RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8667
(163 letters)
>gnl|CDD|238083 cd00143, PP2Cc, Serine/threonine phosphatases, family 2C, catalytic
domain; The protein architecture and deduced catalytic
mechanism of PP2C phosphatases are similar to the PP1,
PP2A, PP2B family of protein Ser/Thr phosphatases, with
which PP2C shares no sequence similarity.
Length = 254
Score = 131 bits (332), Expect = 1e-38
Identities = 46/124 (37%), Positives = 69/124 (55%), Gaps = 16/124 (12%)
Query: 2 KRIVAAGGWVEFDRVNGNLALSRALGDFTFKRNTRVSATEQIIISMPDVVVEKVTPEWEF 61
+RI AGG V RV G LA++RALGDF K + + PDV V K+T + +F
Sbjct: 147 ERIEKAGGRVSNGRVPGVLAVTRALGDFDLK---------PGVSAEPDVTVVKLTEDDDF 197
Query: 62 VIIACDGIWDVMSNEDVVAFVRLKIGEAMEPEKICEELMTRCLAPDRELCGLGCDNMTVV 121
+I+A DG+WDV+SN++ V VR ++ + ++ +EL+ L DN+TVV
Sbjct: 198 LILASDGLWDVLSNQEAVDIVRSELAKED-LQEAAQELVDLALRRG------SHDNITVV 250
Query: 122 LVCF 125
+V
Sbjct: 251 VVRL 254
>gnl|CDD|214625 smart00332, PP2Cc, Serine/threonine phosphatases, family 2C,
catalytic domain. The protein architecture and deduced
catalytic mechanism of PP2C phosphatases are similar to
the PP1, PP2A, PP2B family of protein Ser/Thr
phosphatases, with which PP2C shares no sequence
similarity.
Length = 252
Score = 125 bits (315), Expect = 3e-36
Identities = 50/123 (40%), Positives = 73/123 (59%), Gaps = 17/123 (13%)
Query: 1 MKRIVAAGGWVEFDRVNGNLALSRALGDFTFKRNTRVSATEQIIISMPDVVVEKVTPEWE 60
RI AAGG+V RVNG LALSRA+GDF K + + PDV V ++T + +
Sbjct: 147 RARIEAAGGFVINGRVNGVLALSRAIGDFFLK---------PYVSAEPDVTVVELTEKDD 197
Query: 61 FVIIACDGIWDVMSNEDVVAFVRLKIGEAMEPEKICEELMTRCLAPDRELCGLGCDNMTV 120
F+I+A DG+WDV+SN++VV VR + + +P++ + L+ LA DN+TV
Sbjct: 198 FLILASDGLWDVLSNQEVVDIVRKHL--SKDPKEAAKRLIDLALAR------GSKDNITV 249
Query: 121 VLV 123
V+V
Sbjct: 250 VVV 252
>gnl|CDD|215938 pfam00481, PP2C, Protein phosphatase 2C. Protein phosphatase 2C is
a Mn++ or Mg++ dependent protein serine/threonine
phosphatase.
Length = 252
Score = 121 bits (306), Expect = 8e-35
Identities = 43/107 (40%), Positives = 63/107 (58%), Gaps = 7/107 (6%)
Query: 1 MKRIVAAGGWVE-FDRVNGNLALSRALGDFTFKRNTRVSATEQIIISMPDVVVEKVTPEW 59
+RI AGG+V RVNG LA+SRA GDF K+ Q + + PDV K+T
Sbjct: 146 RRRIRGAGGFVSRNGRVNGVLAVSRAFGDFELKKGK-----PQPVSAEPDVTSHKITESD 200
Query: 60 EFVIIACDGIWDVMSNEDVVAFVRLKIGEAMEPEKICEELMTRCLAP 106
EF+I+A DG+WDV+S+++VV VR ++ P + E+L+ +A
Sbjct: 201 EFLILASDGLWDVLSDQEVVDIVRSEL-SDGSPMEAAEKLVDEAIAY 246
>gnl|CDD|240318 PTZ00224, PTZ00224, protein phosphatase 2C; Provisional.
Length = 381
Score = 87.5 bits (217), Expect = 6e-21
Identities = 49/140 (35%), Positives = 77/140 (55%), Gaps = 18/140 (12%)
Query: 1 MKRIVAAGGWVEFDRVNGNLALSRALGDFTFKRNTRVSATEQIIISMPDVVVEKVTPEWE 60
+RI A GG V +RV+G+LA+SRA GD +FK EQ +I++PDV +
Sbjct: 152 RQRIEACGGRVVSNRVDGDLAVSRAFGDRSFKVKGTGDYLEQKVIAVPDVTHLTCQSN-D 210
Query: 61 FVIIACDGIWD-VMSNEDVVAFVRLKIGE----AMEPEKICEELMTRCLAPDRELCGLGC 115
F+I+ACDG+++ SNE+VVAFV+ ++ A+ ++C+E + R G
Sbjct: 211 FIILACDGVFEGNFSNEEVVAFVKEQLETCDDLAVVAGRVCDEAIRR-----------GS 259
Query: 116 -DNMTVVLVCFLHGKPYTSL 134
DN++ ++V G Y L
Sbjct: 260 KDNISCLIVQLKDGASYAKL 279
>gnl|CDD|215603 PLN03145, PLN03145, Protein phosphatase 2c; Provisional.
Length = 365
Score = 85.0 bits (210), Expect = 4e-20
Identities = 48/135 (35%), Positives = 75/135 (55%), Gaps = 9/135 (6%)
Query: 2 KRIVAAGGWVEFDRVNGNLALSRALGDFTFKRNTRVSATEQIIISMPDVVVEKVTPEWEF 61
KRI A+GG+V +NG L ++RALGD+ + + + P+++ ++T E EF
Sbjct: 214 KRIEASGGYVYDGYLNGQLNVARALGDWHMEGMKGSDGGP--LSAEPELMTTQLTEEDEF 271
Query: 62 VIIACDGIWDVMSNEDVVAFVRLKIGEAMEPEKICEELMTRCLAPDRELCGLGCDNMTVV 121
+II CDGIWDV +++ V F R ++ E +P +EL+ D L DN+ VV
Sbjct: 272 LIIGCDGIWDVFRSQNAVDFARRRLQEHNDPVMCSKELV------DEALKRKSGDNLAVV 325
Query: 122 LVCFLHGKPYTSLVT 136
+VCF +P +LV
Sbjct: 326 VVCF-QSQPPPNLVA 339
>gnl|CDD|223704 COG0631, PTC1, Serine/threonine protein phosphatase [Signal
transduction mechanisms].
Length = 262
Score = 71.6 bits (176), Expect = 1e-15
Identities = 34/121 (28%), Positives = 59/121 (48%), Gaps = 28/121 (23%)
Query: 3 RIVAAGGWVEFDRVNGNLALSRALGDFTFKRNTRVSATEQIIISMPDVVVEKVTPEWEFV 62
I+ R N AL+RALGDF PD+ ++ P +F+
Sbjct: 157 GIITPEEARSHPRRN---ALTRALGDFDLLE--------------PDITELELEP-GDFL 198
Query: 63 IIACDGIWDVMSNEDVVAFVRLKIGEAMEPEKICEELMTRCLAPDRELCGLGCDNMTVVL 122
++ DG+WDV+S++++V ++ + P++ ++L+ + L G G DN+TVVL
Sbjct: 199 LLCSDGLWDVVSDDEIVDILK----NSETPQEAADKLI------ELALEGGGPDNITVVL 248
Query: 123 V 123
V
Sbjct: 249 V 249
>gnl|CDD|197581 smart00219, TyrKc, Tyrosine kinase, catalytic domain.
Phosphotransferases. Tyrosine-specific kinase subfamily.
Length = 257
Score = 31.7 bits (73), Expect = 0.13
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 6/44 (13%)
Query: 70 WDVMSNEDVVAFVRLKIGEAMEPEKICEE----LMTRCLAPDRE 109
+ MSNE+V+ ++ K G + C LM +C A D E
Sbjct: 204 YPGMSNEEVLEYL--KNGYRLPQPPNCPPELYDLMLQCWAEDPE 245
>gnl|CDD|214568 smart00221, STYKc, Protein kinase; unclassified specificity.
Phosphotransferases. The specificity of this class of
kinases can not be predicted. Possible dual-specificity
Ser/Thr/Tyr kinase.
Length = 258
Score = 31.4 bits (72), Expect = 0.14
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 6/44 (13%)
Query: 70 WDVMSNEDVVAFVRLKIGEAMEPEKICEE----LMTRCLAPDRE 109
+ MSN +V+ LK G + C LM +C A D E
Sbjct: 205 YPGMSNAEVLE--YLKKGYRLPKPPNCPPELYKLMLQCWAEDPE 246
>gnl|CDD|180917 PRK07279, dnaE, DNA polymerase III DnaE; Reviewed.
Length = 1034
Score = 30.8 bits (70), Expect = 0.34
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 14/56 (25%)
Query: 72 VMSNEDVVAFVRLKIGEAMEPEKICEELMTRCLAPDRELCG------LGCDNMTVV 121
VMS++D+ + LK G+ M ++T+ A E G LG N+T V
Sbjct: 453 VMSDDDLTNHIPLKYGDDM--------MITQYDAHAVEANGLLKMDFLGLRNLTFV 500
>gnl|CDD|235531 PRK05605, PRK05605, long-chain-fatty-acid--CoA ligase; Validated.
Length = 573
Score = 30.4 bits (69), Expect = 0.48
Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 3/37 (8%)
Query: 75 NEDVVAFVRLKIGEAMEPEKI---CEELMTRCLAPDR 108
+E+VVA V L+ G A++PE + C E +TR P R
Sbjct: 507 SEEVVAAVVLEPGAALDPEGLRAYCREHLTRYKVPRR 543
>gnl|CDD|213279 cd05911, Firefly_Luc_like, Firefly luciferase of light emitting
insects and 4-Coumarate-CoA Ligase (4CL). This family
contains two functionally unique groups of proteins; one
group is insect firefly luciferases and the other is
plant 4-coumarate:coenzyme A ligases. However, they
share significant sequence similarity in spite of their
functional diversity. Luciferase catalyzes the
production of light in the presence of MgATP, molecular
oxygen, and luciferin. In the first step, luciferin is
activated by acylation of its carboxylate group with
ATP, resulting in an enzyme-bound luciferyl adenylate.
In the second step, luciferyl adenylate reacts with
molecular oxygen, producing an enzyme-bound excited
state product (Luc=O*) and releasing AMP. This
excited-state product then decays to the ground state
(Luc=O), emitting a quantum of visible light.
4-coumarate:coenzyme A ligase is a key enzyme in the
phenylpropanoid metabolic pathway for monolignol and
flavonoid biosynthesis. It catalyzes the synthesis of
hydroxycinnamate-CoA thioesters in a two-step reaction,
involving the formation of hydroxycinnamate-AMP
anhydride and then the nucleophilic substitution of AMP
by CoA. The phenylpropanoid pathway is one of the most
important secondary metabolism pathways in plants and
hydroxycinnamate-CoA thioesters are the precursors of
lignin and other important phenylpropanoids.
Length = 487
Score = 29.9 bits (68), Expect = 0.57
Identities = 13/55 (23%), Positives = 23/55 (41%), Gaps = 11/55 (20%)
Query: 41 EQIIISMPDVVVEKVTPEWEFVIIACDGIWDVMSNEDVVAFVRLKIGEAMEPEKI 95
E +++ P V V GI D ++ E A+V LK G + +++
Sbjct: 411 EAVLLEHPKVADAAVI-----------GIPDEVAGELPRAYVVLKPGSKLTEQEV 454
>gnl|CDD|181195 PRK08008, caiC, putative crotonobetaine/carnitine-CoA ligase;
Validated.
Length = 517
Score = 29.7 bits (67), Expect = 0.67
Identities = 21/69 (30%), Positives = 32/69 (46%), Gaps = 16/69 (23%)
Query: 37 VSATE--QIIISMPDVVVEKVTPEWEFVIIACDGIWDVMSNEDVVAFVRLKIGEAMEPEK 94
VS E II + P + + V++ GI D + +E + AFV L GE + E+
Sbjct: 431 VSCVELENIIATHPKIQ--------DIVVV---GIKDSIRDEAIKAFVVLNEGETLSEEE 479
Query: 95 I---CEELM 100
CE+ M
Sbjct: 480 FFAFCEQNM 488
>gnl|CDD|236514 PRK09434, PRK09434, aminoimidazole riboside kinase; Provisional.
Length = 304
Score = 29.5 bits (67), Expect = 0.68
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 1 MKRIVAAGGWVEFD 14
M+RI AAGG+V FD
Sbjct: 143 MRRIKAAGGFVSFD 156
>gnl|CDD|215471 PLN02873, PLN02873, coproporphyrinogen-III oxidase.
Length = 274
Score = 28.8 bits (65), Expect = 1.1
Identities = 18/62 (29%), Positives = 26/62 (41%), Gaps = 16/62 (25%)
Query: 8 GGWVEFDRVNGNLALSRALGDFTFKRNTRVSATEQIIISMP-------DVVVEKVTPEWE 60
G +VEF NL R F K R+ E I++S+P D E+ + E E
Sbjct: 212 GRYVEF-----NLVYDRGT-TFGLKTGGRI---ESILVSLPPTARWEYDHQPEEGSEEAE 262
Query: 61 FV 62
+
Sbjct: 263 LL 264
>gnl|CDD|233845 TIGR02395, rpoN_sigma, RNA polymerase sigma-54 factor. A sigma
factor is a DNA-binding protein protein that binds to
the DNA-directed RNA polymerase core to produce the
holoenzyme capable of initiating transcription at
specific sites. Different sigma factors act in
vegetative growth, heat shock, extracytoplasmic
functions (ECF), etc. This model represents the clade of
sigma factors called sigma-54, or RpoN (unrelated to
sigma 70-type factors such as RpoD/SigA). RpoN is
responsible for enhancer-dependent transcription, and
its presence characteristically is associated with
varied panels of activators, most of which are
enhancer-binding proteins (but see Brahmachary, et al.,
PMID:15231786). RpoN may be responsible for
transcription of nitrogen fixation genes, flagellins,
pilins, etc., and synonyms for the gene symbol rpoN,
such as ntrA, reflect these observations [Transcription,
Transcription factors].
Length = 429
Score = 28.8 bits (65), Expect = 1.1
Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 15/64 (23%)
Query: 38 SATEQIIISMPDVVVEKVTPEWEFVIIACDGI---------WDVMS---NEDVVAFVRLK 85
+ +I PDV+V K EW V + + + ++ E +++ K
Sbjct: 220 PEEVEYVI--PDVIVTKKNGEWV-VELNGRSLPELRINEEYFKLLKDAEKEAADQYLKQK 276
Query: 86 IGEA 89
+ EA
Sbjct: 277 LKEA 280
>gnl|CDD|219530 pfam07714, Pkinase_Tyr, Protein tyrosine kinase.
Length = 258
Score = 28.6 bits (65), Expect = 1.4
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 6/41 (14%)
Query: 73 MSNEDVVAFVRLKIGEAMEPEKIC----EELMTRCLAPDRE 109
MSNE+V+ + + G + + C ELM +C A D E
Sbjct: 208 MSNEEVLELL--EDGYRLPRPENCPDELYELMLQCWAYDPE 246
>gnl|CDD|215525 PLN02972, PLN02972, Histidyl-tRNA synthetase.
Length = 763
Score = 28.3 bits (63), Expect = 2.2
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 69 IWDVMSNEDVVAFVRLKIGEAMEPEKICEE 98
+WD+++ E AF L+ GE +E + E
Sbjct: 212 VWDIVAWEAAAAFAVLEGGELIEKPQAEAE 241
>gnl|CDD|223442 COG0365, Acs, Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases
[Lipid metabolism].
Length = 528
Score = 28.0 bits (63), Expect = 2.4
Identities = 28/117 (23%), Positives = 42/117 (35%), Gaps = 18/117 (15%)
Query: 1 MKRIVAAGGWVEFDRVNGNLALSRALGDFTFKRNT-RVS--ATEQIIISMPDVVVEKVT- 56
R G W E D R+ D K + R+ E ++++ P V V
Sbjct: 394 FGRWYRTGDWAERDEDGYFWLHGRS--DDVIKVSGKRIGPLEIESVLLAHPAVAEAAVVG 451
Query: 57 -PEWE-------FVIIACDGIWDVMSNEDVVAFVRLKIGEAMEPEKI--CEEL-MTR 102
P+ FV++A G+ E++ V IG P KI +EL T
Sbjct: 452 VPDPGKGQIVLAFVVLA-AGVEPNELAEEIRRHVARNIGPHAIPRKIRFVDELPKTA 507
>gnl|CDD|201831 pfam01505, Vault, Major Vault Protein repeat. The vault is a
ubiquitous and highly conserved ribonucleoprotein
particle of approximately 13 mDa of unknown function.
This family corresponds to a repeat found in the amino
terminal half of the major vault protein.
Length = 43
Score = 25.2 bits (56), Expect = 3.4
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 17 NGNLALSRALGDFTFKRNTRVSATEQIIISMPDVVV 52
N L L RALG FT + + A E+ ++ P +
Sbjct: 7 NEALLL-RALGPFTDRDGVKRKAGEEWLVRGPGTYI 41
>gnl|CDD|213300 cd05934, FACL_DitJ_like, Uncharacterized subfamily of fatty acid
CoA ligase (FACL). Fatty acyl-CoA ligases catalyze the
ATP-dependent activation of fatty acids in a two-step
reaction. The carboxylate substrate first reacts with
ATP to form an acyl-adenylate intermediate, which then
reacts with CoA to produce an acyl-CoA ester. This is a
required step before free fatty acids can participate in
most catabolic and anabolic reactions. Members of this
family include DitJ from Pseudomonas and similar
proteins.
Length = 421
Score = 27.1 bits (61), Expect = 4.8
Identities = 24/111 (21%), Positives = 43/111 (38%), Gaps = 23/111 (20%)
Query: 7 AGGW------VEFDRVNGNLALSRALGDFTFKRNTRVSAT--EQIIISMPDVVVEKVTPE 58
GW D +G L D +R +S+ E I++ P V
Sbjct: 300 RNGWFHTGDRGRRDE-DGFLYFVDRKKDAIRRRGENISSYEVEAAILAHPAVA------- 351
Query: 59 WEFVIIACDGIWDVMSNEDVVAFVRLKIGEAMEPEKI---CEELMTRCLAP 106
E ++A + + ++V A V L+ GE ++PE + C + + + P
Sbjct: 352 -EAAVVA---VPSELGEDEVKAVVVLRPGETLDPEALLEFCRDRLPYFMVP 398
>gnl|CDD|131117 TIGR02062, RNase_B, exoribonuclease II. This family consists of
exoribonuclease II, the product of the rnb gene, as
found in a number of gamma proteobacteria. In
Escherichia coli, it is one of eight different
exoribonucleases. It is involved in mRNA degradation and
tRNA precursor end processing [Transcription,
Degradation of RNA].
Length = 639
Score = 27.1 bits (60), Expect = 5.7
Identities = 11/32 (34%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 72 VMSNEDVVAFVRL-KIGEAMEPEKICEELMTR 102
VM + ++A + K E+ EPE++ E +TR
Sbjct: 51 VMHGDKIIAVIHSEKERESAEPEELIEPFLTR 82
>gnl|CDD|177199 MTH00141, COX3, cytochrome c oxidase subunit III; Provisional.
Length = 259
Score = 26.8 bits (60), Expect = 5.9
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 118 MTVVLVCFLHGKPYTSLV 135
+TV LV + HG + LV
Sbjct: 25 LTVGLVSWFHGGSFLLLV 42
>gnl|CDD|236491 PRK09377, tsf, elongation factor Ts; Provisional.
Length = 290
Score = 26.2 bits (59), Expect = 7.5
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 75 NEDVVAFVRLKIGEAME 91
VV FVR ++GE +E
Sbjct: 259 GAKVVGFVRFEVGEGIE 275
>gnl|CDD|213314 cd05967, PrpE, Propionyl-CoA synthetase (PrpE). PrpE catalyzes the
first step of the 2-methylcitric acid cycle for
propionate catabolism. It activates propionate to
propionyl-CoA in a two-step reaction, which proceeds
through a propionyl-AMP intermediate and requires ATP
and Mg2+. In Salmonella enterica, the PrpE protein is
required for growth of S. enterica on propionate and can
substitute for the acetyl-CoA synthetase (Acs) enzyme
during growth on acetate. PrpE can also activate
acetate, 3HP, and butyrate to their corresponding
CoA-thioesters, although with less efficiency.
Length = 607
Score = 26.1 bits (58), Expect = 9.7
Identities = 11/63 (17%), Positives = 27/63 (42%), Gaps = 11/63 (17%)
Query: 38 SATEQIIISMPDVVVEKVTPEWEFVIIACDGIWDVMSNEDVVAFVRLKIGEAMEPEKICE 97
E+ ++ PDV E ++ G+ D + + + V LK ++ +++
Sbjct: 497 GEMEESVLKHPDVA--------ECAVV---GVRDELKGQVPLGLVVLKDDCKIDADQLEN 545
Query: 98 ELM 100
E++
Sbjct: 546 EIV 548
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
0.321 0.136 0.415
Gapped
Lambda K H
0.267 0.0697 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,292,720
Number of extensions: 751239
Number of successful extensions: 549
Number of sequences better than 10.0: 1
Number of HSP's gapped: 534
Number of HSP's successfully gapped: 31
Length of query: 163
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 74
Effective length of database: 6,990,096
Effective search space: 517267104
Effective search space used: 517267104
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: 55 (25.0 bits)