E.Coli Pol Ii-Normal Dna-Dctp Ternary
Complex
pdb|3MAQ|A Chain A, Crystal Structure Of E.coli Pol Ii-normal Dna-dgtp Ternary
Complex
Length = 786
Score = 28.5 bits (62), Expect = 1.8, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 27/48 (56%), Gaps = 4/48 (8%)
Query: 37 RRFSVPKPDISTYN--EFKILVEKLHHLDEIPFHLTYIATDGDLLPIN 82
RRF+ KP ++TYN +++ + H + +PF L +G LP++
Sbjct: 322 RRFAEDKPALATYNLKNCELVTQIFHKTEIMPFLLERATVNG--LPVD 367
>pdb|3IWJ|A Chain A, Crystal Structure Of Aminoaldehyde Dehydrogenase 2 From
Pisum Sativum (Psamadh2)
pdb|3IWJ|B Chain B, Crystal Structure Of Aminoaldehyde Dehydrogenase 2 From
Pisum Sativum (Psamadh2)
Length = 503
Score = 27.3 bits (59), Expect = 3.4, Method: Composition-based stats.
Identities = 22/92 (23%), Positives = 44/92 (47%), Gaps = 11/92 (11%)
Query: 73 ATDGDLLPINNDS--NLGKALLNSFL----RVSQIIDVDVVPETCRRVRLLKSPNSERPL 126
+T+ + + + ND+ LG A++++ L RV++ +V C + ++ P
Sbjct: 405 STEEEAIDLANDTVYGLGAAVISNDLERCERVTKAFKAGIVWVNCSQPCF-----TQAPW 459
Query: 127 GFYIRDGTSLRVTSTGLDKFLRISSSTKYIND 158
G R G + GLD +L + T+YI++
Sbjct: 460 GGVKRSGFGRELGEWGLDNYLSVKQVTQYISE 491
>pdb|4I8P|A Chain A, Crystal Structure Of Aminoaldehyde Dehydrogenase 1a From
Zea Mays (zmamadh1a)
pdb|4I8P|B Chain B, Crystal Structure Of Aminoaldehyde Dehydrogenase 1a From
Zea Mays (zmamadh1a)
Length = 520
Score = 26.2 bits (56), Expect = 8.8, Method: Composition-based stats.
Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 5/62 (8%)
Query: 97 RVSQIIDVDVVPETCRRVRLLKSPNSERPLGFYIRDGTSLRVTSTGLDKFLRISSSTKYI 156
R+S+ ID + C + ++P G R G + G+D +L + T+YI
Sbjct: 452 RLSEEIDAGCIWVNCSQPCFCQAP-----WGGNKRSGFGRELGEGGIDNYLSVKQVTEYI 506
Query: 157 ND 158
+D
Sbjct: 507 SD 508
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 0.139 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,925,147
Number of Sequences: 62578
Number of extensions: 194859
Number of successful extensions: 325
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 314
Number of HSP's gapped (non-prelim): 15
length of query: 161
length of database: 14,973,337
effective HSP length: 91
effective length of query: 70
effective length of database: 9,278,739
effective search space: 649511730
effective search space used: 649511730
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: 47 (22.7 bits)