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= 018308
(358 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1ZJR|A Chain A, Crystal Structure Of A. Aeolicus TrmhSPOU TRNA MODIFYING
ENZYME
Length = 211
Score = 113 bits (283), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 59/191 (30%), Positives = 111/191 (58%), Gaps = 1/191 (0%)
Query: 142 LMEERKERFVNVVKNRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYR 201
++E+R +R V++ R + + + + + N SA R+ DA+GV ++ + K+ +
Sbjct: 7 VLEKRLKRLREVLEKRQKDLIVFADNVKNEHNFSAIVRTCDAVGVLYLYYYHAEG-KKAK 65
Query: 202 ENRHVSMGAEKWLDIELWDAPRECFNVLRSRGYRIATTHVGMDAISVYDMDWSCPTAIVV 261
N ++ G+ KW+ IE D P + ++RG++I T + ++++ ++D++ PT +VV
Sbjct: 66 INEGITQGSHKWVFIEKVDNPVQKLLEFKNRGFQIVATWLSKESVNFREVDYTKPTVLVV 125
Query: 262 GNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAVCDRATRLVGCNGDLTS 321
GNE +GVS E + ++D + IPM GM S NVSVA GI+++ A R + + L+
Sbjct: 126 GNELQGVSPEIVEIADKKIVIPMYGMAQSLNVSVATGIILYEAQRQREEKGMYSRPSLSE 185
Query: 322 EEKQILLAEFS 332
EE Q +L +++
Sbjct: 186 EEIQKILKKWA 196
>pdb|1V2X|A Chain A, Trmh
Length = 194
Score = 96.7 bits (239), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 60/180 (33%), Positives = 96/180 (53%), Gaps = 4/180 (2%)
Query: 153 VVKNRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSS-KRYRENRHVSMGAE 211
V++ R + +++E + N+SA R+ DA+GV H V+ + E S G+
Sbjct: 15 VLRRRQPDLTVLLENVHKPHNLSAILRTCDAVGVLEAHAVNPTGGVPTFNET---SGGSH 71
Query: 212 KWLDIELWDAPRECFNVLRSRGYRIATTHVGMDAISVYDMDWSCPTAIVVGNENRGVSDE 271
KW+ + + E F L+ RG+ + T + DA ++D++ PTA++ G E GVS+E
Sbjct: 72 KWVYLRVHPDLHEAFRFLKERGFTVYATALREDARDFREVDYTKPTAVLFGAEKWGVSEE 131
Query: 272 ALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAVCDRATRLVGCNGDLTSEEKQILLAEF 331
AL+L+D IPM GMV S NVSVAA +++ A R + L E Q +LA++
Sbjct: 132 ALALADGAIKIPMLGMVQSLNVSVAAAVILFEAQRQRLKAGLYDRPRLDPELYQKVLADW 191
>pdb|1IPA|A Chain A, Crystal Structure Of Rna 2'-O Ribose Methyltransferase
Length = 274
Score = 61.2 bits (147), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 46/160 (28%), Positives = 74/160 (46%), Gaps = 9/160 (5%)
Query: 148 ERFVNVVKNRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHV---VSCDSSKRYRENR 204
ER + + ++ LV GL GN+ A RSADA G ++V V V S + R +
Sbjct: 104 ERTLEEYRPSPDALILVAVGLEKPGNLGAVLRSADAAGAEAVLVAGGVDLYSPQVIRNST 163
Query: 205 HVSMGAEKWLDIELWDAPRECFNVLRSRGYRIATTHVGMDAISVYDMDWSCPTAIVVGNE 264
V L + E + ++ + T +A+ ++ + P AI VG E
Sbjct: 164 GVVFSLRT-----LAASESEVLDWIKQHNLPLVATTPHAEAL-YWEANLRPPVAIAVGPE 217
Query: 265 NRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHA 304
+ G+ L + + IPM+G DS NVSV+A +L++ A
Sbjct: 218 HEGLRAAWLEAAQTQVRIPMQGQADSLNVSVSAALLLYEA 257
>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 = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 50/162 (30%), Positives = 74/162 (45%), Gaps = 6/162 (3%)
Query: 146 RKERFVNVVKNRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCD-SSKRYRENR 204
R RF ++ R V L +G+ GN+ A R++ ALG + +V D +S R +
Sbjct: 107 RPARFGDIASRRGDVVVL--DGVKIVGNIGAIVRTSLALGASGIILVDSDITSIADRRLQ 164
Query: 205 HVSMGAEKWLDIELWDAPRECFNVLRSRGYRIATTHVGMDAISVYDM-DWSCPTAIVVGN 263
S G L + L E +R G ++ T D ISV ++ D A++ G+
Sbjct: 165 RASRGYVFSLPVVL-SGREEAIAFIRDSGMQLMTLKADGD-ISVKELGDNPDRLALLFGS 222
Query: 264 ENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAV 305
E G SD S SIPM +S NVSV+ GI +H +
Sbjct: 223 EKGGPSDLFEEASSASVSIPMMSQTESLNVSVSLGIALHERI 264
>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 = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 54/205 (26%), Positives = 89/205 (43%), Gaps = 8/205 (3%)
Query: 105 GSMESLSNKRWFPYLDRYKCGDVYLSSSEVVEALSPYLMEERKERFVNVVKNRSYSVCLV 164
G + L+N++ YLD G V+ ++ + P + + +++ + L+
Sbjct: 57 GVVIQLANRQ---YLDEKSDGAVH---QGIIARVKPGRQYQEND-LPDLIASLDQPFLLI 109
Query: 165 VEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIELWDAPRE 224
++G++D N+ A RSADA GV +V V S++ + V+ GA + + +
Sbjct: 110 LDGVTDPHNLGACLRSADAAGVHAVIVPKDRSAQLNATAKKVACGAAESVPLIRVTNLAR 169
Query: 225 CFNVLRSRGYRIATTHVGMDAISVYDMDWSCPTAIVVGNENRGVSDEALSLSDLRCSIPM 284
L+ I T G ++Y + A+V G E G D SIP
Sbjct: 170 TXRXLQEENIWIVGT-AGEADHTLYQSKXTGRLALVXGAEGEGXRRLTREHCDELISIPX 228
Query: 285 KGMVDSFNVSVAAGILMHHAVCDRA 309
G V S NVSVA GI + AV R+
Sbjct: 229 AGSVSSLNVSVATGICLFEAVRQRS 253
>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 = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 51/168 (30%), Positives = 79/168 (47%), Gaps = 18/168 (10%)
Query: 147 KERFVNVVKNRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHV 206
+E F+ V+ +R S GN+ + RSADALG + V + ++
Sbjct: 123 REDFLGVLFDRPTSP----------GNIGSIIRSADALGAHGLIVAGHAADVYDPKSVRS 172
Query: 207 SMGAEKWLDIELWDAPRECFNVLRSRGYRIATTH---VGMDA---ISVYDMDWSCPTAIV 260
S G+ L +P E + + +R R A T VG D V+D D++ PT ++
Sbjct: 173 STGSLFSLPAVRVPSPGEVMDWVEAR--RAAGTPIVLVGTDEHGDCDVFDFDFTQPTLLL 230
Query: 261 VGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAVCDR 308
+GNE G+S+ +L D SIPM G S N + AA +++ AV R
Sbjct: 231 IGNETAGLSNAWRTLCDYTVSIPMAGSASSLNAANAATAILYEAVRQR 278
>pdb|2I6D|A Chain A, The Structure Of A Putative Rna Methyltransferase Of The
Trmh Family From Porphyromonas Gingivalis
Length = 257
Score = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 39/148 (26%), Positives = 70/148 (47%), Gaps = 10/148 (6%)
Query: 161 VCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHVSMGAEKWLDIELWD 220
+ L+++G+ D GNV R+AD G++ V + + + + S GA +
Sbjct: 104 LTLLLDGVQDPGNVGTILRTADWFGIRHVWLGTGSADVFSPKVVQASXGALARVQPTPLK 163
Query: 221 APRECFNVLRSRGYRIATTHVGMDAISVYDM---DWSCPTAIVVGNENRGVSDEALSLSD 277
+ R +G I +D S+Y+ +++ P +V+G+E RG+S E +
Sbjct: 164 NTVDTLAYFRRQG--IPVYGAFLDGQSLYEAPLPNFTEPAILVLGSEGRGISPEVAAEIT 221
Query: 278 LRCSIP-----MKGMVDSFNVSVAAGIL 300
R +IP +KG +S NV++A IL
Sbjct: 222 DRLTIPASGLSVKGHTESLNVAIATAIL 249
>pdb|2HA8|A Chain A, Methyltransferase Domain Of Human Tar (Hiv-1) Rna Binding
Protein 1
pdb|2HA8|B Chain B, Methyltransferase Domain Of Human Tar (Hiv-1) Rna Binding
Protein 1
Length = 184
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 40/165 (24%), Positives = 76/165 (46%), Gaps = 13/165 (7%)
Query: 142 LMEERKERFVNVVKNRSYSVCLVVEGLSDF-GNVSATFRSADALG--VQSVHVVSCDSSK 198
L ++R R +S S +VV L D N+ R+ + G V V + C S K
Sbjct: 12 LFQDRAARL-----GKSISRLIVVASLIDKPTNLGGLCRTCEVFGASVLVVGSLQCISDK 66
Query: 199 RYRENRHVSMGAEKWLDIELWDAPR--ECFNVLRSRGYRIATTHVGMDAISVYDMDWSCP 256
+++ H+S+ AE+WL + P+ + ++ GY I ++ + +
Sbjct: 67 QFQ---HLSVSAEQWLPLVEVKPPQLIDYLQQKKTEGYTIIGVEQTAKSLDLTQYCFPEK 123
Query: 257 TAIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILM 301
+ +++GNE G+ + D+ IP +G++ S NV V+ +L+
Sbjct: 124 SLLLLGNEREGIPANLIQQLDVCVEIPQQGIIRSLNVHVSGALLI 168
>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 = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 50/168 (29%), Positives = 78/168 (46%), Gaps = 18/168 (10%)
Query: 147 KERFVNVVKNRSYSVCLVVEGLSDFGNVSATFRSADALGVQSVHVVSCDSSKRYRENRHV 206
+E F+ V+ +R S GN+ + RSADALG + V + ++
Sbjct: 123 REDFLGVLFDRPTSP----------GNIGSIIRSADALGAHGLIVAGHAADVYDPKSVRS 172
Query: 207 SMGAEKWLDIELWDAPRECFNVLRSRGYRIATTH---VGMDA---ISVYDMDWSCPTAIV 260
S G+ L +P E + + +R R A T VG D V+D D++ PT ++
Sbjct: 173 STGSLFSLPAVRVPSPGEVXDWVEAR--RAAGTPIVLVGTDEHGDCDVFDFDFTQPTLLL 230
Query: 261 VGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVAAGILMHHAVCDR 308
+GNE G+S+ +L D SIP G S N + AA +++ AV R
Sbjct: 231 IGNETAGLSNAWRTLCDYTVSIPXAGSASSLNAANAATAILYEAVRQR 278
>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 = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 43/144 (29%), Positives = 65/144 (45%), Gaps = 4/144 (2%)
Query: 162 CLVVEGLSDFGNVSATFRSADALGVQSVHVVSCD-SSKRYRENRHVSMGAEKWLDIELWD 220
+V++G+ GN+ A R++ ALG + +V D ++ R S G L + L D
Sbjct: 121 VVVLDGVKIVGNIGAIVRTSLALGAAGIVLVDSDLATIADRRLLRASRGYVFSLPVVLAD 180
Query: 221 APRECFNVLRSRGYRIATTHVGMDAISVYDM-DWSCPTAIVVGNENRGVSDEALSLSDLR 279
E + LR + D + V D+ D + A+V G+E G S S
Sbjct: 181 R-EEAVSFLRDNDIALMVLDTDGD-LGVKDLGDRADRMALVFGSEKGGPSGLFQEASAGT 238
Query: 280 CSIPMKGMVDSFNVSVAAGILMHH 303
SIPM +S NVSV+ GI +H
Sbjct: 239 VSIPMLSSTESLNVSVSVGIALHE 262
>pdb|3KTY|A Chain A, Crystal Structure Of Probable Methyltransferase From
Bordetella Pertussis Tohama I
pdb|3KTY|B Chain B, Crystal Structure Of Probable Methyltransferase From
Bordetella Pertussis Tohama I
pdb|3KTY|C Chain C, Crystal Structure Of Probable Methyltransferase From
Bordetella Pertussis Tohama I
Length = 173
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 20/39 (51%)
Query: 258 AIVVGNENRGVSDEALSLSDLRCSIPMKGMVDSFNVSVA 296
AIV+G E G+++ + L C IP S NV+ A
Sbjct: 122 AIVLGTERAGLTNAQIELCHRICHIPANPQYSSLNVAQA 160
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 0.131 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,598,648
Number of Sequences: 62578
Number of extensions: 365586
Number of successful extensions: 856
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 836
Number of HSP's gapped (non-prelim): 11
length of query: 358
length of database: 14,973,337
effective HSP length: 100
effective length of query: 258
effective length of database: 8,715,537
effective search space: 2248608546
effective search space used: 2248608546
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: 52 (24.6 bits)