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= 020690
(322 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IRZ|A Chain A, Solution Structure Of Arr10-B Belonging To The Garp Family
Of Plant Myb-Related Dna Binding Motifs Of The
Arabidopsis Response Regulators
Length = 64
Score = 84.7 bits (208), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 37/60 (61%), Positives = 51/60 (85%)
Query: 112 KRPRLVWTPQLHKRFVDAVAHLGIKNAVPKTIMQLMSVDGLTRENVASHLQKYRLYLKRM 171
K+PR++WT +LH +F+ AV HLG++ AVPK I+ LM+VD LTRENVASHLQK+R+ LK++
Sbjct: 4 KKPRVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKFRVALKKV 63
>pdb|4G4Q|A Chain A, Mutm Containing F114a Mutation Bound To Undamaged Dna
Length = 273
Score = 33.1 bits (74), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 226 FLPYVPVAALHQQQMA-----VAAAVGNPHLQGHQYHRQMSHFGSPANGQFEHHLFARQA 280
LP P A+L +++ + A +G ++G R + A G F+HHL+
Sbjct: 185 ILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVNTQGEA-GTFQHHLYVYGR 243
Query: 281 QPQQVHRMGAPVHSTV 296
Q R G P+ TV
Sbjct: 244 QGNPCKRCGTPIEKTV 259
>pdb|4G4N|A Chain A, Mutm Containing M77a Mutation Bound To Undamaged Dna
Length = 273
Score = 33.1 bits (74), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 226 FLPYVPVAALHQQQMA-----VAAAVGNPHLQGHQYHRQMSHFGSPANGQFEHHLFARQA 280
LP P A+L +++ + A +G ++G R + A G F+HHL+
Sbjct: 185 ILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVNTQGEA-GTFQHHLYVYGR 243
Query: 281 QPQQVHRMGAPVHSTV 296
Q R G P+ TV
Sbjct: 244 QGNPCKRCGTPIEKTV 259
>pdb|3SAR|A Chain A, Mutm Slanted Complex 1
pdb|3SAU|A Chain A, Mutm Interrogation Complex 6
pdb|3SAV|A Chain A, Mutm Slanted Complex 8
Length = 273
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 226 FLPYVPVAALHQQQMA-----VAAAVGNPHLQGHQYHRQMSHFGSPANGQFEHHLFARQA 280
LP P A+L +++ + A +G ++G R + A G F+HHL+
Sbjct: 185 ILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVNTQGEA-GTFQHHLYVYGR 243
Query: 281 QPQQVHRMGAPVHSTV 296
Q R G P+ TV
Sbjct: 244 QGNPCKRCGTPIEKTV 259
>pdb|4G4R|A Chain A, Mutm Containing F114a Mutation Bound To Oxog-containing
Dna
Length = 273
Score = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 226 FLPYVPVAALHQQQMA-----VAAAVGNPHLQGHQYHRQMSHFGSPANGQFEHHLFARQA 280
LP P A+L +++ + A +G ++G R + A G F+HHL+
Sbjct: 185 ILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVNTQGEA-GTFQHHLYVYGR 243
Query: 281 QPQQVHRMGAPVHSTV 296
Q R G P+ TV
Sbjct: 244 QGNPCKRCGTPIEKTV 259
>pdb|2F5N|A Chain A, Mutm Crosslinked To Undamaged Dna Sampling A:t Base Pair
Ic1
pdb|2F5O|A Chain A, Mutm Crosslinked To Undamaged Dna Sampling G:c Base Pair
Ic3
pdb|2F5P|A Chain A, Mutm Crosslinked To Undamaged Dna Sampling A:t Base Pair
Ic2
Length = 274
Score = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 226 FLPYVPVAALHQQQMA-----VAAAVGNPHLQGHQYHRQMSHFGSPANGQFEHHLFARQA 280
LP P A+L +++ + A +G ++G R + A G F+HHL+
Sbjct: 186 ILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVNTQGEA-GTFQHHLYVYGR 244
Query: 281 QPQQVHRMGAPVHSTV 296
Q R G P+ TV
Sbjct: 245 QGNPCKRCGTPIEKTV 260
>pdb|3SAS|A Chain A, Mutm Slanted Complex 4 With R112a Mutation
pdb|3SAT|A Chain A, Mutm Slanted Complex 6 With R112a Mutation
pdb|3SAW|A Chain A, Mutm Slanted Complex 8 With R112a Mutation
Length = 273
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 226 FLPYVPVAALHQQQMA-----VAAAVGNPHLQGHQYHRQMSHFGSPANGQFEHHLFARQA 280
LP P A+L +++ + A +G ++G R + A G F+HHL+
Sbjct: 185 ILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVNTQGEA-GTFQHHLYVYGR 243
Query: 281 QPQQVHRMGAPVHSTV 296
Q R G P+ TV
Sbjct: 244 QGNPCKRCGTPIEKTV 259
>pdb|1L1T|A Chain A, Mutm (Fpg) Bound To Abasic-Site Containing Dna
pdb|1L1Z|A Chain A, Mutm (Fpg) Covalent-Dna Intermediate
pdb|1L2B|A Chain A, Mutm (Fpg) Dna End-Product Structure
pdb|1L2C|A Chain A, Mutm (Fpg)-Dna Estranged Thymine Mismatch Recognition
Complex
pdb|1L2D|A Chain A, Mutm (fpg)-dna Estranged Guanine Mismatch Recognition
Complex
Length = 274
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 226 FLPYVPVAALHQQQMA-----VAAAVGNPHLQGHQYHRQMSHFGSPANGQFEHHLFARQA 280
LP P A+L +++ + A +G ++G R + A G F+HHL+
Sbjct: 186 ILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVNTQGEA-GTFQHHLYVYGR 244
Query: 281 QPQQVHRMGAPVHSTV 296
Q R G P+ TV
Sbjct: 245 QGNPCKRCGTPIEKTV 260
>pdb|4G4O|A Chain A, Mutm Containing M77a Mutation Bound To Oxog-containing Dna
Length = 273
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 226 FLPYVPVAALHQQQMA-----VAAAVGNPHLQGHQYHRQMSHFGSPANGQFEHHLFARQA 280
LP P A+L +++ + A +G ++G R + A G F+HHL+
Sbjct: 185 ILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVNTQGEA-GTFQHHLYVYGR 243
Query: 281 QPQQVHRMGAPVHSTV 296
Q R G P+ TV
Sbjct: 244 QGNPCKRCGTPIEKTV 259
>pdb|2F5Q|A Chain A, Catalytically Inactive (E3q) Mutm Crosslinked To Oxog:c
Containing Dna Cc2
pdb|2F5S|A Chain A, Catalytically Inactive (e3q) Mutm Crosslinked To Oxog:c
Containing Dna Cc1
Length = 274
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 226 FLPYVPVAALHQQQMA-----VAAAVGNPHLQGHQYHRQMSHFGSPANGQFEHHLFARQA 280
LP P A+L +++ + A +G ++G R + A G F+HHL+
Sbjct: 186 ILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVNTQGEA-GTFQHHLYVYGR 244
Query: 281 QPQQVHRMGAPVHSTV 296
Q R G P+ TV
Sbjct: 245 QGNPCKRCGTPIEKTV 260
>pdb|3GPY|A Chain A, Sequence-Matched Mutm Lesion Recognition Complex 3 (Lrc3)
pdb|3GQ4|A Chain A, Sequence-matched Mutm Lesion Recognition Complex 5 (lrc5)
Length = 273
Score = 32.7 bits (73), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 226 FLPYVPVAALHQQQMA-----VAAAVGNPHLQGHQYHRQMSHFGSPANGQFEHHLFARQA 280
LP P A+L +++ + A +G ++G R + A G F+HHL+
Sbjct: 185 ILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVNTQGEA-GTFQHHLYVYGR 243
Query: 281 QPQQVHRMGAPVHSTV 296
Q R G P+ TV
Sbjct: 244 QGNPCKRCGTPIEKTV 259
>pdb|3GP1|A Chain A, Mutm Encountering An Intrahelical 8-Oxoguanine (Oxog)
Lesion In Ec3- V222p Complex
pdb|3SBJ|A Chain A, Mutm Slanted Complex 7
Length = 273
Score = 32.7 bits (73), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 226 FLPYVPVAALHQQQMA-----VAAAVGNPHLQGHQYHRQMSHFGSPANGQFEHHLFARQA 280
LP P A+L +++ + A +G ++G R + A G F+HHL+
Sbjct: 185 ILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTPRTYVNTQGEA-GTFQHHLYVYGR 243
Query: 281 QPQQVHRMGAPVHSTV 296
Q R G P+ TV
Sbjct: 244 QGNPCKRCGTPIEKTV 259
>pdb|1R2Y|A Chain A, Mutm (Fpg) Bound To 8-Oxoguanine (Oxog) Containing Dna
pdb|1R2Z|A Chain A, Mutm (Fpg) Bound To 5,6-Dihydrouracil (Dhu) Containing Dna
Length = 274
Score = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 226 FLPYVPVAALHQQQMA-----VAAAVGNPHLQGHQYHRQMSHFGSPANGQFEHHLFARQA 280
LP P A+L +++ + A +G ++G R + A G F+HHL+
Sbjct: 186 ILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVNTQGEA-GTFQHHLYVYGR 244
Query: 281 QPQQVHRMGAPVHSTV 296
Q R G P+ TV
Sbjct: 245 QGNPCKRCGTPIEKTV 260
>pdb|3JR4|A Chain A, Mutm Interrogating An Extrahelical G
pdb|3JR5|A Chain A, Mutm Lesion Recognition Control Complex With N174c
Crosslinking Site
Length = 273
Score = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 226 FLPYVPVAALHQQQMA-----VAAAVGNPHLQGHQYHRQMSHFGSPANGQFEHHLFARQA 280
LP P A+L +++ + A +G ++G R + A G F+HHL+
Sbjct: 185 ILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVNTQGEA-GTFQHHLYVYGR 243
Query: 281 QPQQVHRMGAPVHSTV 296
Q R G P+ TV
Sbjct: 244 QGNPCKRCGTPIEKTV 259
>pdb|3U6C|A Chain A, Mutm Set 1 Apgo
pdb|3U6D|A Chain A, Mutm Set 1 Gpgo
pdb|3U6E|A Chain A, Mutm Set 1 Tpgo
pdb|3U6L|A Chain A, Mutm Set 2 Cpgo
pdb|3U6M|A Chain A, Structural Effects Of Sequence Context On Lesion
Recognition By Mutm
pdb|3U6O|A Chain A, Mutm Set 1 Apg
pdb|3U6P|A Chain A, Mutm Set 1 Gpg
pdb|3U6Q|A Chain A, Mutm Set 2 Apgo
pdb|3U6S|A Chain A, Mutm Set 1 Tpg
Length = 273
Score = 32.7 bits (73), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 226 FLPYVPVAALHQQQMA-----VAAAVGNPHLQGHQYHRQMSHFGSPANGQFEHHLFARQA 280
LP P A+L +++ + A +G ++G R + A G F+HHL+
Sbjct: 185 ILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTPRTYVNTQGEA-GTFQHHLYVYGR 243
Query: 281 QPQQVHRMGAPVHSTV 296
Q R G P+ TV
Sbjct: 244 QGNPCKRCGTPIEKTV 259
>pdb|3GPP|A Chain A, Mutm Encountering An Intrahelical 8-Oxoguanine (Oxog)
Lesion In Ec3- T224p Complex
pdb|3GQ5|A Chain A, Sequence-Matched Mutm Interrogation Complex 5 (Ic5)
Length = 273
Score = 32.0 bits (71), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 226 FLPYVPVAALHQQQMA-----VAAAVGNPHLQGHQYHRQMSHFGSPANGQFEHHLFARQA 280
LP P A+L +++ + A +G ++G R + A G F+HHL+
Sbjct: 185 ILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRPYVNTQGEA-GTFQHHLYVYGR 243
Query: 281 QPQQVHRMGAPVHSTV 296
Q R G P+ TV
Sbjct: 244 QGNPCKRCGTPIEKTV 259
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
0.318 0.133 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,656,994
Number of Sequences: 62578
Number of extensions: 308037
Number of successful extensions: 589
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 568
Number of HSP's gapped (non-prelim): 23
length of query: 322
length of database: 14,973,337
effective HSP length: 99
effective length of query: 223
effective length of database: 8,778,115
effective search space: 1957519645
effective search space used: 1957519645
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)