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= psy2182
(67 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|6PAX|A Chain A, Crystal Structure Of The Human Pax-6 Paired Domain-Dna
Complex Reveals A General Model For Pax Protein-Dna
Interactions
Length = 133
Score = 110 bits (276), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 51/61 (83%), Positives = 56/61 (91%)
Query: 7 YYETGSIKPRAIGGSKPRVATNGVVTKIADYKRECPSIFAWEIRDRLLAEGVCNNDNIPS 66
YY TGSI+PRAIGGSKPRVAT VV+KIA YK+ECPSIFAWEIRDRLL+EGVC NDNIPS
Sbjct: 57 YYATGSIRPRAIGGSKPRVATPEVVSKIAQYKQECPSIFAWEIRDRLLSEGVCTNDNIPS 116
Query: 67 L 67
+
Sbjct: 117 V 117
>pdb|2K27|A Chain A, Solution Structure Of Human Pax8 Paired Box Domain
Length = 159
Score = 100 bits (248), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 45/61 (73%), Positives = 53/61 (86%)
Query: 7 YYETGSIKPRAIGGSKPRVATNGVVTKIADYKRECPSIFAWEIRDRLLAEGVCNNDNIPS 66
YYETGSI+P IGGSKP+VAT VV KI DYKR+ P++FAWEIRDRLLAEGVC+ND +PS
Sbjct: 65 YYETGSIRPGVIGGSKPKVATPKVVEKIGDYKRQNPTMFAWEIRDRLLAEGVCDNDTVPS 124
Query: 67 L 67
+
Sbjct: 125 V 125
>pdb|1K78|A Chain A, Pax5(1-149)+ets-1(331-440)+dna
pdb|1K78|E Chain E, Pax5(1-149)+ets-1(331-440)+dna
pdb|1K78|I Chain I, Pax5(1-149)+ets-1(331-440)+dna
pdb|1MDM|A Chain A, Inhibited Fragment Of Ets-1 And Paired Domain Of Pax5
Bound To Dna
Length = 149
Score = 97.8 bits (242), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 45/61 (73%), Positives = 53/61 (86%)
Query: 7 YYETGSIKPRAIGGSKPRVATNGVVTKIADYKRECPSIFAWEIRDRLLAEGVCNNDNIPS 66
YYETGSIKP IGGSKP+VAT VV KIA+YKR+ P++FAWEIRDRLLAE VC+ND +PS
Sbjct: 72 YYETGSIKPGVIGGSKPKVATPKVVEKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVPS 131
Query: 67 L 67
+
Sbjct: 132 V 132
>pdb|1PDN|C Chain C, Crystal Structure Of A Paired Domain-Dna Complex At 2.5
Angstroms Resolution Reveals Structural Basis For Pax
Developmental Mutations
Length = 128
Score = 76.3 bits (186), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 33/61 (54%), Positives = 45/61 (73%)
Query: 7 YYETGSIKPRAIGGSKPRVATNGVVTKIADYKRECPSIFAWEIRDRLLAEGVCNNDNIPS 66
Y ETGSI+P IGGSKPR+AT + +I +YKR P +F+WEIR++L+ EGVC+ PS
Sbjct: 57 YQETGSIRPGVIGGSKPRIATPEIENRIEEYKRSSPGMFSWEIREKLIREGVCDRSTAPS 116
Query: 67 L 67
+
Sbjct: 117 V 117
>pdb|3ZXS|A Chain A, Cryptochrome B From Rhodobacter Sphaeroides
pdb|3ZXS|B Chain B, Cryptochrome B From Rhodobacter Sphaeroides
pdb|3ZXS|C Chain C, Cryptochrome B From Rhodobacter Sphaeroides
Length = 522
Score = 28.5 bits (62), Expect = 0.89, Method: Composition-based stats.
Identities = 12/33 (36%), Positives = 21/33 (63%), Gaps = 4/33 (12%)
Query: 20 GSKPRVATNGVVTKIADYKRECPSIFAWEIRDR 52
GSKP V++ + +++DY R C A+ ++DR
Sbjct: 430 GSKPYVSSGAYIDRMSDYCRGC----AYAVKDR 458
>pdb|1PJ5|A Chain A, Crystal Structure Of Dimethylglycine Oxidase Of
Arthrobacter Globiformis In Complex With Acetate
pdb|1PJ6|A Chain A, Crystal Structure Of Dimethylglycine Oxidase Of
Arthrobacter Globiformis In Complex With Folic Acid
pdb|1PJ7|A Chain A, Structure Of Dimethylglycine Oxidase Of Arthrobacter
Globiformis In Complex With Folinic Acid
Length = 830
Score = 26.6 bits (57), Expect = 4.1, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 32 TKIADYKRECPSIFAWEIRDRLLAEGVC 59
T++AD KR+ AW I RLL+ C
Sbjct: 97 TRLADLKRKLGYAAAWGIEGRLLSPAEC 124
>pdb|3GSI|A Chain A, Crystal Structure Of D552a Dimethylglycine Oxidase Mutant
Of Arthrobacter Globiformis In Complex With
Tetrahydrofolate
Length = 827
Score = 26.6 bits (57), Expect = 4.1, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 32 TKIADYKRECPSIFAWEIRDRLLAEGVC 59
T++AD KR+ AW I RLL+ C
Sbjct: 94 TRLADLKRKLGYAAAWGIEGRLLSPAEC 121
>pdb|3QGA|A Chain A, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae
pdb|3QGA|D Chain D, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae
pdb|3QGA|G Chain G, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae
pdb|3QGA|J Chain J, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae
pdb|3QGA|M Chain M, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae
pdb|3QGA|P Chain P, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae
pdb|3QGK|A Chain A, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae (Refined W NO ORDERED SOLVENT)
pdb|3QGK|D Chain D, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae (Refined W NO ORDERED SOLVENT)
pdb|3QGK|G Chain G, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae (Refined W NO ORDERED SOLVENT)
pdb|3QGK|J Chain J, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae (Refined W NO ORDERED SOLVENT)
pdb|3QGK|M Chain M, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae (Refined W NO ORDERED SOLVENT)
pdb|3QGK|P Chain P, 3.0 A Model Of Iron Containing Urease Urea2b2 From
Helicobacter Mustelae (Refined W NO ORDERED SOLVENT)
Length = 225
Score = 26.2 bits (56), Expect = 5.3, Method: Composition-based stats.
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 6 GYYETGSIKPRAIGGSKPRVATNGVVTKIAD 36
G ET ++ IGGSK + NG++ IAD
Sbjct: 177 GAGETKTVHLIPIGGSKKIIGMNGLLNGIAD 207
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
0.316 0.136 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,210,920
Number of Sequences: 62578
Number of extensions: 67237
Number of successful extensions: 151
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 144
Number of HSP's gapped (non-prelim): 8
length of query: 67
length of database: 14,973,337
effective HSP length: 38
effective length of query: 29
effective length of database: 12,595,373
effective search space: 365265817
effective search space used: 365265817
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 45 (21.9 bits)