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= psy3378
(239 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2D7I|A Chain A, Crsytal Structure Of Pp-Galnac-T10 With Udp, Galnac And
Mn2+
pdb|2D7R|A Chain A, Crystal Structure Of Pp-galnac-t10 Complexed With
Galnac-ser On Lectin Domain
Length = 570
Score = 105 bits (262), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 59/120 (49%), Positives = 78/120 (65%), Gaps = 7/120 (5%)
Query: 115 EKGEFDEDKNKMQYGEWGKPVILPQNLSSDIKKLVEEGWQRNAFNQYVSDLISVKRKLPD 174
+K D ++ GE G+P + +D ++ V++ ++ N FN YVSD IS+ R LPD
Sbjct: 43 DKEAIRRDAQRVGNGEQGRPYPM-----TDAER-VDQAYRENGFNIYVSDKISLNRSLPD 96
Query: 175 PRDEWCKVPGRYLKNLPATSVIICFHNEAWSVLLRTVHSVLDRSPAHLLKEIILVDDYSD 234
R C RYL+ LP TS+II FHNE WS LLRTVHSVL+RSP L+ EI+LVDD+SD
Sbjct: 97 IRHPNCNS-KRYLETLPNTSIIIPFHNEGWSSLLRTVHSVLNRSPPELVAEIVLVDDFSD 155
>pdb|1XHB|A Chain A, The Crystal Structure Of Udp-Galnac: Polypeptide Alpha-N-
Acetylgalactosaminyltransferase-T1
Length = 472
Score = 91.7 bits (226), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 44/72 (61%), Positives = 56/72 (77%), Gaps = 1/72 (1%)
Query: 163 SDLISVKRKLPDPRDEWCKVPGRYLKNLPATSVIICFHNEAWSVLLRTVHSVLDRSPAHL 222
S++I++ R LPD R E CK Y NLP TSV+I FHNEAWS LLRTVHSV++RSP H+
Sbjct: 2 SEMIALNRSLPDVRLEGCKTK-VYPDNLPTTSVVIVFHNEAWSTLLRTVHSVINRSPRHM 60
Query: 223 LKEIILVDDYSD 234
++EI+LVDD S+
Sbjct: 61 IEEIVLVDDASE 72
>pdb|2FFU|A Chain A, Crystal Structure Of Human Ppgalnact-2 Complexed With Udp
And Ea2
pdb|2FFV|A Chain A, Human Ppgalnact-2 Complexed With Manganese And Udp
pdb|2FFV|B Chain B, Human Ppgalnact-2 Complexed With Manganese And Udp
Length = 501
Score = 90.1 bits (222), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 47/82 (57%), Positives = 60/82 (73%), Gaps = 1/82 (1%)
Query: 153 WQRNAFNQYVSDLISVKRKLPDPRDEWCKVPGRYLKNLPATSVIICFHNEAWSVLLRTVH 212
+ RN FNQ SD + + R +PD R + C+ ++ +LPATSV+I FHNEA S LLRTV
Sbjct: 29 YARNKFNQVESDKLRMDRAIPDTRHDQCQRK-QWRVDLPATSVVITFHNEARSALLRTVV 87
Query: 213 SVLDRSPAHLLKEIILVDDYSD 234
SVL +SP HL+KEIILVDDYS+
Sbjct: 88 SVLKKSPPHLIKEIILVDDYSN 109
>pdb|3VGD|A Chain A, Ctystal Structure Of Glycosyltrehalose Trehalohydrolase
(D252e)
Length = 558
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 208 LRTVHSVLDRSPAHLLKEI 226
L VH+++D SP H+L+EI
Sbjct: 251 LEAVHAIIDTSPKHILEEI 269
>pdb|3VGE|A Chain A, Crystal Structure Of Glycosyltrehalose Trehalohydrolase
(D252s)
pdb|3VGF|A Chain A, Crystal Structure Of Glycosyltrehalose Trehalohydrolase
(D252s) Complexed With Maltotriosyltrehalose
Length = 558
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 208 LRTVHSVLDRSPAHLLKEI 226
L VH+++D SP H+L+EI
Sbjct: 251 LSAVHAIIDTSPKHILEEI 269
>pdb|1EHA|A Chain A, Crystal Structure Of Glycosyltrehalose Trehalohydrolase
From Sulfolobus Solfataricus
Length = 558
Score = 28.1 bits (61), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 208 LRTVHSVLDRSPAHLLKEI 226
L VH+++D SP H+L+EI
Sbjct: 251 LDAVHAIIDTSPKHILEEI 269
>pdb|3VGG|A Chain A, Crystal Structure Of Glycosyltrehalose Trehalohydrolase
(E283q) Complexed With Maltoheptaose
pdb|3VGH|A Chain A, Crystal Structure Of Glycosyltrehalose Trehalohydrolase
(E283q) Complexed With Maltotriosyltrehalose
Length = 558
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 208 LRTVHSVLDRSPAHLLKEI 226
L VH+++D SP H+L+EI
Sbjct: 251 LDAVHAIIDTSPKHILEEI 269
>pdb|1EH9|A Chain A, Crystal Structure Of Sulfolobus Solfataricus
Glycosyltrehalose Trehalohydrolase
pdb|3VGB|A Chain A, Crystal Structure Of Glycosyltrehalose Trehalohydrolase
(Gthase) From Sulfolobus Solfataricus Km1
Length = 558
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 208 LRTVHSVLDRSPAHLLKEI 226
L VH+++D SP H+L+EI
Sbjct: 251 LDAVHAIIDTSPKHILEEI 269
>pdb|1JDB|B Chain B, Carbamoyl Phosphate Synthetase From Escherichia Coli
pdb|1JDB|E Chain E, Carbamoyl Phosphate Synthetase From Escherichia Coli
pdb|1JDB|H Chain H, Carbamoyl Phosphate Synthetase From Escherichia Coli
pdb|1JDB|K Chain K, Carbamoyl Phosphate Synthetase From Escherichia Coli
pdb|1BXR|A Chain A, Structure Of Carbamoyl Phosphate Synthetase Complexed With
The Atp Analog Amppnp
pdb|1BXR|C Chain C, Structure Of Carbamoyl Phosphate Synthetase Complexed With
The Atp Analog Amppnp
pdb|1BXR|E Chain E, Structure Of Carbamoyl Phosphate Synthetase Complexed With
The Atp Analog Amppnp
pdb|1BXR|G Chain G, Structure Of Carbamoyl Phosphate Synthetase Complexed With
The Atp Analog Amppnp
pdb|1C30|A Chain A, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small
Subunit Mutation C269s
pdb|1C30|C Chain C, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small
Subunit Mutation C269s
pdb|1C30|E Chain E, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small
Subunit Mutation C269s
pdb|1C30|G Chain G, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small
Subunit Mutation C269s
pdb|1C3O|A Chain A, Crystal Structure Of The Carbamoyl Phosphate Synthetase:
Small Subunit Mutant C269s With Bound Glutamine
pdb|1C3O|C Chain C, Crystal Structure Of The Carbamoyl Phosphate Synthetase:
Small Subunit Mutant C269s With Bound Glutamine
pdb|1C3O|E Chain E, Crystal Structure Of The Carbamoyl Phosphate Synthetase:
Small Subunit Mutant C269s With Bound Glutamine
pdb|1C3O|G Chain G, Crystal Structure Of The Carbamoyl Phosphate Synthetase:
Small Subunit Mutant C269s With Bound Glutamine
pdb|1CS0|A Chain A, Crystal Structure Of Carbamoyl Phosphate Synthetase
Complexed At Cys269 In The Small Subunit With The
Tetrahedral Mimic L-glutamate Gamma-semialdehyde
pdb|1CS0|C Chain C, Crystal Structure Of Carbamoyl Phosphate Synthetase
Complexed At Cys269 In The Small Subunit With The
Tetrahedral Mimic L-glutamate Gamma-semialdehyde
pdb|1CS0|E Chain E, Crystal Structure Of Carbamoyl Phosphate Synthetase
Complexed At Cys269 In The Small Subunit With The
Tetrahedral Mimic L-glutamate Gamma-semialdehyde
pdb|1CS0|G Chain G, Crystal Structure Of Carbamoyl Phosphate Synthetase
Complexed At Cys269 In The Small Subunit With The
Tetrahedral Mimic L-glutamate Gamma-semialdehyde
pdb|1KEE|A Chain A, Inactivation Of The Amidotransferase Activity Of Carbamoyl
Phosphate Synthetase By The Antibiotic Acivicin
pdb|1KEE|C Chain C, Inactivation Of The Amidotransferase Activity Of Carbamoyl
Phosphate Synthetase By The Antibiotic Acivicin
pdb|1KEE|E Chain E, Inactivation Of The Amidotransferase Activity Of Carbamoyl
Phosphate Synthetase By The Antibiotic Acivicin
pdb|1KEE|G Chain G, Inactivation Of The Amidotransferase Activity Of Carbamoyl
Phosphate Synthetase By The Antibiotic Acivicin
pdb|1T36|A Chain A, Crystal Structure Of E. Coli Carbamoyl Phosphate
Synthetase Small Subunit Mutant C248d Complexed With
Uridine 5'-Monophosphate
pdb|1T36|C Chain C, Crystal Structure Of E. Coli Carbamoyl Phosphate
Synthetase Small Subunit Mutant C248d Complexed With
Uridine 5'-Monophosphate
pdb|1T36|E Chain E, Crystal Structure Of E. Coli Carbamoyl Phosphate
Synthetase Small Subunit Mutant C248d Complexed With
Uridine 5'-Monophosphate
pdb|1T36|G Chain G, Crystal Structure Of E. Coli Carbamoyl Phosphate
Synthetase Small Subunit Mutant C248d Complexed With
Uridine 5'-Monophosphate
Length = 1073
Score = 26.9 bits (58), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 26/44 (59%)
Query: 50 FMEDRNRSGVVIESLDNLNNVDRQSLKNVDDNDNLIQPVAQAQI 93
++ D R+G+ ++ + NL N+DR L +++ L + VA+ I
Sbjct: 438 YIADAFRAGLSVDGVFNLTNIDRWFLVQIEELVRLEEKVAEVGI 481
>pdb|1A9X|A Chain A, Carbamoyl Phosphate Synthetase: Caught In The Act Of
Glutamine Hydrolysis
pdb|1A9X|C Chain C, Carbamoyl Phosphate Synthetase: Caught In The Act Of
Glutamine Hydrolysis
pdb|1A9X|E Chain E, Carbamoyl Phosphate Synthetase: Caught In The Act Of
Glutamine Hydrolysis
pdb|1A9X|G Chain G, Carbamoyl Phosphate Synthetase: Caught In The Act Of
Glutamine Hydrolysis
Length = 1073
Score = 26.9 bits (58), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 26/44 (59%)
Query: 50 FMEDRNRSGVVIESLDNLNNVDRQSLKNVDDNDNLIQPVAQAQI 93
++ D R+G+ ++ + NL N+DR L +++ L + VA+ I
Sbjct: 438 YIADAFRAGLSVDGVFNLTNIDRWFLVQIEELVRLEEKVAEVGI 481
>pdb|1CE8|A Chain A, Carbamoyl Phosphate Synthetase From Escherichis Coli With
Complexed With The Allosteric Ligand Imp
pdb|1CE8|C Chain C, Carbamoyl Phosphate Synthetase From Escherichis Coli With
Complexed With The Allosteric Ligand Imp
pdb|1CE8|E Chain E, Carbamoyl Phosphate Synthetase From Escherichis Coli With
Complexed With The Allosteric Ligand Imp
pdb|1CE8|G Chain G, Carbamoyl Phosphate Synthetase From Escherichis Coli With
Complexed With The Allosteric Ligand Imp
pdb|1M6V|A Chain A, Crystal Structure Of The G359f (Small Subunit) Point
Mutant Of Carbamoyl Phosphate Synthetase
pdb|1M6V|C Chain C, Crystal Structure Of The G359f (Small Subunit) Point
Mutant Of Carbamoyl Phosphate Synthetase
pdb|1M6V|E Chain E, Crystal Structure Of The G359f (Small Subunit) Point
Mutant Of Carbamoyl Phosphate Synthetase
pdb|1M6V|G Chain G, Crystal Structure Of The G359f (Small Subunit) Point
Mutant Of Carbamoyl Phosphate Synthetase
Length = 1073
Score = 26.9 bits (58), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 26/44 (59%)
Query: 50 FMEDRNRSGVVIESLDNLNNVDRQSLKNVDDNDNLIQPVAQAQI 93
++ D R+G+ ++ + NL N+DR L +++ L + VA+ I
Sbjct: 438 YIADAFRAGLSVDGVFNLTNIDRWFLVQIEELVRLEEKVAEVGI 481
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
0.319 0.136 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,904,732
Number of Sequences: 62578
Number of extensions: 270040
Number of successful extensions: 636
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 622
Number of HSP's gapped (non-prelim): 12
length of query: 239
length of database: 14,973,337
effective HSP length: 96
effective length of query: 143
effective length of database: 8,965,849
effective search space: 1282116407
effective search space used: 1282116407
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: 50 (23.9 bits)