Query 024169
Match_columns 271
No_of_seqs 186 out of 1372
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 02:35:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024169.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024169hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02594 phosphatidate cytidyl 100.0 1.2E-76 2.6E-81 557.4 28.6 265 6-270 73-341 (342)
2 KOG1440 CDP-diacylglycerol syn 100.0 7.1E-74 1.5E-78 544.5 23.9 259 6-267 168-431 (432)
3 PRK11624 cdsA CDP-diglyceride 100.0 5.7E-45 1.2E-49 337.6 20.8 133 55-229 149-282 (285)
4 PLN02953 phosphatidate cytidyl 100.0 5.6E-41 1.2E-45 319.9 20.4 133 55-229 266-398 (403)
5 COG0575 CdsA CDP-diglyceride s 100.0 1.3E-40 2.7E-45 305.0 19.4 132 54-228 130-262 (265)
6 PF01148 CTP_transf_1: Cytidyl 100.0 3.4E-39 7.4E-44 287.2 18.9 139 49-228 121-259 (259)
7 COG4589 Predicted CDP-diglycer 100.0 7E-38 1.5E-42 282.8 13.9 132 53-228 169-301 (303)
8 PRK04032 hypothetical protein; 99.9 3.7E-27 8E-32 201.9 10.9 102 77-226 22-124 (159)
9 PF01864 DUF46: Putative integ 99.7 2.3E-17 4.9E-22 143.8 12.5 128 56-225 7-140 (175)
10 KOG4453 Predicted ER membrane 97.9 9.4E-05 2E-09 67.3 9.5 51 65-117 164-214 (269)
11 COG0170 SEC59 Dolichol kinase 97.4 0.00098 2.1E-08 60.0 8.8 49 65-114 121-169 (216)
12 KOG2468 Dolichol kinase [Lipid 95.0 0.022 4.7E-07 56.7 3.6 45 67-113 419-463 (510)
13 PF01940 DUF92: Integral membr 68.9 94 0.002 28.4 11.9 53 61-113 110-171 (226)
14 PF11283 DUF3084: Protein of u 68.2 5.1 0.00011 31.0 2.7 29 66-94 9-42 (79)
15 COG1836 Predicted membrane pro 58.6 1.1E+02 0.0024 28.6 9.9 46 66-111 129-183 (247)
16 TIGR00297 conserved hypothetic 52.0 1.5E+02 0.0034 27.3 9.8 48 64-111 118-174 (237)
17 PF01741 MscL: Large-conductan 48.3 70 0.0015 26.7 6.4 85 178-266 33-128 (128)
18 PRK10666 ammonium transporter; 47.9 12 0.00027 37.2 2.1 42 165-209 304-347 (428)
19 COG4240 Predicted kinase [Gene 47.4 26 0.00057 33.0 4.0 53 207-263 212-265 (300)
20 COG0575 CdsA CDP-diglyceride s 46.5 56 0.0012 30.1 6.1 51 170-220 135-189 (265)
21 COG0004 AmtB Ammonia permease 45.6 28 0.00061 34.7 4.2 41 165-208 281-323 (409)
22 PF06945 DUF1289: Protein of u 44.7 41 0.00088 23.5 3.8 30 234-265 22-51 (51)
23 TIGR03644 marine_trans_1 proba 41.4 14 0.00031 36.5 1.4 40 165-208 294-335 (404)
24 PF09150 Carot_N: Orange carot 41.0 36 0.00079 29.7 3.7 27 235-262 57-83 (159)
25 PRK02868 hypothetical protein; 39.5 61 0.0013 30.2 5.2 19 240-258 60-78 (245)
26 TIGR01594 holin_lambda phage h 38.6 1.3E+02 0.0029 24.3 6.5 28 169-196 78-107 (107)
27 PF00909 Ammonium_transp: Ammo 37.3 39 0.00085 32.9 3.8 37 165-204 275-311 (399)
28 PF06858 NOG1: Nucleolar GTP-b 37.2 28 0.0006 25.5 2.0 22 247-268 29-50 (58)
29 TIGR02574 stabl_TIGR02574 puta 37.2 33 0.00071 24.9 2.5 20 246-265 2-21 (63)
30 PF09720 Unstab_antitox: Putat 36.5 37 0.00079 23.6 2.6 21 246-266 1-21 (54)
31 cd02572 PseudoU_synth_hDyskeri 34.6 23 0.00051 31.1 1.6 26 185-215 19-44 (182)
32 PRK10236 hypothetical protein; 34.0 49 0.0011 30.6 3.6 27 237-263 119-145 (237)
33 COG4956 Integral membrane prot 33.7 2.8E+02 0.0061 27.1 8.7 29 89-117 36-64 (356)
34 TIGR00836 amt ammonium transpo 31.0 56 0.0012 32.3 3.8 41 164-207 279-321 (403)
35 COG5336 Uncharacterized protei 30.6 1.1E+02 0.0023 25.4 4.6 27 89-115 43-69 (116)
36 PF09010 AsiA: Anti-Sigma Fact 30.4 51 0.0011 26.2 2.7 31 232-263 48-78 (91)
37 PF10003 DUF2244: Integral mem 29.1 40 0.00088 28.1 2.1 17 246-262 123-139 (140)
38 KOG1440 CDP-diacylglycerol syn 28.7 31 0.00067 34.5 1.5 40 63-102 273-312 (432)
39 PF08479 POTRA_2: POTRA domain 28.1 67 0.0015 23.5 2.9 27 245-271 29-55 (76)
40 PF01509 TruB_N: TruB family p 28.0 19 0.00042 30.6 -0.0 20 189-213 1-20 (149)
41 PRK00989 truB tRNA pseudouridi 27.7 36 0.00078 31.3 1.6 26 185-215 26-51 (230)
42 PRK04099 truB tRNA pseudouridi 27.3 35 0.00076 32.2 1.5 25 185-214 19-43 (273)
43 PF14098 SSPI: Small, acid-sol 26.7 89 0.0019 23.4 3.3 27 236-262 38-64 (65)
44 PF03701 UPF0181: Uncharacteri 26.4 86 0.0019 22.4 3.0 21 246-266 7-27 (51)
45 TIGR03092 SASP_sspI small, aci 26.3 97 0.0021 23.2 3.4 29 235-263 36-64 (65)
46 PRK12751 cpxP periplasmic stre 25.3 1.2E+02 0.0025 26.5 4.3 30 236-265 119-148 (162)
47 PRK03573 transcriptional regul 24.9 1.4E+02 0.003 24.2 4.6 30 236-265 107-136 (144)
48 PF10190 Tmemb_170: Putative t 24.7 3.6E+02 0.0078 21.9 6.8 41 76-116 29-70 (105)
49 PRK11404 putative PTS system 24.5 5.4E+02 0.012 26.1 9.4 16 96-111 227-242 (482)
50 COG3140 Uncharacterized protei 24.1 93 0.002 22.7 2.8 21 246-266 7-27 (60)
51 PRK00020 truB tRNA pseudouridi 24.1 45 0.00099 30.9 1.6 26 185-215 27-52 (244)
52 COG4944 Uncharacterized protei 23.6 1.7E+02 0.0036 26.6 5.0 24 90-113 154-177 (213)
53 PRK14122 tRNA pseudouridine sy 22.6 51 0.0011 31.6 1.7 24 185-213 18-41 (312)
54 PF14163 SieB: Superinfection 22.2 1.4E+02 0.003 24.9 4.1 26 237-262 69-94 (151)
55 PF13309 HTH_22: HTH domain 21.8 1.7E+02 0.0037 21.2 4.0 17 245-261 19-35 (64)
56 PF06790 UPF0259: Uncharacteri 21.7 82 0.0018 29.2 2.8 20 240-259 63-82 (248)
57 PF04868 PDE6_gamma: Retinal c 21.6 58 0.0013 25.3 1.5 20 192-211 41-60 (83)
58 COG0130 TruB Pseudouridine syn 21.0 53 0.0012 30.9 1.5 24 185-213 32-55 (271)
59 PF08700 Vps51: Vps51/Vps67; 20.8 2.7E+02 0.0058 20.6 5.1 36 231-266 3-38 (87)
60 TIGR00431 TruB tRNA pseudourid 20.7 59 0.0013 29.4 1.6 26 185-215 19-44 (209)
61 PRK10847 hypothetical protein; 20.7 54 0.0012 29.3 1.4 22 65-86 80-101 (219)
62 cd00506 PseudoU_synth_TruB_lik 20.7 56 0.0012 29.5 1.5 26 185-215 17-42 (210)
63 COG1507 Uncharacterized conser 20.2 63 0.0014 28.1 1.6 32 183-215 92-123 (167)
No 1
>PLN02594 phosphatidate cytidylyltransferase
Probab=100.00 E-value=1.2e-76 Score=557.38 Aligned_cols=265 Identities=84% Similarity=1.445 Sum_probs=252.5
Q ss_pred hHHHHHHHHHhHhhhccccchhhHHHHHHHHHHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHhhhhHHHHhhhccCCcc
Q 024169 6 NAFSYLGFVWFILTLKKKMYKYQFSQYAWTHMILIVVFAQSSFTVASIFEGIFWFLLPASLIVINDIAAYIFGFFFGRTP 85 (271)
Q Consensus 6 ~~~~~~g~~~fv~~L~~~~~~~~~~~~~~t~~~~~~v~~~~~~~i~~~~~G~~~~~~~~~~v~~nD~~AY~~Gk~fGk~k 85 (271)
+.+-.+|+++||++|+|+++|+|+.+++||++++++++.++++.+.|+++|..|+++|+.+||+||++||++||.|||||
T Consensus 73 f~ly~~gfv~FvlsL~k~~~k~qf~~~a~t~~~llyV~~~~~~ii~ni~~G~~w~~l~~~lV~~nDi~AY~~G~~fGk~k 152 (342)
T PLN02594 73 YSLYIAGFVWFILTLKKGMYKYQFGQYAWTHMILIVVFTQSSFTVANIFEGIFWFLLPASLIVINDIAAYLFGFFFGRTP 152 (342)
T ss_pred HHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHhHHHHHHHHHhcCCC
Confidence 45667899999999999999999999999999999999999998889999999999999999999999999999999999
Q ss_pred cccCCCCCChhHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCCCCCccccCCCCCCCCCCCCCCCC----CCccccccc
Q 024169 86 LIKLSPKKTWEGFIGASVATITSAFVLANIMGRFQWLTCPRKDLATGWLHCDPGPLFKPESFPLPGW----LPWKEITIL 161 (271)
Q Consensus 86 L~~iSP~KT~EG~iGG~i~t~l~~~~~~~~~~~~~~~~cp~~~~~~~~~~c~~~~~f~~~~~~l~~~----~~~~~i~~~ 161 (271)
++++||||||||++||.++|++++++++.+++++.|++||.++++..+++||++++|.|++|.+|.| +++.++++.
T Consensus 153 L~~iSPkKTwEGfiGg~i~T~i~~~~~~~~~~~~~~~~cp~~~~~~~~~~C~p~~~f~~~~~~~p~~~~~~~~~~~i~~~ 232 (342)
T PLN02594 153 LIKLSPKKTWEGFIGASVTTLISAFYLANIMGKFQWLTCPRKDLSTGWLECDPDPLFKPETYPLPGWIPRWFPWKEVSVL 232 (342)
T ss_pred CCccCCCCchhhhHHHHHHHHHHHHHHHHHhcccccccCCccccccCcccCCCccccccccccCCccccccccccccccc
Confidence 9999999999999999999999999999999999999999999999999999999999999999865 344567778
Q ss_pred hhHHHHHHHHHHHHHhhhhhhHHHHHHhhcCCCCCCCCCCCCCcchhhhhhhhhHHHHHHHHHHHHhhcCCCCCHHHHHH
Q 024169 162 PVQWHALCLGLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGHGGITDRMDCQMVMAVFAYIYHQSFIVPQSFRVEMILE 241 (271)
Q Consensus 162 ~~~~~~l~l~~~~sl~a~~GDL~~S~iKR~~gIKD~G~~iPGHGGiLDR~Dsllf~~~~~y~~~~~fi~~~~~~~~~~~~ 241 (271)
|.++|++++|+++|++||+||++||++||++||||||+++|||||++||+||+++++|++|+|++.||+.++.|++.+++
T Consensus 233 ~~~~h~l~l~l~aSl~a~fGdlfaS~~KR~~~IKDfG~~IPGHGGilDRfDs~l~~~~f~y~y~~~fi~~~~~~~~~il~ 312 (342)
T PLN02594 233 PVQWHALSLGLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGHGGITDRMDCQMVMAVFAYIYYQSFIVPQSVSVGKLLD 312 (342)
T ss_pred hHHHHHHHHHHHHHHHHHhhhHHHHHHHHccCCCcccCccCCCccccccccHHHHHHHHHHHHHHHHhcCCCCCHHHHHH
Confidence 88999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcCCHHHHHHHHHHHHHHHHhcccCC
Q 024169 242 QILTALTYEEQKALYMKLGEILQERLFGQ 270 (271)
Q Consensus 242 ~~~~~l~~~~~~~l~~~l~~~~~~~~~~~ 270 (271)
++.++|++|||++|++.|+++++++|...
T Consensus 313 ~i~~~l~~~~q~~l~~~l~~~l~~~g~~~ 341 (342)
T PLN02594 313 QILTLLTDEEQKELYVKLGQMLQERGLGL 341 (342)
T ss_pred HHHHcCCHHHHHHHHHHHHHHHHHcCCCC
Confidence 99889999999999999999999998754
No 2
>KOG1440 consensus CDP-diacylglycerol synthase [Lipid transport and metabolism]
Probab=100.00 E-value=7.1e-74 Score=544.51 Aligned_cols=259 Identities=58% Similarity=1.078 Sum_probs=248.6
Q ss_pred hHHHHHHHHHhHhhhccccchhhHHHHHHHHHHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHhhhhHHHHhhhccCCcc
Q 024169 6 NAFSYLGFVWFILTLKKKMYKYQFSQYAWTHMILIVVFAQSSFTVASIFEGIFWFLLPASLIVINDIAAYIFGFFFGRTP 85 (271)
Q Consensus 6 ~~~~~~g~~~fv~~L~~~~~~~~~~~~~~t~~~~~~v~~~~~~~i~~~~~G~~~~~~~~~~v~~nD~~AY~~Gk~fGk~k 85 (271)
+..-++|+++||++|+|++||+||++++|||+++++|+.|+++.++|+++|++|+++|+.++.+||++||.+|..|||+|
T Consensus 168 f~lYi~gf~~FV~sL~k~~yk~QFg~fawtH~sll~Vv~qs~l~i~N~feG~fWFl~P~~lvicnDi~AY~~Gf~fGktP 247 (432)
T KOG1440|consen 168 FALYLIGFVSFVLSLRKGIYKLQFGLFAWTHMSLLLVVTQSHLVIQNLFEGLFWFLVPAGLVICNDIFAYLFGFFFGKTP 247 (432)
T ss_pred HHHHHHHHHHHHHHhhhhhhHHHHHhHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHhHhheeCchHHHHHhhhhcCCc
Confidence 34557899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCChhHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCCCCC-ccccCCCCCCCCCCCCCCCC----CCcccccc
Q 024169 86 LIKLSPKKTWEGFIGASVATITSAFVLANIMGRFQWLTCPRKDLATG-WLHCDPGPLFKPESFPLPGW----LPWKEITI 160 (271)
Q Consensus 86 L~~iSP~KT~EG~iGG~i~t~l~~~~~~~~~~~~~~~~cp~~~~~~~-~~~c~~~~~f~~~~~~l~~~----~~~~~i~~ 160 (271)
++++||||||||+|||.+++++.+.++++++.++.|++||.++.+++ +++||+++.|.++.|.+|.+ .++.++++
T Consensus 248 LiklSPKKTwEGFiGg~~~tvv~~i~~s~vL~~~~~~~cp~~d~~t~~~~~c~p~~~F~~~~y~lp~~i~~~i~~k~is~ 327 (432)
T KOG1440|consen 248 LIKLSPKKTWEGFIGGTFGTVVFGILFSYVLGHYTFFTCPVKDFSTTPLLSCEPKPLFEPQTYGLPGVISITIRLKSISL 327 (432)
T ss_pred ccccCCCCccchhhchhHHHHHHHHHHHHHhccCeEEEecccccCCCCccccCcccccCcceecCCceeeeecccccccc
Confidence 99999999999999999999999999999999999999999999876 89999999999999999976 46678999
Q ss_pred chhHHHHHHHHHHHHHhhhhhhHHHHHHhhcCCCCCCCCCCCCCcchhhhhhhhhHHHHHHHHHHHHhhcCCCCCHHHHH
Q 024169 161 LPVQWHALCLGLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGHGGITDRMDCQMVMAVFAYIYHQSFIVPQSFRVEMIL 240 (271)
Q Consensus 161 ~~~~~~~l~l~~~~sl~a~~GDL~~S~iKR~~gIKD~G~~iPGHGGiLDR~Dsllf~~~~~y~~~~~fi~~~~~~~~~~~ 240 (271)
.|.+||++.+++++|++|||||++||++||++||||||+.||||||++||+||+++|+.|+|.|+++||+.+.+| +++
T Consensus 328 ~p~~~Hsial~~faS~iaPFGGFfASgfKRafKiKDFG~~IPGHGGI~DR~DCQ~lma~Fay~Yi~SFI~~~~~s--~ll 405 (432)
T KOG1440|consen 328 PPFQFHSIALGLFASFIAPFGGFFASGFKRAFKIKDFGDSIPGHGGITDRMDCQILMATFAYVYIQSFIRLPGVS--KLL 405 (432)
T ss_pred chHHHHHHHHHHHHHhhccchhHHHHHhHHhhcCCcccccCCCCCCcchhhHHHHHHHHHHHHHHHHHhccCCHH--HHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999999666666 999
Q ss_pred HHHHhcCCHHHHHHHHHHHHHHHHhcc
Q 024169 241 EQILTALTYEEQKALYMKLGEILQERL 267 (271)
Q Consensus 241 ~~~~~~l~~~~~~~l~~~l~~~~~~~~ 267 (271)
++|++ |++|||++|+|.|++++++++
T Consensus 406 ~qi~~-l~~~qq~~l~~~L~~~l~~~~ 431 (432)
T KOG1440|consen 406 DQILT-LTPEQQLNLFEKLQRRLSSKG 431 (432)
T ss_pred HHHHh-CCHHHHHHHHHHHHHHHHhhc
Confidence 99997 999999999999999999987
No 3
>PRK11624 cdsA CDP-diglyceride synthase; Provisional
Probab=100.00 E-value=5.7e-45 Score=337.58 Aligned_cols=133 Identities=33% Similarity=0.537 Sum_probs=116.7
Q ss_pred hhhHHHHHHHHHHHhhhhHHHHhhhccCCcccc-cCCCCCChhHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCCCCCc
Q 024169 55 EGIFWFLLPASLIVINDIAAYIFGFFFGRTPLI-KLSPKKTWEGFIGASVATITSAFVLANIMGRFQWLTCPRKDLATGW 133 (271)
Q Consensus 55 ~G~~~~~~~~~~v~~nD~~AY~~Gk~fGk~kL~-~iSP~KT~EG~iGG~i~t~l~~~~~~~~~~~~~~~~cp~~~~~~~~ 133 (271)
+|..|+++.+.+||+||++||++||.|||||++ ++||||||||++||++++++.+.+++.+...
T Consensus 149 ~G~~~vl~l~~~vw~sDt~AYf~Gr~fGk~KL~P~ISPkKTwEG~iGg~~~~~~~~~~~~~~~~~--------------- 213 (285)
T PRK11624 149 SGAWWLLYVMILVWGADSGAYMFGKLFGKHKLAPKVSPGKTWEGFIGGLATAAVISWLFGMWAPL--------------- 213 (285)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCcCCCCCchhhhHHHHHHHHHHHHHHHHHHcc---------------
Confidence 488899999999999999999999999999999 8999999999999999999988887643210
Q ss_pred cccCCCCCCCCCCCCCCCCCCccccccchhHHHHHHHHHHHHHhhhhhhHHHHHHhhcCCCCCCCCCCCCCcchhhhhhh
Q 024169 134 LHCDPGPLFKPESFPLPGWLPWKEITILPVQWHALCLGLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGHGGITDRMDC 213 (271)
Q Consensus 134 ~~c~~~~~f~~~~~~l~~~~~~~~i~~~~~~~~~l~l~~~~sl~a~~GDL~~S~iKR~~gIKD~G~~iPGHGGiLDR~Ds 213 (271)
+ . ..++.+++++++++.|++|||+||++||++||||+|+++|||||+|||+||
T Consensus 214 --------------------~-----~--~~~~~~~~~~~~~~~~~~GDL~ES~lKR~~gVKDSG~llPGHGGiLDR~DS 266 (285)
T PRK11624 214 --------------------D-----V--APVTLLICSIVAALASVLGDLTESMFKREAGIKDSGHLIPGHGGILDRIDS 266 (285)
T ss_pred --------------------c-----c--cHHHHHHHHHHHHHHHHHhHHHHHHHhhccCCCCCcCcCCCcCcchhhHhH
Confidence 0 0 014557789999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHhh
Q 024169 214 QMVMAVFAYIYHQSFI 229 (271)
Q Consensus 214 llf~~~~~y~~~~~fi 229 (271)
+++++|+.|+++....
T Consensus 267 Llfa~P~~~~~~~~~~ 282 (285)
T PRK11624 267 LTAAVPVFACLLLLVF 282 (285)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 9999999887664443
No 4
>PLN02953 phosphatidate cytidylyltransferase
Probab=100.00 E-value=5.6e-41 Score=319.86 Aligned_cols=133 Identities=35% Similarity=0.609 Sum_probs=119.4
Q ss_pred hhhHHHHHHHHHHHhhhhHHHHhhhccCCcccccCCCCCChhHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCCCCCcc
Q 024169 55 EGIFWFLLPASLIVINDIAAYIFGFFFGRTPLIKLSPKKTWEGFIGASVATITSAFVLANIMGRFQWLTCPRKDLATGWL 134 (271)
Q Consensus 55 ~G~~~~~~~~~~v~~nD~~AY~~Gk~fGk~kL~~iSP~KT~EG~iGG~i~t~l~~~~~~~~~~~~~~~~cp~~~~~~~~~ 134 (271)
.|..++++.+.++|+||++||++||.|||||+.++||||||||++||++++++++.+.+.++. | |
T Consensus 266 ~Gl~~~l~~~~~vw~~Di~AY~~G~~fGk~kl~~ISPkKTwEG~iGGil~~vlv~~l~~~~l~---~---~--------- 330 (403)
T PLN02953 266 VGLVATLISFSGVIATDTFAFLGGKAFGRTPLTSISPKKTWEGTFVGLVGCIAITILLSKSLS---W---P--------- 330 (403)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcCCCCCeeeeehhHHHHHHHHHHHHHHHHc---c---c---------
Confidence 488999999999999999999999999999999999999999999999999998887765431 1 0
Q ss_pred ccCCCCCCCCCCCCCCCCCCccccccchhHHHHHHHHHHHHHhhhhhhHHHHHHhhcCCCCCCCCCCCCCcchhhhhhhh
Q 024169 135 HCDPGPLFKPESFPLPGWLPWKEITILPVQWHALCLGLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGHGGITDRMDCQ 214 (271)
Q Consensus 135 ~c~~~~~f~~~~~~l~~~~~~~~i~~~~~~~~~l~l~~~~sl~a~~GDL~~S~iKR~~gIKD~G~~iPGHGGiLDR~Dsl 214 (271)
...++.+++++++++.|++||++||++||++||||+|+++|||||++||+||+
T Consensus 331 ---------------------------~~~~~~i~lg~li~~~~~~GDL~eS~iKR~~gVKDsG~liPGHGGiLDR~DSl 383 (403)
T PLN02953 331 ---------------------------QSLFSSIAFGFLNFFGSVFGDLTESMIKRDAGVKDSGSLIPGHGGILDRVDSY 383 (403)
T ss_pred ---------------------------hHHHHHHHHHHHHHHHHHhhHHHHHHHhHccCCCCccccCCCCCcchhhHhHH
Confidence 01256688999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHhh
Q 024169 215 MVMAVFAYIYHQSFI 229 (271)
Q Consensus 215 lf~~~~~y~~~~~fi 229 (271)
++++|++|++.+..+
T Consensus 384 lfaaPv~y~~~~~~~ 398 (403)
T PLN02953 384 IFTGALAYSFIKTSL 398 (403)
T ss_pred HHHHHHHHHHHHHhc
Confidence 999999999887655
No 5
>COG0575 CdsA CDP-diglyceride synthetase [Lipid metabolism]
Probab=100.00 E-value=1.3e-40 Score=304.96 Aligned_cols=132 Identities=38% Similarity=0.688 Sum_probs=115.6
Q ss_pred chhhHHHHHHHHHHHhhhhHHHHhhhccCCcccc-cCCCCCChhHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCCCCC
Q 024169 54 FEGIFWFLLPASLIVINDIAAYIFGFFFGRTPLI-KLSPKKTWEGFIGASVATITSAFVLANIMGRFQWLTCPRKDLATG 132 (271)
Q Consensus 54 ~~G~~~~~~~~~~v~~nD~~AY~~Gk~fGk~kL~-~iSP~KT~EG~iGG~i~t~l~~~~~~~~~~~~~~~~cp~~~~~~~ 132 (271)
++|.+|.++++.+||+||++||++||.|||||+. ++||||||||++||++++++++.......+.
T Consensus 130 ~~g~~~~l~l~~~vw~~Di~Ayf~Gr~fGk~kl~p~iSP~KT~eGfigG~~~~~~v~~~~~~~~~~-------------- 195 (265)
T COG0575 130 YSGLILLLLLFLGVWAGDIGAYFVGRRFGKHKLAPKISPKKTWEGFIGGALGAVLVAVLVIFLLSS-------------- 195 (265)
T ss_pred hhhHHHHHHHHHHHHHHhhhHHHHHHHcCCCCCCCcCCCCCchHHhHHHHHHHHHHHHHHHHHHhh--------------
Confidence 6899999999999999999999999999999998 7999999999999999999888777654321
Q ss_pred ccccCCCCCCCCCCCCCCCCCCccccccchhHHHHHHHHHHHHHhhhhhhHHHHHHhhcCCCCCCCCCCCCCcchhhhhh
Q 024169 133 WLHCDPGPLFKPESFPLPGWLPWKEITILPVQWHALCLGLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGHGGITDRMD 212 (271)
Q Consensus 133 ~~~c~~~~~f~~~~~~l~~~~~~~~i~~~~~~~~~l~l~~~~sl~a~~GDL~~S~iKR~~gIKD~G~~iPGHGGiLDR~D 212 (271)
..+..++.+++++++++.+++||++||.+||++|+||+|+++|||||++||+|
T Consensus 196 ---------------------------~~~~~~~~~~l~~~~~l~~~lGDL~eS~iKR~~gvKDsg~liPGHGGilDR~D 248 (265)
T COG0575 196 ---------------------------LILNIWTLLILGLLLVLTSQLGDLFESYIKRLLGIKDSGWLIPGHGGILDRFD 248 (265)
T ss_pred ---------------------------hhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHccCCCCcCCCCCCcCcccccHh
Confidence 00123667889999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHh
Q 024169 213 CQMVMAVFAYIYHQSF 228 (271)
Q Consensus 213 sllf~~~~~y~~~~~f 228 (271)
|++++ ++|++...+
T Consensus 249 sl~~~--~~~~~~~~~ 262 (265)
T COG0575 249 SLLFV--AVYLFLLLF 262 (265)
T ss_pred hHHHH--HHHHHHHHH
Confidence 99998 556555443
No 6
>PF01148 CTP_transf_1: Cytidylyltransferase family; InterPro: IPR000374 Phosphatidate cytidylyltransferase (2.7.7.41 from EC) [, , ] (also known as CDP- diacylglycerol synthase) (CDS) is the enzyme that catalyzes the synthesis of CDP-diacylglycerol from CTP and phosphatidate (PA): CTP + phosphatidate = diphosphate + CDP-diacylglycerol CDP-diacylglycerol is an important branch point intermediate in both prokaryotic and eukaryotic organisms. CDS is a membrane-bound enzyme.; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0016020 membrane
Probab=100.00 E-value=3.4e-39 Score=287.23 Aligned_cols=139 Identities=38% Similarity=0.599 Sum_probs=121.6
Q ss_pred HHHhhchhhHHHHHHHHHHHhhhhHHHHhhhccCCcccccCCCCCChhHHHHHHHHHHHHHHHHHHHHhhhcccccCCCC
Q 024169 49 TVASIFEGIFWFLLPASLIVINDIAAYIFGFFFGRTPLIKLSPKKTWEGFIGASVATITSAFVLANIMGRFQWLTCPRKD 128 (271)
Q Consensus 49 ~i~~~~~G~~~~~~~~~~v~~nD~~AY~~Gk~fGk~kL~~iSP~KT~EG~iGG~i~t~l~~~~~~~~~~~~~~~~cp~~~ 128 (271)
...+.+.+..+.+.++.+++.+|++||++||.||||+..++||||||||++||++++.+.+++...+....
T Consensus 121 ~~~~~~~~~~~~~~~i~~~~~gD~~A~l~G~~fGk~~~~~~sp~KT~EGsi~~~i~~~i~~~~~~~~~~~~--------- 191 (259)
T PF01148_consen 121 LIFFWFFGPPLALIGILILGIGDSFAYLVGRRFGKHLAPKISPKKTWEGSIAGFISSFIISFLLLYYLSSF--------- 191 (259)
T ss_pred HhhhhccchHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCCCCCCCCHHHHhHHHHHHHHHHHHHHHHhcch---------
Confidence 34456778888999999999999999999999999933489999999999999999999888876554210
Q ss_pred CCCCccccCCCCCCCCCCCCCCCCCCccccccchhHHHHHHHHHHHHHhhhhhhHHHHHHhhcCCCCCCCCCCCCCcchh
Q 024169 129 LATGWLHCDPGPLFKPESFPLPGWLPWKEITILPVQWHALCLGLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGHGGIT 208 (271)
Q Consensus 129 ~~~~~~~c~~~~~f~~~~~~l~~~~~~~~i~~~~~~~~~l~l~~~~sl~a~~GDL~~S~iKR~~gIKD~G~~iPGHGGiL 208 (271)
. ...++.++.++++++++++||++||.+||++||||+|+++|||||++
T Consensus 192 ----------------------------~----~~~~~~~~~~~~~~i~~~~gdl~~S~~KR~~~iKD~g~lipghGg~l 239 (259)
T PF01148_consen 192 ----------------------------F----LSWWQAILISLLASIVEAFGDLFESAIKRDAGIKDSGNLIPGHGGIL 239 (259)
T ss_pred ----------------------------h----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccccccCcCCcc
Confidence 0 12367788999999999999999999999999999999999999999
Q ss_pred hhhhhhhHHHHHHHHHHHHh
Q 024169 209 DRMDCQMVMAVFAYIYHQSF 228 (271)
Q Consensus 209 DR~Dsllf~~~~~y~~~~~f 228 (271)
||+||+++++|+.|++++.|
T Consensus 240 Dr~d~~l~~~~~~~~~~~~f 259 (259)
T PF01148_consen 240 DRFDSLLFAAPVFYILLKIF 259 (259)
T ss_pred cchHhHHHHHHHHHHHHHHC
Confidence 99999999999999998765
No 7
>COG4589 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]
Probab=100.00 E-value=7e-38 Score=282.79 Aligned_cols=132 Identities=31% Similarity=0.543 Sum_probs=117.9
Q ss_pred hchhhHHHHHHHHHHHhhhhHHHHhhhccCCcccc-cCCCCCChhHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCCCC
Q 024169 53 IFEGIFWFLLPASLIVINDIAAYIFGFFFGRTPLI-KLSPKKTWEGFIGASVATITSAFVLANIMGRFQWLTCPRKDLAT 131 (271)
Q Consensus 53 ~~~G~~~~~~~~~~v~~nD~~AY~~Gk~fGk~kL~-~iSP~KT~EG~iGG~i~t~l~~~~~~~~~~~~~~~~cp~~~~~~ 131 (271)
...|...+++.+.++..||+++|++||.|||||+. ++||||||||++||++.+++.+.++++ +++.
T Consensus 169 ~~~~~ll~iflli~~q~nDV~QYvwGk~fGk~Ki~P~vSPnKTveGl~GGilt~~~~~~~l~~-lTp~------------ 235 (303)
T COG4589 169 FQGGALLVIFLLILTELNDVAQYVWGKSFGKRKIVPKVSPNKTVEGLIGGILTTMIASAILGL-LTPL------------ 235 (303)
T ss_pred cCccchHHHHHHHHHHHHHHHHHHHhhhcCCcccCCCcCCcchHHHHhhhHHHHHHHHHHHHH-hCCC------------
Confidence 44566677888889999999999999999999999 899999999999999999999988873 2210
Q ss_pred CccccCCCCCCCCCCCCCCCCCCccccccchhHHHHHHHHHHHHHhhhhhhHHHHHHhhcCCCCCCCCCCCCCcchhhhh
Q 024169 132 GWLHCDPGPLFKPESFPLPGWLPWKEITILPVQWHALCLGLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGHGGITDRM 211 (271)
Q Consensus 132 ~~~~c~~~~~f~~~~~~l~~~~~~~~i~~~~~~~~~l~l~~~~sl~a~~GDL~~S~iKR~~gIKD~G~~iPGHGGiLDR~ 211 (271)
..+|+++.++.+++.+..||++.|++||+.|+||+|+++|||||++||+
T Consensus 236 -------------------------------~~lqa~~~~~~I~l~GF~GdlvmSaiKRd~gvKD~G~li~GHGGiLDR~ 284 (303)
T COG4589 236 -------------------------------NTLQALLAGLLIGLSGFCGDLVMSAIKRDVGVKDSGKLLPGHGGILDRV 284 (303)
T ss_pred -------------------------------cHHHHHHHHHHHHHHHhhhHHHHHHHHhhcCCCcccccCCCCccHHHHH
Confidence 1267889999999999999999999999999999999999999999999
Q ss_pred hhhhHHHHHHHHHHHHh
Q 024169 212 DCQMVMAVFAYIYHQSF 228 (271)
Q Consensus 212 Dsllf~~~~~y~~~~~f 228 (271)
||++|++|+.+.+.+++
T Consensus 285 DSL~FtAPiffh~~ry~ 301 (303)
T COG4589 285 DSLIFTAPIFFHFIRYC 301 (303)
T ss_pred HHHHHhhhHHHHHHHHh
Confidence 99999999988887765
No 8
>PRK04032 hypothetical protein; Provisional
Probab=99.94 E-value=3.7e-27 Score=201.89 Aligned_cols=102 Identities=25% Similarity=0.406 Sum_probs=86.1
Q ss_pred hhhcc-CCcccccCCCCCChhHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCCCCCccccCCCCCCCCCCCCCCCCCCc
Q 024169 77 FGFFF-GRTPLIKLSPKKTWEGFIGASVATITSAFVLANIMGRFQWLTCPRKDLATGWLHCDPGPLFKPESFPLPGWLPW 155 (271)
Q Consensus 77 ~Gk~f-Gk~kL~~iSP~KT~EG~iGG~i~t~l~~~~~~~~~~~~~~~~cp~~~~~~~~~~c~~~~~f~~~~~~l~~~~~~ 155 (271)
+||+| ++||+ +||||||||++||++++++.+.+++++.... +
T Consensus 22 ~g~~~~dg~~i--iSP~KTwEG~iGGv~~~~l~~~~~~~~~~~~----------------------------------~- 64 (159)
T PRK04032 22 FGKTFVDGRRI--LGDGKTWRGLIGGILFGTLVGLIQNLLVPAY----------------------------------I- 64 (159)
T ss_pred CCCcCCCCCee--CCCCCcHHHhHHHHHHHHHHHHHHHHHHccc----------------------------------h-
Confidence 36778 67777 9999999999999999999988876543100 0
Q ss_pred cccccchhHHHHHHHHHHHHHhhhhhhHHHHHHhhcCCCCCCCCCCCCCcchhhhhhhhhHHHHHHHHHHH
Q 024169 156 KEITILPVQWHALCLGLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGHGGITDRMDCQMVMAVFAYIYHQ 226 (271)
Q Consensus 156 ~~i~~~~~~~~~l~l~~~~sl~a~~GDL~~S~iKR~~gIKD~G~~iPGHGGiLDR~Dsllf~~~~~y~~~~ 226 (271)
...++.+++++++++.|++|||+||++||++|+|| |+.+| ++||+||+++++|++|++..
T Consensus 65 ------~~~~~~~~~g~li~v~~~~GDL~eS~iKR~~gVKD-g~~iP----iLDRiDsll~a~p~~~l~~~ 124 (159)
T PRK04032 65 ------GALGVAIILAFLLSFGALLGDMLGSFIKRRLGLER-GAPAP----LLDQLDFVVGALLFAYLVAP 124 (159)
T ss_pred ------hHHHHHHHHHHHHHHHHHHhhHHHHHHhhccCCCC-cCccc----chhhhHHHHHHHHHHHHHHh
Confidence 01245688899999999999999999999999999 99998 99999999999999998884
No 9
>PF01864 DUF46: Putative integral membrane protein DUF46; InterPro: IPR002726 This archaebacterial protein has no known function. It contains several predicted transmembrane regions, suggesting it is an integral membrane protein.
Probab=99.74 E-value=2.3e-17 Score=143.80 Aligned_cols=128 Identities=27% Similarity=0.386 Sum_probs=94.5
Q ss_pred hhHHHHHHHHHHHhhhhHHHHhhhc---cCCcccc-c--CCCCCChhHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCC
Q 024169 56 GIFWFLLPASLIVINDIAAYIFGFF---FGRTPLI-K--LSPKKTWEGFIGASVATITSAFVLANIMGRFQWLTCPRKDL 129 (271)
Q Consensus 56 G~~~~~~~~~~v~~nD~~AY~~Gk~---fGk~kL~-~--iSP~KT~EG~iGG~i~t~l~~~~~~~~~~~~~~~~cp~~~~ 129 (271)
...|+++|+++ +|-+...+.|.. +||+-.. | +.++|||||+++|.+++++++.+...+... +.
T Consensus 7 ~~~~~~lPay~--an~~a~l~gg~~PiD~G~~~~DGrRilGdgKTwrG~i~gvl~g~l~g~i~~~l~~~--------~~- 75 (175)
T PF01864_consen 7 YALWLMLPAYV--ANGSAVLFGGGRPIDFGKTFRDGRRILGDGKTWRGFIGGVLAGTLVGIIQGLLLPL--------SI- 75 (175)
T ss_pred HHHHHHhHHHh--cCchHHHhCCCCcccCCCccCCCCEecCCCCeEEeeeHHHHHHHHHHHHHHHHhhh--------cc-
Confidence 45789999988 888877666532 3333222 1 899999999999999999999887654310 00
Q ss_pred CCCccccCCCCCCCCCCCCCCCCCCccccccchhHHHHHHHHHHHHHhhhhhhHHHHHHhhcCCCCCCCCCCCCCcchhh
Q 024169 130 ATGWLHCDPGPLFKPESFPLPGWLPWKEITILPVQWHALCLGLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGHGGITD 209 (271)
Q Consensus 130 ~~~~~~c~~~~~f~~~~~~l~~~~~~~~i~~~~~~~~~l~l~~~~sl~a~~GDL~~S~iKR~~gIKD~G~~iPGHGGiLD 209 (271)
.. + .......+.+..++..++.|++||+..|++|||+|+|+ |...| ++|
T Consensus 76 ---------~~--------~---------~~~~~~~~~~~~g~ll~~gamlGDl~~SFIKRRlgi~~-G~~ap----~lD 124 (175)
T PF01864_consen 76 ---------FA--------L---------YFYGSLFFNLLLGFLLGLGAMLGDLPGSFIKRRLGIPR-GAPAP----GLD 124 (175)
T ss_pred ---------cc--------c---------ccccchHHHHHHHHHHHHHHHHhHHHHHHHHHhcCCCC-CCcCc----cch
Confidence 00 0 00001234567899999999999999999999999998 77788 999
Q ss_pred hhhhhhHHHHHHHHHH
Q 024169 210 RMDCQMVMAVFAYIYH 225 (271)
Q Consensus 210 R~Dsllf~~~~~y~~~ 225 (271)
|+|+++.+..+.+.+.
T Consensus 125 Qldf~lgall~~~~~~ 140 (175)
T PF01864_consen 125 QLDFVLGALLLLYLFA 140 (175)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 9999999888876644
No 10
>KOG4453 consensus Predicted ER membrane protein [Function unknown]
Probab=97.86 E-value=9.4e-05 Score=67.34 Aligned_cols=51 Identities=27% Similarity=0.238 Sum_probs=44.1
Q ss_pred HHHHhhhhHHHHhhhccCCcccccCCCCCChhHHHHHHHHHHHHHHHHHHHHh
Q 024169 65 SLIVINDIAAYIFGFFFGRTPLIKLSPKKTWEGFIGASVATITSAFVLANIMG 117 (271)
Q Consensus 65 ~~v~~nD~~AY~~Gk~fGk~kL~~iSP~KT~EG~iGG~i~t~l~~~~~~~~~~ 117 (271)
++.|+ |+.|-..||+||+.+. ++.|||+|.|.||.+.++++.++++.+++.
T Consensus 164 Llswc-Dt~AdtvGRKfG~~tp-k~aknKSlAGSIgaft~Gvf~c~vy~gyf~ 214 (269)
T KOG4453|consen 164 LLSWC-DTIADTVGRKFGSTTP-KYAKNKSLAGSIGAFTFGVFICIVYLGYFS 214 (269)
T ss_pred HHHHh-hhHHHHHhhhccccCC-CcCCCccccchHHHHHHHHHHHHHHHHHHh
Confidence 34566 9999999999999877 488999999999999999999988776653
No 11
>COG0170 SEC59 Dolichol kinase [Lipid metabolism]
Probab=97.37 E-value=0.00098 Score=60.04 Aligned_cols=49 Identities=27% Similarity=0.312 Sum_probs=40.9
Q ss_pred HHHHhhhhHHHHhhhccCCcccccCCCCCChhHHHHHHHHHHHHHHHHHH
Q 024169 65 SLIVINDIAAYIFGFFFGRTPLIKLSPKKTWEGFIGASVATITSAFVLAN 114 (271)
Q Consensus 65 ~~v~~nD~~AY~~Gk~fGk~kL~~iSP~KT~EG~iGG~i~t~l~~~~~~~ 114 (271)
.+....|..|-++||.+||||. +.+++||+||.+++++++.+..+++..
T Consensus 121 ~~l~~GD~lAsiiG~~~G~~~~-~~~~~KSleGSla~fi~~~l~~~~~~~ 169 (216)
T COG0170 121 LVLALGDGLASIIGKRYGRHKR-ILGNGKSLEGSLAFFIASFLVLLVLYG 169 (216)
T ss_pred HHHHHhhHHHHHhCcccCcccc-ccCCCCchhhhHHHHHHHHHHHHHHHH
Confidence 3455789999999999999833 489999999999999999988765543
No 12
>KOG2468 consensus Dolichol kinase [Lipid transport and metabolism]
Probab=94.98 E-value=0.022 Score=56.67 Aligned_cols=45 Identities=31% Similarity=0.378 Sum_probs=38.3
Q ss_pred HHhhhhHHHHhhhccCCcccccCCCCCChhHHHHHHHHHHHHHHHHH
Q 024169 67 IVINDIAAYIFGFFFGRTPLIKLSPKKTWEGFIGASVATITSAFVLA 113 (271)
Q Consensus 67 v~~nD~~AY~~Gk~fGk~kL~~iSP~KT~EG~iGG~i~t~l~~~~~~ 113 (271)
+=.-|+.|-++|+++||+|..+- |||.||.+.++++..++.+++-
T Consensus 419 lGiGDTmASiiG~r~G~~RW~~T--kKTlEGT~Afivs~~iv~~ll~ 463 (510)
T KOG2468|consen 419 LGIGDTMASIIGKRYGRIRWSGT--KKTLEGTLAFIVSSFIVCLLLL 463 (510)
T ss_pred eccchHHHHHHhhhhcceecCCC--cceeehhhHHHHHHHHHHHHHH
Confidence 44679999999999999999753 9999999999998887766653
No 13
>PF01940 DUF92: Integral membrane protein DUF92; InterPro: IPR002794 Many members of this family have no known function and are predicted to be integral membrane proteins.; GO: 0016021 integral to membrane
Probab=68.88 E-value=94 Score=28.43 Aligned_cols=53 Identities=17% Similarity=0.189 Sum_probs=39.1
Q ss_pred HHHHHHHHhhhhHHHHhhhccCCcccc-----cCCC----CCChhHHHHHHHHHHHHHHHHH
Q 024169 61 LLPASLIVINDIAAYIFGFFFGRTPLI-----KLSP----KKTWEGFIGASVATITSAFVLA 113 (271)
Q Consensus 61 ~~~~~~v~~nD~~AY~~Gk~fGk~kL~-----~iSP----~KT~EG~iGG~i~t~l~~~~~~ 113 (271)
.+-.+.+...||.|-=.|...+++|.. ++.| .=|++|.+.|+.++.+++....
T Consensus 110 ~~~s~A~a~aDTwASEiG~ls~~~P~lItt~k~V~~Gt~GgVS~lGt~as~~Ga~~Ia~~~~ 171 (226)
T PF01940_consen 110 FLGSIAAANADTWASEIGVLSKGPPRLITTFKRVPPGTSGGVSLLGTLASLAGALLIALVAF 171 (226)
T ss_pred HHHHHHHHhhhHHHHhhhhhcCCCCeEeeCCcCCCCCCCCeechHHHHHHHHHHHHHHHHHH
Confidence 334455667799999999999876642 2333 4589999999999888887654
No 14
>PF11283 DUF3084: Protein of unknown function (DUF3084); InterPro: IPR021435 This bacterial family of proteins has no known function.
Probab=68.19 E-value=5.1 Score=31.05 Aligned_cols=29 Identities=31% Similarity=0.534 Sum_probs=22.0
Q ss_pred HHHhhhhHHHHh---hhccCCcccc--cCCCCCC
Q 024169 66 LIVINDIAAYIF---GFFFGRTPLI--KLSPKKT 94 (271)
Q Consensus 66 ~v~~nD~~AY~~---Gk~fGk~kL~--~iSP~KT 94 (271)
++...-.-||+. |+..||+++. .+-|+.|
T Consensus 9 l~~lgG~IA~~GD~iG~kvGKkrlslFgLRPr~T 42 (79)
T PF11283_consen 9 LLLLGGLIAYLGDRIGSKVGKKRLSLFGLRPRYT 42 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHhhhhcCCCccc
Confidence 344555666664 8889999986 7999998
No 15
>COG1836 Predicted membrane protein [Function unknown]
Probab=58.64 E-value=1.1e+02 Score=28.55 Aligned_cols=46 Identities=22% Similarity=0.320 Sum_probs=34.9
Q ss_pred HHHhhhhHHHHhhhccCCccc-c----cCCC----CCChhHHHHHHHHHHHHHHH
Q 024169 66 LIVINDIAAYIFGFFFGRTPL-I----KLSP----KKTWEGFIGASVATITSAFV 111 (271)
Q Consensus 66 ~v~~nD~~AY~~Gk~fGk~kL-~----~iSP----~KT~EG~iGG~i~t~l~~~~ 111 (271)
.+...||+|-=.|+..||+|. + |+.| .-|++|-+.|+.++.+.+.+
T Consensus 129 Ata~aDT~ASEiG~~~~~~p~lITtfkrV~~Gt~GaVS~~GelAav~Ga~iIal~ 183 (247)
T COG1836 129 ATANADTLASEIGKAYGKRPRLITTFKRVEPGTSGAVSLVGELAAVAGAFIIALL 183 (247)
T ss_pred HHHhhhHHHHHHhHhhCCCeEEEEeeeEcCCCCCCccchhhhHHHHHHHHHHHHH
Confidence 456779999999999998764 2 3444 45889999988888877654
No 16
>TIGR00297 conserved hypothetical protein TIGR00297.
Probab=52.02 E-value=1.5e+02 Score=27.33 Aligned_cols=48 Identities=19% Similarity=0.331 Sum_probs=35.8
Q ss_pred HHHHHhhhhHHHHhhhccCCccc-c----cC----CCCCChhHHHHHHHHHHHHHHH
Q 024169 64 ASLIVINDIAAYIFGFFFGRTPL-I----KL----SPKKTWEGFIGASVATITSAFV 111 (271)
Q Consensus 64 ~~~v~~nD~~AY~~Gk~fGk~kL-~----~i----SP~KT~EG~iGG~i~t~l~~~~ 111 (271)
.+.....||.|-=.|+..+|+|. + ++ |=.=|+||.+.+++++.+++..
T Consensus 118 s~A~a~aDT~ASEiG~ls~~~p~lItt~k~V~~GT~GgVS~~Gt~As~~Ga~~I~~~ 174 (237)
T TIGR00297 118 SVATALSDTMASEIGKAYGKNPRLITTLQRVEPGTDGAISVEGTLAGFAGALAIALL 174 (237)
T ss_pred HHHHHHcchHHHhhhhccCCCCeEeecCccCCCCCCCcccHHHHHHHHHHHHHHHHH
Confidence 34566779999999999998653 2 23 3346899999999998888743
No 17
>PF01741 MscL: Large-conductance mechanosensitive channel, MscL; InterPro: IPR001185 Mechanosensitive ion channels (MscL) play a critical role in transducing physical stresses at the cell membrane into an electrochemical response. MscL is a protein which forms a channel organised as a homopentamer, with each subunit containing two transmembrane regions []. Prokaryotes harbor a large-conductance mechanosensitive channel (gene mscL) that opens in response to stretch forces in the membrane lipid bilayer and may participate in the regulation of osmotic pressure changes within the cell [].; GO: 0005216 ion channel activity, 0006810 transport, 0016021 integral to membrane; PDB: 3HZQ_A 2OAR_A.
Probab=48.32 E-value=70 Score=26.71 Aligned_cols=85 Identities=13% Similarity=0.201 Sum_probs=38.9
Q ss_pred hhhhhHHHHHHhhcCCCCCCCC---CCCCCcc--------hhhhhhhhhHHHHHHHHHHHHhhcCCCCCHHHHHHHHHhc
Q 024169 178 APFGGFFASGFKRAFKIKDFGD---SIPGHGG--------ITDRMDCQMVMAVFAYIYHQSFIVPQSFRVEMILEQILTA 246 (271)
Q Consensus 178 a~~GDL~~S~iKR~~gIKD~G~---~iPGHGG--------iLDR~Dsllf~~~~~y~~~~~fi~~~~~~~~~~~~~~~~~ 246 (271)
|...|++...+--..|-.|+.+ .++|++| +++.+=..+.++.++|+..+.+-+-++..-+. .. ..
T Consensus 33 slV~dii~Pli~~~~g~~~~~~~~~~~~g~~~~~~i~yG~Fl~a~I~FlIiA~vvFlivk~~nk~~~~~~~~--~~--~~ 108 (128)
T PF01741_consen 33 SLVNDIIMPLIGLLFGGPDFSDLFIVLSGPAGAVVIPYGAFLNALINFLIIAFVVFLIVKPINKLKKKEEKE--EA--EA 108 (128)
T ss_dssp HHHHHCHHHHHHHSCS-S--EE----TTS-SS-EEE-HCHHHHHHHHHHHHHHHHHHCHHHHHHCHHTT-S--------H
T ss_pred HHHHHHHHHHHHHhcCCCCcccceeeeeccCCcceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc--cc--CC
Confidence 3444555555554455555544 3446544 44444444445555555554433221111111 00 01
Q ss_pred CCHHHHHHHHHHHHHHHHhc
Q 024169 247 LTYEEQKALYMKLGEILQER 266 (271)
Q Consensus 247 l~~~~~~~l~~~l~~~~~~~ 266 (271)
=.++++.++++++++.+.+|
T Consensus 109 ~~~~~~~~ll~eIrdlL~~q 128 (128)
T PF01741_consen 109 PAPKTCEELLTEIRDLLKKQ 128 (128)
T ss_dssp --HHHHHHHHHHHHHHHHH-
T ss_pred CCCCchHHHHHHHHHHHhcC
Confidence 12458889999999998875
No 18
>PRK10666 ammonium transporter; Provisional
Probab=47.92 E-value=12 Score=37.25 Aligned_cols=42 Identities=29% Similarity=0.375 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHhhhhhhHHHHHHhhcCCCCCCCCCCCCC--cchhh
Q 024169 165 WHALCLGLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGH--GGITD 209 (271)
Q Consensus 165 ~~~l~l~~~~sl~a~~GDL~~S~iKR~~gIKD~G~~iPGH--GGiLD 209 (271)
|.++++|++++++..++- ..+||+++|-|--+.+|-| +|++-
T Consensus 304 ~~A~iiG~vag~v~~~~~---~~l~~~~~iDD~~~a~~vHgv~Gi~G 347 (428)
T PRK10666 304 GGALIIGVVAGLAGLWGV---TMLKRWLRVDDPCDVFGVHGVCGIVG 347 (428)
T ss_pred HHHHHHHHHHHHHHHHHH---HHHHhcCCCCCCcCccHhhhHhHHHH
Confidence 778889999999888664 4588999999999999999 45543
No 19
>COG4240 Predicted kinase [General function prediction only]
Probab=47.41 E-value=26 Score=32.95 Aligned_cols=53 Identities=11% Similarity=0.088 Sum_probs=38.9
Q ss_pred hhhhhhhhhH-HHHHHHHHHHHhhcCCCCCHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 024169 207 ITDRMDCQMV-MAVFAYIYHQSFIVPQSFRVEMILEQILTALTYEEQKALYMKLGEIL 263 (271)
Q Consensus 207 iLDR~Dsllf-~~~~~y~~~~~fi~~~~~~~~~~~~~~~~~l~~~~~~~l~~~l~~~~ 263 (271)
++||+||++. .++=+-..+.|=. .-=.++...+-+-||+||+.++++..-.++
T Consensus 212 L~~rIdsLillta~din~vy~WRl----QqEhkliAr~~kgmsdeqv~efvn~ymrsl 265 (300)
T COG4240 212 LFDRIDSLILLTAPDINTVYAWRL----QQEHKLIARLAKGMSDEQVSEFVNAYMRSL 265 (300)
T ss_pred HHHHhhheeEecccchHHHHHHHH----HHHHHHHHHHhccCcHHHHHHHHHHHHHHH
Confidence 9999999975 4444444444443 444567777889999999999999877665
No 20
>COG0575 CdsA CDP-diglyceride synthetase [Lipid metabolism]
Probab=46.52 E-value=56 Score=30.06 Aligned_cols=51 Identities=20% Similarity=0.079 Sum_probs=35.3
Q ss_pred HHHHHHHhhhhhhHHHHHHhhcCCCCC-CCCCCCCC---cchhhhhhhhhHHHHH
Q 024169 170 LGLFASIIAPFGGFFASGFKRAFKIKD-FGDSIPGH---GGITDRMDCQMVMAVF 220 (271)
Q Consensus 170 l~~~~sl~a~~GDL~~S~iKR~~gIKD-~G~~iPGH---GGiLDR~Dsllf~~~~ 220 (271)
..++..++.-.+|..++++||++|.+. .++.=|+. |=+..-+.+.+.+.++
T Consensus 135 ~~l~l~~~vw~~Di~Ayf~Gr~fGk~kl~p~iSP~KT~eGfigG~~~~~~v~~~~ 189 (265)
T COG0575 135 LLLLLFLGVWAGDIGAYFVGRRFGKHKLAPKISPKKTWEGFIGGALGAVLVAVLV 189 (265)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHcCCCCCCCcCCCCCchHHhHHHHHHHHHHHHHH
Confidence 466677788899999999999999774 67788865 3333334444444333
No 21
>COG0004 AmtB Ammonia permease [Inorganic ion transport and metabolism]
Probab=45.55 E-value=28 Score=34.66 Aligned_cols=41 Identities=37% Similarity=0.596 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHhhhhhhHHHHHHhhcCCCCCCCCCCCCC--cchh
Q 024169 165 WHALCLGLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGH--GGIT 208 (271)
Q Consensus 165 ~~~l~l~~~~sl~a~~GDL~~S~iKR~~gIKD~G~~iPGH--GGiL 208 (271)
+-+++++++++++..+ ..+.+||+.++-|.=+.+|.| ||+.
T Consensus 281 ~~A~iiGii~g~i~~~---a~~~lk~~l~~DD~ld~f~vHGvgGi~ 323 (409)
T COG0004 281 WGALIIGLIAGVICYF---AVKLLKKKLGVDDALDVFGVHGVGGIV 323 (409)
T ss_pred HHHHHHHHHHHHHHHH---HHHHHHHhcCCCCcccceeccchhhHH
Confidence 5667788888777654 468899999999998999999 4544
No 22
>PF06945 DUF1289: Protein of unknown function (DUF1289); InterPro: IPR010710 This family consists of a number of hypothetical bacterial proteins. The aligned region spans around 56 residues and contains 4 highly conserved cysteine residues towards the N terminus. The function of this family is unknown.
Probab=44.71 E-value=41 Score=23.54 Aligned_cols=30 Identities=13% Similarity=0.237 Sum_probs=23.9
Q ss_pred CCHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh
Q 024169 234 FRVEMILEQILTALTYEEQKALYMKLGEILQE 265 (271)
Q Consensus 234 ~~~~~~~~~~~~~l~~~~~~~l~~~l~~~~~~ 265 (271)
-|.+++..= ..||++||.++++.|.+...|
T Consensus 22 RT~dEI~~W--~~~s~~er~~i~~~l~~R~~q 51 (51)
T PF06945_consen 22 RTLDEIRDW--KSMSDDERRAILARLRARRAQ 51 (51)
T ss_pred CcHHHHHHH--hhCCHHHHHHHHHHHHHHhcC
Confidence 467777774 579999999999999887643
No 23
>TIGR03644 marine_trans_1 probable ammonium transporter, marine subtype. Members of this protein family are well conserved subclass of putative ammonimum transporters, belonging to the much broader set of ammonium/methylammonium transporter described by TIGR00836. Species with this transporter tend to be marine bacteria. Partial phylogenetic profiling (PPP) picks a member of this protein family as the single best-scoring protein vs. a reference profile for the marine environment Genome Property for a large number of different query genomes. This finding by PPP suggests that this transporter family represents an important adaptation to the marine environment.
Probab=41.39 E-value=14 Score=36.52 Aligned_cols=40 Identities=28% Similarity=0.319 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHhhhhhhHHHHHHhhcCCCCCCCCCCCCC--cchh
Q 024169 165 WHALCLGLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGH--GGIT 208 (271)
Q Consensus 165 ~~~l~l~~~~sl~a~~GDL~~S~iKR~~gIKD~G~~iPGH--GGiL 208 (271)
|.++++|++++++..++-- ++|+++|-|--+.+|-| +|++
T Consensus 294 ~~A~iiG~iag~v~~~~~~----~~~~~~iDD~~~~~~vHg~~Gi~ 335 (404)
T TIGR03644 294 LAATLIGAVGGVIVVFSIV----LLDKLKIDDPVGAISVHGVAGIW 335 (404)
T ss_pred HHHHHHHHHHHHHHHHHHH----HHHhCCCCCCcCchHhhhHHHHH
Confidence 7788999999999887653 45679999999999999 4554
No 24
>PF09150 Carot_N: Orange carotenoid protein, N-terminal ; InterPro: IPR015233 Carotenoids such as beta-carotene, lycopene, lutein and beta-cryptoxanthine are produced in plants and certain bacteria, algae and fungi, where they function as accessory photosynthetic pigments and as scavengers of oxygen radicals for photoprotection. They are also essential dietary nutrients in animals. Orange carotenoid-binding proteins (OCP) were first identified in cyanobacterial species, where they occur associated with phycobilisome in the cellular thylakoid membrane. These proteins function in photoprotection, and are essential for inhibiting white and blue-green light non-photochemical quenching (NPQ) [, ]. Carotenoids improve the photoprotectant activity by broadening OCP's absorption spectrum and facilitating the dissipation of absorbed energy. OCP acts as a homodimer, and binds one molecule of carotenoid (3'-hydroxyechinenone) and one chloride ion per subunit, where the carotenoid binding site is lined with a striking number of methionine residues. The carotenoid 3'-hydroxyechinenone is not found in higher plants. OCP has two domains: an N-terminal helical domain and a C-terminal domain that resembles a NTF2 (nuclear transport factor 2) domain. OCP can be proteolytically cleaved into a red form (RCP), which lacks 15 residues from the N terminus and approximately 150 residues from the C terminus []. This entry represents the N-terminal domain found predominantly in prokaryotic orange carotenoid proteins and related carotenoid-binding proteins. It adopts an alpha-helical structure consisting of two four-helix bundles [].; GO: 0031404 chloride ion binding, 0016037 light absorption, 0030089 phycobilisome; PDB: 3MG3_B 3MG1_A 3MG2_A 1M98_A.
Probab=41.02 E-value=36 Score=29.67 Aligned_cols=27 Identities=30% Similarity=0.284 Sum_probs=21.0
Q ss_pred CHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 024169 235 RVEMILEQILTALTYEEQKALYMKLGEI 262 (271)
Q Consensus 235 ~~~~~~~~~~~~l~~~~~~~l~~~l~~~ 262 (271)
.-+.++++| ++||++||++..+-|-+.
T Consensus 57 ~ae~ll~qi-k~ms~~EQlq~MrDL~~~ 83 (159)
T PF09150_consen 57 LAEGLLNQI-KQMSQEEQLQAMRDLANR 83 (159)
T ss_dssp HHHHHHHHH-HCS-HHHHHHHHHHHHHT
T ss_pred HHHHHHHHH-HhCCHHHHHHHHHHHHhC
Confidence 357788887 689999999999887654
No 25
>PRK02868 hypothetical protein; Provisional
Probab=39.51 E-value=61 Score=30.15 Aligned_cols=19 Identities=21% Similarity=0.321 Sum_probs=15.1
Q ss_pred HHHHHhcCCHHHHHHHHHH
Q 024169 240 LEQILTALTYEEQKALYMK 258 (271)
Q Consensus 240 ~~~~~~~l~~~~~~~l~~~ 258 (271)
++++.+|||+|||..+++.
T Consensus 60 l~~~v~~ms~eqq~~ll~~ 78 (245)
T PRK02868 60 LFELVQNMSPEQQQILLKA 78 (245)
T ss_pred HHHHHHhCCHHHHHHHHHH
Confidence 4446678999999999874
No 26
>TIGR01594 holin_lambda phage holin, lambda family. This model represents one of a large number of mutally dissimilar families of phage holins. Holins act against the host cell membrane to allow lytic enzymes of the phage to reach the bacterial cell wall. This family includes the product of the S gene of phage lambda.
Probab=38.62 E-value=1.3e+02 Score=24.31 Aligned_cols=28 Identities=14% Similarity=0.212 Sum_probs=19.2
Q ss_pred HHHHHHHHhh--hhhhHHHHHHhhcCCCCC
Q 024169 169 CLGLFASIIA--PFGGFFASGFKRAFKIKD 196 (271)
Q Consensus 169 ~l~~~~sl~a--~~GDL~~S~iKR~~gIKD 196 (271)
+.|.++++++ .++++..+.+.|+.|.+|
T Consensus 78 ~~g~~IGflGvd~ir~~~~~~i~kK~g~~~ 107 (107)
T TIGR01594 78 FLGGMIGFVGVDKIREFAKRFINKKAGVDD 107 (107)
T ss_pred HHhhheeeccHHHHHHHHHHHHHhhcCCCC
Confidence 3444555544 567888888888888776
No 27
>PF00909 Ammonium_transp: Ammonium Transporter Family; InterPro: IPR024041 This ammonium transporter domain consists of a duplication of 2 structural repeats of five helices each plus one extra C-terminal helix. It has been described as a channel that spans the membrane 11 times [].; PDB: 3B9Z_A 3B9Y_A 3B9W_A 3BHS_A 2B2H_A 2B2J_A 2B2F_A 2B2I_A 2NPG_A 2NUU_E ....
Probab=37.27 E-value=39 Score=32.93 Aligned_cols=37 Identities=35% Similarity=0.519 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHhhhhhhHHHHHHhhcCCCCCCCCCCCCC
Q 024169 165 WHALCLGLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGH 204 (271)
Q Consensus 165 ~~~l~l~~~~sl~a~~GDL~~S~iKR~~gIKD~G~~iPGH 204 (271)
|.++++|++++++..+|- +.++|+++|.|--+.+|-|
T Consensus 275 ~~A~~iG~iag~i~~~~~---~~l~~~~~iDD~~~~~~vH 311 (399)
T PF00909_consen 275 WGALLIGAIAGLISYFGV---SWLLKRLKIDDPVGAFAVH 311 (399)
T ss_dssp HHHHHHHHHHHHHHHHHH---HHHHHHHTS-HTTGHHHHC
T ss_pred HHHHHhhhhHhhhhhhhe---ecccceeEeccccceEeee
Confidence 678888888888776653 3789999999988888888
No 28
>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1). The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.
Probab=37.21 E-value=28 Score=25.48 Aligned_cols=22 Identities=18% Similarity=0.392 Sum_probs=17.3
Q ss_pred CCHHHHHHHHHHHHHHHHhccc
Q 024169 247 LTYEEQKALYMKLGEILQERLF 268 (271)
Q Consensus 247 l~~~~~~~l~~~l~~~~~~~~~ 268 (271)
-|.|||++|++++++...|+-.
T Consensus 29 ysie~Q~~L~~~ik~~F~~~P~ 50 (58)
T PF06858_consen 29 YSIEEQLSLFKEIKPLFPNKPV 50 (58)
T ss_dssp S-HHHHHHHHHHHHHHTTTS-E
T ss_pred CCHHHHHHHHHHHHHHcCCCCE
Confidence 3789999999999999877653
No 29
>TIGR02574 stabl_TIGR02574 putative addiction module component, TIGR02574 family. Members of this family are bacterial proteins, typically are about 75 amino acids long, always found as part of a pair (at least) of two small genes. The other in the pair always belongs to a subfamily of the larger family pfam05016 (although not necessarily scoring above the designated cutoff), which contains plasmid stabilization proteins. It is likely that this protein and its pfam05016 member partner comprise some form of addiction module, although these gene pairs usually are found on the bacterial main chromosome.
Probab=37.20 E-value=33 Score=24.87 Aligned_cols=20 Identities=20% Similarity=0.235 Sum_probs=18.3
Q ss_pred cCCHHHHHHHHHHHHHHHHh
Q 024169 246 ALTYEEQKALYMKLGEILQE 265 (271)
Q Consensus 246 ~l~~~~~~~l~~~l~~~~~~ 265 (271)
+||++||..|++.|-++|.+
T Consensus 2 ~L~~~ERl~Lve~LwdSL~~ 21 (63)
T TIGR02574 2 ALSPDERIQLVEDIWDSIAA 21 (63)
T ss_pred CCCHHHHHHHHHHHHHHhcc
Confidence 69999999999999999974
No 30
>PF09720 Unstab_antitox: Putative addiction module component; InterPro: IPR013406 This entry defines several short bacterial proteins, typically about 75 amino acids long, which are always found as part of a pair (at least) of small genes. The other protein in the pair always belongs to a family of plasmid stabilisation proteins (IPR007712 from INTERPRO). It is likely that this protein and its partner comprise some form of addiction module - a pair of genes consisting of a stable toxin and an unstable antitoxin which mediate programmed cell death [] - although these gene pairs are usually found on the bacterial main chromosome.
Probab=36.50 E-value=37 Score=23.61 Aligned_cols=21 Identities=29% Similarity=0.283 Sum_probs=18.1
Q ss_pred cCCHHHHHHHHHHHHHHHHhc
Q 024169 246 ALTYEEQKALYMKLGEILQER 266 (271)
Q Consensus 246 ~l~~~~~~~l~~~l~~~~~~~ 266 (271)
+|+++||.+|++.|=+.+.+.
T Consensus 1 ~L~~~er~~L~e~L~~sl~~~ 21 (54)
T PF09720_consen 1 QLPPEERAELAEELWDSLDDP 21 (54)
T ss_pred CcCHHHHHHHHHHHHHHhccc
Confidence 589999999999999888763
No 31
>cd02572 PseudoU_synth_hDyskerin PseudoU_synth_hDyskerin_Like: Pseudouridine synthase, human dyskerin like. This group consists of eukaryotic and archeal pseudouridine synthases similar to human dyskerin, Saccharomyces cerevisiae Cbf5, and Drosophila melanogaster Mfl (minifly protein). Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactor is required. S. cerevisiae Cbf5 and human dyskerin are nucleolar proteins that, with the help of guide RNAs, make the hundreds of psueudouridnes present in rRNA and small nuclear RNAs (snRNAs). Cbf5/Dyskerin is the catalytic subunit of eukaryotic box H/ACA small nucleolar ribonucleoprotein (snoRNP) particles. D. melanogaster mfl hosts in its fourth intron, a box H/AC snoRNA gene. In addition dyskerin is likely to have a structural role in the telomerase complex. Mutations in human dyskerin cause X-linked dyskeratosis congenitas. Mutations in Drosophila Mfl r
Probab=34.57 E-value=23 Score=31.12 Aligned_cols=26 Identities=23% Similarity=0.304 Sum_probs=21.7
Q ss_pred HHHHhhcCCCCCCCCCCCCCcchhhhhhhhh
Q 024169 185 ASGFKRAFKIKDFGDSIPGHGGITDRMDCQM 215 (271)
Q Consensus 185 ~S~iKR~~gIKD~G~~iPGHGGiLDR~Dsll 215 (271)
-+.+||.++.|.- ||+|=||.+-+=+
T Consensus 19 v~~~k~~~~~kkv-----GH~GTLDp~A~Gv 44 (182)
T cd02572 19 VAWIKRILGVEKT-----GHSGTLDPKVTGC 44 (182)
T ss_pred HHHHHHHhCCCcc-----CcCCCCCCcCeeE
Confidence 3789999999874 9999999998533
No 32
>PRK10236 hypothetical protein; Provisional
Probab=33.98 E-value=49 Score=30.65 Aligned_cols=27 Identities=11% Similarity=0.197 Sum_probs=23.0
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 024169 237 EMILEQILTALTYEEQKALYMKLGEIL 263 (271)
Q Consensus 237 ~~~~~~~~~~l~~~~~~~l~~~l~~~~ 263 (271)
.++++...++||+|||++|.+.+...+
T Consensus 119 ~kll~~a~~kms~eE~~~L~~~l~~~l 145 (237)
T PRK10236 119 EQFLRNTWKKMDEEHKQEFLHAVDARV 145 (237)
T ss_pred HHHHHHHHHHCCHHHHHHHHHHHhhhc
Confidence 456777788999999999999998874
No 33
>COG4956 Integral membrane protein (PIN domain superfamily) [General function prediction only]
Probab=33.69 E-value=2.8e+02 Score=27.08 Aligned_cols=29 Identities=14% Similarity=0.202 Sum_probs=19.3
Q ss_pred CCCCCChhHHHHHHHHHHHHHHHHHHHHh
Q 024169 89 LSPKKTWEGFIGASVATITSAFVLANIMG 117 (271)
Q Consensus 89 iSP~KT~EG~iGG~i~t~l~~~~~~~~~~ 117 (271)
+.-|-.+++.+|++++-.+..++-.+...
T Consensus 36 ~~~n~~v~~ligai~~~li~~~~~~~~~~ 64 (356)
T COG4956 36 FLNNEYVDALIGAIIFFLISFWFGKYVLN 64 (356)
T ss_pred hhccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566778889888887766655544443
No 34
>TIGR00836 amt ammonium transporter. The mechanism of energy coupling, if any, to methyl-NH2 or NH3 uptake by the AmtB protein of E. coli is not entirely clear. NH4+ uniport driven by the pmf, energy independent NH3 facilitation, and NH4+/K+ antiport have been proposed as possible transport mechanisms. In Corynebacterium glutamicum and Arabidopsis thaliana, uptake via the Amt1 homologues of AmtB has been reported to be driven by the pmf.
Probab=30.98 E-value=56 Score=32.27 Aligned_cols=41 Identities=37% Similarity=0.629 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHhhhhhhHHHHHHhhcCCCCCCCCCCCCC--cch
Q 024169 164 QWHALCLGLFASIIAPFGGFFASGFKRAFKIKDFGDSIPGH--GGI 207 (271)
Q Consensus 164 ~~~~l~l~~~~sl~a~~GDL~~S~iKR~~gIKD~G~~iPGH--GGi 207 (271)
+|.++++|++++++..++- ..+||+++|-|.-+.+|-| +|+
T Consensus 279 p~~A~viG~iag~~~~~~~---~~l~~~~~iDD~~~~~~vHg~~Gi 321 (403)
T TIGR00836 279 PWGAIIIGLVAGVLCYLAV---SKLKKKLKIDDPLDAFAVHGVGGI 321 (403)
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHHHHcCCCCCcccchhhhhhHH
Confidence 3778889999988887765 4588999999998999999 454
No 35
>COG5336 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.61 E-value=1.1e+02 Score=25.44 Aligned_cols=27 Identities=15% Similarity=0.158 Sum_probs=16.8
Q ss_pred CCCCCChhHHHHHHHHHHHHHHHHHHH
Q 024169 89 LSPKKTWEGFIGASVATITSAFVLANI 115 (271)
Q Consensus 89 iSP~KT~EG~iGG~i~t~l~~~~~~~~ 115 (271)
.+|-|=-.=+|+|++.++.+|+++-.+
T Consensus 43 ~~a~klssefIsGilVGa~iG~llD~~ 69 (116)
T COG5336 43 AQAFKLSSEFISGILVGAGIGWLLDKF 69 (116)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455555556777777666666666544
No 36
>PF09010 AsiA: Anti-Sigma Factor A; InterPro: IPR015100 Anti-sigma factor A is a transcriptional inhibitor that inhibits sigma 70-directed transcription by weakening its interaction with the core of the host's RNA polymerase. It is an all-helical protein, composed of six helical segments and intervening loops and turns, as well as a helix-turn-helix DNA binding motif, although neither free anti-sigma factor nor anti-sigma factor bound to sigma-70 has been shown to interact directly with DNA. In solution, the protein forms a symmetric dimer of small (10.59 kDa) protomers, which are composed of helix and coil regions and are devoid of beta-strand/sheet secondary structural elements []. ; PDB: 1TKV_A 1JR5_B 1TLH_A 1TL6_A.
Probab=30.35 E-value=51 Score=26.24 Aligned_cols=31 Identities=23% Similarity=0.269 Sum_probs=22.3
Q ss_pred CCCCHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 024169 232 QSFRVEMILEQILTALTYEEQKALYMKLGEIL 263 (271)
Q Consensus 232 ~~~~~~~~~~~~~~~l~~~~~~~l~~~l~~~~ 263 (271)
+.+|-..+-+ +.+.|+++||++|+++.++--
T Consensus 48 ~~~t~~sfr~-m~~~lt~~ek~elieeFn~G~ 78 (91)
T PF09010_consen 48 KEFTQMSFRQ-MFKRLTQEEKEELIEEFNEGH 78 (91)
T ss_dssp SE--HHHHHH-HHHTS-HHHHHHHHHHSHHHH
T ss_pred cchhHHHHHH-HHHHcCHHHHHHHHHHHhhhh
Confidence 4577777666 567899999999999998653
No 37
>PF10003 DUF2244: Integral membrane protein (DUF2244); InterPro: IPR019253 This entry consists of various bacterial putative membrane proteins with no known function.
Probab=29.09 E-value=40 Score=28.14 Aligned_cols=17 Identities=29% Similarity=0.255 Sum_probs=13.7
Q ss_pred cCCHHHHHHHHHHHHHH
Q 024169 246 ALTYEEQKALYMKLGEI 262 (271)
Q Consensus 246 ~l~~~~~~~l~~~l~~~ 262 (271)
-|++|||++|.++|++.
T Consensus 123 fL~~~eR~~la~~L~~a 139 (140)
T PF10003_consen 123 FLNPEEREELARELRRA 139 (140)
T ss_pred CCCHHHHHHHHHHHHhh
Confidence 48888888888888764
No 38
>KOG1440 consensus CDP-diacylglycerol synthase [Lipid transport and metabolism]
Probab=28.67 E-value=31 Score=34.49 Aligned_cols=40 Identities=20% Similarity=0.018 Sum_probs=32.6
Q ss_pred HHHHHHhhhhHHHHhhhccCCcccccCCCCCChhHHHHHH
Q 024169 63 PASLIVINDIAAYIFGFFFGRTPLIKLSPKKTWEGFIGAS 102 (271)
Q Consensus 63 ~~~~v~~nD~~AY~~Gk~fGk~kL~~iSP~KT~EG~iGG~ 102 (271)
.+.-|-++|.++..-+|-+++++....+|+|+||+..-++
T Consensus 273 ~~s~vL~~~~~~~cp~~d~~t~~~~~c~p~~~F~~~~y~l 312 (432)
T KOG1440|consen 273 LFSYVLGHYTFFTCPVKDFSTTPLLSCEPKPLFEPQTYGL 312 (432)
T ss_pred HHHHHhccCeEEEecccccCCCCccccCcccccCcceecC
Confidence 4445678888888888999999877899999999976553
No 39
>PF08479 POTRA_2: POTRA domain, ShlB-type; InterPro: IPR013686 The POTRA domain (for polypeptide-transport-associated domain) is found towards the N terminus of ShlB family proteins (IPR005565 from INTERPRO). ShlB is important in the secretion and activation of the haemolysin ShlA. It has been postulated that the POTRA domain has a chaperone-like function over ShlA; it may fold back into the C-terminal beta-barrel channel []. ; PDB: 2X8X_X 2QDZ_A 3NJT_A 3MC8_A 3MC9_B.
Probab=28.13 E-value=67 Score=23.49 Aligned_cols=27 Identities=22% Similarity=0.210 Sum_probs=21.8
Q ss_pred hcCCHHHHHHHHHHHHHHHHhcccCCC
Q 024169 245 TALTYEEQKALYMKLGEILQERLFGQS 271 (271)
Q Consensus 245 ~~l~~~~~~~l~~~l~~~~~~~~~~~~ 271 (271)
+.++.+|-.++.+.+++.+.++|..+|
T Consensus 29 ~~l~~~~l~~~~~~l~~~y~~~GY~~s 55 (76)
T PF08479_consen 29 RCLTLADLQQLADALTNYYREKGYITS 55 (76)
T ss_dssp SBB-HHHHHHHHHHHHHHHHHTT-TT-
T ss_pred CCcCHHHHHHHHHHHHHHHHHcCceEE
Confidence 457999999999999999999998775
No 40
>PF01509 TruB_N: TruB family pseudouridylate synthase (N terminal domain); InterPro: IPR002501 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. TruB is responsible for the pseudouridine residue present in the T loops of virtually all tRNAs. TruB recognises the preformed 3-D structure of the T loop primarily through shape complementarity. It accesses its substrate uridyl residue by flipping out the nucleotide and disrupts the tertiary structure of tRNA []. This entry represents pseudouridine synthase TruB, as well as Cbf5p that modifies rRNA [].; GO: 0006396 RNA processing; PDB: 1SGV_B 2AUS_C 3UAI_A 3U28_A 2RFK_A 3LWV_A 3HJY_A 3HAX_A 3LWO_A 3HAY_A ....
Probab=27.97 E-value=19 Score=30.65 Aligned_cols=20 Identities=40% Similarity=0.740 Sum_probs=15.6
Q ss_pred hhcCCCCCCCCCCCCCcchhhhhhh
Q 024169 189 KRAFKIKDFGDSIPGHGGITDRMDC 213 (271)
Q Consensus 189 KR~~gIKD~G~~iPGHGGiLDR~Ds 213 (271)
||.+++|.- ||+|-||-+-+
T Consensus 1 r~~~~~~Kv-----GH~GTLDP~As 20 (149)
T PF01509_consen 1 RRILGIKKV-----GHGGTLDPFAS 20 (149)
T ss_dssp HHHTTBSSE-----EESS-SSTT-E
T ss_pred CcccCccee-----ccccccCCcce
Confidence 788898886 99999999874
No 41
>PRK00989 truB tRNA pseudouridine synthase B; Provisional
Probab=27.68 E-value=36 Score=31.32 Aligned_cols=26 Identities=19% Similarity=0.433 Sum_probs=21.6
Q ss_pred HHHHhhcCCCCCCCCCCCCCcchhhhhhhhh
Q 024169 185 ASGFKRAFKIKDFGDSIPGHGGITDRMDCQM 215 (271)
Q Consensus 185 ~S~iKR~~gIKD~G~~iPGHGGiLDR~Dsll 215 (271)
-+.+||.+|.|.- ||+|=||.+-+=+
T Consensus 26 v~~ikk~~~~kKv-----GH~GTLDP~AtGv 51 (230)
T PRK00989 26 IRSLTKLIGVKKI-----GHAGTLDPFATGV 51 (230)
T ss_pred HHHHHHHhCCCcC-----CcCccCCCCCeeE
Confidence 4678999999974 9999999998533
No 42
>PRK04099 truB tRNA pseudouridine synthase B; Provisional
Probab=27.28 E-value=35 Score=32.17 Aligned_cols=25 Identities=28% Similarity=0.413 Sum_probs=21.4
Q ss_pred HHHHhhcCCCCCCCCCCCCCcchhhhhhhh
Q 024169 185 ASGFKRAFKIKDFGDSIPGHGGITDRMDCQ 214 (271)
Q Consensus 185 ~S~iKR~~gIKD~G~~iPGHGGiLDR~Dsl 214 (271)
-+.+||.++.|.- ||+|-||.+-+=
T Consensus 19 v~~ikk~~~~kKv-----GH~GTLDP~AtG 43 (273)
T PRK04099 19 LSRLKRKYGVKKA-----GFSGTLDPFAKG 43 (273)
T ss_pred HHHHHHHhCCCcc-----ccCccCCCCCee
Confidence 4789999999885 999999999853
No 43
>PF14098 SSPI: Small, acid-soluble spore protein I
Probab=26.70 E-value=89 Score=23.39 Aligned_cols=27 Identities=15% Similarity=0.182 Sum_probs=22.6
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 024169 236 VEMILEQILTALTYEEQKALYMKLGEI 262 (271)
Q Consensus 236 ~~~~~~~~~~~l~~~~~~~l~~~l~~~ 262 (271)
+..++..+-++++++||.++++.|.+.
T Consensus 38 LGVlFE~~W~~~~~~ek~~m~~~l~~~ 64 (65)
T PF14098_consen 38 LGVLFEVIWKNSDESEKQEMVNTLEQG 64 (65)
T ss_pred hHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence 556677788999999999999998764
No 44
>PF03701 UPF0181: Uncharacterised protein family (UPF0181); InterPro: IPR005371 This family contains small proteins of about 50 amino acids of unknown function. The family includes YoaH P76260 from SWISSPROT.
Probab=26.36 E-value=86 Score=22.41 Aligned_cols=21 Identities=29% Similarity=0.422 Sum_probs=17.5
Q ss_pred cCCHHHHHHHHHHHHHHHHhc
Q 024169 246 ALTYEEQKALYMKLGEILQER 266 (271)
Q Consensus 246 ~l~~~~~~~l~~~l~~~~~~~ 266 (271)
.||||||.+-++.+.+...+.
T Consensus 7 ~LtHeeQQ~AvE~Iq~LMaqG 27 (51)
T PF03701_consen 7 SLTHEEQQQAVERIQELMAQG 27 (51)
T ss_pred CCCHHHHHHHHHHHHHHHHhc
Confidence 599999999999998876543
No 45
>TIGR03092 SASP_sspI small, acid-soluble spore protein I. This protein family is restricted to a subset of endospore-forming bacteria such as Bacillus subtilis, all of which are in the Firmicutes (low-GC Gram-positive) lineage. It is a minor SASP (small, acid-soluble spore protein) designated SspI. The gene in Bacillus subtilis previously was designated ysfA.
Probab=26.29 E-value=97 Score=23.23 Aligned_cols=29 Identities=14% Similarity=0.225 Sum_probs=23.9
Q ss_pred CHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 024169 235 RVEMILEQILTALTYEEQKALYMKLGEIL 263 (271)
Q Consensus 235 ~~~~~~~~~~~~l~~~~~~~l~~~l~~~~ 263 (271)
-+..++..+-++++++||.++++.|.+.+
T Consensus 36 GLGVlFE~~W~~~~~~ek~~m~~~l~~~l 64 (65)
T TIGR03092 36 GLGVLFEAIWKHANEQEKDEMLETLEQGV 64 (65)
T ss_pred ccHHHHHHHHHhcCHHHHHHHHHHHHHhc
Confidence 35667777889999999999999998754
No 46
>PRK12751 cpxP periplasmic stress adaptor protein CpxP; Reviewed
Probab=25.34 E-value=1.2e+02 Score=26.47 Aligned_cols=30 Identities=27% Similarity=0.320 Sum_probs=23.8
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHHHHh
Q 024169 236 VEMILEQILTALTYEEQKALYMKLGEILQE 265 (271)
Q Consensus 236 ~~~~~~~~~~~l~~~~~~~l~~~l~~~~~~ 265 (271)
-..+-.++++.||||||.++-+...+.+++
T Consensus 119 ~~~~~~qmy~lLTPEQra~l~~~~e~r~~~ 148 (162)
T PRK12751 119 MAKVRNQMYNLLTPEQKEALNKKHQERIEK 148 (162)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence 335556678899999999999988887654
No 47
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=24.92 E-value=1.4e+02 Score=24.21 Aligned_cols=30 Identities=17% Similarity=0.286 Sum_probs=24.3
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHHHHh
Q 024169 236 VEMILEQILTALTYEEQKALYMKLGEILQE 265 (271)
Q Consensus 236 ~~~~~~~~~~~l~~~~~~~l~~~l~~~~~~ 265 (271)
.+.+.+.+...++++|+..+.+.|+.+..|
T Consensus 107 ~~~~~~~~~~~l~~ee~~~l~~~l~~l~~~ 136 (144)
T PRK03573 107 INKTRAEILHGISAEEIEQLITLIAKLEKN 136 (144)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 455666677899999999999999988654
No 48
>PF10190 Tmemb_170: Putative transmembrane protein 170; InterPro: IPR019334 This entry represents a group of putative transmembrane proteins conserved from nematodes to humans. The protein is only approximately 130 amino acids in length. The function is unknown.
Probab=24.74 E-value=3.6e+02 Score=21.93 Aligned_cols=41 Identities=15% Similarity=0.201 Sum_probs=21.3
Q ss_pred HhhhccCCcccccCCC-CCChhHHHHHHHHHHHHHHHHHHHH
Q 024169 76 IFGFFFGRTPLIKLSP-KKTWEGFIGASVATITSAFVLANIM 116 (271)
Q Consensus 76 ~~Gk~fGk~kL~~iSP-~KT~EG~iGG~i~t~l~~~~~~~~~ 116 (271)
+.=..+.|||..+.=| -=-.-|.++++.++.+.+.+++..+
T Consensus 29 iA~~~lRkhk~~~f~pi~~l~mg~l~p~~~G~itSa~IA~vY 70 (105)
T PF10190_consen 29 IAFFTLRKHKFGRFIPIVILLMGVLGPLTGGSITSAAIAGVY 70 (105)
T ss_pred HHHHHHhhccchhhhHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 3334556666543211 1233466666666666666666544
No 49
>PRK11404 putative PTS system transporter subunits IIBC; Provisional
Probab=24.49 E-value=5.4e+02 Score=26.13 Aligned_cols=16 Identities=31% Similarity=0.684 Sum_probs=8.8
Q ss_pred hHHHHHHHHHHHHHHH
Q 024169 96 EGFIGASVATITSAFV 111 (271)
Q Consensus 96 EG~iGG~i~t~l~~~~ 111 (271)
.|++|+++++.+.+++
T Consensus 227 sgflg~Il~g~~~gyv 242 (482)
T PRK11404 227 AGFLGAVVLGLAIGYF 242 (482)
T ss_pred ccHHHHHHHHHHHHHH
Confidence 3566666555555544
No 50
>COG3140 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.10 E-value=93 Score=22.73 Aligned_cols=21 Identities=29% Similarity=0.419 Sum_probs=17.5
Q ss_pred cCCHHHHHHHHHHHHHHHHhc
Q 024169 246 ALTYEEQKALYMKLGEILQER 266 (271)
Q Consensus 246 ~l~~~~~~~l~~~l~~~~~~~ 266 (271)
.||||||.+-++.+.+...+.
T Consensus 7 ~LtHeqQQ~AVE~Iq~lMaeG 27 (60)
T COG3140 7 SLTHEQQQKAVERIQELMAEG 27 (60)
T ss_pred cccHHHHHHHHHHHHHHHHcc
Confidence 699999999999998876544
No 51
>PRK00020 truB tRNA pseudouridine synthase B; Provisional
Probab=24.05 E-value=45 Score=30.93 Aligned_cols=26 Identities=23% Similarity=0.314 Sum_probs=21.0
Q ss_pred HHHHhhcCCCCCCCCCCCCCcchhhhhhhhh
Q 024169 185 ASGFKRAFKIKDFGDSIPGHGGITDRMDCQM 215 (271)
Q Consensus 185 ~S~iKR~~gIKD~G~~iPGHGGiLDR~Dsll 215 (271)
-+.+||.+|.|.- ||+|=||.+-+=+
T Consensus 27 v~~vkr~~~~kKv-----GH~GTLDP~AtGv 52 (244)
T PRK00020 27 LQRAKRTVDAAKA-----GHTGTLDPFATGL 52 (244)
T ss_pred HHHHHHHhCCCCC-----CcCCcCCCcCeeE
Confidence 3567999999974 9999999998533
No 52
>COG4944 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.60 E-value=1.7e+02 Score=26.57 Aligned_cols=24 Identities=29% Similarity=0.266 Sum_probs=18.2
Q ss_pred CCCCChhHHHHHHHHHHHHHHHHH
Q 024169 90 SPKKTWEGFIGASVATITSAFVLA 113 (271)
Q Consensus 90 SP~KT~EG~iGG~i~t~l~~~~~~ 113 (271)
+-.-|..|+..|..++-+.+.+.+
T Consensus 154 parP~lAGfaaGL~aGgi~a~~Ya 177 (213)
T COG4944 154 PARPTLAGFAAGLAAGGIGATVYA 177 (213)
T ss_pred CCCchHHHHHHHHhcccHHHHhhh
Confidence 345699999999988877666554
No 53
>PRK14122 tRNA pseudouridine synthase B; Provisional
Probab=22.56 E-value=51 Score=31.64 Aligned_cols=24 Identities=25% Similarity=0.450 Sum_probs=20.5
Q ss_pred HHHHhhcCCCCCCCCCCCCCcchhhhhhh
Q 024169 185 ASGFKRAFKIKDFGDSIPGHGGITDRMDC 213 (271)
Q Consensus 185 ~S~iKR~~gIKD~G~~iPGHGGiLDR~Ds 213 (271)
-..+||.+++|.- ||+|-||.+-+
T Consensus 18 v~~vrr~l~~kKv-----GH~GTLDP~At 41 (312)
T PRK14122 18 VNRARRALGTRRV-----GHTGTLDPLAT 41 (312)
T ss_pred HHHHHHHhCCCCC-----CCCCCCCCcCe
Confidence 3578999999975 99999999864
No 54
>PF14163 SieB: Superinfection exclusion protein B
Probab=22.16 E-value=1.4e+02 Score=24.94 Aligned_cols=26 Identities=27% Similarity=0.137 Sum_probs=17.5
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHHHHH
Q 024169 237 EMILEQILTALTYEEQKALYMKLGEI 262 (271)
Q Consensus 237 ~~~~~~~~~~l~~~~~~~l~~~l~~~ 262 (271)
++...+..++||++||.-|.+.+++.
T Consensus 69 ~~~~~~~l~~Lt~~EkavL~~~~~~~ 94 (151)
T PF14163_consen 69 KKKIEKKLNSLTPEEKAVLREFYIQG 94 (151)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHCC
Confidence 34444456789999988776655543
No 55
>PF13309 HTH_22: HTH domain
Probab=21.81 E-value=1.7e+02 Score=21.15 Aligned_cols=17 Identities=35% Similarity=0.419 Sum_probs=14.6
Q ss_pred hcCCHHHHHHHHHHHHH
Q 024169 245 TALTYEEQKALYMKLGE 261 (271)
Q Consensus 245 ~~l~~~~~~~l~~~l~~ 261 (271)
..|+.+|++++++.|.+
T Consensus 19 ~~l~~~~k~~iV~~L~~ 35 (64)
T PF13309_consen 19 SRLSKEEKKEIVRQLYE 35 (64)
T ss_pred hhCCHHHHHHHHHHHHH
Confidence 36899999999999875
No 56
>PF06790 UPF0259: Uncharacterised protein family (UPF0259); InterPro: IPR009627 This is a group of proteins of unknown function.
Probab=21.75 E-value=82 Score=29.22 Aligned_cols=20 Identities=25% Similarity=0.375 Sum_probs=15.6
Q ss_pred HHHHHhcCCHHHHHHHHHHH
Q 024169 240 LEQILTALTYEEQKALYMKL 259 (271)
Q Consensus 240 ~~~~~~~l~~~~~~~l~~~l 259 (271)
++++.+|||+|||..+++.-
T Consensus 63 l~~~v~~ms~eqq~~ll~~s 82 (248)
T PF06790_consen 63 LQDIVQQMSPEQQNVLLKAS 82 (248)
T ss_pred HHHHHHhCCHHHHHHHHHHH
Confidence 34466789999999998753
No 57
>PF04868 PDE6_gamma: Retinal cGMP phosphodiesterase, gamma subunit; InterPro: IPR006952 Retinal rod and cone cGMP phosphodiesterases function as the effector enzymes in the vertebrate visual transduction cascade. This family represents the inhibitory gamma subunit [], which is also expressed outside retinal tissues and has been shown to interact with the G-protein-coupled receptor kinase 2 signalling system to regulate the epidermal growth factor- and thrombin-dependent stimulation of p42/p44 mitogen-activated protein kinase in human embryonic kidney 293 cells [].; GO: 0004114 3',5'-cyclic-nucleotide phosphodiesterase activity, 0030553 cGMP binding, 0007601 visual perception; PDB: 2JU4_A 1FQJ_C 3JWR_D.
Probab=21.58 E-value=58 Score=25.26 Aligned_cols=20 Identities=40% Similarity=0.790 Sum_probs=13.6
Q ss_pred CCCCCCCCCCCCCcchhhhh
Q 024169 192 FKIKDFGDSIPGHGGITDRM 211 (271)
Q Consensus 192 ~gIKD~G~~iPGHGGiLDR~ 211 (271)
-|+|.||+-+||+-|+-+-+
T Consensus 41 kGvkGf~~~ipgmeglg~d~ 60 (83)
T PF04868_consen 41 KGVKGFGDDIPGMEGLGTDI 60 (83)
T ss_dssp SSSS--TTSSSSSTT-SHHH
T ss_pred CcccCccCcCcccccccCce
Confidence 48899999999999885543
No 58
>COG0130 TruB Pseudouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=21.05 E-value=53 Score=30.87 Aligned_cols=24 Identities=29% Similarity=0.522 Sum_probs=20.9
Q ss_pred HHHHhhcCCCCCCCCCCCCCcchhhhhhh
Q 024169 185 ASGFKRAFKIKDFGDSIPGHGGITDRMDC 213 (271)
Q Consensus 185 ~S~iKR~~gIKD~G~~iPGHGGiLDR~Ds 213 (271)
-+.+||.++.|.- ||+|-||-+-+
T Consensus 32 v~~vkkil~~~K~-----GH~GTLDP~at 55 (271)
T COG0130 32 VAWVKRILGVEKA-----GHGGTLDPLAT 55 (271)
T ss_pred HHHHHHHhCcccc-----ccccccCCccc
Confidence 4689999999996 99999998764
No 59
>PF08700 Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT tethering complex (also known as GARP complex, Golgi associated retrograde protein complex, Vps53 tethering complex) is a conserved eukaryotic docking complex which is involved in recycling of proteins from endosomes to the late Golgi. Vps51 (also known as Vps67) is a subunit of VFT and interacts with the SNARE Tlg1 [].
Probab=20.77 E-value=2.7e+02 Score=20.56 Aligned_cols=36 Identities=22% Similarity=0.399 Sum_probs=29.1
Q ss_pred CCCCCHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhc
Q 024169 231 PQSFRVEMILEQILTALTYEEQKALYMKLGEILQER 266 (271)
Q Consensus 231 ~~~~~~~~~~~~~~~~l~~~~~~~l~~~l~~~~~~~ 266 (271)
...+.++..++..+++.+.+|-+++.+.|...+.+.
T Consensus 3 ~~~fd~~~~~~~~l~~~s~~~i~~~~~~L~~~i~~~ 38 (87)
T PF08700_consen 3 SENFDVDEYFKDLLKNSSIKEIRQLENKLRQEIEEK 38 (87)
T ss_pred CCcCCHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHH
Confidence 356788888888888999999999988888776543
No 60
>TIGR00431 TruB tRNA pseudouridine 55 synthase. TruB, the tRNA pseudouridine 55 synthase, converts uracil to pseudouridine in the T loop (not the anticodon loop - beware mis-annotation in Swiss-Prot) of most tRNAs of all three domains of life. This model is built on a seed alignment of bacterial proteins only. Saccharomyces cerevisiae protein YNL292w (Pus4) has been shown to be the pseudouridine 55 synthase of both cytosolic and mitochondrial compartments, active at no other position on tRNA and the only enzyme active at that position in the species. A distinct yeast protein YLR175w, (centromere/microtubule-binding protein CBF5) is an rRNA pseudouridine synthase, and the archaeal set is much more similar to CBF5 than to Pus4. It is unclear whether the archaeal proteins found by this model are tRNA pseudouridine 55 synthases like TruB, rRNA pseudouridine synthases like CBF5, or (as suggested by the absence of paralogs in the Archaea) both. CBF5 likely has additional, eukaryotic-specific
Probab=20.69 E-value=59 Score=29.43 Aligned_cols=26 Identities=23% Similarity=0.465 Sum_probs=21.5
Q ss_pred HHHHhhcCCCCCCCCCCCCCcchhhhhhhhh
Q 024169 185 ASGFKRAFKIKDFGDSIPGHGGITDRMDCQM 215 (271)
Q Consensus 185 ~S~iKR~~gIKD~G~~iPGHGGiLDR~Dsll 215 (271)
-+.+||.+++|.- ||+|=||.+-+=+
T Consensus 19 v~~vkk~~~~kKv-----GH~GTLDP~AsGv 44 (209)
T TIGR00431 19 LAKVRRLLNVKKV-----GHTGTLDPFATGV 44 (209)
T ss_pred HHHHHHHhCCCcC-----CCCCCCCCcCceE
Confidence 4678999999863 9999999997544
No 61
>PRK10847 hypothetical protein; Provisional
Probab=20.69 E-value=54 Score=29.29 Aligned_cols=22 Identities=23% Similarity=0.514 Sum_probs=18.4
Q ss_pred HHHHhhhhHHHHhhhccCCccc
Q 024169 65 SLIVINDIAAYIFGFFFGRTPL 86 (271)
Q Consensus 65 ~~v~~nD~~AY~~Gk~fGk~kL 86 (271)
+-....|..+|..||.+|++.+
T Consensus 80 ~Ga~lG~~i~Y~lGr~~G~~~l 101 (219)
T PRK10847 80 IAAIVGDAVNYTIGRLFGEKLF 101 (219)
T ss_pred HHHHHHHHHHHHHHHHhCHHHh
Confidence 4467889999999999997755
No 62
>cd00506 PseudoU_synth_TruB_like PseudoU_synth_TruB: Pseudouridine synthase, TruB family. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases similar to Escherichia coli TruB, Saccharomyces cerevisiae Pus4, M. tuberculosis TruB, S. cerevisiae Cbf5 and human dyskerin. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E. coli TruB, M. tuberculosis TruB and S. cerevisiae Pus4, make psi55 in the T loop of tRNAs. Pus4 catalyses the formation of psi55 in both cytoplasmic and mitochondrial tRNAs. Psi55 is almost universally conserved. S. cerevisiae Cbf5 and human dyskerin are nucleolar proteins that, with the help of guide RNAs, make the hundreds of psueudouridnes present in rRNA and small nuclear RNAs (snRNAs). Cbf5/Dyskerin is the catalytic subunit of eukaryotic box H/ACA small nucleolar ribonucleoprotein (snoRNP) particles. Mutations in human dysker
Probab=20.66 E-value=56 Score=29.49 Aligned_cols=26 Identities=27% Similarity=0.541 Sum_probs=21.3
Q ss_pred HHHHhhcCCCCCCCCCCCCCcchhhhhhhhh
Q 024169 185 ASGFKRAFKIKDFGDSIPGHGGITDRMDCQM 215 (271)
Q Consensus 185 ~S~iKR~~gIKD~G~~iPGHGGiLDR~Dsll 215 (271)
-..+||.++.|.- ||+|=||.+-+=+
T Consensus 17 v~~ik~~~~~kKv-----GH~GTLDP~AsGv 42 (210)
T cd00506 17 VDTIRRIFLAEKV-----GHGGTLDPFATGV 42 (210)
T ss_pred HHHHHHHhCcccc-----CCCCcCCCcCeeE
Confidence 4578999999875 9999999998533
No 63
>COG1507 Uncharacterized conserved protein [Function unknown]
Probab=20.15 E-value=63 Score=28.15 Aligned_cols=32 Identities=28% Similarity=0.530 Sum_probs=25.6
Q ss_pred HHHHHHhhcCCCCCCCCCCCCCcchhhhhhhhh
Q 024169 183 FFASGFKRAFKIKDFGDSIPGHGGITDRMDCQM 215 (271)
Q Consensus 183 L~~S~iKR~~gIKD~G~~iPGHGGiLDR~Dsll 215 (271)
.=+|.+|.+-.|.+-|+.. +-||+-||+-|+=
T Consensus 92 aHe~~lkkR~~i~~~~t~~-~~gGm~D~vkClh 123 (167)
T COG1507 92 AHESYLKKRDAIEPLGTTV-SGGGMPDRVKCLH 123 (167)
T ss_pred HHHHHHHHHHhhcccCCee-cCCCcchHHHHHH
Confidence 3469999999999988554 5699999988865
Done!