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= 041553
(315 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I6D|A Chain A, The Structure Of A Putative Rna Methyltransferase Of The
Trmh Family From Porphyromonas Gingivalis
Length = 257
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 27/48 (56%), Positives = 34/48 (70%)
Query: 211 LVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGA 258
L+LDG+QDPGN+GT+LRTA F V+L G D FS K ++AS GA
Sbjct: 106 LLLDGVQDPGNVGTILRTADWFGIRHVWLGTGSADVFSPKVVQASXGA 153
>pdb|1IPA|A Chain A, Crystal Structure Of Rna 2'-O Ribose Methyltransferase
Length = 274
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 56/189 (29%), Positives = 86/189 (45%), Gaps = 18/189 (9%)
Query: 82 ITSTSNPFVKHCLKLRQSSSYRHSHGSALVVGTTPIREIYNFNRSLQERTVRMDCLLLLD 141
ITST+NP +K +L + +R S L+ G I L++ V + L +
Sbjct: 3 ITSTANPRIKELARLLERK-HRDSQRRFLIEGAREIERALQAGIELEQALV-WEGGLNPE 60
Query: 142 KVEVPEGLDNIS-THTVRVSSVVMKKLSGVQSSESIEAIALMKIPTSVFSIDVNQKEADC 200
+ +V L + + VS V+KKLS + + IAL ++P E
Sbjct: 61 EQQVYAALGRVGRLALLEVSEAVLKKLSVRDNPAGL--IALARMP-----------ERTL 107
Query: 201 RSWFPSIHR-ILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGAC 259
+ PS ILV G++ PGNLG +LR+A A V L+ G D +S + +R S G
Sbjct: 108 EEYRPSPDALILVAVGLEKPGNLGAVLRSADAAGAEAV-LVAGGVDLYSPQVIRNSTGVV 166
Query: 260 FQLPIVSGS 268
F L ++ S
Sbjct: 167 FSLRTLAAS 175
>pdb|3GYQ|A Chain A, Structure Of The Thiostrepton-Resistance Methyltransferase
S-Adenosyl-L-Methionine Complex
pdb|3GYQ|B Chain B, Structure Of The Thiostrepton-Resistance Methyltransferase
S-Adenosyl-L-Methionine Complex
Length = 272
Score = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 50/84 (59%), Gaps = 3/84 (3%)
Query: 210 ILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKAL-RASRGACFQLPIV-SG 267
++VLDG++ GN+G ++RT++A G+ L+ +++ L RASRG F LP+V SG
Sbjct: 121 VVVLDGVKIVGNIGAIVRTSLALGASGIILVDSDITSIADRRLQRASRGYVFSLPVVLSG 180
Query: 268 SWYHLEVLKDEFQMKLLAGHAGGN 291
+ ++D M+L+ A G+
Sbjct: 181 REEAIAFIRDS-GMQLMTLKADGD 203
>pdb|3NK6|A Chain A, Structure Of The Nosiheptide-Resistance Methyltransferase
pdb|3NK6|B Chain B, Structure Of The Nosiheptide-Resistance Methyltransferase
pdb|3NK7|A Chain A, Structure Of The Nosiheptide-Resistance Methyltransferase
S-Adenosyl- L-Methionine Complex
pdb|3NK7|B Chain B, Structure Of The Nosiheptide-Resistance Methyltransferase
S-Adenosyl- L-Methionine Complex
Length = 277
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 49/191 (25%), Positives = 87/191 (45%), Gaps = 30/191 (15%)
Query: 82 ITSTSNPFVKHCLKLRQSSSYRHSHGSALVVGTTP----IREIYNFNRSLQERTVRMD-- 135
IT+ S+P V+ + + + S R S + L+ T P IR F +D
Sbjct: 10 ITNASDPAVQRIIDVTKHS--RASIKTTLIEDTEPLMECIRAGVQFIEVYGSSGTPLDPA 67
Query: 136 CLLLLDKVEVPEGLDNISTHTVRVSSVVMKKLSGVQSSESIEAIALMKIPTSVFSIDVNQ 195
L L + E+P L ++S ++ +L + + IA ++P D+ +
Sbjct: 68 LLDLCRQREIPVRLIDVS---------IVNQLFKAERKAKVFGIA--RVPRPARLADIAE 116
Query: 196 KEADCRSWFPSIHRILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSE-KALRA 254
+ D ++VLDG++ GN+G ++RT++A G+ L+ ++ + LRA
Sbjct: 117 RGGD----------VVVLDGVKIVGNIGAIVRTSLALGAAGIVLVDSDLATIADRRLLRA 166
Query: 255 SRGACFQLPIV 265
SRG F LP+V
Sbjct: 167 SRGYVFSLPVV 177
>pdb|1X7P|A Chain A, Crystal Structure Of The Spou Methyltransferase Avirb From
Streptomyces Viridochromogenes In Complex With The
Cofactor Adomet
pdb|1X7P|B Chain B, Crystal Structure Of The Spou Methyltransferase Avirb From
Streptomyces Viridochromogenes In Complex With The
Cofactor Adomet
Length = 287
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 47/188 (25%), Positives = 81/188 (43%), Gaps = 19/188 (10%)
Query: 80 KNITSTSNPFVKHCLKLRQSSSYRHSHGSALVVGTTPIREIYNFNRSLQERTVRMDCLLL 139
+ ITS + F + L + + R G LV+G PI RT+ D
Sbjct: 13 RRITSRNARF-QQWQALLGNRNKRTRAGEFLVMGVRPIS--LAVEHGWPVRTLLYDGQRE 69
Query: 140 LDKVEVPEGLDNISTHTVRVSSVVMKKLSGVQSSESIEAIALMKIPTSVFSIDVNQKEAD 199
L K E L + T + ++ ++ +L G ++ E +A++++P AD
Sbjct: 70 LSKW-ARELLRTVRTEQIAMAPDLLMEL-GEKNEAPPEVVAVVEMP------------AD 115
Query: 200 CRSWFPSIHRIL--VLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRG 257
P L + D PGN+G+++R+A A G+ + D + K++R+S G
Sbjct: 116 DLDRIPVREDFLGVLFDRPTSPGNIGSIIRSADALGAHGLIVAGHAADVYDPKSVRSSTG 175
Query: 258 ACFQLPIV 265
+ F LP V
Sbjct: 176 SLFSLPAV 183
>pdb|1X7O|A Chain A, Crystal Structure Of The Spou Methyltransferase Avirb From
Streptomyces Viridochromogenes
pdb|1X7O|B Chain B, Crystal Structure Of The Spou Methyltransferase Avirb From
Streptomyces Viridochromogenes
Length = 287
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 32/55 (58%)
Query: 211 LVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQLPIV 265
++ D PGN+G+++R+A A G+ + D + K++R+S G+ F LP V
Sbjct: 129 VLFDRPTSPGNIGSIIRSADALGAHGLIVAGHAADVYDPKSVRSSTGSLFSLPAV 183
>pdb|1GZ0|A Chain A, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
pdb|1GZ0|B Chain B, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
pdb|1GZ0|C Chain C, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
pdb|1GZ0|D Chain D, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
pdb|1GZ0|E Chain E, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
pdb|1GZ0|F Chain F, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
pdb|1GZ0|G Chain G, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
pdb|1GZ0|H Chain H, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
Length = 253
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 29/56 (51%)
Query: 210 ILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDPFSEKALRASRGACFQLPIV 265
+L+LDG+ DP NLG LR+A A V + + A + + GA +P++
Sbjct: 107 LLILDGVTDPHNLGACLRSADAAGVHAVIVPKDRSAQLNATAKKVACGAAESVPLI 162
>pdb|2YYK|A Chain A, Crystal Structure Of The Mutant Of Hpab (T198i, A276g, And
R466h)
pdb|2YYL|A Chain A, Crystal Structure Of The Mutant Of Hpab (t198i, A276g, And
R466h) Complexed With Fad
pdb|2YYM|A Chain A, Crystal Structure Of The Mutant Of Hpab (T198i, A276g, And
R466h) Complexed With Fad And 4-Hydroxyphenylacetate
Length = 481
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 6/39 (15%)
Query: 108 SALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVEVP 146
ALV G +P F+ L R MDCL++ D V VP
Sbjct: 226 EALVGGDSP------FDHPLSSRVEEMDCLVIFDDVLVP 258
>pdb|2YYG|A Chain A, Crystal Structure Of The Oxygenase Component (Hpab) Of 4-
Hydroxyphenylacetate 3-Monooxygenase
pdb|2YYI|A Chain A, Crystal Structure Of The Oxygenase Component (Hpab) Of 4-
Hydroxyphenylacetate 3-Monooxygenase Complexed With Fad
pdb|2YYJ|A Chain A, Crystal Structure Of The Oxygenase Component (Hpab) Of 4-
Hydroxyphenylacetate 3-Monooxygenase Complexed With Fad
And 4- Hydroxyphenylacetate
Length = 481
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 6/39 (15%)
Query: 108 SALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDKVEVP 146
ALV G +P F+ L R MDCL++ D V VP
Sbjct: 226 EALVGGDSP------FDHPLSSRVEEMDCLVIFDDVLVP 258
>pdb|2NQ9|A Chain A, High Resolution Crystal Structure Of Escherichia Coli
Endonuclease Iv (Endo Iv) Y72a Mutant Bound To Damaged
Dna
Length = 285
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 58/241 (24%), Positives = 96/241 (39%), Gaps = 34/241 (14%)
Query: 83 TSTSNPFVKHCLKLRQSSSYRHSHGSALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDK 142
T T + F C K +S+ H SAL+ P+ E +R +D+
Sbjct: 46 TQTIDEFKAACEKYHYTSAQILPHDSALINLGHPVTEALEKSRDA-----------FIDE 94
Query: 143 VEVPE--GLDNISTHTVRVSSVVMKKLSGVQSSESIEAIALMKIPTSVFSIDVNQKEADC 200
++ E GL ++ H + ++ + +ESI IAL K V ++ N
Sbjct: 95 MQRCEQLGLSLLNFHPGSHLMQISEEDCLARIAESIN-IALDK-TQGVTAVIENTAGQGS 152
Query: 201 RSWFPSIHRILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDP-FSEKALRASRGAC 259
F H ++DG++D +G + T AF G P C+ F++ A R
Sbjct: 153 NLGFKFEHLAAIIDGVEDKSRVGVCIDTCHAFAAGYDLRTPAECEKTFADFA----RTVG 208
Query: 260 FQLPIVSGSWYHLEVLKDEFQMKLLAGHA-----GGNEEPRQVLQLSQELADSFAGVPLC 314
F+ + G HL K F ++ H+ G++ R ++Q D F G+PL
Sbjct: 209 FKY--LRG--MHLNDAKSTFGSRVDRHHSLGEGNIGHDAFRWIMQ-----DDRFDGIPLI 259
Query: 315 L 315
L
Sbjct: 260 L 260
>pdb|2NQH|A Chain A, High Resolution Crystal Structure Of Escherichia Coli
Endonuclease Iv (Endo Iv) E261q Mutant
pdb|2NQJ|A Chain A, Crystal Structure Of Escherichia Coli Endonuclease Iv
(Endo Iv) E261q Mutant Bound To Damaged Dna
pdb|2NQJ|B Chain B, Crystal Structure Of Escherichia Coli Endonuclease Iv
(Endo Iv) E261q Mutant Bound To Damaged Dna
Length = 285
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 57/241 (23%), Positives = 95/241 (39%), Gaps = 34/241 (14%)
Query: 83 TSTSNPFVKHCLKLRQSSSYRHSHGSALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDK 142
T T + F C K +S+ H S L+ P+ E +R +D+
Sbjct: 46 TQTIDEFKAACEKYHYTSAQILPHDSYLINLGHPVTEALEKSRDA-----------FIDE 94
Query: 143 VEVPE--GLDNISTHTVRVSSVVMKKLSGVQSSESIEAIALMKIPTSVFSIDVNQKEADC 200
++ E GL ++ H + ++ + +ESI IAL K V ++ N
Sbjct: 95 MQRCEQLGLSLLNFHPGSHLMQISEEDCLARIAESIN-IALDK-TQGVTAVIENTAGQGS 152
Query: 201 RSWFPSIHRILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDP-FSEKALRASRGAC 259
F H ++DG++D +G + T AF G P C+ F++ A R
Sbjct: 153 NLGFKFEHLAAIIDGVEDKSRVGVCIDTCHAFAAGYDLRTPAECEKTFADFA----RTVG 208
Query: 260 FQLPIVSGSWYHLEVLKDEFQMKLLAGHA-----GGNEEPRQVLQLSQELADSFAGVPLC 314
F+ + G HL K F ++ H+ G++ R ++Q D F G+PL
Sbjct: 209 FKY--LRG--MHLNDAKSTFGSRVDRHHSLGEGNIGHDAFRWIMQ-----DDRFDGIPLI 259
Query: 315 L 315
L
Sbjct: 260 L 260
>pdb|1QUM|A Chain A, Crystal Structure Of Escherichia Coli Endonuclease Iv In
Complex With Damaged Dna
pdb|1QTW|A Chain A, High-resolution Crystal Structure Of The Escherichia Coli
Dna Repair Enzyme Endonuclease Iv
Length = 285
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 57/241 (23%), Positives = 95/241 (39%), Gaps = 34/241 (14%)
Query: 83 TSTSNPFVKHCLKLRQSSSYRHSHGSALVVGTTPIREIYNFNRSLQERTVRMDCLLLLDK 142
T T + F C K +S+ H S L+ P+ E +R +D+
Sbjct: 46 TQTIDEFKAACEKYHYTSAQILPHDSYLINLGHPVTEALEKSRDA-----------FIDE 94
Query: 143 VEVPE--GLDNISTHTVRVSSVVMKKLSGVQSSESIEAIALMKIPTSVFSIDVNQKEADC 200
++ E GL ++ H + ++ + +ESI IAL K V ++ N
Sbjct: 95 MQRCEQLGLSLLNFHPGSHLMQISEEDCLARIAESIN-IALDK-TQGVTAVIENTAGQGS 152
Query: 201 RSWFPSIHRILVLDGIQDPGNLGTLLRTAMAFKWGGVFLLPGCCDP-FSEKALRASRGAC 259
F H ++DG++D +G + T AF G P C+ F++ A R
Sbjct: 153 NLGFKFEHLAAIIDGVEDKSRVGVCIDTCHAFAAGYDLRTPAECEKTFADFA----RTVG 208
Query: 260 FQLPIVSGSWYHLEVLKDEFQMKLLAGHA-----GGNEEPRQVLQLSQELADSFAGVPLC 314
F+ + G HL K F ++ H+ G++ R ++Q D F G+PL
Sbjct: 209 FKY--LRG--MHLNDAKSTFGSRVDRHHSLGEGNIGHDAFRWIMQ-----DDRFDGIPLI 259
Query: 315 L 315
L
Sbjct: 260 L 260
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
0.320 0.134 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,385,089
Number of Sequences: 62578
Number of extensions: 293836
Number of successful extensions: 669
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 657
Number of HSP's gapped (non-prelim): 14
length of query: 315
length of database: 14,973,337
effective HSP length: 99
effective length of query: 216
effective length of database: 8,778,115
effective search space: 1896072840
effective search space used: 1896072840
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)