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= psy8244
(163 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1MHD|A Chain A, Crystal Structure Of A Smad Mh1 Domain Bound To Dna
pdb|1MHD|B Chain B, Crystal Structure Of A Smad Mh1 Domain Bound To Dna
Length = 132
Score = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 42/91 (46%), Gaps = 16/91 (17%)
Query: 40 SELETLVEAIESHGTNMSPCILLP---------SHLLPNAHFLCCQLWRWPDVSEPYELK 90
+L+ L +AI + N + CI +P SH H + C+LWRWPD+ +EL+
Sbjct: 46 GQLDELEKAITTQNVN-TKCITIPRSLDGRLQVSHRKGLPHVIYCRLWRWPDLHSHHELR 104
Query: 91 KLPNCDSYECXXXXXXXXXLYICCNPYHWSR 121
+ C+ +C NPYH+ R
Sbjct: 105 AMELCE------FAFNMKKDEVCVNPYHYQR 129
>pdb|1OZJ|A Chain A, Crystal Structure Of Smad3-mh1 Bound To Dna At 2.4 A
Resolution
pdb|1OZJ|B Chain B, Crystal Structure Of Smad3-mh1 Bound To Dna At 2.4 A
Resolution
Length = 144
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 42/91 (46%), Gaps = 16/91 (17%)
Query: 40 SELETLVEAIESHGTNMSPCILLP---------SHLLPNAHFLCCQLWRWPDVSEPYELK 90
+L+ L +AI + N + CI +P SH H + C+LWRWPD+ +EL+
Sbjct: 46 GQLDELEKAITTQNVN-TKCITIPRSLDGRLQVSHRKGLPHVIYCRLWRWPDLHSHHELR 104
Query: 91 KLPNCDSYECXXXXXXXXXLYICCNPYHWSR 121
+ C+ +C NPYH+ R
Sbjct: 105 AMELCE------FAFNMKKDEVCVNPYHYQR 129
>pdb|3KMP|A Chain A, Crystal Structure Of Smad1-Mh1DNA COMPLEX
pdb|3KMP|B Chain B, Crystal Structure Of Smad1-Mh1DNA COMPLEX
Length = 124
Score = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 40/89 (44%), Gaps = 16/89 (17%)
Query: 42 LETLVEAIESHGTNMSPCILLP---------SHLLPNAHFLCCQLWRWPDVSEPYELKKL 92
+E L +A+ G S C+ +P SH H + C++WRWPD+ +ELK L
Sbjct: 40 MEELEKALSCPG-QPSNCVTIPRSLDGRLQVSHRKGLPHVIYCRVWRWPDLQSHHELKPL 98
Query: 93 PNCDSYECXXXXXXXXXLYICCNPYHWSR 121
EC +C NPYH+ R
Sbjct: 99 ------ECCEFPFGSKQKEVCINPYHYKR 121
>pdb|3QSV|A Chain A, Structural Basis For Dna Recognition By Constitutive Smad4
Mh1 Dimers
pdb|3QSV|B Chain B, Structural Basis For Dna Recognition By Constitutive Smad4
Mh1 Dimers
pdb|3QSV|C Chain C, Structural Basis For Dna Recognition By Constitutive Smad4
Mh1 Dimers
pdb|3QSV|D Chain D, Structural Basis For Dna Recognition By Constitutive Smad4
Mh1 Dimers
Length = 132
Score = 35.4 bits (80), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 42/90 (46%), Gaps = 22/90 (24%)
Query: 44 TLVEAIESHGTNMSPCILLPSHL---LPNA------HFLCCQLWRWPDVSEPYELKKLPN 94
+L+ AI ++G + S C+ + L L A H + +LWRWPD+ + ELK +
Sbjct: 48 SLITAITTNGAHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARLWRWPDLHKN-ELKHVKY 106
Query: 95 CD---SYECXXXXXXXXXLYICCNPYHWSR 121
C +C +C NPYH+ R
Sbjct: 107 CQYAFDLKCDS---------VCVNPYHYER 127
>pdb|3NMV|B Chain B, Crystal Structure Of Pyrabactin-Bound Abscisic Acid
Receptor Pyl2 Mutant A93f In Complex With Type 2c
Protein Phosphatase Abi2
pdb|3UJK|A Chain A, Crystal Structure Of Protein Phosphatase Abi2
pdb|3UJL|B Chain B, Crystal Structure Of Abscisic Acid Bound Pyl2 In Complex
With Type 2c Protein Phosphatase Abi2
Length = 324
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 39 DSELETLVEAIESHGTNMSPCILLPSHLL 67
DSE+ET+ A E+ G+ ++ P+H+
Sbjct: 118 DSEIETVAHAPETVGSTSVVAVVFPTHIF 146
>pdb|1EN2|A Chain A, Uda Tetrasaccharide Complex. Crystal Structure Of Urtica
Dioica Agglutinin, A Superantigen Presented By Mhc
Molecules Of Class I And Class Ii
pdb|1ENM|A Chain A, Uda Trisaccharide Complex. Crystal Structure Of Urtica
Dioica Agglutinin, A Superantigen Presented By Mhc
Molecules Of Class I And Class Ii
Length = 91
Score = 27.3 bits (59), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 14/31 (45%)
Query: 64 SHLLPNAHFLCCQLWRWPDVSEPYELKKLPN 94
S P A CC +W W SEPY + N
Sbjct: 10 SGTCPGALRWCCSIWGWCGDSEPYCGRTCEN 40
>pdb|3S28|A Chain A, The Crystal Structure Of Sucrose Synthase-1 In Complex
With A Breakdown Product Of The Udp-Glucose
pdb|3S28|B Chain B, The Crystal Structure Of Sucrose Synthase-1 In Complex
With A Breakdown Product Of The Udp-Glucose
pdb|3S28|C Chain C, The Crystal Structure Of Sucrose Synthase-1 In Complex
With A Breakdown Product Of The Udp-Glucose
pdb|3S28|D Chain D, The Crystal Structure Of Sucrose Synthase-1 In Complex
With A Breakdown Product Of The Udp-Glucose
pdb|3S28|E Chain E, The Crystal Structure Of Sucrose Synthase-1 In Complex
With A Breakdown Product Of The Udp-Glucose
pdb|3S28|F Chain F, The Crystal Structure Of Sucrose Synthase-1 In Complex
With A Breakdown Product Of The Udp-Glucose
pdb|3S28|G Chain G, The Crystal Structure Of Sucrose Synthase-1 In Complex
With A Breakdown Product Of The Udp-Glucose
pdb|3S28|H Chain H, The Crystal Structure Of Sucrose Synthase-1 In Complex
With A Breakdown Product Of The Udp-Glucose
pdb|3S29|A Chain A, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S29|B Chain B, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S29|C Chain C, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S29|D Chain D, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S29|E Chain E, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S29|F Chain F, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S29|G Chain G, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S29|H Chain H, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications
Length = 816
Score = 27.3 bits (59), Expect = 4.3, Method: Composition-based stats.
Identities = 14/43 (32%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 33 LIKRLKDSELETLVEAIESHGTNMSPCILLPSHLLPNAHFLCC 75
++ +++ E+E L + I+ G N+ P IL+ + LLP+A C
Sbjct: 308 ILDQVRALEIEML-QRIKQQGLNIKPRILILTRLLPDAVGTTC 349
>pdb|3S27|A Chain A, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S27|B Chain B, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S27|C Chain C, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S27|D Chain D, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S27|E Chain E, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S27|F Chain F, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S27|G Chain G, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications.
pdb|3S27|H Chain H, The Crystal Structure Of Sucrose Synthase-1 From
Arabidopsis Thaliana And Its Functional Implications
Length = 816
Score = 27.3 bits (59), Expect = 4.3, Method: Composition-based stats.
Identities = 14/43 (32%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 33 LIKRLKDSELETLVEAIESHGTNMSPCILLPSHLLPNAHFLCC 75
++ +++ E+E L + I+ G N+ P IL+ + LLP+A C
Sbjct: 308 ILDQVRALEIEXL-QRIKQQGLNIKPRILILTRLLPDAVGTTC 349
>pdb|3QDL|A Chain A, Crystal Structure Of Rdxa From Helicobacter Pyroli
pdb|3QDL|B Chain B, Crystal Structure Of Rdxa From Helicobacter Pyroli
pdb|3QDL|C Chain C, Crystal Structure Of Rdxa From Helicobacter Pyroli
pdb|3QDL|D Chain D, Crystal Structure Of Rdxa From Helicobacter Pyroli
Length = 210
Score = 26.6 bits (57), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 47 EAIESHGTNMSPCILLPSHLLPNAHFL 73
E I+S M C L PS LLP+ H++
Sbjct: 75 EMIKSASALMVVCSLRPSELLPHGHYM 101
>pdb|2OE0|A Chain A, Crystal Structure Of Mitochondrial Thioredoxin 3 From
Saccharomyces Cerevisiae
pdb|2OE0|B Chain B, Crystal Structure Of Mitochondrial Thioredoxin 3 From
Saccharomyces Cerevisiae
pdb|2OE1|A Chain A, Crystal Structure Of Mitochondrial Thioredoxin 3 From
Saccharomyces Cerevisiae (Reduced Form)
pdb|2OE1|B Chain B, Crystal Structure Of Mitochondrial Thioredoxin 3 From
Saccharomyces Cerevisiae (Reduced Form)
pdb|2OE3|A Chain A, Crystal Structure Of Mitochondrial Thioredoxin 3 From
Saccharomyces Cerevisiae (Oxidized Form)
pdb|2OE3|B Chain B, Crystal Structure Of Mitochondrial Thioredoxin 3 From
Saccharomyces Cerevisiae (Oxidized Form)
Length = 114
Score = 26.2 bits (56), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 16/76 (21%), Positives = 34/76 (44%), Gaps = 6/76 (7%)
Query: 25 YESLLRHTLIKRLKDSELETLVEAIESHGTNMSPCILLPSHLL------PNAHFLCCQLW 78
Y S+ + T + ++ + I+ + T PC ++ HL P+ F+ C +
Sbjct: 11 YTSITKLTNLTEFRNLIKQNDKLVIDFYATWCGPCKMMQPHLTKLIQAYPDVRFVKCDVD 70
Query: 79 RWPDVSEPYELKKLPN 94
PD+++ E+ +P
Sbjct: 71 ESPDIAKECEVTAMPT 86
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
0.323 0.140 0.486
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,027,708
Number of Sequences: 62578
Number of extensions: 182877
Number of successful extensions: 302
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 288
Number of HSP's gapped (non-prelim): 13
length of query: 163
length of database: 14,973,337
effective HSP length: 91
effective length of query: 72
effective length of database: 9,278,739
effective search space: 668069208
effective search space used: 668069208
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 47 (22.7 bits)