Query 001379
Match_columns 1090
No_of_seqs 25 out of 27
Neff 1.7
Searched_HMMs 46136
Date Thu Mar 28 23:18:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001379.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001379hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12657 TFIIIC_delta: Transcr 94.5 0.12 2.6E-06 49.8 7.1 77 157-250 87-167 (173)
2 PF11635 Med16: Mediator compl 91.9 0.87 1.9E-05 53.5 10.2 157 471-677 214-392 (753)
3 smart00320 WD40 WD40 repeats. 68.2 12 0.00025 23.1 3.9 29 155-185 12-40 (40)
4 PF08662 eIF2A: Eukaryotic tra 64.3 14 0.00031 36.4 5.6 79 101-186 11-90 (194)
5 PF00400 WD40: WD domain, G-be 60.7 20 0.00044 25.7 4.4 31 153-185 9-39 (39)
6 COG2072 TrkA Predicted flavopr 36.8 67 0.0014 35.9 5.8 70 296-379 13-93 (443)
7 cd00200 WD40 WD40 domain, foun 32.5 1.2E+02 0.0026 27.0 5.6 29 155-185 261-289 (289)
8 cd00200 WD40 WD40 domain, foun 31.8 1.4E+02 0.003 26.6 5.8 50 133-188 159-208 (289)
9 cd00491 4Oxalocrotonate_Tautom 29.1 76 0.0017 25.2 3.5 56 717-773 3-58 (58)
10 PF13454 NAD_binding_9: FAD-NA 26.5 19 0.00042 34.0 -0.3 44 296-348 2-45 (156)
11 TIGR00013 taut 4-oxalocrotonat 25.9 69 0.0015 26.0 2.8 57 717-774 3-60 (63)
12 cd03735 SOCS_SOCS1 SOCS (suppr 21.7 41 0.00088 28.1 0.7 10 1029-1038 5-14 (43)
No 1
>PF12657 TFIIIC_delta: Transcription factor IIIC subunit delta N-term; InterPro: IPR024761 This entry represents a domain found towards the N terminus of the 90 kDa subunit of transcription factor IIIC (also known as subunit 9 in yeast []). The whole subunit is involved in RNA polymerase III-mediated transcription. It is possible that this N-terminal domain interacts with TFIIIC subunit 8 [].
Probab=94.47 E-value=0.12 Score=49.79 Aligned_cols=77 Identities=25% Similarity=0.372 Sum_probs=48.6
Q ss_pred ceEEEEecCCCCc----ceeEEEeccceEEEEecCCCCCCcccccccccchhhhccccceeeeecccCCCCccccccCCC
Q 001379 157 SVQFIEWSPTSCP----RALLIANFYGRVTIWTQPSHGPANLVRDASCWQREHEWRQDIAVVTKWLSGVSPYRWLSSKST 232 (1090)
Q Consensus 157 ~vq~ieWSp~~cp----RALLiAnf~GRvtIWtQPsqg~~nlv~da~~w~~ehEWrqd~avvtkwlsg~spyrwlsskss 232 (1090)
.|-.++|||.+|- =.|.+.+-.|||+||..+..- ..||. .+++|+|-|.. |--....+.
T Consensus 87 ~vv~~aWSP~Gl~~~~rClLavLTs~~~l~l~~~~~~~-------------~~~W~-~v~dvs~~l~~---~~~~~~~~~ 149 (173)
T PF12657_consen 87 QVVSAAWSPSGLGPNGRCLLAVLTSNGRLSLYGPPGNP-------------QGEWN-RVADVSEALYS---YFYNWEPSE 149 (173)
T ss_pred cEEEEEECCCCCCCCCceEEEEEcCCCeEEEEecCCCc-------------cccEe-eeeehhHHHHH---hhhccCCCc
Confidence 6889999998882 257788999999999887641 34666 45677776661 111112222
Q ss_pred CCCCcchhhHHhhhccCc
Q 001379 233 SPLNAKSIFEEKFLSQNS 250 (1090)
Q Consensus 233 s~~n~kstFeEKflsqq~ 250 (1090)
........|.+.|..++.
T Consensus 150 ~~~~~~~~~~~~~~~~~i 167 (173)
T PF12657_consen 150 SSPLDFEEFQRRFRKQRI 167 (173)
T ss_pred ccccccchhhhhhhccce
Confidence 333334456677777664
No 2
>PF11635 Med16: Mediator complex subunit 16; InterPro: IPR021665 Mediator is a large complex of up to 33 proteins that is conserved from plants through fungi to humans - the number and representation of individual subunits varying with species [],[]. It is arranged into four different sections, a core, a head, a tail and a kinase-activity part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function. Med16 is one of the subunits of the Tail portion of the Mediator complex and is required for lipopolysaccharide gene-expression []. Several members including the human protein, Q9Y2X0 from SWISSPROT, have one or more WD40 domains on them, PF00400 from PFAM.
Probab=91.95 E-value=0.87 Score=53.55 Aligned_cols=157 Identities=19% Similarity=0.203 Sum_probs=99.4
Q ss_pred eEEeeccCCCceeeeeccCCCCC--CCCCCCCceeEEEeeeecccCCCCccccccccCCCcccccccccccccccceecc
Q 001379 471 RVQRWESSVQPVVLHQIFGNPTS--SFGGQAPMQTVWVSKVDTSIPTSNFKIHQLAAAGPTCDVWKTTDSGLEKSKIVSF 548 (1090)
Q Consensus 471 RvqrWESs~qpvvlhpifgnpts--s~gGqppmqTvW~skvd~sIp~tdfkn~q~~~~~~~~d~~k~s~~~~dksk~v~f 548 (1090)
-|.|||=.-++..|||+|..-.| +.++++++.+.|+..-|+.++.. -+.+
T Consensus 214 iI~RweL~~~~~~lh~~F~ql~s~~~~~~~~~~~~~l~~~~~i~~~~~----------------------------V~si 265 (753)
T PF11635_consen 214 IIERWELREEQQPLHPAFQQLGSKKNSSSEPPPTYRLRRLDDITLNKR----------------------------VVSI 265 (753)
T ss_pred EEEEEEEEccCcccchhhhhcCCCCcCCCCCCCceeEEEecccccCCe----------------------------EEEE
Confidence 38999988888999999998763 35578999999998877765432 1112
Q ss_pred CCCCCccchhhhheeeeccCCceEEeeeeeCceeeeeCCCCCcccce-----ee-------eccccccc------CccCc
Q 001379 549 DPFDLPSDIRSLARIVYSAHGGEIAIALLRGGVHIFSGPNFAPVDNY-----QI-------SVGSAIAA------PAFSS 610 (1090)
Q Consensus 549 dpfdlP~d~rtLARiVySAhgGEiavAfl~GgVhiFSG~nftpVdny-----qI-------nVgsaIa~------PaFSs 610 (1090)
+ +.--|+=++++|--|-||++.=.+|.++... .. .+|=..+. -|||+
T Consensus 266 ~---------------~~~~~~~v~~~~~DGsI~~~dr~t~~~~~~~~~~~~~~~~v~s~~~~Gf~fp~~~~~~~vafSP 330 (753)
T PF11635_consen 266 T---------------SPELDIVVAFAFSDGSIEFRDRNTMKELNETRTNGEPPNTVTSLFQAGFHFPCIQPPLHVAFSP 330 (753)
T ss_pred E---------------ecccCcEEEEEEcCCeEEEEecCcchhhcccccccCCccccccccccccccccCCCCceEEECc
Confidence 2 2223447899999999999999999766544 11 13333432 26999
Q ss_pred cccccceeeecCCCCceEEEEEeecCCCccccccccchhhHHHHHHHHH--hhhhhccccccccccccc
Q 001379 611 TSCCSASVWHDTNKDRTILKIIRVLPPAVPSSQVKANSSTWERAIAERF--WWSLLVNVDWWDAVGCTQ 677 (1090)
Q Consensus 611 TSCCsASVWHDt~kd~~iLkIirVLPPa~p~~q~ka~ss~weraiaeRf--wwSLlvgVdWWDaVgcTQ 677 (1090)
|+|..+-. |...+.. |...++....-..|.-...++ ++|=+| =.-...+-|||+++-+++
T Consensus 331 t~c~~v~~--~~~~~~~--~~~~~~~~~~~~~~~~~~~a~---~~al~~~~a~~~~~~~DDl~~l~~~~ 392 (753)
T PF11635_consen 331 TMCSLVQI--DEDGKTK--KLLYMMRDSGSSPQDLYITAA---ALALRFSLACCSQTSSDDLLILIKTE 392 (753)
T ss_pred ccceEEEE--ecCCCce--eeEEeecCCCCCccccchhHH---HHHHHHHHHHHHhcCcchHHHhhhhh
Confidence 99987665 2222222 555555544443333332211 122233 223457999999998776
No 3
>smart00320 WD40 WD40 repeats. Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.
Probab=68.23 E-value=12 Score=23.12 Aligned_cols=29 Identities=24% Similarity=0.483 Sum_probs=24.9
Q ss_pred CCceEEEEecCCCCcceeEEEeccceEEEEe
Q 001379 155 RDSVQFIEWSPTSCPRALLIANFYGRVTIWT 185 (1090)
Q Consensus 155 ~d~vq~ieWSp~~cpRALLiAnf~GRvtIWt 185 (1090)
.+.|..+.|.+.. +-++.+..+|.+.+|.
T Consensus 12 ~~~i~~~~~~~~~--~~~~~~~~d~~~~~~~ 40 (40)
T smart00320 12 TGPVTSVAFSPDG--KYLASASDDGTIKLWD 40 (40)
T ss_pred CCceeEEEECCCC--CEEEEecCCCeEEEcC
Confidence 4579999999987 7788889999999984
No 4
>PF08662 eIF2A: Eukaryotic translation initiation factor eIF2A; InterPro: IPR013979 This entry contains beta propellor domains found in eukaryotic translation initiation factors and TolB domain-containing proteins.
Probab=64.33 E-value=14 Score=36.35 Aligned_cols=79 Identities=15% Similarity=0.279 Sum_probs=52.1
Q ss_pred hhhhccccceeccccccccCCCCCCCCCceeeEEEe-cCCCCcceeEEEeecCCCCCceEEEEecCCCCcceeEEEeccc
Q 001379 101 VAWCGKLNAIACASETCARIPSSNANTPFWIPIHIV-IPERPTECAVFNVIADCPRDSVQFIEWSPTSCPRALLIANFYG 179 (1090)
Q Consensus 101 vawc~klN~iaca~eTCarip~S~~np~fwiPihIv-iPerPtE~avfnv~adsp~d~vq~ieWSp~~cpRALLiAnf~G 179 (1090)
+.|..+-+.+++.+.| +..++....--=.=|+.+ +.+.| +..+++..++| |..++|||.+=.-|++..+..+
T Consensus 11 ~~W~~~G~~l~~~~~~--~~~~~~ks~~~~~~l~~~~~~~~~--~~~i~l~~~~~---I~~~~WsP~g~~favi~g~~~~ 83 (194)
T PF08662_consen 11 LHWQPSGDYLLVKVQT--RVDKSGKSYYGEFELFYLNEKNIP--VESIELKKEGP---IHDVAWSPNGNEFAVIYGSMPA 83 (194)
T ss_pred EEecccCCEEEEEEEE--eeccCcceEEeeEEEEEEecCCCc--cceeeccCCCc---eEEEEECcCCCEEEEEEccCCc
Confidence 4688999999999885 444443321111234444 44444 45555555544 9999999998777777667778
Q ss_pred eEEEEec
Q 001379 180 RVTIWTQ 186 (1090)
Q Consensus 180 RvtIWtQ 186 (1090)
+|+||.-
T Consensus 84 ~v~lyd~ 90 (194)
T PF08662_consen 84 KVTLYDV 90 (194)
T ss_pred ccEEEcC
Confidence 9999975
No 5
>PF00400 WD40: WD domain, G-beta repeat; InterPro: IPR019781 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events.; PDB: 2ZKQ_a 3CFV_B 3CFS_B 1PEV_A 1NR0_A 1VYH_T 3RFH_A 3O2Z_T 3FRX_C 3U5G_g ....
Probab=60.74 E-value=20 Score=25.70 Aligned_cols=31 Identities=26% Similarity=0.519 Sum_probs=27.4
Q ss_pred CCCCceEEEEecCCCCcceeEEEeccceEEEEe
Q 001379 153 CPRDSVQFIEWSPTSCPRALLIANFYGRVTIWT 185 (1090)
Q Consensus 153 sp~d~vq~ieWSp~~cpRALLiAnf~GRvtIWt 185 (1090)
.-.+.|..|.|+|. .+-|+.+-.+|.|.||.
T Consensus 9 ~h~~~i~~i~~~~~--~~~~~s~~~D~~i~vwd 39 (39)
T PF00400_consen 9 GHSSSINSIAWSPD--GNFLASGSSDGTIRVWD 39 (39)
T ss_dssp SSSSSEEEEEEETT--SSEEEEEETTSEEEEEE
T ss_pred CCCCcEEEEEEecc--cccceeeCCCCEEEEEC
Confidence 45678999999999 78899999999999994
No 6
>COG2072 TrkA Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]
Probab=36.84 E-value=67 Score=35.89 Aligned_cols=70 Identities=33% Similarity=0.512 Sum_probs=40.7
Q ss_pred cccCCcccccccceEEecCCceEEeeecccCCceEEEEEecCCCCCCcc---------ccccccccCCCCCCC--CCCCc
Q 001379 296 LLGAGPSGIMAADVIITDSGAMHVAGVPIVNPSTVVVWEVTPGPGNGFQ---------AAPKTTTSNGVPPSL--SPPKW 364 (1090)
Q Consensus 296 lLg~GpSGIma~DAIItdsGamhVAGVpi~NPSTVVVWEV~pg~gng~q---------~tpktS~~~~vpp~l--~~p~W 364 (1090)
++|+|+|||.+|=+... +|++- ++|.|-....|..-- .+||--. ++|..- ...+|
T Consensus 13 IIGaG~sGlaaa~~L~~-------~g~~~-----~~i~Ek~~~~Gg~W~~~ry~~l~~~~p~~~~--~~~~~p~~~~~~~ 78 (443)
T COG2072 13 IIGAGQSGLAAAYALKQ-------AGVPD-----FVIFEKRDDVGGTWRYNRYPGLRLDSPKWLL--GFPFLPFRWDEAF 78 (443)
T ss_pred EECCCHHHHHHHHHHHH-------cCCCc-----EEEEEccCCcCCcchhccCCceEECCchhee--ccCCCccCCcccC
Confidence 68999999999854322 33321 566666655553311 1222222 333222 35789
Q ss_pred CCcchhhhhhhHHHH
Q 001379 365 AGFAPLAAYLFSWQE 379 (1090)
Q Consensus 365 ~GFapLaAYLfswq~ 379 (1090)
++|+++-.|+-.+.+
T Consensus 79 ~~~~~~~~y~~~~~~ 93 (443)
T COG2072 79 APFAEIKDYIKDYLE 93 (443)
T ss_pred CCcccHHHHHHHHHH
Confidence 999988888777764
No 7
>cd00200 WD40 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and botto
Probab=32.53 E-value=1.2e+02 Score=27.01 Aligned_cols=29 Identities=31% Similarity=0.654 Sum_probs=24.5
Q ss_pred CCceEEEEecCCCCcceeEEEeccceEEEEe
Q 001379 155 RDSVQFIEWSPTSCPRALLIANFYGRVTIWT 185 (1090)
Q Consensus 155 ~d~vq~ieWSp~~cpRALLiAnf~GRvtIWt 185 (1090)
.+.|..+.|+|. .+.|+.+..+|.|.||.
T Consensus 261 ~~~i~~~~~~~~--~~~l~~~~~d~~i~iw~ 289 (289)
T cd00200 261 TNSVTSLAWSPD--GKRLASGSADGTIRIWD 289 (289)
T ss_pred CCcEEEEEECCC--CCEEEEecCCCeEEecC
Confidence 456999999987 47888999999999994
No 8
>cd00200 WD40 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and botto
Probab=31.76 E-value=1.4e+02 Score=26.65 Aligned_cols=50 Identities=18% Similarity=0.295 Sum_probs=33.8
Q ss_pred EEEecCCCCcceeEEEeecCCCCCceEEEEecCCCCcceeEEEeccceEEEEecCC
Q 001379 133 IHIVIPERPTECAVFNVIADCPRDSVQFIEWSPTSCPRALLIANFYGRVTIWTQPS 188 (1090)
Q Consensus 133 ihIviPerPtE~avfnv~adsp~d~vq~ieWSp~~cpRALLiAnf~GRvtIWtQPs 188 (1090)
|+|+..+.......|. ...+.|..+.|+|.. +-|+++..+|.|.||.-.+
T Consensus 159 i~i~d~~~~~~~~~~~----~~~~~i~~~~~~~~~--~~l~~~~~~~~i~i~d~~~ 208 (289)
T cd00200 159 IKLWDLRTGKCVATLT----GHTGEVNSVAFSPDG--EKLLSSSSDGTIKLWDLST 208 (289)
T ss_pred EEEEEccccccceeEe----cCccccceEEECCCc--CEEEEecCCCcEEEEECCC
Confidence 3444444344444444 334579999999987 6677787899999997654
No 9
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=29.08 E-value=76 Score=25.17 Aligned_cols=56 Identities=18% Similarity=0.415 Sum_probs=41.3
Q ss_pred eeeeeccCcchHHHHHHHHHhHHHHHHHHhhcchhhhccCCCCCCCCcccccccccc
Q 001379 717 IKCRLLEGTNAQEVRAMVLDMQARLLLDMLGKGIESALINPSALVPDPWQASGETLS 773 (1090)
Q Consensus 717 IkCrlLeG~nAqeVRamVLDMQaRllLDMLGkGIEsALinpsalv~epWqas~etls 773 (1090)
|.+.+++|.+.++-|+++ +-=.+.|.+.+|+--|...|+=...-++-|-..|.+|+
T Consensus 3 i~i~~~~grt~eqk~~l~-~~i~~~l~~~~g~~~~~v~V~i~e~~~~~~~~gg~~~~ 58 (58)
T cd00491 3 VQIYILEGRTDEQKRELI-ERVTEAVSEILGAPEATIVVIIDEMPKENWGIGGESAS 58 (58)
T ss_pred EEEEEcCCCCHHHHHHHH-HHHHHHHHHHhCcCcccEEEEEEEeCchhceECCEECc
Confidence 578899999866655554 44467888999998888777766677777777776654
No 10
>PF13454 NAD_binding_9: FAD-NAD(P)-binding
Probab=26.54 E-value=19 Score=33.98 Aligned_cols=44 Identities=23% Similarity=0.479 Sum_probs=34.1
Q ss_pred cccCCcccccccceEEecCCceEEeeecccCCceEEEEEecCCCCCCcccccc
Q 001379 296 LLGAGPSGIMAADVIITDSGAMHVAGVPIVNPSTVVVWEVTPGPGNGFQAAPK 348 (1090)
Q Consensus 296 lLg~GpSGIma~DAIItdsGamhVAGVpi~NPSTVVVWEV~pg~gng~q~tpk 348 (1090)
++|+||+|+.+...++... .-..|..|.|+|- ...|-|.-.-++
T Consensus 2 IIG~G~~G~~~l~~L~~~~--------~~~~~~~I~vfd~-~~~G~G~~~~~~ 45 (156)
T PF13454_consen 2 IIGGGPSGLAVLERLLRQA--------DPKPPLEITVFDP-SPFGAGGAYRPD 45 (156)
T ss_pred EECcCHHHHHHHHHHHHhc--------CCCCCCEEEEEcC-CCccccccCCCC
Confidence 5799999999999988765 5567888999998 556767655443
No 11
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=25.91 E-value=69 Score=26.01 Aligned_cols=57 Identities=19% Similarity=0.397 Sum_probs=46.1
Q ss_pred eeeeec-cCcchHHHHHHHHHhHHHHHHHHhhcchhhhccCCCCCCCCccccccccccC
Q 001379 717 IKCRLL-EGTNAQEVRAMVLDMQARLLLDMLGKGIESALINPSALVPDPWQASGETLSG 774 (1090)
Q Consensus 717 IkCrlL-eG~nAqeVRamVLDMQaRllLDMLGkGIEsALinpsalv~epWqas~etls~ 774 (1090)
|...++ +|.++++-+++.-.+. +.|.+.||..-|+..|.=.-.-++-|-..|.+++.
T Consensus 3 i~i~i~~~grt~eqK~~l~~~it-~~l~~~lg~~~~~v~V~i~e~~~~~w~~gG~~~~~ 60 (63)
T TIGR00013 3 VNIYILKEGRTDEQKRQLIEGVT-EAMAETLGANLESIVVIIDEMPKNNYGIGGELVSD 60 (63)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH-HHHHHHhCCCcccEEEEEEEcCHHHeeECCEEhhH
Confidence 567788 8998888888877775 56789999999988887777778888888877764
No 12
>cd03735 SOCS_SOCS1 SOCS (suppressors of cytokine signaling) box of SOCS1-like proteins. Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. SOCS1, like CIS1 and SOCS3, is involved in the down-regulation of the JAK/STAT pathway. SOCS1 has a dual function as a direct potent JAK kinase inhibitor and as a component of an E3 ubiquitin-ligase complex recruiting substrates to the protein degradation machinery.
Probab=21.68 E-value=41 Score=28.14 Aligned_cols=10 Identities=40% Similarity=0.889 Sum_probs=8.4
Q ss_pred HHHHHhhhcc
Q 001379 1029 ILMDLCRRTA 1038 (1090)
Q Consensus 1029 iLmDLCrRTa 1038 (1090)
-|++|||||-
T Consensus 5 sLQhLCR~tI 14 (43)
T cd03735 5 PLQELCRKSI 14 (43)
T ss_pred CHHHHHHHHH
Confidence 3899999984
Done!