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= psy3767
(246 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4H3Y|A Chain A, Crystal Structure Of An Asymmetric Dimer Of A Trna
(Guanine-(N(1)-)- Methyltransferase From Burkholderia
Phymatum Bound To S-Adenosyl Homocystein In One
Half-Site
pdb|4H3Y|B Chain B, Crystal Structure Of An Asymmetric Dimer Of A Trna
(Guanine-(N(1)-)- Methyltransferase From Burkholderia
Phymatum Bound To S-Adenosyl Homocystein In One
Half-Site
pdb|4H3Z|A Chain A, Crystal Structure Of A Symmetric Dimer Of A Trna
(Guanine-(N(1)-)- Methyltransferase From Burkholderia
Phymatum Bound To S-Adenosyl Homocystein In Both
Half-Sites
pdb|4H3Z|B Chain B, Crystal Structure Of A Symmetric Dimer Of A Trna
(Guanine-(N(1)-)- Methyltransferase From Burkholderia
Phymatum Bound To S-Adenosyl Homocystein In Both
Half-Sites
Length = 276
Score = 273 bits (697), Expect = 9e-74, Method: Compositional matrix adjust.
Identities = 130/250 (52%), Positives = 170/250 (68%), Gaps = 5/250 (2%)
Query: 1 MQFDVITLFPEMFSAITQSGITRRAFEKKQYSLNLWNPRNFSSNNYRKIDDYPYGGGVGM 60
MQFD++TLFP+MF A+T GIT RA ++++Y L WNPR+F+++NYR IDD PYGGG GM
Sbjct: 22 MQFDIVTLFPDMFRALTDWGITSRAAKQERYGLRTWNPRDFTTDNYRTIDDRPYGGGPGM 81
Query: 61 IMLGKPIEDTITAXXXXXXXX----XXXXYMSPQGKKLTHNIIIKLLKESNLILLCGRYQ 116
+ML +P+ED I A MSPQG L H+ +++ E LILLCGRY+
Sbjct: 82 VMLARPLEDAINAAKAAQAEQGIGGARVVMMSPQGATLNHDKVMRFAAEPGLILLCGRYE 141
Query: 117 AIDQRFLDNFIDEEISVGDFILSGGELPAMMLIDAIVRLLPKVLNNKLN-MQDSFINGLL 175
AIDQR +D +DEE+S+GDF+LSGGELPAM LIDA+VR LP VLN+ + +QDSF++GLL
Sbjct: 142 AIDQRLIDRVVDEEVSLGDFVLSGGELPAMALIDAVVRHLPGVLNDAQSAVQDSFVDGLL 201
Query: 176 DCSYYTKPRIYLNMEVPIVLLSGNHXXXXXXXXXXXXXITNKKRPDLIIKARKNKFLTCT 235
DC +YT+P Y + VP VLL G+H T KRPDLI++ARKNK L+
Sbjct: 202 DCPHYTRPEEYDGVRVPDVLLGGHHAEIEQWRRREALRNTWLKRPDLIVQARKNKLLSRA 261
Query: 236 DEEFLKKINK 245
DE +L + K
Sbjct: 262 DEAWLASLAK 271
>pdb|1UAJ|A Chain A, Crystal Structure Of Trna(M1g37)methyltransferase: Insight
Into Trna Recognition
pdb|1UAK|A Chain A, Crystal Structure Of Trna(M1g37)methyltransferase: Insight
Into Trna Recognition
pdb|1UAL|A Chain A, Crystal Structure Of Trna(M1g37)methyltransferase: Insight
Into Trna Recognition
pdb|1UAM|A Chain A, Crystal Structure Of Trna(M1g37)methyltransferase: Insight
Into Trna Recognition
Length = 274
Score = 213 bits (541), Expect = 9e-56, Method: Compositional matrix adjust.
Identities = 101/239 (42%), Positives = 146/239 (61%), Gaps = 7/239 (2%)
Query: 1 MQFDVITLFPEMFSAITQSGITRRAFEKKQYSLNLWNPRNFSSNNYRKIDDYPYGGGVGM 60
M VI+LFPEMF AIT+ G+T RA + + WNPR+F+ + ++ +DD PYGGG GM
Sbjct: 21 MWIGVISLFPEMFKAITEFGVTGRAVKHNLLKVECWNPRDFTFDKHKTVDDRPYGGGPGM 80
Query: 61 IMLGKPIEDTITAXXXXXXXXXXXXYMSPQGKKLTHNIIIKLLKESNLILLCGRYQAIDQ 120
+M+ +P+ D I Y+SPQG+KL + +L + LIL+CGRY+ ID+
Sbjct: 81 LMMVQPLRDAIHTAKAAAGEGAKVIYLSPQGRKLDQGGVTELAQNQKLILVCGRYEGIDE 140
Query: 121 RFLDNFIDEEISVGDFILSGGELPAMMLIDAIVRLLPKVLNNKLNM-QDSFINGLLDCSY 179
R + IDEE S+GD++L+GGELPAM LIDA+ R +P VL + + +DSF +GLLDC +
Sbjct: 141 RLIQTEIDEEWSIGDYVLTGGELPAMTLIDAVARFIPGVLGKQASAEEDSFADGLLDCPH 200
Query: 180 YTKPRIYLNMEVPIVLLSGNHXXXXXXXXXXXXXITNKKRPDLIIKARKNKFLTCTDEE 238
YT+P + + VP VL+SG+H T +RP+L+ + L TDE+
Sbjct: 201 YTRPEVLEGLTVPPVLMSGHHEEIRKWRLKQSLQRTWLRRPELL------EGLALTDEQ 253
>pdb|3AXZ|A Chain A, Crystal Structure Of Haemophilus Influenzae Trmd In
Complex With Adenosine
Length = 266
Score = 213 bits (541), Expect = 9e-56, Method: Compositional matrix adjust.
Identities = 101/239 (42%), Positives = 146/239 (61%), Gaps = 7/239 (2%)
Query: 1 MQFDVITLFPEMFSAITQSGITRRAFEKKQYSLNLWNPRNFSSNNYRKIDDYPYGGGVGM 60
M VI+LFPEMF AIT+ G+T RA + + WNPR+F+ + ++ +DD PYGGG GM
Sbjct: 21 MWIGVISLFPEMFKAITEFGVTGRAVKHNLLKVECWNPRDFTFDKHKTVDDRPYGGGPGM 80
Query: 61 IMLGKPIEDTITAXXXXXXXXXXXXYMSPQGKKLTHNIIIKLLKESNLILLCGRYQAIDQ 120
+M+ +P+ D I Y+SPQG+KL + +L + LIL+CGRY+ ID+
Sbjct: 81 LMMVQPLRDAIHTAKAAAGEGAKVIYLSPQGRKLDQGGVTELAQNQKLILVCGRYEGIDE 140
Query: 121 RFLDNFIDEEISVGDFILSGGELPAMMLIDAIVRLLPKVLNNKLNM-QDSFINGLLDCSY 179
R + IDEE S+GD++L+GGELPAM LIDA+ R +P VL + + +DSF +GLLDC +
Sbjct: 141 RLIQTEIDEEWSIGDYVLTGGELPAMTLIDAVARFIPGVLGKQASAEEDSFADGLLDCPH 200
Query: 180 YTKPRIYLNMEVPIVLLSGNHXXXXXXXXXXXXXITNKKRPDLIIKARKNKFLTCTDEE 238
YT+P + + VP VL+SG+H T +RP+L+ + L TDE+
Sbjct: 201 YTRPEVLEGLTVPPVLMSGHHEEIRKWRLKQSLQRTWLRRPELL------EGLALTDEQ 253
>pdb|1P9P|A Chain A, The Crystal Structure Of A M1g37 Trna Methyltransferase,
Trmd
Length = 261
Score = 213 bits (541), Expect = 1e-55, Method: Compositional matrix adjust.
Identities = 102/224 (45%), Positives = 141/224 (62%), Gaps = 1/224 (0%)
Query: 1 MQFDVITLFPEMFSAITQSGITRRAFEKKQYSLNLWNPRNFSSNNYRKIDDYPYGGGVGM 60
M +I+LFPEMF AIT G+T RA + S+ W+PR+F+ + +R +DD PYGGG GM
Sbjct: 7 MWIGIISLFPEMFRAITDYGVTGRAVKNGLLSIQSWSPRDFTHDRHRTVDDRPYGGGPGM 66
Query: 61 IMLGKPIEDTITAXXXXXXXXXXXXYMSPQGKKLTHNIIIKLLKESNLILLCGRYQAIDQ 120
+M+ +P+ D I A Y+SPQG+KL + +L LIL+CGRY+ ID+
Sbjct: 67 LMMVQPLRDAIHAAKAAAGEGAKVIYLSPQGRKLDQAGVSELATNQKLILVCGRYEGIDE 126
Query: 121 RFLDNFIDEEISVGDFILSGGELPAMMLIDAIVRLLPKVLNNKLNM-QDSFINGLLDCSY 179
R + IDEE S+GD++LSGGELPAM LID++ R +P VL ++ + +DSF GLLDC +
Sbjct: 127 RVIQTEIDEEWSIGDYVLSGGELPAMTLIDSVSRFIPGVLGHEASATEDSFAEGLLDCPH 186
Query: 180 YTKPRIYLNMEVPIVLLSGNHXXXXXXXXXXXXXITNKKRPDLI 223
YT+P + MEVP VLLSGNH T +RP+L+
Sbjct: 187 YTRPEVLEGMEVPPVLLSGNHAEIRRWRLKQSLGRTWLRRPELL 230
>pdb|3KY7|A Chain A, 2.35 Angstrom Resolution Crystal Structure Of A Putative
Trna (Guanine-7-)-Methyltransferase (Trmd) From
Staphylococcus Aureus Subsp. Aureus Mrsa252
Length = 269
Score = 185 bits (469), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 95/243 (39%), Positives = 143/243 (58%), Gaps = 7/243 (2%)
Query: 1 MQFDVITLFPEMFSAITQSGITRRAFEKKQYSLNLWNPRNFSSNNYRKIDDYPYGGGVGM 60
M+ D +TLFPEMF + I +RA E + +N N R+++ N + ++DDYPYGGG GM
Sbjct: 25 MKIDYLTLFPEMFDGVLNHSIMKRAQENNKLQINTVNFRDYAINKHNQVDDYPYGGGQGM 84
Query: 61 IMLGKPIEDTITAXXXXXXXXXXXXYMSPQGKKLTHNIIIKLLKESNLILLCGRYQAIDQ 120
++ +P+ + + M PQG+ +H ++L K +++ +CG Y+ D+
Sbjct: 85 VLKPEPVFNAMEDLDVTEQARVIL--MXPQGEPFSHQKAVELSKADHIVFICGHYEGYDE 142
Query: 121 RFLDNFIDEEISVGDFILSGGELPAMMLIDAIVRLLPKVLNNKLNMQ-DSFINGLLDCSY 179
R + + +EIS+GD++L+GGELPAM + DAIVRL+P VL N+ + Q DSF +GLL+
Sbjct: 143 RIRTHLVTDEISMGDYVLTGGELPAMTMTDAIVRLIPGVLGNEQSHQDDSFSDGLLEFPQ 202
Query: 180 YTKPRIYLNMEVPIVLLSGNHXXXXXXXXXXXXXITNKKRPDLIIKARKNKFLTCTDEEF 239
YT+PR + + VP VLLSGNH T KRPDLI K LT D++
Sbjct: 203 YTRPREFKGLTVPDVLLSGNHANIDAWRHEQKLIRTYNKRPDLIEKYP----LTNADKQI 258
Query: 240 LKK 242
L++
Sbjct: 259 LER 261
>pdb|3KNU|A Chain A, Crystal Structure Of Trna (Guanine-N1)-Methyltransferase
From Anaplasma Phagocytophilum
pdb|3KNU|B Chain B, Crystal Structure Of Trna (Guanine-N1)-Methyltransferase
From Anaplasma Phagocytophilum
pdb|3KNU|C Chain C, Crystal Structure Of Trna (Guanine-N1)-Methyltransferase
From Anaplasma Phagocytophilum
pdb|3KNU|D Chain D, Crystal Structure Of Trna (Guanine-N1)-Methyltransferase
From Anaplasma Phagocytophilum
pdb|4IG6|A Chain A, Crystal Structure Of A Trna (Guanine-N1)-Methyltransferase
From Anaplasma Phagocytophilum Bound To
S-Adenosylhomocysteine
Length = 253
Score = 162 bits (410), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 82/227 (36%), Positives = 134/227 (59%), Gaps = 9/227 (3%)
Query: 1 MQFDVITLFPEMFSAITQSGITRRAFEKKQYSLNLWNPRNFSSNNYRKIDDYPYGGGVGM 60
M F+V+T+FP+MF A +K ++LN+++ R F++N + +DD PYGGG GM
Sbjct: 22 MIFNVLTIFPQMFPGPLGVSNLGSALKKGLWTLNVFDIRAFANNKHNTVDDTPYGGGPGM 81
Query: 61 IM----LGKPIEDTITAXXXXXXXXXXXXYMSPQGKKLTHNIIIKLLKESNLILLCGRYQ 116
++ LG+ I++ ++ + SP+G T +I + + N+ LLCGR++
Sbjct: 82 LLRADVLGRCIDEVLS-----LHPNTKLMFTSPRGVSFTQDIARQTMNFDNITLLCGRFE 136
Query: 117 AIDQRFLDNFIDEEISVGDFILSGGELPAMMLIDAIVRLLPKVLNNKLNMQDSFINGLLD 176
ID+R +D + +E+S+GD++LSGGEL AM++ID VR++P V+ N +++ + G L+
Sbjct: 137 GIDERVVDFYKLQEVSIGDYVLSGGELAAMVIIDTCVRMVPGVIGNAESLKQESMEGSLE 196
Query: 177 CSYYTKPRIYLNMEVPIVLLSGNHXXXXXXXXXXXXXITNKKRPDLI 223
YT+P + MEVP VLL+GNH IT +RPDL+
Sbjct: 197 YPQYTRPASWKGMEVPEVLLTGNHGEIEKWRRNASLSITAARRPDLL 243
>pdb|3IEF|A Chain A, Crystal Structure Of Trna Guanine-N1-Methyltransferase
From Bartonella Henselae Using Mpcs.
pdb|3IEF|B Chain B, Crystal Structure Of Trna Guanine-N1-Methyltransferase
From Bartonella Henselae Using Mpcs
Length = 233
Score = 161 bits (408), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 82/230 (35%), Positives = 129/230 (56%), Gaps = 5/230 (2%)
Query: 2 QFDVITLFPEMFSAITQSGITRRAFEKKQYSLNLWNPRNFSSNNYRKIDDYPYGGGVGMI 61
Q V+TL+PEMF + +A ++ +SL R+F+ + + +DD P GGG GM+
Sbjct: 5 QARVLTLYPEMFPGFLGCSLAGQALKQGIWSLETVQIRDFALDKHHSVDDTPAGGGAGMV 64
Query: 62 MLGKPIEDTITAXXXXXXXXXXXXYMSPQGKKLTHNIIIKLLKESNLILLCGRYQAIDQR 121
M D + A MSP+G+ L L + S + L+CGR++ +D+R
Sbjct: 65 MRA----DVLAAALDSCPNDSPRLLMSPRGRLLNQAYARSLARSSGVTLVCGRFEGVDER 120
Query: 122 FLDNFIDEEISVGDFILSGGELPAMMLIDAIVRLLPKVLNNKLNMQ-DSFINGLLDCSYY 180
++ EE+S+GD+ILSGGE A++L+DAIVRLLP V+ N+++ + +SF NGLL+ Y
Sbjct: 121 IIEARELEEVSIGDYILSGGETAALVLLDAIVRLLPGVMGNEISAKCESFENGLLEHPQY 180
Query: 181 TKPRIYLNMEVPIVLLSGNHXXXXXXXXXXXXXITNKKRPDLIIKARKNK 230
T+P ++ +P VL SG+H +T ++RPDL KN+
Sbjct: 181 TRPAVFEGRGIPPVLTSGHHKAIANWRQQQAESLTRQRRPDLYALYNKNR 230
>pdb|1OY5|A Chain A, Crystal Structure Of Trna (M1g37) Methyltransferase From
Aquifex Aeolicus
pdb|1OY5|B Chain B, Crystal Structure Of Trna (M1g37) Methyltransferase From
Aquifex Aeolicus
pdb|1OY5|C Chain C, Crystal Structure Of Trna (M1g37) Methyltransferase From
Aquifex Aeolicus
Length = 257
Score = 145 bits (365), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 84/226 (37%), Positives = 130/226 (57%), Gaps = 5/226 (2%)
Query: 1 MQFDVITLFPEMFSAITQSGITRRAFEKKQYSLNLWNPRNFSSNNYRKIDDYPYGGGVGM 60
++F V+T+FP + S ++ GI ++A +K + + + R F+ ++DD PYGG GM
Sbjct: 6 LRFFVLTIFPHIISCYSEYGIVKQAIKKGKVEVYPIDLREFAPKG--QVDDVPYGGLPGM 63
Query: 61 IMLGKPIEDTITAXXXXXXXXXXXXYMSPQGKKLTHNIIIKLLKESNLILLCGRYQAIDQ 120
++ +PI + P G+KL ++ +L K+ ++++CGRY+ +D+
Sbjct: 64 VLKPEPIYEAYDYVVENYGKPFVLI-TEPWGEKLNQKLVNELSKKERIMIICGRYEGVDE 122
Query: 121 RFLDNFIDEEISVGDFILSGGELPAMMLIDAIVRLLPKVLNNKLNMQ-DSFINGLLDCSY 179
R + +D EIS+GDFILSGGE+ A+ +IDA+ R+LP VL+ ++Q DSF N L
Sbjct: 123 R-VKKIVDMEISLGDFILSGGEIVALAVIDAVSRVLPGVLSEPQSIQEDSFQNRWLGYPV 181
Query: 180 YTKPRIYLNMEVPIVLLSGNHXXXXXXXXXXXXXITNKKRPDLIIK 225
YT+PR Y M+VP LLSG+H T KKRPDLI K
Sbjct: 182 YTRPREYRGMKVPEELLSGHHKLIELWKLWHRIENTVKKRPDLIPK 227
>pdb|3QUV|A Chain A, Crystal Structure Of A Trna-Guanine-N1-Methyltransferase
From Mycobacterium Abscessus
pdb|3QUV|B Chain B, Crystal Structure Of A Trna-Guanine-N1-Methyltransferase
From Mycobacterium Abscessus
Length = 246
Score = 142 bits (357), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 78/235 (33%), Positives = 127/235 (54%), Gaps = 20/235 (8%)
Query: 1 MQFDVITLFPEMFSAITQSGITRRAFEKKQYSLNLWNPRNFSSNNYRKIDDYPYGGGVGM 60
M+ DV+T+FPE + QS + +A + + + + R ++ + ++ +DD PYGGG GM
Sbjct: 5 MKIDVVTIFPEYLQPVRQS-LPGKAIDAGLVDVAVHDLRRWTHDVHKSVDDSPYGGGPGM 63
Query: 61 IM----LGKPIEDTITAXXXXXXXXXXXXYMSPQGKKLTHNIIIKLLKESNLILLCGRYQ 116
+M G +++ T+ +P G T + E +L++ CGRY+
Sbjct: 64 VMKPTVWGDALDEICTSETLLVVP-------TPAGYPFTQETAWQWSTEDHLVIACGRYE 116
Query: 117 AIDQRFLDNFIDE----EISVGDFILSGGELPAMMLIDAIVRLLPKVLNNKLNMQ-DSFI 171
IDQR D+ E+S+GD++L+GGE A+++I+A++RL+P VL N L+ Q DS
Sbjct: 117 GIDQRVADDAATRMRVREVSIGDYVLNGGEAAALVIIEAVLRLVPGVLGNALSAQEDSHS 176
Query: 172 NG---LLDCSYYTKPRIYLNMEVPIVLLSGNHXXXXXXXXXXXXXITNKKRPDLI 223
G LL+ YT+P + M+VP VLLSG+H T ++RPDL+
Sbjct: 177 EGMASLLEGPSYTRPPSWRGMDVPPVLLSGDHAKIAAWRAEQSRQRTIERRPDLL 231
>pdb|1K8I|B Chain B, Crystal Structure Of Mouse H2-Dm
Length = 191
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 24/37 (64%), Gaps = 4/37 (10%)
Query: 151 AIVRLLPKVLNNKLNMQDSFI----NGLLDCSYYTKP 183
++ L ++++N LN Q+S I NGL DC+ +T+P
Sbjct: 48 GVLSRLAEIISNILNEQESLIHRLQNGLQDCATHTQP 84
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
0.322 0.141 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,369,628
Number of Sequences: 62578
Number of extensions: 232926
Number of successful extensions: 463
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 434
Number of HSP's gapped (non-prelim): 13
length of query: 246
length of database: 14,973,337
effective HSP length: 96
effective length of query: 150
effective length of database: 8,965,849
effective search space: 1344877350
effective search space used: 1344877350
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)