BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Query= gi|15644991|ref|NP_207161.1| L-isoaspartyl-protein
carboxyl methyltransferase (pcm) [Helicobacter pylori 26695]
(209 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1JG2|A Chain A, Crystal Structure Of L-Isoaspartyl (D-A... 99 4e-22
pdb|1DL5|B Chain B, Protein-L-Isoaspartate O-Methyltransfer... 71 1e-13
pdb|1I1N|A Chain A, Human Protein L-Isoaspartate O-Methyltr... 65 7e-12
pdb|1YUB| Solution Structure Of An Rrna Methyltransferase... 36 0.004
pdb|1J5X|A Chain A, Crystal Structure Of Conserved Hypothet... 29 0.45
pdb|1QAN|A Chain A, The Structure Of The Rrna Methyltransfe... 28 0.59
pdb|1EUD|A Chain A, Crystal Structure Of Phosphorylated Pig... 25 6.6
pdb|1EUC|A Chain A, Crystal Structure Of Dephosphorylated P... 25 6.6
pdb|2POR| Porin (Crystal Form B) >gi|443479|pdb|3POR| Po... 25 8.6
pdb|1FIQ|C Chain C, Crystal Structure Of Xanthine Oxidase F... 25 8.6
pdb|1FO4|A Chain A, Crystal Structure Of Xanthine Dehydroge... 25 8.6
>pdb|1JG2|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
Methyltransferase With Adenosine
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|1JG1|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
Methyltransferase With S-Adenosyl-L-Homocysteine
Length = 235
Score = 99.0 bits (245), Expect = 4e-22
Identities = 58/152 (38%), Positives = 90/152 (59%), Gaps = 1/152 (0%)
Query: 22 KVREAMESIEREVFVPAPFKHFAYTLNALSMQAQQYISSPLTVAKMTQYLEIDHVDSVLE 81
+V A R + V +K +A+ L + A Q +S+P VA M + + ++LE
Sbjct: 38 EVERAFLKYPRYLSVEDKYKKYAHIDEPLPIPAGQTVSAPHMVAIMLEIANLKPGMNILE 97
Query: 82 IGCGSGYQAAVLSQIFRR-VFSIERIESLYIEARLRLKTLGLDNVHVKFADGNKGWEQYA 140
+G GSG+ AA++S+I + V++IERI L A+ L+ G+ NVHV DG+KG+ A
Sbjct: 98 VGTGSGWNAALISEIVKTDVYTIERIPELVEFAKRNLERAGVKNVHVILGDGSKGFPPKA 157
Query: 141 PYDRILFSACAKNIPQALIDQLEEGGILVAPI 172
PYD I+ +A A IP+ LI+QL+ GG L+ P+
Sbjct: 158 PYDVIIVTAGAPKIPEPLIEQLKIGGKLIIPV 189
>pdb|1DL5|B Chain B, Protein-L-Isoaspartate O-Methyltransferase
pdb|1DL5|A Chain A, Protein-L-Isoaspartate O-Methyltransferase
Length = 317
Score = 70.9 bits (172), Expect = 1e-13
Identities = 48/169 (28%), Positives = 86/169 (50%), Gaps = 10/169 (5%)
Query: 13 INKRFNLHPKVREAMESIEREVFVPAPFKHFAYTLNALSM----QAQQYISS--PLTVAK 66
I K++ + + +A I RE F+ + +Y + + ++Y +S P +A
Sbjct: 8 ILKKYGVSDHIAKAFLEIPREEFLTKSYP-LSYVYEDIVLVSYDDGEEYSTSSQPSLMAL 66
Query: 67 MTQYLEIDHVDSVLEIGCGSGYQAAVLSQIFRR---VFSIERIESLYIEARLRLKTLGLD 123
+++ +D VLEIG G+GY AAV+S++ V S+E + A+ ++ LG++
Sbjct: 67 FMEWVGLDKGMRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVERLGIE 126
Query: 124 NVHVKFADGNKGWEQYAPYDRILFSACAKNIPQALIDQLEEGGILVAPI 172
NV DG G +++PYD I + +P+ QL+EGG ++ PI
Sbjct: 127 NVIFVCGDGYYGVPEFSPYDVIFVTVGVDEVPETWFTQLKEGGRVIVPI 175
>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 = 64.7 bits (156), Expect = 7e-12
Identities = 53/189 (28%), Positives = 89/189 (47%), Gaps = 15/189 (7%)
Query: 33 EVFVPAPFKHFA----YTLNALSMQAQQYISSPLTVAKMTQYL--EIDHVDSVLEIGCGS 86
EV + H+A Y + S+ Q IS+P A + L ++ L++G GS
Sbjct: 29 EVMLATDRSHYAKCNPYMDSPQSIGFQATISAPHMHAYALELLFDQLHEGAKALDVGSGS 88
Query: 87 GYQAAVLSQIFR---RVFSIERIESLYIEARLRLKT-----LGLDNVHVKFADGNKGWEQ 138
G A +++ +V I+ I+ L ++ ++ L V + DG G+ +
Sbjct: 89 GILTACFARMVGCTGKVIGIDHIKELVDDSVNNVRKDDPTLLSSGRVQLVVGDGRMGYAE 148
Query: 139 YAPYDRILFSACAKNIPQALIDQLEEGGILVAPI-QENNEQVIKRFVKQNNALRVQKVLE 197
APYD I A A +PQALIDQL+ GG L+ P+ Q+++++ K + K L
Sbjct: 149 EAPYDAIHVGAAAPVVPQALIDQLKPGGRLILPVGPAGGNQMLEQYDKLQDGSIKMKPLM 208
Query: 198 KCLFVPVVD 206
++VP+ D
Sbjct: 209 GVIYVPLTD 217
>pdb|1YUB| Solution Structure Of An Rrna Methyltransferase (Ermam) That
Confers Macrolide-Lincosamide-Streptogramin Antibiotic
Resistance, Nmr, Minimized Average Structure
Length = 245
Score = 35.8 bits (81), Expect = 0.004
Identities = 19/65 (29%), Positives = 37/65 (56%)
Query: 54 AQQYISSPLTVAKMTQYLEIDHVDSVLEIGCGSGYQAAVLSQIFRRVFSIERIESLYIEA 113
+Q +++S + ++ + L + D+V EIG G G+ L++I ++V SIE L+ +
Sbjct: 8 SQNFLTSEKVLNQIIKQLNLKETDTVYEIGTGKGHLTTKLAKISKQVTSIELDSHLFNLS 67
Query: 114 RLRLK 118
+LK
Sbjct: 68 SEKLK 72
>pdb|1J5X|A Chain A, Crystal Structure Of Conserved Hypothetical Protein
(Tm0813) From Thermotoga Maritima At 1.8 A Resolution
Length = 342
Score = 28.9 bits (63), Expect = 0.45
Identities = 22/69 (31%), Positives = 33/69 (46%), Gaps = 7/69 (10%)
Query: 42 HFAYTLNALSMQAQQ----YISSPLTVAKMTQYLEIDH--VDSVLEIGCGSGYQAAV-LS 94
H + TL ++ Q + + + L + K + EI D VL +GCGS Y A+ +S
Sbjct: 12 HXSKTLKEITDQKNELKKFFENFVLNLEKTEIFSEIQKNLTDEVLFVGCGSSYNLALTIS 71
Query: 95 QIFRRVFSI 103
F RV I
Sbjct: 72 YYFERVLKI 80
>pdb|1QAN|A Chain A, The Structure Of The Rrna Methyltransferase Ermc':
Implications For The Reaction Mechanism
pdb|1QAO|A Chain A, The Structure Of The Rrna Methyltransferase Ermc':
Implications For The Reaction Mechanism
pdb|1QAQ|A Chain A, The Structure Of The Rrna Methyltransferase Ermc':
Implications For The Reaction Mechanism
pdb|1QAM|A Chain A, The Structure Of The Rrna Methyltransferase Ermc':
Implications For The Reaction Mechanism
pdb|2ERC|A Chain A, Crystal Structure Of Ermc' A Rrna-Methyl Transferase
pdb|2ERC|B Chain B, Crystal Structure Of Ermc' A Rrna-Methyl Transferase
Length = 244
Score = 28.5 bits (62), Expect = 0.59
Identities = 15/51 (29%), Positives = 27/51 (52%)
Query: 54 AQQYISSPLTVAKMTQYLEIDHVDSVLEIGCGSGYQAAVLSQIFRRVFSIE 104
+Q +I+S + K+ + ++ D++ EIG G G+ L Q V +IE
Sbjct: 9 SQNFITSKHNIDKIMTNIRLNEHDNIFEIGSGKGHFTLELVQRCNFVTAIE 59
>pdb|1EUD|A Chain A, Crystal Structure Of Phosphorylated Pig Heart,
Gtp-Specific Succinyl-Coa Synthetase
Length = 311
Score = 25.0 bits (53), Expect = 6.6
Identities = 16/49 (32%), Positives = 25/49 (50%), Gaps = 3/49 (6%)
Query: 141 PYDRILFSACAKNIPQALIDQLEEGGILVAPIQENNEQVIKRFVKQNNA 189
P++ F+ C + L D EG IL+ I N E+ F+KQ+N+
Sbjct: 195 PFNGTDFTDCLEIF---LNDPATEGIILIGEIGGNAEENAAEFLKQHNS 240
>pdb|1EUC|A Chain A, Crystal Structure Of Dephosphorylated Pig Heart, Gtp-
Specific Succinyl-Coa Synthetase
Length = 311
Score = 25.0 bits (53), Expect = 6.6
Identities = 16/49 (32%), Positives = 25/49 (50%), Gaps = 3/49 (6%)
Query: 141 PYDRILFSACAKNIPQALIDQLEEGGILVAPIQENNEQVIKRFVKQNNA 189
P++ F+ C + L D EG IL+ I N E+ F+KQ+N+
Sbjct: 195 PFNGTDFTDCLEIF---LNDPATEGIILIGEIGGNAEENAAEFLKQHNS 240
>pdb|2POR| Porin (Crystal Form B)
pdb|3POR| Porin (Crystal Form A')
Length = 301
Score = 24.6 bits (52), Expect = 8.6
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 63 TVAKMTQYLEIDHVDSVLEIGCGSGY 88
TV Q L+ID +D V G G+ Y
Sbjct: 244 TVGGYVQVLDIDTIDDVTYYGLGASY 269
>pdb|1FIQ|C Chain C, Crystal Structure Of Xanthine Oxidase From Bovine Milk
Length = 763
Score = 24.6 bits (52), Expect = 8.6
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 172 IQENNEQVIKRFVKQNNALRVQKVLEKCLFVPV 204
I + E ++ FV NA++ Q + K L VPV
Sbjct: 183 IPKGEEGEMELFVSTQNAMKTQSFVAKMLGVPV 215
>pdb|1FO4|A Chain A, Crystal Structure Of Xanthine Dehydrogenase Isolated From
Bovine Milk
pdb|1FO4|B Chain B, Crystal Structure Of Xanthine Dehydrogenase Isolated From
Bovine Milk
Length = 1332
Score = 24.6 bits (52), Expect = 8.6
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 172 IQENNEQVIKRFVKQNNALRVQKVLEKCLFVPV 204
I + E ++ FV NA++ Q + K L VPV
Sbjct: 752 IPKGEEGEMELFVSTQNAMKTQSFVAKMLGVPV 784
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.322 0.137 0.392
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,130,804
Number of Sequences: 13198
Number of extensions: 42687
Number of successful extensions: 130
Number of sequences better than 10.0: 11
Number of HSP's better than 10.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 118
Number of HSP's gapped (non-prelim): 11
length of query: 209
length of database: 2,899,336
effective HSP length: 84
effective length of query: 125
effective length of database: 1,790,704
effective search space: 223838000
effective search space used: 223838000
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: 52 (24.6 bits)