Query 022178
Match_columns 301
No_of_seqs 148 out of 873
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 08:37:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022178.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022178hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK00228 hypothetical protein; 100.0 6.6E-49 1.4E-53 350.7 18.4 170 117-298 6-180 (191)
2 COG1678 Putative transcription 100.0 2.9E-45 6.2E-50 325.4 17.3 170 117-298 9-183 (194)
3 PF02622 DUF179: Uncharacteriz 100.0 7.7E-45 1.7E-49 315.4 11.3 158 129-296 1-161 (161)
4 PF11097 DUF2883: Protein of u 33.9 37 0.0008 26.0 2.3 36 246-282 6-41 (75)
5 PF06613 KorB_C: KorB C-termin 30.3 40 0.00086 25.3 1.9 22 141-163 8-30 (60)
6 PF02059 IL3: Interleukin-3; 28.9 37 0.0008 28.7 1.8 12 69-80 101-112 (118)
7 PF14237 DUF4339: Domain of un 14.9 1.3E+02 0.0029 20.3 2.0 28 229-256 17-44 (45)
8 PF10847 DUF2656: Protein of u 14.6 25 0.00053 30.3 -2.1 69 4-79 1-73 (132)
9 PF05391 Lsm_interact: Lsm int 13.2 1.2E+02 0.0027 18.1 1.2 15 60-74 3-17 (21)
10 PF13830 DUF4192: Domain of un 11.2 1.4E+02 0.003 28.6 1.5 39 123-163 2-40 (324)
No 1
>PRK00228 hypothetical protein; Validated
Probab=100.00 E-value=6.6e-49 Score=350.70 Aligned_cols=170 Identities=30% Similarity=0.503 Sum_probs=145.6
Q ss_pred cCCCCCCcEEEecCCCCCCCCcCceEEEEEEeCCCCcEEEEecCCCCccHHHHHHhhhccc---CCCCCCCeEecCCccC
Q 022178 117 IHEPEKGCLLIATEKLDGVHIFERTVILLLSMEPMGPSGIILNRPSLMSIKEMRSTVLDAA---GTFSDRPLFFGGPLEE 193 (301)
Q Consensus 117 ~~~pe~G~LLIAtP~L~d~~~F~RSVILLleH~e~Ga~GLILNRP~~~~l~~l~~~~~dl~---~~~~~~pvy~GGPV~~ 193 (301)
...+++|+||||+|.|.|+ +|+|||||||+|+++||+|||||||++++++++++++.... ..+.+.|||+||||++
T Consensus 6 ~~~~~~G~lLiA~P~l~d~-~F~rSVIll~eH~~~Ga~GlIlNrp~~~~l~~ll~~~~~~~~~~~~~~~~~v~~GGPV~~ 84 (191)
T PRK00228 6 EPMNLQGQLLIAMPDLQDP-NFARSVIYICEHNENGAMGLVINRPSELDVAEVLPQLDILATPPEIRLDQPVFLGGPVQT 84 (191)
T ss_pred cCccCCCeEEEeCCCCCCC-CcCccEEEEEEeCCCCceEEEEcCCCCCCHHHHHHHhcccccCcccccCCeEEeCCCccC
Confidence 4678999999999999975 99999999999999999999999999999999998873211 2345689999999996
Q ss_pred --CeEEEccCCCCCccCCCcceeeeecceeeccchhhhhhHHHHHhccCCCCceEEEeeccCCChhHHHHHHHcCCeEEc
Q 022178 194 --GLFLVSPKGGGDEVGKSGVFEQVMEGLYFGTKETVGCAAEMVKRNAVGPEDFRFFDGCCGWEKEQLNEEIRAGYWTVA 271 (301)
Q Consensus 194 --~~~L~~~~~~~~~~~~~~~~~eV~~Gly~g~~~~v~~a~elv~~g~~~~~dfrfF~GYsGW~pGQLE~EI~~G~W~va 271 (301)
+++||...... . .+.+|.+|||++++.++ .+.+..+ .++++||||+|||||++||||+||++|+|+++
T Consensus 85 ~~~~~Lh~~~~~~---~---~s~~v~~gl~l~~s~d~---l~~l~~~-~~~~~~~~flGyaGW~~gQLe~Ei~~g~W~v~ 154 (191)
T PRK00228 85 DRGFVLHSPRDGF---D---SSIRVSDGLVLTTSRDV---LEALATG-PGPEGVLVALGYAGWGAGQLEQEIEENAWLTA 154 (191)
T ss_pred CcEEEEEECCCcC---C---CceeecCCeEEeCCHHH---HHHHhcC-CCCCcEEEEEEECCCCHHHHHHHHHcCCeEEc
Confidence 46777553211 1 24799999999998774 4555554 46799999999999999999999999999999
Q ss_pred cCCCCeeecCCCchhHHHHHHHhcCCC
Q 022178 272 ACSPSVIGLESGTLGLWEELLWLMGRR 298 (301)
Q Consensus 272 ~as~~li~f~~~~~~lW~e~L~~~Gg~ 298 (301)
+|++++| |+++++++|+++|++||++
T Consensus 155 ~a~~~~l-f~~~~~~~W~~~l~~~G~~ 180 (191)
T PRK00228 155 PADPEIL-FDTPPEDRWRAALRRLGID 180 (191)
T ss_pred cCCHHHh-cCCCHHHHHHHHHHHhCCC
Confidence 9999999 9999999999999999997
No 2
>COG1678 Putative transcriptional regulator [Transcription]
Probab=100.00 E-value=2.9e-45 Score=325.43 Aligned_cols=170 Identities=26% Similarity=0.482 Sum_probs=146.3
Q ss_pred cCCCCCCcEEEecCCCCCCCCcCceEEEEEEeCCCCcEEEEecCCCC-ccHHHHHHhhhcccCC--CCCCCeEecCCccC
Q 022178 117 IHEPEKGCLLIATEKLDGVHIFERTVILLLSMEPMGPSGIILNRPSL-MSIKEMRSTVLDAAGT--FSDRPLFFGGPLEE 193 (301)
Q Consensus 117 ~~~pe~G~LLIAtP~L~d~~~F~RSVILLleH~e~Ga~GLILNRP~~-~~l~~l~~~~~dl~~~--~~~~pvy~GGPV~~ 193 (301)
....++|+||||+|.|.|+ +|+|||||||+|+++||||||||||++ .++.++++.. ++... ..+.+||.||||+.
T Consensus 9 ~~~~l~g~fLiAmP~m~d~-~F~RSVvyiceH~e~GamGliiNrp~~~~~~~~l~~~~-~~~~~~~~~~~~v~~GGPv~~ 86 (194)
T COG1678 9 AQMNLQGHFLVAMPDMQDP-IFARSVVYICEHNENGAMGLIINRPSETLTLAELLEKL-KLEIKILRLPKPVYLGGPVQR 86 (194)
T ss_pred hhcccCCcEEEecCCCCCC-ccceeEEEEEEeCCCCcEEEEecCCccccCHHHHHHHh-cccccccccCceEEeCCcccc
Confidence 3567899999999999975 999999999999999999999999999 9999998764 32221 34789999999996
Q ss_pred --CeEEEccCCCCCccCCCcceeeeecceeeccchhhhhhHHHHHhccCCCCceEEEeeccCCChhHHHHHHHcCCeEEc
Q 022178 194 --GLFLVSPKGGGDEVGKSGVFEQVMEGLYFGTKETVGCAAEMVKRNAVGPEDFRFFDGCCGWEKEQLNEEIRAGYWTVA 271 (301)
Q Consensus 194 --~~~L~~~~~~~~~~~~~~~~~eV~~Gly~g~~~~v~~a~elv~~g~~~~~dfrfF~GYsGW~pGQLE~EI~~G~W~va 271 (301)
+|+||....... . .+.+|.++++++++.++ .+.+..+ .+++++++++|||||++||||+||++|.|+++
T Consensus 87 ~rgfvLh~~~~~~~----~-ssl~v~~~~~lt~s~Dv---l~~i~~~-~~p~~~l~~lGYagW~~GQLE~Ei~~n~WL~~ 157 (194)
T COG1678 87 DRGFVLHSSDYGAF----Q-SSLRVSDGLALTTSLDV---LEAIAAG-KGPEKALVALGYAGWAAGQLEEEIEDNDWLTV 157 (194)
T ss_pred cceEEEEeCCCCCC----c-ccceecCCEEEEecHhH---HHHHhcc-CCCCceEEEEEecccccchhHHHHhhCCEEEe
Confidence 688887444221 1 14789999999999884 5666665 57999999999999999999999999999999
Q ss_pred cCCCCeeecCCCchhHHHHHHHhcCCC
Q 022178 272 ACSPSVIGLESGTLGLWEELLWLMGRR 298 (301)
Q Consensus 272 ~as~~li~f~~~~~~lW~e~L~~~Gg~ 298 (301)
+|++++| |+.+++++|.++|+++|..
T Consensus 158 pA~~~~l-F~~~~edrw~~al~~lGi~ 183 (194)
T COG1678 158 PADPEIL-FDTPPEDRWARALRRLGID 183 (194)
T ss_pred cCCHHHh-cCCCHHHHHHHHHHHcCCC
Confidence 9999999 9999999999999999986
No 3
>PF02622 DUF179: Uncharacterized ACR, COG1678; InterPro: IPR003774 This entry describes proteins of unknown function.; PDB: 2DO8_A 2EW0_A 2GS5_A 2HRX_A 2AJ2_A 2HAF_A 2GZO_A.
Probab=100.00 E-value=7.7e-45 Score=315.41 Aligned_cols=158 Identities=36% Similarity=0.666 Sum_probs=131.8
Q ss_pred cCCCCCCCCcCceEEEEEEeCCCCcEEEEecCCCCccHHHHHHhhhccc-CCCCCCCeEecCCccCC--eEEEccCCCCC
Q 022178 129 TEKLDGVHIFERTVILLLSMEPMGPSGIILNRPSLMSIKEMRSTVLDAA-GTFSDRPLFFGGPLEEG--LFLVSPKGGGD 205 (301)
Q Consensus 129 tP~L~d~~~F~RSVILLleH~e~Ga~GLILNRP~~~~l~~l~~~~~dl~-~~~~~~pvy~GGPV~~~--~~L~~~~~~~~ 205 (301)
+|.|.|+ +|+|||||||+|+++||+|||||||++.+++++++.+.... .++.+.+||+||||+.. ++||.....
T Consensus 1 ~P~l~d~-~F~~sVVli~~h~~~Ga~GlILNrp~~~~l~~~~~~~~~~~~~~~~~~~v~~GGPV~~~~~~~Lh~~~~~-- 77 (161)
T PF02622_consen 1 MPSLNDP-NFHRSVVLICEHDEEGAMGLILNRPTNITLSELLEELELLPISAFSDQPVYFGGPVEPDRGFVLHSIPDL-- 77 (161)
T ss_dssp -TTSTST-TTTTEEEEEEEEETTEEEEEESSSEEEEEHHHHHHHTTCCSSTTCCCSEEEES-SEEEEEEEEEEEC-TT--
T ss_pred CCCCCCC-CcCceEEEEEEECCCCcEEEEecCCCCCCHHHHHHhhccccccccccCeEEECCCcccCeEEEEEECCCC--
Confidence 6999976 99999999999999999999999999999999988764332 33678999999999973 556654321
Q ss_pred ccCCCcceeeeecceeeccchhhhhhHHHHHhccCCCCceEEEeeccCCChhHHHHHHHcCCeEEccCCCCeeecCCCch
Q 022178 206 EVGKSGVFEQVMEGLYFGTKETVGCAAEMVKRNAVGPEDFRFFDGCCGWEKEQLNEEIRAGYWTVAACSPSVIGLESGTL 285 (301)
Q Consensus 206 ~~~~~~~~~eV~~Gly~g~~~~v~~a~elv~~g~~~~~dfrfF~GYsGW~pGQLE~EI~~G~W~va~as~~li~f~~~~~ 285 (301)
.. ..+.+|.+|+|+|++.++ +.++|+++ ..+.+||||+|||||++||||+||++|+|++++|++++| |+.+++
T Consensus 78 -~~--~~s~~v~~gl~~~~~~~~--~~~~i~~~-~~~~~~~~f~GysgW~~gQLe~Ei~~g~W~~~~a~~~~v-f~~~~~ 150 (161)
T PF02622_consen 78 -EG--PGSIEVSPGLYLGGSLDA--LEALIAEG-AGPEDFRFFLGYSGWGPGQLEDEIARGSWLVAPASPDIV-FETPPE 150 (161)
T ss_dssp -GC--SSEEECSSSEEEEESTHH--HHHHHTST-TSCSSEEEEEEEEEECTTHHHHHHHTTTEEEEE--HHHH-CTSTSS
T ss_pred -CC--CCceEEeCCeEEeccHHH--HHHHHhCC-CCCceEEEEEEECCCCHHHHHHHHHcCCEEEeeCCHHHh-hCCCHH
Confidence 01 135799999999998764 45568888 889999999999999999999999999999999999999 999999
Q ss_pred hHHHHHHHhcC
Q 022178 286 GLWEELLWLMG 296 (301)
Q Consensus 286 ~lW~e~L~~~G 296 (301)
.+|+++|++||
T Consensus 151 ~~W~~~l~~~G 161 (161)
T PF02622_consen 151 ELWREALRRLG 161 (161)
T ss_dssp HHHHHHHHCTT
T ss_pred HHHHHHHHHCc
Confidence 99999999998
No 4
>PF11097 DUF2883: Protein of unknown function (DUF2883); InterPro: IPR020112 This group of proteins currently have no known function and are found primarily in the T4-like bacteriophages.
Probab=33.94 E-value=37 Score=25.99 Aligned_cols=36 Identities=17% Similarity=0.167 Sum_probs=23.4
Q ss_pred EEEeeccCCChhHHHHHHHcCCeEEccCCCCeeecCC
Q 022178 246 RFFDGCCGWEKEQLNEEIRAGYWTVAACSPSVIGLES 282 (301)
Q Consensus 246 rfF~GYsGW~pGQLE~EI~~G~W~va~as~~li~f~~ 282 (301)
-+++||-||.+.-||+=|.+ .=.|.+||---..|..
T Consensus 6 ~VYLg~pg~p~nKle~LMlE-LRTV~~~sGlefrfqd 41 (75)
T PF11097_consen 6 DVYLGYPGLPPNKLEGLMLE-LRTVGRSSGLEFRFQD 41 (75)
T ss_pred eEEEeCCCCChHHHHHHHHH-HHhccccCCceeeccc
Confidence 47899999999998853332 2346666654333543
No 5
>PF06613 KorB_C: KorB C-terminal beta-barrel domain; InterPro: IPR010575 This domain is found in several KorB transcriptional repressor proteins. The korB gene is a major regulatory element in the replication and maintenance of broad host-range plasmid RK2. It negatively controls the replication gene trfA, the host-lethal determinants kilA and kilB, and the korA-korB operon []. This family is found in conjunction with IPR003115 from INTERPRO.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 1IGQ_B 1IGU_A.
Probab=30.31 E-value=40 Score=25.29 Aligned_cols=22 Identities=32% Similarity=0.576 Sum_probs=14.4
Q ss_pred eEEEEEEeCCCCcEEEEec-CCCC
Q 022178 141 TVILLLSMEPMGPSGIILN-RPSL 163 (301)
Q Consensus 141 SVILLleH~e~Ga~GLILN-RP~~ 163 (301)
--|+.++||+. +--|+|| ||+.
T Consensus 8 Kaiv~V~~d~R-~arllLnrRps~ 30 (60)
T PF06613_consen 8 KAIVQVEHDGR-PARLLLNRRPSS 30 (60)
T ss_dssp SEEEEEEETTE-EEEE-TTB--SS
T ss_pred ccEEEEEECCc-hhhhhhccCCCc
Confidence 45677999966 7789999 5554
No 6
>PF02059 IL3: Interleukin-3; InterPro: IPR002183 Interleukin-3 (IL3) is a cytokine that regulates blood-cell production by controlling the production, differentiation and function of granulocytes and macrophages [, ]. The protein, which exists in vivo as a monomer, is produced in activated T-cells and mast cells [, ], and is activated by the cleavage of an N-terminal signal sequence []. IL3 is produced by T-lymphocytes and T-lymphomas only after stimulation with antigens, mitogens, or chemical activators such as phorbol esters. However, IL3 is constitutively expressed in the myelomonocytic leukaemia cell line WEHI-3B []. It is thought that the genetic change of the cell line to constitutive production of IL3 is the key event in development of this leukaemia [].; GO: 0005135 interleukin-3 receptor binding, 0008083 growth factor activity, 0006955 immune response, 0005576 extracellular region; PDB: 2L3O_A 1JLI_A.
Probab=28.87 E-value=37 Score=28.69 Aligned_cols=12 Identities=50% Similarity=1.107 Sum_probs=10.4
Q ss_pred CchhHHHHHHHH
Q 022178 69 DADWRSFRARLV 80 (301)
Q Consensus 69 ~~dWR~FRA~Lv 80 (301)
++||-+||.||.
T Consensus 101 ~~d~~DFr~KL~ 112 (118)
T PF02059_consen 101 DGDWGDFRKKLK 112 (118)
T ss_dssp SCHHHHHHHHHH
T ss_pred cCCHHHHHHHHH
Confidence 469999999995
No 7
>PF14237 DUF4339: Domain of unknown function (DUF4339)
Probab=14.95 E-value=1.3e+02 Score=20.26 Aligned_cols=28 Identities=11% Similarity=0.471 Sum_probs=23.5
Q ss_pred hhhHHHHHhccCCCCceEEEeeccCCCh
Q 022178 229 GCAAEMVKRNAVGPEDFRFFDGCCGWEK 256 (301)
Q Consensus 229 ~~a~elv~~g~~~~~dfrfF~GYsGW~p 256 (301)
+...+++++|.+.+..+-.-.|.+.|.|
T Consensus 17 ~el~~l~~~g~i~~~tlvw~~g~~~W~p 44 (45)
T PF14237_consen 17 EELRQLISSGEIDPDTLVWKEGMSDWKP 44 (45)
T ss_pred HHHHHHHHcCCCCCCCeEeCCChhhceE
Confidence 3467888999999999988899999865
No 8
>PF10847 DUF2656: Protein of unknown function (DUF2656); InterPro: IPR020325 This entry contains uncharacterised proteins from the cpeY 3'-region. They have no known function, but are found in the phycobilisome.
Probab=14.63 E-value=25 Score=30.26 Aligned_cols=69 Identities=16% Similarity=0.244 Sum_probs=41.4
Q ss_pred ccccccCccccceeeccccccccccccCCCCccccccccc-cCcc---ceeeeecCCCCCCCCCCCCCCCchhHHHHHHH
Q 022178 4 CCLTSNSFNKTTELVPVSKARVVSYTKRNHNLNHFHCKRV-GFSS---SITCCHLESSLPSDDHHKPLIDADWRSFRARL 79 (301)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~---~~~~~~~~~~~~~~~~~~~~~~~dWR~FRA~L 79 (301)
||+-|-.|.-.+..+|.+-.-.|+.-- ..++..|.|+.+ .-|- -|. +.=+-++++-....-|+.||.++
T Consensus 1 ~fvLSHNlqv~s~~vP~l~~~elA~~l-l~~~~~i~~~~~l~hPHW~v~i~------s~lsp~~~~~~~v~aw~~~R~~~ 73 (132)
T PF10847_consen 1 RFVLSHNLQVQSSSVPALSFEELAQGL-LSHSSSIKCREALNHPHWMVEIE------SDLSPDEMAEELVRAWKQYRNSL 73 (132)
T ss_pred CeeeeccccccccccCCcCHHHHHHHH-HhcCCCceecccccCCceEEEec------ccCCHHHHHHHHHHHHHHHHHhh
Confidence 577788899999999998655544332 223445555444 2221 122 11123556666667899999998
No 9
>PF05391 Lsm_interact: Lsm interaction motif; InterPro: IPR008669 This short motif is found at the C terminus of Prp24 proteins and probably interacts with the Lsm proteins to promote U4/U6 formation [].
Probab=13.18 E-value=1.2e+02 Score=18.13 Aligned_cols=15 Identities=27% Similarity=0.481 Sum_probs=11.1
Q ss_pred CCCCCCCCCCchhHH
Q 022178 60 SDDHHKPLIDADWRS 74 (301)
Q Consensus 60 ~~~~~~~~~~~dWR~ 74 (301)
..++.+|..++|.|.
T Consensus 3 ~~~~~~p~SNddFrk 17 (21)
T PF05391_consen 3 AATTAKPKSNDDFRK 17 (21)
T ss_pred CccccCccchHHHHH
Confidence 456788999988663
No 10
>PF13830 DUF4192: Domain of unknown function (DUF4192)
Probab=11.22 E-value=1.4e+02 Score=28.63 Aligned_cols=39 Identities=26% Similarity=0.192 Sum_probs=27.6
Q ss_pred CcEEEecCCCCCCCCcCceEEEEEEeCCCCcEEEEecCCCC
Q 022178 123 GCLLIATEKLDGVHIFERTVILLLSMEPMGPSGIILNRPSL 163 (301)
Q Consensus 123 G~LLIAtP~L~d~~~F~RSVILLleH~e~Ga~GLILNRP~~ 163 (301)
+.||=+-|.|.|= +=++|||+|+=++ .+.+|.++=-...
T Consensus 2 ~dLlA~iP~lLGF-~P~~SvVvv~l~~-~~~lg~v~R~DL~ 40 (324)
T PF13830_consen 2 GDLLAAIPALLGF-HPEDSVVVVALRG-RGRLGPVARVDLP 40 (324)
T ss_pred HHHHHhhHHhcCC-CCCCcEEEEEecC-CCeEEEEEEecCC
Confidence 4566677888862 2368999999866 8888998754433
Done!