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= psy7843
(255 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 78.6 bits (192), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 46/113 (40%), Positives = 68/113 (60%), Gaps = 2/113 (1%)
Query: 119 KTHFMVNDLIGKGYVKSVRVVEAMREVDKEEFAPMDPLDKGHYDYPIDLGYGTWMEPPYQ 178
+ ++ LI +GY+KS RV++A+ +V +EEF P + + D P+++GYG + +
Sbjct: 6 QKKAVIEKLIREGYIKSKRVIDALLKVPREEFLPEHLKEYAYVDTPLEIGYGQTISAIHM 65
Query: 179 HCLVLELLSGHLKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIEHIPELLE 231
++ ELL LK G KVLEIGTG GY + +VG G V +IE IPEL E
Sbjct: 66 VGMMCELLD--LKPGMKVLEIGTGCGYHAAVTAEIVGEDGLVVSIERIPELAE 116
>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 = 78.2 bits (191), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 40/109 (36%), Positives = 62/109 (56%), Gaps = 4/109 (3%)
Query: 123 MVNDLIGKGYVKSVRVVEAMREVDKEEFAPMDPLDKGHYDYPIDLGYGTWMEPPYQHCLV 182
++++L G +K+ +V E M D+ +A +P + D P +G+ + P+ H
Sbjct: 12 LIHNLRKNGIIKTDKVFEVMLATDRSHYAKCNP----YMDSPQSIGFQATISAPHMHAYA 67
Query: 183 LELLSGHLKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIEHIPELLE 231
LELL L G K L++G+GSG LT F MVG +GKV I+HI EL++
Sbjct: 68 LELLFDQLHEGAKALDVGSGSGILTACFARMVGCTGKVIGIDHIKELVD 116
>pdb|1R18|A Chain A, Drosophila Protein Isoaspartyl Methyltransferase With
S-Adenosyl-L- Homocysteine
Length = 227
Score = 72.4 bits (176), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 38/114 (33%), Positives = 61/114 (53%), Gaps = 9/114 (7%)
Query: 123 MVNDLIGKGYVKSVRVVEAMREVDKEEFAPMDPLDKGHYDYPIDLGYGTWMEPPYQHCLV 182
++ L G + S V +AM+E D++ ++P +P + D P +G G + P+ H
Sbjct: 19 LIRQLKDHGVIASDAVAQAMKETDRKHYSPRNP----YMDAPQPIGGGVTISAPHMHAFA 74
Query: 183 LELLSGHLKYGDKVLEIGTGSGYLTTLFGAMVGISG-----KVYTIEHIPELLE 231
LE L HLK G ++L++G+GSGYLT F + G ++ IEH EL+
Sbjct: 75 LEYLRDHLKPGARILDVGSGSGYLTACFYRYIKAKGVDADTRIVGIEHQAELVR 128
>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 = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 29/73 (39%), Positives = 42/73 (57%), Gaps = 4/73 (5%)
Query: 159 GHYDYPIDLGYGTWMEPPYQHCLVLELLSGHLKYGDKVLEIGTGSGYLTTLFGAMVGISG 218
H D P+ + G + P+ ++LE+ +LK G +LE+GTGSG+ L +V
Sbjct: 60 AHIDEPLPIPAGQTVSAPHMVAIMLEI--ANLKPGMNILEVGTGSGWNAALISEIVKTD- 116
Query: 219 KVYTIEHIPELLE 231
VYTIE IPEL+E
Sbjct: 117 -VYTIERIPELVE 128
>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 = 47.4 bits (111), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 48/94 (51%), Gaps = 4/94 (4%)
Query: 123 MVNDLIGKGYVKSVRVVEAMREVDKEEFAPMDPLDKGHYDYPIDLGYGTWMEPPYQHCLV 182
++ +L +G + V M +VD+ ++ P + D P+ + +G + P+ H L
Sbjct: 15 LLENLKRRGIIDDDDVYNTMLQVDRGKYIKEIP----YIDTPVYISHGVTISAPHMHALS 70
Query: 183 LELLSGHLKYGDKVLEIGTGSGYLTTLFGAMVGI 216
L+ L LK G + +++G+GSGYLT + +
Sbjct: 71 LKRLINVLKPGSRAIDVGSGSGYLTVCMAIKMNV 104
>pdb|3LBF|A Chain A, Crystal Structure Of Protein L-Isoaspartyl
Methyltransferase From Escherichia Coli
pdb|3LBF|B Chain B, Crystal Structure Of Protein L-Isoaspartyl
Methyltransferase From Escherichia Coli
pdb|3LBF|C Chain C, Crystal Structure Of Protein L-Isoaspartyl
Methyltransferase From Escherichia Coli
pdb|3LBF|D Chain D, Crystal Structure Of Protein L-Isoaspartyl
Methyltransferase From Escherichia Coli
Length = 210
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 55/113 (48%), Gaps = 6/113 (5%)
Query: 117 AYKTHFMVNDLIGKGYVKSVRVVEAMREVDKEEFAPMDPLDKGHYDYPIDLGYGTWMEPP 176
+ + +++ L +G ++ +V+ A+ V +E+F K + + +G G + P
Sbjct: 5 SRRVQALLDQLRAQG-IQDEQVLNALAAVPREKFVDEAFEQKAWDNIALPIGQGQTISQP 63
Query: 177 YQHCLVLELLSGHLKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIEHIPEL 229
Y + ELL L +VLEIGTGSGY T + +V V ++E I L
Sbjct: 64 YMVARMTELL--ELTPQSRVLEIGTGSGYQTAILAHLV---QHVCSVERIKGL 111
>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 = 36.6 bits (83), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 30/50 (60%), Gaps = 3/50 (6%)
Query: 181 LVLELLSGHLKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIEHIPELL 230
L L+ L+ HL+ GDKVL++GTGSG L A + GK ++ P +L
Sbjct: 109 LALKALARHLRPGDKVLDLGTGSGVLAI---AAEKLGGKALGVDIDPMVL 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 = 36.6 bits (83), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 30/50 (60%), Gaps = 3/50 (6%)
Query: 181 LVLELLSGHLKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIEHIPELL 230
L L+ L+ HL+ GDKVL++GTGSG L A + GK ++ P +L
Sbjct: 109 LALKALARHLRPGDKVLDLGTGSGVLAI---AAEKLGGKALGVDIDPMVL 155
>pdb|1O54|A Chain A, Crystal Structure Of Sam-Dependent O-Methyltransferase
(Tm0748) From Thermotoga Maritima At 1.65 A Resolution
Length = 277
Score = 35.8 bits (81), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 190 LKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIEHIPEL 229
+K GD++++ G GSG + + VG SGKV+ E E
Sbjct: 110 VKEGDRIIDTGVGSGAMCAVLARAVGSSGKVFAYEKREEF 149
>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 = 35.4 bits (80), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 162 DYPIDLGYGTWMEPPYQHCLVLELLSGHLKYGDKVLEIGTGSGYLTTLFGAMVGISGKVY 221
DY + + GT + P ++L ++ + GD VLE G+GSG ++ VG G+V
Sbjct: 77 DYVVLMKRGTAITFPKDINMILSMMD--INPGDTVLEAGSGSGGMSLFLSKAVGSQGRVI 134
Query: 222 TIE 224
+ E
Sbjct: 135 SFE 137
>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 = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 22/35 (62%)
Query: 190 LKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIE 224
LK G VL++GTG+G+ MVG GKVY I+
Sbjct: 35 LKEGMTVLDVGTGAGFYLPYLSKMVGEKGKVYAID 69
>pdb|1VBF|A Chain A, Crystal Structure Of Protein L-Isoaspartate
O-Methyltransferase Homologue From Sulfolobus Tokodaii
pdb|1VBF|B Chain B, Crystal Structure Of Protein L-Isoaspartate
O-Methyltransferase Homologue From Sulfolobus Tokodaii
pdb|1VBF|C Chain C, Crystal Structure Of Protein L-Isoaspartate
O-Methyltransferase Homologue From Sulfolobus Tokodaii
pdb|1VBF|D Chain D, Crystal Structure Of Protein L-Isoaspartate
O-Methyltransferase Homologue From Sulfolobus Tokodaii
Length = 231
Score = 35.4 bits (80), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 32/96 (33%), Positives = 43/96 (44%), Gaps = 11/96 (11%)
Query: 133 VKSVRVVEAMREVDKEEFAPMDPLDKG----HYDYPIDLGYGTWMEPPYQHCLVLELLSG 188
+K+ + EA +VD+ F P + D H PI G T + + L
Sbjct: 11 IKTQELAEAFNKVDRSLFLPENLKDYAYAHTHEALPILPGINTTA----LNLGIFXLDEL 66
Query: 189 HLKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIE 224
L G KVLEIGTG GY T L +V KV ++E
Sbjct: 67 DLHKGQKVLEIGTGIGYYTALIAEIV---DKVVSVE 99
>pdb|4DF3|A Chain A, Crystal Structure Of Aeropyrum Pernix Fibrillarin In
Complex With Natively Bound S-adenosyl-l-methionine At
1.7a
pdb|4DF3|B Chain B, Crystal Structure Of Aeropyrum Pernix Fibrillarin In
Complex With Natively Bound S-adenosyl-l-methionine At
1.7a
Length = 233
Score = 34.7 bits (78), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 4/59 (6%)
Query: 177 YQHCLVLELLSGHL----KYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIEHIPELLE 231
Y+ L LL G + K GD++L +G SG + ++G G++Y +E P ++
Sbjct: 58 YRSKLAAALLKGLIELPVKEGDRILYLGIASGTTASHMSDIIGPRGRIYGVEFAPRVMR 116
>pdb|2IPX|A Chain A, Human Fibrillarin
Length = 233
Score = 34.7 bits (78), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 29/60 (48%), Gaps = 6/60 (10%)
Query: 169 YGTWMEPPYQHCLVLELLSG----HLKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIE 224
Y W P++ L +L G H+K G KVL +G SG + +VG G VY +E
Sbjct: 52 YRAWN--PFRSKLAAAILGGVDQIHIKPGAKVLYLGAASGTTVSHVSDIVGPDGLVYAVE 109
>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 = 34.3 bits (77), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 22/36 (61%)
Query: 189 HLKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIE 224
+K G+K+LEIG G G L+ + VG SG V I+
Sbjct: 40 QVKPGEKILEIGCGQGDLSAVLADQVGSSGHVTGID 75
>pdb|1DL5|A Chain A, Protein-L-Isoaspartate O-Methyltransferase
pdb|1DL5|B Chain B, Protein-L-Isoaspartate O-Methyltransferase
Length = 317
Score = 33.9 bits (76), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 35/110 (31%), Positives = 53/110 (48%), Gaps = 9/110 (8%)
Query: 128 IGKGYVKSVRVVEAMREVDKEEFAPMD-PLDKGHYDYPI---DLG--YGTWMEPPYQHCL 181
I K Y S + +A E+ +EEF PL + D + D G Y T +P L
Sbjct: 8 ILKKYGVSDHIAKAFLEIPREEFLTKSYPLSYVYEDIVLVSYDDGEEYSTSSQPSLM-AL 66
Query: 182 VLELLSGHLKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIEHIPELLE 231
+E + L G +VLEIG G+GY + +VG G V ++E+ ++ E
Sbjct: 67 FMEWVG--LDKGMRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICE 114
>pdb|3E9L|A Chain A, Crystal Structure Of Human Prp8, Residues 1755-2016
Length = 257
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 36/68 (52%), Gaps = 6/68 (8%)
Query: 131 GYVKSVRVVEAMREVDKEEFAPMDPLDKGHYDYPIDLGYGTWMEPPYQHCLVLELLSGHL 190
++S+ V E +++ +DPL+ D+P + G+ ++ P+Q CL +E
Sbjct: 88 ALIRSLPVEEQPKQIIVTRKGMLDPLEVHLLDFPNIVIKGSELQLPFQACLKVE------ 141
Query: 191 KYGDKVLE 198
K+GD +L+
Sbjct: 142 KFGDLILK 149
>pdb|3ENB|A Chain A, Crystal Structure Of Prp8 Core Domain Iv
pdb|3ENB|B Chain B, Crystal Structure Of Prp8 Core Domain Iv
Length = 222
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 36/68 (52%), Gaps = 6/68 (8%)
Query: 131 GYVKSVRVVEAMREVDKEEFAPMDPLDKGHYDYPIDLGYGTWMEPPYQHCLVLELLSGHL 190
++S+ V E +++ +DPL+ D+P + G+ ++ P+Q CL +E
Sbjct: 79 ALIRSLPVEEQPKQIIVTRKGMLDPLEVHLLDFPNIVIKGSELQLPFQACLKVE------ 132
Query: 191 KYGDKVLE 198
K+GD +L+
Sbjct: 133 KFGDLILK 140
>pdb|3LRU|A Chain A, Hprp8 Non-Native Subdomain
pdb|3LRU|B Chain B, Hprp8 Non-Native Subdomain
Length = 160
Score = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 39/80 (48%), Gaps = 6/80 (7%)
Query: 131 GYVKSVRVVEAMREVDKEEFAPMDPLDKGHYDYPIDLGYGTWMEPPYQHCLVLELLSGHL 190
++S+ V E +++ +DPL+ D+P + G+ ++ P+Q CL +E
Sbjct: 17 ALIRSLPVEEQPKQIIVTRKGMLDPLEVHLLDFPNIVIKGSELQLPFQACLKVE------ 70
Query: 191 KYGDKVLEIGTGSGYLTTLF 210
K+GD +L+ L L+
Sbjct: 71 KFGDLILKATEPQMVLFNLY 90
>pdb|1YUB|A Chain A, Solution Structure Of An Rrna Methyltransferase (Ermam)
That Confers Macrolide-Lincosamide-Streptogramin
Antibiotic Resistance, Nmr, Minimized Average Structure
Length = 245
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 18/35 (51%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 190 LKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIE 224
LK D V EIGTG G+LTT + IS +V +IE
Sbjct: 27 LKETDTVYEIGTGKGHLTT---KLAKISKQVTSIE 58
>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 = 31.6 bits (70), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 6/66 (9%)
Query: 169 YGTWMEPPYQHCLVLELLSG----HLKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIE 224
Y W P++ L +++G +K G VL +G SG + +VG GK+Y IE
Sbjct: 55 YRIWN--PHRSKLGAAIVNGLKNFPIKPGKSVLYLGIASGTTASHVSDIVGWEGKIYGIE 112
Query: 225 HIPELL 230
P +L
Sbjct: 113 FSPRVL 118
>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 = 31.6 bits (70), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 21/41 (51%)
Query: 190 LKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIEHIPELL 230
L G +VLE GTGSG LT VG G V + E P L
Sbjct: 94 LAPGMRVLEAGTGSGGLTLFLARAVGEKGLVESYEARPHHL 134
>pdb|1PRY|A Chain A, Structure Determination Of Fibrillarin Homologue From
Hyperthermophilic Archaeon Pyrococcus Furiosus
(Pfu-65527)
Length = 227
Score = 31.6 bits (70), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 6/66 (9%)
Query: 169 YGTWMEPPYQHCLVLELLSG----HLKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIE 224
Y W P++ L +++G +K G VL +G SG + +VG GK+Y IE
Sbjct: 48 YRIWN--PHRSKLGAAIVNGLKNFPIKPGKSVLYLGIASGTTASHVSDIVGWEGKIYGIE 105
Query: 225 HIPELL 230
P +L
Sbjct: 106 FSPRVL 111
>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 = 31.2 bits (69), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 5/85 (5%)
Query: 140 EAMREVDKEEFAPMDPLDKGHYDYPIDLGYGTWMEPPYQHCLVLELLSGHLKYGDKVLEI 199
EA++ EF + P DY + G + P L++ + GD ++E
Sbjct: 46 EAIKSHKGHEFKILRPRI---VDYLDKMKRGPQIVHPKDAALIVAYAG--ISPGDFIVEA 100
Query: 200 GTGSGYLTTLFGAMVGISGKVYTIE 224
G GSG LT +VG G+V + E
Sbjct: 101 GVGSGALTLFLANIVGPEGRVVSYE 125
>pdb|3MB5|A Chain A, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Methionine
Length = 255
Score = 31.2 bits (69), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 5/85 (5%)
Query: 140 EAMREVDKEEFAPMDPLDKGHYDYPIDLGYGTWMEPPYQHCLVLELLSGHLKYGDKVLEI 199
EA++ EF + P DY + G + P L++ + GD ++E
Sbjct: 46 EAIKSHKGHEFKILRPRI---VDYLDKMKRGPQIVHPKDAALIVAYAG--ISPGDFIVEA 100
Query: 200 GTGSGYLTTLFGAMVGISGKVYTIE 224
G GSG LT +VG G+V + E
Sbjct: 101 GVGSGALTLFLANIVGPEGRVVSYE 125
>pdb|3KRB|A Chain A, Structure Of Aldose Reductase From Giardia Lamblia At
1.75a Resolution
pdb|3KRB|B Chain B, Structure Of Aldose Reductase From Giardia Lamblia At
1.75a Resolution
Length = 334
Score = 30.4 bits (67), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 34/85 (40%), Gaps = 12/85 (14%)
Query: 159 GHYDYPIDLGYGTWMEPP--YQHCLVLELLSGHLKYGDKVL---EIGTGSGYLTTLFGAM 213
G YP LG+GTW PP Q + L++G+ + E G + A
Sbjct: 20 GSMQYPPRLGFGTWQAPPEAVQTAVETALMTGYRHIDCAYVYQNEEAIGRAFGKIFKDAS 79
Query: 214 VG-------ISGKVYTIEHIPELLE 231
G I+ K++ H PEL+
Sbjct: 80 SGIKREDVWITSKLWNYNHRPELVR 104
>pdb|1G8A|A Chain A, Pyrococcus Horikoshii Fibrillarin Pre-Rrna Processing
Protein
Length = 227
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 22/41 (53%)
Query: 190 LKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIEHIPELL 230
+K G VL +G SG + +VG GK++ IE P +L
Sbjct: 71 IKPGKSVLYLGIASGTTASHVSDIVGWEGKIFGIEFSPRVL 111
>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 = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 3/44 (6%)
Query: 186 LSGHLKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIEHIPEL 229
L +L +VLE GTGSG L + ++G+V+T E + E
Sbjct: 85 LKLNLNKEKRVLEFGTGSG---ALLAVLSEVAGEVWTFEAVEEF 125
>pdb|1I9G|A Chain A, Crystal Structure Of An Adomet Dependent Methyltransferase
Length = 280
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 19/33 (57%)
Query: 193 GDKVLEIGTGSGYLTTLFGAMVGISGKVYTIEH 225
G +VLE G GSG LT VG +G+V + E
Sbjct: 100 GARVLEAGAGSGALTLSLLRAVGPAGQVISYEQ 132
>pdb|3ID5|B Chain B, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3ID5|F Chain F, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3ID6|C Chain C, Crystal Structure Of Sulfolobus Solfataricus Nop5 (1-262)
And Fibrillarin Complex
pdb|3PLA|E Chain E, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|F Chain F, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|M Chain M, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
Length = 232
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 25/47 (53%)
Query: 185 LLSGHLKYGDKVLEIGTGSGYLTTLFGAMVGISGKVYTIEHIPELLE 231
L + ++ G KVL +G SG + ++ ++GK Y +E P ++
Sbjct: 69 LKTNPIRKGTKVLYLGAASGTTISHVSDIIELNGKAYGVEFSPRVVR 115
>pdb|2YWE|A Chain A, Crystal Structure Of Lepa From Aquifex Aeolicus
pdb|2YWF|A Chain A, Crystal Structure Of Gmppnp-Bound Lepa From Aquifex
Aeolicus
pdb|2YWH|A Chain A, Crystal Structure Of Gdp-Bound Lepa From Aquifex Aeolicus
Length = 600
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 155 PLDKGHYDYPID-LGYGTWMEPPYQHCLVLELLSGHLKYGDKVLEIGTGSGYLTTLFGA 212
P KG P+ L + ++ +P + + G +K GDK++ + TG Y T GA
Sbjct: 183 PPPKGDPQKPLKALIFDSYYDPYRGAVAFVRIFDGEVKPGDKIMLMSTGKEYEVTEVGA 241
>pdb|3RLH|A Chain A, Crystal Structure Of A Class Ii Phospholipase D From
Loxosceles Intermedia Venom
Length = 329
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%)
Query: 83 TVDRYNTPTYSINLATDKILQEKYMAITDYVEPAAYKTHFMV 124
TVD+ +T +++ D I+ ITD + AAYK F V
Sbjct: 275 TVDKRSTTRDALDAGVDGIMTNYPDVITDVLNEAAYKKKFRV 316
>pdb|3RLG|A Chain A, Crystal Structure Of Loxosceles Intermedia Phospholipase D
Isoform 1 H12a Mutant
Length = 302
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%)
Query: 83 TVDRYNTPTYSINLATDKILQEKYMAITDYVEPAAYKTHFMV 124
TVD+ +T +++ D I+ ITD + AAYK F V
Sbjct: 248 TVDKRSTTRDALDAGVDGIMTNYPDVITDVLNEAAYKKKFRV 289
>pdb|2NVV|A Chain A, Crystal Structure Of The Putative Acetyl-Coa
HydrolaseTRANSFERASE Pg1013 From Porphyromonas
Gingivalis, Northeast Structural Genomics Target Pgr16.
pdb|2NVV|B Chain B, Crystal Structure Of The Putative Acetyl-Coa
HydrolaseTRANSFERASE Pg1013 From Porphyromonas
Gingivalis, Northeast Structural Genomics Target Pgr16.
pdb|2NVV|C Chain C, Crystal Structure Of The Putative Acetyl-Coa
HydrolaseTRANSFERASE Pg1013 From Porphyromonas
Gingivalis, Northeast Structural Genomics Target Pgr16.
pdb|2NVV|D Chain D, Crystal Structure Of The Putative Acetyl-Coa
HydrolaseTRANSFERASE Pg1013 From Porphyromonas
Gingivalis, Northeast Structural Genomics Target Pgr16.
pdb|2NVV|E Chain E, Crystal Structure Of The Putative Acetyl-Coa
HydrolaseTRANSFERASE Pg1013 From Porphyromonas
Gingivalis, Northeast Structural Genomics Target Pgr16.
pdb|2NVV|F Chain F, Crystal Structure Of The Putative Acetyl-Coa
HydrolaseTRANSFERASE Pg1013 From Porphyromonas
Gingivalis, Northeast Structural Genomics Target Pgr16
Length = 506
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 5/40 (12%)
Query: 125 NDLIGKGYV-----KSVRVVEAMREVDKEEFAPMDPLDKG 159
+D IGK YV K V VV D+ +FAP+DP+ +
Sbjct: 191 SDRIGKPYVQVDPAKIVGVVRTSEPNDESDFAPLDPVTQA 230
>pdb|3R0Q|C Chain C, A Uniquely Open Conformation Revealed In The Crystal
Structure Of Arabidopsis Thaliana Protein Arginine
Methyltransferase 10
pdb|3R0Q|G Chain G, A Uniquely Open Conformation Revealed In The Crystal
Structure Of Arabidopsis Thaliana Protein Arginine
Methyltransferase 10
pdb|3R0Q|A Chain A, A Uniquely Open Conformation Revealed In The Crystal
Structure Of Arabidopsis Thaliana Protein Arginine
Methyltransferase 10
pdb|3R0Q|E Chain E, A Uniquely Open Conformation Revealed In The Crystal
Structure Of Arabidopsis Thaliana Protein Arginine
Methyltransferase 10
Length = 376
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 21/32 (65%), Gaps = 2/32 (6%)
Query: 193 GDKVLEIGTGSGYLTTLFGAMVGISGKVYTIE 224
G VL++GTGSG L ++ A G + KVY +E
Sbjct: 64 GKTVLDVGTGSGIL-AIWSAQAG-ARKVYAVE 93
>pdb|1WMR|A Chain A, Crystal Structure Of Isopullulanase From Aspergillus Niger
Atcc 9642
pdb|1WMR|B Chain B, Crystal Structure Of Isopullulanase From Aspergillus Niger
Atcc 9642
pdb|1X0C|A Chain A, Improved Crystal Structure Of Isopullulanase From
Aspergillus Niger Atcc 9642
pdb|1X0C|B Chain B, Improved Crystal Structure Of Isopullulanase From
Aspergillus Niger Atcc 9642
pdb|2Z8G|A Chain A, Aspergillus Niger Atcc9642 Isopullulanase Complexed With
Isopanose
pdb|2Z8G|B Chain B, Aspergillus Niger Atcc9642 Isopullulanase Complexed With
Isopanose
Length = 549
Score = 27.7 bits (60), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 36/77 (46%), Gaps = 1/77 (1%)
Query: 48 ITDENVTIPGFDPMMMNKFRGFMGQVQTLNDDNDATVDRYNTPTYSINLATDKILQEKYM 107
I+ +NV+I F+P+ +N +M LN+ TV ++ +++ T +
Sbjct: 472 ISIKNVSIESFEPLSINTTESWMPVWYDLNNGKQITVTDFSIEGFTVGNTTITASNAASV 531
Query: 108 AITDYVEPA-AYKTHFM 123
D V+PA A H++
Sbjct: 532 GRIDGVDPAYAGSVHYI 548
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
0.320 0.139 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,250,043
Number of Sequences: 62578
Number of extensions: 362379
Number of successful extensions: 835
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 32
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 796
Number of HSP's gapped (non-prelim): 41
length of query: 255
length of database: 14,973,337
effective HSP length: 97
effective length of query: 158
effective length of database: 8,903,271
effective search space: 1406716818
effective search space used: 1406716818
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)