Query 018537
Match_columns 354
No_of_seqs 82 out of 84
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 09:50:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018537.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018537hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10236 hypothetical protein; 100.0 3.6E-50 7.7E-55 374.9 15.8 214 59-343 7-230 (237)
2 COG4735 Uncharacterized protei 100.0 3.2E-50 6.9E-55 367.6 11.6 189 111-347 18-208 (211)
3 COG4735 Uncharacterized protei 98.1 1.1E-05 2.4E-10 75.5 9.1 91 132-238 1-100 (211)
4 PF03981 Ubiq_cyt_C_chap: Ubiq 97.1 0.00032 6.9E-09 59.6 2.9 55 116-201 5-60 (141)
5 PF13099 DUF3944: Domain of un 96.2 0.0049 1.1E-07 43.5 3.0 27 60-86 3-29 (35)
6 PF03250 Tropomodulin: Tropomo 76.0 3.8 8.3E-05 37.2 4.1 31 53-83 109-139 (147)
7 PF02173 pKID: pKID domain; I 53.6 8.8 0.00019 28.2 1.6 13 138-150 18-30 (41)
8 PF04542 Sigma70_r2: Sigma-70 35.7 63 0.0014 23.2 3.8 33 142-177 5-37 (71)
9 cd01915 CODH Carbon monoxide d 35.1 1.3E+02 0.0028 33.1 7.5 52 136-189 99-154 (613)
10 PF11248 DUF3046: Protein of u 32.6 89 0.0019 24.8 4.3 45 114-158 4-62 (63)
11 PF01371 Trp_repressor: Trp re 32.5 70 0.0015 26.6 3.9 23 64-86 8-30 (87)
12 KOG2998 Uncharacterized conser 31.9 36 0.00077 34.4 2.5 82 133-242 98-181 (302)
13 PRK09535 btuC corrinoid ABC tr 31.4 90 0.002 32.1 5.3 38 300-337 282-320 (366)
14 TIGR02989 Sig-70_gvs1 RNA poly 31.2 61 0.0013 27.1 3.5 35 141-178 9-43 (159)
15 cd06406 PB1_P67 A PB1 domain i 27.6 45 0.00098 27.5 2.0 20 137-156 18-37 (80)
16 PF15008 DUF4518: Domain of un 23.6 2E+02 0.0042 28.6 5.9 89 61-179 7-95 (262)
17 TIGR00759 aceE pyruvate dehydr 23.4 5.5E+02 0.012 29.8 10.0 136 60-250 338-504 (885)
18 PRK14082 hypothetical protein; 23.1 65 0.0014 25.9 2.1 16 162-177 33-48 (65)
19 smart00530 HTH_XRE Helix-turn- 22.5 1.3E+02 0.0028 19.2 3.2 40 119-158 15-54 (56)
20 PRK02983 lysS lysyl-tRNA synth 21.5 2E+02 0.0044 33.6 6.3 83 97-179 855-974 (1094)
21 PF07176 DUF1400: Alpha/beta h 21.3 1.4E+02 0.003 26.0 3.9 36 56-91 27-62 (127)
22 PF13873 Myb_DNA-bind_5: Myb/S 21.3 1.4E+02 0.0031 22.8 3.7 43 110-153 34-76 (78)
23 TIGR03869 F420-0_ABCperm propo 21.1 1.9E+02 0.004 29.1 5.3 40 301-340 241-281 (325)
No 1
>PRK10236 hypothetical protein; Provisional
Probab=100.00 E-value=3.6e-50 Score=374.93 Aligned_cols=214 Identities=20% Similarity=0.276 Sum_probs=168.7
Q ss_pred CChhHHHHHHhhChHHHHHHHHHhcC-----CCCCCcchhhhc-cc---CCcchhHHhhhhhHHHHHHHHHHHHHccccc
Q 018537 59 FDPELRSVLELATDSELYELERILFG-----PSYFSPLLKSFT-KR---ADVDYVMIEQDLEEREDFIASLESRFLFLAA 129 (354)
Q Consensus 59 ~~~ELr~vLelATdeEL~~L~~ILf~-----~s~fsPLlkSi~-~r---~~~Dy~~~~~~~~~R~~~i~~Ie~rfrflAa 129 (354)
.|++| +||..||||||.+|++||++ .|+++.|+++.. ++ +.+||.+ ||+.||+|||||||
T Consensus 7 ~D~DL-~fL~~cs~edL~~Lv~~Lt~d~dG~~R~te~lt~~~~yk~~~~~~~~~~~----------yw~~Ia~elq~fGg 75 (237)
T PRK10236 7 NDSDL-DFLQHCSEEQLANFARLLTHNEKGKTRLSSVLMRNELFKSMEGHPEQHRR----------NWQLIAGELQHFGG 75 (237)
T ss_pred cCccH-HHHHhCCHHHHHHHHHHHhcCCCCCEeehhhhcccHHHHhhcccchhHHH----------HHHHHHHHHHHhcc
Confidence 34555 79999999999999999999 466777776644 45 6666666 99999999999999
Q ss_pred ch-hhhhcCCCccHHHHHHHHHhhcCcCCCCCCChHHHHHHHHHHHHhhhhccccCCCCCCcccCCchhhhhHHHhhhhh
Q 018537 130 DA-RSTLRGWRPSYRNVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQEYASEESGVFPGSWENSEASDAQNSLELGLSQ 208 (354)
Q Consensus 130 D~-~s~LRG~gpsYReVLldVckkLkV~~s~~lsT~dLEaeIflhLL~~~~~~~~~~~~~awek~~~~~e~~sl~~~l~~ 208 (354)
|+ +|+|||+||+|||||+||||||||||++++||++||+|||+|++++ +|+||+++ |+++|+..|+
T Consensus 76 nt~~n~lRG~Gv~YreIL~DVc~~LKV~y~~~~st~~iE~~il~kll~~-----------a~~kms~e-E~~~L~~~l~- 142 (237)
T PRK10236 76 DSIANKLRGHGKLYRAILLDVSKRLKLKADKEMSTFEIEQQLLEQFLRN-----------TWKKMDEE-HKQEFLHAVD- 142 (237)
T ss_pred hHHHHHHhcCCccHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHHH-----------HHHHCCHH-HHHHHHHHHh-
Confidence 99 6799999999999999999999999999999999999999999999 99999999 9999999998
Q ss_pred HHHHHHHhhhcCchhhHHHHHhcchHHHHHHHHHHHHHHhHHHHHHHHhhHHHHHHHHHhhhHHHHHhHHHHHHHHHHhh
Q 018537 209 WKVQALAAFNAGAVELKSMMLKGGGIYTLVKIYQLLMRNLSGKFFLEAANYQIKKEVLKKGGQLAAINLESRAALLAAKQ 288 (354)
Q Consensus 209 ~~~~~la~~~lg~~~~~~~lLKGgsalavssi~~~l~~~ls~qla~~~A~Yq~Ak~~l~~Gg~~aa~~l~~~~al~aA~r 288 (354)
.++ + +...+.+.++..- +.+.+ .....+||++...||+ ++++++ ++
T Consensus 143 ---~~l--~--~~~~~~~~ll~~~-----~~~~~-~~gf~~y~l~~iv~~~-i~~~~l--------------------G~ 188 (237)
T PRK10236 143 ---ARV--N--ELEELLPLLMKDK-----LLAKG-VSHLLSSQLTRILRTH-AAMSVL--------------------GH 188 (237)
T ss_pred ---hhc--c--CcccchHHHHHHH-----HHHHh-hcchHHHHHHHHHHHH-HHHHHh--------------------hh
Confidence 333 1 2233555554321 22333 3344555555555553 245444 44
Q ss_pred hhhhhhhhHHHHHHHHHhHhHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHH
Q 018537 289 GFAGAATKYLGLRNMVALLGPVLWGTFLADVVIQMLGTDYARILRAIYAFAQIRI 343 (354)
Q Consensus 289 G~~~aAarY~~~Rs~~~llGPilW~wf~aDL~~~aigT~Y~RiIpaI~alAQIRL 343 (354)
|++ |++. |+|||+|+.+.++ +..||+||+|||||++||.+|.
T Consensus 189 gL~---------r~~~-l~GPIGw~itg~w---dlagpAyRVTIPaviqIA~Lrq 230 (237)
T PRK10236 189 GLL---------RGAG-LGGPVGAALNGVK---AVSGSAYRVTIPAVLQIACLRR 230 (237)
T ss_pred hHH---------HHhh-ccCchhHHhhhhH---HhcCCeeeeecchHHHHHHHHH
Confidence 443 6665 9999999966653 5669999999999999999975
No 2
>COG4735 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=100.00 E-value=3.2e-50 Score=367.64 Aligned_cols=189 Identities=24% Similarity=0.384 Sum_probs=175.7
Q ss_pred hHHHHHHHHHHHHHcccccch-hhhhcCCCccHHHHHHHHHhhcCcCCCCCCChHHHHHHHHHHHHhhhhccccCCCCCC
Q 018537 111 EEREDFIASLESRFLFLAADA-RSTLRGWRPSYRNVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQEYASEESGVFPGS 189 (354)
Q Consensus 111 ~~R~~~i~~Ie~rfrflAaD~-~s~LRG~gpsYReVLldVckkLkV~~s~~lsT~dLEaeIflhLL~~~~~~~~~~~~~a 189 (354)
.+...|++.|.+|+++.++|+ +|.|||.|+.||+||+|+|||||++|+++++|.+||++++++|+++ +
T Consensus 18 ~~~~ky~k~ia~elq~~gg~s~anflr~~G~lyk~il~d~~~~Lk~k~~k~~~tt~Iee~ll~~il~~-----------~ 86 (211)
T COG4735 18 IQVCKYLKRIAEELQTTGGLSAANFLRDLGQLYKKILCDEKDKLKVKVQKELGTTEIEEPLLLQILRN-----------P 86 (211)
T ss_pred HHHHHHHHhhHHHHHHhccHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHhhccccccchhHHHHHHh-----------H
Confidence 445558899999999999999 7999999999999999999999999999999999999999999999 9
Q ss_pred cccCCchhhhhHHHhhhhhHHHHHHHhhhcCchhhHHHHHhcchHHHHHHHHH-HHHHHhHHHHHHHHhhHHHHHHHHHh
Q 018537 190 WENSEASDAQNSLELGLSQWKVQALAAFNAGAVELKSMMLKGGGIYTLVKIYQ-LLMRNLSGKFFLEAANYQIKKEVLKK 268 (354)
Q Consensus 190 wek~~~~~e~~sl~~~l~~~~~~~la~~~lg~~~~~~~lLKGgsalavssi~~-~l~~~ls~qla~~~A~Yq~Ak~~l~~ 268 (354)
|+||+.. +.+++++.+. + .+.+ |..|+..++|.|++||.+.++
T Consensus 87 l~km~~~-~~~e~~~~l~----------------------------------~~~v~~-i~e~~~vl~a~~l~ak~~~~~ 130 (211)
T COG4735 87 LEKMLKG-GKAEAVDSLD----------------------------------APNVLE-IEEQLQVLIADYLVAKKALGK 130 (211)
T ss_pred HHHHhHH-HHHHHHHHhc----------------------------------chhHHH-HHHHHHHHHHHHHHHHHHhcc
Confidence 9999988 6666665544 2 3444 888999999999999999999
Q ss_pred hhHHHHHhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHhHhHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhhc
Q 018537 269 GGQLAAINLESRAALLAAKQGFAGAATKYLGLRNMVALLGPVLWGTFLADVVIQMLGTDYARILRAIYAFAQIRITRTY 347 (354)
Q Consensus 269 Gg~~aa~~l~~~~al~aA~rG~~~aAarY~~~Rs~~~llGPilW~wf~aDL~~~aigT~Y~RiIpaI~alAQIRLtRt~ 347 (354)
|+..+|.++++++|+|+++|||.+.|+ |+++||+|+|.|||||+||.+|++||++|||||||||+||++||||++|.-
T Consensus 131 ~S~qla~~l~~~~a~q~lg~Gl~~ga~-~~~~rtl~~l~GPvgw~l~ga~~~~~~~g~~YrvtIPai~~lA~lRl~~~~ 208 (211)
T COG4735 131 GSYQLAVILQNAVALQTLGQGLLRGAA-YGLVRTLFSLGGPVGWALFGADLGWRAIGTNYRVTIPAIFQLAQLRLTRAA 208 (211)
T ss_pred chHHHHHHHHHHHHHHHHhhhhhhhhh-hhHHHHHHHhcchHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999988 999999999999999999999999999999999999999999999999864
No 3
>COG4735 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=98.14 E-value=1.1e-05 Score=75.50 Aligned_cols=91 Identities=23% Similarity=0.253 Sum_probs=81.3
Q ss_pred hhhhcCC--CccHHHHHHHHHhhcCcCCCCCCChHHHHHHHHHHHHhhhhccccCCCCCCcccCCchhhhhHHHhhhhhH
Q 018537 132 RSTLRGW--RPSYRNVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQEYASEESGVFPGSWENSEASDAQNSLELGLSQW 209 (354)
Q Consensus 132 ~s~LRG~--gpsYReVLldVckkLkV~~s~~lsT~dLEaeIflhLL~~~~~~~~~~~~~awek~~~~~e~~sl~~~l~~~ 209 (354)
.|.+||+ ..+||+-+.||||+++++|..-..|-++|.+.|+|.+.+ .|+|.+.. +.+.|....+
T Consensus 1 lt~~l~~~~~~k~r~g~~~~~ky~k~ia~elq~~gg~s~anflr~~G~-----------lyk~il~d-~~~~Lk~k~~-- 66 (211)
T COG4735 1 LTVLLGRSEQFKYREGLIQVCKYLKRIAEELQTTGGLSAANFLRDLGQ-----------LYKKILCD-EKDKLKVKVQ-- 66 (211)
T ss_pred CchhhccchhhHHHhhHHHHHHHHHhhHHHHHHhccHHHHHHHHHHHH-----------HHHHcCHH-HHHHHHHHHH--
Confidence 3677876 999999999999999999999999999999999999999 99999998 8888888888
Q ss_pred HHHHHHhhhcCc-------hhhHHHHHhcchHHHHH
Q 018537 210 KVQALAAFNAGA-------VELKSMMLKGGGIYTLV 238 (354)
Q Consensus 210 ~~~~la~~~lg~-------~~~~~~lLKGgsalavs 238 (354)
+.++.+.+.+ +||+..++||+++.+++
T Consensus 67 --k~~~tt~Iee~ll~~il~~~l~km~~~~~~e~~~ 100 (211)
T COG4735 67 --KELGTTEIEEPLLLQILRNPLEKMLKGGKAEAVD 100 (211)
T ss_pred --HhhccccccchhHHHHHHhHHHHHhHHHHHHHHH
Confidence 7777777766 89999999999876655
No 4
>PF03981 Ubiq_cyt_C_chap: Ubiquinol-cytochrome C chaperone ; InterPro: IPR021150 Saccharomyces cerevisiae ubiquinol-cytochrome C chaperone is required for assembly of coenzyme QF-2-cytochrome C reductase. It appears to be found in a number of different organisms including Homo sapiens, Caenorhabditis elegans and Rhizobium meliloti. This entry also contains bacterial proteins belonging to the UPF0174 family.
Probab=97.13 E-value=0.00032 Score=59.63 Aligned_cols=55 Identities=16% Similarity=0.204 Sum_probs=43.8
Q ss_pred HHHHHHHHHcccccch-hhhhcCCCccHHHHHHHHHhhcCcCCCCCCChHHHHHHHHHHHHhhhhccccCCCCCCcccCC
Q 018537 116 FIASLESRFLFLAADA-RSTLRGWRPSYRNVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQEYASEESGVFPGSWENSE 194 (354)
Q Consensus 116 ~i~~Ie~rfrflAaD~-~s~LRG~gpsYReVLldVckkLkV~~s~~lsT~dLEaeIflhLL~~~~~~~~~~~~~awek~~ 194 (354)
+.+.+++||+++.... +.+.| ||..+ .+..++|++||.++.++ .+++|.
T Consensus 5 ~~dt~~~~f~~~~lh~~l~~~R----------------Lk~~~---~~~~~~~q~l~~~~~~d-----------~~~~l~ 54 (141)
T PF03981_consen 5 VPDTFAGRFQMLGLHVWLVLRR----------------LKAEG---KEGKELEQALFDKFFED-----------MDERLR 54 (141)
T ss_pred CccCHHHHHHHHHHHHHHHHHH----------------Hcccc---ccHHHHHHHHHHHHHHH-----------HHHHHH
Confidence 4688999999999988 55555 77776 44699999999999999 888887
Q ss_pred chhhhhH
Q 018537 195 ASDAQNS 201 (354)
Q Consensus 195 ~~~e~~s 201 (354)
+. +.++
T Consensus 55 ~~-gv~d 60 (141)
T PF03981_consen 55 EM-GVGD 60 (141)
T ss_pred Hh-cCcc
Confidence 66 4443
No 5
>PF13099 DUF3944: Domain of unknown function (DUF3944)
Probab=96.21 E-value=0.0049 Score=43.48 Aligned_cols=27 Identities=19% Similarity=0.117 Sum_probs=24.3
Q ss_pred ChhHHHHHHhhChHHHHHHHHHhcCCC
Q 018537 60 DPELRSVLELATDSELYELERILFGPS 86 (354)
Q Consensus 60 ~~ELr~vLelATdeEL~~L~~ILf~~s 86 (354)
-|+..+||..||+|||++|++||++-+
T Consensus 3 ~D~DLeFL~~cs~edL~~L~~~Lt~dk 29 (35)
T PF13099_consen 3 YDSDLEFLAECSNEDLKDLVDILTHDK 29 (35)
T ss_pred cCcchHHHHHCCHHHHHHHHHHHhcCC
Confidence 367789999999999999999999865
No 6
>PF03250 Tropomodulin: Tropomodulin; InterPro: IPR004934 Actin filaments have an intrinsic polarity, each with a fast-growing (barbed) end and a slow-growing (pointed) end. To regulate the dynamics at these ends, capping proteins have evolved that specifically bind to either the barbed or the pointed ends of the filament, where they block the association and dissociation of monomers. Pointed ends, for which actin monomers have significantly lower association and dissociation rate-constants than for barbed, are capped by either the Arp2/3 complex or tropomodulins []. Tropomodulin is a novel tropomyosin regulatory protein that binds to the end of erythrocyte tropomyosin and blocks head-to-tail association of tropomyosin along actin filaments []. Limited proteolysis shows this protein is composed of two domains. The unstructured tropomyosin-binding region at the N terminus has an actin pointed-end-capping activity that is dramatically up-regulated by tropomyosin coating of the actin filament[]. The second region is found near the C terminus. This tropomyosin-independent capping-domain caps pure actin. ; GO: 0005523 tropomyosin binding, 0005856 cytoskeleton
Probab=75.97 E-value=3.8 Score=37.24 Aligned_cols=31 Identities=45% Similarity=0.549 Sum_probs=27.0
Q ss_pred cCCCCCCChhHHHHHHhhChHHHHHHHHHhc
Q 018537 53 SKGQGAFDPELRSVLELATDSELYELERILF 83 (354)
Q Consensus 53 ~~~~~~~~~ELr~vLelATdeEL~~L~~ILf 83 (354)
....-..++||.++|.-|||+||.+|..||=
T Consensus 109 ~ee~v~ldpeleeaL~~Atd~El~dlAaILG 139 (147)
T PF03250_consen 109 KEEQVTLDPELEEALSNATDAELCDLAAILG 139 (147)
T ss_pred cccccccCHHHHHHHhcCcHHHHHHHHHHHh
Confidence 3345678899999999999999999999984
No 7
>PF02173 pKID: pKID domain; InterPro: IPR003102 The nuclear factor CREB activates transcription of target genes in part through direct interactions with the KIX domain of the coactivator CBP in a phosphorylation-dependent manner. CBP and P300 bind to the pKID (phosphorylated kinase-inducible-domain) domain of CREB [].; GO: 0005515 protein binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1KDX_B.
Probab=53.57 E-value=8.8 Score=28.25 Aligned_cols=13 Identities=46% Similarity=0.810 Sum_probs=11.5
Q ss_pred CCccHHHHHHHHH
Q 018537 138 WRPSYRNVLLAVR 150 (354)
Q Consensus 138 ~gpsYReVLldVc 150 (354)
++||||.||-|+.
T Consensus 18 RRPSYRKIlndLs 30 (41)
T PF02173_consen 18 RRPSYRKILNDLS 30 (41)
T ss_dssp TSTHHHHHHHHHH
T ss_pred hCchHHHHHHHhc
Confidence 6999999999874
No 8
>PF04542 Sigma70_r2: Sigma-70 region 2 ; InterPro: IPR007627 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 2 of sigma-70 is the most conserved region of the entire protein. All members of this class of sigma-factor contain region 2. The high conservation is due to region 2 containing both the -10 promoter recognition helix and the primary core RNA polymerase binding determinant. The core-binding helix, interacts with the clamp domain of the largest polymerase subunit, beta prime [, ]. The aromatic residues of the recognition helix, found at the C terminus of this domain are thought to mediate strand separation, thereby allowing transcription initiation [, ].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1OR7_B 1H3L_B 2Z2S_C 2Q1Z_C 2O7G_B 1SMY_F 1IW7_P 2BE5_F 2A6E_F 2CW0_F ....
Probab=35.74 E-value=63 Score=23.22 Aligned_cols=33 Identities=24% Similarity=0.384 Sum_probs=27.5
Q ss_pred HHHHHHHHHhhcCcCCCCCCChHHHHHHHHHHHHhh
Q 018537 142 YRNVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQE 177 (354)
Q Consensus 142 YReVLldVckkLkV~~s~~lsT~dLEaeIflhLL~~ 177 (354)
|...+..+|.+. ++.....+|+-+|.|+++++.
T Consensus 5 ~~~~l~~~~~~~---~~~~~~~eD~~qe~~~~l~~~ 37 (71)
T PF04542_consen 5 YYPLLYRYARRY---TGDPEDAEDLVQEAFIKLWRA 37 (71)
T ss_dssp THHHHHHHHHTC---TTCSSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH---hCCHhhHHHHhhHHHHHHHhh
Confidence 677788888888 555568999999999999987
No 9
>cd01915 CODH Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to that of hybrid cluster protein (HCP) and a Ni-Fe-S center (C-cluster) where carbon monoxide oxidation occurs. Bifunctional CODH forms a heterotetramer with acetyl-CoA synthase (ACS) consisting of two CODH and two ACS subunits while monofunctional CODH forms a homodimer. Bifunctional CODH reduces carbon dioxide to carbon monoxide and ACS then synthesizes acetyl-CoA from carbon monoxide, CoA, and a methyl group donated by another protein (CoFeSP), while monofunctional CODH oxidizes carbon monoxide to carbon dioxide. CODH and ACS each have a metal cluster referred to as the C- and A-clusters, respectively.
Probab=35.10 E-value=1.3e+02 Score=33.12 Aligned_cols=52 Identities=19% Similarity=0.225 Sum_probs=40.8
Q ss_pred cCCCccHH----HHHHHHHhhcCcCCCCCCChHHHHHHHHHHHHhhhhccccCCCCCC
Q 018537 136 RGWRPSYR----NVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQEYASEESGVFPGS 189 (354)
Q Consensus 136 RG~gpsYR----eVLldVckkLkV~~s~~lsT~dLEaeIflhLL~~~~~~~~~~~~~a 189 (354)
.|+. .|+ +=|..||++|+|+-+. -+..||=.|+=..+|+||.....++..+.
T Consensus 99 ~g~~-~y~I~d~~KL~~~A~~~gi~t~g-~~~~eiA~~va~~~l~d~~~~~~~~~~~~ 154 (613)
T cd01915 99 EGKT-DYEIKDEEKLKALAKRLGIDTEG-KSINEIAVEVAEIALEDFGRPREEPSRWV 154 (613)
T ss_pred cCCC-CCccCCHHHHHHHHHHcCCCcCC-CCHHHHHHHHHHHHHHHhcCCCCcchhhH
Confidence 3544 455 8899999999999776 56899999999999999987644455444
No 10
>PF11248 DUF3046: Protein of unknown function (DUF3046); InterPro: IPR021408 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=32.60 E-value=89 Score=24.85 Aligned_cols=45 Identities=27% Similarity=0.298 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHccc-----ccch-hhhhcCC--------CccHHHHHHHHHhhcCcCCC
Q 018537 114 EDFIASLESRFLFL-----AADA-RSTLRGW--------RPSYRNVLLAVRKNLNIPCS 158 (354)
Q Consensus 114 ~~~i~~Ie~rfrfl-----AaD~-~s~LRG~--------gpsYReVLldVckkLkV~~s 158 (354)
..||++++.+|==. +.|- .+-|-|+ |+.=|+|=..||+.++||-+
T Consensus 4 teFw~~~~~~FG~~~~~~la~dhvL~~LGgrT~~eAL~~G~dpr~VW~AlC~~~dVP~~ 62 (63)
T PF11248_consen 4 TEFWQLMEEEFGPAYGRSLARDHVLSELGGRTAAEALEAGVDPRDVWRALCDAFDVPEE 62 (63)
T ss_pred HHHHHHHHHHhCchhHHHHHHhcchhhcCCcCHHHHHHcCCCHHHHHHHHHHHcCCCCC
Confidence 45888888887432 2222 2333332 88999999999999999965
No 11
>PF01371 Trp_repressor: Trp repressor protein; InterPro: IPR000831 The Trp repressor (TrpR) binds to at least five operators in the Escherichia coli genome, repressing gene expression. The operators at which it binds vary considerably in DNA sequence and location within the promoter; when bound to the Trp operon it recognises the sequence 5'-ACTAGT-3' and acts to prevent the initiation of transcription. The TrpR controls the trpEDCBA (trpO) operon and the genes for trpR, aroH, mtr and aroL, which are involved in the biosynthesis and uptake of the amino acid tryptophan []. The repressor binds to the operators only in the presence of L-tryptophan, thereby controlling the intracellular level of its effector; the complex also regulates Trp repressor biosynthesis by binding to its own regulatory region. TrpR acts as a dimer that is composed of identical 6-helical subunits, where four of the helices form the core of the protein and intertwine with the corresponding helices from the other subunit.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3FRW_H 3KOR_A 3SSW_N 1P6Z_N 1CO0_B 1JHG_A 1WRT_S 1WRS_R 1WRP_R 1RCS_B ....
Probab=32.48 E-value=70 Score=26.59 Aligned_cols=23 Identities=26% Similarity=0.476 Sum_probs=14.4
Q ss_pred HHHHHhhChHHHHHHHHHhcCCC
Q 018537 64 RSVLELATDSELYELERILFGPS 86 (354)
Q Consensus 64 r~vLelATdeEL~~L~~ILf~~s 86 (354)
..++.+-+.||.++|.+-|+.+.
T Consensus 8 ~~i~~l~~~ee~~~f~~dL~T~~ 30 (87)
T PF01371_consen 8 EAILSLKDEEECYDFFEDLCTPD 30 (87)
T ss_dssp HHHHCHHCHHCHHHHHHHHSSHH
T ss_pred HHHHHcCCHHHHHHHHHHhCCHH
Confidence 34556666677777766666544
No 12
>KOG2998 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.92 E-value=36 Score=34.37 Aligned_cols=82 Identities=26% Similarity=0.346 Sum_probs=56.0
Q ss_pred hhhcCCCccHHHHHHHHHhhcCcCCCCCCChHHHHHHHHHHHHhhhhccccCCCCCCcccCCchhhhhHHHhhhh-hHHH
Q 018537 133 STLRGWRPSYRNVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQEYASEESGVFPGSWENSEASDAQNSLELGLS-QWKV 211 (354)
Q Consensus 133 s~LRG~gpsYReVLldVckkLkV~~s~~lsT~dLEaeIflhLL~~~~~~~~~~~~~awek~~~~~e~~sl~~~l~-~~~~ 211 (354)
...|...+-|++-+.+|.+...+||++.-.+.+ | +|.+ .|+.+-++ +.++..++ +|+
T Consensus 98 ~~~~~~~~~~~~l~~~~e~~~~~~yDs~n~~H~---e----~L~~-----------lwk~~~p~---~~l~~lvs~qW~- 155 (302)
T KOG2998|consen 98 AACRHLIPGYRELLQRLEELRQEPYDSDNPDHE---E----LLLD-----------LWKLLYPD---KELPGLVSKQWK- 155 (302)
T ss_pred hhccccccCcHHHHHHHHHHHhccCCCCChhHH---H----HHHH-----------HHHHhCCC---CccchhHHHHHH-
Confidence 455667999999999999999999998876442 2 3455 67767665 23334444 676
Q ss_pred HHHHhhhcCc-hhhHHHHHhcchHHHHHHHHH
Q 018537 212 QALAAFNAGA-VELKSMMLKGGGIYTLVKIYQ 242 (354)
Q Consensus 212 ~~la~~~lg~-~~~~~~lLKGgsalavssi~~ 242 (354)
++|= .+--++=|+|+|++++-.++=
T Consensus 156 ------emGfQG~dPsTDFRG~GfL~LeNLly 181 (302)
T KOG2998|consen 156 ------EMGFQGADPSTDFRGMGFLGLENLLY 181 (302)
T ss_pred ------HhccCCCCCCcccccchHHHHHHHHH
Confidence 4554 223355689999988876554
No 13
>PRK09535 btuC corrinoid ABC transporter permease; Reviewed
Probab=31.44 E-value=90 Score=32.06 Aligned_cols=38 Identities=18% Similarity=0.200 Sum_probs=29.5
Q ss_pred HHHHHHhHhHHHHH-HHHHHHHHHhhcccchHHHHHHHH
Q 018537 300 LRNMVALLGPVLWG-TFLADVVIQMLGTDYARILRAIYA 337 (354)
Q Consensus 300 ~Rs~~~llGPilW~-wf~aDL~~~aigT~Y~RiIpaI~a 337 (354)
+=..-++.|||+|+ -..--++-+..|+||+..+|....
T Consensus 282 ~a~aVa~~G~IgFVGLivPHiaR~l~g~~~r~llp~S~L 320 (366)
T PRK09535 282 TAAAVAVAGVIGFVGLIVPHVMRLLVGPDHRILLPTSAL 320 (366)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHhCcCcchHHHHHHH
Confidence 33456789999999 555667777789999999997644
No 14
>TIGR02989 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are abundantly found in the species Rhodopirellula baltica (11), and Verrucomicrobium spinosum (16) and to a lesser extent in Gemmata obscuriglobus (2).
Probab=31.15 E-value=61 Score=27.12 Aligned_cols=35 Identities=17% Similarity=0.263 Sum_probs=27.9
Q ss_pred cHHHHHHHHHhhcCcCCCCCCChHHHHHHHHHHHHhhh
Q 018537 141 SYRNVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQEY 178 (354)
Q Consensus 141 sYReVLldVckkLkV~~s~~lsT~dLEaeIflhLL~~~ 178 (354)
.|+..|..+|.++.. +....||+.+|.|+++++..
T Consensus 9 ~~~~~l~~~~~~~~~---~~~~aEDivQe~~l~l~~~~ 43 (159)
T TIGR02989 9 RHQRSLRAFVRSLVP---DRDDADDVLQETFVTAWRKF 43 (159)
T ss_pred HhHHHHHHHHHHHcC---ChhhHHHHHHHHHHHHHHHH
Confidence 477788888888844 44567999999999999873
No 15
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=27.60 E-value=45 Score=27.55 Aligned_cols=20 Identities=25% Similarity=0.474 Sum_probs=18.8
Q ss_pred CCCccHHHHHHHHHhhcCcC
Q 018537 137 GWRPSYRNVLLAVRKNLNIP 156 (354)
Q Consensus 137 G~gpsYReVLldVckkLkV~ 156 (354)
..+++|.++.-.|++|||++
T Consensus 18 p~~~~y~~L~~ki~~kLkl~ 37 (80)
T cd06406 18 ARGLSYATLLQKISSKLELP 37 (80)
T ss_pred CCCCCHHHHHHHHHHHhCCC
Confidence 56999999999999999997
No 16
>PF15008 DUF4518: Domain of unknown function (DUF4518)
Probab=23.59 E-value=2e+02 Score=28.59 Aligned_cols=89 Identities=20% Similarity=0.328 Sum_probs=64.0
Q ss_pred hhHHHHHHhhChHHHHHHHHHhcCCCCCCcchhhhcccCCcchhHHhhhhhHHHHHHHHHHHHHcccccchhhhhcCCCc
Q 018537 61 PELRSVLELATDSELYELERILFGPSYFSPLLKSFTKRADVDYVMIEQDLEEREDFIASLESRFLFLAADARSTLRGWRP 140 (354)
Q Consensus 61 ~ELr~vLelATdeEL~~L~~ILf~~s~fsPLlkSi~~r~~~Dy~~~~~~~~~R~~~i~~Ie~rfrflAaD~~s~LRG~gp 140 (354)
..+|++|.+-+++||..|++..+.+- ..|- +|+.=++.| .-.--|+..+||. +.
T Consensus 7 ~G~rdlL~~l~~~~LlaL~~TVTn~~-i~~e--------------------~~~EAi~aI----L~~s~~a~~LL~r-kk 60 (262)
T PF15008_consen 7 EGCRDLLGLLDNDDLLALADTVTNRL-IKPE--------------------SRQEAIDAI----LLYSQDAEELLRR-KK 60 (262)
T ss_pred HHHHHHHhcCChHHHHHHHHHHhcCc-eecC--------------------CHHHHHHHH----HHhCcCHHHHHhc-cc
Confidence 45899999999999999999999775 3333 222233333 2345577788874 67
Q ss_pred cHHHHHHHHHhhcCcCCCCCCChHHHHHHHHHHHHhhhh
Q 018537 141 SYRNVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQEYA 179 (354)
Q Consensus 141 sYReVLldVckkLkV~~s~~lsT~dLEaeIflhLL~~~~ 179 (354)
-+||||-.--..-+|.-+...+-.+ +..|.++-..
T Consensus 61 V~RelLFkYLa~kgv~v~p~s~K~~----LI~~~l~~W~ 95 (262)
T PF15008_consen 61 VKRELLFKYLASKGVIVPPDSEKAD----LIQRVLQYWS 95 (262)
T ss_pred ccHHHHHHHHHHcCCCCCCCccHHH----HHHHHHHHHh
Confidence 7999999999999999988887554 4555555544
No 17
>TIGR00759 aceE pyruvate dehydrogenase E1 component, homodimeric type. WARNING: This family is classified as subfamily rather than equivalog because it includes a counterexample from Pseudomonas putida, MdeB, that is active as an E1 component of an alpha-ketoglutarate dehydrogenase complex rather than a pyruvate dehydrogase complex. The second pyruvate dehydrogenase complex E1 protein from Alcaligenes eutrophus, PdhE, complements an aceE mutant of E. coli but is not part of a pyruvate dehydrogenase complex operon, is more similar to the Pseudomonas putida MdeB than to E. coli AceE, and may have also have a different primary specificity.
Probab=23.43 E-value=5.5e+02 Score=29.78 Aligned_cols=136 Identities=19% Similarity=0.290 Sum_probs=0.0
Q ss_pred ChhHHHHHHhhChHHHHHHHHHhcCCCCCCcchhhhcccCCcchhHHhhhhhHHHHHHHHHHHHHcccccch---hhhhc
Q 018537 60 DPELRSVLELATDSELYELERILFGPSYFSPLLKSFTKRADVDYVMIEQDLEEREDFIASLESRFLFLAADA---RSTLR 136 (354)
Q Consensus 60 ~~ELr~vLelATdeEL~~L~~ILf~~s~fsPLlkSi~~r~~~Dy~~~~~~~~~R~~~i~~Ie~rfrflAaD~---~s~LR 136 (354)
+|||.++++--|||||..| ++++-|+.. ..+.+..--..=+.=. +.|++
T Consensus 338 ~~~l~~lv~~~sD~~i~~l------------------~rgGHD~~~----------I~~A~~~A~~~~grPTvIlA~TvK 389 (885)
T TIGR00759 338 TPELKALVADMSDADIWAL------------------NRGGHDPRK----------VYAAYAAAQEHKGQPTVILAKTIK 389 (885)
T ss_pred cHHHHHHhhccchhhhhhc------------------cCCCCCHHH----------HHHHHHHHHhCCCCCEEEEEeeee
Q ss_pred CCCcc---------------HHHHHHHHHhhcCcCCCCCCChHHHHHHHHHHHHhhhhccccCCCCCCcccCCchhhhhH
Q 018537 137 GWRPS---------------YRNVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQEYASEESGVFPGSWENSEASDAQNS 201 (354)
Q Consensus 137 G~gps---------------YReVLldVckkLkV~~s~~lsT~dLEaeIflhLL~~~~~~~~~~~~~awek~~~~~e~~s 201 (354)
|+|++ =.+-|.+.++++++| .+-++||. . .|.+.++..+.-.
T Consensus 390 G~G~~~~~e~~n~~H~~k~l~~e~l~~~r~~~g~~----~~d~~~~~--------~-----------~~~~~~~~s~e~~ 446 (885)
T TIGR00759 390 GYGMGDAAESRNTAHQVKKLEVDALKNFRDRFELP----LSDAQVEE--------L-----------PYYHPGEGSPEVR 446 (885)
T ss_pred cCCCChhhCCCcccccCCCCCHHHHHHHHHHcCCC----CChhHhcc--------C-----------CCcCCCCCCHHHH
Q ss_pred HHhhhhhHHHHHHH-----------hhhcCchhhHHHHHhcc--hHHHHHHHHHHHHHHhHH
Q 018537 202 LELGLSQWKVQALA-----------AFNAGAVELKSMMLKGG--GIYTLVKIYQLLMRNLSG 250 (354)
Q Consensus 202 l~~~l~~~~~~~la-----------~~~lg~~~~~~~lLKGg--salavssi~~~l~~~ls~ 250 (354)
....-. +.|. ...++.-+....++||+ .-++-+..+-.++..|.+
T Consensus 447 y~~~rr----~~Lgg~~p~R~~~~~~l~vP~l~~~~~~~~~~~~~~~STt~afvr~l~~L~r 504 (885)
T TIGR00759 447 YLLARR----QALGGYLPARRTFAEHLTVPALEFFGALLKGSGEREVSTTMAFVRILNKLLK 504 (885)
T ss_pred HHHHHH----HHhCCCCCCcCCCCCCCCCCCchhhHHHhcCCCCCCccHHHHHHHHHHHHhc
No 18
>PRK14082 hypothetical protein; Provisional
Probab=23.14 E-value=65 Score=25.92 Aligned_cols=16 Identities=31% Similarity=0.640 Sum_probs=14.5
Q ss_pred ChHHHHHHHHHHHHhh
Q 018537 162 STEDLEAEIFLHLLQE 177 (354)
Q Consensus 162 sT~dLEaeIflhLL~~ 177 (354)
.-||||+||=++++++
T Consensus 33 eREDLeQElk~Ki~eK 48 (65)
T PRK14082 33 EREDLEQELKIKIIEK 48 (65)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 3689999999999988
No 19
>smart00530 HTH_XRE Helix-turn-helix XRE-family like proteins.
Probab=22.54 E-value=1.3e+02 Score=19.16 Aligned_cols=40 Identities=15% Similarity=0.130 Sum_probs=24.0
Q ss_pred HHHHHHcccccchhhhhcCCCccHHHHHHHHHhhcCcCCC
Q 018537 119 SLESRFLFLAADARSTLRGWRPSYRNVLLAVRKNLNIPCS 158 (354)
Q Consensus 119 ~Ie~rfrflAaD~~s~LRG~gpsYReVLldVckkLkV~~s 158 (354)
.++.++-.=-+...+..+|....-.+.+..+|+.++++..
T Consensus 15 ~la~~~~i~~~~i~~~~~~~~~~~~~~~~~i~~~~~~~~~ 54 (56)
T smart00530 15 ELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLD 54 (56)
T ss_pred HHHHHhCCCHHHHHHHHCCCCCCCHHHHHHHHHHhCCChh
Confidence 3444443322333455667644456667889999999753
No 20
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=21.54 E-value=2e+02 Score=33.57 Aligned_cols=83 Identities=12% Similarity=0.272 Sum_probs=58.0
Q ss_pred ccCCcchhHHhh--hhhHHHHHHHHHHHHHcccccchh---------------h-hhcC-C-CccHHHHHH---------
Q 018537 97 KRADVDYVMIEQ--DLEEREDFIASLESRFLFLAADAR---------------S-TLRG-W-RPSYRNVLL--------- 147 (354)
Q Consensus 97 ~r~~~Dy~~~~~--~~~~R~~~i~~Ie~rfrflAaD~~---------------s-~LRG-~-gpsYReVLl--------- 147 (354)
.+|++++.|++. .--+-++.++.+|+=+++.+.... . -+.+ + +++|.|.+.
T Consensus 855 ~rHnpEFTmLE~y~a~~dy~d~m~l~E~li~~i~~~v~~~~~~~~~~~~~~~~~i~~~~pf~rit~~eai~~~~g~~~~~ 934 (1094)
T PRK02983 855 ATHNPEFTLLEAYQAHADYDTMRDLTRELIQNAAQAAHGAPVVMRPDGDGVLEPVDISGPWPVVTVHDAVSEALGEEIDP 934 (1094)
T ss_pred CCccccccchhhhhhcCCHHHHHHHHHHHHHHHHHHHhCCcEEeeCCccccccccccCCCceEEEHHHHHHHHhCCCCCC
Confidence 578888888433 223566778888877776643221 0 0222 2 788888764
Q ss_pred --------HHHhhcCcCCCCCCChHHHHHHHHHHHHhhhh
Q 018537 148 --------AVRKNLNIPCSSKLSTEDLEAEIFLHLLQEYA 179 (354)
Q Consensus 148 --------dVckkLkV~~s~~lsT~dLEaeIflhLL~~~~ 179 (354)
++|++.++++....+..+|-.++|.++++++-
T Consensus 935 ~~~~~~l~~~~~~~~i~~~~~~~~~~l~~~l~~~~ve~~~ 974 (1094)
T PRK02983 935 DTPLAELRKLCDAAGIPYRTDWDAGAVVLELYEHLVEDRT 974 (1094)
T ss_pred CCCHHHHHHHHHHcCCCCCCCCCHhHHHHHHHHHHHHhhc
Confidence 47889999998888888999999999998754
No 21
>PF07176 DUF1400: Alpha/beta hydrolase of unknown function (DUF1400); InterPro: IPR010802 This domain is specific to cyanobacterial proteins, its function and the function of the proteins it is associated with, are uncharacterised.
Probab=21.31 E-value=1.4e+02 Score=26.02 Aligned_cols=36 Identities=28% Similarity=0.445 Sum_probs=32.7
Q ss_pred CCCCChhHHHHHHhhChHHHHHHHHHhcCCCCCCcc
Q 018537 56 QGAFDPELRSVLELATDSELYELERILFGPSYFSPL 91 (354)
Q Consensus 56 ~~~~~~ELr~vLelATdeEL~~L~~ILf~~s~fsPL 91 (354)
.|..++||+..+.+.+.++.+.|-++|..+=.++|-
T Consensus 27 tG~~~~~L~~~~~ll~~~~~~~lr~~L~~~~~~~~~ 62 (127)
T PF07176_consen 27 TGEISPELAFYLNLLSPQQRQQLRELLNTPIPIDPV 62 (127)
T ss_pred cCCCCHHHHHHHHhcCHhhHHHHHHHHcCCCCCCHH
Confidence 677899999999999999999999999988777776
No 22
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=21.29 E-value=1.4e+02 Score=22.75 Aligned_cols=43 Identities=12% Similarity=0.247 Sum_probs=30.1
Q ss_pred hhHHHHHHHHHHHHHcccccchhhhhcCCCccHHHHHHHHHhhc
Q 018537 110 LEEREDFIASLESRFLFLAADARSTLRGWRPSYRNVLLAVRKNL 153 (354)
Q Consensus 110 ~~~R~~~i~~Ie~rfrflAaD~~s~LRG~gpsYReVLldVckkL 153 (354)
..+++..|+.|..+|-=.+.. ......++--|+++...+.+++
T Consensus 34 ~~~k~~~W~~I~~~lN~~~~~-~Rs~~~lkkkW~nlk~~~Kk~~ 76 (78)
T PF13873_consen 34 NKEKRKAWEEIAEELNALGPG-KRSWKQLKKKWKNLKSKAKKKL 76 (78)
T ss_pred HHHHHHHHHHHHHHHHhcCCC-CCCHHHHHHHHHHHHHHHHHHh
Confidence 566788889999999776664 3334445667777777776664
No 23
>TIGR03869 F420-0_ABCperm proposed F420-0 ABC transporter, permease protein. his small clade of ABC-type transporter permease protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and an ATPase (TIGR03873). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with an F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this permease protein is a component of a F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.
Probab=21.14 E-value=1.9e+02 Score=29.14 Aligned_cols=40 Identities=15% Similarity=0.145 Sum_probs=29.9
Q ss_pred HHHHHhHhHHHHH-HHHHHHHHHhhcccchHHHHHHHHHHH
Q 018537 301 RNMVALLGPVLWG-TFLADVVIQMLGTDYARILRAIYAFAQ 340 (354)
Q Consensus 301 Rs~~~llGPilW~-wf~aDL~~~aigT~Y~RiIpaI~alAQ 340 (354)
=..-+++|||.|+ -...-++=+..|.+|+..+|+...+.-
T Consensus 241 a~~va~vG~I~FvGLi~Phiar~l~g~~~~~ll~~s~l~Ga 281 (325)
T TIGR03869 241 GALVSVSGAIGFVGLILPHAVRLLTGPRHRLLLPVSALAGA 281 (325)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHH
Confidence 3456889999999 455566666677999999998766443
Done!