Query 045551
Match_columns 161
No_of_seqs 110 out of 233
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 03:13:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045551.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045551hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2966 Uncharacterized conser 100.0 2.2E-53 4.8E-58 363.3 11.6 156 1-156 164-320 (325)
2 PF04678 DUF607: Protein of un 100.0 4.7E-50 1E-54 321.4 13.9 131 1-131 38-180 (180)
3 COG3462 Predicted membrane pro 92.6 2 4.3E-05 32.8 9.5 97 39-135 2-116 (117)
4 PF10183 ESSS: ESSS subunit of 87.3 2 4.4E-05 31.8 5.7 46 67-113 53-98 (105)
5 COG5415 Predicted integral mem 77.4 39 0.00084 28.8 10.1 35 21-55 14-55 (251)
6 PF12535 Nudix_N: Hydrolase of 70.7 1.4 3E-05 29.6 -0.0 25 116-140 20-44 (58)
7 TIGR01004 PulS_OutS lipoprotei 67.0 6 0.00013 30.8 2.8 52 83-137 43-95 (128)
8 PF09889 DUF2116: Uncharacteri 50.4 51 0.0011 22.2 4.8 34 32-65 25-58 (59)
9 PF13767 DUF4168: Domain of un 50.1 40 0.00087 23.1 4.5 35 101-136 36-70 (78)
10 PF03907 Spo7: Spo7-like prote 44.4 61 0.0013 27.2 5.4 48 44-91 29-82 (207)
11 PRK13848 conjugal transfer pro 43.4 45 0.00098 24.8 4.0 38 16-53 4-42 (98)
12 PF07820 TraC: TraC-like prote 42.9 41 0.00088 24.8 3.7 37 17-53 4-41 (92)
13 PF10864 DUF2663: Protein of u 38.8 1.9E+02 0.0041 22.6 7.9 34 24-58 3-36 (130)
14 PRK14585 pgaD putative PGA bio 38.2 71 0.0015 25.2 4.6 19 41-59 20-38 (137)
15 PF08799 PRP4: pre-mRNA proces 37.3 5.1 0.00011 23.7 -1.5 6 74-79 10-15 (30)
16 PF11261 IRF-2BP1_2: Interfero 33.7 12 0.00025 25.0 -0.3 12 66-77 16-27 (54)
17 PF07443 HARP: HepA-related pr 31.0 40 0.00086 22.5 1.9 21 118-138 28-48 (55)
18 PF04420 CHD5: CHD5-like prote 30.4 1.2E+02 0.0026 23.7 4.9 36 50-85 102-145 (161)
19 PF01405 PsbT: Photosystem II 30.3 1.1E+02 0.0024 18.0 3.4 26 73-99 1-26 (29)
20 PRK13865 type IV secretion sys 29.1 2.6E+02 0.0055 23.4 6.9 30 95-126 87-116 (229)
21 PF13937 DUF4212: Domain of un 28.6 2.2E+02 0.0048 20.2 8.2 26 65-94 39-64 (81)
22 TIGR01191 ccmC heme exporter p 28.4 3.2E+02 0.007 22.1 7.3 60 33-99 44-105 (184)
23 PF11712 Vma12: Endoplasmic re 27.8 2.7E+02 0.0059 21.1 8.4 49 39-88 72-123 (142)
24 TIGR00496 frr ribosome recycli 27.4 1.1E+02 0.0024 24.5 4.3 39 7-45 87-125 (176)
25 COG0233 Frr Ribosome recycling 27.1 1.2E+02 0.0025 25.1 4.3 41 6-46 97-137 (187)
26 TIGR00952 S15_bact ribosomal p 27.0 2.2E+02 0.0047 20.5 5.3 45 91-135 39-83 (86)
27 PF01956 DUF106: Integral memb 26.7 2.5E+02 0.0053 21.7 6.0 69 72-140 11-84 (168)
28 PF09813 Coiled-coil_56: Coile 26.6 2.8E+02 0.006 20.8 6.3 40 21-60 26-66 (100)
29 PRK00083 frr ribosome recyclin 26.0 1.2E+02 0.0027 24.5 4.3 39 7-45 96-134 (185)
30 PLN02601 beta-carotene hydroxy 25.8 2.9E+02 0.0063 24.4 6.7 36 36-71 85-122 (303)
31 COG5393 Predicted membrane pro 25.6 3.2E+02 0.007 21.3 8.5 54 26-81 39-93 (131)
32 PF12650 DUF3784: Domain of un 24.1 2.6E+02 0.0057 19.6 7.1 14 29-42 32-45 (97)
33 PRK04949 putative sulfate tran 24.0 4.4E+02 0.0096 22.2 11.4 34 74-107 165-199 (251)
34 TIGR02230 ATPase_gene1 F0F1-AT 23.3 3.1E+02 0.0068 20.3 7.0 31 23-53 15-45 (100)
35 PLN02601 beta-carotene hydroxy 23.2 1.5E+02 0.0033 26.1 4.6 21 75-95 208-228 (303)
36 PF14235 DUF4337: Domain of un 23.2 2E+02 0.0043 22.7 4.9 22 39-60 104-125 (157)
37 cd00520 RRF Ribosome recycling 22.8 1.5E+02 0.0033 23.7 4.2 39 7-45 92-130 (179)
38 PRK10884 SH3 domain-containing 22.8 2.6E+02 0.0056 23.1 5.7 17 15-31 139-155 (206)
39 PF11991 Trp_DMAT: Tryptophan 22.6 73 0.0016 27.9 2.6 56 66-138 66-133 (361)
40 PF02101 Ocular_alb: Ocular al 22.3 1.3E+02 0.0029 27.6 4.1 49 42-91 68-127 (405)
41 PF07856 Orai-1: Mediator of C 21.8 4.3E+02 0.0093 21.3 6.7 41 49-93 117-157 (175)
42 PF07444 Ycf66_N: Ycf66 protei 21.6 1.4E+02 0.003 21.6 3.3 46 27-85 25-73 (84)
43 PF03705 CheR_N: CheR methyltr 20.6 1.4E+02 0.0029 18.6 2.9 34 96-129 15-49 (57)
44 COG4499 Predicted membrane pro 20.3 30 0.00065 31.8 -0.3 33 37-69 212-244 (434)
45 PF11351 DUF3154: Protein of u 20.2 2.7E+02 0.0059 20.9 5.0 42 44-89 64-110 (123)
46 PRK05626 rpsO 30S ribosomal pr 20.2 3.3E+02 0.0071 19.7 5.1 45 91-135 42-86 (89)
No 1
>KOG2966 consensus Uncharacterized conserved protein [General function prediction only]
Probab=100.00 E-value=2.2e-53 Score=363.26 Aligned_cols=156 Identities=54% Similarity=0.925 Sum_probs=149.7
Q ss_pred Chhhhhhhhccc-CCCCCchHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhhhheeeeecccchhhHHHH
Q 045551 1 VAKSMESIISET-VATPNDPRRKELEKMEMQKAIIDQKAKAQVRGELYFGLGFLMVQTLGFMRLTFWELSWDVMEPICFF 79 (161)
Q Consensus 1 ~~~~~~~~~~~~-~~~~~d~~r~eL~~le~~K~~id~~A~~~~~r~~w~gl~~l~~Q~g~l~rLTf~e~SWDVMEPVTYF 79 (161)
+++.+...+|.. +-..+|++|+||+||+.+|.+||.+|++++++++|+|||+|++|+|+|+||||||||||||||||||
T Consensus 164 l~~~~~~l~~~~~l~~~~e~~keel~~Le~~K~~Id~~a~~~v~~~LWaGLg~l~vQtg~f~RLTfWE~SWDVMEPItff 243 (325)
T KOG2966|consen 164 LTKSIEGLIPEKKLLLPNEPRKEELAPLEAVKAEIDQKAEALVRKELWAGLGYLAVQTGGFARLTFWEYSWDVMEPITFF 243 (325)
T ss_pred HHHHHHhhccccccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhHhhhhhhhhhhhhhccceeee
Confidence 467889999999 6677899999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCCCCCCCCCCcccccccccc
Q 045551 80 VSSLDFALAYGFFLRTSTEPTFEGYFHRRFKSRQNKLMRAHNFDEEKYNHLRKLFYPAPEGCYGHALPSLHHFKASW 156 (161)
Q Consensus 80 vt~~~~i~~Y~yfl~t~rd~sy~~~~~~~~~~r~~kl~~~~~FD~~ry~~L~~e~~~~~~~~~~~~~~~~~~~~~~~ 156 (161)
+|++++|+||+||++|++||||+++++++|..+|+|+.++++||++|||+|++..++.++...+.-+|++-|+|-+.
T Consensus 244 vT~~~~magyayFL~Tsqepsy~~~~~r~f~~kq~Kl~k~~~FDierYneLk~~~~~~~~~~~~~~~~l~~~~~v~~ 320 (325)
T KOG2966|consen 244 VTSTYFMAGYAYFLRTSQEPSYEGFYKRRFLTKQRKLMKKQDFDIERYNELKKLFAPAPCSLKRCRDPLFQHLPVSY 320 (325)
T ss_pred eehHHHHHHHHhheeeccCcccHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHhhCccccccccccHHhcCchhh
Confidence 99999999999999999999999999999999999999999999999999999999999988888889999999764
No 2
>PF04678 DUF607: Protein of unknown function, DUF607; InterPro: IPR006769 This entry represents the C-terminal domain of coiled-coil domain containing protein 109.
Probab=100.00 E-value=4.7e-50 Score=321.43 Aligned_cols=131 Identities=41% Similarity=0.661 Sum_probs=124.7
Q ss_pred ChhhhhhhhcccCCCCC------------chHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhhhheeeee
Q 045551 1 VAKSMESIISETVATPN------------DPRRKELEKMEMQKAIIDQKAKAQVRGELYFGLGFLMVQTLGFMRLTFWEL 68 (161)
Q Consensus 1 ~~~~~~~~~~~~~~~~~------------d~~r~eL~~le~~K~~id~~A~~~~~r~~w~gl~~l~~Q~g~l~rLTf~e~ 68 (161)
|+++|.+.+|....... +++++||+||+++|.+||++|++++++++|+|+++|++|+|+++|||||+|
T Consensus 38 v~~~v~~~~~~~~~~~~~~~~~~~l~~~l~~~~~el~~le~~k~~id~~A~~~~~~~~w~gl~~l~~q~~~l~rLTf~e~ 117 (180)
T PF04678_consen 38 VKEAVHRLLPLLNVEEYQNSRERQLRKRLEELRQELAPLEKIKQEIDEKAEKRARRLLWGGLALLVVQFGILARLTFWEY 117 (180)
T ss_pred HHHHHHHHhccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 46788888888766554 578999999999999999999999999999999999999999999999999
Q ss_pred cccchhhHHHHHHhHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHHHHhcCCCHHHHHHHH
Q 045551 69 SWDVMEPICFFVSSLDFALAYGFFLRTSTEPTFEGYFHRRFKSRQNKLMRAHNFDEEKYNHLR 131 (161)
Q Consensus 69 SWDVMEPVTYFvt~~~~i~~Y~yfl~t~rd~sy~~~~~~~~~~r~~kl~~~~~FD~~ry~~L~ 131 (161)
|||||||||||+|+|++|++|+||++|+||+||++++++.+.++++|+|+++|||++|||+|+
T Consensus 118 sWDvMEPVTYfv~~~~~i~~y~yfl~t~re~sy~~~~~~~~~~~~~kl~~~~~fD~~~y~~L~ 180 (180)
T PF04678_consen 118 SWDVMEPVTYFVGYGTSILGYAYFLYTRREYSYESVFQRRFLRRQHKLYAKHGFDIERYNELK 180 (180)
T ss_pred ccchhhhHHHHHhHHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHHHHHcCCCHHHHHhcC
Confidence 999999999999999999999999999999999999999999999999999999999999985
No 3
>COG3462 Predicted membrane protein [Function unknown]
Probab=92.62 E-value=2 Score=32.80 Aligned_cols=97 Identities=12% Similarity=0.132 Sum_probs=61.2
Q ss_pred HHhhHHHHHHHHHHH--HHHHHH----hhhheeeee----------cccchhhHHHHHHhHHHHHHHHHHHHhCCCCC-h
Q 045551 39 KAQVRGELYFGLGFL--MVQTLG----FMRLTFWEL----------SWDVMEPICFFVSSLDFALAYGFFLRTSTEPT-F 101 (161)
Q Consensus 39 ~~~~~r~~w~gl~~l--~~Q~g~----l~rLTf~e~----------SWDVMEPVTYFvt~~~~i~~Y~yfl~t~rd~s-y 101 (161)
+|++.+++|...++. ++-.++ +.-.+||-. +|=+.=||-.++.....++...|.+-.-++.+ +
T Consensus 2 dk~ven~~w~ligliavi~~v~li~~~~~gg~~y~~gy~gm~GG~yGm~lImpI~~~vvli~lvvfm~~~~g~~r~~~~~ 81 (117)
T COG3462 2 DKKVENFAWLLIGLIAVIAVVGLIPSGFHGGAFYPGGYRGMMGGLYGMWLIMPIFWAVVLIFLVVFMFYILGAVRRGSDD 81 (117)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHhhcccccCcccCCCccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhcccchh
Confidence 356778888855444 222222 223455544 44466688888888777776666665433333 4
Q ss_pred HHHHH-HHHHHHHHHHHHhcCCCHHHHHHHHHHhC
Q 045551 102 EGYFH-RRFKSRQNKLMRAHNFDEEKYNHLRKLFY 135 (161)
Q Consensus 102 ~~~~~-~~~~~r~~kl~~~~~FD~~ry~~L~~e~~ 135 (161)
+++-+ .+...-.+..|++-..|-|.|+...++++
T Consensus 82 d~~e~~sRA~eIlkER~AkGEItEEEY~r~~~~ir 116 (117)
T COG3462 82 DDAERGSRAEEILKERYAKGEITEEEYRRIIRTIR 116 (117)
T ss_pred cccccccHHHHHHHHHHhcCCCCHHHHHHHHHHhc
Confidence 44333 34445556778999999999999998876
No 4
>PF10183 ESSS: ESSS subunit of NADH:ubiquinone oxidoreductase (complex I) ; InterPro: IPR019329 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This entry represents the ESSS subunit from mitochondrial NADH:ubiquinone oxidoreductase (complex I). It carries mitochondrial import sequences [].
Probab=87.29 E-value=2 Score=31.75 Aligned_cols=46 Identities=20% Similarity=0.253 Sum_probs=31.9
Q ss_pred eecccchhhHHHHHHhHHHHHHHHHHHHhCCCCChHHHHHHHHHHHH
Q 045551 67 ELSWDVMEPICFFVSSLDFALAYGFFLRTSTEPTFEGYFHRRFKSRQ 113 (161)
Q Consensus 67 e~SWDVMEPVTYFvt~~~~i~~Y~yfl~t~rd~sy~~~~~~~~~~r~ 113 (161)
..+|.-||++.||. ++.+++..+.++..+-|.+..++-++....+.
T Consensus 53 ~~d~e~we~~~f~~-~~~~~v~~~~~~~y~PD~~i~~WA~rEA~~rl 98 (105)
T PF10183_consen 53 KRDWEGWELPFFFG-FSGSLVFGGVFLAYKPDTSIQTWARREAYRRL 98 (105)
T ss_pred cchHhhhHHHHHHH-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence 67899999998864 44444444444555789999888777665554
No 5
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=77.38 E-value=39 Score=28.81 Aligned_cols=35 Identities=17% Similarity=0.219 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHH-------HhhHHHHHHHHHHHHH
Q 045551 21 RKELEKMEMQKAIIDQKAK-------AQVRGELYFGLGFLMV 55 (161)
Q Consensus 21 r~eL~~le~~K~~id~~A~-------~~~~r~~w~gl~~l~~ 55 (161)
+.+|..||.+-.+.|..+. +--.|+..+++|+.+.
T Consensus 14 ~~~L~rle~qi~q~~~~~~~~qs~l~~~~~r~tv~slAl~~l 55 (251)
T COG5415 14 TADLSRLESQIHQLDVALKKSQSILSQWQSRLTVYSLALTVL 55 (251)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 3444444444444443332 2234666666665554
No 6
>PF12535 Nudix_N: Hydrolase of X-linked nucleoside diphosphate N terminal ; PDB: 3Q1P_B 3Q4I_B.
Probab=70.68 E-value=1.4 Score=29.63 Aligned_cols=25 Identities=20% Similarity=0.355 Sum_probs=17.1
Q ss_pred HHHhcCCCHHHHHHHHHHhCCCCCC
Q 045551 116 LMRAHNFDEEKYNHLRKLFYPAPEG 140 (161)
Q Consensus 116 l~~~~~FD~~ry~~L~~e~~~~~~~ 140 (161)
-|.+..||.|||++|++-..++...
T Consensus 20 ~Yskd~yD~ERy~~lr~ia~ella~ 44 (58)
T PF12535_consen 20 AYSKDPYDRERYEELREIAAELLAE 44 (58)
T ss_dssp HH---HHHHHHHHHHHHHHHHHHCC
T ss_pred hhCCChhhHHHHHHHHHHHHHHHHH
Confidence 4788899999999998876665443
No 7
>TIGR01004 PulS_OutS lipoprotein, PulS/OutS family. This family comprises lipoproteins from four gamma proteobacterial species: PulS protein of Klebsiella pneumoniae, the OutS protein of Erwinia chrysanthemi and Pectobacterium chrysanthemi, and the functionally uncharacterized E. coli protein EtpO. PulS and OutS have been shown to interact with and facilitate insertion of secretins into the outer membrane, suggesting a chaperone-like, or piloting function for members of this family.
Probab=67.03 E-value=6 Score=30.81 Aligned_cols=52 Identities=8% Similarity=0.037 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHhCCCCChHHHHHHH-HHHHHHHHHHhcCCCHHHHHHHHHHhCCC
Q 045551 83 LDFALAYGFFLRTSTEPTFEGYFHRR-FKSRQNKLMRAHNFDEEKYNHLRKLFYPA 137 (161)
Q Consensus 83 ~~~i~~Y~yfl~t~rd~sy~~~~~~~-~~~r~~kl~~~~~FD~~ry~~L~~e~~~~ 137 (161)
+...+++.|. +.+..|.++-+.. +.+..-+.++++|+|...|+.|.+.-.+.
T Consensus 43 A~L~A~~~YL---K~~C~rsdiPd~~~I~raai~~A~~~gWd~~~y~~l~~~se~~ 95 (128)
T TIGR01004 43 ASIVAASRYL---KMQCNRSDLPDDGSILKTANNVAIGKGWDSGRQEDLPQHSDDL 95 (128)
T ss_pred HHHHHHHHHH---HhcCCcccCCcHHHHHHHHHHHHHHcCCchhhHHHHHHHHHHH
Confidence 3344555544 4566677776666 55556788999999999998776655443
No 8
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=50.44 E-value=51 Score=22.24 Aligned_cols=34 Identities=18% Similarity=0.273 Sum_probs=17.3
Q ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHhhhhee
Q 045551 32 AIIDQKAKAQVRGELYFGLGFLMVQTLGFMRLTF 65 (161)
Q Consensus 32 ~~id~~A~~~~~r~~w~gl~~l~~Q~g~l~rLTf 65 (161)
++...+.+++.++..|.-++++.+=++++..+||
T Consensus 25 ~~~~~k~qk~~~~~~~i~~~~~i~~l~v~~~~~~ 58 (59)
T PF09889_consen 25 REEYRKRQKRMRKTQYIFFGIFILFLAVWIFMTF 58 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3344444555445555555555554555555554
No 9
>PF13767 DUF4168: Domain of unknown function (DUF4168)
Probab=50.14 E-value=40 Score=23.13 Aligned_cols=35 Identities=6% Similarity=0.192 Sum_probs=25.4
Q ss_pred hHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhCC
Q 045551 101 FEGYFHRRFKSRQNKLMRAHNFDEEKYNHLRKLFYP 136 (161)
Q Consensus 101 y~~~~~~~~~~r~~kl~~~~~FD~~ry~~L~~e~~~ 136 (161)
...+ ...+.....+....+|+++++||++-.....
T Consensus 36 ~~~l-~~~a~~~~~~~I~~~GLtv~~fN~I~~~~q~ 70 (78)
T PF13767_consen 36 IQEL-QEEAQEEMVEAIEENGLTVERFNEITQAAQS 70 (78)
T ss_pred HHHH-HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHc
Confidence 4444 3334455556779999999999999888765
No 10
>PF03907 Spo7: Spo7-like protein; InterPro: IPR005605 Saccharomyces cerevisiae (Baker's yeast) Spo7 P18410 from SWISSPROT is an integral nuclear/ER membrane protein of unknown function, required for normal nuclear envelope morphology and sporulation [].
Probab=44.45 E-value=61 Score=27.19 Aligned_cols=48 Identities=17% Similarity=0.239 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHhhhheee---eec---ccchhhHHHHHHhHHHHHHHHH
Q 045551 44 GELYFGLGFLMVQTLGFMRLTFW---ELS---WDVMEPICFFVSSLDFALAYGF 91 (161)
Q Consensus 44 r~~w~gl~~l~~Q~g~l~rLTf~---e~S---WDVMEPVTYFvt~~~~i~~Y~y 91 (161)
|.--..|..|++..+.++|..|+ +++ .++.|=+|.+.+..|.++.++=
T Consensus 29 rkyt~FL~~L~~~i~~~~y~lf~~~~~~~~g~~~~~~~~~ll~~vvTlvLf~~S 82 (207)
T PF03907_consen 29 RKYTFFLSLLCLWIAFFFYALFFRPREDGTGLVRYFLKFCLLFGVVTLVLFWAS 82 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCChhhhhHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 33445677778888899999999 554 7777778888888887776553
No 11
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=43.41 E-value=45 Score=24.80 Aligned_cols=38 Identities=29% Similarity=0.344 Sum_probs=27.7
Q ss_pred CCchHHHHHHHHHHHHHHHHH-HHHHhhHHHHHHHHHHH
Q 045551 16 PNDPRRKELEKMEMQKAIIDQ-KAKAQVRGELYFGLGFL 53 (161)
Q Consensus 16 ~~d~~r~eL~~le~~K~~id~-~A~~~~~r~~w~gl~~l 53 (161)
+.-.++.|++.|+++..+++. .|++..+--+-+||+=|
T Consensus 4 ~~s~I~~eI~kLqe~lk~~e~keAERigRiAlKAGLgei 42 (98)
T PRK13848 4 PSSKIREEIAKLQEQLKQAETREAERIGRIALKAGLGEI 42 (98)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccc
Confidence 345689999999988877776 56666676777777643
No 12
>PF07820 TraC: TraC-like protein; InterPro: IPR012930 The members of this family are sequences that are similar to TraC (Q84HT8 from SWISSPROT) from Rhizobium etli. The gene encoding this protein is one of a group of genes found on plasmid p42a of Rhizobium etli (strain CFN 42/ATCC 51251) that are thought to be involved in the process of plasmid self-transmission. Mobilisation of plasmid p42a is of importance as it is required for transfer of plasmid p42d, the symbiotic plasmid which carries most of the genes required for nodulation and nitrogen fixation by this symbiotic bacterium. The predicted protein products of p42a are similar to known transfer proteins of Agrobacterium tumefaciens plasmid pTiC58 []. ; GO: 0000746 conjugation
Probab=42.88 E-value=41 Score=24.83 Aligned_cols=37 Identities=30% Similarity=0.318 Sum_probs=27.0
Q ss_pred CchHHHHHHHHHHHHHHHHH-HHHHhhHHHHHHHHHHH
Q 045551 17 NDPRRKELEKMEMQKAIIDQ-KAKAQVRGELYFGLGFL 53 (161)
Q Consensus 17 ~d~~r~eL~~le~~K~~id~-~A~~~~~r~~w~gl~~l 53 (161)
...++.|++.|++++.+.+. .|++-.+--+-+||+=|
T Consensus 4 ~s~I~~eIekLqe~lk~~e~keaERigr~AlKaGL~ei 41 (92)
T PF07820_consen 4 SSKIREEIEKLQEQLKQAETKEAERIGRIALKAGLGEI 41 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccc
Confidence 45688999999988777765 56666677777777643
No 13
>PF10864 DUF2663: Protein of unknown function (DUF2663); InterPro: IPR020210 This entry represents a group of uncharacterised transmembrane proteins.
Probab=38.84 E-value=1.9e+02 Score=22.57 Aligned_cols=34 Identities=18% Similarity=-0.003 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Q 045551 24 LEKMEMQKAIIDQKAKAQVRGELYFGLGFLMVQTL 58 (161)
Q Consensus 24 L~~le~~K~~id~~A~~~~~r~~w~gl~~l~~Q~g 58 (161)
|+.+-+-|++-|+... +..+..|++|+.+++-+.
T Consensus 3 L~~lI~rK~K~e~l~k-~~~~~~~~~l~~~~~~~~ 36 (130)
T PF10864_consen 3 LQALIKRKEKWERLKK-QHLFWQWLFLFSLFLFFI 36 (130)
T ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 5666677777776554 556777887777666443
No 14
>PRK14585 pgaD putative PGA biosynthesis protein; Provisional
Probab=38.20 E-value=71 Score=25.17 Aligned_cols=19 Identities=5% Similarity=-0.055 Sum_probs=13.8
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 045551 41 QVRGELYFGLGFLMVQTLG 59 (161)
Q Consensus 41 ~~~r~~w~gl~~l~~Q~g~ 59 (161)
-..-++|.||.++.+-...
T Consensus 20 ~~T~laW~gf~~~~~~~l~ 38 (137)
T PRK14585 20 VATTILWTLFALFIFLFAM 38 (137)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3457899999988775443
No 15
>PF08799 PRP4: pre-mRNA processing factor 4 (PRP4) like; InterPro: IPR014906 This small protein is found on PRP4 ribonuleoproteins. PRP4 is a U4/U6 small nuclear ribonucleoprotein that is involved in pre-mRNA processing. ; PDB: 1MZW_B 2DK4_A.
Probab=37.34 E-value=5.1 Score=23.68 Aligned_cols=6 Identities=67% Similarity=1.315 Sum_probs=2.8
Q ss_pred hhHHHH
Q 045551 74 EPICFF 79 (161)
Q Consensus 74 EPVTYF 79 (161)
||||+|
T Consensus 10 ePi~lF 15 (30)
T PF08799_consen 10 EPITLF 15 (30)
T ss_dssp --SCET
T ss_pred CChhhh
Confidence 677765
No 16
>PF11261 IRF-2BP1_2: Interferon regulatory factor 2-binding protein zinc finger; InterPro: IPR022750 IRF-2BP1 and IRF-2BP2 are nuclear transcriptional repressor proteins and can inhibit both enhancer-activated and basal transcription. They both contain N-terminal zinc finger and C-terminal RING finger domains []. This entry represents the N-terminal zinc finger domain of IRF-2BP1 and IRF-2BP2.
Probab=33.68 E-value=12 Score=25.01 Aligned_cols=12 Identities=50% Similarity=1.625 Sum_probs=9.6
Q ss_pred eeecccchhhHH
Q 045551 66 WELSWDVMEPIC 77 (161)
Q Consensus 66 ~e~SWDVMEPVT 77 (161)
|-.-||..|||+
T Consensus 16 Wami~df~EpVC 27 (54)
T PF11261_consen 16 WAMIWDFSEPVC 27 (54)
T ss_pred hHHHhhccchhh
Confidence 455689999997
No 17
>PF07443 HARP: HepA-related protein (HARP); InterPro: IPR010003 This entry represents a conserved region approximately 60 residues long within eukaryotic HepA-related protein (HARP). This exhibits single-stranded DNA-dependent ATPase activity, and is ubiquitously expressed in human and mouse tissues []. Family members may contain more than one copy of this region.; GO: 0004386 helicase activity, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0016568 chromatin modification, 0005634 nucleus
Probab=30.98 E-value=40 Score=22.53 Aligned_cols=21 Identities=38% Similarity=0.504 Sum_probs=18.1
Q ss_pred HhcCCCHHHHHHHHHHhCCCC
Q 045551 118 RAHNFDEEKYNHLRKLFYPAP 138 (161)
Q Consensus 118 ~~~~FD~~ry~~L~~e~~~~~ 138 (161)
++=+|+++.|+.|.+.++.++
T Consensus 28 r~W~F~L~Dy~~L~~~~~~l~ 48 (55)
T PF07443_consen 28 RKWNFSLEDYSTLMKKVRNLP 48 (55)
T ss_pred eeeeeeHHHHHHHHHHHhcCC
Confidence 456899999999999998874
No 18
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=30.42 E-value=1.2e+02 Score=23.74 Aligned_cols=36 Identities=25% Similarity=0.340 Sum_probs=0.7
Q ss_pred HHHHHHHHHHhhhheeee-------ecccch-hhHHHHHHhHHH
Q 045551 50 LGFLMVQTLGFMRLTFWE-------LSWDVM-EPICFFVSSLDF 85 (161)
Q Consensus 50 l~~l~~Q~g~l~rLTf~e-------~SWDVM-EPVTYFvt~~~~ 85 (161)
.+..++..+.++.+.||. +.=|.+ -|+..++++-+.
T Consensus 102 ~~~~~~~~~~~~~l~~~~rk~pV~~lp~~~~p~p~~~lLSfP~~ 145 (161)
T PF04420_consen 102 KVLWVLTTLPFFVLRFWYRKTPVFYLPKGWFPWPFEWLLSFPTA 145 (161)
T ss_dssp HH------------------------------------------
T ss_pred HHHHHHHHHHHhhhheeecCceEEEECchhhHHHHHHheecccC
Confidence 333344445555555552 333444 555555554443
No 19
>PF01405 PsbT: Photosystem II reaction centre T protein; InterPro: IPR001743 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbT found in PSII, which is thought to be associated with the D1 (PsbA) - D2 (PsbD) heterodimer. PsbT may be involved in the formation and/or stabilisation of dimeric PSII complexes, because in the absence of this protein dimeric PSII complexes were found to be less abundant. Furthermore, although PsbT does not confer photo-protection, it is required for the efficient recovery of photo-damaged PSII [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3BZ1_T 1S5L_t 2AXT_t 3KZI_T 3PRQ_T 3BZ2_T 3PRR_T 4FBY_g 3A0H_t 3A0B_T ....
Probab=30.30 E-value=1.1e+02 Score=18.02 Aligned_cols=26 Identities=27% Similarity=0.338 Sum_probs=13.1
Q ss_pred hhhHHHHHHhHHHHHHHHHHHHhCCCC
Q 045551 73 MEPICFFVSSLDFALAYGFFLRTSTEP 99 (161)
Q Consensus 73 MEPVTYFvt~~~~i~~Y~yfl~t~rd~ 99 (161)
||.+.|-.-.... +|-.+|.+--||+
T Consensus 1 MEa~vY~~ll~~t-lgilffAI~FReP 26 (29)
T PF01405_consen 1 MEALVYTFLLIGT-LGILFFAIFFREP 26 (29)
T ss_dssp -HHHHHHHHHHHH-HHHHHHHHHSS--
T ss_pred CchhHHHHHHHHH-HHHHHhhhhccCC
Confidence 8888885554443 3444555555554
No 20
>PRK13865 type IV secretion system protein VirB8; Provisional
Probab=29.09 E-value=2.6e+02 Score=23.43 Aligned_cols=30 Identities=10% Similarity=0.002 Sum_probs=16.7
Q ss_pred hCCCCChHHHHHHHHHHHHHHHHHhcCCCHHH
Q 045551 95 TSTEPTFEGYFHRRFKSRQNKLMRAHNFDEEK 126 (161)
Q Consensus 95 t~rd~sy~~~~~~~~~~r~~kl~~~~~FD~~r 126 (161)
+..+.+++...++.+..+.-+ .+-+||...
T Consensus 87 ~~~~~t~~Eal~k~~l~~YV~--aRE~Yd~~~ 116 (229)
T PRK13865 87 SRLPATQEQAVVNASLWEYVR--LRESYDADT 116 (229)
T ss_pred ccCCCCHHHHHHHHHHHHHhh--hhcccCHHH
Confidence 345566766666666554322 356666443
No 21
>PF13937 DUF4212: Domain of unknown function (DUF4212)
Probab=28.56 E-value=2.2e+02 Score=20.25 Aligned_cols=26 Identities=8% Similarity=0.216 Sum_probs=18.9
Q ss_pred eeeecccchhhHHHHHHhHHHHHHHHHHHH
Q 045551 65 FWELSWDVMEPICFFVSSLDFALAYGFFLR 94 (161)
Q Consensus 65 f~e~SWDVMEPVTYFvt~~~~i~~Y~yfl~ 94 (161)
+--.+| |..|+++.-++++.|.--+.
T Consensus 39 ~~~~Gf----Plgfw~aaQGsi~~fviLi~ 64 (81)
T PF13937_consen 39 ITFGGF----PLGFWFAAQGSIIVFVILIF 64 (81)
T ss_pred CeeCCC----ChHHHHHHHhHHHHHHHHHH
Confidence 335566 99999998888877665444
No 22
>TIGR01191 ccmC heme exporter protein CcmC. This model describes the cyt c biogenesis protein encoded by ccmC in bacteria. It must be noted an arabidopsis, a tritcum and a piscum plant proteins were recognizable in the clade. Quite likely they are of organellar origin. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes, ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in the heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.
Probab=28.42 E-value=3.2e+02 Score=22.11 Aligned_cols=60 Identities=25% Similarity=0.231 Sum_probs=29.6
Q ss_pred HHHHHHHHhhH-HHHHHHHHHH-HHHHHHhhhheeeeecccchhhHHHHHHhHHHHHHHHHHHHhCCCC
Q 045551 33 IIDQKAKAQVR-GELYFGLGFL-MVQTLGFMRLTFWELSWDVMEPICFFVSSLDFALAYGFFLRTSTEP 99 (161)
Q Consensus 33 ~id~~A~~~~~-r~~w~gl~~l-~~Q~g~l~rLTf~e~SWDVMEPVTYFvt~~~~i~~Y~yfl~t~rd~ 99 (161)
..|..+++-+. .+....+++. +.=|+=..+.||| +||-=|= +..-.++.|+-|+..++-.
T Consensus 44 ~~D~la~~~a~iGf~f~tl~LitGaiWak~~WG~~W--~WDpr~t-----~~lIlwliY~~yl~lr~~~ 105 (184)
T TIGR01191 44 LSDLAAKAAAPIGAVFTLIALVTGSLWGKPMWGTWW--VWDARLT-----SVLILFLLYLGYLALWEAI 105 (184)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC--CCChHHH-----HHHHHHHHHHHHHHHHHhc
Confidence 45555543331 2333334333 3334555677888 7885542 2333445566666544433
No 23
>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=27.76 E-value=2.7e+02 Score=21.11 Aligned_cols=49 Identities=16% Similarity=0.218 Sum_probs=30.1
Q ss_pred HHhhHHHHHHHHHHHHHHHHHhhhhee-e-eecc-cchhhHHHHHHhHHHHHH
Q 045551 39 KAQVRGELYFGLGFLMVQTLGFMRLTF-W-ELSW-DVMEPICFFVSSLDFALA 88 (161)
Q Consensus 39 ~~~~~r~~w~gl~~l~~Q~g~l~rLTf-~-e~SW-DVMEPVTYFvt~~~~i~~ 88 (161)
.+..++.+..++=+++.=+++++ .+| | .++| ..-.|.--++|.+.+++.
T Consensus 72 ~k~~~~qls~v~Nilvsv~~~~~-~~~~~~~~~~~~~~~~~Rvllgl~~al~v 123 (142)
T PF11712_consen 72 LKSVKRQLSTVFNILVSVFAVFF-AGWYWAGYSFGGWSFPYRVLLGLFGALLV 123 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhhcccchHHHHHHHHHHHHHH
Confidence 44556777777666655343333 334 4 5555 445888888888777754
No 24
>TIGR00496 frr ribosome recycling factor. This model finds only eubacterial proteins. Mitochondrial and/or chloroplast forms might be expected but are not currently known. This protein was previously called ribosome releasing factor. By releasing ribosomes from mRNA at the end of protein biosynthesis, it prevents inappropriate translation from 3-prime regions of the mRNA and frees the ribosome for new rounds of translation. EGAD|53116|YHR038W is part of the frr superfamily.
Probab=27.36 E-value=1.1e+02 Score=24.52 Aligned_cols=39 Identities=31% Similarity=0.298 Sum_probs=28.3
Q ss_pred hhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHhhHHH
Q 045551 7 SIISETVATPNDPRRKELEKMEMQKAIIDQKAKAQVRGE 45 (161)
Q Consensus 7 ~~~~~~~~~~~d~~r~eL~~le~~K~~id~~A~~~~~r~ 45 (161)
..|.+++|+..++.|++|....+...+-.+.+-+..||-
T Consensus 87 ~~Iri~iP~lT~E~RkelvK~~k~~~E~aKv~iRniRr~ 125 (176)
T TIGR00496 87 SVIRVNFPPLTEERRKELVKHAKKIAEQAKVAVRNVRRD 125 (176)
T ss_pred CEEEecCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367788999999999999887766655555555555543
No 25
>COG0233 Frr Ribosome recycling factor [Translation, ribosomal structure and biogenesis]
Probab=27.14 E-value=1.2e+02 Score=25.14 Aligned_cols=41 Identities=24% Similarity=0.282 Sum_probs=32.2
Q ss_pred hhhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHhhHHHH
Q 045551 6 ESIISETVATPNDPRRKELEKMEMQKAIIDQKAKAQVRGEL 46 (161)
Q Consensus 6 ~~~~~~~~~~~~d~~r~eL~~le~~K~~id~~A~~~~~r~~ 46 (161)
+..|.+++|+..++.|+||....+...|=.+.|-+..||-.
T Consensus 97 G~~IRv~~P~lTeErRkelvK~~k~~~EeakvaiRniRrda 137 (187)
T COG0233 97 GNVIRVPLPPLTEERRKELVKVAKKYAEEAKVAVRNIRRDA 137 (187)
T ss_pred CCeEEecCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45688999999999999999888777766666666666653
No 26
>TIGR00952 S15_bact ribosomal protein S15, bacterial/organelle. This model is built to recognize specifically bacterial, chloroplast, and mitochondrial ribosomal protein S15. The homologous proteins of Archaea and Eukarya are designated S13.
Probab=26.97 E-value=2.2e+02 Score=20.48 Aligned_cols=45 Identities=16% Similarity=0.102 Sum_probs=31.3
Q ss_pred HHHHhCCCCChHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhC
Q 045551 91 FFLRTSTEPTFEGYFHRRFKSRQNKLMRAHNFDEEKYNHLRKLFY 135 (161)
Q Consensus 91 yfl~t~rd~sy~~~~~~~~~~r~~kl~~~~~FD~~ry~~L~~e~~ 135 (161)
.+-.+++|++-.--+...+.+|..-|.--..=|.++|..+.+++.
T Consensus 39 Hl~~h~KD~~srrgL~~lv~kRkrlL~YL~~~d~~~Y~~li~~Lg 83 (86)
T TIGR00952 39 HLKANKKDHHSRRGLLKLVGRRRRLLKYLKRTDVERYRSLIKRLG 83 (86)
T ss_pred HHHHCCCchHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHhC
Confidence 455678888766666666766654444445558999999998874
No 27
>PF01956 DUF106: Integral membrane protein DUF106; InterPro: IPR002809 This entry represents a group of eukaryotic and archaeal proteins that have no known function. Members are predicted to be integral membrane proteins.; GO: 0016020 membrane
Probab=26.72 E-value=2.5e+02 Score=21.70 Aligned_cols=69 Identities=13% Similarity=0.047 Sum_probs=40.7
Q ss_pred chhhHHHHHHhHHHHHHHHHHHHhCCCCChH----HHHHHHHHHHHHHHHHhcC-CCHHHHHHHHHHhCCCCCC
Q 045551 72 VMEPICFFVSSLDFALAYGFFLRTSTEPTFE----GYFHRRFKSRQNKLMRAHN-FDEEKYNHLRKLFYPAPEG 140 (161)
Q Consensus 72 VMEPVTYFvt~~~~i~~Y~yfl~t~rd~sy~----~~~~~~~~~r~~kl~~~~~-FD~~ry~~L~~e~~~~~~~ 140 (161)
+.-|++-.+-..+++.++.-=+.++.-...+ ...++.+.++.+++-+..+ -..++.++.+.++.+.+.+
T Consensus 11 ~~~P~~i~v~~~~~~~~~~s~l~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~~~~~~~~~~~~~ 84 (168)
T PF01956_consen 11 VLLPITIVVFLIAILRGLISELLQKFLIDRKMDKYQKRMKEFQKRYRELRKNGDFKKPKKLEKRQMELMEKQQE 84 (168)
T ss_pred hhcCHHHHHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHcCCccCHHHHHHHHHHHHHHHHH
Confidence 5679988888888887776666654322222 2233444444444444333 2577788888877765543
No 28
>PF09813 Coiled-coil_56: Coiled-coil domain-containing protein 56; InterPro: IPR018628 Members of this family of proteins have no known function.
Probab=26.62 E-value=2.8e+02 Score=20.78 Aligned_cols=40 Identities=18% Similarity=0.173 Sum_probs=19.7
Q ss_pred HHHHHHHHHHH-HHHHHHHHHhhHHHHHHHHHHHHHHHHHh
Q 045551 21 RKELEKMEMQK-AIIDQKAKAQVRGELYFGLGFLMVQTLGF 60 (161)
Q Consensus 21 r~eL~~le~~K-~~id~~A~~~~~r~~w~gl~~l~~Q~g~l 60 (161)
+.|+.-|.+++ +..+++..+...+=+-.|+++.++=+|+.
T Consensus 26 ~~q~~fmr~vE~~~~kr~~~~~R~rN~~Tgl~L~~~v~gIY 66 (100)
T PF09813_consen 26 PAQLQFMRQVELQQLKRKLQRRRRRNLLTGLALGAFVVGIY 66 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence 45555555444 33444444444444555666655544554
No 29
>PRK00083 frr ribosome recycling factor; Reviewed
Probab=25.96 E-value=1.2e+02 Score=24.50 Aligned_cols=39 Identities=26% Similarity=0.308 Sum_probs=28.8
Q ss_pred hhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHhhHHH
Q 045551 7 SIISETVATPNDPRRKELEKMEMQKAIIDQKAKAQVRGE 45 (161)
Q Consensus 7 ~~~~~~~~~~~d~~r~eL~~le~~K~~id~~A~~~~~r~ 45 (161)
..|.+++|+..++.|+||........+=.+.+-+..||-
T Consensus 96 ~~Iri~iP~lT~E~R~elvK~~k~~~E~aKv~iRniRr~ 134 (185)
T PRK00083 96 TVIRLPIPPLTEERRKELVKQVKKEAEEAKVAIRNIRRD 134 (185)
T ss_pred CEEEecCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457788899999999999888776666555555555554
No 30
>PLN02601 beta-carotene hydroxylase
Probab=25.77 E-value=2.9e+02 Score=24.44 Aligned_cols=36 Identities=14% Similarity=0.226 Sum_probs=19.3
Q ss_pred HHHHHhhHHHHHHHHHHHHHH--HHHhhhheeeeeccc
Q 045551 36 QKAKAQVRGELYFGLGFLMVQ--TLGFMRLTFWELSWD 71 (161)
Q Consensus 36 ~~A~~~~~r~~w~gl~~l~~Q--~g~l~rLTf~e~SWD 71 (161)
+.|+|+..|..+...+.++.- ..+-.--||+-|+|.
T Consensus 85 ~~~~k~~er~ty~~aa~~ss~gi~s~a~~a~y~rf~~~ 122 (303)
T PLN02601 85 KAEKKKSERFTYLIAAVMSSFGITSMAIMAVYYRFSWQ 122 (303)
T ss_pred HHHHhhhhhhHHHHHHHHHhhcHHHHHHHHHHHHHhhc
Confidence 466667777766655554321 111113467777774
No 31
>COG5393 Predicted membrane protein [Function unknown]
Probab=25.64 E-value=3.2e+02 Score=21.25 Aligned_cols=54 Identities=15% Similarity=0.081 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhhhheee-eecccchhhHHHHHH
Q 045551 26 KMEMQKAIIDQKAKAQVRGELYFGLGFLMVQTLGFMRLTFW-ELSWDVMEPICFFVS 81 (161)
Q Consensus 26 ~le~~K~~id~~A~~~~~r~~w~gl~~l~~Q~g~l~rLTf~-e~SWDVMEPVTYFvt 81 (161)
.+|++|+..-+.+-..--.++.++|++|+. .+.+ -+-|| -|-|+-|=-.|..+=
T Consensus 39 ELeEeKanll~lllm~gLtl~fa~~~lmsL-~vLv-i~~f~~tyRl~a~~a~~~vl~ 93 (131)
T COG5393 39 ELEEEKANLLQLLLMAGLTLLFAAFGLMSL-MVLV-IWAFDPTYRLNAMIATTAVLL 93 (131)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH-HHHcCcHHHHHHHHHHHHHHH
Confidence 455666655554443333344444444433 1222 23455 788887766665443
No 32
>PF12650 DUF3784: Domain of unknown function (DUF3784); InterPro: IPR017259 This group represents an uncharacterised conserved protein.
Probab=24.07 E-value=2.6e+02 Score=19.61 Aligned_cols=14 Identities=21% Similarity=0.218 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHhh
Q 045551 29 MQKAIIDQKAKAQV 42 (161)
Q Consensus 29 ~~K~~id~~A~~~~ 42 (161)
++|++.|++.-.+.
T Consensus 32 eEk~~~D~~~l~r~ 45 (97)
T PF12650_consen 32 EEKEKYDKKKLCRF 45 (97)
T ss_pred HHHHHhhHHHHHHH
Confidence 45666666554443
No 33
>PRK04949 putative sulfate transport protein CysZ; Validated
Probab=24.02 E-value=4.4e+02 Score=22.22 Aligned_cols=34 Identities=15% Similarity=0.198 Sum_probs=21.4
Q ss_pred hhHHHHHHhHHHHH-HHHHHHHhCCCCChHHHHHH
Q 045551 74 EPICFFVSSLDFAL-AYGFFLRTSTEPTFEGYFHR 107 (161)
Q Consensus 74 EPVTYFvt~~~~i~-~Y~yfl~t~rd~sy~~~~~~ 107 (161)
=||.+|+-.+..++ .|.=|-..|+..++++..+.
T Consensus 165 ~pvl~~~~~awll~~ey~d~~~~r~~~~~~~~r~~ 199 (251)
T PRK04949 165 APVLWFLFSAWMMAIQYCDYPFDNHKVSFKDMRAA 199 (251)
T ss_pred HHHHHHHHHHHHHHHHHhHhHHHHCCCCHHHHHHH
Confidence 36666665555443 46666667887888876543
No 34
>TIGR02230 ATPase_gene1 F0F1-ATPase subunit, putative. This model represents a protein found encoded in F1F0-ATPase operons in several genomes, including Methanosarcina barkeri (archaeal) and Chlorobium tepidum (bacterial). It is a small protein (about 100 amino acids) with long hydrophic stretches and is presumed to be a subunit of the enzyme.
Probab=23.34 E-value=3.1e+02 Score=20.27 Aligned_cols=31 Identities=26% Similarity=0.405 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Q 045551 23 ELEKMEMQKAIIDQKAKAQVRGELYFGLGFL 53 (161)
Q Consensus 23 eL~~le~~K~~id~~A~~~~~r~~w~gl~~l 53 (161)
.++.--..|++-..+|++..++-.|.+++++
T Consensus 15 ~~~~~v~~~~~R~~~a~r~~~~~~~~~l~~~ 45 (100)
T TIGR02230 15 PLEKRVGDKELRKLRARKNATRSIWEGLGMF 45 (100)
T ss_pred hHHHHHHHHHHHHHHHHhcCCCcHHHHHHHH
Confidence 4444444555555677776666666665543
No 35
>PLN02601 beta-carotene hydroxylase
Probab=23.23 E-value=1.5e+02 Score=26.12 Aligned_cols=21 Identities=10% Similarity=0.189 Sum_probs=18.8
Q ss_pred hHHHHHHhHHHHHHHHHHHHh
Q 045551 75 PICFFVSSLDFALAYGFFLRT 95 (161)
Q Consensus 75 PVTYFvt~~~~i~~Y~yfl~t 95 (161)
++++.+|.|-.+.|.+||+++
T Consensus 208 ~~~fgiGlGITlYGiaYffVH 228 (303)
T PLN02601 208 GLCFGAGLGITVFGMAYMFVH 228 (303)
T ss_pred HHHHHHHHhHHHHHHHHHHHh
Confidence 578889999999999999885
No 36
>PF14235 DUF4337: Domain of unknown function (DUF4337)
Probab=23.18 E-value=2e+02 Score=22.71 Aligned_cols=22 Identities=14% Similarity=0.135 Sum_probs=10.8
Q ss_pred HHhhHHHHHHHHHHHHHHHHHh
Q 045551 39 KAQVRGELYFGLGFLMVQTLGF 60 (161)
Q Consensus 39 ~~~~~r~~w~gl~~l~~Q~g~l 60 (161)
+....+--..+++..+.|.++.
T Consensus 104 d~~~~~~~~f~~a~~~lQIaI~ 125 (157)
T PF14235_consen 104 DHALHHHHRFDLAVALLQIAIV 125 (157)
T ss_pred HHHhcccchhHHHHHHHHHHHH
Confidence 3333333334566666666543
No 37
>cd00520 RRF Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another round of protein synthesis. RRF is believed to bind the ribosome at the A-site in a manner that mimics tRNA, but the specific mechanisms remain unclear. RRF is essential for bacterial growth. It is not necessary for cell growth in archaea or eukaryotes, but is found in mitochondria or chloroplasts of some eukaryotic species.
Probab=22.84 E-value=1.5e+02 Score=23.70 Aligned_cols=39 Identities=26% Similarity=0.276 Sum_probs=28.1
Q ss_pred hhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHhhHHH
Q 045551 7 SIISETVATPNDPRRKELEKMEMQKAIIDQKAKAQVRGE 45 (161)
Q Consensus 7 ~~~~~~~~~~~d~~r~eL~~le~~K~~id~~A~~~~~r~ 45 (161)
..|.+++|+..++.|++|....+...+=.+.+-+..|+-
T Consensus 92 ~~iri~iP~lT~E~R~~lvK~~k~~~E~~Kv~iRniR~~ 130 (179)
T cd00520 92 AVIRVNLPPLTEERRKELVKDAKKIAEEAKVAIRNIRRD 130 (179)
T ss_pred CEEEecCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367888999999999999887766655555555555443
No 38
>PRK10884 SH3 domain-containing protein; Provisional
Probab=22.81 E-value=2.6e+02 Score=23.09 Aligned_cols=17 Identities=12% Similarity=0.110 Sum_probs=9.0
Q ss_pred CCCchHHHHHHHHHHHH
Q 045551 15 TPNDPRRKELEKMEMQK 31 (161)
Q Consensus 15 ~~~d~~r~eL~~le~~K 31 (161)
..++.+++||+.++..-
T Consensus 139 ~~n~~L~~~l~~~~~~~ 155 (206)
T PRK10884 139 EENQKLKNQLIVAQKKV 155 (206)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34455566666555443
No 39
>PF11991 Trp_DMAT: Tryptophan dimethylallyltransferase; InterPro: IPR017795 Proteins in this entry are mostly fungal enzymes involved in secondary metabolite production. Characterised or partially characterised members include several examples of dimethylallyltryptophan synthase, a brevianamide F prenyltransferase, LtxC from lyngbyatoxin biosynthesis, and a probable dimethylallyl tyrosine synthase [, ]. Tryptophan dimethylallyltransferase (2.5.1.34 from EC) catalyses the first step of ergot alkaloid biosynthesis. Ergot alkaloids, which are produced by endophyte fungi, can enhance plant host fitness, but also cause livestock toxicosis to host plants.; GO: 0050364 tryptophan dimethylallyltransferase activity, 0009820 alkaloid metabolic process; PDB: 4E0T_A 4E0U_B 3O2K_A 3O24_A 3I4X_A 3I4Z_A.
Probab=22.63 E-value=73 Score=27.90 Aligned_cols=56 Identities=25% Similarity=0.463 Sum_probs=31.5
Q ss_pred eeecccc-----------hhhHHHHHHhHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHHHH-hcCCCHHHHHHHHHH
Q 045551 66 WELSWDV-----------MEPICFFVSSLDFALAYGFFLRTSTEPTFEGYFHRRFKSRQNKLMR-AHNFDEEKYNHLRKL 133 (161)
Q Consensus 66 ~e~SWDV-----------MEPVTYFvt~~~~i~~Y~yfl~t~rd~sy~~~~~~~~~~r~~kl~~-~~~FD~~ry~~L~~e 133 (161)
.||||++ +|||..+-| |..|+.......+.+ ++|.+ ..|+|.+.|+.+.+.
T Consensus 66 ~E~S~n~~~~~~p~VR~~~Epi~~~~g-------------t~~Dp~n~~a~~~~l----~~L~~~~~~~dl~w~~~f~~~ 128 (361)
T PF11991_consen 66 FELSWNFQGSGKPTVRFAFEPIGPLAG-------------TSADPFNQQAARELL----DRLASLLPGVDLEWFDHFADA 128 (361)
T ss_dssp EEEEEETTTTEE-EEEEEE--B-TTBT-------------STTBTT--SHHHHHH----HHHHHHSTT---HHHHHHHHH
T ss_pred eEEEEEECCCCccEEEEEEEECCCCCC-------------CCCCchhhHHHHHHH----HHHHhcCCCCCHHHHHHHHHH
Confidence 6999987 899988655 456666555543332 33444 799999999999988
Q ss_pred hCCCC
Q 045551 134 FYPAP 138 (161)
Q Consensus 134 ~~~~~ 138 (161)
+.-..
T Consensus 129 l~~~~ 133 (361)
T PF11991_consen 129 LFLTD 133 (361)
T ss_dssp HS--H
T ss_pred hcCCH
Confidence 77543
No 40
>PF02101 Ocular_alb: Ocular albinism type 1 protein; InterPro: IPR001414 Ocular albinism type 1 (OA1) is an X-linked disorder characterised by severe impairment of visual acuity, retinal hypopigmentation and the presence of macromelanosomes. A novel transcript from the OA1 critical region is expressed in high levels in RNA samples from retina and from melanoma and encodes a potential integral membrane protein []. This protein is of unknown function but is known to bind heterotrimeric G proteins.; GO: 0016020 membrane
Probab=22.27 E-value=1.3e+02 Score=27.64 Aligned_cols=49 Identities=16% Similarity=0.215 Sum_probs=37.1
Q ss_pred hHHHHHHHHHHHHHHHHHhhhheeeeecccchh-----------hHHHHHHhHHHHHHHHH
Q 045551 42 VRGELYFGLGFLMVQTLGFMRLTFWELSWDVME-----------PICFFVSSLDFALAYGF 91 (161)
Q Consensus 42 ~~r~~w~gl~~l~~Q~g~l~rLTf~e~SWDVME-----------PVTYFvt~~~~i~~Y~y 91 (161)
.+-+.|..++=+.+=.|++.|-+-|--.+|.|+ |..+-++. .+++-|.|
T Consensus 68 ~rIl~~la~aDlLaclGVivRS~vWl~~p~~~~s~s~~~~~d~wp~afCv~s-s~WIq~fY 127 (405)
T PF02101_consen 68 RRILFWLAVADLLACLGVIVRSSVWLGFPNFIDSISDVNGTDIWPAAFCVGS-SMWIQLFY 127 (405)
T ss_pred chhHHHHHHHHHHhhhhHHHHhhhhhcCCcccccccCCCCCccccHHHHHHH-HHHHHHHH
Confidence 466778888888888999999999977799987 76766664 44444433
No 41
>PF07856 Orai-1: Mediator of CRAC channel activity; InterPro: IPR012446 This entry includes Drosophila Orai and human Orai1, Orai2 and Orai3. ORAI-1 GFP reporters are co-expressed with STIM-1 (ER CA(2+) sensors) in the gonad and intestine. The protein has four predicted transmembrane domains with a highly conserved region between TM2 ad TM3. This conserved domain is thought to function in channel regulation. ORAI1-related proteins are required for the production of the calcium channel, CRAC, along with STIM1-related proteins [].
Probab=21.77 E-value=4.3e+02 Score=21.30 Aligned_cols=41 Identities=12% Similarity=0.286 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHhhhheeeeecccchhhHHHHHHhHHHHHHHHHHH
Q 045551 49 GLGFLMVQTLGFMRLTFWELSWDVMEPICFFVSSLDFALAYGFFL 93 (161)
Q Consensus 49 gl~~l~~Q~g~l~rLTf~e~SWDVMEPVTYFvt~~~~i~~Y~yfl 93 (161)
|+.++.+..+.+.+..||.. -.|.+=.+..+-.+.+..+|+
T Consensus 117 Gi~lFL~~l~l~~WIKF~~~----~~~~aa~~~t~i~~~~~li~~ 157 (175)
T PF07856_consen 117 GIPLFLAELALLGWIKFWDS----PSPAAAIAITAILVPVLLIFV 157 (175)
T ss_pred HHHHHHHHHHHHHheeehhc----cchHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999866 355655555554444555555
No 42
>PF07444 Ycf66_N: Ycf66 protein N-terminus; InterPro: IPR010004 This entry represents Ycf66, a protein that is restricted to the chloroplasts of simple plants and algae. It is also found in the cyanobacteria. The function is unknown. As the family is exclusively found in phototrophic organisms it may play a role in photosynthesis.
Probab=21.58 E-value=1.4e+02 Score=21.56 Aligned_cols=46 Identities=15% Similarity=0.386 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhhhheeeeecccchhhH---HHHHHhHHH
Q 045551 27 MEMQKAIIDQKAKAQVRGELYFGLGFLMVQTLGFMRLTFWELSWDVMEPI---CFFVSSLDF 85 (161)
Q Consensus 27 le~~K~~id~~A~~~~~r~~w~gl~~l~~Q~g~l~rLTf~e~SWDVMEPV---TYFvt~~~~ 85 (161)
+...+.++.++.+ ++|++++++++ +..|...|.+ +|+ +.++..+++
T Consensus 25 lr~~~Pev~Rd~D-----~~fs~vgLl~g-------~IL~~~gwRl-dp~ll~~Q~l~~~~~ 73 (84)
T PF07444_consen 25 LRFFRPEVSRDYD-----IFFSSVGLLYG-------LILWFQGWRL-DPILLFGQMLLVGLL 73 (84)
T ss_pred HHHHCcchhhhhh-----HHHHHHHHHHH-------HHHHHHhhcc-cHHHHHHHHHHHHHH
Confidence 3444555555444 67888887765 3334457775 898 555544443
No 43
>PF03705 CheR_N: CheR methyltransferase, all-alpha domain; InterPro: IPR022641 CheR proteins are part of the chemotaxis signaling mechanism which methylates the chemotaxis receptor at specific glutamate residues. This entry refers to the N-terminal domain of the CherR-type MCP methyltransferases, which are found in bacteria, archaea and green plants. This entry is found in association with PF01739 from PFAM. Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. Flagellated bacteria swim towards favourable chemicals and away from deleterious ones. Sensing of chemoeffector gradients involves chemotaxis receptors, transmembrane (TM) proteins that detect stimuli through their periplasmic domains and transduce the signals via their cytoplasmic domains []. Signalling outputs from these receptors are influenced both by the binding of the chemoeffector ligand to their periplasmic domains and by methylation of specific glutamate residues on their cytoplasmic domains. Methylation is catalysed by CheR, an S-adenosylmethionine-dependent methyltransferase [], which reversibly methylates specific glutamate residues within a coiled coil region, to form gamma-glutamyl methyl ester residues [, ]. The structure of the Salmonella typhimurium chemotaxis receptor methyltransferase CheR, bound to S-adenosylhomocysteine, has been determined to a resolution of 2.0 A []. The structure reveals CheR to be a two-domain protein, with a smaller N-terminal helical domain linked via a single polypeptide connection to a larger C-terminal alpha/beta domain. The C-terminal domain has the characteristics of a nucleotide-binding fold, with an insertion of a small anti-parallel beta-sheet subdomain. The S-adenosylhomocysteine-binding site is formed mainly by the large domain, with contributions from residues within the N-terminal domain and the linker region [].; PDB: 1AF7_A 1BC5_A.
Probab=20.57 E-value=1.4e+02 Score=18.62 Aligned_cols=34 Identities=21% Similarity=0.255 Sum_probs=17.7
Q ss_pred CCCCChHHHHHHHHHHHHHHHHHhcCC-CHHHHHH
Q 045551 96 STEPTFEGYFHRRFKSRQNKLMRAHNF-DEEKYNH 129 (161)
Q Consensus 96 ~rd~sy~~~~~~~~~~r~~kl~~~~~F-D~~ry~~ 129 (161)
+..+.+.+.-...+.+|..+.++..|+ |.+.|-+
T Consensus 15 ~~Gi~l~~~K~~~l~rRl~~rm~~~~~~~~~~y~~ 49 (57)
T PF03705_consen 15 RTGIDLSEYKRSLLERRLARRMRALGLPSFAEYYE 49 (57)
T ss_dssp HH-----GGGHHHHHHHHHHHHHHHT---HHHHHH
T ss_pred HHCCCCchhhHHHHHHHHHHHHHHcCCCCHHHHHH
Confidence 334555555556677777788888888 4555543
No 44
>COG4499 Predicted membrane protein [Function unknown]
Probab=20.27 E-value=30 Score=31.81 Aligned_cols=33 Identities=24% Similarity=0.474 Sum_probs=22.5
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHhhhheeeeec
Q 045551 37 KAKAQVRGELYFGLGFLMVQTLGFMRLTFWELS 69 (161)
Q Consensus 37 ~A~~~~~r~~w~gl~~l~~Q~g~l~rLTf~e~S 69 (161)
.-.++.+-+-|.|+|+.++-..++.++||..||
T Consensus 212 VpK~k~~ifk~~giGliillvl~li~~~Y~~f~ 244 (434)
T COG4499 212 VPKKKYTIFKYFGIGLIILLVLLLIYFTYYYFS 244 (434)
T ss_pred cccccceehhhHHHhHHHHHHHHHHHHHHHHHH
Confidence 444556677888888887766777766665443
No 45
>PF11351 DUF3154: Protein of unknown function (DUF3154); InterPro: IPR021497 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=20.19 E-value=2.7e+02 Score=20.90 Aligned_cols=42 Identities=19% Similarity=0.168 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHhh-----hheeeeecccchhhHHHHHHhHHHHHHH
Q 045551 44 GELYFGLGFLMVQTLGFM-----RLTFWELSWDVMEPICFFVSSLDFALAY 89 (161)
Q Consensus 44 r~~w~gl~~l~~Q~g~l~-----rLTf~e~SWDVMEPVTYFvt~~~~i~~Y 89 (161)
.++|+++++++.++.+-- +-+.... .|-||..-.+| ..+.||
T Consensus 64 ~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~--~vpe~lw~Llg--~~vlgy 110 (123)
T PF11351_consen 64 ALGWVCLLLFAWAFMLDPLWFWARMQAQAL--QVPEPLWWLLG--AGVLGY 110 (123)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHhccc--cCCHHHHHHHH--HHHhhh
Confidence 467787777777632211 2122222 46777765554 344444
No 46
>PRK05626 rpsO 30S ribosomal protein S15; Reviewed
Probab=20.16 E-value=3.3e+02 Score=19.66 Aligned_cols=45 Identities=13% Similarity=0.078 Sum_probs=31.1
Q ss_pred HHHHhCCCCChHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhC
Q 045551 91 FFLRTSTEPTFEGYFHRRFKSRQNKLMRAHNFDEEKYNHLRKLFY 135 (161)
Q Consensus 91 yfl~t~rd~sy~~~~~~~~~~r~~kl~~~~~FD~~ry~~L~~e~~ 135 (161)
.+-.+++|++-.--+...+.+|..-|---..=|.++|..+.+++.
T Consensus 42 Hlk~~~KD~~srrgL~~lv~kRkrlL~YL~~~d~~~Y~~li~~Lg 86 (89)
T PRK05626 42 HLKEHKKDHHSRRGLLKMVGQRRKLLDYLKKKDVERYRALIERLG 86 (89)
T ss_pred HHHHcccchhhHHHHHHHHHhHHHHHHHHHhcCHHHHHHHHHHhC
Confidence 445667888766666666666655444445558899999998874
Done!