RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12847
(188 letters)
>gnl|CDD|223427 COG0350, Ada, Methylated DNA-protein cysteine methyltransferase
[DNA replication, recombination, and repair].
Length = 168
Score = 135 bits (341), Expect = 1e-40
Identities = 45/113 (39%), Positives = 68/113 (60%), Gaps = 1/113 (0%)
Query: 63 ESKQSRDIIDRLEAYIVNPKQNCLD-IKFKIEGTDFQKLVWSELCKIPFGSLCSYADVAR 121
++ ++ LEAY + + + + GT FQ VW L +IP+G +Y ++AR
Sbjct: 54 AARALGGLLRELEAYFNGKEPDFDPPLPLVLHGTGFQGRVWQALREIPYGETVTYGEIAR 113
Query: 122 NIGRPKSARAVANACGQNNIPILIPCHRVIRSDGSYGGYSSGKYIKETLIKIE 174
+GRP + RAV NA G N +PI+IPCHRVI +DG GGY+ G K+ L+++E
Sbjct: 114 RLGRPTAVRAVGNANGANPLPIIIPCHRVIGADGDLGGYAGGLERKKWLLELE 166
>gnl|CDD|119438 cd06445, ATase, The DNA repair protein O6-alkylguanine-DNA
alkyltransferase (ATase; also known as AGT, AGAT and
MGMT) reverses O6-alkylation DNA damage by transferring
O6-alkyl adducts to an active site cysteine
irreversibly, without inducing DNA strand breaks. ATases
are specific for repair of guanines with O6-alkyl
adducts, however human ATase is not limited to
O6-methylguanine, repairing many other adducts at the
O6-position of guanine as well. ATase is widely
distributed among species. Most ATases have N- and
C-terminal domains. The C-terminal domain contains the
conserved active-site cysteine motif (PCHR), the
O6-alkylguanine binding channel, and the
helix-turn-helix (HTH) DNA-binding motif. The active
site is located near the recognition helix of the HTH
motif. While the C-terminal domain of ATase contains
residues that are necessary for DNA binding and alkyl
transfer, the function of the N-terminal domain is still
unknown. Removal of the N-terminal domain abolishes the
activity of the C-terminal domain, suggesting an
important structural role for the N-terminal domain in
orienting the C-terminal domain for proper catalysis.
Some ATase C-terminal domain homologs are either
single-domain proteins that lack an N-terminal domain,
or have a tryptophan substituted in place of the
acceptor cysteine (i.e. the motif PCHR is replaced by
PWHR). ATase null mutant mice are viable, fertile, and
have a normal lifespan.
Length = 79
Score = 126 bits (319), Expect = 2e-38
Identities = 40/79 (50%), Positives = 54/79 (68%)
Query: 97 FQKLVWSELCKIPFGSLCSYADVARNIGRPKSARAVANACGQNNIPILIPCHRVIRSDGS 156
FQ+ VW L +IP+G + +Y +A+ G PK+ARAV +A +N IPILIPCHRV+RSDG
Sbjct: 1 FQRRVWEALRQIPYGEVTTYGQIAKLAGTPKAARAVGSALARNPIPILIPCHRVVRSDGG 60
Query: 157 YGGYSSGKYIKETLIKIEQ 175
GGY G K L+++E
Sbjct: 61 LGGYRGGLERKRELLELEG 79
>gnl|CDD|213542 TIGR00589, ogt, O-6-methylguanine DNA methyltransferase. All
proteins in this family for which functions are known
are involved alkyl-DNA transferases which remove alkyl
groups from DNA as part of alkylation DNA repair. Some
of the proteins in this family are also transcription
regulators and have a distinct transcription regulatory
domain. This family is based on the phylogenomic
analysis of JA Eisen (1999, Ph.D. Thesis, Stanford
University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 80
Score = 126 bits (318), Expect = 3e-38
Identities = 40/80 (50%), Positives = 54/80 (67%)
Query: 95 TDFQKLVWSELCKIPFGSLCSYADVARNIGRPKSARAVANACGQNNIPILIPCHRVIRSD 154
T FQ+ VW L IP+G SY +A IG PK+ARAV A G+N +PIL+PCHRV+ +
Sbjct: 1 TPFQQKVWQALRTIPYGETISYGQLAARIGNPKAARAVGGANGRNPLPILVPCHRVVGKN 60
Query: 155 GSYGGYSSGKYIKETLIKIE 174
G+ GGYS G +K+ L++ E
Sbjct: 61 GTLGGYSGGLELKKFLLEHE 80
>gnl|CDD|201565 pfam01035, DNA_binding_1, 6-O-methylguanine DNA methyltransferase,
DNA binding domain. This domain is a 3 helical bundle.
Length = 84
Score = 123 bits (311), Expect = 3e-37
Identities = 38/84 (45%), Positives = 54/84 (64%)
Query: 95 TDFQKLVWSELCKIPFGSLCSYADVARNIGRPKSARAVANACGQNNIPILIPCHRVIRSD 154
T FQ+ V L +IP+G + +Y D+A+ GRP +ARAV A +N IP+++PCHRV+RSD
Sbjct: 1 TPFQRRVLEALRQIPYGEVTTYGDIAKAAGRPTAARAVGRALAKNPIPLIVPCHRVVRSD 60
Query: 155 GSYGGYSSGKYIKETLIKIEQKIV 178
G GGY G K L+++E
Sbjct: 61 GKLGGYRGGLERKRALLELEGIEF 84
>gnl|CDD|234860 PRK00901, PRK00901, methylated-DNA--protein-cysteine
methyltransferase; Provisional.
Length = 155
Score = 125 bits (316), Expect = 5e-37
Identities = 52/130 (40%), Positives = 75/130 (57%), Gaps = 5/130 (3%)
Query: 49 LTKLY----SHIEYIKMFESKQSRDIIDRLEAYIVNPKQNCLDIKFKIEGTDFQKLVWSE 104
+T L + + + E+ ++ +LE Y K+ D+ +GT+FQK VW
Sbjct: 23 ITHLCFGEDKIPKDVTILETDLLKEANKQLEEYFEG-KRKKFDLPLAPQGTEFQKKVWKA 81
Query: 105 LCKIPFGSLCSYADVARNIGRPKSARAVANACGQNNIPILIPCHRVIRSDGSYGGYSSGK 164
L +IP+G SY ++A NIG PK+ RAV A +N IPI IPCHRVI ++G GY+ G
Sbjct: 82 LQEIPYGETRSYKEIAVNIGNPKACRAVGLANNKNPIPIFIPCHRVIGANGKLVGYAGGL 141
Query: 165 YIKETLIKIE 174
IKE L+K+E
Sbjct: 142 DIKEKLLKLE 151
>gnl|CDD|185333 PRK15435, PRK15435, bifunctional DNA-binding transcriptional dual
regulator/O6-methylguanine-DNA methyltransferase;
Provisional.
Length = 353
Score = 109 bits (274), Expect = 5e-29
Identities = 56/167 (33%), Positives = 81/167 (48%), Gaps = 19/167 (11%)
Query: 8 CLVALNESSCIGTKMLIAYYDKSCIIQAIMFGANPEYLYVDLTKLYSHIEYIKMFESKQS 67
CLVA +E I AI+ G + L +L +++ + + Q
Sbjct: 201 CLVAESERG----------------ICAILLGDDDAALISELQQMFPAADNAPADLTFQQ 244
Query: 68 RDIIDRLEAYIVNPKQNCLDIKFKIEGTDFQKLVWSELCKIPFGSLCSYADVARNIGRPK 127
+ + A + N + L + I GT FQ+ VW L IP G SY +A IG+PK
Sbjct: 245 H--VREVIASL-NQRDTPLTLPLDIRGTAFQQQVWQALRTIPCGETVSYQQLANAIGKPK 301
Query: 128 SARAVANACGQNNIPILIPCHRVIRSDGSYGGYSSGKYIKETLIKIE 174
+ RAVA+AC N + I+IPCHRV+R DG+ GY G K L++ E
Sbjct: 302 AVRAVASACAANKLAIVIPCHRVVRGDGALSGYRWGVSRKAQLLRRE 348
>gnl|CDD|182355 PRK10286, PRK10286, O-6-alkylguanine-DNA:cysteine-protein
methyltransferase; Provisional.
Length = 171
Score = 84.5 bits (209), Expect = 6e-21
Identities = 38/81 (46%), Positives = 50/81 (61%)
Query: 94 GTDFQKLVWSELCKIPFGSLCSYADVARNIGRPKSARAVANACGQNNIPILIPCHRVIRS 153
GT FQ+ VW L IP G + Y +A +GRP +ARAV A G N I I++PCHRVI
Sbjct: 86 GTPFQREVWQTLRTIPCGQVMHYGQLAEQLGRPGAARAVGAANGSNPISIVVPCHRVIGR 145
Query: 154 DGSYGGYSSGKYIKETLIKIE 174
+G+ GY+ G KE L++ E
Sbjct: 146 NGTMTGYAGGVQRKEWLLRHE 166
>gnl|CDD|226219 COG3695, COG3695, Predicted methylated DNA-protein cysteine
methyltransferase [DNA replication, recombination, and
repair].
Length = 103
Score = 57.8 bits (140), Expect = 2e-11
Identities = 23/82 (28%), Positives = 36/82 (43%)
Query: 93 EGTDFQKLVWSELCKIPFGSLCSYADVARNIGRPKSARAVANACGQNNIPILIPCHRVIR 152
+F + V + IP G + +Y D+A+ G P++AR V +P HRV+
Sbjct: 3 VADEFTQRVLDVVAAIPEGKVSTYGDIAKLAGLPRAARQVGRILKHLPEGSDLPWHRVVN 62
Query: 153 SDGSYGGYSSGKYIKETLIKIE 174
SDG K + L+ E
Sbjct: 63 SDGRISLPGPDKQRQRELLLAE 84
>gnl|CDD|167628 PRK03887, PRK03887, methylated-DNA--protein-cysteine
methyltransferase; Provisional.
Length = 175
Score = 56.7 bits (137), Expect = 2e-10
Identities = 40/151 (26%), Positives = 69/151 (45%), Gaps = 15/151 (9%)
Query: 33 IQAIMFGAN-PEYLYVDLTKLYSHIE------YIKMFESKQSRDIIDRLEAYIVNPKQNC 85
IQ I F + E+L ++ L ++ +K S + L I N +
Sbjct: 24 IQGITFSFDGEEFLRERISNLAEFLKKRGVKVSLKERPSDYPELVFKVLIGKISNEE--- 80
Query: 86 LDIKFKIEG-TDFQKLVWSELCK-IPFGSLCSYADVARNIGRPKSARAVANACGQNNIPI 143
+ EG T F++ V+ L K + G + +Y ++A+ + S RAV A +N PI
Sbjct: 81 GLEELSFEGLTPFERKVYEWLTKNVKRGEVITYGELAKALN--TSPRAVGGAMKRNPYPI 138
Query: 144 LIPCHRVIRSDGSYGGYSSGKYIKETLIKIE 174
++PCHRV+ G Y+ K+ L+++E
Sbjct: 139 IVPCHRVVGRKNP-GLYTPKPEYKKFLLEVE 168
>gnl|CDD|237339 PRK13299, PRK13299, tRNA CCA-pyrophosphorylase; Provisional.
Length = 394
Score = 29.0 bits (66), Expect = 1.3
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 159 GYSSGKYIKETLIKIEQKIVSEKI 182
G G ++ ETL KIE+ IV+ ++
Sbjct: 356 GKKPGPWLGETLRKIEEAIVTGEL 379
>gnl|CDD|182620 PRK10653, PRK10653, D-ribose transporter subunit RbsB; Provisional.
Length = 295
Score = 28.5 bits (64), Expect = 1.9
Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 15/58 (25%)
Query: 126 PKSARAVANA---CGQNNIPIL----------IPCHRVIRSDGSYGGYSSGKYIKETL 170
P + AV NA Q NIP++ + H I SD GG +G +I + L
Sbjct: 90 PTDSDAVGNAVKMANQANIPVITLDRGATKGEVVSH--IASDNVAGGKMAGDFIAKKL 145
>gnl|CDD|218143 pfam04551, GcpE, GcpE protein. In a variety of organisms,
including plants and several eubacteria, isoprenoids are
synthesised by the mevalonate-independent
2-C-methyl-D-erythritol 4-phosphate (MEP) pathway.
Although different enzymes of this pathway have been
described, the terminal biosynthetic steps of the MEP
pathway have not been fully elucidated. GcpE gene of
Escherichia coli is involved in this pathway.
Length = 345
Score = 27.5 bits (62), Expect = 4.3
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 122 NIGRPKSARAVANACGQNNIPILI 145
NIGR + + V A + IPI I
Sbjct: 100 NIGRREKVKEVVEAAKERGIPIRI 123
>gnl|CDD|215867 pfam00342, PGI, Phosphoglucose isomerase. Phosphoglucose isomerase
catalyzes the interconversion of glucose-6-phosphate and
fructose-6-phosphate.
Length = 483
Score = 27.4 bits (61), Expect = 5.5
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 23 LIAYYDKSCIIQAIMFGANP 42
LIA+Y+ C +Q ++G N
Sbjct: 427 LIAFYEHKCFVQGALWGINS 446
>gnl|CDD|223891 COG0821, gcpE, 1-hydroxy-2-methyl-2-(e)-butenyl 4-diphosphate
synthase [Lipid metabolism].
Length = 361
Score = 26.8 bits (60), Expect = 7.1
Identities = 10/24 (41%), Positives = 10/24 (41%)
Query: 122 NIGRPKSARAVANACGQNNIPILI 145
NIG R V A IPI I
Sbjct: 105 NIGFKDRVREVVEAAKDKGIPIRI 128
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.322 0.137 0.408
Gapped
Lambda K H
0.267 0.0709 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,300,301
Number of extensions: 840381
Number of successful extensions: 739
Number of sequences better than 10.0: 1
Number of HSP's gapped: 738
Number of HSP's successfully gapped: 22
Length of query: 188
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 97
Effective length of database: 6,901,388
Effective search space: 669434636
Effective search space used: 669434636
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (25.4 bits)