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Conserved domains on [gi\|117928836\|ref\|YP_873387.1\|]
methyl-accepting chemotaxis sensory transducer [Acidothermus cellulolyticus 11B]

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List of domain hits		?

References:

Marchler-Bauer A et al. (2009), "CDD: specific functional annotation with the Conserved Domain Database.", Nucleic Acids Res.37(D)205-10.

Marchler-Bauer A, Bryant SH (2004), "CD-Search: protein domain annotations on the fly.", Nucleic Acids Res.32(W)327-331.

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of the residues that compose this conserved feature have been mapped to the query sequence.

Click on the triangle to view details about the feature, including a multiple sequence alignment of your query sequence and the protein sequences used to curate the domain model, where hash marks (#) above the aligned sequences show the location of the conserved feature residues.

The thumbnail image, if present, provides an approximate view of the feature's location in 3 dimensions. Click on the triangle for interactive 3D structure viewing options.

This image shows a graphical summary of conserved domains identified on the query sequence. The Show Concise/Full Display button at the top of the page can be used to select the desired level of detail: only top scoring hits (labeled illustration) or all hits (labeled illustration).
Domains are color coded according to superfamilies to which they have been assigned. Hits with scores that pass a domain-specific threshold (specific hits) are drawn in bright colors. Others (non-specific hits) and superfamily placeholders are drawn in pastel colors.
if a domain or superfamily has been annotated with functional sites (conserved features), they are mapped to the query sequence and indicated through sets of triangles with the same color and shade of the domain or superfamily that provides the annotation.
Mouse over the colored bars or triangles to see descriptions of the domains and features. click on the bars or triangles to view your query sequence embedded in a multiple sequence alignment of the proteins used to develop the corresponding domain model.

The table lists conserved domains identified on the query sequence. Click on the plus sign (+) on the left to display full descriptions, alignments, and scores. Click on the PssmId to view the multiple sequence alignment of the proteins used to develop the corresponding domain model.

To view your query sequence embedded in that multiple sequence alignment, click on the colored bars in the Graphical Summary portion of the search results page, or click on the triangles, if present, that represent functional sites (conserved features) mapped to the query sequence.

Concise Display shows only the best scoring domain model, in each hit category listed below except non-specific hits, for each region on the query sequence. (labeled illustration)
Full Display shows all domain models, in each hit category below, that meet or exceed the RPS-BLAST threshold for statistical significance. (labeled illustration)
Four types of hits can be shown, as available, for each region on the query sequence:

specific hits meet or exceed a domain-specific e-value threshold (illustrated example) and represent a very high confidence that the query sequence belongs to the same protein family as the sequences use to create the domain model
non-specific hits meet or exceed the RPS-BLAST threshold for statistical significance (default E-value cutoff of 0.01, or an E-value selected by user via the advanced search options)
the domain superfamily to which the specific and non-specific hits belong
multi-domain models that were computationally detected and are likely to contain multiple single domains

The CD-Search help document provides more detail about the tool and its features.

Retrieve proteins that contain one or more of the domains present in the query sequence, using the Conserved Domain Architecture Retrieval Tool (CDART).

Modify your query to search against a different database and/or use advanced search options

31182

COG0840

Tar

Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]

Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction...

true

false

408

7e-11

63.85

73.28

4,25,100,14,39,115,106,145,225,149,295,374,25

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117928836  26 GDLTAQVDAGPATD-SAVEQKLNEVLRRYATLTATVQEAVDRLDEARRAATATHKQMLDTAEMTAGQAYDVGVTITQVSD 104
COG0840      101 GDLTKRIDESSNDEfGQLAKSFNEMILNLRQIIDAVQDNAEALSGASEEIAASATELSARADQQAESLEEVASAIEELSE 180

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117928836 105 GVGVVASATDELNSTISDIARHASEAADIAVAASDQSHQAA----SGVLELAEALRSVDEIANTIAAIARRTHLLALNAK 180
COG0840      181 TVKEVAFNAKEAAALASEASQVAEEGGEEVRQAVEQMQEIAeelaEVVKKLSESSQEIEEITSVINSIAEQTNLLALNAA 260

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117928836 181 IEAQRAGVAGRGFAVVAAEVNDLASQTSQATEQVRSLLVGIDERSKHASETIHAISATMARICESTASIAGAVNQQTATT 260
COG0840      261 IEAARAGEAGRGFAVVADEVRKLAERSADSAKEIGLLIEEIQNEAADAVEHMEESASEVSEGVKLVEETGSSLGEIAAAI 340

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 117928836 261 REIGRVSALAAQGAAEIARRISMVHDQAREVAYLgAQKDAPKTEEIARIERALRQLVDGC 320
COG0840      341 EEVSQLISEIAAATEEQTAVLEEINASIEELDDV-TQENAAAVEELAAASEELKELAEKL 399

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128579

smart00283

Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer).

false

true

false

262

2e-08

55.37

96.18

4,79,7,62,141,76,85,226,168,67,294,235,24

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117928836  80 QMLDTAEMTAGQAYDVGVTITQVSDGVGVVASATDELNSTISDIARHASEAADIAVAASDQS-------HQAASGVLELA 152
smart00283     8 EIAAGAEEQAEELEELAERMEELSASIEEVAANADEIAATAQSAAEAAEEGREAVEDAITAMdqirevvEEAVSAVEELE 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117928836 153 EALRSVDEIANTIAAIARRTHLLALNAKIEAQRAGVAGRGFAVVAAEVNDLASQTSQATEQVRSLLVGIDERSK------ 226
smart00283    88 ESSDEIGEIVSVIDDIADQTNLLALNAAIEAARAGEAGRGFAVVADEVRKLAERSAESAKEIESLIKEIQEETNeavaam 167

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117928836 227 -HASETIHAISATMARICESTASIAGAVNQQTATTREIGRVSALAAQGAAEIARRISMVHDQAREVAYlGAQKDAPKTEE 305
smart00283   168 eESSSEVEEGVELVEETGEALEEIVDSVEEIADLVQEIAAATDEQAAGSEEVNAAIDEIAQVTQETAA-MSEEISAAAEE 246

                        250
                 ....*....|...
gi 117928836 306 IARIERALRQLVD 318
smart00283   247 LSGLAEELKELVE 259

-1

109084

pfam00015

MCPsignal

Methyl-accepting chemotaxis protein (MCP) signaling domain

false

true

false

241

4e-06

48.19

83.40

3,82,4,47,139,51,98,237,163,42

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117928836  83 DTAEMTAGQAYDVGVTITQVSDGVGVVASATDELNSTISDIARHASEaadiavaasdQSHQAASGVLELAEALRSVDEIA 162
pfam00015      5 SAIEQVAASMEQLTATVRDIASNAAQASDLAKQASEEALEEMSQIGQ----------EVDNAVQVMEELATSSKNISDII 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117928836 163 NTIAAIARRTHLLALNAKIEAQRAGVAGRGFAVVAAEVNDLASQTSQATEQVRSLLVGIDERSKHASETIHAISA----- 237
pfam00015     75 SVIDEIAFQTNLLALNAAIEAARAGEQGRGFAVVADEVRKLAERSAQAAKEIEQLIEEIQKESNDAVESMQQTRTqvevg 154

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 117928836 238 ---------TMARICESTASIAGAVNQQTATTREIGRVSALAAQGAAEIAR 279
pfam00015    155 stivektgeALKEIVEAIGEIADEVQEIAAASEEQSAGIEQINQAVERIDQ 205

-1

137524

PRK09793

methyl-accepting protein IV; Provisional

false

true

false

533

2e-04

42.75

48.78

7,46,242,35,84,277,8,93,285,28,121,316,18,139,338,107,246,452,10,259,462,40

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117928836  47 NEVLRRYATLTATVQEAVDRLDEARRAATATHKQMldtAEMTAGQAyDVGVTITQVSDGVGVVASATDELNSTIS---DI 123
PRK09793     243 NEITAIFASLKTMQQALRGTVSDVRKGSQEMHIGI---AEIVAGNN-DLSSRTEQQAASLAQTAASMEQLTATVGqnaDN 318

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117928836 124 ARHASEAADIAVAASD----QSHQAASGVLELAEALRSVDEIANTIAAIARRTHLLALNAKIEAQRAGVAGRGFAVVAAE 199
PRK09793     319 ARQASELAKNAATTAQaggvQVSTMTHTMQEIATSSQKIGDIISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVAGE 398

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117928836 200 VNDLASQTSQATEQVRSLLVGIDERSKHASETIHAISATMARICEST-------ASIAGAVNQQtatTREIGRVSALAAQ 272
PRK09793     399 VRNLASRSAQAAKEIKGLIEESVNRVQQGSKLVNNAAATMTDIVSSVtrvndimGEIASASEEQ---RRGIEQVAQAVSQ 475

                        250       260
                 ....*....|....*....|....*..
gi 117928836 273 GAAEIARRISMVHDQAREVAYLGAQKD 299
PRK09793     476 MDQVTQQNASLVEEAAVATEQLANQAD 502

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