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= psy2439
(146 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1HXQ|B Chain B, The Structure Of Nucleotidylated Galactose-1-Phosphate
Uridylyltransferase From Escherichia Coli At 1.86
Angstroms Resolution
pdb|1HXQ|A Chain A, The Structure Of Nucleotidylated Galactose-1-Phosphate
Uridylyltransferase From Escherichia Coli At 1.86
Angstroms Resolution
Length = 348
Score = 29.6 bits (65), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 31/80 (38%), Gaps = 9/80 (11%)
Query: 70 IILAIAFQKLEYGDD-VWLKVLKKAGCKVSCFNTH---HIYPDIYMPDLATACASVIEGD 125
I+ Q E G W++V + G + C N H I+ + ++P+ A E
Sbjct: 130 IVKTWQEQTAELGKTYPWVQVFENKGAAMGCSNPHPHGQIWANSFLPNEAER-----EDR 184
Query: 126 LTSEYFMEFFGKCFVRYFSN 145
L EYF E V Y
Sbjct: 185 LQKEYFAEQKSPMLVDYVQR 204
Score = 29.3 bits (64), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 26/63 (41%), Gaps = 8/63 (12%)
Query: 8 WLKVLKKAGCKVSCFNTH---HIYPDIYMPDLATACASVIEGDLTSEYFMEFFGKCFVRY 64
W++V + G + C N H I+ + ++P+ A E L EYF E V Y
Sbjct: 147 WVQVFENKGAAMGCSNPHPHGQIWANSFLPNEAER-----EDRLQKEYFAEQKSPMLVDY 201
Query: 65 FSN 67
Sbjct: 202 VQR 204
>pdb|1GUP|A Chain A, Structure Of Nucleotidyltransferase Complexed With Udp-
Galactose
pdb|1GUP|B Chain B, Structure Of Nucleotidyltransferase Complexed With Udp-
Galactose
pdb|1GUP|C Chain C, Structure Of Nucleotidyltransferase Complexed With Udp-
Galactose
pdb|1GUP|D Chain D, Structure Of Nucleotidyltransferase Complexed With Udp-
Galactose
pdb|1GUQ|A Chain A, Structure Of Nucleotidyltransferase Complexed With Udp-
Glucose
pdb|1GUQ|B Chain B, Structure Of Nucleotidyltransferase Complexed With Udp-
Glucose
pdb|1GUQ|C Chain C, Structure Of Nucleotidyltransferase Complexed With Udp-
Glucose
pdb|1GUQ|D Chain D, Structure Of Nucleotidyltransferase Complexed With Udp-
Glucose
Length = 348
Score = 29.6 bits (65), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 31/80 (38%), Gaps = 9/80 (11%)
Query: 70 IILAIAFQKLEYGDD-VWLKVLKKAGCKVSCFNTH---HIYPDIYMPDLATACASVIEGD 125
I+ Q E G W++V + G + C N H I+ + ++P+ A E
Sbjct: 130 IVKTWQEQTAELGKTYPWVQVFENKGAAMGCSNPHPGGQIWANSFLPNEAER-----EDR 184
Query: 126 LTSEYFMEFFGKCFVRYFSN 145
L EYF E V Y
Sbjct: 185 LQKEYFAEQKSPMLVDYVQR 204
Score = 29.3 bits (64), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 26/63 (41%), Gaps = 8/63 (12%)
Query: 8 WLKVLKKAGCKVSCFNTH---HIYPDIYMPDLATACASVIEGDLTSEYFMEFFGKCFVRY 64
W++V + G + C N H I+ + ++P+ A E L EYF E V Y
Sbjct: 147 WVQVFENKGAAMGCSNPHPGGQIWANSFLPNEAER-----EDRLQKEYFAEQKSPMLVDY 201
Query: 65 FSN 67
Sbjct: 202 VQR 204
>pdb|1HXP|A Chain A, Nucleotide Transferase
pdb|1HXP|B Chain B, Nucleotide Transferase
Length = 348
Score = 29.6 bits (65), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 31/80 (38%), Gaps = 9/80 (11%)
Query: 70 IILAIAFQKLEYGDD-VWLKVLKKAGCKVSCFNTH---HIYPDIYMPDLATACASVIEGD 125
I+ Q E G W++V + G + C N H I+ + ++P+ A E
Sbjct: 130 IVKTWQEQTAELGKTYPWVQVFENKGAAMGCSNPHPHGQIWANSFLPNEAER-----EDR 184
Query: 126 LTSEYFMEFFGKCFVRYFSN 145
L EYF E V Y
Sbjct: 185 LQKEYFAEQKSPMLVDYVQR 204
Score = 29.3 bits (64), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 26/63 (41%), Gaps = 8/63 (12%)
Query: 8 WLKVLKKAGCKVSCFNTH---HIYPDIYMPDLATACASVIEGDLTSEYFMEFFGKCFVRY 64
W++V + G + C N H I+ + ++P+ A E L EYF E V Y
Sbjct: 147 WVQVFENKGAAMGCSNPHPHGQIWANSFLPNEAER-----EDRLQKEYFAEQKSPMLVDY 201
Query: 65 FSN 67
Sbjct: 202 VQR 204
>pdb|1XHB|A Chain A, The Crystal Structure Of Udp-Galnac: Polypeptide Alpha-N-
Acetylgalactosaminyltransferase-T1
Length = 472
Score = 28.9 bits (63), Expect = 1.1, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 65 FSNLGIILAIAFQKLEYGD-DVWLKVLKKAGCKVSCFNTHHIYPDIYMP 112
F N I++ K++YGD L + +K CK + +IYPD +P
Sbjct: 290 FKNFFYIISPGVTKVDYGDISSRLGLRRKLQCKPFSWYLENIYPDSQIP 338
>pdb|3GZA|A Chain A, Crystal Structure Of Putative Alpha-L-Fucosidase
(Np_812709.1) From Bacteroides Thetaiotaomicron Vpi-5482
At 1.60 A Resolution
pdb|3GZA|B Chain B, Crystal Structure Of Putative Alpha-L-Fucosidase
(Np_812709.1) From Bacteroides Thetaiotaomicron Vpi-5482
At 1.60 A Resolution
Length = 443
Score = 28.1 bits (61), Expect = 2.0, Method: Composition-based stats.
Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 6/61 (9%)
Query: 76 FQKLEYGDDVWLKVLKKAGCKVSCFN-THHIYPDIYMPDLATACASVI-----EGDLTSE 129
F E D W++ K AGCK + TH ++ D+ C + +GD+ +
Sbjct: 54 FNPTELNTDQWVQAAKAAGCKFAVLTATHETGFGLWQSDVNPYCLKAVKWRDGKGDIVRD 113
Query: 130 Y 130
+
Sbjct: 114 F 114
Score = 27.3 bits (59), Expect = 2.8, Method: Composition-based stats.
Identities = 20/80 (25%), Positives = 33/80 (41%), Gaps = 3/80 (3%)
Query: 2 EYGDDVWLKVLKKAGCKVSCFN-THHIYPDIYMPDLATACASVIE-GDLTSEYFMEFFGK 59
E D W++ K AGCK + TH ++ D+ C ++ D + +F
Sbjct: 58 ELNTDQWVQAAKAAGCKFAVLTATHETGFGLWQSDVNPYCLKAVKWRDGKGDIVRDFVNS 117
Query: 60 CFVRYFSNLGIILAIAFQKL 79
C +Y GI + I + L
Sbjct: 118 C-RKYGLQPGIYIGIRWNSL 136
>pdb|3TFG|A Chain A, Crystal Structure Of An H-Nox Protein From Nostoc Sp.
Pcc 7120, L66wL67W DOUBLE MUTANT
pdb|3TFG|B Chain B, Crystal Structure Of An H-Nox Protein From Nostoc Sp.
Pcc 7120, L66wL67W DOUBLE MUTANT
Length = 189
Score = 26.9 bits (58), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 3/68 (4%)
Query: 3 YGDDVWLKVLKKAGCK-VSCFNTHHIYPDIYMPDLATACASVIEGDLTSEYFMEFFGKCF 61
+G+D W + +KAG + + F Y D L A + V+ G E+++ FG+ +
Sbjct: 17 HGEDTWEAIKQKAGLEDIDFFVGMEAYSDDVTYHLVGAASEVL-GKPAEEWWIA-FGEYW 74
Query: 62 VRYFSNLG 69
V Y S G
Sbjct: 75 VTYTSEEG 82
>pdb|3TFD|A Chain A, Crystal Structure Of An H-Nox Protein From Nostoc Sp.
Pcc 7120, L66w Mutant
pdb|3TFD|B Chain B, Crystal Structure Of An H-Nox Protein From Nostoc Sp.
Pcc 7120, L66w Mutant
pdb|3TFE|A Chain A, Crystal Structure Of An H-Nox Protein From Nostoc Sp.
Pcc 7120, L66w Mutant Under 6 Atm Of Xenon
pdb|3TFE|B Chain B, Crystal Structure Of An H-Nox Protein From Nostoc Sp.
Pcc 7120, L66w Mutant Under 6 Atm Of Xenon
Length = 189
Score = 26.6 bits (57), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 3/68 (4%)
Query: 3 YGDDVWLKVLKKAGCK-VSCFNTHHIYPDIYMPDLATACASVIEGDLTSEYFMEFFGKCF 61
+G+D W + +KAG + + F Y D L A + V+ G E+ + FG+ +
Sbjct: 17 HGEDTWEAIKQKAGLEDIDFFVGMEAYSDDVTYHLVGAASEVL-GKPAEEWLIA-FGEYW 74
Query: 62 VRYFSNLG 69
V Y S G
Sbjct: 75 VTYTSEEG 82
>pdb|2Y3A|A Chain A, Crystal Structure Of P110beta In Complex With Icsh2 Of
P85beta And The Drug Gdc-0941
Length = 1092
Score = 26.6 bits (57), Expect = 5.9, Method: Composition-based stats.
Identities = 17/71 (23%), Positives = 33/71 (46%), Gaps = 10/71 (14%)
Query: 70 IILAIAFQKLEYGDD------VWLKVLKKAGCKVSCFNTHHIYPDIYMPDLATACASVIE 123
++L+I + KLE +W K+ + ++ FN YPD Y+ + A C +
Sbjct: 598 LLLSIKWNKLEDVAQLQALLQIWPKLPPREALELLDFN----YPDQYVREYAVGCLRQMS 653
Query: 124 GDLTSEYFMEF 134
+ S+Y ++
Sbjct: 654 DEELSQYLLQL 664
Score = 25.8 bits (55), Expect = 9.3, Method: Composition-based stats.
Identities = 12/50 (24%), Positives = 24/50 (48%), Gaps = 4/50 (8%)
Query: 7 VWLKVLKKAGCKVSCFNTHHIYPDIYMPDLATACASVIEGDLTSEYFMEF 56
+W K+ + ++ FN YPD Y+ + A C + + S+Y ++
Sbjct: 619 IWPKLPPREALELLDFN----YPDQYVREYAVGCLRQMSDEELSQYLLQL 664
>pdb|4H0N|A Chain A, Crystal Structure Of Spodoptera Frugiperda Dnmt2
E260a/e261a/k263a Mutant
pdb|4H0N|B Chain B, Crystal Structure Of Spodoptera Frugiperda Dnmt2
E260a/e261a/k263a Mutant
pdb|4H0N|C Chain C, Crystal Structure Of Spodoptera Frugiperda Dnmt2
E260a/e261a/k263a Mutant
pdb|4H0N|D Chain D, Crystal Structure Of Spodoptera Frugiperda Dnmt2
E260a/e261a/k263a Mutant
Length = 333
Score = 26.2 bits (56), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 17/78 (21%), Positives = 35/78 (44%), Gaps = 5/78 (6%)
Query: 6 DVWLKVLKKAGCKVSCFN-----THHIYPDIYMPDLATACASVIEGDLTSEYFMEFFGKC 60
D+ K K++ C + T I+ D + A+ + ++ E F+E F +
Sbjct: 221 DICYKTSKRSCCFTKAYTHYADGTGSIFTDKPREVVQKCYAAAAQNEIGGEKFVELFKEL 280
Query: 61 FVRYFSNLGIILAIAFQK 78
+RYF+ +++ + F K
Sbjct: 281 KLRYFTPKEVLMIMCFPK 298
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
0.329 0.144 0.472
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,849,955
Number of Sequences: 62578
Number of extensions: 177056
Number of successful extensions: 406
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 396
Number of HSP's gapped (non-prelim): 18
length of query: 146
length of database: 14,973,337
effective HSP length: 90
effective length of query: 56
effective length of database: 9,341,317
effective search space: 523113752
effective search space used: 523113752
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 46 (22.3 bits)