Query psy3565
Match_columns 168
No_of_seqs 129 out of 170
Neff 3.3
Searched_HMMs 46136
Date Fri Aug 16 19:53:58 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3565.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3565hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4477|consensus 100.0 3E-51 6.4E-56 341.6 5.1 161 5-166 2-212 (228)
2 PF00641 zf-RanBP: Zn-finger i 98.9 4.9E-10 1.1E-14 67.2 1.6 30 21-50 1-30 (30)
3 smart00547 ZnF_RBZ Zinc finger 98.2 3.6E-07 7.7E-12 52.7 1.0 25 23-47 1-25 (26)
4 KOG4198|consensus 93.0 0.059 1.3E-06 47.7 2.1 32 21-52 137-168 (280)
5 KOG4345|consensus 89.3 0.1 2.2E-06 51.6 -0.2 49 22-70 183-236 (774)
6 KOG4345|consensus 87.4 0.13 2.7E-06 51.0 -0.9 28 23-50 6-33 (774)
7 cd00350 rubredoxin_like Rubred 73.4 2.5 5.3E-05 25.8 1.6 25 24-48 1-27 (33)
8 PF05077 DUF678: Protein of un 73.0 1.9 4.2E-05 31.9 1.2 11 36-46 55-65 (74)
9 PRK14892 putative transcriptio 68.1 4 8.6E-05 31.2 2.0 44 6-50 1-54 (99)
10 KOG3214|consensus 67.2 2.6 5.7E-05 33.1 0.9 45 6-50 1-59 (109)
11 KOG4198|consensus 65.5 2.5 5.4E-05 37.7 0.5 32 21-52 61-92 (280)
12 PF13248 zf-ribbon_3: zinc-rib 64.6 3.2 7E-05 24.1 0.7 24 24-47 2-25 (26)
13 PF00301 Rubredoxin: Rubredoxi 61.0 5.1 0.00011 26.8 1.3 16 34-49 30-45 (47)
14 KOG1995|consensus 58.7 5.3 0.00012 36.8 1.4 30 21-50 215-245 (351)
15 cd00730 rubredoxin Rubredoxin; 56.8 6.9 0.00015 26.4 1.4 25 24-48 1-44 (50)
16 cd00729 rubredoxin_SM Rubredox 55.2 8.2 0.00018 23.9 1.4 26 24-49 2-29 (34)
17 PF13240 zinc_ribbon_2: zinc-r 49.2 8.3 0.00018 22.2 0.7 21 27-47 2-22 (23)
18 PRK04136 rpl40e 50S ribosomal 42.9 13 0.00028 25.6 1.0 25 22-46 12-36 (48)
19 PF07797 DUF1639: Protein of u 39.4 9.9 0.00021 26.3 -0.0 22 9-30 16-46 (50)
20 COG4888 Uncharacterized Zn rib 36.2 25 0.00054 27.6 1.8 43 6-48 1-56 (104)
21 PF12773 DZR: Double zinc ribb 35.8 18 0.00039 22.9 0.8 23 27-49 1-23 (50)
22 KOG0955|consensus 34.8 22 0.00048 37.0 1.6 30 20-50 256-285 (1051)
23 PF05129 Elf1: Transcription e 34.4 15 0.00034 26.7 0.4 33 15-47 13-55 (81)
24 PF04313 HSDR_N: Type I restri 34.2 41 0.00088 26.7 2.8 19 117-135 125-143 (194)
25 cd04718 BAH_plant_2 BAH, or Br 33.2 22 0.00048 29.1 1.1 20 20-39 14-33 (148)
26 PRK05452 anaerobic nitric oxid 32.0 30 0.00064 32.1 1.8 29 21-49 422-469 (479)
27 PF07562 NCD3G: Nine Cysteines 30.2 22 0.00048 23.6 0.6 25 21-45 22-49 (54)
28 PF06153 DUF970: Protein of un 28.2 56 0.0012 25.4 2.5 24 108-131 79-102 (109)
29 PRK14559 putative protein seri 25.2 35 0.00075 33.5 1.1 23 26-48 3-25 (645)
30 KOG0954|consensus 22.3 60 0.0013 33.3 2.1 49 21-74 309-357 (893)
31 PF04810 zf-Sec23_Sec24: Sec23 22.2 39 0.00085 21.3 0.6 14 23-36 23-36 (40)
32 PF04071 zf-like: Cysteine-ric 21.5 27 0.00059 26.2 -0.3 22 21-42 46-69 (86)
33 smart00837 DPBB_1 Rare lipopro 21.4 96 0.0021 22.7 2.6 12 124-135 35-46 (87)
34 KOG0956|consensus 20.5 48 0.001 33.9 1.0 30 21-50 45-74 (900)
35 KOG0699|consensus 20.3 55 0.0012 31.4 1.4 16 122-137 492-507 (542)
No 1
>KOG4477|consensus
Probab=100.00 E-value=3e-51 Score=341.65 Aligned_cols=161 Identities=46% Similarity=0.629 Sum_probs=142.5
Q ss_pred CCCCCCCchhhhhccC---CCCceeccccceeccccccceecCCCCCCCCCCCCCCCccchhhhhccCCcCCCCCCCCCC
Q psy3565 5 GMDRKTPTKRRRKQAK---DENYWDCSVCTYRNVAEAFKCSMCDVRKGTSTRKPRITPDLVAQVTQQYPVPATSKVGPKK 81 (168)
Q Consensus 5 ~m~~~~~~~r~kr~~k---~eg~WdCsvCt~rN~asA~KCv~C~tpk~~strk~r~~s~lvaQq~~qq~~~~~~~~~~~~ 81 (168)
-||++++++|+||+++ ++|+|||++|||+|.|+||+|.+|++++|+++|+|++++||||||++|||++|++++++++
T Consensus 2 ~mgdkksptrpkr~akp~~Deg~WdCsvCTFrNsAeAfkC~vCdvRKGTSTRkpr~nsqlVaqQvtqq~~~p~q~kKEKk 81 (228)
T KOG4477|consen 2 RMGDKKSPTRPKRDAKPNDDEGKWDCSVCTFRNSAEAFKCFVCDVRKGTSTRKPRCNSQLVAQQVTQQTMVPKQVKKEKK 81 (228)
T ss_pred CCccccCCCCccccCCCccccCceeeeeeeecchhhhhheeeecccccccccCCcchHHHHHHHHhhhhcCCCcchhHHH
Confidence 5999999999999999 8999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCCCc---cccch--h---hhhccCCcCCC---------------------------------CCCcCCCcCCCCceEEE
Q psy3565 82 EGGGK---EKSEN--R---KFKKHGRRKWN---------------------------------PPKLKHVDRTTAQTLEI 120 (168)
Q Consensus 82 ~~~~k---~k~~~--~---~~~k~~~~~~~---------------------------------rpRLKnVDRSSAq~~eV 120 (168)
.+.++ +|++. + ...|+|++++. |||||||||||||+|+|
T Consensus 82 ~Kvekr~~eKset~ke~e~~stKkn~~kkt~~~Se~~r~P~~E~qe~~Sve~T~tkSks~~akrPrlKnvdrstaq~l~v 161 (228)
T KOG4477|consen 82 LKVEKRSLEKSETRKESEGVSTKKNKIKKTDIASEKPRTPVPEKQEEVSVEETPTKSKSATAKRPRLKNVDRSTAQDLKV 161 (228)
T ss_pred HHHHHhhhhcchhhhhcccccccccccccCcccccccCCCCchhhchhccccccccccccccCCccccccccchhhhhhe
Confidence 77765 33321 1 23455555543 99999999999999999
Q ss_pred EeCCeeEEEeeccCCcCCCCcccc-----ccchhcccccccc-ccccCCCCC
Q psy3565 121 TVNNLTVKVTEFKPKIKKSILDSD-----LSSVENDSQSESS-LNTKNGDIT 166 (168)
Q Consensus 121 TVg~vTViITefK~K~~~~~~~s~-----~~~~~~~~qs~ss-~~t~~g~~~ 166 (168)
|||++|||||||++|+.+.++++. +. +||++|++|+ ++|++|++-
T Consensus 162 tVg~~tviiTdfkekt~S~~~ss~~~~sn~~-~dq~~qssS~S~tT~qG~sr 212 (228)
T KOG4477|consen 162 TVGTKTVIITDFKEKTESNVNSSLVKESNKK-EDQIGQSSSDSLTTNQGESR 212 (228)
T ss_pred eecceEEEEeeccccccCCcchhhhhhhccc-ccccCCccCCcccccccccc
Confidence 999999999999999999988774 34 6999999887 999999864
No 2
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=98.91 E-value=4.9e-10 Score=67.22 Aligned_cols=30 Identities=33% Similarity=0.774 Sum_probs=24.5
Q ss_pred CCCceeccccceeccccccceecCCCCCCC
Q psy3565 21 DENYWDCSVCTYRNVAEAFKCSMCDVRKGT 50 (168)
Q Consensus 21 ~eg~WdCsvCt~rN~asA~KCv~C~tpk~~ 50 (168)
++|.|.|+.|+|.|.+++.+|++|++++|.
T Consensus 1 k~g~W~C~~C~~~N~~~~~~C~~C~~~rp~ 30 (30)
T PF00641_consen 1 KEGDWKCPSCTFMNPASRSKCVACGAPRPG 30 (30)
T ss_dssp -SSSEEETTTTEEEESSSSB-TTT--BTTB
T ss_pred CCcCccCCCCcCCchHHhhhhhCcCCCCcC
Confidence 478999999999999999999999999873
No 3
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=98.24 E-value=3.6e-07 Score=52.74 Aligned_cols=25 Identities=36% Similarity=0.913 Sum_probs=24.0
Q ss_pred CceeccccceeccccccceecCCCC
Q psy3565 23 NYWDCSVCTYRNVAEAFKCSMCDVR 47 (168)
Q Consensus 23 g~WdCsvCt~rN~asA~KCv~C~tp 47 (168)
|.|.|+.|+|.|.+.+..|.+|++|
T Consensus 1 g~W~C~~C~~~N~~~~~~C~~C~~p 25 (26)
T smart00547 1 GDWECPACTFLNFASRSKCFACGAP 25 (26)
T ss_pred CcccCCCCCCcChhhhccccccCCc
Confidence 6899999999999999999999987
No 4
>KOG4198|consensus
Probab=93.04 E-value=0.059 Score=47.74 Aligned_cols=32 Identities=22% Similarity=0.713 Sum_probs=29.9
Q ss_pred CCCceeccccceeccccccceecCCCCCCCCC
Q psy3565 21 DENYWDCSVCTYRNVAEAFKCSMCDVRKGTST 52 (168)
Q Consensus 21 ~eg~WdCsvCt~rN~asA~KCv~C~tpk~~st 52 (168)
..|.|.|+-|.|.|.+.-.-|.-|+++++...
T Consensus 137 ~~GDW~Cp~C~fhNfarn~~C~rC~~~r~~~a 168 (280)
T KOG4198|consen 137 RSGDWECPGCNFHNFARNSECFRCGAKRPLAA 168 (280)
T ss_pred cccCcccCCCCceeccccchhhhcCCcCcccc
Confidence 78999999999999999999999999998844
No 5
>KOG4345|consensus
Probab=89.28 E-value=0.1 Score=51.56 Aligned_cols=49 Identities=10% Similarity=0.100 Sum_probs=35.7
Q ss_pred CCceeccccceeccccccceecCCCCCCCCC-CCC----CCCccchhhhhccCC
Q psy3565 22 ENYWDCSVCTYRNVAEAFKCSMCDVRKGTST-RKP----RITPDLVAQVTQQYP 70 (168)
Q Consensus 22 eg~WdCsvCt~rN~asA~KCv~C~tpk~~st-rk~----r~~s~lvaQq~~qq~ 70 (168)
+..|+|.+|+|.||+.+.+|.+|+++.+... ..+ .....+|.|...++.
T Consensus 183 ~~eW~~lik~ass~pr~~r~~~~~~~~~~e~s~~~yesLEe~hifvl~~ilRrp 236 (774)
T KOG4345|consen 183 NDEWTELIKLASSEPRMHRSGNGGTGGGVEISEDPYESLEEFHIFVLAHILRRP 236 (774)
T ss_pred HHHHHHHHHhhcccchhhhcccCCCCCCcccccccchhHHHHHHHHHHHHhhCC
Confidence 4469999999999999999999999988633 222 233455666655544
No 6
>KOG4345|consensus
Probab=87.41 E-value=0.13 Score=50.96 Aligned_cols=28 Identities=25% Similarity=0.582 Sum_probs=25.6
Q ss_pred CceeccccceeccccccceecCCCCCCC
Q psy3565 23 NYWDCSVCTYRNVAEAFKCSMCDVRKGT 50 (168)
Q Consensus 23 g~WdCsvCt~rN~asA~KCv~C~tpk~~ 50 (168)
-.|.|.+|+|+|++.+++|.||....|.
T Consensus 6 ~~W~~~~~~~~~lp~al~lS~~~~s~~~ 33 (774)
T KOG4345|consen 6 EKWACELCDYMTLPMALVLSDFRRSTGA 33 (774)
T ss_pred HHHHHHhhccccCchhhHHHHHHhccCC
Confidence 3699999999999999999999988774
No 7
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=73.40 E-value=2.5 Score=25.80 Aligned_cols=25 Identities=28% Similarity=0.748 Sum_probs=20.1
Q ss_pred ceeccccceeccc--cccceecCCCCC
Q psy3565 24 YWDCSVCTYRNVA--EAFKCSMCDVRK 48 (168)
Q Consensus 24 ~WdCsvCt~rN~a--sA~KCv~C~tpk 48 (168)
.|-|.+|-|.-.+ .-..|..|++++
T Consensus 1 ~~~C~~CGy~y~~~~~~~~CP~Cg~~~ 27 (33)
T cd00350 1 KYVCPVCGYIYDGEEAPWVCPVCGAPK 27 (33)
T ss_pred CEECCCCCCEECCCcCCCcCcCCCCcH
Confidence 4999999988444 367999999875
No 8
>PF05077 DUF678: Protein of unknown function (DUF678); InterPro: IPR007769 This family contains poxvirus proteins belonging to the A19 family. The proteins are of unknown function.
Probab=72.96 E-value=1.9 Score=31.88 Aligned_cols=11 Identities=27% Similarity=0.839 Sum_probs=8.7
Q ss_pred ccccceecCCC
Q psy3565 36 AEAFKCSMCDV 46 (168)
Q Consensus 36 asA~KCv~C~t 46 (168)
...+.|.+|+.
T Consensus 55 ~~tLsCsACGS 65 (74)
T PF05077_consen 55 GNTLSCSACGS 65 (74)
T ss_pred CCeEeehhccc
Confidence 57888999875
No 9
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=68.12 E-value=4 Score=31.17 Aligned_cols=44 Identities=16% Similarity=0.449 Sum_probs=30.3
Q ss_pred CCCCCCchh-hhh-ccCCCCceeccccceecccc--------ccceecCCCCCCC
Q psy3565 6 MDRKTPTKR-RRK-QAKDENYWDCSVCTYRNVAE--------AFKCSMCDVRKGT 50 (168)
Q Consensus 6 m~~~~~~~r-~kr-~~k~eg~WdCsvCt~rN~as--------A~KCv~C~tpk~~ 50 (168)
||+.+..++ ++| ..+.+..++|+.|- ..... ...|..|+.-++.
T Consensus 1 MGkRk~~~k~~~k~k~klpt~f~CP~Cg-e~~v~v~~~k~~~h~~C~~CG~y~~~ 54 (99)
T PRK14892 1 MGRRRKKRKKIIRPKPKLPKIFECPRCG-KVSISVKIKKNIAIITCGNCGLYTEF 54 (99)
T ss_pred CCCccccCCCCcccccCCCcEeECCCCC-CeEeeeecCCCcceEECCCCCCccCE
Confidence 886554443 344 33467889999998 33443 6789999998766
No 10
>KOG3214|consensus
Probab=67.25 E-value=2.6 Score=33.12 Aligned_cols=45 Identities=16% Similarity=0.483 Sum_probs=30.9
Q ss_pred CCCCCCchhh----hhccCCCCceeccccceeccc----------cccceecCCCCCCC
Q psy3565 6 MDRKTPTKRR----RKQAKDENYWDCSVCTYRNVA----------EAFKCSMCDVRKGT 50 (168)
Q Consensus 6 m~~~~~~~r~----kr~~k~eg~WdCsvCt~rN~a----------sA~KCv~C~tpk~~ 50 (168)
||+.++.+|. |++...+-+|.|.+|.-++.. .-..|.+|..--.+
T Consensus 1 MgkRk~K~k~~~k~r~~~~ldt~FnClfcnHek~v~~~~Dk~~~iG~~sC~iC~esFqt 59 (109)
T KOG3214|consen 1 MGKRKSKRKEPPKERRVEPLDTQFNCLFCNHEKSVSCTLDKKHNIGKASCRICEESFQT 59 (109)
T ss_pred CCcccccccCCchhhhccchheeeccCccccccceeeeehhhcCcceeeeeehhhhhcc
Confidence 7876666643 455567888999999888753 34568888665433
No 11
>KOG4198|consensus
Probab=65.47 E-value=2.5 Score=37.68 Aligned_cols=32 Identities=25% Similarity=0.670 Sum_probs=28.6
Q ss_pred CCCceeccccceeccccccceecCCCCCCCCC
Q psy3565 21 DENYWDCSVCTYRNVAEAFKCSMCDVRKGTST 52 (168)
Q Consensus 21 ~eg~WdCsvCt~rN~asA~KCv~C~tpk~~st 52 (168)
-.|-|.|..|++.|.+.-+.|-.|..++....
T Consensus 61 ~pgdw~c~~c~~~n~arr~~c~~c~~s~~~~~ 92 (280)
T KOG4198|consen 61 RPGDWNCPLCGFHNSARRLLCFRCGFSKVPLD 92 (280)
T ss_pred CCcccccCccchhhHHHhhhcceecccCCCcc
Confidence 56889999999999999999999999887643
No 12
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=64.62 E-value=3.2 Score=24.12 Aligned_cols=24 Identities=21% Similarity=0.380 Sum_probs=21.4
Q ss_pred ceeccccceeccccccceecCCCC
Q psy3565 24 YWDCSVCTYRNVAEAFKCSMCDVR 47 (168)
Q Consensus 24 ~WdCsvCt~rN~asA~KCv~C~tp 47 (168)
.+.|+.|-..|.+++.-|..|+++
T Consensus 2 ~~~Cp~Cg~~~~~~~~fC~~CG~~ 25 (26)
T PF13248_consen 2 EMFCPNCGAEIDPDAKFCPNCGAK 25 (26)
T ss_pred cCCCcccCCcCCcccccChhhCCC
Confidence 367999999999999999999875
No 13
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=60.99 E-value=5.1 Score=26.79 Aligned_cols=16 Identities=19% Similarity=0.760 Sum_probs=9.6
Q ss_pred ccccccceecCCCCCC
Q psy3565 34 NVAEAFKCSMCDVRKG 49 (168)
Q Consensus 34 N~asA~KCv~C~tpk~ 49 (168)
+.++...|..|+++|.
T Consensus 30 ~Lp~~w~CP~C~a~K~ 45 (47)
T PF00301_consen 30 DLPDDWVCPVCGAPKS 45 (47)
T ss_dssp GS-TT-B-TTTSSBGG
T ss_pred HCCCCCcCcCCCCccc
Confidence 4577778999988763
No 14
>KOG1995|consensus
Probab=58.68 E-value=5.3 Score=36.80 Aligned_cols=30 Identities=33% Similarity=0.762 Sum_probs=27.5
Q ss_pred CCCceecc-ccceeccccccceecCCCCCCC
Q psy3565 21 DENYWDCS-VCTYRNVAEAFKCSMCDVRKGT 50 (168)
Q Consensus 21 ~eg~WdCs-vCt~rN~asA~KCv~C~tpk~~ 50 (168)
.++-|+|. .|-=+|++.-..|--|+++|+.
T Consensus 215 ~d~Dw~c~~~c~N~nfa~r~~cnrck~~Kp~ 245 (351)
T KOG1995|consen 215 EDGDWDCPPSCGNRNFAWREECNRCKAPKPE 245 (351)
T ss_pred ccccccccccccccccccccccccccCCCcc
Confidence 45669999 9999999999999999999986
No 15
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=56.78 E-value=6.9 Score=26.42 Aligned_cols=25 Identities=24% Similarity=0.897 Sum_probs=19.0
Q ss_pred ceeccccceec-------------------cccccceecCCCCC
Q psy3565 24 YWDCSVCTYRN-------------------VAEAFKCSMCDVRK 48 (168)
Q Consensus 24 ~WdCsvCt~rN-------------------~asA~KCv~C~tpk 48 (168)
.|-|.+|-|.= .+..+.|..|+.+|
T Consensus 1 ~y~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~a~K 44 (50)
T cd00730 1 KYECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGAGK 44 (50)
T ss_pred CcCCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCCCcH
Confidence 47888887753 46677999998876
No 16
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=55.15 E-value=8.2 Score=23.90 Aligned_cols=26 Identities=38% Similarity=0.921 Sum_probs=19.4
Q ss_pred ceeccccceecccc--ccceecCCCCCC
Q psy3565 24 YWDCSVCTYRNVAE--AFKCSMCDVRKG 49 (168)
Q Consensus 24 ~WdCsvCt~rN~as--A~KCv~C~tpk~ 49 (168)
.|-|.+|=|.=... -..|.+|++++.
T Consensus 2 ~~~C~~CG~i~~g~~~p~~CP~Cg~~~~ 29 (34)
T cd00729 2 VWVCPVCGYIHEGEEAPEKCPICGAPKE 29 (34)
T ss_pred eEECCCCCCEeECCcCCCcCcCCCCchH
Confidence 59999998873322 359999999753
No 17
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=49.16 E-value=8.3 Score=22.16 Aligned_cols=21 Identities=24% Similarity=0.512 Sum_probs=19.2
Q ss_pred ccccceeccccccceecCCCC
Q psy3565 27 CSVCTYRNVAEAFKCSMCDVR 47 (168)
Q Consensus 27 CsvCt~rN~asA~KCv~C~tp 47 (168)
|+-|-.++...+.-|..|+++
T Consensus 2 Cp~CG~~~~~~~~fC~~CG~~ 22 (23)
T PF13240_consen 2 CPNCGAEIEDDAKFCPNCGTP 22 (23)
T ss_pred CcccCCCCCCcCcchhhhCCc
Confidence 888999999999999999875
No 18
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=42.92 E-value=13 Score=25.57 Aligned_cols=25 Identities=36% Similarity=0.477 Sum_probs=23.0
Q ss_pred CCceeccccceeccccccceecCCC
Q psy3565 22 ENYWDCSVCTYRNVAEAFKCSMCDV 46 (168)
Q Consensus 22 eg~WdCsvCt~rN~asA~KCv~C~t 46 (168)
...|-|.-|--+|.+.|.+|--|+.
T Consensus 12 ~~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 12 FNKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred hcccchhcccCCCCccccccccCCC
Confidence 4578999999999999999999987
No 19
>PF07797 DUF1639: Protein of unknown function (DUF1639); InterPro: IPR012438 This approximately 50-residue region is found in a number of sequences derived from hypothetical plant proteins. This region features a highly basic 5 amino-acid stretch towards its centre.
Probab=39.36 E-value=9.9 Score=26.29 Aligned_cols=22 Identities=27% Similarity=0.517 Sum_probs=18.0
Q ss_pred CCCchhhhhccC---------CCCceecccc
Q psy3565 9 KTPTKRRRKQAK---------DENYWDCSVC 30 (168)
Q Consensus 9 ~~~~~r~kr~~k---------~eg~WdCsvC 30 (168)
.++++|||+.+| -+|.|-|+|+
T Consensus 16 ~kpprRPkKRpk~Vqk~ld~lfPG~wL~~vt 46 (50)
T PF07797_consen 16 SKPPRRPKKRPKNVQKQLDSLFPGLWLSEVT 46 (50)
T ss_pred CCCCCCCCcccHHHHHHHhhcCcchhhhhcC
Confidence 678888888877 6789988876
No 20
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=36.24 E-value=25 Score=27.60 Aligned_cols=43 Identities=21% Similarity=0.492 Sum_probs=27.2
Q ss_pred CCCCCCchh---hhhccCCCCceeccccceeccc----------cccceecCCCCC
Q psy3565 6 MDRKTPTKR---RRKQAKDENYWDCSVCTYRNVA----------EAFKCSMCDVRK 48 (168)
Q Consensus 6 m~~~~~~~r---~kr~~k~eg~WdCsvCt~rN~a----------sA~KCv~C~tpk 48 (168)
||.++..+| ++|+..=+-.|.|+.|--++.. ....|-.|+..-
T Consensus 1 MG~rr~krr~~ik~~~~~L~k~FtCp~Cghe~vs~ctvkk~~~~g~~~Cg~CGls~ 56 (104)
T COG4888 1 MGRRRRKRRKIIKRRPQVLPKTFTCPRCGHEKVSSCTVKKTVNIGTAVCGNCGLSF 56 (104)
T ss_pred CCcccccccccCcccCccCCceEecCccCCeeeeEEEEEecCceeEEEcccCcceE
Confidence 786665443 2233335667999999777665 345688886653
No 21
>PF12773 DZR: Double zinc ribbon
Probab=35.77 E-value=18 Score=22.95 Aligned_cols=23 Identities=26% Similarity=0.512 Sum_probs=20.5
Q ss_pred ccccceeccccccceecCCCCCC
Q psy3565 27 CSVCTYRNVAEAFKCSMCDVRKG 49 (168)
Q Consensus 27 CsvCt~rN~asA~KCv~C~tpk~ 49 (168)
|+.|-..|.+.+.-|..|+++-+
T Consensus 1 Cp~Cg~~~~~~~~fC~~CG~~l~ 23 (50)
T PF12773_consen 1 CPHCGTPNPDDAKFCPHCGTPLP 23 (50)
T ss_pred CCCcCCcCCccccCChhhcCChh
Confidence 78899999999999999998866
No 22
>KOG0955|consensus
Probab=34.78 E-value=22 Score=36.99 Aligned_cols=30 Identities=23% Similarity=0.662 Sum_probs=23.5
Q ss_pred CCCCceeccccceeccccccceecCCCCCCC
Q psy3565 20 KDENYWDCSVCTYRNVAEAFKCSMCDVRKGT 50 (168)
Q Consensus 20 k~eg~WdCsvCt~rN~asA~KCv~C~tpk~~ 50 (168)
-+||+|-|.-|++- ......|++|....+-
T Consensus 256 ipeg~WlCr~Cl~s-~~~~v~c~~cp~~~gA 285 (1051)
T KOG0955|consen 256 IPEGQWLCRRCLQS-PQRPVRCLLCPSKGGA 285 (1051)
T ss_pred CCCCcEeehhhccC-cCcccceEeccCCCCc
Confidence 38999999999974 3333899999877654
No 23
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=34.39 E-value=15 Score=26.71 Aligned_cols=33 Identities=21% Similarity=0.619 Sum_probs=12.6
Q ss_pred hhhccCCCCceeccccceecc----------ccccceecCCCC
Q psy3565 15 RRKQAKDENYWDCSVCTYRNV----------AEAFKCSMCDVR 47 (168)
Q Consensus 15 ~kr~~k~eg~WdCsvCt~rN~----------asA~KCv~C~tp 47 (168)
+|+..+-+-.++|++|-..|. ...+.|.+|+..
T Consensus 13 kk~~~~l~~~F~CPfC~~~~sV~v~idkk~~~~~~~C~~Cg~~ 55 (81)
T PF05129_consen 13 KKKKPKLPKVFDCPFCNHEKSVSVKIDKKEGIGILSCRVCGES 55 (81)
T ss_dssp -------SS----TTT--SS-EEEEEETTTTEEEEEESSS--E
T ss_pred cCcCCCCCceEcCCcCCCCCeEEEEEEccCCEEEEEecCCCCe
Confidence 344445677899999985544 456788888654
No 24
>PF04313 HSDR_N: Type I restriction enzyme R protein N terminus (HSDR_N); InterPro: IPR007409 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type I restriction endonucleases are components of prokaryotic DNA restriction-modification mechanisms that protects the organism against invading foreign DNA. Type I enzymes have three different subunits subunits - M (modification), S (specificity) and R (restriction) - that form multifunctional enzymes with restriction (3.1.21.3 from EC), methylase (2.1.1.72 from EC) and ATPase activities [, ]. The S subunit is required for both restriction and modification and is responsible for recognition of the DNA sequence specific for the system. The M subunit is necessary for modification, and the R subunit is required for restriction. These enzymes use S-Adenosyl-L-methionine (AdoMet) as the methyl group donor in the methylation reaction, and have a requirement for ATP. They recognise asymmetric DNA sequences split into two domains of specific sequence, one 3-4 bp long and another 4-5 bp long, separated by a nonspecific spacer 6-8 bp in length. Cleavage occurs a considerable distance from the recognition sites, rarely less than 400 bp away and up to 7000 bp away. Adenosyl residues are methylated, one on each strand of the recognition sequence. These enzymes are widespread in eubacteria and archaea. In enteric bacteria they have been subdivide into four families: types IA, IB, IC and ID. Type III restriction endonucleases (3.1.21.5 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. Type III enzymes are hetero-oligomeric, multifunctional proteins composed of two subunits, Res and Mod. The Mod subunit recognises the DNA sequence specific for the system and is a modification methyltransferase; as such it is functionally equivalent to the M and S subunits of type I restriction endonuclease. Res is required for restriction, although it has no enzymatic activity on its own. Type III enzymes recognise short 5-6 bp long asymmetric DNA sequences and cleave 25-27 bp downstream to leave short, single-stranded 5' protrusions. They require the presence of two inversely oriented unmethylated recognition sites for restriction to occur. These enzymes methylate only one strand of the DNA, at the N-6 position of adenosyl residues, so newly replicated DNA will have only one strand methylated, which is sufficient to protect against restriction. Type III enzymes belong to the beta-subfamily of N6 adenine methyltransferases, containing the nine motifs that characterise this family, including motif I, the AdoMet binding pocket (FXGXG), and motif IV, the catalytic region (S/D/N (PP) Y/F) [, ]. This entry represents the N-terminal domain found in both the R subunit (HsdR) of type I enzymes and the Res subunit of type III enzymes. The type I enzyme represented is EcoRI, which recognises the DNA sequence 5'-GAATTC; the R protein (HsdR) is required for both nuclease and ATPase activity [, , ]. This domain is often found adjacent to a methylase domain (IPR002052 from INTERPRO) in restriction endonucleases or methylases. In one of the proteins, Q97RD0 from SWISSPROT, it is adjacent to a helicase domain (IPR011545 from INTERPRO) in a putative restriction endonuclease.; GO: 0003677 DNA binding, 0004519 endonuclease activity, 0006304 DNA modification; PDB: 2Y3T_B 2W74_B 2W00_B.
Probab=34.24 E-value=41 Score=26.69 Aligned_cols=19 Identities=26% Similarity=0.452 Sum_probs=14.9
Q ss_pred eEEEEeCCeeEEEeeccCC
Q psy3565 117 TLEITVNNLTVKVTEFKPK 135 (168)
Q Consensus 117 ~~eVTVg~vTViITefK~K 135 (168)
-+-+.|||++|+|.|+|--
T Consensus 125 D~vLfvNGlPl~~iE~K~~ 143 (194)
T PF04313_consen 125 DIVLFVNGLPLAIIELKSP 143 (194)
T ss_dssp EEEEEETTEEEEEEEE--T
T ss_pred eEEEEECCeEEEEEEecCC
Confidence 4678999999999999865
No 25
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=33.16 E-value=22 Score=29.08 Aligned_cols=20 Identities=20% Similarity=0.546 Sum_probs=16.2
Q ss_pred CCCCceeccccceecccccc
Q psy3565 20 KDENYWDCSVCTYRNVAEAF 39 (168)
Q Consensus 20 k~eg~WdCsvCt~rN~asA~ 39 (168)
-.+|.|-|+.|.........
T Consensus 14 ~P~g~W~Cp~C~~~~~~~~~ 33 (148)
T cd04718 14 VPEGDWICPFCEVEKSGQSA 33 (148)
T ss_pred CCCCCcCCCCCcCCCCCCcc
Confidence 37899999999988765555
No 26
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=32.01 E-value=30 Score=32.13 Aligned_cols=29 Identities=28% Similarity=0.598 Sum_probs=23.2
Q ss_pred CCCceeccccceecc-------------------ccccceecCCCCCC
Q psy3565 21 DENYWDCSVCTYRNV-------------------AEAFKCSMCDVRKG 49 (168)
Q Consensus 21 ~eg~WdCsvCt~rN~-------------------asA~KCv~C~tpk~ 49 (168)
....|-|.+|-|.=. |....|..|+.+|.
T Consensus 422 ~~~~~~c~~c~~~yd~~~g~~~~~~~~gt~~~~lp~~~~cp~c~~~k~ 469 (479)
T PRK05452 422 LGPRMQCSVCQWIYDPAKGEPMQDVAPGTPWSEVPDNFLCPECSLGKD 469 (479)
T ss_pred CCCeEEECCCCeEECCCCCCcccCCCCCCChhhCCCCCcCcCCCCcHH
Confidence 567899999988654 44679999999874
No 27
>PF07562 NCD3G: Nine Cysteines Domain of family 3 GPCR; InterPro: IPR011500 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). GPCR family 3 receptors (also known as family C) are structurally similar to other GPCRs, but do not show any significant sequence similarity and thus represent a distinct group. Structurally they are composed of four elements; an N-terminal signal sequence; a large hydrophilic extracellular agonist-binding region containing several conserved cysteine residues which could be involved in disulphide bonds; a shorter region containing seven transmembrane domains; and a C-terminal cytoplasmic domain of variable length []. Family 3 members include the metabotropic glutamate receptors, the extracellular calcium-sensing receptors, the gamma-amino-butyric acid (GABA) type B receptors, and the vomeronasal type-2 receptors [, , , ]. As these receptors regulate many important physiological processes they are potentially promising targets for drug development. This entry represents a conserved sequence, found in the extracellular region, that contains several highly-conserved Cys residues that are predicted to form disulphide bridges.; GO: 0004930 G-protein coupled receptor activity, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 2E4X_B 2E4Y_A 2E4U_B 2E4V_B 2E4W_A.
Probab=30.24 E-value=22 Score=23.64 Aligned_cols=25 Identities=28% Similarity=0.830 Sum_probs=14.1
Q ss_pred CCCceecccc---ceeccccccceecCC
Q psy3565 21 DENYWDCSVC---TYRNVAEAFKCSMCD 45 (168)
Q Consensus 21 ~eg~WdCsvC---t~rN~asA~KCv~C~ 45 (168)
..==|+|.-| +|.|...+..|+.|.
T Consensus 22 ~~CCw~C~~C~~~~is~~~~~~~C~~C~ 49 (54)
T PF07562_consen 22 PSCCWDCVPCPEGEISNQTDSTSCTKCP 49 (54)
T ss_dssp S-S--EEEE--TTEEEE--ETTEEEE--
T ss_pred cceEEEeecCCCCcEECCCCccccccCC
Confidence 3345999999 478888899999995
No 28
>PF06153 DUF970: Protein of unknown function (DUF970); InterPro: IPR010375 This is a family of uncharacterised bacterial proteins.; PDB: 3M05_A.
Probab=28.19 E-value=56 Score=25.44 Aligned_cols=24 Identities=21% Similarity=0.192 Sum_probs=11.2
Q ss_pred CCCcCCCCceEEEEeCCeeEEEee
Q psy3565 108 KHVDRTTAQTLEITVNNLTVKVTE 131 (168)
Q Consensus 108 KnVDRSSAq~~eVTVg~vTViITe 131 (168)
.+.+.-.....+|+||+-||.+.|
T Consensus 79 ~~~~~~~~~pveV~vGGATVFVl~ 102 (109)
T PF06153_consen 79 ESGEMYIPYPVEVEVGGATVFVLD 102 (109)
T ss_dssp ----------EEEEE--EEEEEEE
T ss_pred CCcccccccceEEEEcccEEEEEE
Confidence 456677788999999999999976
No 29
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=25.23 E-value=35 Score=33.50 Aligned_cols=23 Identities=22% Similarity=0.566 Sum_probs=18.8
Q ss_pred eccccceeccccccceecCCCCC
Q psy3565 26 DCSVCTYRNVAEAFKCSMCDVRK 48 (168)
Q Consensus 26 dCsvCt~rN~asA~KCv~C~tpk 48 (168)
-|+-|-+.|.+.+.-|..|+++=
T Consensus 3 ~Cp~Cg~~n~~~akFC~~CG~~l 25 (645)
T PRK14559 3 ICPQCQFENPNNNRFCQKCGTSL 25 (645)
T ss_pred cCCCCCCcCCCCCccccccCCCC
Confidence 48888888888888888888773
No 30
>KOG0954|consensus
Probab=22.29 E-value=60 Score=33.29 Aligned_cols=49 Identities=24% Similarity=0.445 Sum_probs=35.6
Q ss_pred CCCceeccccceeccccccceecCCCCCCCCCCCCCCCccchhhhhccCCcCCC
Q psy3565 21 DENYWDCSVCTYRNVAEAFKCSMCDVRKGTSTRKPRITPDLVAQVTQQYPVPAT 74 (168)
Q Consensus 21 ~eg~WdCsvCt~rN~asA~KCv~C~tpk~~strk~r~~s~lvaQq~~qq~~~~~ 74 (168)
.+|+|-|..|-.. .--.|+.| |+.+--.|+.....--|+..--++.|.-
T Consensus 309 p~gpWlCr~Calg---~~ppCvLC--PkkGGamK~~~sgT~wAHvsCALwIPEV 357 (893)
T KOG0954|consen 309 PEGPWLCRTCALG---IEPPCVLC--PKKGGAMKPTKSGTKWAHVSCALWIPEV 357 (893)
T ss_pred CCCCeeehhcccc---CCCCeeec--cccCCcccccCCCCeeeEeeeeecccee
Confidence 6799999999998 56689999 5555557777777766655555666543
No 31
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=22.15 E-value=39 Score=21.29 Aligned_cols=14 Identities=29% Similarity=0.805 Sum_probs=9.6
Q ss_pred Cceeccccceeccc
Q psy3565 23 NYWDCSVCTYRNVA 36 (168)
Q Consensus 23 g~WdCsvCt~rN~a 36 (168)
..|-|.+|...|..
T Consensus 23 ~~w~C~~C~~~N~l 36 (40)
T PF04810_consen 23 KTWICNFCGTKNPL 36 (40)
T ss_dssp TEEEETTT--EEE-
T ss_pred CEEECcCCCCcCCC
Confidence 47999999999864
No 32
>PF04071 zf-like: Cysteine-rich small domain; InterPro: IPR007212 This is a probable metal-binding domain. It is found in a probable precorrin-3B C17-methyltransferase from Methanobacterium thermoautotrophicum, that catalyses the methylation of C-17 in precorrin-3B to form precorrin-4.
Probab=21.53 E-value=27 Score=26.21 Aligned_cols=22 Identities=32% Similarity=0.752 Sum_probs=16.8
Q ss_pred CCC--ceeccccceecccccccee
Q psy3565 21 DEN--YWDCSVCTYRNVAEAFKCS 42 (168)
Q Consensus 21 ~eg--~WdCsvCt~rN~asA~KCv 42 (168)
+.| -|||+-|++-..++....+
T Consensus 46 ~~G~~vw~C~~C~~~H~~e~~~~i 69 (86)
T PF04071_consen 46 KNGSKVWDCSDCTLPHRPENYDYI 69 (86)
T ss_pred CCCCeeeECccCCCccCHHHHHHH
Confidence 456 7999999998887765544
No 33
>smart00837 DPBB_1 Rare lipoprotein A (RlpA)-like double-psi beta-barrel. Rare lipoprotein A (RlpA) contains a conserved region that has the double-psi beta-barrel (DPBB) fold. The function of RlpA is not well understood, but it has been shown to act as a prc mutant suppressor in Escherichia coli. The DPBB fold is often an enzymatic domain. The members of this family are quite diverse, and if catalytic this family may contain several different functions. Another example of this domain is found in the N terminus of pollen allergen.
Probab=21.37 E-value=96 Score=22.70 Aligned_cols=12 Identities=42% Similarity=0.678 Sum_probs=10.1
Q ss_pred CeeEEEeeccCC
Q psy3565 124 NLTVKVTEFKPK 135 (168)
Q Consensus 124 ~vTViITefK~K 135 (168)
.|+|.||||=|-
T Consensus 35 ~V~V~vtd~CP~ 46 (87)
T smart00837 35 SITVTATNFCPP 46 (87)
T ss_pred eEEEEEeccCCc
Confidence 699999999763
No 34
>KOG0956|consensus
Probab=20.53 E-value=48 Score=33.88 Aligned_cols=30 Identities=23% Similarity=0.711 Sum_probs=26.6
Q ss_pred CCCceeccccceeccccccceecCCCCCCC
Q psy3565 21 DENYWDCSVCTYRNVAEAFKCSMCDVRKGT 50 (168)
Q Consensus 21 ~eg~WdCsvCt~rN~asA~KCv~C~tpk~~ 50 (168)
..|.|.|.-|.-+-.+.-+.|..|-..-+-
T Consensus 45 PtGpWfCrKCesqeraarvrCeLCP~kdGA 74 (900)
T KOG0956|consen 45 PTGPWFCRKCESQERAARVRCELCPHKDGA 74 (900)
T ss_pred CCCchhhhhhhhhhhhccceeecccCcccc
Confidence 689999999999999999999999666544
No 35
>KOG0699|consensus
Probab=20.26 E-value=55 Score=31.44 Aligned_cols=16 Identities=50% Similarity=0.667 Sum_probs=13.0
Q ss_pred eCCeeEEEeeccCCcC
Q psy3565 122 VNNLTVKVTEFKPKIK 137 (168)
Q Consensus 122 Vg~vTViITefK~K~~ 137 (168)
-.|.|||||-||.|++
T Consensus 492 CDNMT~ii~~Fkrk~~ 507 (542)
T KOG0699|consen 492 CDNMTVIITTFKRKSK 507 (542)
T ss_pred CCcceEEEEEeccchh
Confidence 3589999999996654
Done!