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= 004763
(732 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IXK|A Chain A, Crystal Structure Analysis Of Methyltransferase Homolog
Protein From Pyrococcus Horikoshii
Length = 315
Score = 95.5 bits (236), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 71/221 (32%), Positives = 104/221 (47%), Gaps = 35/221 (15%)
Query: 58 GNITRQEAVSMVPPLFLDVQPDHFVLDMCAAPGSKTFQLLEIIHQSTNPGALPNGMVIAN 117
G I QEA S PP+ LD +P V D AAPG KT L ++ +G++ A
Sbjct: 98 GLIYIQEASSXYPPVALDPKPGEIVADXAAAPGGKTSYLAQLXRN--------DGVIYAF 149
Query: 118 DLDVQRCNLLIHQTKRMCTANLIVTNHEAQHFPGCRANKNFSSASDKGIESESNMGQLLF 177
D+D R R+ N+I+ + + H E N+ F
Sbjct: 150 DVDENRLRETRLNLSRLGVLNVILFHSSSLHI------------------GELNVE---F 188
Query: 178 DRVLCDVPCSGDGTLRKAPDIWRKWNVGLGN--GLHSLQVQIAMRGISLLKVGGRIVYST 235
D++L D PC+G GT+ K P+ RKWN + LQ ++ +G+ +LK GG +VYST
Sbjct: 189 DKILLDAPCTGSGTIHKNPE--RKWNRTXDDIKFCQGLQXRLLEKGLEVLKPGGILVYST 246
Query: 236 CSMNPVENEAVVAEILRKCEGSVELVDVSNEVPQLIHRPGL 276
CS+ P ENE V+ L + VEL+ + P L + G+
Sbjct: 247 CSLEPEENEFVIQWALDNFD--VELLPLKYGEPALTNPFGI 285
>pdb|3M4X|A Chain A, Structure Of A Ribosomal Methyltransferase
Length = 456
Score = 92.0 bits (227), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 64/243 (26%), Positives = 105/243 (43%), Gaps = 44/243 (18%)
Query: 55 NEIGNITRQEAVSMVPPLFLDVQPDHFVLDMCAAPGSKTFQLLEIIHQSTNPGALPNGMV 114
++ G QE + + +P VLD+CAAPG K+ QL + G G++
Sbjct: 82 HQAGYEYSQEPSAXIVGTAAAAKPGEKVLDLCAAPGGKSTQL-----AAQXKG---KGLL 133
Query: 115 IANDLDVQRCNLLIHQTKRMCTANLIVTNHEAQ----HFPGCRANKNFSSASDKGIESES 170
+ N++ +R +L +R +N IVTNH HF G
Sbjct: 134 VTNEIFPKRAKILSENIERWGVSNAIVTNHAPAELVPHFSG------------------- 174
Query: 171 NMGQLLFDRVLCDVPCSGDGTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGR 230
FDR++ D PCSG+G RK P+ ++W Q +I I LK G+
Sbjct: 175 -----FFDRIVVDAPCSGEGXFRKDPNAIKEWTEESPLYCQKRQQEILSSAIKXLKNKGQ 229
Query: 231 IVYSTCSMNPVENEAVVAEILRKCEGSVELVDVSNEVPQLIHRPG--------LRKWKVR 282
++YSTC+ P ENE +++ ++ ++E + ++ V G +R W +
Sbjct: 230 LIYSTCTFAPEENEEIISWLVENYPVTIEEIPLTQSVSSGRSEWGSVAGLEKTIRIWPHK 289
Query: 283 DKG 285
D+G
Sbjct: 290 DQG 292
>pdb|3A4T|A Chain A, Crystal Structure Of Atrm4 From M.Jannaschii With
Sinefungin
pdb|3A4T|B Chain B, Crystal Structure Of Atrm4 From M.Jannaschii With
Sinefungin
pdb|3AJD|A Chain A, Crystal Structure Of Atrm4
Length = 274
Score = 91.7 bits (226), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 70/230 (30%), Positives = 109/230 (47%), Gaps = 31/230 (13%)
Query: 54 ENEIGNITRQEAVSMVPPLFLDVQPDHFVLDMCAAPGSKTFQLLEIIHQSTNPGALPNGM 113
E G Q SM+PP+ L+ + D F+LDMCAAPG KT L +++ G
Sbjct: 59 EYLFGYYMPQSISSMIPPIVLNPREDDFILDMCAAPGGKTTHLAQLMKNK--------GT 110
Query: 114 VIANDLDVQRCNLLIHQTKRMCTANLIVTNHEAQHFPGCRANKNFSSASDKGIESESNMG 173
++A ++ R L RM N I+ N + + + D +++E
Sbjct: 111 IVAVEISKTRTKALKSNINRMGVLNTIIINADMRKY------------KDYLLKNE---- 154
Query: 174 QLLFDRVLCDVPCSGDGTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIVY 233
+ FD++L D PCSG+ K ++ + ++ + + I GI LLK G +VY
Sbjct: 155 -IFFDKILLDAPCSGNIIKDKNRNVSEE-DIKYCSLRQKELIDI---GIDLLKKDGELVY 209
Query: 234 STCSMNPVENEAVVAEILRKCEGSVELVDV-SNEVPQLIHRPGLRKWKVR 282
STCSM ENE V+ IL+K VEL+ + +NE + + G K +R
Sbjct: 210 STCSMEVEENEEVIKYILQK-RNDVELIIIKANEFKGINIKEGYIKGTLR 258
>pdb|2FRX|A Chain A, Crystal Structure Of Yebu, A M5c Rna Methyltransferase
From E.Coli
pdb|2FRX|B Chain B, Crystal Structure Of Yebu, A M5c Rna Methyltransferase
From E.Coli
pdb|2FRX|C Chain C, Crystal Structure Of Yebu, A M5c Rna Methyltransferase
From E.Coli
pdb|2FRX|D Chain D, Crystal Structure Of Yebu, A M5c Rna Methyltransferase
From E.Coli
Length = 479
Score = 89.4 bits (220), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 68/217 (31%), Positives = 100/217 (46%), Gaps = 30/217 (13%)
Query: 54 ENEIGNITRQEAVSMVP--PLFLDVQPDHFVLDMCAAPGSKTFQLLEIIHQSTNPGALPN 111
E+ G QEA S +P LF D V D+ AAPGSKT Q I + N GA
Sbjct: 91 EHLSGLFYIQEASSXLPVAALFADGNAPQRVXDVAAAPGSKTTQ---ISARXNNEGA--- 144
Query: 112 GMVIANDLDVQRCNLLIHQTKRMCTANLIVTNHEAQHFPGCRANKNFSSASDKGIESESN 171
++AN+ R +L R +N+ +T HF G + F +A +
Sbjct: 145 --ILANEFSASRVKVLHANISRCGISNVALT-----HFDG----RVFGAAVPE------- 186
Query: 172 MGQLLFDRVLCDVPCSGDGTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRI 231
FD +L D PCSG+G +RK PD + W+ + + Q ++ L+ GG +
Sbjct: 187 ----XFDAILLDAPCSGEGVVRKDPDALKNWSPESNQEIAATQRELIDSAFHALRPGGTL 242
Query: 232 VYSTCSMNPVENEAVVAEILRKCEGSVELVDVSNEVP 268
VYSTC++N ENEAV + +VE + + + P
Sbjct: 243 VYSTCTLNQEENEAVCLWLKETYPDAVEFLPLGDLFP 279
>pdb|3M6W|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P21212 In Complex
With S-Adenosyl-L- Methionine
Length = 464
Score = 86.3 bits (212), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 71/249 (28%), Positives = 101/249 (40%), Gaps = 43/249 (17%)
Query: 4 LQTEVIEEGEVEPIRPLPWYPNNLAWHSNFSRMQLRKNQTLERFHKFLKLENEIGNITRQ 63
L E + P+RP+PW + + R H F G Q
Sbjct: 41 LPPEAFQRISPWPLRPIPWCQEGF-----YYPEEARPGP-----HPFFY----AGLYYIQ 86
Query: 64 EAVSMVPPLFLDVQPDHFVLDMCAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQR 123
E + + LD +P VLD+ AAPG KT H + G G+++AN++D +R
Sbjct: 87 EPSAQAVGVLLDPKPGERVLDLAAAPGGKT------THLAARMGG--KGLLLANEVDGKR 138
Query: 124 CNLLIHQTKRMCTANLIVTNHEAQHFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCD 183
L+ +R A L VT + + F + F RVL D
Sbjct: 139 VRGLLENVER-WGAPLAVTQAPPRAL-----AEAFGT---------------YFHRVLLD 177
Query: 184 VPCSGDGTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPVEN 243
PCSG+G RK + R W + +Q + + LL GG +VYSTC+ P EN
Sbjct: 178 APCSGEGMFRKDREAARHWGPSAPKRMAEVQKALLAQASRLLGPGGVLVYSTCTFAPEEN 237
Query: 244 EAVVAEILR 252
E VVA L+
Sbjct: 238 EGVVAHFLK 246
>pdb|3M6U|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group 43
pdb|3M6U|B Chain B, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group 43
pdb|3M6V|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P2 In Complex With
S-Adenosyl-L- Methionine
pdb|3M6V|B Chain B, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P2 In Complex With
S-Adenosyl-L- Methionine
Length = 464
Score = 86.3 bits (212), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 71/249 (28%), Positives = 101/249 (40%), Gaps = 43/249 (17%)
Query: 4 LQTEVIEEGEVEPIRPLPWYPNNLAWHSNFSRMQLRKNQTLERFHKFLKLENEIGNITRQ 63
L E + P+RP+PW + + R H F G Q
Sbjct: 41 LPPEAFQRISPWPLRPIPWCQEGF-----YYPEEARPGP-----HPFFY----AGLYYIQ 86
Query: 64 EAVSMVPPLFLDVQPDHFVLDMCAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQR 123
E + + LD +P VLD+ AAPG KT H + G G+++AN++D +R
Sbjct: 87 EPSAQAVGVLLDPKPGERVLDLAAAPGGKT------THLAARMGG--KGLLLANEVDGKR 138
Query: 124 CNLLIHQTKRMCTANLIVTNHEAQHFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCD 183
L+ +R A L VT + + F + F RVL D
Sbjct: 139 VRGLLENVER-WGAPLAVTQAPPRAL-----AEAFGT---------------YFHRVLLD 177
Query: 184 VPCSGDGTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPVEN 243
PCSG+G RK + R W + +Q + + LL GG +VYSTC+ P EN
Sbjct: 178 APCSGEGMFRKDREAARHWGPSAPKRMAEVQKALLAQASRLLGPGGVLVYSTCTFAPEEN 237
Query: 244 EAVVAEILR 252
E VVA L+
Sbjct: 238 EGVVAHFLK 246
>pdb|3M6X|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P21212
Length = 464
Score = 85.9 bits (211), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 71/249 (28%), Positives = 100/249 (40%), Gaps = 43/249 (17%)
Query: 4 LQTEVIEEGEVEPIRPLPWYPNNLAWHSNFSRMQLRKNQTLERFHKFLKLENEIGNITRQ 63
L E + P+RP+PW + + R H F G Q
Sbjct: 41 LPPEAFQRISPWPLRPIPWCQEGF-----YYPEEARPGP-----HPFFY----AGLYYIQ 86
Query: 64 EAVSMVPPLFLDVQPDHFVLDMCAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQR 123
E + + LD +P VLD+ AAPG KT H + G G+++AN++D +R
Sbjct: 87 EPSAQAVGVLLDPKPGERVLDLAAAPGGKT------THLAARXGG--KGLLLANEVDGKR 138
Query: 124 CNLLIHQTKRMCTANLIVTNHEAQHFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCD 183
L+ +R A L VT + + F + F RVL D
Sbjct: 139 VRGLLENVERW-GAPLAVTQAPPRAL-----AEAFGT---------------YFHRVLLD 177
Query: 184 VPCSGDGTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPVEN 243
PCSG+G RK + R W +Q + + LL GG +VYSTC+ P EN
Sbjct: 178 APCSGEGXFRKDREAARHWGPSAPKRXAEVQKALLAQASRLLGPGGVLVYSTCTFAPEEN 237
Query: 244 EAVVAEILR 252
E VVA L+
Sbjct: 238 EGVVAHFLK 246
>pdb|1SQF|A Chain A, The Crystal Structure Of E. Coli Fmu Binary Complex With
S- Adenosylmethionine At 2.1 A Resolution
pdb|1SQG|A Chain A, The Crystal Structure Of The E. Coli Fmu Apoenzyme At 1.65
A Resolution
Length = 429
Score = 81.6 bits (200), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 62/199 (31%), Positives = 91/199 (45%), Gaps = 31/199 (15%)
Query: 56 EIGNITRQEAVSMVPPLFLDVQPDHFVLDMCAAPGSKTFQLLEIIHQSTNPGALPNGMVI 115
E G +T Q+A + +L Q +LD+CAAPG KT +LE+ P V+
Sbjct: 224 EDGWVTVQDASAQGCMTWLAPQNGEHILDLCAAPGGKTTHILEVA---------PEAQVV 274
Query: 116 ANDLDVQRCNLLIHQTKRMCTANLIVTNHEAQHFPGCRANKNFSSASDKGIESESNMGQL 175
A D+D QR + + KR+ G +A + G G+
Sbjct: 275 AVDIDEQRLSRVYDNLKRL----------------GMKA----TVKQGDGRYPSQWCGEQ 314
Query: 176 LFDRVLCDVPCSGDGTLRKAPDI-WRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIVYS 234
FDR+L D PCS G +R+ PDI W + + + L LQ +I LK GG +VY+
Sbjct: 315 QFDRILLDAPCSATGVIRRHPDIKWLRRDRDIPE-LAQLQSEILDAIWPHLKTGGTLVYA 373
Query: 235 TCSMNPVENEAVVAEILRK 253
TCS+ P EN + L++
Sbjct: 374 TCSVLPEENSLQIKAFLQR 392
>pdb|2YXL|A Chain A, Crystal Structure Of Ph0851
Length = 450
Score = 81.3 bits (199), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 58/187 (31%), Positives = 85/187 (45%), Gaps = 27/187 (14%)
Query: 58 GNITRQEAVSMVPPLFLDVQPDHFVLDMCAAPGSKTFQLLEIIHQSTNPGALPNGMVIAN 117
G I QE S V + LD +P V+D+ AAPG KT L E++ G + A
Sbjct: 239 GKIIVQEEASAVASIVLDPKPGETVVDLAAAPGGKTTHLAELMKN--------KGKIYAF 290
Query: 118 DLDVQRCNLLIHQTKRMCTANLIVTNHEAQHFPGCRANKNFSSASDKGIESESNMGQLLF 177
D+D R L KRM G + K + K E +G+ +
Sbjct: 291 DVDKMRMKRLKDFVKRM----------------GIKIVKPLVKDARKAPEI---IGEEVA 331
Query: 178 DRVLCDVPCSGDGTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCS 237
D+VL D PC+ GT+ K P++ + N + LQ ++ L+K GGR++Y+TCS
Sbjct: 332 DKVLLDAPCTSSGTIGKNPELRWRLREDKINEMSQLQRELLESAARLVKPGGRLLYTTCS 391
Query: 238 MNPVENE 244
+ ENE
Sbjct: 392 IFKEENE 398
>pdb|4FZV|A Chain A, Crystal Structure Of The Human Mterf4:nsun4:sam Ternary
Complex
Length = 359
Score = 72.8 bits (177), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 63/200 (31%), Positives = 95/200 (47%), Gaps = 32/200 (16%)
Query: 64 EAVSMVPPLFLDVQPDHFVLDMCAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQR 123
+A S++P L L +QP VLD+CAAPG KT LL+ G N + ANDL
Sbjct: 134 DAASLLPVLALGLQPGDIVLDLCAAPGGKTLALLQT-------GCCRN--LAANDLS--- 181
Query: 124 CNLLIHQTKRMCTANLIVTNHEAQHFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCD 183
R+ I+ ++ + + S K E E + +DRVL D
Sbjct: 182 -------PSRIARLQKILHSYVPEEIRDGNQVRVTSWDGRKWGELEGDT----YDRVLVD 230
Query: 184 VPCSGD--GTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPV 241
VPC+ D + +I+++ L LQVQ+ G+ K GG +VYSTCS++ +
Sbjct: 231 VPCTTDRHSLHEEENNIFKRSRKKERQILPVLQVQLLAAGLLATKPGGHVVYSTCSLSHL 290
Query: 242 ENEAVVAEILRKCEGSVELV 261
+NE VV +G++EL+
Sbjct: 291 QNEYVV-------QGAIELL 303
>pdb|4FP9|A Chain A, Human Mterf4-Nsun4 Protein Complex
pdb|4FP9|C Chain C, Human Mterf4-Nsun4 Protein Complex
pdb|4FP9|D Chain D, Human Mterf4-Nsun4 Protein Complex
pdb|4FP9|F Chain F, Human Mterf4-Nsun4 Protein Complex
Length = 360
Score = 72.8 bits (177), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 63/200 (31%), Positives = 95/200 (47%), Gaps = 32/200 (16%)
Query: 64 EAVSMVPPLFLDVQPDHFVLDMCAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQR 123
+A S++P L L +QP VLD+CAAPG KT LL+ G N + ANDL
Sbjct: 135 DAASLLPVLALGLQPGDIVLDLCAAPGGKTLALLQT-------GCCRN--LAANDLS--- 182
Query: 124 CNLLIHQTKRMCTANLIVTNHEAQHFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCD 183
R+ I+ ++ + + S K E E + +DRVL D
Sbjct: 183 -------PSRIARLQKILHSYVPEEIRDGNQVRVTSWDGRKWGELEGDT----YDRVLVD 231
Query: 184 VPCSGD--GTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPV 241
VPC+ D + +I+++ L LQVQ+ G+ K GG +VYSTCS++ +
Sbjct: 232 VPCTTDRHSLHEEENNIFKRSRKKERQILPVLQVQLLAAGLLATKPGGHVVYSTCSLSHL 291
Query: 242 ENEAVVAEILRKCEGSVELV 261
+NE VV +G++EL+
Sbjct: 292 QNEYVV-------QGAIELL 304
>pdb|2B9E|A Chain A, Human Nsun5 Protein
Length = 309
Score = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 58/219 (26%), Positives = 92/219 (42%), Gaps = 34/219 (15%)
Query: 58 GNITRQEAVSMVPPLFLDVQPDHFVLDMCAAPGSKTFQLLEIIHQSTNPGALPNGMVIAN 117
G++ Q+ S +P + LD P V+D CAAPG+KT L ++ G + A
Sbjct: 82 GHLILQDRASCLPAMLLDPPPGSHVIDACAAPGNKTSHLAALLKN--------QGKIFAF 133
Query: 118 DLDVQRCNLLIHQTKRMCTANLIVTNHEAQHFPGCRANKNFSSASDKGIESESNMGQLLF 177
DLD +R L + A + A ++F + S S+ ++ +
Sbjct: 134 DLDAKR---LASMATLLARAGVSCCE---------LAEEDFLAVS----PSDPRYHEVHY 177
Query: 178 DRVLCDVPCSGDGTLRKA---PDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIVYS 234
+L D CSG G + P V L + L Q + ++ + R+VYS
Sbjct: 178 --ILLDPSCSGSGMPSRQLEEPGAGTPSPVRL-HALAGFQQRALCHALTFPSL-QRLVYS 233
Query: 235 TCSMNPVENEAVVAEILRKCEGSVELVDVSNEVPQLIHR 273
TCS+ ENE VV + L++ G+ L +P HR
Sbjct: 234 TCSLCQEENEDVVRDALQQNPGAFRLAPA---LPAWPHR 269
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 0.134 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,456,124
Number of Sequences: 62578
Number of extensions: 893963
Number of successful extensions: 2090
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 2052
Number of HSP's gapped (non-prelim): 25
length of query: 732
length of database: 14,973,337
effective HSP length: 106
effective length of query: 626
effective length of database: 8,340,069
effective search space: 5220883194
effective search space used: 5220883194
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)