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= psy425
(254 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1I1N|A Chain A, Human Protein L-Isoaspartate O-Methyltransferase With S-
Adenosyl Homocysteine
pdb|1KR5|A Chain A, Crystal Structure Of Human L-Isoaspartyl Methyltransferase
Length = 226
Score = 73.9 bits (180), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 39/103 (37%), Positives = 56/103 (54%), Gaps = 1/103 (0%)
Query: 140 QAACLQHLSDKLLPGANVLDLGFGSGFMSCCMARMVGDKGHVTAVDHIPQLINLFMTKLK 199
A L+ L D+L GA LD+G GSG ++ C ARMVG G V +DHI +L++ + ++
Sbjct: 64 HAYALELLFDQLHEGAKALDVGSGSGILTACFARMVGCTGKVIGIDHIKELVDDSVNNVR 123
Query: 200 ISYPKLYKLYKIMDVVEWDARKPYKKNGPYDVIHFGSGVKHIP 242
P L ++ VV D R Y + PYD IH G+ +P
Sbjct: 124 KDDPTLLSSGRVQLVVG-DGRMGYAEEAPYDAIHVGAAAPVVP 165
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 43/77 (55%), Gaps = 2/77 (2%)
Query: 7 TSNQQFIQYLKENNFAQDERVLEAIQWVDRDRFAK-DGYIDSPHNFGTNSIVERPSYVSS 65
S+ + I L++N + ++V E + DR +AK + Y+DSP + G + + P ++ +
Sbjct: 7 ASHSELIHNLRKNGIIKTDKVFEVMLATDRSHYAKCNPYMDSPQSIGFQATISAP-HMHA 65
Query: 66 CSIWYLVICLGKGSKSI 82
++ L L +G+K++
Sbjct: 66 YALELLFDQLHEGAKAL 82
>pdb|1R18|A Chain A, Drosophila Protein Isoaspartyl Methyltransferase With
S-Adenosyl-L- Homocysteine
Length = 227
Score = 68.2 bits (165), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 35/111 (31%), Positives = 56/111 (50%), Gaps = 6/111 (5%)
Query: 140 QAACLQHLSDKLLPGANVLDLGFGSGFMSCCMARMVGDKG-----HVTAVDHIPQLINLF 194
A L++L D L PGA +LD+G GSG+++ C R + KG + ++H +L+
Sbjct: 71 HAFALEYLRDHLKPGARILDVGSGSGYLTACFYRYIKAKGVDADTRIVGIEHQAELVRRS 130
Query: 195 MTKLKISYPKLYKLYKIMDVVEWDARKPYKKNGPYDVIHFGSGVKHIPIEV 245
L + +++ +VE D RK Y N PY+ IH G+ P E+
Sbjct: 131 KANLNTDDRSMLDSGQLL-IVEGDGRKGYPPNAPYNAIHVGAAAPDTPTEL 180
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 40/75 (53%), Gaps = 2/75 (2%)
Query: 7 TSNQQFIQYLKENNFAQDERVLEAIQWVDRDRFA-KDGYIDSPHNFGTNSIVERPSYVSS 65
+N+ I+ LK++ + V +A++ DR ++ ++ Y+D+P G + P ++ +
Sbjct: 14 ANNEDLIRQLKDHGVIASDAVAQAMKETDRKHYSPRNPYMDAPQPIGGGVTISAP-HMHA 72
Query: 66 CSIWYLVICLGKGSK 80
++ YL L G++
Sbjct: 73 FALEYLRDHLKPGAR 87
>pdb|2PBF|A Chain A, Crystal Structure Of A Putative Protein-L-Isoaspartate O-
Methyltransferase Beta-Aspartate Methyltransferase
(Pcmt) From Plasmodium Falciparum In Complex With
S-Adenosyl-L-Homocysteine
pdb|2PBF|B Chain B, Crystal Structure Of A Putative Protein-L-Isoaspartate O-
Methyltransferase Beta-Aspartate Methyltransferase
(Pcmt) From Plasmodium Falciparum In Complex With
S-Adenosyl-L-Homocysteine
Length = 227
Score = 53.9 bits (128), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 31/110 (28%), Positives = 56/110 (50%), Gaps = 7/110 (6%)
Query: 140 QAACLQHLSDKLLPGANVLDLGFGSGFMSCCMA----RMVGDKGHVTAVDHIPQLINLFM 195
A L+ L + L PG+ +D+G GSG+++ CMA + +V ++ + L+N +
Sbjct: 67 HALSLKRLINVLKPGSRAIDVGSGSGYLTVCMAIKMNVLENKNSYVIGLERVKDLVNFSL 126
Query: 196 TKLKISYPKLYKL--YKIMDVVEWDARKPYKKN-GPYDVIHFGSGVKHIP 242
+K P+L K+ +KI+ + + KK G +D IH G+ +P
Sbjct: 127 ENIKRDKPELLKIDNFKIIHKNIYQVNEEEKKELGLFDAIHVGASASELP 176
>pdb|1JG4|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
Methyltransferase With S-Adenosylmethionine
pdb|1JG3|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl)
O-Methyltransferase With Adenosine & Vyp(Isp)ha
Substrate
pdb|1JG3|B Chain B, Crystal Structure Of L-Isoaspartyl (D-Aspartyl)
O-Methyltransferase With Adenosine & Vyp(Isp)ha
Substrate
pdb|1JG2|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
Methyltransferase With Adenosine
pdb|1JG1|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
Methyltransferase With S-Adenosyl-L-Homocysteine
Length = 235
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 50/109 (45%), Gaps = 8/109 (7%)
Query: 134 QVLRRPQAACLQHLSDKLLPGANVLDLGFGSGFMSCCMARMVGDKGHVTAVDHIPQLINL 193
Q + P + L PG N+L++G GSG+ + ++ +V K V ++ IP+L+
Sbjct: 72 QTVSAPHMVAIMLEIANLKPGMNILEVGTGSGWNAALISEIV--KTDVYTIERIPELVEF 129
Query: 194 FMTKLKISYPKLYKLYKIMDVVEWDARKPYKKNGPYDVIHFGSGVKHIP 242
L+ + K + V+ D K + PYDVI +G IP
Sbjct: 130 AKRNLERAG------VKNVHVILGDGSKGFPPKAPYDVIIVTAGAPKIP 172
>pdb|2YXE|A Chain A, Crystal Structure Of L-Isoaspartyl Protein Carboxyl
Methyltranferase
pdb|2YXE|B Chain B, Crystal Structure Of L-Isoaspartyl Protein Carboxyl
Methyltranferase
Length = 215
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 46/92 (50%), Gaps = 6/92 (6%)
Query: 151 LLPGANVLDLGFGSGFMSCCMARMVGDKGHVTAVDHIPQLINLFMTKLKISYPKLYKLYK 210
L PG VL++G G G+ + A +VG+ G V +++ IP+L K + + KL Y
Sbjct: 75 LKPGMKVLEIGTGCGYHAAVTAEIVGEDGLVVSIERIPELAE----KAERTLRKLG--YD 128
Query: 211 IMDVVEWDARKPYKKNGPYDVIHFGSGVKHIP 242
+ V+ D Y+ PYD I+ + IP
Sbjct: 129 NVIVIVGDGTLGYEPLAPYDRIYTTAAGPKIP 160
>pdb|3DH0|A Chain A, Crystal Structure Of A Sam Dependent Methyltransferase
From Aquifex Aeolicus
pdb|3DH0|B Chain B, Crystal Structure Of A Sam Dependent Methyltransferase
From Aquifex Aeolicus
Length = 219
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 27/39 (69%)
Query: 154 GANVLDLGFGSGFMSCCMARMVGDKGHVTAVDHIPQLIN 192
G VLD+G G+GF +++MVG+KG V A+D +++N
Sbjct: 38 GMTVLDVGTGAGFYLPYLSKMVGEKGKVYAIDVQEEMVN 76
>pdb|1DL5|A Chain A, Protein-L-Isoaspartate O-Methyltransferase
pdb|1DL5|B Chain B, Protein-L-Isoaspartate O-Methyltransferase
Length = 317
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 46/92 (50%), Gaps = 12/92 (13%)
Query: 154 GANVLDLGFGSGFMSCCMARMVGDKGHVTAVDH---IPQLINLFMTKLKISYPKLYKLYK 210
G VL++G G+G+ + M+R+VG+KG V +V++ I ++ + +L I +
Sbjct: 76 GMRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVERLGI---------E 126
Query: 211 IMDVVEWDARKPYKKNGPYDVIHFGSGVKHIP 242
+ V D + PYDVI GV +P
Sbjct: 127 NVIFVCGDGYYGVPEFSPYDVIFVTVGVDEVP 158
>pdb|3BKX|A Chain A, Crystal Structure Of Cyclopropane-fatty-acyl-phospholipid
Synthase- Like Protein (yp_807781.1) From Lactobacillus
Casei Atcc 334 At 1.85 A Resolution
pdb|3BKX|B Chain B, Crystal Structure Of Cyclopropane-fatty-acyl-phospholipid
Synthase- Like Protein (yp_807781.1) From Lactobacillus
Casei Atcc 334 At 1.85 A Resolution
Length = 275
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 153 PGANVLDLGFGSGFMSCCMARMVGDKGHVTAVD 185
PG +L++G G G +S +A VG GHVT +D
Sbjct: 43 PGEKILEIGCGQGDLSAVLADQVGSSGHVTGID 75
>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 = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 24/39 (61%)
Query: 151 LLPGANVLDLGFGSGFMSCCMARMVGDKGHVTAVDHIPQ 189
L PG VL+ G GSG ++ +AR VG+KG V + + P
Sbjct: 94 LAPGMRVLEAGTGSGGLTLFLARAVGEKGLVESYEARPH 132
>pdb|1I9G|A Chain A, Crystal Structure Of An Adomet Dependent Methyltransferase
Length = 280
Score = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 131 RPDQVLRRPQAACLQHLSDKLLPGANVLDLGFGSGFMSCCMARMVGDKGHV 181
R QV+ AA + H D + PGA VL+ G GSG ++ + R VG G V
Sbjct: 78 RGPQVIYPKDAAQIVHEGD-IFPGARVLEAGAGSGALTLSLLRAVGPAGQV 127
>pdb|4FR0|A Chain A, Arsm Arsenic(Iii) S-Adenosylmethionine Methyltransferase
With Sam
pdb|4FS8|A Chain A, The Structure Of An As(Iii) S-Adenosylmethionine
Methyltransferase: Insights Into The Mechanism Of
Arsenic Biotransformation
pdb|4FSD|A Chain A, Arsm Arsenic(Iii) S-Adenosylmethionine Methyltransferase
With As(Iii)
Length = 383
Score = 33.5 bits (75), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 29/55 (52%)
Query: 133 DQVLRRPQAACLQHLSDKLLPGANVLDLGFGSGFMSCCMARMVGDKGHVTAVDHI 187
D+VL + +D L GA VLDLG G+G +++VG+ G V VD +
Sbjct: 63 DEVLEKFYGCGSTLPADGSLEGATVLDLGCGTGRDVYLASKLVGEHGKVIGVDML 117
>pdb|1O54|A Chain A, Crystal Structure Of Sam-Dependent O-Methyltransferase
(Tm0748) From Thermotoga Maritima At 1.65 A Resolution
Length = 277
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%)
Query: 154 GANVLDLGFGSGFMSCCMARMVGDKGHVTAVDHIPQLINLFMTKL 198
G ++D G GSG M +AR VG G V A + + L + L
Sbjct: 113 GDRIIDTGVGSGAMCAVLARAVGSSGKVFAYEKREEFAKLAESNL 157
>pdb|3E23|A Chain A, Crystal Structure Of The Rpa2492 Protein In Complex With
Sam From Rhodopseudomonas Palustris, Northeast
Structural Genomics Consortium Target Rpr299
Length = 211
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 25/106 (23%), Positives = 45/106 (42%), Gaps = 16/106 (15%)
Query: 137 RRPQAACLQHLSDKLLPGANVLDLGFGSGFMSCCMARMVGDKGHVTAVDHIPQLINLFMT 196
R+P++A L +L GA +L+LG G+G+ + D V A D P+L
Sbjct: 27 RQPRSATLTKFLGELPAGAKILELGCGAGYQAEAXLAAGFD---VDATDGSPELAA--EA 81
Query: 197 KLKISYPKLYKLYKIMDVVEWDARKPYKKNGPYDVIHFGSGVKHIP 242
++ P L+ +D ++ YD + + + H+P
Sbjct: 82 SRRLGRPVRTXLFHQLDAID-----------AYDAVWAHACLLHVP 116
>pdb|1EIZ|A Chain A, Ftsj Rna Methyltransferase Complexed With S-
Adenosylmethionine
pdb|1EJ0|A Chain A, Ftsj Rna Methyltransferase Complexed With S-
Adenosylmethionine, Mercury Derivative
Length = 180
Score = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 148 SDKLL-PGANVLDLGFGSGFMSCCMARMVGDKGHVTAVDHIP 188
SDKL PG V+DLG G S + +G KG + A D +P
Sbjct: 16 SDKLFKPGMTVVDLGAAPGGWSQYVVTQIGGKGRIIACDLLP 57
>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 = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 4/65 (6%)
Query: 153 PGANVLDLGFGSGFMSCCMARMVGDKGHVTAVDHIPQLINLFMTKLKISYPKLYKLYKIM 212
PG VL+ G GSG MS +++ VG +G V + + +L K +Y +K+
Sbjct: 105 PGDTVLEAGSGSGGMSLFLSKAVGSQGRVISFEVRKDHHDL----AKKNYKHWRDSWKLS 160
Query: 213 DVVEW 217
V EW
Sbjct: 161 HVEEW 165
>pdb|3CJT|A Chain A, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Dimethylated Ribosomal Protein L11
pdb|3CJT|C Chain C, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Dimethylated Ribosomal Protein L11
pdb|3CJT|E Chain E, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Dimethylated Ribosomal Protein L11
pdb|3CJT|G Chain G, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Dimethylated Ribosomal Protein L11
pdb|3CJT|I Chain I, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Dimethylated Ribosomal Protein L11
pdb|3CJT|K Chain K, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Dimethylated Ribosomal Protein L11
pdb|3CJT|M Chain M, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Dimethylated Ribosomal Protein L11
pdb|3CJT|O Chain O, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Dimethylated Ribosomal Protein L11
Length = 254
Score = 30.8 bits (68), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 143 CLQHLSDKLLPGANVLDLGFGSGFMSCCMARMVGDKGHVTAVDHIPQLI 191
L+ L+ L PG VLDLG GSG ++ ++ G VD P ++
Sbjct: 110 ALKALARHLRPGDKVLDLGTGSGVLAIAAEKL---GGKALGVDIDPMVL 155
>pdb|1UFK|A Chain A, Crystal Structure Of Tt0836
pdb|2NXE|A Chain A, T. Thermophilus Ribosomal Protein L11 Methyltransferase
(Prma) In Complex With S-Adenosyl-L-Methionine
pdb|2NXE|B Chain B, T. Thermophilus Ribosomal Protein L11 Methyltransferase
(Prma) In Complex With S-Adenosyl-L-Methionine
pdb|2NXJ|A Chain A, T.Thermophilus Ribosomal Protein L11 Methyltransferase
(Prma) In Space Group P 21 21 2
pdb|2NXJ|B Chain B, T.Thermophilus Ribosomal Protein L11 Methyltransferase
(Prma) In Space Group P 21 21 2
pdb|2NXN|A Chain A, T. Thermophilus Ribosomal Protein L11 Methyltransferase
(Prma) In Complex With Ribosomal Protein L11
pdb|2NXC|A Chain A, Apo-Form Of T. Thermophilus Ribosomal Protein L11
Methyltransferase (Prma)
pdb|3CJQ|A Chain A, Ribosomal Protein L11 Methyltransferase (Prma) In Complex
With Dimethylated Ribosomal Protein L11 In Space Group
P212121
pdb|3CJQ|D Chain D, Ribosomal Protein L11 Methyltransferase (Prma) In Complex
With Dimethylated Ribosomal Protein L11 In Space Group
P212121
pdb|3CJQ|G Chain G, Ribosomal Protein L11 Methyltransferase (Prma) In Complex
With Dimethylated Ribosomal Protein L11 In Space Group
P212121
pdb|3CJR|A Chain A, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Ribosomal Protein L11 (k39a) And Inhibitor
Sinefungin.
pdb|3EGV|A Chain A, Ribosomal Protein L11 Methyltransferase (Prma) In Complex
With Trimethylated Ribosomal Protein L11
pdb|2ZBP|A Chain A, Crystal Structure Of Ribosomal Protein L11
Methyltransferase From Thermus Thermophilus In Complex
With S-Adenosyl-L-Methionine
pdb|2ZBQ|A Chain A, Crystal Structure Of Ribosomal Protein L11
Methyltransferase From Thermus Thermophilus In Complex
With S-Adenosyl-L-Homocysteine
pdb|2ZBR|A Chain A, Crystal Structure Of Ribosomal Protein L11
Methyltransferase From Thermus Thermophilus In Complex
With S-adenosyl-ornithine
Length = 254
Score = 30.8 bits (68), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 143 CLQHLSDKLLPGANVLDLGFGSGFMSCCMARMVGDKGHVTAVDHIPQLI 191
L+ L+ L PG VLDLG GSG ++ ++ G VD P ++
Sbjct: 110 ALKALARHLRPGDKVLDLGTGSGVLAIAAEKL---GGKALGVDIDPMVL 155
>pdb|2IPX|A Chain A, Human Fibrillarin
Length = 233
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 38/82 (46%), Gaps = 12/82 (14%)
Query: 153 PGANVLDLGFGSGFMSCCMARMVGDKGHVTAVDHIPQ----LINLFMTKLKI-------S 201
PGA VL LG SG ++ +VG G V AV+ + LINL + I
Sbjct: 77 PGAKVLYLGAASGTTVSHVSDIVGPDGLVYAVEFSHRSGRDLINLAKKRTNIIPVIEDAR 136
Query: 202 YPKLYK-LYKIMDVVEWDARKP 222
+P Y+ L +DV+ D +P
Sbjct: 137 HPHKYRXLIAXVDVIFADVAQP 158
>pdb|3MB5|A Chain A, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Methionine
Length = 255
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 139 PQAACLQHLSDKLLPGANVLDLGFGSGFMSCCMARMVGDKGHVTA 183
P+ A L + PG +++ G GSG ++ +A +VG +G V +
Sbjct: 79 PKDAALIVAYAGISPGDFIVEAGVGSGALTLFLANIVGPEGRVVS 123
>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 = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 139 PQAACLQHLSDKLLPGANVLDLGFGSGFMSCCMARMVGDKGHVTA 183
P+ A L + PG +++ G GSG ++ +A +VG +G V +
Sbjct: 79 PKDAALIVAYAGISPGDFIVEAGVGSGALTLFLANIVGPEGRVVS 123
>pdb|1G8A|A Chain A, Pyrococcus Horikoshii Fibrillarin Pre-Rrna Processing
Protein
Length = 227
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 141 AACLQHLSD-KLLPGANVLDLGFGSGFMSCCMARMVGDKGHVTAVDHIPQLI 191
AA + L + + PG +VL LG SG + ++ +VG +G + ++ P+++
Sbjct: 60 AAIMNGLKNFPIKPGKSVLYLGIASGTTASHVSDIVGWEGKIFGIEFSPRVL 111
>pdb|1PRY|A Chain A, Structure Determination Of Fibrillarin Homologue From
Hyperthermophilic Archaeon Pyrococcus Furiosus
(Pfu-65527)
Length = 227
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 141 AACLQHLSD-KLLPGANVLDLGFGSGFMSCCMARMVGDKGHVTAVDHIPQLI 191
AA + L + + PG +VL LG SG + ++ +VG +G + ++ P+++
Sbjct: 60 AAIVNGLKNFPIKPGKSVLYLGIASGTTASHVSDIVGWEGKIYGIEFSPRVL 111
>pdb|2NNW|B Chain B, Alternative Conformations Of Nop56/58-fibrillarin Complex
And Implication For Induced-fit Assenly Of Box C/d Rnps
pdb|2NNW|D Chain D, Alternative Conformations Of Nop56/58-fibrillarin Complex
And Implication For Induced-fit Assenly Of Box C/d Rnps
pdb|3NMU|F Chain F, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NMU|J Chain J, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NVK|I Chain I, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
pdb|3NVK|J Chain J, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
pdb|3NVM|B Chain B, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
Length = 234
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 141 AACLQHLSD-KLLPGANVLDLGFGSGFMSCCMARMVGDKGHVTAVDHIPQLI 191
AA + L + + PG +VL LG SG + ++ +VG +G + ++ P+++
Sbjct: 67 AAIVNGLKNFPIKPGKSVLYLGIASGTTASHVSDIVGWEGKIYGIEFSPRVL 118
>pdb|1NKV|A Chain A, X-Ray Structure Of Yjhp From E.Coli Northeast Structural
Genomics Research Consortium (Nesg) Target Er13
pdb|1NKV|B Chain B, X-Ray Structure Of Yjhp From E.Coli Northeast Structural
Genomics Research Consortium (Nesg) Target Er13
pdb|1NKV|C Chain C, X-Ray Structure Of Yjhp From E.Coli Northeast Structural
Genomics Research Consortium (Nesg) Target Er13
Length = 256
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 153 PGANVLDLGFGSGFMSCCMARMVGDKGHVTAVD 185
PG +LDLG GSG C AR G G T +D
Sbjct: 36 PGTRILDLGSGSGEXLCTWARDHGITG--TGID 66
>pdb|1YB2|A Chain A, Structure Of A Putative Methyltransferase From
Thermoplasma Acidophilum
Length = 275
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%)
Query: 151 LLPGANVLDLGFGSGFMSCCMARMVGDKGHVTAVD 185
L PG ++L++G GSG S + + KG +T V+
Sbjct: 108 LRPGXDILEVGVGSGNXSSYILYALNGKGTLTVVE 142
>pdb|2QR7|A Chain A, 2.0a X-Ray Structure Of C-Terminal Kinase Domain Of P90
Ribosomal S6 Kinase 2: Se-Met Derivative
Length = 342
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 3/39 (7%)
Query: 40 AKDGYIDSP---HNFGTNSIVERPSYVSSCSIWYLVICL 75
A++G + +P NF ++ER Y ++C IW L + L
Sbjct: 172 AENGLLXTPCYTANFVAPEVLERQGYDAACDIWSLGVLL 210
>pdb|3TKA|A Chain A, Crystal Structure And Solution Saxs Of Methyltransferase
Rsmh From E.Coli
Length = 347
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 147 LSDKLLPGANV------LDLGFGSGFMSCCMARMVGDKGHVTAVDHIPQLINLFMT 196
L D+ + G N+ +D FG G S + +G++G + A+D PQ I + T
Sbjct: 45 LLDEAVNGLNIRPDGIYIDGTFGRGGHSRLILSQLGEEGRLLAIDRDPQAIAVAKT 100
>pdb|2VEC|A Chain A, The Crystal Structure Of The Protein Yhak From Escherichia
Coli
Length = 256
Score = 27.3 bits (59), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 25/112 (22%), Positives = 46/112 (41%), Gaps = 11/112 (9%)
Query: 6 ITSNQQFIQYLKENNFAQDERVLEAIQWVDRDRFAKDGYIDS-PHNFGTNSIVERPSYVS 64
+ S Q + Y E+N ++D+ + W+D ++ I N G ++ P
Sbjct: 115 LLSTQPGVSY-SEHNLSKDKPLTRMQLWLDAXPQRENPLIQKLALNMGKQQLIASPEGAM 173
Query: 65 SC-----SIWYLVICLGKGSKSIFQTYGIVSGNKGIHFLPFYQFYLISHLRE 111
+W I L KG + FQ +G + + IH +F+ ++H E
Sbjct: 174 GSLQLRQQVWLHHIVLDKGESANFQLHGPRAYLQSIHG----KFHALTHHEE 221
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
0.323 0.140 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,013,671
Number of Sequences: 62578
Number of extensions: 335557
Number of successful extensions: 636
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 606
Number of HSP's gapped (non-prelim): 30
length of query: 254
length of database: 14,973,337
effective HSP length: 97
effective length of query: 157
effective length of database: 8,903,271
effective search space: 1397813547
effective search space used: 1397813547
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)