Query 040842
Match_columns 394
No_of_seqs 125 out of 681
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 12:21:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040842.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040842hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03140 DUF247: Plant protein 100.0 5E-100 1E-104 769.0 29.6 350 40-394 1-364 (391)
2 PF09069 EF-hand_3: EF-hand; 50.5 56 0.0012 26.3 5.9 57 77-133 2-76 (90)
3 PF14579 HHH_6: Helix-hairpin- 46.9 91 0.002 24.6 6.7 78 265-347 1-82 (90)
4 KOG3110 Riboflavin kinase [Coe 42.2 26 0.00056 30.4 2.9 63 55-117 65-139 (153)
5 PHA02103 hypothetical protein 40.3 58 0.0013 27.0 4.6 77 268-347 11-104 (135)
6 PHA02755 hypothetical protein; 22.7 92 0.002 24.4 2.8 30 60-89 9-42 (96)
7 PF07131 DUF1382: Protein of u 21.9 61 0.0013 24.0 1.6 17 255-271 13-29 (61)
8 PF07544 Med9: RNA polymerase 21.1 2.3E+02 0.005 22.2 4.9 38 76-113 33-70 (83)
9 PRK00448 polC DNA polymerase I 19.5 4.2E+02 0.0092 32.0 8.6 95 257-358 1340-1436(1437)
10 KOG4134 DNA-dependent RNA poly 16.9 1.3E+02 0.0029 28.3 3.1 37 36-83 23-59 (253)
No 1
>PF03140 DUF247: Plant protein of unknown function; InterPro: IPR004158 The function of the plant proteins constituting this family is unknown.
Probab=100.00 E-value=5.5e-100 Score=769.04 Aligned_cols=350 Identities=44% Similarity=0.739 Sum_probs=309.9
Q ss_pred EeecCCCCccCCCCCcccceEeeCCCCCCCCccchhHHHHHHHHHHHHhcCCCchhcHHHHHHHHHHhHHHHHhhcccCC
Q 040842 40 IDRAGVAVPQEHKDFYIPDKVSIGPLHYGEGPLKAMEEHKWRYLYALLNRKPDIEASLDACVKALKGLEHKARLCYVENI 119 (394)
Q Consensus 40 I~rVP~~lr~~n~~aY~P~vVSIGPyHhg~~~L~~mE~~K~~~l~~~l~~~~~~~~~l~~~~~~i~~~e~~~R~~Y~~~~ 119 (394)
|||||+++|++|++||+|++|||||||||+++|+.||++||+|++.|+++++..+.++++++++|++++++||+||++++
T Consensus 1 I~rVP~~lr~~~~~~Y~P~~VsIGPyH~g~~~L~~mE~~K~~~l~~~l~~~~~~~~~l~~~~~~i~~~e~~~R~~Y~~~~ 80 (391)
T PF03140_consen 1 IYRVPESLRDVNPKAYTPQVVSIGPYHHGKPDLQEMEEHKLRYLHRFLKRSGAPAESLEDYVEAIRSLEEEARACYAEDI 80 (391)
T ss_pred CcCCCHHHccCCchhcCCceEEeCCCCCCchhhhhhHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHHHHHHhcccc
Confidence 89999999999999999999999999999999999999999999999999842238999999999999999999999999
Q ss_pred C-CChHHHHHHHHHHHHHHHHHHHHHhhhhhhccCCC-CCCCCCcchhHhHHHHhhcccchHHHHHHHHhhcC-CCcccc
Q 040842 120 N-ISSDEFVKMMLLDGGFIIELFLRHAVKVLRRRNDP-LFSSPGSLSDLRRDMMLLENQIPFFILQRLFEIVP-LPEKFN 196 (394)
Q Consensus 120 ~-~~~~ef~~MmllDGCFiLe~~~~~~~~~~~~~~d~-~~~~~~~~~~i~~DllLLENQiPffVL~~L~~~~~-~~~~~~ 196 (394)
. +++++|++||++|||||||+|+++.. ..+.+|| ++..+|.+..|++||+|||||||||||++||++.. ......
T Consensus 81 ~~~~~~~f~~MmllDgCFlLe~~~~~~~--~~~~~d~~~~~~~~~~~~i~~Dl~LLENQIPffVL~~L~~l~~~~~~~~~ 158 (391)
T PF03140_consen 81 DDMSSDEFVEMMLLDGCFLLEFFLRYSR--SDGENDPGIFSRPWLLSAIRRDLLLLENQIPFFVLEKLFELLFGSKSDVD 158 (391)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHhhhh--ccccccccccccccccccchhheeeecccchHHHHHHHHHHhcccccCcc
Confidence 7 99999999999999999999998765 2345688 88999999999999999999999999999999974 344556
Q ss_pred hhHHHHHHHHhhhcCCCCcccccccccCCCCChHHHHHhhhcCC--CCCCCCC-C------ccccccccCHHHHHHcCcE
Q 040842 197 QSLTSLAFQFFRNMIPGDRTIHRERFSLDGNHLLDLIRHCFLPT--IPRVKPS-E------ANATQRLESAKMLKEAGVL 267 (394)
Q Consensus 197 ~~l~~l~~~~f~~~~~~~~~~~~~~~~~~~~HlLdL~~~~~~~~--~~~~~~~-~------~~~~~~~~sA~eL~~aGVk 267 (394)
.++.+++.+||....+...+ .......+++|||||+|++++|+ ...+.+. + ...+..+||||||++|||+
T Consensus 159 ~~l~~l~~~~~~~~~~~~~~-~~~~~~~~~~HlL~L~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~sA~eL~~aGV~ 237 (391)
T PF03140_consen 159 ESLIDLVLKFFYKHWPSWPP-DEPISNPEPHHLLDLLRMSLLPSPPSSSPTPPRPPRSNGEKPPPKRIRSATELREAGVK 237 (391)
T ss_pred chHHHHHHhHhccccccccc-cccccCCCCCChHHHHHHHhccccCCcccCCCCcccccccccccccCCCHHHHHhCCcE
Confidence 78999999999433222111 01234567899999999999993 2211111 1 1246789999999999999
Q ss_pred EeeCCCC-CccceEEcCcEEEeCcEEEecChhHHHHHHHHHHhcCCCCCcccchHHHHHhhhCCChhhHHHHHHCCceec
Q 040842 268 IKKSKTE-NLLDIKFAHGVLEIPPIRVHQHTESLLRNLIAFEQCPCDNTQHISSYVILMKSLIPTRKDAKSLKRRQILIN 346 (394)
Q Consensus 268 fk~~~~~-~~lDI~F~~G~L~iP~l~id~~T~~llrNLiA~Eq~~~~~~~~vtsYv~fm~~Li~t~~DV~lL~~~gIi~~ 346 (394)
||++++. +++||+|++|+|+||+|.||++|+++||||||||||+...+.+||||+.||++||+|++||++|+++|||+|
T Consensus 238 fk~~~~~~~~lDv~F~~G~L~IP~L~id~~T~~~lrNLiA~Eq~~~~~~~~vtsY~~fm~~Li~t~~DV~lL~~kgIi~~ 317 (391)
T PF03140_consen 238 FKPSETDRSLLDVKFKKGVLEIPPLYIDDNTESLLRNLIAFEQCHPPTGSYVTSYVFFMDSLINTPEDVELLRRKGIIVN 317 (391)
T ss_pred EeeccCccccccceecCCEEEeCeEEECCcchHHHhHHHHHHHHhccCCchHhHHHHHHHHHhCcHhhHHHHHhCCeEec
Confidence 9999876 599999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCChhH-HHHHHhhhcCCccCCCCCccHHHHHHHHHhhhccCCcCCC
Q 040842 347 YDVDENDG-SRLFDRLSKGVNEGDLKDFCFDGLCEQVMKYKKTGWRRVY 394 (394)
Q Consensus 347 ~~lg~de~-a~lfn~L~~~~~~~~~~~~~~~~v~~~ln~~~~~rw~~w~ 394 (394)
+ +|+|++ |+|||+||++++.+ ..++||.+++++||+||++||++|+
T Consensus 318 ~-l~~d~eva~~F~~L~~~v~~~-~~~~~~~~v~~~l~~~~~~~~~~~~ 364 (391)
T PF03140_consen 318 W-LGSDEEVAKLFNGLCKGVVFD-VDDSYYSDVCEDLNKYYQSRWNRWW 364 (391)
T ss_pred C-CCCcHHHHHHHHHHhccCCCC-CccHHHHHHHHHHHHHhcChHHHHH
Confidence 9 999999 99999999999983 5579999999999999999999995
No 2
>PF09069 EF-hand_3: EF-hand; InterPro: IPR015154 Like other EF hand domains, this domain forms a helix-loop-helix motif, though since it does not contain the canonical pattern of calcium binding residues found in many EF hand domains, it does not bind calcium ions. The main function of this domain is the provision of specificity in beta-dystroglycan recognition, though in dystrophin it serves an additional role: stabilisation of the WW domain (IPR001202 from INTERPRO), enhancing dystroglycan binding []. ; PDB: 1EG3_A 1EG4_A.
Probab=50.47 E-value=56 Score=26.32 Aligned_cols=57 Identities=21% Similarity=0.518 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHhcCCC--chhcHHHHHHHHHH-------------hHHHHHhhccc---CCCCChHHHHHHHHHH
Q 040842 77 EHKWRYLYALLNRKPD--IEASLDACVKALKG-------------LEHKARLCYVE---NINISSDEFVKMMLLD 133 (394)
Q Consensus 77 ~~K~~~l~~~l~~~~~--~~~~l~~~~~~i~~-------------~e~~~R~~Y~~---~~~~~~~ef~~MmllD 133 (394)
+.|.||+=+.+..+.+ ....++.++..+.. .|..+|+|+.. ..+++.++|++.|..|
T Consensus 2 ~dKyRylFslisd~~g~~~~~~l~~lL~d~lqip~~vgE~~aFg~~e~sv~sCF~~~~~~~~I~~~~Fl~wl~~e 76 (90)
T PF09069_consen 2 EDKYRYLFSLISDSNGCMDQRKLGLLLHDVLQIPRAVGEGPAFGYIEPSVRSCFQQVQLSPKITENQFLDWLMSE 76 (90)
T ss_dssp HHHHHHHHHHHS-TTS-B-HHHHHHHHHHHHHHHHHTT-GGGGT--HHHHHHHHHHTTT-S-B-HHHHHHHHHT-
T ss_pred hHHHHHHHHHHcCCCCCCcHHHHHHHHHHHHHHHHHhCccccccCcHHHHHHHhcccCCCCccCHHHHHHHHHhC
Confidence 3588999999977532 12344444433322 46688999987 4478899999888655
No 3
>PF14579 HHH_6: Helix-hairpin-helix motif; PDB: 2HPM_A 2HPI_A 3E0D_A 3F2C_A 3F2B_A 3F2D_A 2HQA_A 2HNH_A.
Probab=46.87 E-value=91 Score=24.60 Aligned_cols=78 Identities=8% Similarity=0.163 Sum_probs=54.8
Q ss_pred CcEEeeCC-CCCccceEEcC--cEEEeCcEEEecChhHHHHHHHHHHhcCCCCCcccchHHHHHhhh-CCChhhHHHHHH
Q 040842 265 GVLIKKSK-TENLLDIKFAH--GVLEIPPIRVHQHTESLLRNLIAFEQCPCDNTQHISSYVILMKSL-IPTRKDAKSLKR 340 (394)
Q Consensus 265 GVkfk~~~-~~~~lDI~F~~--G~L~iP~l~id~~T~~llrNLiA~Eq~~~~~~~~vtsYv~fm~~L-i~t~~DV~lL~~ 340 (394)
||++.+.. ..|-.+-+..+ +.+.+|--.|..-.+.....+++-=+ ...++|+.-|...+ --+...++.|..
T Consensus 1 Gi~v~ppdIn~S~~~~~~~~~~~~Ir~gl~~Ikglg~~~a~~I~~~R~-----~g~f~s~~df~~R~~~i~~~~le~Li~ 75 (90)
T PF14579_consen 1 GIKVLPPDINKSDADFTVEDKNNAIRLGLSAIKGLGEEVAEKIVEERE-----NGPFKSLEDFIQRLPKINKRQLEALIK 75 (90)
T ss_dssp T-EEE---TTT-BSS-EEETT-TEEE-BGGGSTTS-HHHHHHHHHHHH-----CSS-SSHHHHHHHS-TS-HHHHHHHHH
T ss_pred CCEEeCCeecccCCCeEEECCCCEEeehHhhcCCCCHHHHHHHHHhHh-----cCCCCCHHHHHHHHhcCCHHHHHHHHH
Confidence 78887754 34445555555 79999999999999999888887655 22388888898888 778999999999
Q ss_pred CCceecc
Q 040842 341 RQILINY 347 (394)
Q Consensus 341 ~gIi~~~ 347 (394)
.|.+...
T Consensus 76 aGafd~~ 82 (90)
T PF14579_consen 76 AGAFDSF 82 (90)
T ss_dssp TTTTTTC
T ss_pred CCCcccc
Confidence 9999764
No 4
>KOG3110 consensus Riboflavin kinase [Coenzyme transport and metabolism]
Probab=42.25 E-value=26 Score=30.36 Aligned_cols=63 Identities=19% Similarity=0.206 Sum_probs=39.0
Q ss_pred cccceEeeC--CCCCCCC---ccchhHHHHHHHHHHHHhc------CCC-chhcHHHHHHHHHHhHHHHHhhccc
Q 040842 55 YIPDKVSIG--PLHYGEG---PLKAMEEHKWRYLYALLNR------KPD-IEASLDACVKALKGLEHKARLCYVE 117 (394)
Q Consensus 55 Y~P~vVSIG--PyHhg~~---~L~~mE~~K~~~l~~~l~~------~~~-~~~~l~~~~~~i~~~e~~~R~~Y~~ 117 (394)
--|.|+||| ||..++. ++..++..|.-+..+.++- .+. .=.++++++++|+.-.+.|++.-+.
T Consensus 65 v~kMvmSIGwNP~Y~N~~Kt~E~hlih~f~~DFYge~l~~~IvGyiRpe~nf~slesLi~~I~~Di~vA~~~l~~ 139 (153)
T KOG3110|consen 65 VFKMVMSIGWNPYYKNKKKTMELHLIHDFGEDFYGETLKVIIVGYIRPELNFDSLESLIEAIHGDIEVAKKVLDL 139 (153)
T ss_pred ceeEEEEcccCcccCCcccceeeeeehhcccchhhheeeEEEEEeeccccCcchHHHHHHHHHhhHHHHHHhhcC
Confidence 458999999 7776642 3333444444444333332 111 1357999999999999988886543
No 5
>PHA02103 hypothetical protein
Probab=40.35 E-value=58 Score=27.01 Aligned_cols=77 Identities=16% Similarity=0.291 Sum_probs=51.6
Q ss_pred EeeCCCCCccc--eEEc----CcE--EEeCcEEEecChhHHHHHHHHHHhcCCCC------C---cccchHHHHHhhhCC
Q 040842 268 IKKSKTENLLD--IKFA----HGV--LEIPPIRVHQHTESLLRNLIAFEQCPCDN------T---QHISSYVILMKSLIP 330 (394)
Q Consensus 268 fk~~~~~~~lD--I~F~----~G~--L~iP~l~id~~T~~llrNLiA~Eq~~~~~------~---~~vtsYv~fm~~Li~ 330 (394)
||+...++.+- |.|+ +.+ -+||.+..|....-+.|=.+-+|.|...- . .++-+|-... -.
T Consensus 11 fk~kd~rn~f~v~~~fsdkf~d~t~~~e~pai~~~~~~~ei~rl~~f~~kck~~yp~gkgg~~df~~ipdyyryf---~e 87 (135)
T PHA02103 11 FKPKDDRNTFMVKMHFSDKFSDATLEYEIPAIDADRTKAEIVRLITFMDKCKAEYPRGKGGQADFNHIPDYYRYF---GE 87 (135)
T ss_pred cCCccCcceEEEEEecccccCcceeEEeccccccchhhHHHHHHHHHHHHHHhhCCCCCCCccccccChHHHHHh---cc
Confidence 33444455443 4444 455 58999999999999999999999996431 1 3344554433 35
Q ss_pred ChhhHHHHHHCCceecc
Q 040842 331 TRKDAKSLKRRQILINY 347 (394)
Q Consensus 331 t~~DV~lL~~~gIi~~~ 347 (394)
.+|-|++-.+-||=.-+
T Consensus 88 e~e~ie~we~ygve~l~ 104 (135)
T PHA02103 88 EAEGVELWEEYGVEGLC 104 (135)
T ss_pred cchhhhHHHHhCcceee
Confidence 67788888888876544
No 6
>PHA02755 hypothetical protein; Provisional
Probab=22.71 E-value=92 Score=24.43 Aligned_cols=30 Identities=23% Similarity=0.354 Sum_probs=22.3
Q ss_pred EeeCCCCC---CCCccch-hHHHHHHHHHHHHhc
Q 040842 60 VSIGPLHY---GEGPLKA-MEEHKWRYLYALLNR 89 (394)
Q Consensus 60 VSIGPyHh---g~~~L~~-mE~~K~~~l~~~l~~ 89 (394)
+.||-|.. |.|...+ -|++|.+|+..++.-
T Consensus 9 m~igsypdavqgsp~~e~aee~ykmkyalgic~a 42 (96)
T PHA02755 9 MAIGSYPDAVQGSPAAEAAEEKYKMKYALGICQA 42 (96)
T ss_pred cccccCcccccCChHHHHHHHHHHHHHHHHHHHH
Confidence 57888865 6665544 478999999988865
No 7
>PF07131 DUF1382: Protein of unknown function (DUF1382); InterPro: IPR009814 This entry is represented by Bacteriophage lambda, Xis. This entry overlaps with IPR009750, both representing lambda Xis. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical Escherichia coli and Bacteriophage lambda-like proteins of around 60 residues in length. The function of this family is unknown.
Probab=21.92 E-value=61 Score=23.96 Aligned_cols=17 Identities=29% Similarity=0.304 Sum_probs=14.1
Q ss_pred ccCHHHHHHcCcEEeeC
Q 040842 255 LESAKMLKEAGVLIKKS 271 (394)
Q Consensus 255 ~~sA~eL~~aGVkfk~~ 271 (394)
+--|-.|..+||+|.+-
T Consensus 13 lE~A~~La~~GIRFVpi 29 (61)
T PF07131_consen 13 LEMAHSLAHIGIRFVPI 29 (61)
T ss_pred HHHHHHHHHcCceeecc
Confidence 45688999999999973
No 8
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=21.09 E-value=2.3e+02 Score=22.16 Aligned_cols=38 Identities=24% Similarity=0.333 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHhcCCCchhcHHHHHHHHHHhHHHHHh
Q 040842 76 EEHKWRYLYALLNRKPDIEASLDACVKALKGLEHKARL 113 (394)
Q Consensus 76 E~~K~~~l~~~l~~~~~~~~~l~~~~~~i~~~e~~~R~ 113 (394)
=+||+.-++..++..++...++++--..|+.++++++.
T Consensus 33 lk~Klq~ar~~i~~lpgi~~s~eeq~~~i~~Le~~i~~ 70 (83)
T PF07544_consen 33 LKHKLQKARAAIRELPGIDRSVEEQEEEIEELEEQIRK 70 (83)
T ss_pred HHHHHHHHHHHHHhCCCccCCHHHHHHHHHHHHHHHHH
Confidence 46888889999998887778888888888888888764
No 9
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=19.45 E-value=4.2e+02 Score=32.01 Aligned_cols=95 Identities=16% Similarity=0.106 Sum_probs=70.1
Q ss_pred CHHHHHHcCcEEeeCC-CCCcc-ceEEcCcEEEeCcEEEecChhHHHHHHHHHHhcCCCCCcccchHHHHHhhhCCChhh
Q 040842 257 SAKMLKEAGVLIKKSK-TENLL-DIKFAHGVLEIPPIRVHQHTESLLRNLIAFEQCPCDNTQHISSYVILMKSLIPTRKD 334 (394)
Q Consensus 257 sA~eL~~aGVkfk~~~-~~~~l-DI~F~~G~L~iP~l~id~~T~~llrNLiA~Eq~~~~~~~~vtsYv~fm~~Li~t~~D 334 (394)
=|.|.++.||+|.+.. ..|-. .-...+|.+.+|--.|..-.+...+++++-=+ ...|+|.--|...---+..-
T Consensus 1340 ~~~E~~~rGi~~lp~din~S~~~~f~i~~~~i~~pl~~I~glG~~~a~~Iv~~R~-----~g~F~s~~Df~~R~~v~k~~ 1414 (1437)
T PRK00448 1340 IALEMLERGFKFQKVDLYKSDATEFIIEGDSLIPPFNALPGLGENVAKSIVEARE-----EGEFLSKEDLRKRTKVSKTL 1414 (1437)
T ss_pred HHHHHHHCCCeEeCCcccccCCcceEeeCCEEEecchhcCCCCHHHHHHHHHHHh-----cCCCCCHHHHHHHhCCCHHH
Confidence 4678999999998853 12211 11235788999999999999999999975432 23488888888887778899
Q ss_pred HHHHHHCCceeccCCCChhHHHHH
Q 040842 335 AKSLKRRQILINYDVDENDGSRLF 358 (394)
Q Consensus 335 V~lL~~~gIi~~~~lg~de~a~lf 358 (394)
++.|.+.|++... +..+...||
T Consensus 1415 ie~L~~~Ga~d~l--~~~~Q~slF 1436 (1437)
T PRK00448 1415 IEKLDELGVLDDL--PETNQLSLF 1436 (1437)
T ss_pred HHHHHHCCCCcCC--Cccchhhcc
Confidence 9999999999874 543335555
No 10
>KOG4134 consensus DNA-dependent RNA polymerase I [Transcription]
Probab=16.93 E-value=1.3e+02 Score=28.31 Aligned_cols=37 Identities=14% Similarity=0.193 Sum_probs=26.8
Q ss_pred CCCeEeecCCCCccCCCCCcccceEeeCCCCCCCCccchhHHHHHHHH
Q 040842 36 SALCIDRAGVAVPQEHKDFYIPDKVSIGPLHYGEGPLKAMEEHKWRYL 83 (394)
Q Consensus 36 ~~~~I~rVP~~lr~~n~~aY~P~vVSIGPyHhg~~~L~~mE~~K~~~l 83 (394)
...|++++|-.+ .+|+||||-.++.-..||+|=-.-+
T Consensus 23 p~sclv~~t~dl-----------hlalaP~yl~npl~~~i~ehld~~v 59 (253)
T KOG4134|consen 23 PESCLVCITTDL-----------HLALAPYYLANPLHALIEEHLDTKV 59 (253)
T ss_pred CcceEEEeeehe-----------eeeecchhhcchhHHHHHHHhhHHH
Confidence 667999999764 6999999988754446776644333
Done!