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= 024647
(265 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4HG2|A Chain A, The Structure Of A Putative Type Ii Methyltransferase From
Anaeromyxobacter Dehalogenans.
pdb|4HG2|B Chain B, The Structure Of A Putative Type Ii Methyltransferase From
Anaeromyxobacter Dehalogenans
Length = 257
Score = 115 bits (287), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 77/258 (29%), Positives = 120/258 (46%), Gaps = 18/258 (6%)
Query: 5 FIKQAKQYAETRPNYPEELFKFITSKTTNHELAWDVGTGSGQAAASLSGIFENVIGTETS 64
F A Y RP YP LF+++ A D G GSGQA+ L+ FE V +
Sbjct: 11 FTPVADAYRAFRPRYPRALFRWLGEVAPARGDALDCGCGSGQASLGLAEFFERVHAVDPG 70
Query: 65 PKQIEFATKLPNIRYELTSPAMSIAELEQNVAAQSTVDLVTIAQAMHWFDLPQFYNQVKW 124
QI A + P + Y ++A E ++VD+ AQA HWFDL +F+ +++
Sbjct: 71 EAQIRQALRHPRVTY-------AVAPAEDTGLPPASVDVAIAAQAXHWFDLDRFWAELRR 123
Query: 125 VLKKPNGVIATWCYTVPEVNVSVDAVFQPFYTVDSDPFWEPQRKLVDNKYMTIDFPFEPV 184
V +P V A Y + V+ VDAV Y W P+R V++ Y T+ FPF +
Sbjct: 124 V-ARPGAVFAAVTYGLTRVDPEVDAVVDRLYHGLLARDWPPERVHVESGYRTLPFPFPEL 182
Query: 185 DGADSTGPFDRFVIEKTMDLEGYFSYIRSWSAYQTAKDK-GVELLTENVIENFRRAWNED 243
+ P + IE+ + + Y+ +WSA + + G + L E + R AW
Sbjct: 183 EAP----PLE---IEERWPXDAFLGYLGTWSAVTAHRRRTGADPLAE-IAPALRAAWGTP 234
Query: 244 GQSRKVVRFPIYLRIGKV 261
+ +V +PI +R G++
Sbjct: 235 ERPLRVT-WPIAIRAGRI 251
>pdb|3G5T|A Chain A, Crystal Structure Of Trans-Aconitate 3-Methyltransferase
From Yeast
Length = 299
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 66/267 (24%), Positives = 109/267 (40%), Gaps = 48/267 (17%)
Query: 35 ELAWDVGTGSGQAA---ASLSGIFENVIGTETSPKQIEFATKLP--------NIRYELTS 83
+L DVG G G A A FE +IG++ S I+ A + N+ ++++S
Sbjct: 38 KLLVDVGCGPGTATLQXAQELKPFEQIIGSDLSATXIKTAEVIKEGSPDTYKNVSFKISS 97
Query: 84 PAMSIAELEQNVAAQSTVDLVTIAQAMHWFDLPQFYNQVKWVLKKPNGVIATWCYTVP-- 141
+ L + + +D +T + HWFD +F L+K +G IA W Y P
Sbjct: 98 -SDDFKFLGADSVDKQKIDXITAVECAHWFDFEKFQRSAYANLRK-DGTIAIWGYADPIF 155
Query: 142 -------EVNVSVDAVFQPFYTVDSDPFWE-PQRKLVDN--KYMTID-----------FP 180
++ + V P+ P+WE P R + N K +D F
Sbjct: 156 PDYPEFDDLXIEV-----PYGKQGLGPYWEQPGRSRLRNXLKDSHLDPELFHDIQVSYFC 210
Query: 181 FEPVDGADSTGPFDR--FVIEKTMDLEGYFSYIRSWSAY----QTAKDKGVELLTENVI- 233
E V + +I K + L + Y+R+WSAY Q K+K E + + I
Sbjct: 211 AEDVRDKVKLHQHTKKPLLIRKQVTLVEFADYVRTWSAYHQWKQDPKNKDKEDVADWFIK 270
Query: 234 ENFRRAWNEDGQSRKVVRFPIYLRIGK 260
E+ RR ++ V + + ++GK
Sbjct: 271 ESLRRRPELSTNTKIEVVWNTFYKLGK 297
>pdb|4HTF|A Chain A, Crystal Structure Of S-Adenosylmethionine-Dependent
Methyltransferase From Escherichia Coli In Complex With
S-Adenosylmethionine
Length = 285
Score = 35.4 bits (80), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 45/104 (43%), Gaps = 3/104 (2%)
Query: 39 DVGTGSGQAAASLSGIFENVIGTETSPKQIEFATKLPNIRYELTSPAMSIAELEQNVAA- 97
D G G GQ A + VI + S + I+ A + + ++ I Q+VA+
Sbjct: 74 DAGGGEGQTAIKXAERGHQVILCDLSAQXIDRAKQAAEAK-GVSDNXQFIHCAAQDVASH 132
Query: 98 -QSTVDLVTIAQAMHWFDLPQFYNQVKWVLKKPNGVIATWCYTV 140
++ VDL+ + W P+ Q W + +P GV++ Y
Sbjct: 133 LETPVDLILFHAVLEWVADPRSVLQTLWSVLRPGGVLSLXFYNA 176
>pdb|4HTF|B Chain B, Crystal Structure Of S-Adenosylmethionine-Dependent
Methyltransferase From Escherichia Coli In Complex With
S-Adenosylmethionine
Length = 285
Score = 35.4 bits (80), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 45/104 (43%), Gaps = 3/104 (2%)
Query: 39 DVGTGSGQAAASLSGIFENVIGTETSPKQIEFATKLPNIRYELTSPAMSIAELEQNVAA- 97
D G G GQ A + VI + S + I+ A + + ++ I Q+VA+
Sbjct: 74 DAGGGEGQTAIKXAERGHQVILCDLSAQXIDRAKQAAEAK-GVSDNXQFIHCAAQDVASH 132
Query: 98 -QSTVDLVTIAQAMHWFDLPQFYNQVKWVLKKPNGVIATWCYTV 140
++ VDL+ + W P+ Q W + +P GV++ Y
Sbjct: 133 LETPVDLILFHAVLEWVADPRSVLQTLWSVLRPGGVLSLXFYNA 176
>pdb|1XXL|A Chain A, The Crystal Structure Of Ycgj Protein From Bacillus
Subitilis At 2.1 A Resolution
pdb|1XXL|B Chain B, The Crystal Structure Of Ycgj Protein From Bacillus
Subitilis At 2.1 A Resolution
pdb|2GLU|A Chain A, The Crystal Structure Of Ycgj Protein From Bacillus
Subitilis
pdb|2GLU|B Chain B, The Crystal Structure Of Ycgj Protein From Bacillus
Subitilis
Length = 239
Score = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 24/109 (22%), Positives = 50/109 (45%), Gaps = 16/109 (14%)
Query: 28 TSKTTNHELAWDVGTGSGQAAASLSGIFENVIGTETSPKQIEFATK------LPNIRYEL 81
T++ D+G G+G A + S + IG + + + +E A+ + N+R++
Sbjct: 16 TAECRAEHRVLDIGAGAGHTALAFSPYVQECIGVDATKEXVEVASSFAQEKGVENVRFQQ 75
Query: 82 -TSPAMSIAELEQNVAAQSTVDLVTIAQAMHWF-DLPQFYNQVKWVLKK 128
T+ ++ + + D++T A H F D+ + +V VLK+
Sbjct: 76 GTAESLPFPD--------DSFDIITCRYAAHHFSDVRKAVREVARVLKQ 116
>pdb|3CCF|A Chain A, Crystal Structure Of Putative Methyltransferase
(Yp_321342.1) From Anabaena Variabilis Atcc 29413 At
1.90 A Resolution
pdb|3CCF|B Chain B, Crystal Structure Of Putative Methyltransferase
(Yp_321342.1) From Anabaena Variabilis Atcc 29413 At
1.90 A Resolution
Length = 279
Score = 31.2 bits (69), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 22/100 (22%), Positives = 43/100 (43%), Gaps = 11/100 (11%)
Query: 19 YPEELFKFITSKTTNHELAWDVGTGSGQAAASLSGIFENVIGTETSPKQIEFATK-LPNI 77
Y E+L + + + E D+G G+GQ ++ V+GT+ + IE A + P++
Sbjct: 45 YGEDLLQLLNPQPG--EFILDLGCGTGQLTEKIAQSGAEVLGTDNAATXIEKARQNYPHL 102
Query: 78 RYELTSPAMSIAELEQNVAAQSTVDLVTIAQAMHWFDLPQ 117
+++ +N +D V +HW P+
Sbjct: 103 HFDVADA--------RNFRVDKPLDAVFSNAXLHWVKEPE 134
>pdb|1DLW|A Chain A, X-Ray Crystal Structure Of Truncated Hemoglobin From
P.Caudatum.
pdb|1UVY|A Chain A, Heme-ligand Tunneling In Group I Truncated Hemoglobins
Length = 116
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 69 EFATKLPNIRYELTSPAMSIAELEQNVAAQSTV--DLVTI 106
+F T + ++R LT ++ A +EQ VA TV D+VT+
Sbjct: 77 QFTTVIGHLRSALTGAGVAAALVEQTVAVAETVRGDVVTV 116
>pdb|3L4J|A Chain A, Topoisomerase Ii-Dna Cleavage Complex, Apo
pdb|3L4K|A Chain A, Topoisomerase Ii-Dna Cleavage Complex, Metal-Bound
Length = 722
Score = 27.7 bits (60), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 44/222 (19%), Positives = 85/222 (38%), Gaps = 37/222 (16%)
Query: 51 LSGIFENVIGTETSPKQIE-FATKLPNIRYELTSPAMSIAELEQNVAAQSTVDLVTIAQA 109
L G F+ + +E Q+ + ++ + S A +I L QN + + L+
Sbjct: 287 LYGCFKKNLKSELKVAQLAPYVSECTAYHHGEQSLAQTIIGLAQNFVGSNNIYLL----- 341
Query: 110 MHWFDLPQFYNQVKWVLKKPNGVIATWCYTVPEVNVSVDAVFQPFYTVDSDPFW---EPQ 166
LP + K + YT E+N +F P DP + +
Sbjct: 342 -----LPNGAFGTRATGGKDAAAARXYIYT--ELNKLTRKIFHP----ADDPLYKYIQED 390
Query: 167 RKLVDNKYMTIDFPFEPVDGADSTGPFDRFVIEKTMDLEGYFSYIRSWSAYQTAKDKGVE 226
K V+ ++ P V+GA+ G G+ +YI ++ + K+
Sbjct: 391 EKTVEPEWYLPILPMILVNGAEGIGT-------------GWSTYIPPFNPLEIIKNIR-H 436
Query: 227 LLTENVIENFR---RAWNEDGQSRKVVRFPIYLRIGKVGNNI 265
L+ + +E R W + + +R+ +Y RI ++G+N+
Sbjct: 437 LMNDEELEQMHPWFRGWTGTIEEIEPLRYRMYGRIEQIGDNV 478
>pdb|3GGD|A Chain A, Crystal Structure Of Sam-Dependent Methyltransferase
(Yp_325210.1) From Anabaena Variabilis Atcc 29413 At
2.11 A Resolution
Length = 245
Score = 27.3 bits (59), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 20/46 (43%), Gaps = 3/46 (6%)
Query: 39 DVGTGSGQAAASLSGIFENVIGTETSPKQIEFATK---LPNIRYEL 81
D G+G LS F VIG + S +E A K NI Y L
Sbjct: 62 DFACGNGTQTKFLSQFFPRVIGLDVSKSALEIAAKENTAANISYRL 107
>pdb|2RGR|A Chain A, Topoisomerase Iia Bound To G-segment Dna
Length = 759
Score = 27.3 bits (59), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 32/153 (20%), Positives = 59/153 (38%), Gaps = 34/153 (22%)
Query: 129 PNGVIATWC----------YTVPEVNVSVDAVFQPFYTVDSDPFW---EPQRKLVDNKYM 175
PNG T Y E+N +F P DP + + K V+ ++
Sbjct: 345 PNGAFGTRATGGKDAAAARYIYTELNKLTRKIFHP----ADDPLYKYIQEDEKTVEPEWY 400
Query: 176 TIDFPFEPVDGADSTGPFDRFVIEKTMDLEGYFSYIRSWSAYQTAKDKGVELLTENVIEN 235
P V+GA+ G G+ +YI ++ + K+ L+ + +E
Sbjct: 401 LPILPMILVNGAEGIGT-------------GWSTYIPPFNPLEIIKNIR-HLMNDEELEQ 446
Query: 236 FR---RAWNEDGQSRKVVRFPIYLRIGKVGNNI 265
R W + + +R+ +Y RI ++G+N+
Sbjct: 447 MHPWFRGWTGTIEEIEPLRYRMYGRIEQIGDNV 479
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 0.134 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,347,315
Number of Sequences: 62578
Number of extensions: 362349
Number of successful extensions: 897
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 890
Number of HSP's gapped (non-prelim): 20
length of query: 265
length of database: 14,973,337
effective HSP length: 97
effective length of query: 168
effective length of database: 8,903,271
effective search space: 1495749528
effective search space used: 1495749528
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: 50 (23.9 bits)