Query 023206
Match_columns 286
No_of_seqs 141 out of 277
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 09:13:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023206.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023206hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06200 tify: tify domain; I 99.7 2E-18 4.2E-23 117.7 5.1 35 91-125 2-36 (36)
2 PF09425 CCT_2: Divergent CCT 99.5 1.5E-15 3.2E-20 97.9 1.4 26 193-218 1-26 (27)
3 PF06203 CCT: CCT motif; Inte 92.6 0.078 1.7E-06 38.2 1.9 25 196-220 1-26 (45)
4 PF08114 PMP1_2: ATPase proteo 63.9 2.7 5.8E-05 30.2 0.4 10 194-203 34-43 (43)
5 PF02007 MtrH: Tetrahydrometha 59.4 8.9 0.00019 37.3 3.1 28 98-125 27-58 (296)
6 PF13619 KTSC: KTSC domain 58.9 18 0.0004 26.4 4.1 31 91-121 12-43 (60)
7 PF08152 GUCT: GUCT (NUC152) d 53.6 7.4 0.00016 31.5 1.3 35 90-125 46-80 (97)
8 PRK00979 tetrahydromethanopter 52.3 14 0.00031 36.0 3.2 28 98-125 32-63 (308)
9 PRK14047 putative methyltransf 48.8 17 0.00037 35.6 3.2 28 98-125 32-63 (310)
10 TIGR01114 mtrH N5-methyltetrah 48.4 18 0.00039 35.6 3.2 28 98-125 32-63 (314)
11 TIGR03831 YgiT_finger YgiT-typ 38.0 31 0.00066 22.9 2.3 22 94-115 13-34 (46)
12 PF12196 hNIFK_binding: FHA Ki 36.9 17 0.00036 26.1 0.8 10 202-211 14-23 (41)
13 PF12860 PAS_7: PAS fold 35.0 26 0.00056 27.1 1.7 17 102-118 98-114 (115)
14 cd07286 PX_SNX18 The phosphoin 32.5 28 0.0006 29.7 1.6 45 191-241 72-116 (127)
15 cd07284 PX_SNX7 The phosphoino 30.2 40 0.00086 28.0 2.2 36 191-232 81-116 (116)
16 PF03355 Pox_TAP: Viral Trans- 27.7 40 0.00086 31.9 1.9 23 97-120 55-78 (260)
17 PHA03071 late transcription fa 27.0 41 0.00089 31.7 1.9 23 97-120 55-78 (260)
18 cd06891 PX_Vps17p The phosphoi 25.9 41 0.0009 29.3 1.6 34 190-229 104-137 (140)
19 cd07285 PX_SNX9 The phosphoino 25.8 58 0.0013 27.8 2.4 37 191-233 73-109 (126)
20 cd07283 PX_SNX30 The phosphoin 25.6 54 0.0012 27.1 2.2 35 191-231 81-115 (116)
21 PF14268 YoaP: YoaP-like 25.5 73 0.0016 22.9 2.5 15 95-109 21-35 (44)
22 COG1962 MtrH Tetrahydromethano 25.0 68 0.0015 31.3 3.0 30 97-126 34-67 (313)
23 PF11344 DUF3146: Protein of u 22.4 49 0.0011 26.8 1.3 17 197-213 53-69 (80)
24 PF11208 DUF2992: Protein of u 20.3 51 0.0011 28.5 1.1 9 97-105 1-9 (132)
No 1
>PF06200 tify: tify domain; InterPro: IPR010399 The tify domain is a 36-amino acid domain only found among Embryophyta (land plants). It has been named after the most conserved amino acid pattern (TIF[F/Y]XG) it contains, but was previously known as the Zim domain. As the use of uppercase characters (TIFY) might imply that the domain is fully conserved across proteins, a lowercase lettering has been chosen in an attempt to highlight the reality of its natural variability. Based on the domain architecture, tify domain containing proteins can be classified into two groups. Group I is formed by proteins possessing a CCT (CONSTANS, CO-like, and TOC1) domain and a GATA-type zinc finger in addition to the tify domain. Group II contains proteins characterised by the tify domain but lacking a GATA-type zinc finger. Tify domain containing proteins might be involved in developmental processes and some of them have features that are characteristic for transcription factors: a nuclear localisation and the presence of a putative DNA-binding domain []. Some proteins known to contain a tify domain include: Arabidopsis thaliana Zinc-finger protein expressed in Inflorescence Meristem (ZIM), a putative transcription factor involved in inflorescence and flower development [, ]. A. thaliana ZIM-like proteins (ZML) []. A. thaliana PEAPOD1 and PEAPOD2 (PPD1 and PPD2) [].
Probab=99.74 E-value=2e-18 Score=117.68 Aligned_cols=35 Identities=49% Similarity=0.838 Sum_probs=32.7
Q ss_pred cccCcceeEEeCcEEEEeCCCCHHHHHHHHHHhcC
Q 023206 91 KEAVGQMTIFYSGKVNVYDDMPSEKAQAILQLAAS 125 (286)
Q Consensus 91 ~~~~~QLTIFY~G~V~VfDdvp~eKA~~Im~lA~~ 125 (286)
.+.++||||||+|+|+||||||+|||++||.||++
T Consensus 2 ~~~~~qLTIfY~G~V~Vfd~v~~~Ka~~im~lA~r 36 (36)
T PF06200_consen 2 SPETAQLTIFYGGQVCVFDDVPPDKAQEIMLLASR 36 (36)
T ss_pred CCCCCcEEEEECCEEEEeCCCCHHHHHHHHHHhcC
Confidence 46789999999999999999999999999999974
No 2
>PF09425 CCT_2: Divergent CCT motif; InterPro: IPR018467 The short CCT (CO, COL, TOC1) motif is found in a number of plant proteins, including Constans (CO), Constans-like (COL) and TOC1. The CCT motif is about 45 amino acids long and contains a putative nuclear localisation signal within the second half of the CCT motif []. The CCT motif is found in the Arabidopsis circadian rhythm protein TOC1, an autoregulatory response regulator homologue the controls the photoperiodic flowering through its clock function []. ; GO: 0005515 protein binding; PDB: 3OGK_V 3OGL_S 3OGM_W.
Probab=99.54 E-value=1.5e-15 Score=97.90 Aligned_cols=26 Identities=54% Similarity=0.764 Sum_probs=10.0
Q ss_pred hhhHHHHhHHHHHhhhhhhhccCCCC
Q 023206 193 PTSRKASVQRYREKRKDRFKNKRKIA 218 (286)
Q Consensus 193 PIARKaSLqRFLEKRKDRl~AKaPY~ 218 (286)
|||||+||||||||||||+.+++||.
T Consensus 1 P~aRK~SLqRFLeKRK~R~~~~~PY~ 26 (27)
T PF09425_consen 1 PIARKASLQRFLEKRKDRLAAKSPYQ 26 (27)
T ss_dssp -----HHHHHHHHHH-----------
T ss_pred CchHHHHHHHHHHHHHHhhccCCCCC
Confidence 79999999999999999999999996
No 3
>PF06203 CCT: CCT motif; InterPro: IPR010402 The CCT (CONSTANS, CO-like, and TOC1) domain is a highly conserved basic module of ~43 amino acids, which is found near the C terminus of plant proteins often involved in light signal transduction. The CCT domain is found in association with other domains, such as the B-box zinc finger, the GATA-type zinc finger, the ZIM motif or the response regulatory domain. The CCT domain contains a putative nuclear localisation signal within the second half of the CCT motif and has been shown to be involved in nuclear localization and probably also has a role in protein-protein interaction [].; GO: 0005515 protein binding
Probab=92.63 E-value=0.078 Score=38.20 Aligned_cols=25 Identities=44% Similarity=0.558 Sum_probs=21.3
Q ss_pred HHHHhHHHHHhhhhhhhc-cCCCCCC
Q 023206 196 RKASVQRYREKRKDRFKN-KRKIAMP 220 (286)
Q Consensus 196 RKaSLqRFLEKRKDRl~A-KaPY~~~ 220 (286)
|+++|+||+|||+.|... +..|...
T Consensus 1 R~~~l~Ry~~Kr~~R~f~kkirY~~R 26 (45)
T PF06203_consen 1 REEKLQRYREKRKRRNFEKKIRYESR 26 (45)
T ss_pred CHHHHHHHHHHHHhhcccccCCcchH
Confidence 688999999999999875 5788765
No 4
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=63.85 E-value=2.7 Score=30.23 Aligned_cols=10 Identities=40% Similarity=0.793 Sum_probs=9.1
Q ss_pred hhHHHHhHHH
Q 023206 194 TSRKASVQRY 203 (286)
Q Consensus 194 IARKaSLqRF 203 (286)
+|||++||||
T Consensus 34 ~aRkr~l~rf 43 (43)
T PF08114_consen 34 QARKRALQRF 43 (43)
T ss_pred HHHHHHHhcC
Confidence 5899999998
No 5
>PF02007 MtrH: Tetrahydromethanopterin S-methyltransferase MtrH subunit; InterPro: IPR023467 In archaea the enzyme tetrahydromethanopterin S-methyltransferase is composed of eight subunits, MtrA-H. The enzyme is a membrane- associated enzyme complex which catalyzes an energy-conserving, sodium-ion-translocating step in methanogenesis from hydrogen and carbon dioxide []. Subunit MtrH catalyzes the methylation reaction and was shown to exhibit methyltetrahydromethanopterin:cob(I)alamin methyltransferase activity []. CH3-H4MPT + cob(I)alamin --> H4MPT + CH3-cob(III)alamin (H4MPT = tetrahydromethanopterin); GO: 0008168 methyltransferase activity, 0006730 one-carbon metabolic process
Probab=59.37 E-value=8.9 Score=37.33 Aligned_cols=28 Identities=32% Similarity=0.558 Sum_probs=24.8
Q ss_pred eEEeCcEEEEeCC----CCHHHHHHHHHHhcC
Q 023206 98 TIFYSGKVNVYDD----MPSEKAQAILQLAAS 125 (286)
Q Consensus 98 TIFY~G~V~VfDd----vp~eKA~~Im~lA~~ 125 (286)
||||+|.=.|-|+ |..++|++++..-..
T Consensus 27 SIFY~gHkIV~D~~~G~FDk~~Ae~Li~~q~e 58 (296)
T PF02007_consen 27 SIFYNGHKIVEDEKKGIFDKEAAEALINRQEE 58 (296)
T ss_pred eeeecCceeeeccCCCccCHHHHHHHHHHHHH
Confidence 8999999999986 889999999987654
No 6
>PF13619 KTSC: KTSC domain
Probab=58.87 E-value=18 Score=26.38 Aligned_cols=31 Identities=26% Similarity=0.423 Sum_probs=26.0
Q ss_pred cccCcceeEEe-CcEEEEeCCCCHHHHHHHHH
Q 023206 91 KEAVGQMTIFY-SGKVNVYDDMPSEKAQAILQ 121 (286)
Q Consensus 91 ~~~~~QLTIFY-~G~V~VfDdvp~eKA~~Im~ 121 (286)
.+.+..|.|.| +|.++.|.+||.+-.+++|.
T Consensus 12 d~~~~~L~V~F~~G~~Y~Y~~Vp~~~~~~l~~ 43 (60)
T PF13619_consen 12 DPETRTLEVEFKSGSVYRYFGVPPEVYEALLN 43 (60)
T ss_pred CCCCCEEEEEEcCCCEEEECCCCHHHHHHHHc
Confidence 35567888855 79999999999999999886
No 7
>PF08152 GUCT: GUCT (NUC152) domain; InterPro: IPR012562 This is the C-terminal domain found in the RNA helicase II / Gu protein family [].; GO: 0003723 RNA binding, 0004386 helicase activity, 0005524 ATP binding, 0005634 nucleus; PDB: 2E29_A.
Probab=53.59 E-value=7.4 Score=31.47 Aligned_cols=35 Identities=29% Similarity=0.345 Sum_probs=26.9
Q ss_pred ccccCcceeEEeCcEEEEeCCCCHHHHHHHHHHhcC
Q 023206 90 AKEAVGQMTIFYSGKVNVYDDMPSEKAQAILQLAAS 125 (286)
Q Consensus 90 ~~~~~~QLTIFY~G~V~VfDdvp~eKA~~Im~lA~~ 125 (286)
....-..|||.=++.=.|| |||.+.+++|+.....
T Consensus 46 ~~~~v~~m~l~~d~~GavF-DvP~~~~~~~~~~~~~ 80 (97)
T PF08152_consen 46 IADKVKGMTLLKDKMGAVF-DVPSEIAEEFLAKWED 80 (97)
T ss_dssp HHTT-EEEEE-TTSSEEEE-EEEHHHHHHHHHH--S
T ss_pred HHHhhCcEEEecCCCEEEE-EChHHHHHHHHHhCcc
Confidence 3456688999999999999 8999999999987744
No 8
>PRK00979 tetrahydromethanopterin S-methyltransferase subunit H; Provisional
Probab=52.32 E-value=14 Score=36.05 Aligned_cols=28 Identities=36% Similarity=0.535 Sum_probs=24.2
Q ss_pred eEEeCcEEEEeC----CCCHHHHHHHHHHhcC
Q 023206 98 TIFYSGKVNVYD----DMPSEKAQAILQLAAS 125 (286)
Q Consensus 98 TIFY~G~V~VfD----dvp~eKA~~Im~lA~~ 125 (286)
||||+|.=.|-| .|..+||++++..-..
T Consensus 32 siFY~~h~iV~D~~~G~FDk~~Ae~Li~~~~e 63 (308)
T PRK00979 32 SIFYAGHKIVSDEKKGIFDKEKAEALINRQEE 63 (308)
T ss_pred EeeecCceeeeccccCccCHHHHHHHHHHHHH
Confidence 899999999987 4789999999987644
No 9
>PRK14047 putative methyltransferase; Provisional
Probab=48.84 E-value=17 Score=35.65 Aligned_cols=28 Identities=32% Similarity=0.434 Sum_probs=24.2
Q ss_pred eEEeCcEEEEeC----CCCHHHHHHHHHHhcC
Q 023206 98 TIFYSGKVNVYD----DMPSEKAQAILQLAAS 125 (286)
Q Consensus 98 TIFY~G~V~VfD----dvp~eKA~~Im~lA~~ 125 (286)
||||+|.=.|-| .|..+||++++.....
T Consensus 32 sIFY~~HkIV~D~~~GiFDk~~Ae~Lin~q~e 63 (310)
T PRK14047 32 TIFYNRHKIVTDEDKGLFDREAAEKLVNLQEE 63 (310)
T ss_pred EEeecCceeeeccccCccCHHHHHHHHHHHHH
Confidence 899999999987 4789999999987643
No 10
>TIGR01114 mtrH N5-methyltetrahydromethanopterin:coenzyme M methyltransferase subunit H. coenzyme M methyltransferase subunit H in methanogenic archaea. This methyltranfersae is membrane-associated enzyme complex that uses methyl-transfer reaction to drive sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.
Probab=48.36 E-value=18 Score=35.58 Aligned_cols=28 Identities=25% Similarity=0.361 Sum_probs=24.1
Q ss_pred eEEeCcEEEEeC----CCCHHHHHHHHHHhcC
Q 023206 98 TIFYSGKVNVYD----DMPSEKAQAILQLAAS 125 (286)
Q Consensus 98 TIFY~G~V~VfD----dvp~eKA~~Im~lA~~ 125 (286)
||||+|.=.|-| .|..+||++++.....
T Consensus 32 SIFY~~HkIV~D~~~GiFDk~~Ae~Lin~q~e 63 (314)
T TIGR01114 32 TIFYARHKIVEDEDKGIFDKAAAETLIKTQEE 63 (314)
T ss_pred EEeecCceeeeccccCccCHHHHHHHHHHHHH
Confidence 899999999987 4789999999887643
No 11
>TIGR03831 YgiT_finger YgiT-type zinc finger domain. This domain model describes a small domain with two copies of a putative zinc-binding motif CXXC (usually CXXCG). Most member proteins consist largely of this domain or else carry an additional C-terminal helix-turn-helix domain, resembling that of the phage protein Cro and modeled by pfam01381.
Probab=38.01 E-value=31 Score=22.92 Aligned_cols=22 Identities=23% Similarity=0.353 Sum_probs=18.2
Q ss_pred CcceeEEeCcEEEEeCCCCHHH
Q 023206 94 VGQMTIFYSGKVNVYDDMPSEK 115 (286)
Q Consensus 94 ~~QLTIFY~G~V~VfDdvp~eK 115 (286)
...+++-|+|+..++.|||+.+
T Consensus 13 ~~~~~~~~~~~~~~i~~vp~~~ 34 (46)
T TIGR03831 13 TTTETYEYGGELIVIENVPALV 34 (46)
T ss_pred EEEEEEEeCCEEEEEeCCCccc
Confidence 3467888999999999999753
No 12
>PF12196 hNIFK_binding: FHA Ki67 binding domain of hNIFK; InterPro: IPR021043 This entry represents eukaryotic proteins that contain a domain of approximately 40 amino acids in length. These proteins are found in association with PF00076 from PFAM. There are two conserved sequence motifs: TPVCTP and LERRKS. This domain is found on the human nucleolar protein hNIFK. It binds to the fork-head-associated domain of human Ki67. High-affinity binding requires sequential phosphorylation by two kinases, CDK1 and GSK3, yielding pThr238, pThr234 and pSer230. This interaction is involved in cell cycle regulation []. ; PDB: 2AFF_B.
Probab=36.87 E-value=17 Score=26.07 Aligned_cols=10 Identities=30% Similarity=0.597 Sum_probs=8.1
Q ss_pred HHHHhhhhhh
Q 023206 202 RYREKRKDRF 211 (286)
Q Consensus 202 RFLEKRKDRl 211 (286)
-||||||--+
T Consensus 14 tfLErRKS~~ 23 (41)
T PF12196_consen 14 TFLERRKSEV 23 (41)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHhhhhh
Confidence 5999999754
No 13
>PF12860 PAS_7: PAS fold
Probab=35.00 E-value=26 Score=27.10 Aligned_cols=17 Identities=18% Similarity=0.356 Sum_probs=14.8
Q ss_pred CcEEEEeCCCCHHHHHH
Q 023206 102 SGKVNVYDDMPSEKAQA 118 (286)
Q Consensus 102 ~G~V~VfDdvp~eKA~~ 118 (286)
||.|.+|.|||..|..|
T Consensus 98 Gg~v~~~~DVT~~~~~E 114 (115)
T PF12860_consen 98 GGFVLTFTDVTERRRAE 114 (115)
T ss_pred CCEEEEEEeCCHHHHhc
Confidence 79999999999988653
No 14
>cd07286 PX_SNX18 The phosphoinositide binding Phox Homology domain of Sorting Nexin 18. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. SNX18, like SNX9, contains an N-terminal Src Homology 3 (SH3) domain, a PX domain, and a C-terminal Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane curvature. The PX-BAR structural unit helps determine specific membrane localization. SNX18 is localized to peripheral endosomal structures, and acts in a trafficki
Probab=32.49 E-value=28 Score=29.74 Aligned_cols=45 Identities=13% Similarity=0.119 Sum_probs=32.3
Q ss_pred CchhhHHHHhHHHHHhhhhhhhccCCCCCCCCCcchhhhcccccccccCCC
Q 023206 191 DGPTSRKASVQRYREKRKDRFKNKRKIAMPSSSSLDVYLNRWVGDQFANEQ 241 (286)
Q Consensus 191 DLPIARKaSLqRFLEKRKDRl~AKaPY~~~~ss~l~~~ln~~~~~~~~~~~ 241 (286)
++=.-|++.|++||.+ .+..|+... +.-+..||.....++..|.+
T Consensus 72 ~FIe~Rr~~Lq~FL~r-----ia~hp~L~~-s~~~~~FL~~~~~~~~~~~~ 116 (127)
T cd07286 72 DFISKRRKGLIWWMDH-----MCSHPVLAR-CDAFQHFLTCPSTDEKAWKQ 116 (127)
T ss_pred HHHHHHHHHHHHHHHH-----HHcCccccc-ChHHHHHhcCCcchhHHHhh
Confidence 4444799999999975 455677665 77888999987666555544
No 15
>cd07284 PX_SNX7 The phosphoinositide binding Phox Homology domain of Sorting Nexin 7. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Some SNXs are localized in early endosome structures such as clathrin-coated pits, while others are located in late structures of the endocytic pathway. SNX7 harbors a Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane curvature, C-terminal to the PX domain, similar to the sorting nexins SNX1-2, SNX4-6, SNX8, SNX30,
Probab=30.20 E-value=40 Score=27.99 Aligned_cols=36 Identities=8% Similarity=0.253 Sum_probs=25.7
Q ss_pred CchhhHHHHhHHHHHhhhhhhhccCCCCCCCCCcchhhhccc
Q 023206 191 DGPTSRKASVQRYREKRKDRFKNKRKIAMPSSSSLDVYLNRW 232 (286)
Q Consensus 191 DLPIARKaSLqRFLEKRKDRl~AKaPY~~~~ss~l~~~ln~~ 232 (286)
++=--||+.|++||.+ | +..|+... +..+.+||..+
T Consensus 81 ~fie~Rr~~Le~FL~r----i-~~hp~L~~-s~~~~~FL~~~ 116 (116)
T cd07284 81 DFIETRRKALHKFLNR----I-ADHPTLTF-NEDFKIFLTAQ 116 (116)
T ss_pred HHHHHHHHHHHHHHHH----H-HcCccccc-ChHHHHhhcCC
Confidence 3444689999999963 4 66677666 67788888653
No 16
>PF03355 Pox_TAP: Viral Trans-Activator Protein ; InterPro: IPR005022 This family of proteins function as a trans-activator of viral late genes.; GO: 0006355 regulation of transcription, DNA-dependent
Probab=27.71 E-value=40 Score=31.93 Aligned_cols=23 Identities=30% Similarity=0.743 Sum_probs=19.7
Q ss_pred eeEEeCcEE-EEeCCCCHHHHHHHH
Q 023206 97 MTIFYSGKV-NVYDDMPSEKAQAIL 120 (286)
Q Consensus 97 LTIFY~G~V-~VfDdvp~eKA~~Im 120 (286)
-.|||+|.+ .|| ++|..|++.-+
T Consensus 55 asvfydG~~n~VF-NlPV~KvKsCL 78 (260)
T PF03355_consen 55 ASVFYDGDENKVF-NLPVLKVKSCL 78 (260)
T ss_pred ceEEEcCCCCeEE-eeehHHhhhhh
Confidence 369999999 788 89999999865
No 17
>PHA03071 late transcription factor VLTF-1; Provisional
Probab=26.98 E-value=41 Score=31.74 Aligned_cols=23 Identities=30% Similarity=0.735 Sum_probs=19.7
Q ss_pred eeEEeCcEE-EEeCCCCHHHHHHHH
Q 023206 97 MTIFYSGKV-NVYDDMPSEKAQAIL 120 (286)
Q Consensus 97 LTIFY~G~V-~VfDdvp~eKA~~Im 120 (286)
-.+||+|.+ .|| ++|..|++.-+
T Consensus 55 a~vfydG~~n~VF-NlPV~KvK~CL 78 (260)
T PHA03071 55 ASVFYDGDENIVF-NLPVSKVKSCL 78 (260)
T ss_pred ceEEEcCCCCeEE-eeehHHhhhhh
Confidence 368999999 788 89999999865
No 18
>cd06891 PX_Vps17p The phosphoinositide binding Phox Homology domain of yeast sorting nexin Vps17p. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Vsp17p forms a dimer with Vps5p, the yeast counterpart of human SNX1, and is part of the retromer complex that mediates the transport of the carboxypeptidase Y receptor Vps10p from endosomes to Golgi. Similar to Vps5p and SNX1, Vps17p harbors a Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane curvatur
Probab=25.90 E-value=41 Score=29.29 Aligned_cols=34 Identities=18% Similarity=0.294 Sum_probs=22.3
Q ss_pred CCchhhHHHHhHHHHHhhhhhhhccCCCCCCCCCcchhhh
Q 023206 190 FDGPTSRKASVQRYREKRKDRFKNKRKIAMPSSSSLDVYL 229 (286)
Q Consensus 190 aDLPIARKaSLqRFLEKRKDRl~AKaPY~~~~ss~l~~~l 229 (286)
.|.=.-|+++|||||++ .+..|.... ...|..||
T Consensus 104 ~E~~~~rr~~LqrfL~R-----V~~hP~L~~-d~~l~~FL 137 (140)
T cd06891 104 EEDARKLKANLQRWFNR-----VCSDPILIR-DEELRFFI 137 (140)
T ss_pred HHHHHHHHHHHHHHHHH-----HhCChhhcc-CHHHHHHh
Confidence 35566799999999975 344554444 55555555
No 19
>cd07285 PX_SNX9 The phosphoinositide binding Phox Homology domain of Sorting Nexin 9. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. SNX9, also known as SH3PX1, is a cytosolic protein that interacts with proteins associated with clathrin-coated pits such as Cdc-42-associated tyrosine kinase 2 (ACK2). It contains an N-terminal Src Homology 3 (SH3) domain, a PX domain, and a C-terminal Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane curvature. T
Probab=25.82 E-value=58 Score=27.81 Aligned_cols=37 Identities=14% Similarity=0.124 Sum_probs=27.7
Q ss_pred CchhhHHHHhHHHHHhhhhhhhccCCCCCCCCCcchhhhcccc
Q 023206 191 DGPTSRKASVQRYREKRKDRFKNKRKIAMPSSSSLDVYLNRWV 233 (286)
Q Consensus 191 DLPIARKaSLqRFLEKRKDRl~AKaPY~~~~ss~l~~~ln~~~ 233 (286)
+.=..|+..|++||.| .+..|+... +..+..||...-
T Consensus 73 ~FIe~Rr~~Le~FL~r-----i~~hP~L~~-~~~l~~FL~~~~ 109 (126)
T cd07285 73 EFIKMRMERLQAWMTR-----MCRHPVISE-SEVFQQFLNFRD 109 (126)
T ss_pred HHHHHHHHHHHHHHHH-----HHcCcCcCC-CcHHHHHhCCCC
Confidence 4555799999999986 455577765 778889998643
No 20
>cd07283 PX_SNX30 The phosphoinositide binding Phox Homology domain of Sorting Nexin 30. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Some SNXs are localized in early endosome structures such as clathrin-coated pits, while others are located in late structures of the endocytic pathway. SNX30 harbors a Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane curvature, C-terminal to the PX domain, similar to the sorting nexins SNX1-2, SNX4-8, and SNX32
Probab=25.60 E-value=54 Score=27.14 Aligned_cols=35 Identities=9% Similarity=0.314 Sum_probs=25.1
Q ss_pred CchhhHHHHhHHHHHhhhhhhhccCCCCCCCCCcchhhhcc
Q 023206 191 DGPTSRKASVQRYREKRKDRFKNKRKIAMPSSSSLDVYLNR 231 (286)
Q Consensus 191 DLPIARKaSLqRFLEKRKDRl~AKaPY~~~~ss~l~~~ln~ 231 (286)
+.=.-||..|++||.+ | +..|+... +..+.+||..
T Consensus 81 ~fie~Rr~~Le~FL~~----i-~~hp~L~~-s~~~~~FLt~ 115 (116)
T cd07283 81 EFVETRRKALDKFLKR----I-ADHPVLSF-NEHFNVFLTA 115 (116)
T ss_pred HHHHHHHHHHHHHHHH----H-HcCccccc-CcHHHHhhcC
Confidence 4444688999999964 4 56677666 6778888864
No 21
>PF14268 YoaP: YoaP-like
Probab=25.46 E-value=73 Score=22.89 Aligned_cols=15 Identities=27% Similarity=0.583 Sum_probs=11.3
Q ss_pred cceeEEeCcEEEEeC
Q 023206 95 GQMTIFYSGKVNVYD 109 (286)
Q Consensus 95 ~QLTIFY~G~V~VfD 109 (286)
.-..|||+|+..--+
T Consensus 21 t~yalFYnGkfiT~e 35 (44)
T PF14268_consen 21 TTYALFYNGKFITNE 35 (44)
T ss_pred eEEEEEECCEEEEee
Confidence 346789999987653
No 22
>COG1962 MtrH Tetrahydromethanopterin S-methyltransferase, subunit H [Coenzyme metabolism]
Probab=25.00 E-value=68 Score=31.34 Aligned_cols=30 Identities=30% Similarity=0.391 Sum_probs=23.0
Q ss_pred eeEEeCcEEEEeCC----CCHHHHHHHHHHhcCC
Q 023206 97 MTIFYSGKVNVYDD----MPSEKAQAILQLAASP 126 (286)
Q Consensus 97 LTIFY~G~V~VfDd----vp~eKA~~Im~lA~~~ 126 (286)
=||||+|.-.|=|. |..+.|++++.+-...
T Consensus 34 gTIFY~~HkIVeDe~kGiFDr~aAE~Li~~qe~l 67 (313)
T COG1962 34 GTIFYAKHKIVEDEKKGIFDREAAEALINTQEEL 67 (313)
T ss_pred eeeeeccceeeeccccccccHHHHHHHHHHHHHh
Confidence 39999999888653 5688899988876443
No 23
>PF11344 DUF3146: Protein of unknown function (DUF3146); InterPro: IPR021492 This family of proteins with unknown function appear to be restricted to Cyanobacteria.
Probab=22.43 E-value=49 Score=26.75 Aligned_cols=17 Identities=18% Similarity=0.356 Sum_probs=12.6
Q ss_pred HHHhHHHHHhhhhhhhc
Q 023206 197 KASVQRYREKRKDRFKN 213 (286)
Q Consensus 197 KaSLqRFLEKRKDRl~A 213 (286)
+..|.|||||--=+|-.
T Consensus 53 ~d~L~RFL~k~DY~LEp 69 (80)
T PF11344_consen 53 QDPLGRFLEKSDYQLEP 69 (80)
T ss_pred HhHHHHHHhhcceeccC
Confidence 67899999986545543
No 24
>PF11208 DUF2992: Protein of unknown function (DUF2992); InterPro: IPR016787 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=20.30 E-value=51 Score=28.49 Aligned_cols=9 Identities=22% Similarity=0.933 Sum_probs=7.4
Q ss_pred eeEEeCcEE
Q 023206 97 MTIFYSGKV 105 (286)
Q Consensus 97 LTIFY~G~V 105 (286)
|||||+|..
T Consensus 1 LTV~Fdg~F 9 (132)
T PF11208_consen 1 LTVYFDGPF 9 (132)
T ss_pred CeEEecCCc
Confidence 799999864
Done!