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= 026506
(237 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MB5|A Chain A, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Methionine
Length = 255
Score = 91.3 bits (225), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 60/212 (28%), Positives = 95/212 (44%), Gaps = 5/212 (2%)
Query: 16 IKEGDLVIVYERHDCMKAVKVCQNSAFQNRFGAFKHSDWIGKPFGSMVFSNKGGFVYLLA 75
I+EGD V++ + + V + F G K + IG+ FG + S+KG +L
Sbjct: 2 IREGDKVVLVDPRGKRYLITVSKRD-FHTDLGILKLEEIIGRNFGEAIKSHKGHEFKILR 60
Query: 76 PTPELWTLVLSHRTQILYIADISFVIMYLELVPGCLVXXXXXXXXXXXXXXARAVAPTGH 135
P + + QI++ D + ++ Y + PG + A V P G
Sbjct: 61 PRIVDYLDKMKRGPQIVHPKDAALIVAYAGISPGDFIVEAGVGSGALTLFLANIVGPEGR 120
Query: 136 VYTFDFHEQRAASAREDFERTGVSSFVTVGVRDIQGQGFPDEFSGLADSIFLDLPQPWLA 195
V +++ E A A E+ + G VT+ ++DI +G +E D + LDLPQP
Sbjct: 121 VVSYEIREDFAKLAWENIKWAGFDDRVTIKLKDIY-EGIEEEN---VDHVILDLPQPERV 176
Query: 196 IPSAKKMLKQDGILCSFSPCIEQVQRSCESLR 227
+ A K LK G +++PC QV R E LR
Sbjct: 177 VEHAAKALKPGGFFVAYTPCSNQVMRLHEKLR 208
>pdb|3LHD|C Chain C, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Homocysteine
pdb|3LHD|A Chain A, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Homocysteine
pdb|3LHD|B Chain B, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Homocysteine
pdb|3LHD|D Chain D, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Homocysteine
pdb|3LGA|A Chain A, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Homocysteine
pdb|3LGA|B Chain B, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Homocysteine
pdb|3LGA|C Chain C, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Homocysteine
pdb|3LGA|D Chain D, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Homocysteine
Length = 253
Score = 90.9 bits (224), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 60/212 (28%), Positives = 95/212 (44%), Gaps = 5/212 (2%)
Query: 16 IKEGDLVIVYERHDCMKAVKVCQNSAFQNRFGAFKHSDWIGKPFGSMVFSNKGGFVYLLA 75
I+EGD V++ + + V + F G K + IG+ FG + S+KG +L
Sbjct: 2 IREGDKVVLVDPRGKRYLITVSKRD-FHTDLGILKLEEIIGRNFGEAIKSHKGHEFKILR 60
Query: 76 PTPELWTLVLSHRTQILYIADISFVIMYLELVPGCLVXXXXXXXXXXXXXXARAVAPTGH 135
P + + QI++ D + ++ Y + PG + A V P G
Sbjct: 61 PRIVDYLDKMKRGPQIVHPKDAALIVAYAGISPGDFIVEAGVGSGALTLFLANIVGPEGR 120
Query: 136 VYTFDFHEQRAASAREDFERTGVSSFVTVGVRDIQGQGFPDEFSGLADSIFLDLPQPWLA 195
V +++ E A A E+ + G VT+ ++DI +G +E D + LDLPQP
Sbjct: 121 VVSYEIREDFAKLAWENIKWAGFDDRVTIKLKDIY-EGIEEEN---VDHVILDLPQPERV 176
Query: 196 IPSAKKMLKQDGILCSFSPCIEQVQRSCESLR 227
+ A K LK G +++PC QV R E LR
Sbjct: 177 VEHAAKALKPGGFFVAYTPCSNQVMRLHEKLR 208
>pdb|1O54|A Chain A, Crystal Structure Of Sam-Dependent O-Methyltransferase
(Tm0748) From Thermotoga Maritima At 1.65 A Resolution
Length = 277
Score = 85.5 bits (210), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 57/213 (26%), Positives = 99/213 (46%), Gaps = 4/213 (1%)
Query: 15 CIKEGDLVIVYERHDCMKAVKVCQNSAFQNRFGAFKHSDWIGKPFGSMVFSNKGGFVYLL 74
+K GD V++ + V + ++ G ++ K G ++ ++ G Y+L
Sbjct: 19 TLKPGDRVLLSFEDESEFLVDLEKDKKLHTHLGIIDLNEVFEKGPGEIIRTSAGKKGYIL 78
Query: 75 APTPELWTLVLSHRTQILYIADISFVIMYLELVPGCLVXXXXXXXXXXXXXXARAVAPTG 134
P+ + + RTQI+Y D SF+ M L++ G + ARAV +G
Sbjct: 79 IPSLIDEIMNMKRRTQIVYPKDSSFIAMMLDVKEGDRIIDTGVGSGAMCAVLARAVGSSG 138
Query: 135 HVYTFDFHEQRAASAREDFERTGVSSFVTVGVRDIQGQGFPDEFSGLADSIFLDLPQPWL 194
V+ ++ E+ A A + + G+ VT+ VRDI +GF ++ D++FLD+P PW
Sbjct: 139 KVFAYEKREEFAKLAESNLTKWGLIERVTIKVRDIS-EGFDEKD---VDALFLDVPDPWN 194
Query: 195 AIPSAKKMLKQDGILCSFSPCIEQVQRSCESLR 227
I + LK G + P QVQ + + L+
Sbjct: 195 YIDKCWEALKGGGRFATVCPTTNQVQETLKKLQ 227
>pdb|1I9G|A Chain A, Crystal Structure Of An Adomet Dependent Methyltransferase
Length = 280
Score = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 50/201 (24%), Positives = 82/201 (40%), Gaps = 15/201 (7%)
Query: 34 VKVCQNSAFQNRFGAFKHSDWIGKPFGSMVFSNKGGFVYLLAPTPELWTLVLSHRTQILY 93
+ + + F G+ H IG GS+V S+ G +L P + + + Q++Y
Sbjct: 25 MSLTPGAEFHTHRGSIAHDAVIGLEQGSVVKSSNGALFLVLRPLLVDYVMSMPRGPQVIY 84
Query: 94 IADISFVIMYLELVPGCLVXXXXXXXXXXXXXXARAVAPTGHVYTFDFHEQRAASAREDF 153
D + ++ ++ PG V RAV P G V ++ EQRA A +
Sbjct: 85 PKDAAQIVHEGDIFPGARVLEAGAGSGALTLSLLRAVGPAGQVISY---EQRADHA--EH 139
Query: 154 ERTGVSSFV-------TVGVRDIQGQGFPDEFSGLADSIFLDLPQPWLAIPSAKKMLKQD 206
R VS + V D+ PD G D LD+ PW + + ++L
Sbjct: 140 ARRNVSGCYGQPPDNWRLVVSDLADSELPD---GSVDRAVLDMLAPWEVLDAVSRLLVAG 196
Query: 207 GILCSFSPCIEQVQRSCESLR 227
G+L + + Q+ R E+LR
Sbjct: 197 GVLMVYVATVTQLSRIVEALR 217
>pdb|2PWY|A Chain A, Crystal Structure Of A M1a58 Trna Methyltransferase
pdb|2PWY|B Chain B, Crystal Structure Of A M1a58 Trna Methyltransferase
Length = 258
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 49/184 (26%), Positives = 74/184 (40%), Gaps = 7/184 (3%)
Query: 38 QNSAFQNRFGAFKHSDWIGKPFGSMVFSNKGGFVYLLAPTPELWTLVLSHRTQILYIADI 97
+ F + G+ H + G +V ++ G + + PT E + L + Y D
Sbjct: 26 EGGVFHHHKGSVPHEALLEAGPGGVVRTHLGEELSVHRPTLEEYLLHMKRSATPTYPKDA 85
Query: 98 SFVIMYLELVPGCLVXXXXXXXXXXXXXXARAVAPTGHVYTFDFHEQRAASAREDFERTG 157
S ++ L+L PG V ARAV G V +++ A A +
Sbjct: 86 SAMVTLLDLAPGMRVLEAGTGSGGLTLFLARAVGEKGLVESYEARPHHLAQAERN----- 140
Query: 158 VSSFVTV-GVRDIQGQGFPDEFSGLA-DSIFLDLPQPWLAIPSAKKMLKQDGILCSFSPC 215
V +F V VR G+ E A D + LDL +PW + A LK D L ++ P
Sbjct: 141 VRAFWQVENVRFHLGKLEEAELEEAAYDGVALDLMEPWKVLEKAALALKPDRFLVAYLPN 200
Query: 216 IEQV 219
I QV
Sbjct: 201 ITQV 204
>pdb|2B25|A Chain A, Human Putative Trna(1-Methyladenosine)methyltransferase
pdb|2B25|B Chain B, Human Putative Trna(1-Methyladenosine)methyltransferase
Length = 336
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 47/202 (23%), Positives = 82/202 (40%), Gaps = 20/202 (9%)
Query: 44 NRFGAFKHSDWIGKPFGSMVFSNKG-------GFVYLLA-PTPELWTLVLSHRTQILYIA 95
N FG +S+W PFG +V G G Y+L P E + +++ T I +
Sbjct: 34 NNFGLL-NSNWGAVPFGKIVGKFPGQILRSSFGKQYMLRRPALEDYVVLMKRGTAITFPK 92
Query: 96 DISFVIMYLELVPGCLVXXXXXXXXXXXXXXARAVAPTGHVYTFDFHEQRAASAREDFER 155
DI+ ++ +++ PG V ++AV G V +F+ + A+++++
Sbjct: 93 DINMILSMMDINPGDTVLEAGSGSGGMSLFLSKAVGSQGRVISFEVRKDHHDLAKKNYKH 152
Query: 156 TGVS----------SFVTVGVRDIQGQGFPDEFSGLADSIFLDLPQPWLAIPSAKKMLKQ 205
S V +DI G D S D++ LD+ P + +P LK
Sbjct: 153 WRDSWKLSHVEEWPDNVDFIHKDISG-ATEDIKSLTFDAVALDMLNPHVTLPVFYPHLKH 211
Query: 206 DGILCSFSPCIEQVQRSCESLR 227
G+ + I QV + +R
Sbjct: 212 GGVCAVYVVNITQVIELLDGIR 233
>pdb|2YVL|A Chain A, Crystal Structure Of Trna (m1a58) Methyltransferase Trmi
From Aquifex Aeolicus
pdb|2YVL|B Chain B, Crystal Structure Of Trna (m1a58) Methyltransferase Trmi
From Aquifex Aeolicus
pdb|2YVL|C Chain C, Crystal Structure Of Trna (m1a58) Methyltransferase Trmi
From Aquifex Aeolicus
pdb|2YVL|D Chain D, Crystal Structure Of Trna (m1a58) Methyltransferase Trmi
From Aquifex Aeolicus
Length = 248
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 48/219 (21%), Positives = 87/219 (39%), Gaps = 14/219 (6%)
Query: 15 CIKEGDLVIVYERHDCMKAV-KVCQNSAFQNRFGAFKHSDWIGKPFGSMVFSNKGGFVYL 73
KEG+ V++ R K + K+ + + K + IGKP G + GF
Sbjct: 3 SFKEGEYVLI--RFGEKKFLRKLLPKQSLSVKKSVLKFDEVIGKPEGVKI----NGFEVY 56
Query: 74 LAPTPELWTLVLSHRTQILYIADISFVIMYLELVPGCLVXXXXXXXXXXXXXXARAVAPT 133
E+ L +TQI+Y D ++ + L L V +
Sbjct: 57 RPTLEEIILLGFERKTQIIYPKDSFYIALKLNLNKEKRVLEFGTGSGALLAVLSEV---A 113
Query: 134 GHVYTFDFHEQRAASAREDFERTGVSSFVTVGVRDIQGQGFPDEFSGLADSIFLDLPQPW 193
G V+TF+ E+ +A+++ ++ + V D + P+ G+ + F+D+ +PW
Sbjct: 114 GEVWTFEAVEEFYKTAQKNLKKFNLGKNVKFFNVDFKDAEVPE---GIFHAAFVDVREPW 170
Query: 194 LAIPSAKKMLKQDGILCSFSPCIEQVQRSCESLRLNFTG 232
+ K L + + P QV + ES+ N+ G
Sbjct: 171 HYLEKVHKSLMEGAPVGFLLPTANQVIKLLESIE-NYFG 208
>pdb|1YB2|A Chain A, Structure Of A Putative Methyltransferase From
Thermoplasma Acidophilum
Length = 275
Score = 35.8 bits (81), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 32/151 (21%), Positives = 55/151 (36%), Gaps = 6/151 (3%)
Query: 77 TPELWTLVLSHRTQILYIADISFVIMYLELVPGCLVXXXXXXXXXXXXXXARAVAPTGHV 136
+P + V+ TQI+ D S++IM L PG + A+ G +
Sbjct: 79 SPXYFGRVIRRNTQIISEIDASYIIMRCGLRPGXDILEVGVGSGNXSSYILYALNGKGTL 138
Query: 137 YTFDFHEQRAASAREDFERTGVSSFVTVGVRDIQGQGFPDEFSGLA-DSIFLDLPQPWLA 195
+ E A ++ S F +G D S D++ D+P PW
Sbjct: 139 TVVERDEDNLKKAXDNL-----SEFYDIGNVRTSRSDIADFISDQXYDAVIADIPDPWNH 193
Query: 196 IPSAKKMLKQDGILCSFSPCIEQVQRSCESL 226
+ K + + P +Q +++ SL
Sbjct: 194 VQKIASXXKPGSVATFYLPNFDQSEKTVLSL 224
>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 = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 9/64 (14%)
Query: 130 VAPTGHVYTFDFHEQRAASAREDFERTGVSSFVTVGVRDIQGQG-FPDEFSGLA--DSIF 186
VAP V D EQR + ++ +R G+ + V QG G +P ++ G D I
Sbjct: 267 VAPEAQVVAVDIDEQRLSRVYDNLKRLGMKATVK------QGDGRYPSQWCGEQQFDRIL 320
Query: 187 LDLP 190
LD P
Sbjct: 321 LDAP 324
>pdb|3CC8|A Chain A, Crystal Structure Of A Putative Methyltransferase
(Bce_1332) From Bacillus Cereus Atcc 10987 At 1.64 A
Resolution
Length = 230
Score = 27.7 bits (60), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 4/71 (5%)
Query: 168 DIQGQGFPDEFSGLADSIFLDLPQ----PWLAIPSAKKMLKQDGILCSFSPCIEQVQRSC 223
DI+ P E IF D+ + PW I K +KQ+G++ + P + +
Sbjct: 81 DIETXDXPYEEEQFDCVIFGDVLEHLFDPWAVIEKVKPYIKQNGVILASIPNVSHISVLA 140
Query: 224 ESLRLNFTGKE 234
L N+T E
Sbjct: 141 PLLAGNWTYTE 151
>pdb|3LDU|A Chain A, The Crystal Structure Of A Possible Methylase From
Clostridium Difficile 630
Length = 385
Score = 27.3 bits (59), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 20/43 (46%)
Query: 136 VYTFDFHEQRAASAREDFERTGVSSFVTVGVRDIQGQGFPDEF 178
+Y +D E+ ARE+ E GV ++ V D DEF
Sbjct: 260 IYGYDIDEESIDIARENAEIAGVDEYIEFNVGDATQFKSEDEF 302
>pdb|3K1T|A Chain A, Crystal Structure Of Putative Gamma-Glutamylcysteine
Synthetase (Yp_546622.1) From Methylobacillus
Flagellatus Kt At 1.90 A Resolution
Length = 432
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 35/91 (38%), Gaps = 5/91 (5%)
Query: 130 VAPTGHVYTFDFHEQRAASAREDFERTGVSSFVTVGV---RDIQGQGFPDEFSGLADSIF 186
APT + T D H R R + +F + + D+ G G PD GL S+
Sbjct: 139 TAPT-FLETHDGHSILLEPVRRKANRLELDNFDSCAILLNNDLSG-GIPDILQGLEQSLI 196
Query: 187 LDLPQPWLAIPSAKKMLKQDGILCSFSPCIE 217
L W + D ++ F+P I+
Sbjct: 197 PPLHAGWATRRKSNHFTAYDRVVEEFAPLID 227
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
0.325 0.139 0.436
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,776,250
Number of Sequences: 62578
Number of extensions: 261072
Number of successful extensions: 687
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 669
Number of HSP's gapped (non-prelim): 12
length of query: 237
length of database: 14,973,337
effective HSP length: 96
effective length of query: 141
effective length of database: 8,965,849
effective search space: 1264184709
effective search space used: 1264184709
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)