Query 040148
Match_columns 88
No_of_seqs 106 out of 395
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 05:35:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040148.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040148hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00395 Sec24-related protein 99.8 7.2E-20 1.6E-24 155.6 8.4 74 13-86 1481-1557(1560)
2 KOG1984 Vesicle coat complex C 99.6 3.2E-16 6.9E-21 129.5 7.2 76 12-87 930-1007(1007)
3 KOG1985 Vesicle coat complex C 99.6 4.1E-16 8.8E-21 128.2 7.0 73 12-84 812-887 (887)
4 COG5028 Vesicle coat complex C 99.6 6.2E-15 1.4E-19 120.7 6.6 73 12-84 785-861 (861)
5 KOG3355 Mitochondrial sulfhydr 83.1 0.63 1.4E-05 33.1 1.1 31 56-87 120-153 (177)
6 PF04777 Evr1_Alr: Erv1 / Alr 64.8 9.6 0.00021 23.4 3.0 54 24-87 23-79 (95)
7 PF08134 cIII: cIII protein fa 64.5 7.4 0.00016 21.5 2.1 20 18-37 17-36 (44)
8 COG5054 ERV1 Mitochondrial sul 64.1 5.1 0.00011 28.5 1.8 30 58-87 130-162 (181)
9 KOG1984 Vesicle coat complex C 54.3 5.5 0.00012 34.7 0.7 48 2-50 281-334 (1007)
10 PF14875 PIP49_N: N-term cyste 47.1 28 0.00061 24.1 3.2 33 56-88 110-145 (158)
11 PF03295 Pox_TAA1: Poxvirus tr 41.3 41 0.00088 20.1 2.8 26 25-50 27-52 (63)
12 PF13080 DUF3926: Protein of u 34.8 37 0.00079 18.8 1.8 29 14-42 2-30 (44)
13 KOG1830 Wiskott Aldrich syndro 33.6 46 0.001 27.1 2.9 70 4-85 6-83 (518)
14 PF11568 Med29: Mediator compl 33.3 88 0.0019 21.6 3.9 49 26-83 71-123 (148)
15 PF02991 Atg8: Autophagy prote 32.6 52 0.0011 21.2 2.6 50 30-83 5-57 (104)
16 PF06461 DUF1086: Domain of Un 29.2 24 0.00051 24.4 0.6 19 56-74 85-103 (145)
17 COG1435 Tdk Thymidine kinase [ 29.1 49 0.0011 24.0 2.2 11 5-15 9-19 (201)
18 PF11051 Mannosyl_trans3: Mann 28.4 1E+02 0.0022 22.6 3.8 40 22-62 11-52 (271)
19 PF00036 EF-hand_1: EF hand; 25.9 61 0.0013 15.8 1.6 18 63-80 10-28 (29)
20 smart00340 HALZ homeobox assoc 23.9 1.1E+02 0.0025 16.9 2.5 19 21-39 18-36 (44)
21 PF07855 DUF1649: Protein of u 21.8 89 0.0019 21.4 2.3 24 15-38 48-71 (163)
22 cd01611 GABARAP Ubiquitin doma 21.3 2.2E+02 0.0048 18.4 4.0 50 30-83 13-65 (112)
23 PF13833 EF-hand_8: EF-hand do 20.0 1.6E+02 0.0034 15.5 2.7 21 60-80 33-53 (54)
No 1
>PTZ00395 Sec24-related protein; Provisional
Probab=99.81 E-value=7.2e-20 Score=155.56 Aligned_cols=74 Identities=22% Similarity=0.275 Sum_probs=69.7
Q ss_pred ccccCCCCCHHHHHHHHHHHHHHhhC--CCccccEEeecCCchHH-HHhhhhccCCCCCCCHHHHHHHHHHHHHhCC
Q 040148 13 CTIGQQYDNPLSKKFNDVVNEMRRER--CSYLRPRSCQEGDLSGM-FSSKMIEDKNPNGPSYFEFLVQIHREIQKKP 86 (88)
Q Consensus 13 ~~~LP~l~t~~s~rlr~iI~~lr~~~--~~~~~l~vvrq~d~~e~-f~~~LVEDr~~~~~SY~efL~~ihr~I~~~l 86 (88)
..+||+++|++|+||++||++||+.+ +.|+||+|||++|+.|. |+++|||||+.+++||+||||+|||+|++++
T Consensus 1481 ~~eLPelDT~iS~RVrnII~~LR~~r~~~~Y~pL~IVRqgDp~E~~F~s~LVEDRs~g~~SYvDFLc~LHKqIq~kl 1557 (1560)
T PTZ00395 1481 AHELNLTDTPNAQKVQRIIKNLSRIHHFNKYVPLVMVAPKSNEEEHLISLCVEDKADKEYSYVNFLCFIHKLVHKRI 1557 (1560)
T ss_pred cccccCCCCHHHHHHHHHHHHHHHhccCCCcceEEEEeCCCchHHHHHHhCeecCCCCCCCHHHHHHHHHHHHHHhc
Confidence 35799999999999999999999986 48999999999999999 9999999999999999999999999999986
No 2
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.64 E-value=3.2e-16 Score=129.45 Aligned_cols=76 Identities=37% Similarity=0.594 Sum_probs=71.1
Q ss_pred cccccCCCCCHHHHHHHHHHHHHHhhCCCccccEEeecC-CchHH-HHhhhhccCCCCCCCHHHHHHHHHHHHHhCCC
Q 040148 12 RCTIGQQYDNPLSKKFNDVVNEMRRERCSYLRPRSCQEG-DLSGM-FSSKMIEDKNPNGPSYFEFLVQIHREIQKKPS 87 (88)
Q Consensus 12 ~~~~LP~l~t~~s~rlr~iI~~lr~~~~~~~~l~vvrq~-d~~e~-f~~~LVEDr~~~~~SY~efL~~ihr~I~~~l~ 87 (88)
.+.+||++||++|+++|++|..||+.|..++++.++|+| ++.+. |.++||||++.+.+||+||||.||++|+++++
T Consensus 930 ~~~~Lpe~dn~lS~k~r~~i~~i~~~r~~~l~v~~~k~g~~~~~~~~~~~lved~~~~~~sY~dyL~~~H~ki~~~l~ 1007 (1007)
T KOG1984|consen 930 QSGVLPELDNPLSRKVRNVISLIRRQRSSELPVVLVKQGLDGSEVEFSEYLVEDRGRNISSYVDYLCELHKKIQQKLS 1007 (1007)
T ss_pred ccccccccCcHHHHHHHHHHHHHHhccccccccEEEecCCCchhhhhhhhhhcccccCccccchHHHHHHHHHHhhcC
Confidence 458999999999999999999999999999999999999 56667 89999999999999999999999999999874
No 3
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.64 E-value=4.1e-16 Score=128.16 Aligned_cols=73 Identities=25% Similarity=0.430 Sum_probs=67.4
Q ss_pred cccccCCCCCHHHHHHHHHHHHHHhhCCCccccEEeecCC--chHH-HHhhhhccCCCCCCCHHHHHHHHHHHHHh
Q 040148 12 RCTIGQQYDNPLSKKFNDVVNEMRRERCSYLRPRSCQEGD--LSGM-FSSKMIEDKNPNGPSYFEFLVQIHREIQK 84 (88)
Q Consensus 12 ~~~~LP~l~t~~s~rlr~iI~~lr~~~~~~~~l~vvrq~d--~~e~-f~~~LVEDr~~~~~SY~efL~~ihr~I~~ 84 (88)
++++||+++|+.|.++++||.++|..+..+..++|||+++ +... |++.|||||+.+..||+|||+|||++|++
T Consensus 812 ~~~~lp~~~n~~s~r~~~fI~~lR~d~~~~p~~~ivr~~~~s~~k~~f~~~lvEDrs~~~~SY~efLq~lk~qv~~ 887 (887)
T KOG1985|consen 812 GKYTLPELDNEESDRVRRFIKKLRDDRTYFPNLYIVRGDDNSPLKAWFFSRLVEDRSENSPSYYEFLQHLKAQVSK 887 (887)
T ss_pred ccccCcccccchhHHHHHHHHHhhcCCcccceEEEEecCCCchHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcC
Confidence 8899999999999999999999998888888899999763 4566 89999999999999999999999999974
No 4
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=99.56 E-value=6.2e-15 Score=120.72 Aligned_cols=73 Identities=27% Similarity=0.402 Sum_probs=66.9
Q ss_pred cccccCCCCCHHHHHHHHHHHHHHhh-CCCccccEEeecC-Cch-HH-HHhhhhccCCCCCCCHHHHHHHHHHHHHh
Q 040148 12 RCTIGQQYDNPLSKKFNDVVNEMRRE-RCSYLRPRSCQEG-DLS-GM-FSSKMIEDKNPNGPSYFEFLVQIHREIQK 84 (88)
Q Consensus 12 ~~~~LP~l~t~~s~rlr~iI~~lr~~-~~~~~~l~vvrq~-d~~-e~-f~~~LVEDr~~~~~SY~efL~~ihr~I~~ 84 (88)
++.++|..+|++|.++|+||++||.. +...+|+++||+| |+. +. |+++|||||+.+.+||.|||+.+|.+|+.
T Consensus 785 ~k~~~p~~~n~~n~~v~~iI~~lrs~~~~~tl~lvlVR~~~d~s~~~~~~s~lVEDk~~n~~SY~~yL~~lh~ki~~ 861 (861)
T COG5028 785 GKFTLPPTGNEFNERVRNIIGELRSVNDDSTLPLVLVRGGGDPSLRLWFFSTLVEDKTLNIPSYLDYLQILHEKIKS 861 (861)
T ss_pred cccccCCcCCHHHHHHHHHHHHHHhhCCCCccceEEEecCCCcchhhheehheecccccCCccHHHHHHHHHHHhcC
Confidence 68999999999999999999999994 4578889999998 777 77 89999999999999999999999999974
No 5
>KOG3355 consensus Mitochondrial sulfhydryl oxidase involved in the biogenesis of cytosolic Fe/S proteins [Posttranslational modification, protein turnover, chaperones]
Probab=83.09 E-value=0.63 Score=33.05 Aligned_cols=31 Identities=13% Similarity=0.428 Sum_probs=22.5
Q ss_pred HHhhhhccCCC---CCCCHHHHHHHHHHHHHhCCC
Q 040148 56 FSSKMIEDKNP---NGPSYFEFLVQIHREIQKKPS 87 (88)
Q Consensus 56 f~~~LVEDr~~---~~~SY~efL~~ihr~I~~~l~ 87 (88)
|..+|-+ ..+ +...+.+|+||+|.+|..+++
T Consensus 120 l~K~l~~-nppq~~SRe~~~~W~C~vHN~VNekLg 153 (177)
T KOG3355|consen 120 LRKILRK-NPPQTSSREAFTQWLCHVHNKVNEKLG 153 (177)
T ss_pred HHHHHHh-CCCCcchHHHHHHHHHHHHHHHHHHcC
Confidence 5444444 332 336899999999999999876
No 6
>PF04777 Evr1_Alr: Erv1 / Alr family; InterPro: IPR006863 Biogenesis of Fe/S clusters involves a number of essential mitochondrial proteins. Erv1p of Saccharomyces cerevisiae (Baker's yeast) mitochondria is required for the maturation of Fe/S proteins in the cytosol. The ALR (augmenter of liver regeneration) represents a mammalian ortholog of yeast Erv1p. Both Erv1p and full-length ALR are located in the mitochondrial intermembrane and it is thought to operate downstream of the mitochondrial ABC transporter [].; GO: 0016972 thiol oxidase activity, 0055114 oxidation-reduction process; PDB: 3MBG_C 3U2L_A 3U2M_A 3QD9_D 3QCP_A 3O55_A 2HJ3_B 3GWN_A 3T58_D 3T59_B ....
Probab=64.82 E-value=9.6 Score=23.44 Aligned_cols=54 Identities=7% Similarity=0.111 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHhhCCCccccEEeecCCchHH-HHhhhhcc--CCCCCCCHHHHHHHHHHHHHhCCC
Q 040148 24 SKKFNDVVNEMRRERCSYLRPRSCQEGDLSGM-FSSKMIED--KNPNGPSYFEFLVQIHREIQKKPS 87 (88)
Q Consensus 24 s~rlr~iI~~lr~~~~~~~~l~vvrq~d~~e~-f~~~LVED--r~~~~~SY~efL~~ihr~I~~~l~ 87 (88)
...+.+++..+....++ +.-.. |...+-.. ...+..+.+-||+.+|..|..+|+
T Consensus 23 ~~~~~~~~~~~~~~~pC----------~~C~~hf~~~~~~~~~~v~sr~~l~~Wl~~~HN~VN~rL~ 79 (95)
T PF04777_consen 23 KQVMEAFFRSFPHFFPC----------EECRNHFSKYIKKNPPQVSSREDLVLWLWRAHNKVNERLG 79 (95)
T ss_dssp HHHHHHHHHHHHHHSSS----------HHHHHHHHHHHHHSGGGGSSHHHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHCCc----------HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 44556666666655433 12233 65554442 234568999999999999998875
No 7
>PF08134 cIII: cIII protein family; InterPro: IPR012995 This family consists of the CIII family of regulatory proteins. The lambda CIII protein has 54 amino acids and it forms an amphipathic helix within its amino acid sequence. Lambda CIII stabilises the lambda CII protein and the host sigma factor 32, responsible for transcribing genes of the heat shock regulon [].
Probab=64.49 E-value=7.4 Score=21.47 Aligned_cols=20 Identities=20% Similarity=0.463 Sum_probs=16.4
Q ss_pred CCCCHHHHHHHHHHHHHHhh
Q 040148 18 QYDNPLSKKFNDVVNEMRRE 37 (88)
Q Consensus 18 ~l~t~~s~rlr~iI~~lr~~ 37 (88)
..++++|+|+|.+|...+..
T Consensus 17 P~ESELskr~rrLIRaa~k~ 36 (44)
T PF08134_consen 17 PTESELSKRIRRLIRAARKQ 36 (44)
T ss_pred CcHHHHHHHHHHHHHHHHHH
Confidence 35889999999999877653
No 8
>COG5054 ERV1 Mitochondrial sulfhydryl oxidase involved in the biogenesis of cytosolic Fe/S proteins [Posttranslational modification, protein turnover, chaperones]
Probab=64.13 E-value=5.1 Score=28.51 Aligned_cols=30 Identities=13% Similarity=0.339 Sum_probs=23.6
Q ss_pred hhhhccCCC---CCCCHHHHHHHHHHHHHhCCC
Q 040148 58 SKMIEDKNP---NGPSYFEFLVQIHREIQKKPS 87 (88)
Q Consensus 58 ~~LVEDr~~---~~~SY~efL~~ihr~I~~~l~ 87 (88)
+.|+++..+ +..+...|+|++|.+|..+++
T Consensus 130 ~K~l~~~ppqv~SRea~~~W~CevHN~VNekL~ 162 (181)
T COG5054 130 QKLLDVYPPQVSSREAATTWACEVHNKVNEKLG 162 (181)
T ss_pred HHHHhhCCCCcccHHHHHHHHHHHHHHHHHHhC
Confidence 556676664 346899999999999998875
No 9
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=54.27 E-value=5.5 Score=34.74 Aligned_cols=48 Identities=27% Similarity=0.324 Sum_probs=33.0
Q ss_pred CCCCCCcCCcc--ccccCCCCCHHHH----HHHHHHHHHHhhCCCccccEEeecC
Q 040148 2 DRGNCSPRYMR--CTIGQQYDNPLSK----KFNDVVNEMRRERCSYLRPRSCQEG 50 (88)
Q Consensus 2 ~~~~~~~~~~~--~~~LP~l~t~~s~----rlr~iI~~lr~~~~~~~~l~vvrq~ 50 (88)
|.|||||+|++ ++.+|... ++-+ -|-.+|+=+....+.-.++.||.-|
T Consensus 281 DqGN~sPr~mr~T~Y~iP~T~-Dl~~as~iPLalvIqPfa~l~p~E~~~~vVd~g 334 (1007)
T KOG1984|consen 281 DQGNCSPRFMRCTMYTIPCTN-DLLKASQIPLALVIQPFATLTPNEAPVPVVDLG 334 (1007)
T ss_pred ccCCCCcchheeecccCCccH-hHHHhcCCcceeEecccccCCcccCCCceecCC
Confidence 78999999996 45677543 3322 3446676666667777788888766
No 10
>PF14875 PIP49_N: N-term cysteine-rich ER, FAM69
Probab=47.09 E-value=28 Score=24.09 Aligned_cols=33 Identities=18% Similarity=0.094 Sum_probs=25.5
Q ss_pred HHhhhhccC---CCCCCCHHHHHHHHHHHHHhCCCC
Q 040148 56 FSSKMIEDK---NPNGPSYFEFLVQIHREIQKKPSL 88 (88)
Q Consensus 56 f~~~LVEDr---~~~~~SY~efL~~ihr~I~~~l~~ 88 (88)
|......|+ ..+.||..||...++..|+.++|+
T Consensus 110 ~~~~~~~~~e~~~~~~Ps~~ef~eMV~~~lk~~lG~ 145 (158)
T PF14875_consen 110 FEPLSWPRSELVLFDKPSMEEFREMVKSFLKNKLGD 145 (158)
T ss_pred cccccccccccccCCCCCHHHHHHHHHHHHHHHhCC
Confidence 555555555 245689999999999999998874
No 11
>PF03295 Pox_TAA1: Poxvirus trans-activator protein A1 C-terminal; InterPro: IPR004975 Late transcription factor VLTF-2, acts with RNA polymerase to initiate transcription from late gene promoters [].
Probab=41.29 E-value=41 Score=20.08 Aligned_cols=26 Identities=15% Similarity=0.235 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHhhCCCccccEEeecC
Q 040148 25 KKFNDVVNEMRRERCSYLRPRSCQEG 50 (88)
Q Consensus 25 ~rlr~iI~~lr~~~~~~~~l~vvrq~ 50 (88)
.+|.++|+.+|...+.|-.++.-..+
T Consensus 27 e~Vi~iIN~lR~keGvYG~c~~~e~~ 52 (63)
T PF03295_consen 27 EEVINIINELRNKEGVYGSCYYKEND 52 (63)
T ss_pred HHHHHHHHHhhhccCceeEEEEecCC
Confidence 68999999999999888887765443
No 12
>PF13080 DUF3926: Protein of unknown function (DUF3926)
Probab=34.79 E-value=37 Score=18.84 Aligned_cols=29 Identities=21% Similarity=0.375 Sum_probs=22.0
Q ss_pred cccCCCCCHHHHHHHHHHHHHHhhCCCcc
Q 040148 14 TIGQQYDNPLSKKFNDVVNEMRRERCSYL 42 (88)
Q Consensus 14 ~~LP~l~t~~s~rlr~iI~~lr~~~~~~~ 42 (88)
..|-++.+|+-+....+++-|+.+-..|+
T Consensus 2 ~IleELP~PiqQsAkqmlnILQEELssy~ 30 (44)
T PF13080_consen 2 HILEELPTPIQQSAKQMLNILQEELSSYP 30 (44)
T ss_pred chHhhcCchHHHHHHHHHHHHHHHHHhch
Confidence 45667889998888888888877755443
No 13
>KOG1830 consensus Wiskott Aldrich syndrome proteins [Cytoskeleton]
Probab=33.58 E-value=46 Score=27.12 Aligned_cols=70 Identities=10% Similarity=0.101 Sum_probs=49.1
Q ss_pred CCCCcCCccccccC-----CCCCHHHHHHHHHHHHHHhhCCCccccEEeecCCchHH-HHhhhhccCCC--CCCCHHHHH
Q 040148 4 GNCSPRYMRCTIGQ-----QYDNPLSKKFNDVVNEMRRERCSYLRPRSCQEGDLSGM-FSSKMIEDKNP--NGPSYFEFL 75 (88)
Q Consensus 4 ~~~~~~~~~~~~LP-----~l~t~~s~rlr~iI~~lr~~~~~~~~l~vvrq~d~~e~-f~~~LVEDr~~--~~~SY~efL 75 (88)
-|.+|+-.+-.+|| +|+.-.|.-|-|||.+|.....+ .|. |..+.-|=.+- -.-|..|=+
T Consensus 6 RnIePrhlcr~~lp~~~~~ELecvtN~TLaniIRQLsSLSKh------------AEdIFGELf~da~~f~~R~NSLQ~RI 73 (518)
T KOG1830|consen 6 RNIEPRHLCRGTLPSGIRSELECVTNITLANIIRQLSSLSKH------------AEDIFGELFNDANNFNHRANSLQERI 73 (518)
T ss_pred ccCchhhhhhhccccccccceeeecchHHHHHHHHHHHHHHH------------HHHHHHHHHHHhhhhhhhhhHHHHHH
Confidence 47889999999999 55777899999999999776532 455 54444333331 236788888
Q ss_pred HHHHHHHHhC
Q 040148 76 VQIHREIQKK 85 (88)
Q Consensus 76 ~~ihr~I~~~ 85 (88)
-.||.+|.++
T Consensus 74 DRL~vkVtqL 83 (518)
T KOG1830|consen 74 DRLAVKVTQL 83 (518)
T ss_pred HHHhhhhhcc
Confidence 8888887653
No 14
>PF11568 Med29: Mediator complex subunit 29; InterPro: IPR021018 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. Med29, along with Med11 and Med28, in mammals, is part of the core head-region of the complex. Med29 is the apparent orthologue of the Drosophila melanogaster Intersex protein, which interacts directly with, and functions as a transcriptional coactivator for, the DNA-binding transcription factor Doublesex, so it is likely that mammalian Med29 serves as a target for one or more DNA-binding transcriptional activators []. ; GO: 0016592 mediator complex
Probab=33.30 E-value=88 Score=21.61 Aligned_cols=49 Identities=10% Similarity=0.217 Sum_probs=28.1
Q ss_pred HHHHHHHHHHhhC--CCccccEEeecCCchHHHHhhhhccCC--CCCCCHHHHHHHHHHHHH
Q 040148 26 KFNDVVNEMRRER--CSYLRPRSCQEGDLSGMFSSKMIEDKN--PNGPSYFEFLVQIHREIQ 83 (88)
Q Consensus 26 rlr~iI~~lr~~~--~~~~~l~vvrq~d~~e~f~~~LVEDr~--~~~~SY~efL~~ihr~I~ 83 (88)
.|+..++-+.+.. ..|+|.-|..-. ..++-. .+.+||-+||..+.-+|.
T Consensus 71 ~L~ta~ec~~Q~~~S~rylP~~V~~~~---------~~~~~~~~~~~l~Y~qyl~tV~sqv~ 123 (148)
T PF11568_consen 71 HLKTAIECLSQLSSSQRYLPGPVMPNR---------VDKNTTIQTEQLSYPQYLNTVRSQVA 123 (148)
T ss_pred HHHHHHHHHHHHhhhcccCCCcccccc---------CCCCCcccccccCchhHHHHHHHHHH
Confidence 4555666665544 257776554321 011111 256899999988876654
No 15
>PF02991 Atg8: Autophagy protein Atg8 ubiquitin like; InterPro: IPR004241 Autophagy is generally known as a process involved in the degradation of bulk cytoplasmic components that are non-specifically sequestered into an autophagosome, where they are sequestered into double-membrane vesicles and delivered to the degradative organelle, the lysosome/vacuole, for breakdown and eventual recycling of the resulting macromolecules. The yeast proteins are involved in the autophagosome, and Atg8 binds Atg19, via its N terminus and the C terminus of Atg19. Light chain 3 is proposed to function primarily as a subunit of microtubule associated proteins 1A and 1B and that its expression may regulate microtubule binding activity [] Related proteins that belong to this group include the human ganglioside expression factor and a symbiosis-related fungal protein.; PDB: 3ECI_A 3D32_B 1GNU_A 1KM7_A 1KLV_A 1KOT_A 3DOW_A 1KJT_A 1V49_A 2ZJD_C ....
Probab=32.62 E-value=52 Score=21.17 Aligned_cols=50 Identities=10% Similarity=0.070 Sum_probs=34.4
Q ss_pred HHHHHHhhCCCccccEEeecC-CchHHH--HhhhhccCCCCCCCHHHHHHHHHHHHH
Q 040148 30 VVNEMRRERCSYLRPRSCQEG-DLSGMF--SSKMIEDKNPNGPSYFEFLVQIHREIQ 83 (88)
Q Consensus 30 iI~~lr~~~~~~~~l~vvrq~-d~~e~f--~~~LVEDr~~~~~SY~efL~~ihr~I~ 83 (88)
-.+.+|+..+...|++|=|.. +..... ..+|| +..++..+|+..|++.++
T Consensus 5 e~~~ir~kyP~~IPVIvEr~~~s~lp~ldk~KfLv----p~~~tv~qf~~~ir~rl~ 57 (104)
T PF02991_consen 5 ESERIREKYPDKIPVIVERYPKSKLPDLDKKKFLV----PKDLTVGQFVYIIRKRLQ 57 (104)
T ss_dssp HHHHHHHHSTTEEEEEEEE-TTSSS---SSSEEEE----ETTSBHHHHHHHHHHHTT
T ss_pred HHHHHHHHCCCccEEEEEEccCCChhhcCccEEEE----cCCCchhhHHHHhhhhhc
Confidence 346788888999999998865 332112 24455 466889999999999875
No 16
>PF06461 DUF1086: Domain of Unknown Function (DUF1086); InterPro: IPR009462 This entry represents several eukaryotic domains of unknown function, which are present in chromodomain helicase DNA binding proteins. This domain is often found in conjunction with IPR000330 from INTERPRO, IPR001650 from INTERPRO, IPR009463 from INTERPRO, IPR000953 from INTERPRO and IPR001965 from INTERPRO.
Probab=29.22 E-value=24 Score=24.41 Aligned_cols=19 Identities=16% Similarity=0.249 Sum_probs=16.1
Q ss_pred HHhhhhccCCCCCCCHHHH
Q 040148 56 FSSKMIEDKNPNGPSYFEF 74 (88)
Q Consensus 56 f~~~LVEDr~~~~~SY~ef 74 (88)
|..+|.||-++++.+|.|-
T Consensus 85 Fm~HL~E~~~d~s~tfsDG 103 (145)
T PF06461_consen 85 FMRHLCEPGTDNSDTFSDG 103 (145)
T ss_pred HHHHhcCCCcCCCCccCCC
Confidence 8899999999877777764
No 17
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=29.06 E-value=49 Score=24.00 Aligned_cols=11 Identities=18% Similarity=0.084 Sum_probs=9.7
Q ss_pred CCCcCCccccc
Q 040148 5 NCSPRYMRCTI 15 (88)
Q Consensus 5 ~~~~~~~~~~~ 15 (88)
.|+|||.|+++
T Consensus 9 i~gpM~SGKT~ 19 (201)
T COG1435 9 IYGPMFSGKTE 19 (201)
T ss_pred EEccCcCcchH
Confidence 48999999988
No 18
>PF11051 Mannosyl_trans3: Mannosyltransferase putative; InterPro: IPR022751 Alpha-mannosyltransferase is responsible for the addition of residues to the outer chain of core N-linked polysaccharides and to O-linked mannotriose. It is implicated in late Golgi modifications [][][]. The proteins matching this entry are conserved in fungi and also found in some phototrophic organisms.; GO: 0006486 protein glycosylation
Probab=28.37 E-value=1e+02 Score=22.59 Aligned_cols=40 Identities=18% Similarity=0.102 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHhhCCCccccEEeecC-CchHH-HHhhhhc
Q 040148 22 PLSKKFNDVVNEMRRERCSYLRPRSCQEG-DLSGM-FSSKMIE 62 (88)
Q Consensus 22 ~~s~rlr~iI~~lr~~~~~~~~l~vvrq~-d~~e~-f~~~LVE 62 (88)
.....+..+|..||. .++.+||.|+-.+ +.... +...|..
T Consensus 11 ~~~~~a~~lI~~LR~-~g~~LPIEI~~~~~~dl~~~~~~~l~~ 52 (271)
T PF11051_consen 11 KYLWLALRLIRVLRR-LGNTLPIEIIYPGDDDLSKEFCEKLLP 52 (271)
T ss_pred ccHHHHHHHHHHHHH-hCCCCCEEEEeCCccccCHHHHHHHhh
Confidence 445566688899988 6799999999886 44444 6555554
No 19
>PF00036 EF-hand_1: EF hand; InterPro: IPR018248 Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both sides by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; PDB: 1BJF_A 1XFW_R 1XFV_O 2K0J_A 2F3Z_A 3BYA_A 1XFU_Q 2R28_B 1ZOT_B 3G43_D ....
Probab=25.93 E-value=61 Score=15.80 Aligned_cols=18 Identities=28% Similarity=0.516 Sum_probs=12.7
Q ss_pred cCCCCC-CCHHHHHHHHHH
Q 040148 63 DKNPNG-PSYFEFLVQIHR 80 (88)
Q Consensus 63 Dr~~~~-~SY~efL~~ihr 80 (88)
|+..++ -|+-||..-+.+
T Consensus 10 D~d~dG~I~~~Ef~~~~~~ 28 (29)
T PF00036_consen 10 DKDGDGKIDFEEFKEMMKK 28 (29)
T ss_dssp STTSSSEEEHHHHHHHHHH
T ss_pred CCCCCCcCCHHHHHHHHHh
Confidence 566544 799999877654
No 20
>smart00340 HALZ homeobox associated leucin zipper.
Probab=23.85 E-value=1.1e+02 Score=16.92 Aligned_cols=19 Identities=16% Similarity=0.314 Sum_probs=16.3
Q ss_pred CHHHHHHHHHHHHHHhhCC
Q 040148 21 NPLSKKFNDVVNEMRRERC 39 (88)
Q Consensus 21 t~~s~rlr~iI~~lr~~~~ 39 (88)
++.|+|+..-++.||....
T Consensus 18 teeNrRL~ke~~eLralk~ 36 (44)
T smart00340 18 TEENRRLQKEVQELRALKL 36 (44)
T ss_pred HHHHHHHHHHHHHHHhccc
Confidence 5789999999999998763
No 21
>PF07855 DUF1649: Protein of unknown function (DUF1649); InterPro: IPR012445 This family represents Autophagy-related protein 101.
Probab=21.81 E-value=89 Score=21.42 Aligned_cols=24 Identities=8% Similarity=0.336 Sum_probs=20.0
Q ss_pred ccCCCCCHHHHHHHHHHHHHHhhC
Q 040148 15 IGQQYDNPLSKKFNDVVNEMRRER 38 (88)
Q Consensus 15 ~LP~l~t~~s~rlr~iI~~lr~~~ 38 (88)
..|++++-+.+++..+++++....
T Consensus 48 ~~~el~~~Id~ki~~f~~~l~~~~ 71 (163)
T PF07855_consen 48 NDPELESLIDEKINQFIRQLEKHP 71 (163)
T ss_pred CcHHHHHHHHHHHHHHHHHHHhCc
Confidence 347888888999999999997665
No 22
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=21.29 E-value=2.2e+02 Score=18.38 Aligned_cols=50 Identities=14% Similarity=0.126 Sum_probs=34.9
Q ss_pred HHHHHHhhCCCccccEEeecCCc-h-HH-HHhhhhccCCCCCCCHHHHHHHHHHHHH
Q 040148 30 VVNEMRRERCSYLRPRSCQEGDL-S-GM-FSSKMIEDKNPNGPSYFEFLVQIHREIQ 83 (88)
Q Consensus 30 iI~~lr~~~~~~~~l~vvrq~d~-~-e~-f~~~LVEDr~~~~~SY~efL~~ihr~I~ 83 (88)
-.+.+|+..+-..|++|=+.... . .. -..+|| +..++..+|..-|++.++
T Consensus 13 e~~~ir~kyp~~iPVIvE~~~~~~~p~l~k~KflV----p~~~tv~~f~~~irk~l~ 65 (112)
T cd01611 13 EVERIRAKYPDRIPVIVERYPKSDLPDLDKKKYLV----PSDLTVGQFVYIIRKRIQ 65 (112)
T ss_pred HHHHHHHHCCCceEEEEEEcCCCCcccccCceEEe----cCCCCHHHHHHHHHHHhC
Confidence 44568888888899888775522 1 22 334455 356899999999999875
No 23
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=20.01 E-value=1.6e+02 Score=15.48 Aligned_cols=21 Identities=19% Similarity=0.292 Sum_probs=14.7
Q ss_pred hhccCCCCCCCHHHHHHHHHH
Q 040148 60 MIEDKNPNGPSYFEFLVQIHR 80 (88)
Q Consensus 60 LVEDr~~~~~SY~efL~~ihr 80 (88)
.++-...|..||.||+..+.+
T Consensus 33 ~~D~~~~G~I~~~EF~~~~~~ 53 (54)
T PF13833_consen 33 EFDTDGDGYISFDEFISMMQR 53 (54)
T ss_dssp HHTTSSSSSEEHHHHHHHHHH
T ss_pred hcccCCCCCCCHHHHHHHHHh
Confidence 444444566899999987654
Done!