Query 035709
Match_columns 75
No_of_seqs 101 out of 297
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 05:37:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035709.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035709hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02543 pfkB-type carbohydrat 97.5 5.1E-05 1.1E-09 61.3 2.5 22 36-57 123-144 (496)
2 PLN02967 kinase 95.9 0.0049 1.1E-07 51.2 2.3 19 36-54 194-212 (581)
3 cd01943 MAK32 MAK32 kinase. M 94.1 0.016 3.5E-07 43.0 0.3 17 40-56 1-17 (328)
4 PLN02323 probable fructokinase 92.3 0.11 2.4E-06 37.6 2.4 21 36-56 8-28 (330)
5 KOG2855 Ribokinase [Carbohydra 91.6 0.11 2.3E-06 41.3 1.7 35 35-69 6-44 (330)
6 cd01944 YegV_kinase_like YegV- 81.5 0.58 1.3E-05 32.9 0.5 15 40-54 1-15 (289)
7 cd01940 Fructoselysine_kinase_ 80.8 0.75 1.6E-05 31.8 0.9 16 40-55 1-16 (264)
8 PRK09813 fructoselysine 6-kina 80.5 0.89 1.9E-05 31.8 1.2 17 39-55 1-17 (260)
9 PRK09434 aminoimidazole ribosi 80.1 1.1 2.3E-05 31.9 1.4 17 39-55 3-19 (304)
10 TIGR02198 rfaE_dom_I rfaE bifu 77.4 1.1 2.5E-05 31.8 1.0 17 37-53 6-22 (315)
11 cd01166 KdgK 2-keto-3-deoxyglu 76.3 1.7 3.7E-05 30.2 1.6 17 40-56 1-17 (294)
12 COG0524 RbsK Sugar kinases, ri 75.4 1.5 3.2E-05 31.3 1.0 15 40-54 1-15 (311)
13 cd01946 ribokinase_group_C Rib 72.7 1.5 3.2E-05 30.9 0.6 15 40-54 1-15 (277)
14 cd01937 ribokinase_group_D Rib 71.0 1.7 3.7E-05 30.0 0.5 15 40-54 1-15 (254)
15 cd01939 Ketohexokinase Ketohex 67.3 2.7 5.8E-05 29.8 0.9 17 40-56 1-17 (290)
16 cd01942 ribokinase_group_A Rib 63.8 3.2 6.8E-05 28.8 0.7 13 40-52 1-13 (279)
17 KOG3020 TatD-related DNase [Re 63.8 3.7 8E-05 32.1 1.1 59 5-69 76-140 (296)
18 cd01945 ribokinase_group_B Rib 63.8 3.1 6.8E-05 29.0 0.7 15 40-54 1-15 (284)
19 cd01174 ribokinase Ribokinase 60.6 3.8 8.2E-05 28.6 0.6 15 40-54 1-15 (292)
20 PTZ00292 ribokinase; Provision 60.2 4.7 0.0001 29.1 1.1 19 36-54 13-31 (326)
21 PF00294 PfkB: pfkB family car 59.6 3.4 7.3E-05 28.7 0.3 18 39-56 2-19 (301)
22 cd01947 Guanosine_kinase_like 55.7 4.9 0.00011 27.9 0.5 15 40-54 1-15 (265)
23 cd01172 RfaE_like RfaE encodes 53.5 5.8 0.00013 27.9 0.6 14 40-53 1-14 (304)
24 PRK11142 ribokinase; Provision 53.0 6.5 0.00014 27.8 0.8 13 40-52 4-16 (306)
25 PRK09850 pseudouridine kinase; 49.3 8.4 0.00018 27.8 0.9 17 38-54 4-20 (313)
26 PRK11316 bifunctional heptose 49.2 8.6 0.00019 29.6 1.0 16 38-53 10-25 (473)
27 cd01167 bac_FRK Fructokinases 49.0 7.6 0.00016 27.1 0.6 16 40-55 1-16 (295)
28 PF03828 PAP_assoc: Cid1 famil 45.5 5 0.00011 22.7 -0.6 11 43-53 1-11 (60)
29 PF01026 TatD_DNase: TatD rela 40.1 12 0.00026 26.8 0.6 31 38-68 85-115 (255)
30 KOG3250 COP9 signalosome, subu 39.8 11 0.00025 29.4 0.4 16 36-51 34-49 (258)
31 PF11460 DUF3007: Protein of u 39.7 15 0.00033 25.1 1.0 23 8-30 62-94 (104)
32 PF11224 DUF3023: Protein of u 34.9 3.8 8.3E-05 27.6 -2.6 45 3-53 1-47 (130)
33 PLN02813 pfkB-type carbohydrat 33.9 30 0.00065 27.2 1.9 19 36-54 67-85 (426)
34 PF11304 DUF3106: Protein of u 33.8 23 0.0005 23.3 1.1 20 11-30 61-81 (107)
35 COG0084 TatD Mg-dependent DNas 33.7 24 0.00051 26.7 1.3 32 38-69 86-117 (256)
36 TIGR02588 conserved hypothetic 32.7 18 0.00039 25.3 0.4 28 41-70 80-107 (122)
37 cd01941 YeiC_kinase_like YeiC- 31.7 19 0.00042 25.0 0.5 15 40-54 1-15 (288)
38 PTZ00247 adenosine kinase; Pro 31.4 28 0.00061 25.6 1.3 19 36-54 3-21 (345)
39 PLN02630 pfkB-type carbohydrat 31.0 25 0.00055 26.8 1.0 21 34-54 7-27 (335)
40 KOG3582 Mlx interactors and re 30.3 22 0.00049 31.8 0.7 25 5-29 788-812 (856)
41 PRK12359 flavodoxin FldB; Prov 25.9 4.4 9.5E-05 28.7 -3.6 36 5-40 121-156 (172)
42 PF08149 BING4CT: BING4CT (NUC 25.5 52 0.0011 21.6 1.6 20 11-30 56-75 (80)
43 cd01168 adenosine_kinase Adeno 23.3 38 0.00081 24.2 0.7 16 39-54 2-17 (312)
44 PF04634 DUF600: Protein of un 23.0 51 0.0011 22.6 1.3 20 12-31 121-140 (147)
45 PLN02379 pfkB-type carbohydrat 21.7 54 0.0012 25.1 1.3 18 37-54 18-36 (367)
46 PF05207 zf-CSL: CSL zinc fing 20.4 32 0.0007 20.3 -0.1 8 2-9 20-27 (55)
47 PF14966 DNA_repr_REX1B: DNA r 20.2 77 0.0017 20.7 1.7 16 10-25 9-24 (97)
No 1
>PLN02543 pfkB-type carbohydrate kinase family protein
Probab=97.54 E-value=5.1e-05 Score=61.25 Aligned_cols=22 Identities=41% Similarity=0.783 Sum_probs=18.7
Q ss_pred CCCccEEEecchhhhhccCCCC
Q 035709 36 DKKALVVCFGELLIDFLPTESG 57 (75)
Q Consensus 36 ~~~~dVlcIGEaLIDFIP~~~G 57 (75)
+-.+.|+||||+||||+|.+.+
T Consensus 123 ~~~~~v~~~Ge~liDf~~~~~~ 144 (496)
T PLN02543 123 DDPPLVCCFGAVQKEFVPTVRV 144 (496)
T ss_pred CCCCeEEEeChhhhhhcCCCcc
Confidence 4456699999999999998775
No 2
>PLN02967 kinase
Probab=95.93 E-value=0.0049 Score=51.23 Aligned_cols=19 Identities=37% Similarity=0.726 Sum_probs=16.3
Q ss_pred CCCccEEEecchhhhhccC
Q 035709 36 DKKALVVCFGELLIDFLPT 54 (75)
Q Consensus 36 ~~~~dVlcIGEaLIDFIP~ 54 (75)
+-.+.|+||||+||||+|.
T Consensus 194 ~~~~~V~~iGe~l~D~~p~ 212 (581)
T PLN02967 194 GWPPLVCCFGAAQHAFVPS 212 (581)
T ss_pred CCCCeEEEECchhheeccc
Confidence 4556699999999999995
No 3
>cd01943 MAK32 MAK32 kinase. MAK32 is a protein found primarily in fungi that is necessary for the structural stability of L-A particles. The L-A virus particule is a specialized compartment for the transcription and replication of double-stranded RNA, known to infect yeast and other fungi. MAK32 is part of the host machinery used by the virus to multiply.
Probab=94.12 E-value=0.016 Score=42.96 Aligned_cols=17 Identities=18% Similarity=0.241 Sum_probs=15.2
Q ss_pred cEEEecchhhhhccCCC
Q 035709 40 LVVCFGELLIDFLPTES 56 (75)
Q Consensus 40 dVlcIGEaLIDFIP~~~ 56 (75)
+|+||||+|||||+...
T Consensus 1 ~~~~~G~~~~d~i~~~~ 17 (328)
T cd01943 1 DFTTLGMFIIDEIEYPD 17 (328)
T ss_pred CccccCcEEeeccccCC
Confidence 68999999999999864
No 4
>PLN02323 probable fructokinase
Probab=92.33 E-value=0.11 Score=37.65 Aligned_cols=21 Identities=67% Similarity=1.209 Sum_probs=17.5
Q ss_pred CCCccEEEecchhhhhccCCC
Q 035709 36 DKKALVVCFGELLIDFLPTES 56 (75)
Q Consensus 36 ~~~~dVlcIGEaLIDFIP~~~ 56 (75)
.+..+|++|||++||+++...
T Consensus 8 ~~~~~i~~iG~~~vD~~~~~~ 28 (330)
T PLN02323 8 AESSLVVCFGEMLIDFVPTVS 28 (330)
T ss_pred CCCCcEEEechhhhhhccCCC
Confidence 566789999999999998643
No 5
>KOG2855 consensus Ribokinase [Carbohydrate transport and metabolism]
Probab=91.59 E-value=0.11 Score=41.26 Aligned_cols=35 Identities=34% Similarity=0.652 Sum_probs=26.4
Q ss_pred CCCCccEEEecchhhhhccCCCCCCcc----chhhhhhc
Q 035709 35 PDKKALVVCFGELLIDFLPTESGVSLA----KASAFRKE 69 (75)
Q Consensus 35 ~~~~~dVlcIGEaLIDFIP~~~G~sL~----~v~sFek~ 69 (75)
-...+.|+|+|+++|||+|...+.+.. ..+.|.+.
T Consensus 6 ~~~~~~vv~fGs~~~D~V~~~~~~p~~ge~~~~~~f~~~ 44 (330)
T KOG2855|consen 6 YGEPPLVVVFGSMLIDFVPSTRRLPNAGETWEPPGFKTA 44 (330)
T ss_pred ccCCceEEEeccceeeeeeccccCCCccccccCCcceec
Confidence 356789999999999999998776665 34455443
No 6
>cd01944 YegV_kinase_like YegV-like sugar kinase. Found only in bacteria, YegV-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time.
Probab=81.52 E-value=0.58 Score=32.91 Aligned_cols=15 Identities=20% Similarity=0.437 Sum_probs=13.2
Q ss_pred cEEEecchhhhhccC
Q 035709 40 LVVCFGELLIDFLPT 54 (75)
Q Consensus 40 dVlcIGEaLIDFIP~ 54 (75)
+|+||||++||++..
T Consensus 1 ~i~~iG~~~~D~i~~ 15 (289)
T cd01944 1 KVLVIGAAVVDIVLD 15 (289)
T ss_pred CeEEEcceeEEEEee
Confidence 489999999999854
No 7
>cd01940 Fructoselysine_kinase_like Fructoselysine kinase-like. Fructoselysine is a fructoseamine formed by glycation, a non-enzymatic reaction of glucose with a primary amine followed by an Amadori rearrangement, resulting in a protein that is modified at the amino terminus and at the lysine side chains. Fructoseamines are typically metabolized by fructoseamine-3-kinase, especially in higher eukaryotes. In E. coli, fructoselysine kinase has been shown in vitro to catalyze the phosphorylation of fructoselysine. It is proposed that fructoselysine is released from glycated proteins during human digestion and is partly metabolized by bacteria in the hind gut using a protein such as fructoselysine kinase. This family is found only in bacterial sequences, and its oligomeric state is currently unknown.
Probab=80.84 E-value=0.75 Score=31.83 Aligned_cols=16 Identities=13% Similarity=0.177 Sum_probs=14.6
Q ss_pred cEEEecchhhhhccCC
Q 035709 40 LVVCFGELLIDFLPTE 55 (75)
Q Consensus 40 dVlcIGEaLIDFIP~~ 55 (75)
+|++|||+++|.++..
T Consensus 1 ~v~~iG~~~~D~~~~~ 16 (264)
T cd01940 1 RLAAIGDNVVDKYLHL 16 (264)
T ss_pred CeEEEcceEEEEeccC
Confidence 5899999999999975
No 8
>PRK09813 fructoselysine 6-kinase; Provisional
Probab=80.54 E-value=0.89 Score=31.78 Aligned_cols=17 Identities=18% Similarity=0.360 Sum_probs=15.0
Q ss_pred ccEEEecchhhhhccCC
Q 035709 39 ALVVCFGELLIDFLPTE 55 (75)
Q Consensus 39 ~dVlcIGEaLIDFIP~~ 55 (75)
.+|++|||++||+++..
T Consensus 1 ~~v~~iG~~~~D~~~~~ 17 (260)
T PRK09813 1 KKLATIGDNCVDIYPQL 17 (260)
T ss_pred CeEEEeccceeeecccC
Confidence 37999999999999974
No 9
>PRK09434 aminoimidazole riboside kinase; Provisional
Probab=80.06 E-value=1.1 Score=31.94 Aligned_cols=17 Identities=24% Similarity=0.581 Sum_probs=15.1
Q ss_pred ccEEEecchhhhhccCC
Q 035709 39 ALVVCFGELLIDFLPTE 55 (75)
Q Consensus 39 ~dVlcIGEaLIDFIP~~ 55 (75)
.+|++|||+.||.+|..
T Consensus 3 ~~il~iG~~~iD~~~~~ 19 (304)
T PRK09434 3 NKVWVLGDAVVDLIPEG 19 (304)
T ss_pred CcEEEecchheeeecCC
Confidence 47999999999999864
No 10
>TIGR02198 rfaE_dom_I rfaE bifunctional protein, domain I. RfaE is a protein involved in the biosynthesis of ADP-L-glycero-D-manno-heptose, a precursor for LPS inner core biosynthesis. RfaE is a bifunctional protein in E. coli, and separate proteins in some other genome. The longer, N-terminal domain I (this family) is suggested to act in D-glycero-D-manno-heptose 1-phosphate biosynthesis, while domain II (TIGR02199) adds ADP to yield ADP-D-glycero-D-manno-heptose.
Probab=77.40 E-value=1.1 Score=31.82 Aligned_cols=17 Identities=29% Similarity=0.411 Sum_probs=14.9
Q ss_pred CCccEEEecchhhhhcc
Q 035709 37 KKALVVCFGELLIDFLP 53 (75)
Q Consensus 37 ~~~dVlcIGEaLIDFIP 53 (75)
++++|+|||+++||.+.
T Consensus 6 ~~~~il~iG~~~iD~~~ 22 (315)
T TIGR02198 6 KGAKVLVVGDVMLDRYW 22 (315)
T ss_pred CCCcEEEECceeEeeee
Confidence 46789999999999974
No 11
>cd01166 KdgK 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the glycolysis and therefore use polymers, like pectin and xylan as carbon sources.
Probab=76.31 E-value=1.7 Score=30.23 Aligned_cols=17 Identities=35% Similarity=0.649 Sum_probs=14.4
Q ss_pred cEEEecchhhhhccCCC
Q 035709 40 LVVCFGELLIDFLPTES 56 (75)
Q Consensus 40 dVlcIGEaLIDFIP~~~ 56 (75)
+|+|||+++||.+....
T Consensus 1 ~i~~iG~~~iD~~~~~~ 17 (294)
T cd01166 1 DVVTIGEVMVDLSPPGG 17 (294)
T ss_pred CeEEechhheeeecCCC
Confidence 58999999999987643
No 12
>COG0524 RbsK Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]
Probab=75.43 E-value=1.5 Score=31.33 Aligned_cols=15 Identities=33% Similarity=0.505 Sum_probs=13.7
Q ss_pred cEEEecchhhhhccC
Q 035709 40 LVVCFGELLIDFLPT 54 (75)
Q Consensus 40 dVlcIGEaLIDFIP~ 54 (75)
+|++||+++||+++.
T Consensus 1 ~v~~iG~~~vD~~~~ 15 (311)
T COG0524 1 DVVVIGEANVDLIAQ 15 (311)
T ss_pred CEEEECchhhheehh
Confidence 589999999999985
No 13
>cd01946 ribokinase_group_C Ribokinase-like subgroup C. Found only in bacteria, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time.
Probab=72.74 E-value=1.5 Score=30.85 Aligned_cols=15 Identities=20% Similarity=0.383 Sum_probs=13.1
Q ss_pred cEEEecchhhhhccC
Q 035709 40 LVVCFGELLIDFLPT 54 (75)
Q Consensus 40 dVlcIGEaLIDFIP~ 54 (75)
.|+|+||+++|++..
T Consensus 1 ~v~~~G~~~~D~~~~ 15 (277)
T cd01946 1 SLLVVGSVAFDAIET 15 (277)
T ss_pred CeEEEEEeeeeeecC
Confidence 489999999999954
No 14
>cd01937 ribokinase_group_D Ribokinase-like subgroup D. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time.
Probab=71.02 E-value=1.7 Score=29.99 Aligned_cols=15 Identities=33% Similarity=0.448 Sum_probs=13.7
Q ss_pred cEEEecchhhhhccC
Q 035709 40 LVVCFGELLIDFLPT 54 (75)
Q Consensus 40 dVlcIGEaLIDFIP~ 54 (75)
+|+++||++||.+..
T Consensus 1 ~il~iG~~~iD~~~~ 15 (254)
T cd01937 1 KIVIIGHVTIDEIVT 15 (254)
T ss_pred CeEEEcceeEEEEec
Confidence 589999999999986
No 15
>cd01939 Ketohexokinase Ketohexokinase (fructokinase, KHK) catalyzes the phosphorylation of fructose to fructose-1-phosphate (F1P), the first step in the metabolism of dietary fructose. KHK can also phosphorylate several other furanose sugars. It is found in higher eukaryotes where it is believed to function as a dimer and requires K(+) and ATP to be active. In humans, hepatic KHK deficiency causes fructosuria, a benign inborn error of metabolism.
Probab=67.27 E-value=2.7 Score=29.78 Aligned_cols=17 Identities=35% Similarity=0.753 Sum_probs=14.3
Q ss_pred cEEEecchhhhhccCCC
Q 035709 40 LVVCFGELLIDFLPTES 56 (75)
Q Consensus 40 dVlcIGEaLIDFIP~~~ 56 (75)
+|+|||++.||++..-.
T Consensus 1 ~v~~iG~~~vD~~~~v~ 17 (290)
T cd01939 1 AVLCVGLTVLDFITTVD 17 (290)
T ss_pred CEEEEeeeeeEEEeeec
Confidence 58999999999996543
No 16
>cd01942 ribokinase_group_A Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time.
Probab=63.82 E-value=3.2 Score=28.79 Aligned_cols=13 Identities=31% Similarity=0.396 Sum_probs=12.4
Q ss_pred cEEEecchhhhhc
Q 035709 40 LVVCFGELLIDFL 52 (75)
Q Consensus 40 dVlcIGEaLIDFI 52 (75)
||+|+|++.||++
T Consensus 1 ~v~~iG~~~~D~~ 13 (279)
T cd01942 1 DVAVVGHLNYDII 13 (279)
T ss_pred CEEEEecceeeeE
Confidence 7999999999998
No 17
>KOG3020 consensus TatD-related DNase [Replication, recombination and repair]
Probab=63.76 E-value=3.7 Score=32.13 Aligned_cols=59 Identities=20% Similarity=0.210 Sum_probs=34.2
Q ss_pred ccC-cchHHHhhhHH-----HHHHhcCCCCCCCCCCCCCCccEEEecchhhhhccCCCCCCccchhhhhhc
Q 035709 5 CQG-HTHAEQRRDAQ-----TYKKFNKLPADEEGQTPDKKALVVCFGELLIDFLPTESGVSLAKASAFRKE 69 (75)
Q Consensus 5 ~~~-~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~dVlcIGEaLIDFIP~~~G~sL~~v~sFek~ 69 (75)
|-| |-|--++.--+ .|++.-++-.+ +...+|++|||...|+-....-.-......|+++
T Consensus 76 t~G~HP~~~~~~~~~~~~~~~~~~L~~~~~~------~~~~k~vAiGEcGLD~~r~~~~~~~~Qk~vFekQ 140 (296)
T KOG3020|consen 76 TFGVHPHFSQEFSDQSRKEKFLDTLLSIIEN------GFLPKVVAIGECGLDYDRLQFSDKEEQKTVFEKQ 140 (296)
T ss_pred ccCcCCCcccchhhccchhhHHHHHHHHHhh------cccCCeEEeeccccccchhccCChHHHHHHHHHH
Confidence 345 66655555443 45555444322 1168999999999999876422112234456654
No 18
>cd01945 ribokinase_group_B Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time. .
Probab=63.76 E-value=3.1 Score=28.97 Aligned_cols=15 Identities=20% Similarity=0.299 Sum_probs=13.2
Q ss_pred cEEEecchhhhhccC
Q 035709 40 LVVCFGELLIDFLPT 54 (75)
Q Consensus 40 dVlcIGEaLIDFIP~ 54 (75)
+|+|+|++.||++..
T Consensus 1 ~i~~iG~~~iD~~~~ 15 (284)
T cd01945 1 RVLGVGLAVLDLIYL 15 (284)
T ss_pred CEEEECcceeEEEEE
Confidence 589999999999764
No 19
>cd01174 ribokinase Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides and histidine, and for entry into the pentose phosphate pathway. Ribokinase is dimeric in solution.
Probab=60.61 E-value=3.8 Score=28.60 Aligned_cols=15 Identities=27% Similarity=0.510 Sum_probs=13.1
Q ss_pred cEEEecchhhhhccC
Q 035709 40 LVVCFGELLIDFLPT 54 (75)
Q Consensus 40 dVlcIGEaLIDFIP~ 54 (75)
+|+++|++.||++..
T Consensus 1 ~il~iG~~~~D~~~~ 15 (292)
T cd01174 1 KVVVVGSINVDLVTR 15 (292)
T ss_pred CEEEEeeceeEEEEE
Confidence 599999999999764
No 20
>PTZ00292 ribokinase; Provisional
Probab=60.15 E-value=4.7 Score=29.11 Aligned_cols=19 Identities=21% Similarity=0.244 Sum_probs=15.7
Q ss_pred CCCccEEEecchhhhhccC
Q 035709 36 DKKALVVCFGELLIDFLPT 54 (75)
Q Consensus 36 ~~~~dVlcIGEaLIDFIP~ 54 (75)
....+|++||++.||++..
T Consensus 13 ~~~~~vlviG~~~vD~~~~ 31 (326)
T PTZ00292 13 EAEPDVVVVGSSNTDLIGY 31 (326)
T ss_pred CCCCCEEEEccceeeEEEe
Confidence 3466799999999999864
No 21
>PF00294 PfkB: pfkB family carbohydrate kinase; InterPro: IPR011611 This entry includes a variety of carbohydrate and pyrimidine kinases. The family includes phosphomethylpyrimidine kinase (2.7.4.7 from EC). This enzyme is part of the Thiamine pyrophosphate (TPP) synthesis pathway, TPP is an essential cofactor for many enzymes []. ; PDB: 1VM7_B 2ABQ_B 3GO7_B 3GO6_B 3FHY_A 4EOH_B 2YXU_A 2F7K_A 3KEU_A 2YXT_B ....
Probab=59.63 E-value=3.4 Score=28.68 Aligned_cols=18 Identities=28% Similarity=0.377 Sum_probs=15.4
Q ss_pred ccEEEecchhhhhccCCC
Q 035709 39 ALVVCFGELLIDFLPTES 56 (75)
Q Consensus 39 ~dVlcIGEaLIDFIP~~~ 56 (75)
.+|++||++.||++....
T Consensus 2 ~~v~~iG~~~iD~~~~~~ 19 (301)
T PF00294_consen 2 KKVLVIGEVNIDIIGYVD 19 (301)
T ss_dssp EEEEEESEEEEEEEEESS
T ss_pred CcEEEECccceEEEeecC
Confidence 479999999999998643
No 22
>cd01947 Guanosine_kinase_like Guanosine kinase-like sugar kinases. Found in bacteria and archaea, the guanosine kinase-like group is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time.
Probab=55.65 E-value=4.9 Score=27.90 Aligned_cols=15 Identities=13% Similarity=0.275 Sum_probs=13.1
Q ss_pred cEEEecchhhhhccC
Q 035709 40 LVVCFGELLIDFLPT 54 (75)
Q Consensus 40 dVlcIGEaLIDFIP~ 54 (75)
+|+++|++.||++..
T Consensus 1 ~il~iG~~~iD~~~~ 15 (265)
T cd01947 1 KIAVVGHVEWDIFLS 15 (265)
T ss_pred CEEEEeeeeEEEEEE
Confidence 589999999999854
No 23
>cd01172 RfaE_like RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer membrane of gram-negative bacteria. RfaE consists of two domains, a sugar kinase domain, represented here, and a domain belonging to the cytidylyltransferase superfamily.
Probab=53.50 E-value=5.8 Score=27.91 Aligned_cols=14 Identities=21% Similarity=0.439 Sum_probs=12.7
Q ss_pred cEEEecchhhhhcc
Q 035709 40 LVVCFGELLIDFLP 53 (75)
Q Consensus 40 dVlcIGEaLIDFIP 53 (75)
+|++||++.||++.
T Consensus 1 ~vl~iG~~~~D~~~ 14 (304)
T cd01172 1 KVLVVGDVILDEYL 14 (304)
T ss_pred CEEEEcceeEEeeE
Confidence 58999999999975
No 24
>PRK11142 ribokinase; Provisional
Probab=52.99 E-value=6.5 Score=27.78 Aligned_cols=13 Identities=23% Similarity=0.445 Sum_probs=12.3
Q ss_pred cEEEecchhhhhc
Q 035709 40 LVVCFGELLIDFL 52 (75)
Q Consensus 40 dVlcIGEaLIDFI 52 (75)
+|+|+|++.+|++
T Consensus 4 ~i~~iG~~~~D~~ 16 (306)
T PRK11142 4 KLVVLGSINADHV 16 (306)
T ss_pred cEEEECCceeeEE
Confidence 6999999999997
No 25
>PRK09850 pseudouridine kinase; Provisional
Probab=49.33 E-value=8.4 Score=27.81 Aligned_cols=17 Identities=35% Similarity=0.321 Sum_probs=14.5
Q ss_pred CccEEEecchhhhhccC
Q 035709 38 KALVVCFGELLIDFLPT 54 (75)
Q Consensus 38 ~~dVlcIGEaLIDFIP~ 54 (75)
-+.|+|+|++.||++..
T Consensus 4 ~~~i~~iG~~~vD~~~~ 20 (313)
T PRK09850 4 KDYVVIIGSANIDVAGY 20 (313)
T ss_pred CCcEEEECcEEEeeecc
Confidence 35799999999999954
No 26
>PRK11316 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional
Probab=49.16 E-value=8.6 Score=29.65 Aligned_cols=16 Identities=25% Similarity=0.401 Sum_probs=13.5
Q ss_pred CccEEEecchhhhhcc
Q 035709 38 KALVVCFGELLIDFLP 53 (75)
Q Consensus 38 ~~dVlcIGEaLIDFIP 53 (75)
..+|+|||+++||.+-
T Consensus 10 ~~~ilviG~~~lD~~~ 25 (473)
T PRK11316 10 RAGVLVVGDVMLDRYW 25 (473)
T ss_pred CCcEEEECccEEeeee
Confidence 3469999999999973
No 27
>cd01167 bac_FRK Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into glucose-6-phosphate. This is in contrast to FRKs [or ketohexokinases (KHKs)] from mammalia and halophilic archaebacteria, which phosphorylate fructose to fructose-1-phosphate.
Probab=49.00 E-value=7.6 Score=27.12 Aligned_cols=16 Identities=69% Similarity=1.277 Sum_probs=14.2
Q ss_pred cEEEecchhhhhccCC
Q 035709 40 LVVCFGELLIDFLPTE 55 (75)
Q Consensus 40 dVlcIGEaLIDFIP~~ 55 (75)
+|++||++.||+++..
T Consensus 1 ~ilviG~~~~D~~~~~ 16 (295)
T cd01167 1 KVVCFGEALIDFIPEG 16 (295)
T ss_pred CEEEEcceeEEEecCC
Confidence 6899999999999864
No 28
>PF03828 PAP_assoc: Cid1 family poly A polymerase; InterPro: IPR002058 These PAP/25A associated domains are found in uncharacterised eukaryotic proteins, a number of which are described as 'topoisomerase 1-related' though they appear to have little or no homology to topoisomerase 1. The signatures that define this group of sequences often occur towards the C terminus after the PAP/25A core domain IPR001201 from INTERPRO.; PDB: 2B4V_A 2B56_A 2B51_A 4EP7_B 2NOM_B 2Q0G_B 2Q0D_B 2Q0C_A 2Q0F_A 2Q0E_A ....
Probab=45.54 E-value=5 Score=22.71 Aligned_cols=11 Identities=45% Similarity=0.960 Sum_probs=7.9
Q ss_pred Eecchhhhhcc
Q 035709 43 CFGELLIDFLP 53 (75)
Q Consensus 43 cIGEaLIDFIP 53 (75)
.+||+|++|+-
T Consensus 1 slg~Ll~~Ff~ 11 (60)
T PF03828_consen 1 SLGELLLGFFE 11 (60)
T ss_dssp -HHHHHHHHHH
T ss_pred CHHHHHHHHHH
Confidence 36888988863
No 29
>PF01026 TatD_DNase: TatD related DNase The Pfam entry finds members not in the Prosite definition.; InterPro: IPR001130 This family of proteins are related to a large superfamily of metalloenzymes []. TatD, a member of this family has been shown experimentally to be a DNase enzyme []. Allantoinase 3.5.2.5 from EC, N-isopropylammelide isopropyl amidohydrolase 3.5.1 from EC and the SCN1 protein from fission yeast belong to this family.; GO: 0016888 endodeoxyribonuclease activity, producing 5'-phosphomonoesters; PDB: 3E2V_B 1XWY_A 3GUW_D 3RCM_A 1ZZM_A 2XIO_A 1J6O_A 2GZX_A 3IPW_A 2Y1H_A ....
Probab=40.11 E-value=12 Score=26.79 Aligned_cols=31 Identities=19% Similarity=0.344 Sum_probs=19.3
Q ss_pred CccEEEecchhhhhccCCCCCCccchhhhhh
Q 035709 38 KALVVCFGELLIDFLPTESGVSLAKASAFRK 68 (75)
Q Consensus 38 ~~dVlcIGEaLIDFIP~~~G~sL~~v~sFek 68 (75)
...|++|||+=+|+..............|.+
T Consensus 85 ~~~~~aIGEiGLD~~~~~~~~~~~Q~~vF~~ 115 (255)
T PF01026_consen 85 RPKVVAIGEIGLDYYWRNEEDKEVQEEVFER 115 (255)
T ss_dssp STTEEEEEEEEEETTTTSSSGHHHHHHHHHH
T ss_pred cccceeeeeeccCcccccCCcHHHHHHHHHH
Confidence 4579999999999965433322222345544
No 30
>KOG3250 consensus COP9 signalosome, subunit CSN7 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=39.78 E-value=11 Score=29.42 Aligned_cols=16 Identities=44% Similarity=0.368 Sum_probs=13.2
Q ss_pred CCCccEEEecchhhhh
Q 035709 36 DKKALVVCFGELLIDF 51 (75)
Q Consensus 36 ~~~~dVlcIGEaLIDF 51 (75)
-+++.|+||||+||--
T Consensus 34 le~P~vf~F~ELl~l~ 49 (258)
T KOG3250|consen 34 LEAPGVFVFGELLILP 49 (258)
T ss_pred hcCCCeeeHHHHHhhh
Confidence 4678999999999743
No 31
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=39.65 E-value=15 Score=25.14 Aligned_cols=23 Identities=30% Similarity=0.469 Sum_probs=17.1
Q ss_pred cchHHHhhhHH----------HHHHhcCCCCCC
Q 035709 8 HTHAEQRRDAQ----------TYKKFNKLPADE 30 (75)
Q Consensus 8 ~~~~~~~~~~~----------~~~~~~~~~~~~ 30 (75)
-|+.+||||-. --|+|+.||.+|
T Consensus 62 MTy~~Q~k~Ye~a~~~~~~~~lqkRle~l~~eE 94 (104)
T PF11460_consen 62 MTYMQQRKDYEEAVDQLTNEELQKRLEELSPEE 94 (104)
T ss_pred CcHHHHHHHHHHHHHHHhHHHHHHHHHhCCHHH
Confidence 48899998743 338899888765
No 32
>PF11224 DUF3023: Protein of unknown function (DUF3023); InterPro: IPR021387 This bacterial family of proteins with unknown function appear to be restricted to Alphaproteobacteria.
Probab=34.93 E-value=3.8 Score=27.61 Aligned_cols=45 Identities=20% Similarity=0.394 Sum_probs=23.8
Q ss_pred ccccCcchHHHhhhHHHH--HHhcCCCCCCCCCCCCCCccEEEecchhhhhcc
Q 035709 3 CRCQGHTHAEQRRDAQTY--KKFNKLPADEEGQTPDKKALVVCFGELLIDFLP 53 (75)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~dVlcIGEaLIDFIP 53 (75)
|+|-|||.+..+-...+= ++.|.+|- |..+.-.+.-+.+.-+.+-
T Consensus 1 ~~CIG~T~~~g~L~V~i~~~~~~~~~~~------~~G~SLF~l~~~ip~~~i~ 47 (130)
T PF11224_consen 1 CYCIGNTDNNGKLNVHINKDHPKNLLPP------PQGNSLFLLKCRIPSKIIK 47 (130)
T ss_pred CEEEeeeCCCCcEEEEECCCCcCCccCC------CCCCEEEEEEEECCHHHHh
Confidence 899999976665544433 33455543 3333444444444433333
No 33
>PLN02813 pfkB-type carbohydrate kinase family protein
Probab=33.93 E-value=30 Score=27.22 Aligned_cols=19 Identities=21% Similarity=0.373 Sum_probs=16.8
Q ss_pred CCCccEEEecchhhhhccC
Q 035709 36 DKKALVVCFGELLIDFLPT 54 (75)
Q Consensus 36 ~~~~dVlcIGEaLIDFIP~ 54 (75)
.+.++|++||-+++|++-.
T Consensus 67 ~~~~~vl~iG~~~vDi~~~ 85 (426)
T PLN02813 67 PERWDVLGLGQAMVDFSGM 85 (426)
T ss_pred CCcceEEEeCCceeEEEEe
Confidence 6789999999999999754
No 34
>PF11304 DUF3106: Protein of unknown function (DUF3106); InterPro: IPR021455 Some members in this family of proteins are annotated as transmembrane proteins however this cannot be confirmed. Currently no function is known.
Probab=33.82 E-value=23 Score=23.34 Aligned_cols=20 Identities=35% Similarity=0.861 Sum_probs=14.2
Q ss_pred HHHhh-hHHHHHHhcCCCCCC
Q 035709 11 AEQRR-DAQTYKKFNKLPADE 30 (75)
Q Consensus 11 ~~~~~-~~~~~~~~~~~~~~~ 30 (75)
.|||+ -.+.|+.|++||+++
T Consensus 61 peqR~~~R~~~~~~~~Lpp~q 81 (107)
T PF11304_consen 61 PEQRQQARENYQRFKQLPPEQ 81 (107)
T ss_pred HHHHHHHHHHHHHHHcCCHHH
Confidence 34444 446799999999875
No 35
>COG0084 TatD Mg-dependent DNase [DNA replication, recombination, and repair]
Probab=33.70 E-value=24 Score=26.67 Aligned_cols=32 Identities=19% Similarity=0.287 Sum_probs=21.3
Q ss_pred CccEEEecchhhhhccCCCCCCccchhhhhhc
Q 035709 38 KALVVCFGELLIDFLPTESGVSLAKASAFRKE 69 (75)
Q Consensus 38 ~~dVlcIGEaLIDFIP~~~G~sL~~v~sFek~ 69 (75)
+++|++|||+=.|+.-.........-..|+++
T Consensus 86 ~~~vvaIGEiGLDy~~~~~~~~~~Q~~~F~~q 117 (256)
T COG0084 86 HPKVVAIGEIGLDYYWDKEPDKERQEEVFEAQ 117 (256)
T ss_pred CCCeEEEEecccCccccccccHHHHHHHHHHH
Confidence 68999999999999875432111234556654
No 36
>TIGR02588 conserved hypothetical protein TIGR02588. The function of this protein is unknown. It is always found as part of a two-gene operon with TIGR02587, a protein that appears to span the membrane seven times. It is found in Nostoc sp. PCC 7120, Agrobacterium tumefaciens, Sinorhizobium meliloti, and Gloeobacter violaceus, so far, all of which are bacterial.
Probab=32.74 E-value=18 Score=25.34 Aligned_cols=28 Identities=32% Similarity=0.386 Sum_probs=19.0
Q ss_pred EEEecchhhhhccCCCCCCccchhhhhhcc
Q 035709 41 VVCFGELLIDFLPTESGVSLAKASAFRKER 70 (75)
Q Consensus 41 VlcIGEaLIDFIP~~~G~sL~~v~sFek~P 70 (75)
|.=-||.-|||+|.... -++.-.|.+.|
T Consensus 80 v~E~~e~tiDfl~g~e~--~~G~~IF~~dP 107 (122)
T TIGR02588 80 VVENAEVTIDYLASGSK--ENGTLIFRSDP 107 (122)
T ss_pred eeEEeeEEEEEcCCCCe--EeEEEEEccCc
Confidence 44456778899997543 45566787776
No 37
>cd01941 YeiC_kinase_like YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time.
Probab=31.70 E-value=19 Score=24.98 Aligned_cols=15 Identities=27% Similarity=0.315 Sum_probs=12.9
Q ss_pred cEEEecchhhhhccC
Q 035709 40 LVVCFGELLIDFLPT 54 (75)
Q Consensus 40 dVlcIGEaLIDFIP~ 54 (75)
.|+++|++.+|++..
T Consensus 1 ~v~~~G~~~~D~~~~ 15 (288)
T cd01941 1 EIVVIGAANIDLRGK 15 (288)
T ss_pred CeEEEEeEEEeeeec
Confidence 489999999999854
No 38
>PTZ00247 adenosine kinase; Provisional
Probab=31.35 E-value=28 Score=25.61 Aligned_cols=19 Identities=21% Similarity=0.373 Sum_probs=16.0
Q ss_pred CCCccEEEecchhhhhccC
Q 035709 36 DKKALVVCFGELLIDFLPT 54 (75)
Q Consensus 36 ~~~~dVlcIGEaLIDFIP~ 54 (75)
-..++|++||.+++|.+..
T Consensus 3 ~~~~~i~~iG~~~~D~~~~ 21 (345)
T PTZ00247 3 SAPKKLLGFGNPLLDISAH 21 (345)
T ss_pred CCCceEEEECCceEEEEEe
Confidence 3567899999999999865
No 39
>PLN02630 pfkB-type carbohydrate kinase family protein
Probab=30.97 E-value=25 Score=26.83 Aligned_cols=21 Identities=24% Similarity=0.254 Sum_probs=18.0
Q ss_pred CCCCCccEEEecchhhhhccC
Q 035709 34 TPDKKALVVCFGELLIDFLPT 54 (75)
Q Consensus 34 ~~~~~~dVlcIGEaLIDFIP~ 54 (75)
.|...++|++||.+.+|.+..
T Consensus 7 ~~~~~~~vlvvG~~~~D~i~~ 27 (335)
T PLN02630 7 RPIPQRRVLIVGNYCHDVLIQ 27 (335)
T ss_pred CCCCCCCEEEEeeeeeeEEEe
Confidence 357788999999999999965
No 40
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=30.32 E-value=22 Score=31.81 Aligned_cols=25 Identities=32% Similarity=0.405 Sum_probs=22.3
Q ss_pred ccCcchHHHhhhHHHHHHhcCCCCC
Q 035709 5 CQGHTHAEQRRDAQTYKKFNKLPAD 29 (75)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~ 29 (75)
--||.|+++|+.+....+|-+|||-
T Consensus 788 ~a~sih~lrr~~~~~~dq~~sL~al 812 (856)
T KOG3582|consen 788 SAGSIHALRRTRLNWLDQFCSLPAL 812 (856)
T ss_pred ecchHHHHHHHHHHHhhccccHHHH
Confidence 3589999999999999999999874
No 41
>PRK12359 flavodoxin FldB; Provisional
Probab=25.92 E-value=4.4 Score=28.67 Aligned_cols=36 Identities=17% Similarity=0.077 Sum_probs=22.6
Q ss_pred ccCcchHHHhhhHHHHHHhcCCCCCCCCCCCCCCcc
Q 035709 5 CQGHTHAEQRRDAQTYKKFNKLPADEEGQTPDKKAL 40 (75)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d 40 (75)
|+|.++.+.|--..-=+||--|+-||+||+-.++.+
T Consensus 121 ~~gY~f~~s~a~~~~~~~f~gl~lD~~nq~~~t~~r 156 (172)
T PRK12359 121 TEGYEFTSSKPLTADGQLFVGLALDEVNQYDLSDER 156 (172)
T ss_pred CCCcccccceeeEcCCCEEEEEEEcCCCchhhhHHH
Confidence 677766655432111136889999999998655443
No 42
>PF08149 BING4CT: BING4CT (NUC141) domain; InterPro: IPR012952 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events. This C-terminal domain is found in the BING4 family of nucleolar WD40 repeat proteins [].
Probab=25.48 E-value=52 Score=21.64 Aligned_cols=20 Identities=30% Similarity=0.541 Sum_probs=17.5
Q ss_pred HHHhhhHHHHHHhcCCCCCC
Q 035709 11 AEQRRDAQTYKKFNKLPADE 30 (75)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~ 30 (75)
..|||.+..-.-.+|||+|-
T Consensus 56 ~kqRrE~EV~~LLeKippd~ 75 (80)
T PF08149_consen 56 KKQRREREVRSLLEKIPPDM 75 (80)
T ss_pred hhHHhHHHHHHHHHhCCccc
Confidence 67999999999999999863
No 43
>cd01168 adenosine_kinase Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine levels and the preservation of intracellular adenylate pools. Adenosine kinase is involved in the purine salvage pathway.
Probab=23.32 E-value=38 Score=24.22 Aligned_cols=16 Identities=31% Similarity=0.468 Sum_probs=13.6
Q ss_pred ccEEEecchhhhhccC
Q 035709 39 ALVVCFGELLIDFLPT 54 (75)
Q Consensus 39 ~dVlcIGEaLIDFIP~ 54 (75)
.+|+++|.+.+|.+-.
T Consensus 2 ~~v~~vG~~~~D~~~~ 17 (312)
T cd01168 2 YDVLGLGNALVDILAQ 17 (312)
T ss_pred ceEEEECCCeEEEEEe
Confidence 4699999999998864
No 44
>PF04634 DUF600: Protein of unknown function, DUF600; InterPro: IPR006728 This conserved region is found in several uncharacterised proteins from Gram-positive bacteria.; PDB: 2IA1_B 3I0T_A.
Probab=22.98 E-value=51 Score=22.58 Aligned_cols=20 Identities=40% Similarity=0.403 Sum_probs=13.4
Q ss_pred HHhhhHHHHHHhcCCCCCCC
Q 035709 12 EQRRDAQTYKKFNKLPADEE 31 (75)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~ 31 (75)
-||+..=.||+|..+|.+|.
T Consensus 121 ~~r~~~w~Yk~lG~~p~~e~ 140 (147)
T PF04634_consen 121 YQREIIWEYKYLGILPEDEY 140 (147)
T ss_dssp HHHHHHHHHHHH----SSHH
T ss_pred hhHHHHhhHHHhCCCCCchh
Confidence 37899999999999999864
No 45
>PLN02379 pfkB-type carbohydrate kinase family protein
Probab=21.68 E-value=54 Score=25.06 Aligned_cols=18 Identities=22% Similarity=0.392 Sum_probs=15.5
Q ss_pred CCccEEEec-chhhhhccC
Q 035709 37 KKALVVCFG-ELLIDFLPT 54 (75)
Q Consensus 37 ~~~dVlcIG-EaLIDFIP~ 54 (75)
+-++|++|| -+|+|.+..
T Consensus 18 ~~~~v~g~g~nalvD~~~~ 36 (367)
T PLN02379 18 RPPLVLGLQPVALVDHVAR 36 (367)
T ss_pred CCCcEEEEccccEEEEEEe
Confidence 347899999 999999975
No 46
>PF05207 zf-CSL: CSL zinc finger; InterPro: IPR007872 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 a probable zinc binding motif that contains four cysteines and may chelate zinc, known as the DPH-type after the diphthamide (DPH) biosynthesis protein in which it was first characterised, including the proteins DPH3 and DPH4. This domain is also found associated with N-terminal domain of heat shock protein DnaJ IPR001623 from INTERPRO domain. Diphthamide is a unique post-translationally modified histidine residue found only in translation elongation factor 2 (eEF-2). It is conserved from archaea to humans and serves as the target for diphteria toxin and Pseudomonas exotoxin A. These two toxins catalyse the transfer of ADP-ribose to diphtamide on eEF-2, thus inactivating eEF-2, halting cellular protein synthesis, and causing cell death []. The biosynthesis of diphtamide is dependent on at least five proteins, DPH1 to -5, and a still unidentified amidating enzyme. DPH3 and DPH4 share a conserved region, which encode a putative zinc finger, the DPH-type or CSL-type (after the conserved motif of the final cysteine) zinc finger [, ]. The function of this motif is unknown. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2L6L_A 1WGE_A 2JR7_A 1YOP_A 1YWS_A.
Probab=20.41 E-value=32 Score=20.32 Aligned_cols=8 Identities=50% Similarity=1.290 Sum_probs=6.2
Q ss_pred cccccCcc
Q 035709 2 ECRCQGHT 9 (75)
Q Consensus 2 ~~~~~~~~ 9 (75)
.|||+|.-
T Consensus 20 ~CRCG~~f 27 (55)
T PF05207_consen 20 PCRCGGEF 27 (55)
T ss_dssp EETTSSEE
T ss_pred cCCCCCEE
Confidence 59999873
No 47
>PF14966 DNA_repr_REX1B: DNA repair REX1-B
Probab=20.21 E-value=77 Score=20.70 Aligned_cols=16 Identities=44% Similarity=0.650 Sum_probs=13.0
Q ss_pred hHHHhhhHHHHHHhcC
Q 035709 10 HAEQRRDAQTYKKFNK 25 (75)
Q Consensus 10 ~~~~~~~~~~~~~~~~ 25 (75)
++-|.+.+++|.+|+.
T Consensus 9 ~~~Qe~Ra~~Y~~~~~ 24 (97)
T PF14966_consen 9 FALQERRAQLYNRFEE 24 (97)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4668888999999874
Done!