Query 037826
Match_columns 105
No_of_seqs 20 out of 22
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 04:44:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037826.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037826hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10759 lipoprotein; Provisio 99.6 1.2E-15 2.5E-20 109.7 9.3 79 1-83 26-104 (106)
2 PF10043 DUF2279: Predicted pe 99.6 1.8E-15 3.8E-20 104.3 8.5 70 1-83 15-84 (85)
3 PF04892 VanZ: VanZ like famil 98.7 3.5E-07 7.6E-12 62.4 10.6 76 2-86 53-128 (133)
4 COG5652 Predicted integral mem 98.2 4.1E-06 8.8E-11 63.3 5.5 75 1-80 58-132 (148)
5 COG5544 Predicted periplasmic 96.8 0.0021 4.5E-08 46.5 4.5 74 1-78 21-94 (101)
6 COG3647 Predicted membrane pro 90.6 2.9 6.3E-05 33.4 8.8 81 2-86 104-200 (205)
7 PRK09867 hypothetical protein; 72.8 48 0.001 26.6 10.6 81 2-84 101-196 (209)
8 PF09997 DUF2238: Predicted me 66.7 32 0.00069 25.8 6.6 54 2-56 61-115 (143)
9 PF04147 Nop14: Nop14-like fam 65.7 22 0.00048 32.7 6.6 64 5-89 541-604 (840)
10 PF11712 Vma12: Endoplasmic re 53.9 44 0.00095 24.0 5.2 42 6-47 84-126 (142)
11 COG4767 VanZ Glycopeptide anti 51.0 1.2E+02 0.0025 23.8 7.5 73 6-87 95-167 (199)
12 PF13265 DUF4056: Protein of u 48.2 30 0.00065 28.9 4.0 37 45-82 151-195 (270)
13 PF11444 DUF2895: Protein of u 44.4 41 0.00088 26.7 4.1 65 41-105 61-127 (199)
14 COG5544 Predicted periplasmic 40.0 28 0.00061 25.4 2.4 44 33-78 29-72 (101)
15 PF12273 RCR: Chitin synthesis 38.9 21 0.00046 25.1 1.6 13 73-85 6-18 (130)
16 PF12173 BacteriocIIc_cy: Bact 38.9 28 0.00062 24.9 2.3 36 40-79 43-78 (91)
17 PRK12895 ubiA prenyltransferas 34.2 1.3E+02 0.0028 24.4 5.6 22 3-24 11-32 (286)
18 PRK12876 ubiA prenyltransferas 33.5 1.3E+02 0.0028 24.8 5.6 20 3-22 12-31 (300)
19 PF10990 DUF2809: Protein of u 32.7 1.6E+02 0.0036 20.1 6.5 38 38-75 40-91 (91)
20 PF05231 MASE1: MASE1; InterP 28.5 2.6E+02 0.0056 21.1 9.9 30 63-92 146-175 (299)
21 PF12751 Vac7: Vacuolar segreg 27.2 51 0.0011 28.7 2.3 34 4-52 299-332 (387)
22 PF07274 DUF1440: Protein of u 26.6 2.1E+02 0.0045 21.4 5.2 51 4-63 57-107 (135)
23 TIGR03082 Gneg_AbrB_dup membra 26.0 1.7E+02 0.0036 21.2 4.5 28 17-51 94-121 (156)
24 PF11998 DUF3493: Protein of u 25.8 2.2E+02 0.0048 19.4 5.7 57 23-81 12-70 (75)
25 PRK12888 ubiA prenyltransferas 24.6 3.2E+02 0.007 21.7 6.3 20 3-22 10-29 (284)
26 PF13940 Ldr_toxin: Toxin Ldr, 24.6 1.5E+02 0.0033 18.0 3.4 24 63-86 10-33 (35)
27 PF05180 zf-DNL: DNL zinc fing 23.9 28 0.0006 23.3 0.1 20 50-69 41-60 (66)
28 PF02659 DUF204: Domain of unk 23.4 1.8E+02 0.0039 17.9 3.8 6 17-22 40-45 (67)
29 PF12637 TSCPD: TSCPD domain; 22.7 1.4E+02 0.0031 20.2 3.4 26 47-72 57-91 (95)
30 PRK15120 lipopolysaccharide AB 22.3 4.1E+02 0.0089 21.2 7.8 68 7-82 273-347 (366)
31 PRK09776 putative diguanylate 21.3 5.5E+02 0.012 22.9 7.5 21 65-85 139-159 (1092)
32 COG4413 Utp Urea transporter [ 21.2 2.8E+02 0.0061 23.8 5.6 50 25-85 40-89 (319)
33 PF10785 NADH-u_ox-rdase: NADH 20.2 2.9E+02 0.0063 18.7 4.8 19 31-49 55-73 (86)
No 1
>PRK10759 lipoprotein; Provisional
Probab=99.64 E-value=1.2e-15 Score=109.73 Aligned_cols=79 Identities=28% Similarity=0.256 Sum_probs=69.9
Q ss_pred ChhhHHHHHHHHHHHHHHHHhhhcccchhhhhhHHHHHHHHHHHHHHHHHHHhhCCCCCCCCChHHHHHHHHHHHHHHHH
Q 037826 1 KDKLYHVLFCLTLTFFFSAWASVSRYSFIRTHSIRVGSILSLLAGAAKEAADQLGLFPSAGASFKDAIADVIGVLIASSA 80 (105)
Q Consensus 1 ~DKl~H~l~c~~it~l~~~La~~t~~p~lrr~~~~~G~~~~L~~GaaKE~aD~~g~~rs~G~S~kD~~AD~~Gvl~aa~~ 80 (105)
.||.|||++|++++..++..+.+..++. .++..+|..+|+.+|++||+-| .-.+++|+|+||.++|++|+..+..+
T Consensus 26 ~DKaqHF~~Sa~laaag~~~~~~~~~s~--~~sa~~G~~~s~~~G~~KE~yD--sr~~GsgwSwkDla~DvaGaa~Gy~l 101 (106)
T PRK10759 26 QDKAQHFIASAALSAAGNEYAQHQGMSD--DRSAAFGLMFSVSLGAGKELYD--SRPAGSGWSWKDLAWDVAGASTGYTL 101 (106)
T ss_pred ccHHHHHHHHHHHHHHHHHHHhhccCCc--cchhhHhHHHHHHhhHHHHHHh--cCCCCCCCCHHHHHHHHHHHHHHHHH
Confidence 5999999999999999998888876664 5666899999999999999999 46788999999999999999999877
Q ss_pred HHH
Q 037826 81 LSL 83 (105)
Q Consensus 81 l~l 83 (105)
.+.
T Consensus 102 ~q~ 104 (106)
T PRK10759 102 WQL 104 (106)
T ss_pred HHh
Confidence 653
No 2
>PF10043 DUF2279: Predicted periplasmic lipoprotein (DUF2279); InterPro: IPR018736 This domain has no known function.
Probab=99.63 E-value=1.8e-15 Score=104.33 Aligned_cols=70 Identities=34% Similarity=0.257 Sum_probs=63.1
Q ss_pred ChhhHHHHHHHHHHHHHHHHhhhcccchhhhhhHHHHHHHHHHHHHHHHHHHhhCCCCCCCCChHHHHHHHHHHHHHHHH
Q 037826 1 KDKLYHVLFCLTLTFFFSAWASVSRYSFIRTHSIRVGSILSLLAGAAKEAADQLGLFPSAGASFKDAIADVIGVLIASSA 80 (105)
Q Consensus 1 ~DKl~H~l~c~~it~l~~~La~~t~~p~lrr~~~~~G~~~~L~~GaaKE~aD~~g~~rs~G~S~kD~~AD~~Gvl~aa~~ 80 (105)
.||.+|+++++.|+..+.. .++.++|+.+++.+|++||+.| ...+++|+|+||.+||.+|+.++..+
T Consensus 15 ~DK~~Hf~~Sa~laa~~~~-----------~~~~~~g~~~s~a~G~~KE~~D--~~~~gsGfS~~DlaaD~aGa~~g~~~ 81 (85)
T PF10043_consen 15 ADKAQHFIASAALAAAGNA-----------DRSAWYGLGLSLAIGAAKELYD--SRSGGSGFSWKDLAADRAGAAFGYLA 81 (85)
T ss_pred ccHHHHHHHHHHHHHhhcc-----------chhHHHHHHHHHHHHHHHHHHh--cCCCCCCCCHHHHHHHHHHHHHHHHH
Confidence 3999999999999999883 5566799999999999999999 56689999999999999999999988
Q ss_pred HHH
Q 037826 81 LSL 83 (105)
Q Consensus 81 l~l 83 (105)
+++
T Consensus 82 ~~~ 84 (85)
T PF10043_consen 82 TQS 84 (85)
T ss_pred Hhc
Confidence 764
No 3
>PF04892 VanZ: VanZ like family ; InterPro: IPR006976 This entry represents a conserved sequence region found in the VanZ protein and also several phosphotransbutyrylases. VanZ confers low-level resistance to the glycopeptide antibiotic teicoplanin (Te). Analysis of cytoplasmic peptidoglycan precursors, accumulated in the presence of ramoplanin, showed that VanZ-mediated Te resistance does not involve incorporation of a substituent of D-alanine into the peptidoglycan precursors [].
Probab=98.71 E-value=3.5e-07 Score=62.37 Aligned_cols=76 Identities=22% Similarity=0.252 Sum_probs=61.4
Q ss_pred hhhHHHHHHHHHHHHHHHHhhhcccchhhhhhHHHHHHHHHHHHHHHHHHHhhCCCCCCCCChHHHHHHHHHHHHHHHHH
Q 037826 2 DKLYHVLFCLTLTFFFSAWASVSRYSFIRTHSIRVGSILSLLAGAAKEAADQLGLFPSAGASFKDAIADVIGVLIASSAL 81 (105)
Q Consensus 2 DKl~H~l~c~~it~l~~~La~~t~~p~lrr~~~~~G~~~~L~~GaaKE~aD~~g~~rs~G~S~kD~~AD~~Gvl~aa~~l 81 (105)
||..|++..++++++..+.-.+.. +......++++.+...|..|.+-..|+. |+.|.++|.+|+.+|..+.
T Consensus 53 ~~~~hi~~f~plG~l~~~~~~~~~-------~~~~~~~~~~~~sl~iE~~Q~~~~~r~~--d~~Dv~~n~~G~~lG~~l~ 123 (133)
T PF04892_consen 53 DKIGHILLFFPLGFLLPLLFRRLR-------SWLLAILIGFLFSLFIELIQLFLPGRSF--DIDDVLANTLGALLGYLLY 123 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHccc-------hHHHHHHHHHHHHHHHHHHhccCCCCCC--CHHHHHHHHHHHHHHHHHH
Confidence 899999999999999885444322 4445566788999999999977666665 9999999999999999977
Q ss_pred HHHHH
Q 037826 82 SLWRI 86 (105)
Q Consensus 82 ~l~~~ 86 (105)
.+.++
T Consensus 124 ~~~~~ 128 (133)
T PF04892_consen 124 RLIRK 128 (133)
T ss_pred HHHHH
Confidence 76665
No 4
>COG5652 Predicted integral membrane protein [Function unknown]
Probab=98.16 E-value=4.1e-06 Score=63.26 Aligned_cols=75 Identities=27% Similarity=0.345 Sum_probs=61.9
Q ss_pred ChhhHHHHHHHHHHHHHHHHhhhcccchhhhhhHHHHHHHHHHHHHHHHHHHhhCCCCCCCCChHHHHHHHHHHHHHHHH
Q 037826 1 KDKLYHVLFCLTLTFFFSAWASVSRYSFIRTHSIRVGSILSLLAGAAKEAADQLGLFPSAGASFKDAIADVIGVLIASSA 80 (105)
Q Consensus 1 ~DKl~H~l~c~~it~l~~~La~~t~~p~lrr~~~~~G~~~~L~~GaaKE~aD~~g~~rs~G~S~kD~~AD~~Gvl~aa~~ 80 (105)
.||++|+..-++++.+-..+..-+.++. +.++... .++++.|...|..| .+.|+-..|+.|+++|.+|+.+|...
T Consensus 58 ~~k~aH~~~Yf~lg~l~f~ls~~~r~~~--~~ai~av-~i~~~~~~ldE~~Q--~f~PGR~~sl~Dvi~d~iGA~lg~~~ 132 (148)
T COG5652 58 IDKLAHFLGYFSLGILLFGLSRSTRLTG--VIAIAAV-FIGTLYGILDEVHQ--TFLPGRAASLVDVIADTIGAVLGHIW 132 (148)
T ss_pred HHHHHHHHHHHHHHHHhheeecccccce--eehhhHH-HHHHHHHHHHHHHH--hhcCCcchHHHHHHHHHhhhheeeeE
Confidence 3899999999999988775555555553 5566666 89999999999999 77888888999999999999887643
No 5
>COG5544 Predicted periplasmic lipoprotein [General function prediction only]
Probab=96.83 E-value=0.0021 Score=46.49 Aligned_cols=74 Identities=28% Similarity=0.195 Sum_probs=60.4
Q ss_pred ChhhHHHHHHHHHHHHHHHHhhhcccchhhhhhHHHHHHHHHHHHHHHHHHHhhCCCCCCCCChHHHHHHHHHHHHHH
Q 037826 1 KDKLYHVLFCLTLTFFFSAWASVSRYSFIRTHSIRVGSILSLLAGAAKEAADQLGLFPSAGASFKDAIADVIGVLIAS 78 (105)
Q Consensus 1 ~DKl~H~l~c~~it~l~~~La~~t~~p~lrr~~~~~G~~~~L~~GaaKE~aD~~g~~rs~G~S~kD~~AD~~Gvl~aa 78 (105)
.||.+|+..+..+...+-..+..-. - ..+++..+|...++..|+-||.-| +---.+|-|+||..=|+.|...+-
T Consensus 21 ~dka~hf~~sa~l~aAGma~g~~q~-i-~d~R~an~gl~fs~~lg~~ke~~d--sr~agsgwswkd~~wd~aGaa~Gy 94 (101)
T COG5544 21 QDKAQHFNASAMLSAAGMAYGLHQG-I-SDDRSANFGLMFSDSLGASKEAWD--SRPAGSGWSWKDLAWDVAGAATGY 94 (101)
T ss_pred hhhhhchHHHHHHHhhhhHHHhhcc-c-chhhhhccCchhHHHHhhhHHHhc--cCcccCCcchHHHHhccccchhhh
Confidence 3899999999988887765544332 2 367888899999999999999999 667788899999999999986653
No 6
>COG3647 Predicted membrane protein [Function unknown]
Probab=90.59 E-value=2.9 Score=33.41 Aligned_cols=81 Identities=20% Similarity=0.195 Sum_probs=44.2
Q ss_pred hhhHHHHHHHHHHHHHHHHhhhcccchhhhhhH--HHHHHHHHHHHHHHHHH--------------HhhCCCCCCCCChH
Q 037826 2 DKLYHVLFCLTLTFFFSAWASVSRYSFIRTHSI--RVGSILSLLAGAAKEAA--------------DQLGLFPSAGASFK 65 (105)
Q Consensus 2 DKl~H~l~c~~it~l~~~La~~t~~p~lrr~~~--~~G~~~~L~~GaaKE~a--------------D~~g~~rs~G~S~k 65 (105)
||+.|+.-.+--..+..+|.++ .+|.+.+ .+.+...+..-|.-|++ |-+|+=.+-=-.=|
T Consensus 104 DrvaHf~iGly~~pvAewlLrr----~~~gp~la~ffalf~~msiaA~YElIEWwyA~~aGgeegiaFLGsQGDqWDaQk 179 (205)
T COG3647 104 DRVAHFFIGLYPAPVAEWLLRR----YVRGPKLAAFFALFVAMSIAAMYELIEWWYALAAGGEEGIAFLGSQGDQWDAQK 179 (205)
T ss_pred HHHHHHHHhhhhhHHHHHHHHH----HhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchhHHHhhcccchhhhHH
Confidence 7888876544444455566555 2222211 12222333334444443 33343222112348
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 037826 66 DAIADVIGVLIASSALSLWRI 86 (105)
Q Consensus 66 D~~AD~~Gvl~aa~~l~l~~~ 86 (105)
|-++|.+|++.+-.++++.+-
T Consensus 180 DmlcdtlGAltal~lla~~r~ 200 (205)
T COG3647 180 DMLCDTLGALTALILLARFRC 200 (205)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999888887754
No 7
>PRK09867 hypothetical protein; Provisional
Probab=72.85 E-value=48 Score=26.64 Aligned_cols=81 Identities=17% Similarity=0.159 Sum_probs=45.4
Q ss_pred hhhHHHHHHHHHHHHHHHHhhhcccchhhhh--hHHHHHHHHHHHHHHHHHHHhhC----------CCCCCCC---ChHH
Q 037826 2 DKLYHVLFCLTLTFFFSAWASVSRYSFIRTH--SIRVGSILSLLAGAAKEAADQLG----------LFPSAGA---SFKD 66 (105)
Q Consensus 2 DKl~H~l~c~~it~l~~~La~~t~~p~lrr~--~~~~G~~~~L~~GaaKE~aD~~g----------~~rs~G~---S~kD 66 (105)
||+-|+...+..+....-+.-+.. |. ++. ...+...+.++.-|.-|+.++.- +-.+-|- .=||
T Consensus 101 DRlgHF~~Gf~~a~~~rEil~r~~-~~-~~~~w~~fl~~~~~laiSA~YEliEW~~A~~~g~~a~afLGtQGDiWDaQkD 178 (209)
T PRK09867 101 DKLGHFFQGLVPALVAREILVRGM-YV-RGRKMVAFLVCCVALAISAMYELIEWWAALAMGQGADDFLGTQGDQWDTQSD 178 (209)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHhc-cc-cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHhcCCCCccchhHHH
Confidence 899999988877766654433322 21 111 11133334556666666544321 1122222 2388
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 037826 67 AIADVIGVLIASSALSLW 84 (105)
Q Consensus 67 ~~AD~~Gvl~aa~~l~l~ 84 (105)
-+.|.+|+++|-.+++-+
T Consensus 179 M~~a~lGAi~alll~~~~ 196 (209)
T PRK09867 179 MFCALLGALTTVIFLARF 196 (209)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 999999999887665543
No 8
>PF09997 DUF2238: Predicted membrane protein (DUF2238); InterPro: IPR014509 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are predicted to be integral membrane proteins, with several transmembrane segments.
Probab=66.72 E-value=32 Score=25.85 Aligned_cols=54 Identities=11% Similarity=-0.092 Sum_probs=37.2
Q ss_pred hhhHHHHHHHHHHHHHH-HHhhhcccchhhhhhHHHHHHHHHHHHHHHHHHHhhCC
Q 037826 2 DKLYHVLFCLTLTFFFS-AWASVSRYSFIRTHSIRVGSILSLLAGAAKEAADQLGL 56 (105)
Q Consensus 2 DKl~H~l~c~~it~l~~-~La~~t~~p~lrr~~~~~G~~~~L~~GaaKE~aD~~g~ 56 (105)
||+-|++..+.++.... .+.+...-.- ++-...+...+.++.++.-|+.++...
T Consensus 61 DRl~Hf~~G~~~a~~~rE~l~r~~~~~~-~~~~~~l~v~~~laiSa~YEliEw~~a 115 (143)
T PF09997_consen 61 DRLVHFAQGFLPALPARELLIRKWPLRG-GGWLFFLAVCVILAISAFYELIEWWAA 115 (143)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHcccccc-hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999888777754 4444433332 244455666678889999999886544
No 9
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=65.69 E-value=22 Score=32.75 Aligned_cols=64 Identities=14% Similarity=0.212 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHHHhhhcccchhhhhhHHHHHHHHHHHHHHHHHHHhhCCCCCCCCChHHHHHHHHHHHHHHHHHHHH
Q 037826 5 YHVLFCLTLTFFFSAWASVSRYSFIRTHSIRVGSILSLLAGAAKEAADQLGLFPSAGASFKDAIADVIGVLIASSALSLW 84 (105)
Q Consensus 5 ~H~l~c~~it~l~~~La~~t~~p~lrr~~~~~G~~~~L~~GaaKE~aD~~g~~rs~G~S~kD~~AD~~Gvl~aa~~l~l~ 84 (105)
.+++++-.++.+|. +|+.+||++ .|++.+ +++.|+-||=. |++|.+ .|.++++++|...
T Consensus 541 ~~Lvllklv~~lFP--TSD~~HpVV-TPalll-------------m~~~L~q~~v~--s~~di~---~GlfL~~l~l~y~ 599 (840)
T PF04147_consen 541 SDLVLLKLVGTLFP--TSDFRHPVV-TPALLL-------------MSEYLSQCRVR--SLRDIA---SGLFLCTLLLEYQ 599 (840)
T ss_pred hHHHHHHHHHHhcC--cccccCcch-hHHHHH-------------HHHHHhcCCCC--CHHHHH---HHHHHHHHHHHHH
Confidence 45566666666666 899999985 444333 34777888888 999985 5889999988876
Q ss_pred HHhhc
Q 037826 85 RICSS 89 (105)
Q Consensus 85 ~~~~~ 89 (105)
+..+|
T Consensus 600 ~~SKR 604 (840)
T PF04147_consen 600 SLSKR 604 (840)
T ss_pred HHhcc
Confidence 65443
No 10
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=53.93 E-value=44 Score=23.97 Aligned_cols=42 Identities=24% Similarity=0.272 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHH-HhhhcccchhhhhhHHHHHHHHHHHHHH
Q 037826 6 HVLFCLTLTFFFSA-WASVSRYSFIRTHSIRVGSILSLLAGAA 47 (105)
Q Consensus 6 H~l~c~~it~l~~~-La~~t~~p~lrr~~~~~G~~~~L~~Gaa 47 (105)
|++++...++++.| ++.......=--.++.+|.+.|++.+.|
T Consensus 84 Nilvsv~~~~~~~~~~~~~~~~~~~~~~Rvllgl~~al~vlvA 126 (142)
T PF11712_consen 84 NILVSVFAVFFAGWYWAGYSFGGWSFPYRVLLGLFGALLVLVA 126 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHHHH
Confidence 66676666666555 4442221211234455555445544443
No 11
>COG4767 VanZ Glycopeptide antibiotics resistance protein [Defense mechanisms]
Probab=51.02 E-value=1.2e+02 Score=23.75 Aligned_cols=73 Identities=14% Similarity=0.202 Sum_probs=54.6
Q ss_pred HHHHHHHHHHHHHHHhhhcccchhhhhhHHHHHHHHHHHHHHHHHHHhhCCCCCCCCChHHHHHHHHHHHHHHHHHHHHH
Q 037826 6 HVLFCLTLTFFFSAWASVSRYSFIRTHSIRVGSILSLLAGAAKEAADQLGLFPSAGASFKDAIADVIGVLIASSALSLWR 85 (105)
Q Consensus 6 H~l~c~~it~l~~~La~~t~~p~lrr~~~~~G~~~~L~~GaaKE~aD~~g~~rs~G~S~kD~~AD~~Gvl~aa~~l~l~~ 85 (105)
-++.+.|++.+...+-.+...-. .++..|. ..=...|+.|.+--++.. +..|..=-..|+++|..+-...+
T Consensus 95 N~~~fIPFG~~l~~~~~~~~~~~---~~i~~~~----l~sl~iE~~Q~l~~ig~~--DIdDlilNtlG~~lG~~i~~i~~ 165 (199)
T COG4767 95 NIILFIPFGFLLPTLFKRLSKKK---KTLLLGF----LLSLFIELLQLLLAIGYT--DIDDLILNTLGALLGYLIYRIFR 165 (199)
T ss_pred hHHHHhHHHHHHHHHhhhhhhhH---HHHHHHH----HHHHHHHHHHHHHHHccc--hHHHHHHHHhHHHHHHHHHHHhh
Confidence 45668889988886655544332 1244444 444578999999889998 99999999999999999888776
Q ss_pred Hh
Q 037826 86 IC 87 (105)
Q Consensus 86 ~~ 87 (105)
+-
T Consensus 166 ~~ 167 (199)
T COG4767 166 KG 167 (199)
T ss_pred cc
Confidence 63
No 12
>PF13265 DUF4056: Protein of unknown function (DUF4056)
Probab=48.16 E-value=30 Score=28.90 Aligned_cols=37 Identities=30% Similarity=0.334 Sum_probs=29.7
Q ss_pred HHHHHHHHhhCC--CC------CCCCChHHHHHHHHHHHHHHHHHH
Q 037826 45 GAAKEAADQLGL--FP------SAGASFKDAIADVIGVLIASSALS 82 (105)
Q Consensus 45 GaaKE~aD~~g~--~r------s~G~S~kD~~AD~~Gvl~aa~~l~ 82 (105)
-.--|+||+.|+ +| |+ ||+.|+-...+|+=+|..++.
T Consensus 151 A~WHEIAQWyG~~Sv~GfsE~~SA-FSpEDLYSNlLGArLA~~lil 195 (270)
T PF13265_consen 151 AQWHEIAQWYGYQSVPGFSEGISA-FSPEDLYSNLLGARLALSLIL 195 (270)
T ss_pred HHHHHHHHHcCccccCCCCccccc-CCHHHhhhhHHHHHHHHHHHH
Confidence 345799999998 32 44 899999999999999877654
No 13
>PF11444 DUF2895: Protein of unknown function (DUF2895); InterPro: IPR021548 This is a bacterial family of uncharacterised proteins.
Probab=44.41 E-value=41 Score=26.69 Aligned_cols=65 Identities=22% Similarity=0.246 Sum_probs=49.4
Q ss_pred HHHHHHHHHHHHhhCCCCCCCC-ChHHHHHHHHHHHHHHHHHHHHHHhh-cCCCCCCCCCccccccC
Q 037826 41 SLLAGAAKEAADQLGLFPSAGA-SFKDAIADVIGVLIASSALSLWRICS-SSRHGSDSGRTRRVLPV 105 (105)
Q Consensus 41 ~L~~GaaKE~aD~~g~~rs~G~-S~kD~~AD~~Gvl~aa~~l~l~~~~~-~~~~g~~~~~~~~~~~~ 105 (105)
..+.|.+--+-|||..||+.|. +|+.-+...-.-++-.---.+-+-+. |..+|.-++|+|.|.+|
T Consensus 61 ~~VYaFa~yIfQQlN~W~~dG~~DY~~ni~~l~~YlTP~c~~~L~~d~~~r~~~geL~~R~R~v~ei 127 (199)
T PF11444_consen 61 ETVYAFAFYIFQQLNRWPTDGEEDYPNNIHRLSAYLTPSCQAFLEQDYEQRRNNGELRGRVRGVYEI 127 (199)
T ss_pred HHHHHHHHHHHHHHcccccCChHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHhccchhhceeeeeec
Confidence 4678899999999999999985 56666666666565555555666666 77888888999988753
No 14
>COG5544 Predicted periplasmic lipoprotein [General function prediction only]
Probab=39.95 E-value=28 Score=25.36 Aligned_cols=44 Identities=14% Similarity=0.105 Sum_probs=34.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhCCCCCCCCChHHHHHHHHHHHHHH
Q 037826 33 SIRVGSILSLLAGAAKEAADQLGLFPSAGASFKDAIADVIGVLIAS 78 (105)
Q Consensus 33 ~~~~G~~~~L~~GaaKE~aD~~g~~rs~G~S~kD~~AD~~Gvl~aa 78 (105)
+.++++..|...|.-||+.|.= =.--|++.+|.++|.-+.++..
T Consensus 29 ~sa~l~aAGma~g~~q~i~d~R--~an~gl~fs~~lg~~ke~~dsr 72 (101)
T COG5544 29 ASAMLSAAGMAYGLHQGISDDR--SANFGLMFSDSLGASKEAWDSR 72 (101)
T ss_pred HHHHHHhhhhHHHhhcccchhh--hhccCchhHHHHhhhHHHhccC
Confidence 4667777888999999998832 2345789999999999988754
No 15
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=38.90 E-value=21 Score=25.09 Aligned_cols=13 Identities=23% Similarity=0.391 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHHH
Q 037826 73 GVLIASSALSLWR 85 (105)
Q Consensus 73 Gvl~aa~~l~l~~ 85 (105)
++++.++++.++-
T Consensus 6 ~iii~~i~l~~~~ 18 (130)
T PF12273_consen 6 AIIIVAILLFLFL 18 (130)
T ss_pred HHHHHHHHHHHHH
Confidence 4444444444433
No 16
>PF12173 BacteriocIIc_cy: Bacteriocin class IIc cyclic gassericin A-like; InterPro: IPR020970 This class of bacteriocins was previously described as class V. The members include gassericin A, acidocin B and butyrovibriocin AR10, all of which are hydrophobic cyclical structures []. The N- and C-termini are covalently linked, and the circular molecule is resistant to several proteases and peptidases []. The immunity protein that protects Lactobacillus gasseri from the toxic effects of its bacteriocin, gassericin A, has been identified. It is found to be a small positively-charged hydrophobic peptide of 53 amino acids containing a putative transmembrane segment [] - a structure unlike that of the more common immunity proteins as found in PF08951 from PFAM.
Probab=38.89 E-value=28 Score=24.87 Aligned_cols=36 Identities=31% Similarity=0.420 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHhhCCCCCCCCChHHHHHHHHHHHHHHH
Q 037826 40 LSLLAGAAKEAADQLGLFPSAGASFKDAIADVIGVLIASS 79 (105)
Q Consensus 40 ~~L~~GaaKE~aD~~g~~rs~G~S~kD~~AD~~Gvl~aa~ 79 (105)
+=|++|-...+.| |-|+|.|+-|+-|=++||.+=|-
T Consensus 43 I~LApgwyqdivd----~vsaGgsl~~aFaiI~GVTlPAW 78 (91)
T PF12173_consen 43 IHLAPGWYQDIVD----WVSAGGSLGTAFAIIAGVTLPAW 78 (91)
T ss_pred eeeccHHHHHHHH----HHHcCchHHHHHHHHHhcccHHH
Confidence 4688999999999 56999999999999999866443
No 17
>PRK12895 ubiA prenyltransferase; Reviewed
Probab=34.24 E-value=1.3e+02 Score=24.36 Aligned_cols=22 Identities=27% Similarity=0.191 Sum_probs=19.8
Q ss_pred hhHHHHHHHHHHHHHHHHhhhc
Q 037826 3 KLYHVLFCLTLTFFFSAWASVS 24 (105)
Q Consensus 3 Kl~H~l~c~~it~l~~~La~~t 24 (105)
|+||.++..++++.++.+++..
T Consensus 11 k~~~t~~al~~a~~g~~lA~~~ 32 (286)
T PRK12895 11 KLEHTVFDLPFILAGYVIAAGH 32 (286)
T ss_pred hHHHHHHHHHHHHHHHHHhcCC
Confidence 8999999999999999998653
No 18
>PRK12876 ubiA prenyltransferase; Reviewed
Probab=33.50 E-value=1.3e+02 Score=24.77 Aligned_cols=20 Identities=15% Similarity=0.036 Sum_probs=19.0
Q ss_pred hhHHHHHHHHHHHHHHHHhh
Q 037826 3 KLYHVLFCLTLTFFFSAWAS 22 (105)
Q Consensus 3 Kl~H~l~c~~it~l~~~La~ 22 (105)
|+||-++..|++..++.+|.
T Consensus 12 ~~~ht~Falpfa~~~~~~a~ 31 (300)
T PRK12876 12 NCKYALFSALFLSASTVFAL 31 (300)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 89999999999999999996
No 19
>PF10990 DUF2809: Protein of unknown function (DUF2809); InterPro: IPR021257 Some members in this family of proteins are annotated as yjgA however currently no function for the protein is known.
Probab=32.66 E-value=1.6e+02 Score=20.10 Aligned_cols=38 Identities=29% Similarity=0.277 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHhhC--------------CCCCCCCChHHHHHHHHHHH
Q 037826 38 SILSLLAGAAKEAADQLG--------------LFPSAGASFKDAIADVIGVL 75 (105)
Q Consensus 38 ~~~~L~~GaaKE~aD~~g--------------~~rs~G~S~kD~~AD~~Gvl 75 (105)
.+..++...+.|..|..+ +-=..++|+.|.++=++|++
T Consensus 40 ~~~~l~~~~~IE~~Ql~~~~~~~~~r~~~~g~lvLG~~F~w~Dll~Y~iG~l 91 (91)
T PF10990_consen 40 AIAALLFAFAIEFLQLYHAPWLLGIRSTTLGRLVLGSTFDWWDLLAYAIGIL 91 (91)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHcccccchhHhhcCCCCCHHHHHHHHHhcC
Confidence 345888999999999763 22245799999999888863
No 20
>PF05231 MASE1: MASE1; InterPro: IPR007895 This is a domain of unknown function found in proteins of unknown function.
Probab=28.55 E-value=2.6e+02 Score=21.07 Aligned_cols=30 Identities=20% Similarity=0.131 Sum_probs=23.2
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q 037826 63 SFKDAIADVIGVLIASSALSLWRICSSSRH 92 (105)
Q Consensus 63 S~kD~~AD~~Gvl~aa~~l~l~~~~~~~~~ 92 (105)
...-|++|++|+++.+=.+..+.+..+.++
T Consensus 146 ~~~w~lgd~~Gil~~tP~~l~~~~~~~~~~ 175 (299)
T PF05231_consen 146 WLTWWLGDALGILLLTPLLLLLFRPWFRRS 175 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 467789999999999988887766555343
No 21
>PF12751 Vac7: Vacuolar segregation subunit 7; InterPro: IPR024260 Vac7 is localised at the vacuole membrane, a location which is consistent with its involvement in vacuole morphology and inheritance []. Vac7 has been shown to function as an upstream regulator of the Fab1 lipid kinase pathway []. The Fab1 lipid pathway is important for correct regulation of membrane trafficking events.
Probab=27.25 E-value=51 Score=28.73 Aligned_cols=34 Identities=15% Similarity=0.371 Sum_probs=26.7
Q ss_pred hHHHHHHHHHHHHHHHHhhhcccchhhhhhHHHHHHHHHHHHHHHHHHH
Q 037826 4 LYHVLFCLTLTFFFSAWASVSRYSFIRTHSIRVGSILSLLAGAAKEAAD 52 (105)
Q Consensus 4 l~H~l~c~~it~l~~~La~~t~~p~lrr~~~~~G~~~~L~~GaaKE~aD 52 (105)
+..+..|..++++.. +.+|+++|.+.+.-||+-|
T Consensus 299 ~~r~~~c~~~~i~~l---------------L~ig~~~gFv~AttKpL~~ 332 (387)
T PF12751_consen 299 FSRFASCIYLSILLL---------------LVIGFAIGFVFATTKPLTD 332 (387)
T ss_pred HhhhhHHHHHHHHHH---------------HHHHHHHHhhhhcCccccc
Confidence 456778888887753 4599999999999999876
No 22
>PF07274 DUF1440: Protein of unknown function (DUF1440); InterPro: IPR009898 This family contains a number of bacterial proteins of unknown function approximately 180 residues long. These are possibly integral membrane proteins.
Probab=26.64 E-value=2.1e+02 Score=21.44 Aligned_cols=51 Identities=16% Similarity=0.074 Sum_probs=36.4
Q ss_pred hHHHHHHHHHHHHHHHHhhhcccchhhhhhHHHHHHHHHHHHHHHHHHHhhCCCCCCCCC
Q 037826 4 LYHVLFCLTLTFFFSAWASVSRYSFIRTHSIRVGSILSLLAGAAKEAADQLGLFPSAGAS 63 (105)
Q Consensus 4 l~H~l~c~~it~l~~~La~~t~~p~lrr~~~~~G~~~~L~~GaaKE~aD~~g~~rs~G~S 63 (105)
+-|+.++.++++++..++.+.+.-= ++. |.+.|.+.-++=|..+.|--|..
T Consensus 57 ~vH~~FSi~fa~~Y~~~ae~~p~i~-----l~~----G~~fGi~~~i~~H~~~lP~lG~~ 107 (135)
T PF07274_consen 57 IVHFGFSIVFAVAYCVLAEYWPKIK-----LWQ----GAAFGIVVWIAFHGILLPALGLV 107 (135)
T ss_pred hhhHHHHHHHHHHHHHHHHHCCccc-----hhh----hHHHHHHHHHHHHHHHccccCCC
Confidence 4699999999999888887654332 233 56777777777777777776654
No 23
>TIGR03082 Gneg_AbrB_dup membrane protein AbrB duplication. The model describes a hydrophobic sequence region that is duplicated to form the AbrB protein of Escherichia coli (not to be confused with a Bacillus subtilis protein with the same gene symbol). In some species, notably the Cyanobacteria and Thermus thermophilus, proteins consist of a single copy rather than two copies. The member from Pseudomonas putida, PP_1415, was suggested to be an ammonia monooxygenase characteristic of heterotrophic nitrifiers, based on an experimental indication of such activity in the organism and a glimmer of local sequence similarity between parts of P. putida protein and an instance of the AmoA protein from Nitrosomonas europaea (PubMed:9732537); we do not believe the sequence similarity to be meaningful. The member from E. coli (b0715, ybgN) appears to be the largely uncharacterized AbrB (aidB regulator) protein of E. coli cited in Volkert, et al. (PubMed 8002588), although we did not manage to tra
Probab=25.97 E-value=1.7e+02 Score=21.18 Aligned_cols=28 Identities=21% Similarity=0.148 Sum_probs=21.6
Q ss_pred HHHHhhhcccchhhhhhHHHHHHHHHHHHHHHHHH
Q 037826 17 FSAWASVSRYSFIRTHSIRVGSILSLLAGAAKEAA 51 (105)
Q Consensus 17 ~~~La~~t~~p~lrr~~~~~G~~~~L~~GaaKE~a 51 (105)
++++.+.+.++. .-++++..||.+-|..
T Consensus 94 ~~~l~~~~~~~~-------~ta~La~~PGGl~~m~ 121 (156)
T TIGR03082 94 AWLLARLTGVDP-------LTAFLATSPGGASEMA 121 (156)
T ss_pred HHHHHHHHCCCH-------HHHHHHhCCchHHHHH
Confidence 445556678887 6778899999999876
No 24
>PF11998 DUF3493: Protein of unknown function (DUF3493); InterPro: IPR021883 This family of proteins is functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 79 to 331 amino acids in length.
Probab=25.83 E-value=2.2e+02 Score=19.39 Aligned_cols=57 Identities=11% Similarity=-0.040 Sum_probs=35.9
Q ss_pred hcccchhh--hhhHHHHHHHHHHHHHHHHHHHhhCCCCCCCCChHHHHHHHHHHHHHHHHH
Q 037826 23 VSRYSFIR--THSIRVGSILSLLAGAAKEAADQLGLFPSAGASFKDAIADVIGVLIASSAL 81 (105)
Q Consensus 23 ~t~~p~lr--r~~~~~G~~~~L~~GaaKE~aD~~g~~rs~G~S~kD~~AD~~Gvl~aa~~l 81 (105)
....|| | |.-+.+++..|-..|+..-+.+-+. =|+-.-++.|.+-|+.+|.+-+.+.
T Consensus 12 E~~aPf-R~lR~f~y~a~~aSa~iG~~i~~~rl~a-~~~l~~~l~nlaI~igava~~~~L~ 70 (75)
T PF11998_consen 12 EAQAPF-RGLRRFFYGAFGASAGIGLFIFLFRLIA-GPDLNEALPNLAIQIGAVALFAFLF 70 (75)
T ss_pred HHHCch-HHHHHHHHHHHHHHHHHHHHHHHHHHHc-CccHHHHhhhHhHHHHHHHHHHHHH
Confidence 344454 3 4456677778888888888777555 2333335677777877776655544
No 25
>PRK12888 ubiA prenyltransferase; Reviewed
Probab=24.63 E-value=3.2e+02 Score=21.74 Aligned_cols=20 Identities=20% Similarity=0.366 Sum_probs=17.1
Q ss_pred hhHHHHHHHHHHHHHHHHhh
Q 037826 3 KLYHVLFCLTLTFFFSAWAS 22 (105)
Q Consensus 3 Kl~H~l~c~~it~l~~~La~ 22 (105)
|+||-++..+++++++.++.
T Consensus 10 r~~~~~~a~~~~~~~~~~~~ 29 (284)
T PRK12888 10 AIEHSVFALPFAYIAALTAM 29 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 78999999999888877764
No 26
>PF13940 Ldr_toxin: Toxin Ldr, type I toxin-antitoxin system
Probab=24.58 E-value=1.5e+02 Score=17.98 Aligned_cols=24 Identities=29% Similarity=0.297 Sum_probs=20.9
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHH
Q 037826 63 SFKDAIADVIGVLIASSALSLWRI 86 (105)
Q Consensus 63 S~kD~~AD~~Gvl~aa~~l~l~~~ 86 (105)
-+-|++|-++.-.+++....|+++
T Consensus 10 ~WhDLAAP~iagIi~s~iv~w~~~ 33 (35)
T PF13940_consen 10 FWHDLAAPIIAGIIASLIVGWLRN 33 (35)
T ss_pred HHHHhHhHHHHHHHHHHHHHHHHh
Confidence 478999999988899999999876
No 27
>PF05180 zf-DNL: DNL zinc finger; InterPro: IPR007853 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. The DNL-type zinc finger is found in Tim15, a zinc finger protein essential for protein import into mitochondria. Mitochondrial functions rely on the correct transport of resident proteins synthesized in the cytosol to mitochondria. Protein import into mitochondria is mediated by membrane protein complexes, protein translocators, in the outer and inner mitochondrial membranes, in cooperation with their assistant proteins in the cytosol, intermembrane space and matrix. Proteins destined to the mitochondrial matrix cross the outer membrane with the aid of the outer membrane translocator, the tOM40 complex, and then the inner membrane with the aid of the inner membrane translocator, the TIM23 complex, and mitochondrial motor and chaperone (MMC) proteins including mitochondrial heat- shock protein 70 (mtHsp70), and translocase in the inner mitochondrial membrane (Tim)15. Tim15 is also known as zinc finger motif (Zim)17 or mtHsp70 escort protein (Hep)1. Tim15 contains a zinc-finger motif (CXXC and CXXC) of ~100 residues, which has been named DNL after a short C-terminal motif of D(N/H)L [, , ]. The DNL-type zinc finger is an L-shaped molecule. The two CXXC motifs are located at the end of the L, and are sandwiched by two- stranded antiparallel beta-sheets. Two short alpha-helices constitute another leg of the L. The outer (convex) face of the L has a large acidic groove, which is lined with five acidic residues, whereas the inner (concave) face of the L has two positively charged residues, next to the CXXC motifs []. This entry represents the DNL-type zinc finger.; GO: 0008270 zinc ion binding; PDB: 2E2Z_A.
Probab=23.95 E-value=28 Score=23.26 Aligned_cols=20 Identities=30% Similarity=0.499 Sum_probs=11.6
Q ss_pred HHHhhCCCCCCCCChHHHHH
Q 037826 50 AADQLGLFPSAGASFKDAIA 69 (105)
Q Consensus 50 ~aD~~g~~rs~G~S~kD~~A 69 (105)
++|++|+|.....++.|.++
T Consensus 41 IaDnLg~f~e~~~~iE~~l~ 60 (66)
T PF05180_consen 41 IADNLGWFGENKRNIEDILK 60 (66)
T ss_dssp S--SS-SGGGS---HHHHHH
T ss_pred ehhhhcccccCCCCHHHHHH
Confidence 68999999987788888765
No 28
>PF02659 DUF204: Domain of unknown function DUF; InterPro: IPR003810 Uncharacterised domain in proteins of unknown function.
Probab=23.43 E-value=1.8e+02 Score=17.91 Aligned_cols=6 Identities=0% Similarity=-0.490 Sum_probs=2.2
Q ss_pred HHHHhh
Q 037826 17 FSAWAS 22 (105)
Q Consensus 17 ~~~La~ 22 (105)
+..+.+
T Consensus 40 G~~~G~ 45 (67)
T PF02659_consen 40 GLLLGR 45 (67)
T ss_pred HHHHHH
Confidence 333333
No 29
>PF12637 TSCPD: TSCPD domain; InterPro: IPR024434 The domain is found in isolation in many proteins where it has a conserved C-terminal motif TSCPD, after which the domain is named. Most copies of the domain possess 4 conserved cysteines that may be part of an Iron-sulphur cluster. This domain is found at the C terminus of some ribonucleoside-diphosphate reductase enzymes.
Probab=22.67 E-value=1.4e+02 Score=20.23 Aligned_cols=26 Identities=38% Similarity=0.431 Sum_probs=20.7
Q ss_pred HHHHHHhhCC--CCCCCC-------ChHHHHHHHH
Q 037826 47 AKEAADQLGL--FPSAGA-------SFKDAIADVI 72 (105)
Q Consensus 47 aKE~aD~~g~--~rs~G~-------S~kD~~AD~~ 72 (105)
..|+++++.- |+..|. |.-|++|-++
T Consensus 57 ~~~ii~~L~gi~~~~~~~~~~~~~~S~~D~Ia~~L 91 (95)
T PF12637_consen 57 PEEIIDQLRGIRCGPSGTVGGSRVTSCPDAIAKAL 91 (95)
T ss_pred HHHHHHHhcCCCCCCCCccCCCccCcHHHHHHHHH
Confidence 6788888765 888888 9999988765
No 30
>PRK15120 lipopolysaccharide ABC transporter permease LptF; Provisional
Probab=22.34 E-value=4.1e+02 Score=21.25 Aligned_cols=68 Identities=9% Similarity=-0.044 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHhhhcccchhhhhhHHHHHHHHHHHHHHHHHHH----hh---CCCCCCCCChHHHHHHHHHHHHHHH
Q 037826 7 VLFCLTLTFFFSAWASVSRYSFIRTHSIRVGSILSLLAGAAKEAAD----QL---GLFPSAGASFKDAIADVIGVLIASS 79 (105)
Q Consensus 7 ~l~c~~it~l~~~La~~t~~p~lrr~~~~~G~~~~L~~GaaKE~aD----~~---g~~rs~G~S~kD~~AD~~Gvl~aa~ 79 (105)
-+.|+.+++++.-|+..+++.- + ..+.++|++.+.+--..+ .+ |.+|- -+-=|+-.++-..++..
T Consensus 273 Pl~~l~l~llavpl~~~~~R~g----~-~~~i~~~i~~~~~y~~l~~~~~~l~~~g~lpp---~la~Wlp~i~~~~~~~~ 344 (366)
T PRK15120 273 VFSVFIMALMVVPLSVVNPRQG----R-VLSMLPAMLLYLIFFLLQTSLRSNGGKGKLDP---MIWMWAVNLIYLALAIV 344 (366)
T ss_pred HHHHHHHHHHHhhhcccCCccc----c-chhHHHHHHHHHHHHHHHHHHHHHHHCCCCCh---HHHHHHHHHHHHHHHHH
Confidence 4568888888877766655443 2 224445555555443333 22 22321 23456777776666655
Q ss_pred HHH
Q 037826 80 ALS 82 (105)
Q Consensus 80 ~l~ 82 (105)
+++
T Consensus 345 l~~ 347 (366)
T PRK15120 345 LNL 347 (366)
T ss_pred HHh
Confidence 554
No 31
>PRK09776 putative diguanylate cyclase; Provisional
Probab=21.29 E-value=5.5e+02 Score=22.92 Aligned_cols=21 Identities=19% Similarity=0.251 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 037826 65 KDAIADVIGVLIASSALSLWR 85 (105)
Q Consensus 65 kD~~AD~~Gvl~aa~~l~l~~ 85 (105)
.-|++|++|+++.+-++.+++
T Consensus 139 ~w~~~~~~g~l~~~p~~l~~~ 159 (1092)
T PRK09776 139 IWVLSEAIGMLALVPLGLLFK 159 (1092)
T ss_pred HHHHHHHHHHHHHhhHhhhcc
Confidence 345999999999998777653
No 32
>COG4413 Utp Urea transporter [Amino acid transport and metabolism]
Probab=21.17 E-value=2.8e+02 Score=23.77 Aligned_cols=50 Identities=18% Similarity=0.233 Sum_probs=37.6
Q ss_pred ccchhhhhhHHHHHHHHHHHHHHHHHHHhhCCCCCCCCChHHHHHHHHHHHHHHHHHHHHH
Q 037826 25 RYSFIRTHSIRVGSILSLLAGAAKEAADQLGLFPSAGASFKDAIADVIGVLIASSALSLWR 85 (105)
Q Consensus 25 ~~p~lrr~~~~~G~~~~L~~GaaKE~aD~~g~~rs~G~S~kD~~AD~~Gvl~aa~~l~l~~ 85 (105)
+++.. ..+.+||+++.+.---+.+.|. |++|.+.---|+++++.+-.++.
T Consensus 40 a~t~g--~aa~~Gsvl~~~vAr~i~~s~~---------s~~~GlyGyN~vLvg~al~~fla 89 (319)
T COG4413 40 APTLG--AAAALGSVLGPLVARLIHCSDS---------SIRAGLYGYNGVLVGAALPFFLA 89 (319)
T ss_pred Ccchh--HHHHHHhHHHHHHHHHHHhhHh---------HHHhccccccHHHHHHHHHHHhc
Confidence 45542 7788999999888777777772 78888888888888887766543
No 33
>PF10785 NADH-u_ox-rdase: NADH-ubiquinone oxidoreductase complex I, 21 kDa subunit; InterPro: IPR019721 This domain is found in the N-terminal region of NADH-ubiquinone oxidoreductase 21kDa subunits from plants and fungi [].
Probab=20.15 E-value=2.9e+02 Score=18.71 Aligned_cols=19 Identities=11% Similarity=0.295 Sum_probs=12.5
Q ss_pred hhhHHHHHHHHHHHHHHHH
Q 037826 31 THSIRVGSILSLLAGAAKE 49 (105)
Q Consensus 31 r~~~~~G~~~~L~~GaaKE 49 (105)
.++..++.++|+..|..--
T Consensus 55 ~~~~~~a~~ig~~gGfl~a 73 (86)
T PF10785_consen 55 GPAMRLAGAIGFFGGFLLA 73 (86)
T ss_pred chHHHHHHHHHHHHHHHHH
Confidence 5667777777777776543
Done!