Query psy6124
Match_columns 171
No_of_seqs 45 out of 47
Neff 2.3
Searched_HMMs 46136
Date Fri Aug 16 18:14:40 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6124.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6124hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12851 Tet_JBP: Oxygenase do 99.8 8.3E-21 1.8E-25 149.8 5.0 51 14-64 121-171 (171)
2 PRK15401 alpha-ketoglutarate-d 60.8 11 0.00025 31.8 3.6 39 21-61 167-211 (213)
3 PF13532 2OG-FeII_Oxy_2: 2OG-F 55.1 9.8 0.00021 28.9 2.1 40 19-60 146-193 (194)
4 PF10295 DUF2406: Uncharacteri 50.8 8.2 0.00018 28.2 1.0 14 43-56 38-51 (69)
5 PF10555 MraY_sig1: Phospho-N- 48.1 10 0.00023 20.2 0.9 9 15-23 4-12 (13)
6 PF01170 UPF0020: Putative RNA 38.9 4.5 9.8E-05 31.8 -2.0 32 3-41 22-53 (179)
7 cd06903 lectin_EMP46_EMP47 EMP 32.4 65 0.0014 26.8 3.8 45 19-63 117-163 (215)
8 PF13640 2OG-FeII_Oxy_3: 2OG-F 24.8 47 0.001 22.6 1.4 34 25-63 66-100 (100)
9 PF01536 SAM_decarbox: Adenosy 22.8 39 0.00085 30.3 0.9 30 54-83 101-133 (331)
10 KOG1566|consensus 21.4 11 0.00024 34.7 -2.9 20 23-42 141-160 (342)
No 1
>PF12851 Tet_JBP: Oxygenase domain of the 2OGFeDO superfamily ; InterPro: IPR024779 TETs are 2OG- and Fe(II)-dependent oxygenases that catalyse the conversion of 5 methyl-Cytosine (5-MC) to 5-hydroxymethyl-cytosine (hmC) in cultured cells and in vitro []. Interestingly TET2 is considered as an oncogene, as it is found mutated in some types of cancer []. This entry represents the double-stranded beta helix (DSBH) fold of the 2-oxoglutarate (2OG) - Fe(II) oxygenases. DSBH comprises a part of the catalytic domain in TETS. It is found in many organisms including fruit fly, African malaria mosquito, zebrafish, mouse and human.
Probab=99.82 E-value=8.3e-21 Score=149.75 Aligned_cols=51 Identities=57% Similarity=0.847 Sum_probs=50.4
Q ss_pred ccCCCceeEEeccCcceeeeecccchhccccccCCCCCCCceEEEEEeeec
Q psy6124 14 QDSQMGGVAIALGHGSVLFECAKHELHATTALRRPNRLHPTRISLVFYQHR 64 (171)
Q Consensus 14 ~d~~iGGVaiA~~HGSvLiECak~ElHATT~~~~PnR~~PtRisLVFyQHk 64 (171)
+||+|+||+|++.||+|||||+++|+|++|+|.+|||+||+||||||||||
T Consensus 121 ~~~~~~g~~~~~~~GtVl~~~~~~~~Hgvtpv~~~~~~~~~R~slvfy~hk 171 (171)
T PF12851_consen 121 LDPNILGVAFAYQPGTVLIFCAKRELHGVTPVESPNRNHGTRISLVFYQHK 171 (171)
T ss_pred cccccCCEEEecCCCcEEEEcccceeeecCcccCCCCCCCeEEEEEEEeEC
Confidence 899999999999999999999999999999999999999999999999998
No 2
>PRK15401 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional
Probab=60.78 E-value=11 Score=31.76 Aligned_cols=39 Identities=33% Similarity=0.507 Sum_probs=29.0
Q ss_pred eEEeccCcceee--eecccchhccccccCCCCCCC----ceEEEEEe
Q psy6124 21 VAIALGHGSVLF--ECAKHELHATTALRRPNRLHP----TRISLVFY 61 (171)
Q Consensus 21 VaiA~~HGSvLi--ECak~ElHATT~~~~PnR~~P----tRisLVFy 61 (171)
+.|-|.|||||| -+++.-.|+--+++.- .+| .||+|.|=
T Consensus 167 ~~l~L~~Gdllvm~G~sr~~~HgVp~~~~~--~~p~~g~~RINLTFR 211 (213)
T PRK15401 167 QRILLEHGDVVVWGGPSRLRYHGILPLKAG--EHPLTGECRINLTFR 211 (213)
T ss_pred EEEEeCCCCEEEECchHhheeccCCcCCCC--cCCCCCCCeEEEEeE
Confidence 688999999998 3456677988777542 233 69999984
No 3
>PF13532 2OG-FeII_Oxy_2: 2OG-Fe(II) oxygenase superfamily; PDB: 2IUW_A 3BTZ_A 3RZL_A 3RZH_A 3S5A_A 3RZG_A 3RZJ_A 3BUC_A 3H8X_A 3H8R_A ....
Probab=55.07 E-value=9.8 Score=28.88 Aligned_cols=40 Identities=30% Similarity=0.465 Sum_probs=24.3
Q ss_pred ceeEEeccCcceeeee--cccchhccccccCC------CCCCCceEEEEE
Q psy6124 19 GGVAIALGHGSVLFEC--AKHELHATTALRRP------NRLHPTRISLVF 60 (171)
Q Consensus 19 GGVaiA~~HGSvLiEC--ak~ElHATT~~~~P------nR~~PtRisLVF 60 (171)
.-+.|-|.|||+||=- ++.+.|+--++..- .|. .||||+|
T Consensus 146 ~~~~~~L~~gsl~vm~g~~r~~~H~I~~~~~~~~~~~~~~~--~RislTf 193 (194)
T PF13532_consen 146 EPIEVPLPPGSLLVMSGEARYDWHGIPPVKKDTHPSHYVRG--RRISLTF 193 (194)
T ss_dssp -EEEEEE-TTEEEEEETTHHHHEEEE-S-SCEEEESTEE-S---EEEEEE
T ss_pred ccEEEEcCCCCEEEeChHHhhheeEcccccCCccccccCCC--CEEEEEe
Confidence 4467889999999732 34555887776662 122 7999998
No 4
>PF10295 DUF2406: Uncharacterised protein (DUF2406); InterPro: IPR018809 This entry represents a family of small proteins conserved in fungi. The function is not known.
Probab=50.80 E-value=8.2 Score=28.22 Aligned_cols=14 Identities=36% Similarity=0.707 Sum_probs=11.8
Q ss_pred ccccCCCCCCCceE
Q psy6124 43 TALRRPNRLHPTRI 56 (171)
Q Consensus 43 T~~~~PnR~~PtRi 56 (171)
.+|..||+++|||-
T Consensus 38 ~~I~~PD~SNPTR~ 51 (69)
T PF10295_consen 38 NPITDPDRSNPTRS 51 (69)
T ss_pred CccCCCCCCCCCcc
Confidence 46779999999994
No 5
>PF10555 MraY_sig1: Phospho-N-acetylmuramoyl-pentapeptide-transferase signature 1 ; InterPro: IPR018480 Phospho-N-acetylmuramoyl-pentapeptide-transferase (2.7.8.13 from EC) (MraY) is a bacterial enzyme responsible for the formation of the first lipid intermediate of the cell wall peptidoglycan synthesis []. It catalyses the formation of undecaprenyl-pyrophosphoryl-N-acetylmuramoyl-pentapeptide from UDP-MurNAc-pentapeptide and undecaprenyl-phosphate. MraY is an integral membrane protein with probably ten transmembrane domains. It belongs to family 4 of glycosyl transferases. Homologues of MraY have been found in archaebacteria Methanobacterium thermoautotrophicum and in Arabidopsis thaliana (Mouse-ear cress). This entry represents two conserved sites found in these proteins. The first site is located at the end of the first cytoplasmic loop and the beginning of the second transmembrane domain. The second site is located in the third cytoplasmic loop.
Probab=48.13 E-value=10 Score=20.23 Aligned_cols=9 Identities=33% Similarity=0.818 Sum_probs=7.4
Q ss_pred cCCCceeEE
Q psy6124 15 DSQMGGVAI 23 (171)
Q Consensus 15 d~~iGGVai 23 (171)
-|.||||.|
T Consensus 4 TPTMGGi~~ 12 (13)
T PF10555_consen 4 TPTMGGIVF 12 (13)
T ss_pred CccceeEEE
Confidence 488999986
No 6
>PF01170 UPF0020: Putative RNA methylase family UPF0020; InterPro: IPR000241 This domain is probably a methylase. It is associated with the THUMP domain that also occurs with RNA modification domains [].; PDB: 3LDU_A 3LDG_A 3K0B_A 3V8V_B 3V97_A 3TLJ_A 3TM5_B 3TM4_A 3TMA_A.
Probab=38.86 E-value=4.5 Score=31.82 Aligned_cols=32 Identities=28% Similarity=0.384 Sum_probs=21.3
Q ss_pred eecCCCCccccccCCCceeEEeccCcceeeeecccchhc
Q psy6124 3 TLTGLGPAFYFQDSQMGGVAIALGHGSVLFECAKHELHA 41 (171)
Q Consensus 3 ~~~~~d~e~~F~d~~iGGVaiA~~HGSvLiECak~ElHA 41 (171)
.|.+-+....|+||--| .|++|||+|......
T Consensus 22 ~la~~~~~~~vlDP~CG-------sGtiliEaa~~~~~~ 53 (179)
T PF01170_consen 22 NLAGWRPGDVVLDPFCG-------SGTILIEAALMGANI 53 (179)
T ss_dssp HHTT--TTS-EEETT-T-------TSHHHHHHHHHHTTT
T ss_pred HHhCCCCCCEEeecCCC-------CCHHHHHHHHHhhCc
Confidence 34556667789999887 699999998765543
No 7
>cd06903 lectin_EMP46_EMP47 EMP46 and EMP47 type 1 transmembrane proteins, N-terminal lectin domain. EMP46 and EMP47, N-terminal carbohydrate recognition domain. EMP46 and EMP47 are fungal type-I transmembrane proteins that cycle between the endoplasmic reticulum and the golgi apparatus and are thought to function as cargo receptors that transport newly synthesized glycoproteins. EMP47 is a receptor for EMP46 responsible for the selective transport of EMP46 by forming hetero-oligomerization between the two proteins. EMP46 and EMP47 have an N-terminal lectin-like carbohydrate recognition domain (represented by this alignment model) as well as a C-terminal transmembrane domain. EMP46 and EMP47 are 45% sequence-identical to one another and have sequence homology to a class of intracellular lectins defined by ERGIC-53 and VIP36. L-type lectins have a dome-shaped beta-barrel carbohydrate recognition domain with a curved seven-stranded beta-sheet referred to as the "front face" and a flat s
Probab=32.41 E-value=65 Score=26.78 Aligned_cols=45 Identities=16% Similarity=0.159 Sum_probs=38.6
Q ss_pred ceeEEeccCcceeeeecc--cchhccccccCCCCCCCceEEEEEeee
Q psy6124 19 GGVAIALGHGSVLFECAK--HELHATTALRRPNRLHPTRISLVFYQH 63 (171)
Q Consensus 19 GGVaiA~~HGSvLiECak--~ElHATT~~~~PnR~~PtRisLVFyQH 63 (171)
++|-+-++-|+.-++=.+ ...++.|.++--|+.+|++|.|.|++-
T Consensus 117 p~i~~~~NDGt~~yd~~~d~~~~~g~C~~~~rn~~~p~~iri~Y~~~ 163 (215)
T cd06903 117 GSLRGFLNDGSKDYKNEDVDSLAFGSCLFAYQDSGVPSTIRLSYDAL 163 (215)
T ss_pred ceEEEEECCCCeeccccCCcccccceeeEeccCCCCCEEEEEEEECC
Confidence 567888899999888777 666889999989999999999999883
No 8
>PF13640 2OG-FeII_Oxy_3: 2OG-Fe(II) oxygenase superfamily; PDB: 3DKQ_B 3GZE_D 3HQR_A 2Y34_A 2G1M_A 2G19_A 3OUI_A 3OUJ_A 2HBU_A 2Y33_A ....
Probab=24.83 E-value=47 Score=22.61 Aligned_cols=34 Identities=29% Similarity=0.470 Sum_probs=21.3
Q ss_pred ccCcce-eeeecccchhccccccCCCCCCCceEEEEEeee
Q psy6124 25 LGHGSV-LFECAKHELHATTALRRPNRLHPTRISLVFYQH 63 (171)
Q Consensus 25 ~~HGSv-LiECak~ElHATT~~~~PnR~~PtRisLVFyQH 63 (171)
+.-|++ +|.. .+=+|+-+++ .....|++|++|=|
T Consensus 66 p~~g~~v~F~~-~~~~H~v~~v----~~~~~R~~l~~~~~ 100 (100)
T PF13640_consen 66 PKPGRLVIFPS-DNSLHGVTPV----GEGGRRYSLTFWFH 100 (100)
T ss_dssp -BTTEEEEEES-CTCEEEEEEE-----EESEEEEEEEEEE
T ss_pred CCCCEEEEEeC-CCCeecCccc----CCCCCEEEEEEEEC
Confidence 444443 3444 6778999998 33448899988754
No 9
>PF01536 SAM_decarbox: Adenosylmethionine decarboxylase; InterPro: IPR001985 S-adenosylmethionine decarboxylase (AdoMetDC) [] catalyzes the removal of the carboxylate group of S-adenosylmethionine to form S-adenosyl-5'-3-methylpropylamine which then acts as the n-propylamine group donor in the synthesis of the polyamines spermidine and spermine from putrescine. The catalytic mechanism of AdoMetDC involves a covalently-bound pyruvoyl group. This group is post-translationally generated by a self-catalyzed intramolecular proteolytic cleavage reaction between a glutamate and a serine. This cleavage generates two chains, beta (N-terminal) and alpha (C-terminal). The N-terminal serine residue of the alpha chain is then converted by nonhydrolytic serinolysis into a pyruvyol group.; GO: 0004014 adenosylmethionine decarboxylase activity, 0006597 spermine biosynthetic process, 0008295 spermidine biosynthetic process; PDB: 3EP7_A 3EPA_B 3DZ5_A 3DZ2_B 3EPB_B 3DZ7_A 3EP6_A 3EP4_A 1JEN_A 3H0V_B ....
Probab=22.83 E-value=39 Score=30.34 Aligned_cols=30 Identities=23% Similarity=0.390 Sum_probs=20.1
Q ss_pred ceEEEEEeeeccCCCCCCCh---HHHHHHHHHH
Q psy6124 54 TRISLVFYQHRNLNRPKHGW---DEWEEKMRQR 83 (171)
Q Consensus 54 tRisLVFyQHknLn~p~HG~---~~~e~Km~~~ 83 (171)
.+|.-|||++||...|.... .-|++-.+..
T Consensus 101 ~~v~~v~YsRknf~~P~~Q~~ph~sf~~Ev~~L 133 (331)
T PF01536_consen 101 DEVEWVFYSRKNFMFPELQPSPHRSFEEEVAYL 133 (331)
T ss_dssp -EEEEEEEEEE--SSGGGS-TTSSSHHHHHHHH
T ss_pred cceeEEEEecccCCCcccCCCccCCHHHHHHHH
Confidence 78999999999999988766 3566655544
No 10
>KOG1566|consensus
Probab=21.36 E-value=11 Score=34.72 Aligned_cols=20 Identities=50% Similarity=0.785 Sum_probs=16.9
Q ss_pred EeccCcceeeeecccchhcc
Q psy6124 23 IALGHGSVLFECAKHELHAT 42 (171)
Q Consensus 23 iA~~HGSvLiECak~ElHAT 42 (171)
||+.-|+.|+||.|+|.=|-
T Consensus 141 iaL~cg~mlrEcirhe~Lak 160 (342)
T KOG1566|consen 141 IALTCGNMLRECIRHEFLAK 160 (342)
T ss_pred HHHHHHHHHHHHHhhHHHHH
Confidence 68889999999999996543
Done!