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= 040388
(226 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1H79|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Dttp
pdb|1H7A|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Datp
pdb|1H7B|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases,
Native Nrdd
pdb|1H78|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Dctp.
pdb|1HK8|A Chain A, Structural Basis For Allosteric Substrate Specificity
Regulation In Class Iii Ribonucleotide Reductases: Nrdd
In Complex With Dgtp
Length = 605
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 42/92 (45%), Gaps = 11/92 (11%)
Query: 19 QFCKLESLRNNVTLSSLRKLCSSHVYED------DQVIEDFVAGCPLIEYMHVFDCGGLK 72
+FCKL++ + S++ + Y + ++ I F Y + G +
Sbjct: 451 RFCKLDTEK----YGSVKDVTDKGWYTNSFHVSVEENITPFEKISREAPYHFIATGGHIS 506
Query: 73 CLELPDL-NNLKEFKAYDNFRLQRLHINGVNV 103
+ELPD+ NNLK +A ++ Q L GVN+
Sbjct: 507 YVELPDMKNNLKGLEAVWDYAAQHLDYFGVNM 538
>pdb|3BW6|A Chain A, Crystal Structure Of The Longin Domain Of Yeast Ykt6
Length = 144
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 60 IEYMHVFDCGGLKCLELPDLNNLKEF 85
I Y+ VF GG K LEL ++ +L +F
Sbjct: 7 IYYIGVFRSGGEKALELSEVKDLSQF 32
>pdb|1IOU|A Chain A, Solution Structure Of Ykt6p (1-140)
pdb|1H8M|A Chain A, Solution Structure Of Ykt6
Length = 140
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 60 IEYMHVFDCGGLKCLELPDLNNLKEF 85
I Y+ VF GG K LEL ++ +L +F
Sbjct: 3 IYYIGVFRSGGEKALELSEVKDLSQF 28
>pdb|2WGZ|A Chain A, Crystal Structure Of Alpha-1,3 Galactosyltransferase (
Alpha3gt) In A Complex With
P-Nitrophenyl-Beta-Galactoside (Pnp-Beta-Gal)
pdb|2WGZ|B Chain B, Crystal Structure Of Alpha-1,3 Galactosyltransferase (
Alpha3gt) In A Complex With
P-Nitrophenyl-Beta-Galactoside (Pnp-Beta-Gal)
Length = 290
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 53 FVAGCPLIEYMHVFDCGGLKCLELPDLNNLKEFKAYDNFRLQRLHINGVNVCSIDLASRR 112
F+ G P+I Y+ V D + +EL L + K FK R Q I + +
Sbjct: 76 FMVGHPVIFYIMVDDVSRMPLIELGPLRSFKVFKIKPEKRWQ----------DISMMRMK 125
Query: 113 TLSDINVAPCKH 124
T+ + VA +H
Sbjct: 126 TIGEHIVAHIQH 137
>pdb|1O7O|A Chain A, Roles Of Individual Residues Of Alpha-1,3
Galactosyltransferases In Substrate Binding And
Catalysis
pdb|1O7O|B Chain B, Roles Of Individual Residues Of Alpha-1,3
Galactosyltransferases In Substrate Binding And
Catalysis
Length = 289
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 53 FVAGCPLIEYMHVFDCGGLKCLELPDLNNLKEFKAYDNFRLQRLHINGVNVCSIDLASRR 112
F+ G P+I Y+ V D + +EL L + K FK R Q I + +
Sbjct: 76 FMVGHPVIFYIMVDDVSRMPLIELGPLRSFKVFKIKPEKRWQ----------DISMMRMK 125
Query: 113 TLSDINVAPCKH 124
T+ + VA +H
Sbjct: 126 TIGEHIVAHIQH 137
>pdb|2VS4|A Chain A, The Binding Of Udp-Galactose By An Active Site Mutant Of
Alpha-1,3 Galactosyltransferase (Alpha3gt)
pdb|2VS4|B Chain B, The Binding Of Udp-Galactose By An Active Site Mutant Of
Alpha-1,3 Galactosyltransferase (Alpha3gt)
Length = 289
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 53 FVAGCPLIEYMHVFDCGGLKCLELPDLNNLKEFKAYDNFRLQRLHINGVNVCSIDLASRR 112
F+ G P+I Y+ V D + +EL L + K FK R Q I + +
Sbjct: 76 FMVGHPVIFYIMVDDVSRMPLIELGPLRSFKVFKIKPEKRWQ----------DISMMRMK 125
Query: 113 TLSDINVAPCKH 124
T+ + VA +H
Sbjct: 126 TIGEHIVAHIQH 137
>pdb|2VS3|A Chain A, The Binding Of Udp-Galactose By An Active Site Mutant Of
Alpha-1,3 Galactosyltransferase (Alpha3gt)
pdb|2VS3|B Chain B, The Binding Of Udp-Galactose By An Active Site Mutant Of
Alpha-1,3 Galactosyltransferase (Alpha3gt)
Length = 289
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 53 FVAGCPLIEYMHVFDCGGLKCLELPDLNNLKEFKAYDNFRLQRLHINGVNVCSIDLASRR 112
F+ G P+I Y+ V D + +EL L + K FK R Q I + +
Sbjct: 76 FMVGHPVIFYIMVDDVSRMPLIELGPLRSFKVFKIKPEKRWQ----------DISMMRMK 125
Query: 113 TLSDINVAPCKH 124
T+ + VA +H
Sbjct: 126 TIGEHIVAHIQH 137
>pdb|2VS5|A Chain A, The Binding Of Udp-Galactose By An Active Site Mutant Of
Alpha-1,3 Galactosyltransferase (Alpha3gt)
pdb|2VS5|B Chain B, The Binding Of Udp-Galactose By An Active Site Mutant Of
Alpha-1,3 Galactosyltransferase (Alpha3gt)
Length = 286
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 53 FVAGCPLIEYMHVFDCGGLKCLELPDLNNLKEFKAYDNFRLQRLHINGVNVCSIDLASRR 112
F+ G P+I Y+ V D + +EL L + K FK R Q I + +
Sbjct: 76 FMVGHPVIFYIMVDDVSRMPLIELGPLRSFKVFKIKPEKRWQ----------DISMMRMK 125
Query: 113 TLSDINVAPCKH 124
T+ + VA +H
Sbjct: 126 TIGEHIVAHIQH 137
>pdb|2JCK|A Chain A, Crystal Structure Of Alpha-1,3 Galactosyltransferase
(R365k) In Complex With Udp And 2 Manganese Ion
pdb|2JCL|A Chain A, Crystal Structure Of Alpha-1,3 Galactosyltransferase
(R365k) In The Absence Of Ligands
pdb|2JCL|B Chain B, Crystal Structure Of Alpha-1,3 Galactosyltransferase
(R365k) In The Absence Of Ligands
pdb|2VFZ|A Chain A, Crystal Structure Of Alpha-1,3 Galactosyltransferase
(r365k) In Complex With Udp-2f-galactose
pdb|2VFZ|B Chain B, Crystal Structure Of Alpha-1,3 Galactosyltransferase
(r365k) In Complex With Udp-2f-galactose
Length = 289
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 53 FVAGCPLIEYMHVFDCGGLKCLELPDLNNLKEFKAYDNFRLQRLHINGVNVCSIDLASRR 112
F+ G P+I Y+ V D + +EL L + K FK R Q I + +
Sbjct: 76 FMVGHPVIFYIMVDDVSRMPLIELGPLRSFKVFKIKPEKRWQ----------DISMMRMK 125
Query: 113 TLSDINVAPCKH 124
T+ + VA +H
Sbjct: 126 TIGEHIVAHIQH 137
>pdb|2JCJ|A Chain A, Crystal Structure Of Alpha-1,3 Galactosyltransferase (C-
Terminus Truncated Mutant-C3) In Complex With Udp Nd
Tris
Length = 286
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 53 FVAGCPLIEYMHVFDCGGLKCLELPDLNNLKEFKAYDNFRLQRLHINGVNVCSIDLASRR 112
F+ G P+I Y+ V D + +EL L + K FK R Q I + +
Sbjct: 76 FMVGHPVIFYIMVDDVSRMPLIELGPLRSFKVFKIKPEKRWQ----------DISMMRMK 125
Query: 113 TLSDINVAPCKH 124
T+ + VA +H
Sbjct: 126 TIGEHIVAHIQH 137
>pdb|1K4V|A Chain A, 1.53 A Crystal Structure Of The
Beta-galactoside-alpha-1,3- Galactosyltransferase In
Complex With Udp
pdb|1K4V|B Chain B, 1.53 A Crystal Structure Of The
Beta-galactoside-alpha-1,3- Galactosyltransferase In
Complex With Udp
pdb|1GWV|A Chain A, Alpha-,1,3 Galactosyltransferase - Lactose Complex
pdb|1GWV|B Chain B, Alpha-,1,3 Galactosyltransferase - Lactose Complex
pdb|1GWW|A Chain A, Alpha-,1,3 Galactosyltransferase- Alpha-D-Glucose Complex
pdb|1GWW|B Chain B, Alpha-,1,3 Galactosyltransferase- Alpha-D-Glucose Complex
pdb|1GX0|A Chain A, Alpha-,1,3 Galactosyltransferase - Beta-D-Galactose
Complex
pdb|1GX0|B Chain B, Alpha-,1,3 Galactosyltransferase - Beta-D-Galactose
Complex
pdb|1GX4|A Chain A, Alpha-,1,3 Galactosyltransferase - N-Acetyl Lactosamine
Complex
pdb|1GX4|B Chain B, Alpha-,1,3 Galactosyltransferase - N-Acetyl Lactosamine
Complex
pdb|1O7Q|A Chain A, Roles Of Individual Residues Of Alpha-1,3
Galactosyltransferases In Substrate Binding And
Catalysis
pdb|1O7Q|B Chain B, Roles Of Individual Residues Of Alpha-1,3
Galactosyltransferases In Substrate Binding And
Catalysis
pdb|2JCO|A Chain A, Crystal Structure Of Wild Type Alpha-1,3
Galactosyltransferase In The Absence Of Ligands
Length = 289
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 53 FVAGCPLIEYMHVFDCGGLKCLELPDLNNLKEFKAYDNFRLQRLHINGVNVCSIDLASRR 112
F+ G P+I Y+ V D + +EL L + K FK R Q I + +
Sbjct: 76 FMVGHPVIFYIMVDDVSRMPLIELGPLRSFKVFKIKPEKRWQ----------DISMMRMK 125
Query: 113 TLSDINVAPCKH 124
T+ + VA +H
Sbjct: 126 TIGEHIVAHIQH 137
>pdb|1VZU|A Chain A, Roles Of Active Site Tryptophans In Substrate Binding And
Catalysis By Alpha-1,3 Galactosyltransferase
pdb|1VZU|B Chain B, Roles Of Active Site Tryptophans In Substrate Binding And
Catalysis By Alpha-1,3 Galactosyltransferase
pdb|1VZX|A Chain A, Roles Of Active Site Tryptophans In Substrate Binding And
Catalysis By Alpha-1,3 Galactosyltransferase
pdb|1VZX|B Chain B, Roles Of Active Site Tryptophans In Substrate Binding And
Catalysis By Alpha-1,3 Galactosyltransferase
Length = 289
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 53 FVAGCPLIEYMHVFDCGGLKCLELPDLNNLKEFKAYDNFRLQRLHINGVNVCSIDLASRR 112
F+ G P+I Y+ V D + +EL L + K FK R Q I + +
Sbjct: 76 FMVGHPVIFYIMVDDVSRMPLIELGPLRSFKVFKIKPEKRWQ----------DISMMRMK 125
Query: 113 TLSDINVAPCKH 124
T+ + VA +H
Sbjct: 126 TIGEHIVAHIQH 137
>pdb|1VZT|A Chain A, Roles Of Individual Residues Of Alpha-1,3
Galactosyltransferases In Substrate Binding And
Catalysis
pdb|1VZT|B Chain B, Roles Of Individual Residues Of Alpha-1,3
Galactosyltransferases In Substrate Binding And
Catalysis
Length = 289
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 53 FVAGCPLIEYMHVFDCGGLKCLELPDLNNLKEFKAYDNFRLQRLHINGVNVCSIDLASRR 112
F+ G P+I Y+ V D + +EL L + K FK R Q I + +
Sbjct: 76 FMVGHPVIFYIMVDDVSRMPLIELGPLRSFKVFKIKPEKRWQ----------DISMMRMK 125
Query: 113 TLSDINVAPCKH 124
T+ + VA +H
Sbjct: 126 TIGEHIVAHIQH 137
>pdb|2VXM|A Chain A, Screening A Limited Structure-Based Library Identifies
Udp- Galnac-Specific Mutants Of Alpha-1,3
Galactosyltransferase
pdb|2VXM|B Chain B, Screening A Limited Structure-Based Library Identifies
Udp- Galnac-Specific Mutants Of Alpha-1,3
Galactosyltransferase
pdb|2VXM|C Chain C, Screening A Limited Structure-Based Library Identifies
Udp- Galnac-Specific Mutants Of Alpha-1,3
Galactosyltransferase
pdb|2VXM|D Chain D, Screening A Limited Structure-Based Library Identifies
Udp- Galnac-Specific Mutants Of Alpha-1,3
Galactosyltransferase
Length = 273
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 53 FVAGCPLIEYMHVFDCGGLKCLELPDLNNLKEFKAYDNFRLQRLHINGVNVCSIDLASRR 112
F+ G P+I Y+ V D + +EL L + K FK R Q I + +
Sbjct: 74 FMVGHPVIFYIMVDDVSRMPLIELGPLRSFKVFKIKPEKRWQ----------DISMMRMK 123
Query: 113 TLSDINVAPCKH 124
T+ + VA +H
Sbjct: 124 TIGEHIVAHIQH 135
>pdb|1G8O|A Chain A, Crystallographic Structure Of The Native Bovine Alpha-1,3-
Galactosyltransferase Catalytic Domain
pdb|1G93|A Chain A, Crystal Structure Of The Bovine Catalytic Domain Of
Alpha-1, 3-Galactosyltransferase In The Presence Of
Udp-Galactose
Length = 310
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 53 FVAGCPLIEYMHVFDCGGLKCLELPDLNNLKEFKAYDNFRLQRLHINGVNVCSIDLASRR 112
F+ G P+I Y+ V D + +EL L + K FK R Q I + +
Sbjct: 97 FMVGHPVIFYIMVDDVSRMPLIELGPLRSFKVFKIKPEKRWQ----------DISMMRMK 146
Query: 113 TLSDINVAPCKH 124
T+ + VA +H
Sbjct: 147 TIGEHIVAHIQH 158
>pdb|2VXL|A Chain A, Screening A Limited Structure-Based Library Identifies
Udp- Galnac-Specific Mutants Of Alpha-1,3
Galactosyltransferase
Length = 277
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 53 FVAGCPLIEYMHVFDCGGLKCLELPDLNNLKEFKAYDNFRLQRLHINGVNVCSIDLASRR 112
F+ G P+I Y+ V D + +EL L + K FK R Q I + +
Sbjct: 74 FMVGHPVIFYIMVDDVSRMPLIELGPLRSFKVFKIKPEKRWQ----------DISMMRMK 123
Query: 113 TLSDINVAPCKH 124
T+ + VA +H
Sbjct: 124 TIGEHIVAHIQH 135
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 0.138 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,468,084
Number of Sequences: 62578
Number of extensions: 206995
Number of successful extensions: 423
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 421
Number of HSP's gapped (non-prelim): 23
length of query: 226
length of database: 14,973,337
effective HSP length: 95
effective length of query: 131
effective length of database: 9,028,427
effective search space: 1182723937
effective search space used: 1182723937
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)