Query psy13822
Match_columns 123
No_of_seqs 140 out of 1157
Neff 9.4
Searched_HMMs 46136
Date Fri Aug 16 21:20:49 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13822.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13822hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00211 Guanylate_cyc: Adenyl 100.0 8.1E-29 1.8E-33 165.0 11.0 117 4-122 2-118 (184)
2 smart00044 CYCc Adenylyl- / gu 100.0 2.9E-27 6.2E-32 158.9 15.4 120 2-122 28-148 (194)
3 KOG4171|consensus 100.0 2.2E-27 4.8E-32 179.4 13.1 121 2-123 434-554 (671)
4 cd07302 CHD cyclase homology d 99.9 6.6E-25 1.4E-29 144.2 15.2 113 10-122 1-113 (177)
5 COG2114 CyaA Adenylate cyclase 99.9 5.7E-25 1.2E-29 151.4 14.0 108 9-122 45-153 (227)
6 KOG3619|consensus 99.9 1.2E-24 2.7E-29 169.4 9.4 118 4-123 106-223 (867)
7 KOG3618|consensus 99.9 6.5E-24 1.4E-28 162.2 6.0 120 2-123 332-451 (1318)
8 KOG1023|consensus 99.9 2.9E-22 6.4E-27 149.3 5.1 122 2-123 288-410 (484)
9 KOG3619|consensus 99.4 3.1E-13 6.8E-18 106.3 7.9 119 3-123 643-778 (867)
10 cd07556 Nucleotidyl_cyc_III Cl 99.4 4.6E-11 1E-15 74.7 14.0 104 11-121 2-105 (133)
11 KOG3618|consensus 99.2 6.4E-12 1.4E-16 97.4 4.3 118 5-123 1078-1207(1318)
12 PF05165 GGDN: GGDN family; I 97.9 0.0004 8.8E-09 48.3 11.3 60 8-67 125-185 (246)
13 COG2429 Archaeal GTP cyclohydr 97.5 0.002 4.4E-08 44.3 9.8 61 9-69 130-191 (250)
14 PRK10245 adrA diguanylate cycl 97.5 0.0024 5.1E-08 47.2 10.8 98 8-111 234-331 (366)
15 PF00990 GGDEF: GGDEF domain; 97.4 0.0012 2.6E-08 41.9 7.3 103 8-113 30-132 (161)
16 smart00267 GGDEF diguanylate c 97.3 0.0079 1.7E-07 37.8 10.5 97 10-112 34-130 (163)
17 PRK02240 GTP cyclohydrolase II 97.3 0.008 1.7E-07 42.1 10.6 60 8-67 132-193 (254)
18 COG2199 c-di-GMP synthetase (d 97.1 0.018 4E-07 37.8 10.7 100 9-114 50-149 (181)
19 cd01949 GGDEF Diguanylate-cycl 97.0 0.021 4.6E-07 35.6 10.1 60 8-68 29-88 (158)
20 PRK09894 diguanylate cyclase; 96.8 0.043 9.4E-07 38.7 11.1 99 8-112 156-255 (296)
21 PRK02240 GTP cyclohydrolase II 96.8 0.017 3.7E-07 40.5 8.4 57 13-69 4-63 (254)
22 TIGR00254 GGDEF diguanylate cy 96.8 0.055 1.2E-06 34.3 10.3 98 9-112 32-131 (165)
23 PRK11059 regulatory protein Cs 96.7 0.052 1.1E-06 42.9 11.8 99 9-112 258-357 (640)
24 PRK14538 putative bifunctional 96.3 0.081 1.8E-06 43.3 10.7 99 9-114 203-301 (838)
25 PRK09966 putative inner membra 96.3 0.091 2E-06 38.9 10.4 101 8-113 276-377 (407)
26 PRK15426 putative diguanylate 96.0 0.17 3.6E-06 39.2 10.8 98 9-112 428-527 (570)
27 PRK13561 putative diguanylate 95.9 0.13 2.9E-06 40.6 10.1 81 8-93 256-336 (651)
28 PRK11829 biofilm formation reg 95.8 0.15 3.3E-06 40.3 9.9 80 9-93 261-340 (660)
29 TIGR02577 cas_TM1794_Crm2 CRIS 95.5 0.57 1.2E-05 36.1 11.8 81 8-96 341-442 (482)
30 COG3706 PleD Response regulato 95.5 0.2 4.4E-06 38.0 9.0 103 7-115 298-403 (435)
31 PRK10060 RNase II stability mo 95.3 0.28 6E-06 39.1 9.9 99 8-112 264-362 (663)
32 PF10851 DUF2652: Protein of u 95.0 0.47 1E-05 29.3 9.0 78 44-121 5-90 (116)
33 PRK11359 cyclic-di-GMP phospho 94.9 0.36 7.8E-06 38.7 9.5 99 8-112 401-499 (799)
34 PRK09776 putative diguanylate 94.8 0.52 1.1E-05 39.2 10.5 98 8-111 694-792 (1092)
35 COG3887 Predicted signaling pr 94.7 0.79 1.7E-05 36.2 10.4 98 11-115 175-272 (655)
36 TIGR02578 cas_TM1811_Csm1 CRIS 92.8 3.1 6.8E-05 33.4 11.0 92 9-112 521-625 (648)
37 PF05165 GGDN: GGDN family; I 91.9 3.2 7E-05 29.2 10.2 54 15-68 3-59 (246)
38 COG2429 Archaeal GTP cyclohydr 89.7 1.8 4E-05 30.1 6.0 55 13-67 4-61 (250)
39 PF11294 DUF3095: Protein of u 88.4 4.5 9.7E-05 30.3 7.8 71 10-85 26-98 (373)
40 PRK09581 pleD response regulat 86.8 11 0.00023 28.0 10.8 97 10-112 323-422 (457)
41 PF11608 Limkain-b1: Limkain b 84.7 5.5 0.00012 23.5 5.3 39 39-81 18-56 (90)
42 PRK14839 undecaprenyl pyrophos 77.9 21 0.00046 25.1 7.6 82 9-113 55-138 (239)
43 PRK14841 undecaprenyl pyrophos 72.9 30 0.00064 24.3 7.3 82 9-113 49-132 (233)
44 PRK14840 undecaprenyl pyrophos 71.5 33 0.00072 24.3 7.4 81 9-113 68-151 (250)
45 PRK14828 undecaprenyl pyrophos 71.4 34 0.00073 24.3 8.4 81 9-113 73-153 (256)
46 PRK14842 undecaprenyl pyrophos 70.2 35 0.00076 24.0 7.7 82 9-113 54-137 (241)
47 PRK14837 undecaprenyl pyrophos 69.4 36 0.00078 23.8 7.9 83 9-114 52-136 (230)
48 TIGR00055 uppS undecaprenyl di 69.2 36 0.00078 23.8 7.7 82 9-113 45-128 (226)
49 PRK14838 undecaprenyl pyrophos 68.7 38 0.00083 23.9 7.4 82 9-113 56-137 (242)
50 PHA03140 helicase-primase prim 68.4 37 0.0008 28.0 7.3 40 31-70 478-517 (772)
51 PRK14834 undecaprenyl pyrophos 67.8 41 0.00089 23.8 9.0 82 9-113 60-143 (249)
52 PRK14835 undecaprenyl pyrophos 66.5 46 0.001 24.0 8.2 82 9-113 87-172 (275)
53 PRK14836 undecaprenyl pyrophos 64.6 44 0.00096 23.7 6.5 69 27-113 73-143 (253)
54 PRK14833 undecaprenyl pyrophos 64.2 47 0.001 23.3 8.3 82 9-113 50-133 (233)
55 cd00475 CIS_IPPS Cis (Z)-Isopr 62.9 49 0.0011 23.0 7.3 50 9-63 46-97 (221)
56 PF08952 DUF1866: Domain of un 62.5 40 0.00087 21.9 5.6 30 39-68 48-78 (146)
57 PHA03144 helicase-primase prim 61.7 36 0.00078 28.0 6.1 41 32-72 472-512 (746)
58 KOG1602|consensus 61.4 52 0.0011 23.6 6.3 48 9-61 82-134 (271)
59 PF01255 Prenyltransf: Putativ 59.9 55 0.0012 22.6 8.0 49 9-62 40-92 (223)
60 PRK05406 LamB/YcsF family prot 59.8 16 0.00035 25.9 3.6 50 15-64 66-115 (246)
61 COG1353 Predicted CRISPR-assoc 59.8 1E+02 0.0022 25.7 9.3 83 7-97 518-622 (799)
62 COG1540 Uncharacterized protei 59.6 19 0.00041 25.4 3.8 50 15-64 66-115 (252)
63 PRK12569 hypothetical protein; 57.8 25 0.00055 24.9 4.3 50 15-64 69-118 (245)
64 PF03746 LamB_YcsF: LamB/YcsF 56.4 23 0.0005 25.0 3.9 49 15-63 64-112 (242)
65 COG5001 Predicted signal trans 55.3 51 0.0011 25.6 5.8 98 7-116 256-356 (663)
66 PRK14832 undecaprenyl pyrophos 53.7 79 0.0017 22.5 7.7 82 9-113 64-147 (253)
67 COG5040 BMH1 14-3-3 family pro 51.8 25 0.00055 24.2 3.4 59 53-115 120-181 (268)
68 COG2450 Uncharacterized conser 47.8 57 0.0012 20.6 4.3 32 35-66 79-110 (124)
69 PRK10240 undecaprenyl pyrophos 46.3 1E+02 0.0022 21.6 7.7 82 9-113 39-122 (229)
70 PF03460 NIR_SIR_ferr: Nitrite 43.1 24 0.00051 19.2 2.0 37 41-77 26-62 (69)
71 PRK14830 undecaprenyl pyrophos 41.7 1.3E+02 0.0027 21.4 8.4 49 9-63 68-119 (251)
72 PF10309 DUF2414: Protein of u 41.6 61 0.0013 17.8 5.3 46 26-82 14-60 (62)
73 PF07045 DUF1330: Protein of u 39.0 66 0.0014 17.4 5.3 32 36-68 3-34 (65)
74 PRK14827 undecaprenyl pyrophos 37.8 1.6E+02 0.0035 21.5 7.4 81 9-113 113-196 (296)
75 KOG2144|consensus 35.4 84 0.0018 23.2 4.1 46 8-55 65-111 (360)
76 smart00411 BHL bacterial (prok 33.3 96 0.0021 17.6 3.8 39 27-67 15-53 (90)
77 PF02197 RIIa: Regulatory subu 32.9 14 0.0003 18.0 -0.1 22 25-46 14-35 (38)
78 PHA03181 helicase-primase prim 32.4 3E+02 0.0065 23.0 9.5 39 32-70 481-519 (764)
79 PRK14829 undecaprenyl pyrophos 32.2 1.8E+02 0.004 20.5 7.7 48 9-62 60-110 (243)
80 PF14544 DUF4443: Domain of un 31.9 57 0.0012 20.1 2.4 29 58-88 76-104 (108)
81 PRK14831 undecaprenyl pyrophos 30.7 2E+02 0.0043 20.4 8.7 82 9-113 66-149 (249)
82 cd00591 HU_IHF Integration hos 30.7 1.1E+02 0.0023 17.3 3.6 39 27-67 14-52 (87)
83 PTZ00349 dehydrodolichyl dipho 29.5 2.4E+02 0.0052 21.0 7.7 81 9-113 65-151 (322)
84 PF01106 NifU: NifU-like domai 28.7 1.1E+02 0.0024 16.8 6.5 34 38-71 2-37 (68)
85 PF15530 Toxin_50: Putative to 28.3 35 0.00076 22.3 1.2 21 102-122 83-103 (168)
86 COG1877 OtsB Trehalose-6-phosp 27.9 2.3E+02 0.005 20.3 6.9 45 26-70 99-143 (266)
87 COG0417 PolB DNA polymerase el 26.7 3.8E+02 0.0083 22.4 8.4 55 34-93 536-590 (792)
88 PF00113 Enolase_C: Enolase, C 26.3 58 0.0013 23.7 2.1 34 29-62 36-69 (295)
89 PF01025 GrpE: GrpE; InterPro 25.9 1.6E+02 0.0034 19.0 4.0 34 30-63 87-120 (165)
90 PF13767 DUF4168: Domain of un 25.8 74 0.0016 17.9 2.1 35 24-58 27-61 (78)
91 PF07765 KIP1: KIP1-like prote 25.6 1.4E+02 0.0031 17.0 3.3 23 30-52 52-74 (74)
92 TIGR00988 hip integration host 25.3 1.5E+02 0.0032 17.2 4.2 39 27-67 16-54 (94)
93 COG5470 Uncharacterized conser 25.0 1.6E+02 0.0035 17.7 3.5 24 35-58 16-39 (96)
94 PF07342 DUF1474: Protein of u 24.7 1.3E+02 0.0028 18.2 3.0 25 27-51 58-82 (100)
95 PF08987 DUF1892: Protein of u 24.5 1.8E+02 0.004 18.0 4.5 36 32-67 49-86 (115)
96 PF02913 FAD-oxidase_C: FAD li 24.4 2.2E+02 0.0049 18.9 6.5 63 28-94 135-200 (248)
97 PRK10664 transcriptional regul 24.2 1.6E+02 0.0034 17.1 4.4 39 27-67 15-53 (90)
98 COG4191 Signal transduction hi 23.7 96 0.0021 25.0 3.0 43 31-73 81-124 (603)
99 PRK00207 sulfur transfer compl 23.4 2E+02 0.0043 18.0 4.0 28 63-90 3-30 (128)
100 cd04734 OYE_like_3_FMN Old yel 23.1 3.1E+02 0.0068 20.2 6.7 83 25-111 128-218 (343)
101 PF10369 ALS_ss_C: Small subun 22.9 1.5E+02 0.0033 16.6 4.1 26 42-67 17-42 (75)
102 cd05532 POLBc_alpha DNA polyme 22.0 3.6E+02 0.0078 20.4 8.1 32 38-69 142-173 (400)
103 PF14908 DUF4496: Domain of un 21.8 2.2E+02 0.0047 17.8 5.9 47 20-67 84-132 (140)
104 KOG1405|consensus 21.6 3.8E+02 0.0083 20.6 6.4 34 39-72 399-432 (484)
105 PF09677 TrbI_Ftype: Type-F co 21.5 1.7E+02 0.0036 18.0 3.2 54 12-65 32-93 (111)
106 cd00145 POLBc DNA polymerase t 21.5 3.3E+02 0.0072 19.9 9.5 55 33-91 134-188 (323)
107 PF07927 YcfA: YcfA-like prote 20.9 1.4E+02 0.003 15.2 4.2 28 41-68 1-28 (56)
108 PRK11127 autonomous glycyl rad 20.8 1.1E+02 0.0024 19.3 2.3 34 4-40 89-122 (127)
109 smart00394 RIIa RIIalpha, Regu 20.8 46 0.00099 16.0 0.5 21 26-46 15-35 (38)
110 PF03249 TSA: Type specific an 20.5 1.2E+02 0.0027 23.1 2.9 48 25-72 262-309 (503)
111 PHA00781 hypothetical protein 20.5 1.2E+02 0.0026 16.0 2.1 22 34-55 13-34 (59)
112 PRK10753 transcriptional regul 20.0 2E+02 0.0043 16.7 4.3 39 27-67 15-53 (90)
No 1
>PF00211 Guanylate_cyc: Adenylate and Guanylate cyclase catalytic domain; InterPro: IPR001054 Guanylate cyclases (4.6.1.2 from EC) catalyse the formation of cyclic GMP (cGMP) from GTP. cGMP acts as an intracellular messenger, activating cGMP-dependent kinases and regulating cGMP-sensitive ion channels. The role of cGMP as a second messenger in vascular smooth muscle relaxation and retinal photo-transduction is well established. Guanylate cyclase is found both in the soluble and particulate fractions of eukaryotic cells. The soluble and plasma membrane-bound forms differ in structure, regulation and other properties [, , , ]. Most currently known plasma membrane-bound forms are receptors for small polypeptides. The soluble forms of guanylate cyclase are cytoplasmic heterodimers having alpha and beta subunits. In all characterised eukaryote guanylyl- and adenylyl cyclases, cyclic nucleotide synthesis is carried out by the conserved class III cyclase domain. ; GO: 0016849 phosphorus-oxygen lyase activity, 0009190 cyclic nucleotide biosynthetic process, 0035556 intracellular signal transduction; PDB: 3UVJ_A 1FX4_A 1WC4_B 2BW7_D 1WC1_A 1WC0_A 1WC3_A 1WC5_A 1WC6_A 3ET6_B ....
Probab=99.96 E-value=8.1e-29 Score=165.02 Aligned_cols=117 Identities=37% Similarity=0.552 Sum_probs=108.8
Q ss_pred CCCceeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHH
Q psy13822 4 DPEDFREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATM 83 (123)
Q Consensus 4 ~~~~~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~ 83 (123)
+.++++++|+||+||+|||.+++.++|+++..++++++..+.+++++|+|.++++.||++|++||.+....+++.+|+++
T Consensus 2 ~~~~~~~vtvlf~di~~ft~l~~~~~~~~~~~~l~~~~~~~~~~v~~~~g~~~~~~Gd~~~~~f~~~~~~~~~~~~a~~~ 81 (184)
T PF00211_consen 2 YSEQYRNVTVLFADIVGFTDLTEQLDPEELVRLLNDFFSSLDRIVKQHGGEIIKFIGDGVMAVFGLPEPDEDAAERAVQF 81 (184)
T ss_dssp EEEEEEEEEEEEEEETTHHHHHHHSHHHHHHHHHHHHHHHHHHHHHHTTEEEEEEETTEEEEEESSSSCHCHHHHHHHHH
T ss_pred CccccCeEEEEEEEecCcHHHHHhCCchhHHHHHHHHHHHhhhccccccccccccccceeEEEecccccccccccccccc
Confidence 34678999999999999999999999999999999999999999999999999999999999999998889999999999
Q ss_pred HHHHHHHhhhhhhcCCCCCceeEEEeeecCceeEEeecC
Q psy13822 84 ALDLLHHSGRFKIRHLPYTPLRLRIGLHTGRPVSKHLRK 122 (123)
Q Consensus 84 al~~~~~~~~~~~~~~~~~~l~~rIGi~~G~v~~g~iG~ 122 (123)
|+++++.+++++... ..++++|||||+|++++|.+|.
T Consensus 82 al~~~~~~~~~~~~~--~~~~~~rIGI~~G~v~~g~~G~ 118 (184)
T PF00211_consen 82 ALALLEALERLNKES--GPPLSVRIGIHTGPVVVGVVGS 118 (184)
T ss_dssp HHHHHHHHHHHHHHH--HSS-EEEEEEEEEEEEEEEEES
T ss_pred ccchhhccccccccc--ceeeeeeccccccccccccccC
Confidence 999999998887654 5689999999999999999984
No 2
>smart00044 CYCc Adenylyl- / guanylyl cyclase, catalytic domain. Present in two copies in mammalian adenylyl cyclases. Eubacterial homologues are known. Two residues (Asn, Arg) are thought to be involved in catalysis. These cyclases have important roles in a diverse range of cellular processes.
Probab=99.96 E-value=2.9e-27 Score=158.94 Aligned_cols=120 Identities=50% Similarity=0.732 Sum_probs=111.1
Q ss_pred CCCCCceeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCC-chHHHHH
Q psy13822 2 PVDPEDFREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRI-PDHADQI 80 (123)
Q Consensus 2 ~~~~~~~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~-~~~~~~a 80 (123)
|..+.+++++|+||+||+|||.+++..+++++..+++.++..+.+++++|||++.++.||++|++|+.|... .+++.+|
T Consensus 28 ~~~~~~~~~~tvlf~di~g~t~l~~~~~~~~~~~~l~~~~~~~~~~i~~~gg~v~~~~Gd~~l~~F~~~~~~~~~~a~~a 107 (194)
T smart00044 28 PVPAESYDNVTILFTDIVGFTTLSSEATPEQVVTLLNDLYSRFDRIIDRHGGYKVKTIGDAYMVVSGLPTEALVDHAELA 107 (194)
T ss_pred CccccccCeEEEEEeEhhhhhhhhhhCCHHHHHHHHHHHHHHHHHHHHhcCeEEEEEeCCEEEEEECCCCCcchHHHHHH
Confidence 345678899999999999999999999999999999999999999999999999999999999999999887 5999999
Q ss_pred HHHHHHHHHHhhhhhhcCCCCCceeEEEeeecCceeEEeecC
Q psy13822 81 ATMALDLLHHSGRFKIRHLPYTPLRLRIGLHTGRPVSKHLRK 122 (123)
Q Consensus 81 ~~~al~~~~~~~~~~~~~~~~~~l~~rIGi~~G~v~~g~iG~ 122 (123)
+.+|+++++.+..++... ...++++|||||+|++++|.+|.
T Consensus 108 ~~~al~l~~~~~~~~~~~-~~~~l~~riGih~G~v~~~~~g~ 148 (194)
T smart00044 108 ADEALDMVESLKTVLSQH-RGNGLRVRIGIHTGPVVAGVVGI 148 (194)
T ss_pred HHHHHHHHHHHHHHHhhc-cCCCeeEEEEEeccceEEEecCC
Confidence 999999999998886644 36789999999999999999986
No 3
>KOG4171|consensus
Probab=99.95 E-value=2.2e-27 Score=179.40 Aligned_cols=121 Identities=48% Similarity=0.775 Sum_probs=114.7
Q ss_pred CCCCCceeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHH
Q psy13822 2 PVDPEDFREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIA 81 (123)
Q Consensus 2 ~~~~~~~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~ 81 (123)
++.+.++.++|+||+||++||.+...+.|.+++.+||++|+.+++++.-++.|++.++||.||++.|+|...+.||+++|
T Consensus 434 ~v~a~~f~~vTilFsdIv~Ft~ic~~ctp~~vV~~LN~lyt~fD~~i~~~~VYKVETIGDaYm~vsG~P~~~~~HAe~i~ 513 (671)
T KOG4171|consen 434 SVDAKEFDDVTILFSDIVGFTAICSQCTPMQVVNMLNELYTRFDRIIDTHDVYKVETIGDAYMVVSGLPDASDYHAEHIA 513 (671)
T ss_pred CcCccccCceEEEEeccchHHhHhhccCcHHHHHHHHHHHHHHHHhhcccCeEEEeeccchheeecCCCCCChhHHHHHH
Confidence 57788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhhhhhcCCCCCceeEEEeeecCceeEEeecCC
Q psy13822 82 TMALDLLHHSGRFKIRHLPYTPLRLRIGLHTGRPVSKHLRKK 123 (123)
Q Consensus 82 ~~al~~~~~~~~~~~~~~~~~~l~~rIGi~~G~v~~g~iG~~ 123 (123)
.+||.|....+..-... ...++.+|||||+|||++|++|-|
T Consensus 514 ~~AL~Mm~~ak~v~~p~-~~~pi~iRiGIHsG~VvAGVVG~k 554 (671)
T KOG4171|consen 514 DLALGMMEEAKEVVSPV-TGEPIQIRIGIHSGPVVAGVVGVK 554 (671)
T ss_pred HHHHHHHHHhhhhcCcC-CCCceEEEEEeccCCeeeeeeccc
Confidence 99999999998876554 567999999999999999999975
No 4
>cd07302 CHD cyclase homology domain. Catalytic domains of the mononucleotidyl cyclases (MNC's), also called cyclase homology domains (CHDs), are part of the class III nucleotidyl cyclases. This class includes eukaryotic and prokaryotic adenylate cyclases (AC's) and guanylate cyclases (GC's). They seem to share a common catalytic mechanism in their requirement for two magnesium ions to bind the polyphosphate moiety of the nucleotide.
Probab=99.93 E-value=6.6e-25 Score=144.19 Aligned_cols=113 Identities=41% Similarity=0.581 Sum_probs=106.8
Q ss_pred eEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHHHH
Q psy13822 10 EVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDLLH 89 (123)
Q Consensus 10 ~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~~ 89 (123)
++|++|+||++||.+.+..+++++..+++.++..+.+++..|+|++.++.||+++++|+.+...++++.+|+++|+++++
T Consensus 1 ~~~il~~di~~~t~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~g~~~~~~gd~~~~~f~~~~~~~~~~~~A~~~a~~i~~ 80 (177)
T cd07302 1 EVTVLFADIVGFTALSERLGPEELVELLNEYFSAFDEIIERHGGTVDKTIGDAVMAVFGLPGAHEDHAERAVRAALEMQE 80 (177)
T ss_pred CEEEEEEEccChHHHHhcCCHHHHHHHHHHHHHHHHHHHHHcCCEEEEEeCceEEEEeCCCCCchhHHHHHHHHHHHHHH
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhhhhcCCCCCceeEEEeeecCceeEEeecC
Q psy13822 90 HSGRFKIRHLPYTPLRLRIGLHTGRPVSKHLRK 122 (123)
Q Consensus 90 ~~~~~~~~~~~~~~l~~rIGi~~G~v~~g~iG~ 122 (123)
.+..++........+++|||||+|++++|.+|.
T Consensus 81 ~~~~~~~~~~~~~~~~~riGi~~G~~~~g~~g~ 113 (177)
T cd07302 81 ALAELNAEREGGPPLRLRIGIHTGPVVAGVVGS 113 (177)
T ss_pred HHHHHhhcccCCCCeEEEEEEecceEEEEecCC
Confidence 999987664456789999999999999999986
No 5
>COG2114 CyaA Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]
Probab=99.93 E-value=5.7e-25 Score=151.42 Aligned_cols=108 Identities=32% Similarity=0.441 Sum_probs=90.0
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHH-HHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIAT-MALDL 87 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~-~al~~ 87 (123)
+++|+||+||+|||.+++.++++++..+++.|+..+..++.+|||.++|++||++|++||.|...+ ++.+++. +.+++
T Consensus 45 ~~vtilfaDi~g~T~l~~~~~~~~~~~ll~~~~~~~~~~v~~~gG~v~k~iGD~~la~F~~p~~~~-~A~~~a~~~~~~~ 123 (227)
T COG2114 45 RRVTLLFADIVGSTELSESLGDEALVELLNLYFDAVAEVVARHGGRVVKFIGDGFLAVFGRPSPLE-DAVACALDLQLAL 123 (227)
T ss_pred ceEEEEEEeeccchHHhhhCCHHHHHHHHHHHHHHHHHHHHHcCCEEEEEecceEEEEeCCCCCcH-HHHHHHHHHHHHH
Confidence 599999999999999999999999999999999999999999999999999999999999997766 2222222 34455
Q ss_pred HHHhhhhhhcCCCCCceeEEEeeecCceeEEeecC
Q psy13822 88 LHHSGRFKIRHLPYTPLRLRIGLHTGRPVSKHLRK 122 (123)
Q Consensus 88 ~~~~~~~~~~~~~~~~l~~rIGi~~G~v~~g~iG~ 122 (123)
+....+.+.. .+++|||||+|+++.|.+|+
T Consensus 124 ~~~~~~~~~~-----~l~~riGi~~G~vv~~~~g~ 153 (227)
T COG2114 124 RNPLARLRRE-----SLRVRIGIHTGEVVVGNTGG 153 (227)
T ss_pred HHHHhhccCc-----CeeEEEEEEeecEEEEeecC
Confidence 5444443221 29999999999999999874
No 6
>KOG3619|consensus
Probab=99.91 E-value=1.2e-24 Score=169.38 Aligned_cols=118 Identities=30% Similarity=0.540 Sum_probs=111.8
Q ss_pred CCCceeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHH
Q psy13822 4 DPEDFREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATM 83 (123)
Q Consensus 4 ~~~~~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~ 83 (123)
+-+.+.+++++|+||+|||.++.++++++++++||++|.+++++..++++..+|+.||+++++.|.|+.+++||..++++
T Consensus 106 y~~~h~nVSIl~adivgft~l~s~~saqelv~~LneLf~rfd~lA~~~~clRiKiLGdcyyCvsglp~~~~dHA~~~v~m 185 (867)
T KOG3619|consen 106 YIQRHDNVSILFADIVGFTQLASQCSAQELVKVLNELFARFDRLAAENHCLRIKILGDCYYCVSGLPEARPDHAVCCVEM 185 (867)
T ss_pred heeeccchHhhHHHHhhhhhhhcCCCHHHHHHHHHHHHHHHHHHHHhcceEeeeeecceeEEecCCCCCChhHHHHHHHH
Confidence 45678899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhhhhhcCCCCCceeEEEeeecCceeEEeecCC
Q psy13822 84 ALDLLHHSGRFKIRHLPYTPLRLRIGLHTGRPVSKHLRKK 123 (123)
Q Consensus 84 al~~~~~~~~~~~~~~~~~~l~~rIGi~~G~v~~g~iG~~ 123 (123)
.++|+++++..+.. .+.++++|||||+|+|.+|++|-+
T Consensus 186 gl~Mi~aI~~vr~a--t~~dvnmrvGihsG~Vl~GvlG~~ 223 (867)
T KOG3619|consen 186 GLDMIKAIKQVREA--TGVDVNMRVGIHSGSVLCGVLGLR 223 (867)
T ss_pred HHHHHHHHHHHHHH--hCCCCceEEEEecCceeecccccc
Confidence 99999999998665 577999999999999999999954
No 7
>KOG3618|consensus
Probab=99.89 E-value=6.5e-24 Score=162.18 Aligned_cols=120 Identities=32% Similarity=0.544 Sum_probs=111.9
Q ss_pred CCCCCceeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHH
Q psy13822 2 PVDPEDFREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIA 81 (123)
Q Consensus 2 ~~~~~~~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~ 81 (123)
|+.-....+++|||+||+|||++++.-+.++++.+||++|.+++++.+..|+.++.+.||+++|+-|.|++..+||.+++
T Consensus 332 PF~M~~menVSILFADIvGFTkMSsnKsA~~LV~lLNDLFgRFD~LC~l~gcEKISTLGDCYYCVaGCPEPraDHA~ccv 411 (1318)
T KOG3618|consen 332 PFKMQQMENVSILFADIVGFTKMSSNKSAHALVGLLNDLFGRFDRLCELTGCEKISTLGDCYYCVAGCPEPRADHAYCCV 411 (1318)
T ss_pred chhhhhhhhhhhhhhhhhchhhccccccHHHHHHHHHHHHHHHHHHHHhcCcchhccccceeeeecCCCCCcccceeeeh
Confidence 55556778999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhhhhhcCCCCCceeEEEeeecCceeEEeecCC
Q psy13822 82 TMALDLLHHSGRFKIRHLPYTPLRLRIGLHTGRPVSKHLRKK 123 (123)
Q Consensus 82 ~~al~~~~~~~~~~~~~~~~~~l~~rIGi~~G~v~~g~iG~~ 123 (123)
++.+.|+.+++++.... .+-+++|+|+|+|.|+||.+|.|
T Consensus 412 EMGLgMI~AirqFd~~r--~e~VnMRVGvHTGtVlCGivGtr 451 (1318)
T KOG3618|consen 412 EMGLGMIKAIRQFDQER--KEMVNMRVGVHTGTVLCGIVGTR 451 (1318)
T ss_pred hhcchHHHHHHHHHHHh--hcccceEEEEecceEEeeeeecc
Confidence 99999999999986543 45789999999999999999975
No 8
>KOG1023|consensus
Probab=99.86 E-value=2.9e-22 Score=149.27 Aligned_cols=122 Identities=59% Similarity=0.908 Sum_probs=116.7
Q ss_pred CCCCCceeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCc-hHHHHH
Q psy13822 2 PVDPEDFREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIP-DHADQI 80 (123)
Q Consensus 2 ~~~~~~~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~-~~~~~a 80 (123)
++.|+.+..+|++|.|+++||.++....|.+++.++|++++.++.++++|+++++.++||++|++.|.|..++ .|+...
T Consensus 288 ~v~pe~~~~vti~fsDiv~fT~l~~~~~P~~vv~~lNdlyt~Fd~ii~~~d~yKVetiGDaYmvvSglp~~n~~~H~~ei 367 (484)
T KOG1023|consen 288 TVDPESFDSVTIYFSDIVGFTVLSSNSTPIQVVTLLNDLYTTFDRIIDKHDVYKVETIGDAYMVVSGLPIRNGYRHAREI 367 (484)
T ss_pred cCCccccCceeeeeHHHHHHHHHHhcCCCceeeeeccchHHhhhhcccccCCeeEeccCcceeecccCceecHhHHHHHH
Confidence 5678999999999999999999999999999999999999999999999999999999999999999998876 489999
Q ss_pred HHHHHHHHHHhhhhhhcCCCCCceeEEEeeecCceeEEeecCC
Q psy13822 81 ATMALDLLHHSGRFKIRHLPYTPLRLRIGLHTGRPVSKHLRKK 123 (123)
Q Consensus 81 ~~~al~~~~~~~~~~~~~~~~~~l~~rIGi~~G~v~~g~iG~~ 123 (123)
+..+++++..+..+..++.+..++++|||+|+||+.+|++|.+
T Consensus 368 a~msl~~~~~~~~f~i~H~P~~~l~iRig~~sg~~~agVvgl~ 410 (484)
T KOG1023|consen 368 ASMALGLRSFLESFSLPHRPWEKLRLRIGFHSGPVVAGVVGLK 410 (484)
T ss_pred HHHHHHHHHHHhccCCCCCCchhhheeeccccCCceecccccC
Confidence 9999999999999999988899999999999999999999964
No 9
>KOG3619|consensus
Probab=99.44 E-value=3.1e-13 Score=106.34 Aligned_cols=119 Identities=25% Similarity=0.475 Sum_probs=100.6
Q ss_pred CCCCceeeEEEEEeeccChhhhccCCC----HHHHHHHHHHHHHHHHHHHh--hc-CeEEEeeeCcEEEEEeCCCCCC--
Q psy13822 3 VDPEDFREVTIYFSDIVGFTTISAYST----PFEVVDLLNDLYTCFDATIN--AY-NVYKVETIGDAYMVVGGLPVRI-- 73 (123)
Q Consensus 3 ~~~~~~~~~tvlf~di~~~t~l~~~~~----~~~~~~~l~~~~~~~~~~v~--~~-gg~~~~~~Gd~~~~~fg~~~~~-- 73 (123)
++++.+..|.|||+.+.||.....+.+ -.+.+++||++...+++++. ++ +..++|++|..|||+.|.....
T Consensus 643 LY~qSy~~VgVMFASipnF~dFYsE~d~NneGlECLRlLNEIIaDFDeLL~~pkF~~IEKIKTIGSTYMAAsGL~~~~~~ 722 (867)
T KOG3619|consen 643 LYHQSYDCVGVMFASIPNFKDFYSECDVNNEGLECLRLLNEIIADFDELLSKPKFSGVEKIKTIGSTYMAASGLNPTSAQ 722 (867)
T ss_pred HHHhhhceEEEEEEecCCcceeeeeecCCcccchHHHHHHHHHhhHHHhcCccccccceeEEEecchhhhhhCCChhhhh
Confidence 346778999999999999988766553 36899999999999999997 55 6799999999999999984321
Q ss_pred -c-------hHHHHHHHHHHHHHHHhhhhhhcCCCCCceeEEEeeecCceeEEeecCC
Q psy13822 74 -P-------DHADQIATMALDLLHHSGRFKIRHLPYTPLRLRIGLHTGRPVSKHLRKK 123 (123)
Q Consensus 74 -~-------~~~~~a~~~al~~~~~~~~~~~~~~~~~~l~~rIGi~~G~v~~g~iG~~ 123 (123)
. .|....+++|++|...++..|.. ..+...+||||+.||+++|++|.|
T Consensus 723 ~~~~~~~~~~h~~~l~eFAlal~~~L~~IN~~--SfNnF~LrIGin~GpvvAGVIGAr 778 (867)
T KOG3619|consen 723 ENDQSLRQWSHLGALVEFALALMHKLDEINRH--SFNNFELRIGINHGPVVAGVIGAR 778 (867)
T ss_pred ccCcchhHHhhHHHHHHHHHHHHHHHHhhhHH--hhccceeeeceeccceeeeEecCC
Confidence 1 46678899999999999999854 366889999999999999999975
No 10
>cd07556 Nucleotidyl_cyc_III Class III nucleotidyl cyclases. Class III nucleotidyl cyclases are the largest, most diverse group of nucleotidyl cyclases (NC's) containing prokaryotic and eukaryotic proteins. They can be divided into two major groups; the mononucleotidyl cyclases (MNC's) and the diguanylate cyclases (DGC's). The MNC's, which include the adenylate cyclases (AC's) and the guanylate cyclases (GC's), have a conserved cyclase homology domain (CHD), while the DGC's have a conserved GGDEF domain, named after a conserved motif within this subgroup. Their products, cyclic guanylyl and adenylyl nucleotides, are second messengers that play important roles in eukaryotic signal transduction and prokaryotic sensory pathways.
Probab=99.39 E-value=4.6e-11 Score=74.72 Aligned_cols=104 Identities=40% Similarity=0.593 Sum_probs=88.9
Q ss_pred EEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHHHHH
Q psy13822 11 VTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDLLHH 90 (123)
Q Consensus 11 ~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~~~ 90 (123)
++++++||.+|+.+.+..+.....++++.+...+.+++..+++.+.++.||.++++|.. ....++..++..+.+.
T Consensus 2 ~~ll~i~i~~~~~i~~~~g~~~~~~~l~~~~~~l~~~~~~~~~~~~r~~~d~f~~l~~~-----~~~~~~~~~~~~i~~~ 76 (133)
T cd07556 2 VTILFADIVGFTSLADALGPDEGDELLNELAGRFDSLIRRSGDLKIKTIGDEFMVVSGL-----DHPAAAVAFAEDMREA 76 (133)
T ss_pred EEEEEEEchhhHHHHhcCCHHHHHHHHHHHHHHHHHHHHHcCcEEEEeecceEEEEECc-----hHHHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999998999999999999999943 4556788888888887
Q ss_pred hhhhhhcCCCCCceeEEEeeecCceeEEeec
Q psy13822 91 SGRFKIRHLPYTPLRLRIGLHTGRPVSKHLR 121 (123)
Q Consensus 91 ~~~~~~~~~~~~~l~~rIGi~~G~v~~g~iG 121 (123)
+...... ....+.++||+++|++..+..|
T Consensus 77 ~~~~~~~--~~~~~~~~ig~~~g~~~~~~~~ 105 (133)
T cd07556 77 VSALNQS--EGNPVRVRIGIHTGPVVVGVIG 105 (133)
T ss_pred HHHHHhc--cCCceEEEEEEecccEEEEecc
Confidence 7654322 3446889999999999888544
No 11
>KOG3618|consensus
Probab=99.24 E-value=6.4e-12 Score=97.41 Aligned_cols=118 Identities=22% Similarity=0.355 Sum_probs=101.3
Q ss_pred CCceeeEEEEEeeccChhhhccCC--CHHHHHHHHHHHHHHHHHHHhhc---CeEEEeeeCcEEEEEeCCCCC-------
Q psy13822 5 PEDFREVTIYFSDIVGFTTISAYS--TPFEVVDLLNDLYTCFDATINAY---NVYKVETIGDAYMVVGGLPVR------- 72 (123)
Q Consensus 5 ~~~~~~~tvlf~di~~~t~l~~~~--~~~~~~~~l~~~~~~~~~~v~~~---gg~~~~~~Gd~~~~~fg~~~~------- 72 (123)
++...++.|+|+.|+||.++.++. +-.|+.+.||++...+++++.+= ...++|++|-.+||..|+...
T Consensus 1078 SeNH~~~gviFASIvNfnemYeEnyeGGkEflRVLNElIGDFDELLsrPdf~~iEKIKTIG~tyMAASGLnp~~~~~~~h 1157 (1318)
T KOG3618|consen 1078 SENHDSGGVIFASIVNFNEMYEENYEGGKEFLRVLNELIGDFDELLSRPDFSSIEKIKTIGATYMAASGLNPAQAQDGSH 1157 (1318)
T ss_pred cccCccceEEEEEeccHHHHHHHhhhchHHHHHHHHHHhccHHHHhccccchhhHHHhhhhHHHHHhcCCChHHccCCCC
Confidence 556778999999999999998765 67999999999999999999764 478899999999999998432
Q ss_pred CchHHHHHHHHHHHHHHHhhhhhhcCCCCCceeEEEeeecCceeEEeecCC
Q psy13822 73 IPDHADQIATMALDLLHHSGRFKIRHLPYTPLRLRIGLHTGRPVSKHLRKK 123 (123)
Q Consensus 73 ~~~~~~~a~~~al~~~~~~~~~~~~~~~~~~l~~rIGi~~G~v~~g~iG~~ 123 (123)
..+|-....++|++|++.+..+|..- -..++.+|||++.|||.+|+||+.
T Consensus 1158 p~EHl~~l~eFa~amq~Vvd~FN~dl-L~Fnf~lrvG~NiGpvTAGVIGTt 1207 (1318)
T KOG3618|consen 1158 PQEHLQILFEFAKAMQRVVDDFNNDL-LWFNFKLRVGFNIGPVTAGVIGTT 1207 (1318)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhh-hheeeeEEeeccccCccccccccc
Confidence 24688899999999999999998643 345788999999999999999973
No 12
>PF05165 GGDN: GGDN family; InterPro: IPR007839 GTP cyclohydrolase III catalyses the formation of 2-amino-5-formylamino-6- ribofuranosylamino-4(3H)-pyrimidinone ribonucleotide monophosphate and inorganic phosphate from GTP. The enzyme also has an independent pyrophosphate phosphohydrolase activity. The proteins are 200-270 amino acids in length.; GO: 0003933 GTP cyclohydrolase activity, 0009058 biosynthetic process; PDB: 2QV6_B.
Probab=97.93 E-value=0.0004 Score=48.31 Aligned_cols=60 Identities=25% Similarity=0.237 Sum_probs=49.9
Q ss_pred eeeEEEEEeeccChh-hhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEe
Q psy13822 8 FREVTIYFSDIVGFT-TISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVG 67 (123)
Q Consensus 8 ~~~~tvlf~di~~~t-~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~f 67 (123)
-..+++...||.++| .+++..+|-+....+.+.+..+.+.++++|+...-.-||-+|++.
T Consensus 125 d~~v~iAH~DI~d~T~~~Td~~~~ydt~~~I~~l~~~l~~~~~~~G~L~fylGGDNi~~v~ 185 (246)
T PF05165_consen 125 DGYVQIAHFDINDSTGTYTDEESPYDTYLEIEDLYAKLMKYLEKYGSLAFYLGGDNIMAVC 185 (246)
T ss_dssp S--EEEEEEEETTHHHHTTTTS-HHHHHHHHHHHHHHHHHHHHTTT---EEEETTEEEEE-
T ss_pred CCceEEEEEeeeccchhhhcccChHHHHHHHHHHHHHHHHHHHhcCCEEEEecCceEEEEC
Confidence 456899999999999 999999999999999999999999999999988888899999987
No 13
>COG2429 Archaeal GTP cyclohydrolase III [Nucleotide transport and metabolism]
Probab=97.55 E-value=0.002 Score=44.25 Aligned_cols=61 Identities=18% Similarity=0.163 Sum_probs=55.2
Q ss_pred eeEEEEEeeccChh-hhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCC
Q psy13822 9 REVTIYFSDIVGFT-TISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGL 69 (123)
Q Consensus 9 ~~~tvlf~di~~~t-~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~ 69 (123)
.-+.+...|+.+.| .++...+|-+....+++....+.+.+.++|+...-.-||.+|++.+.
T Consensus 130 g~v~IAH~Dvn~~Tgt~Td~~~~~~t~~~I~~~~~~L~~~l~k~gal~fflGGDN~ma~~p~ 191 (250)
T COG2429 130 GYVQIAHFDVNDATGTYTDIVSPYDTYTEIQRVYATLMRFLEKIGALLFFLGGDNIMAVCPG 191 (250)
T ss_pred CceEEEEEeeecchhhhhcccchhHHHHHHHHHHHHHHHHHHhcCcEEEEecCcceEEECCC
Confidence 35788999999999 88999999999999999999999999999998887889999999844
No 14
>PRK10245 adrA diguanylate cyclase AdrA; Provisional
Probab=97.52 E-value=0.0024 Score=47.17 Aligned_cols=98 Identities=17% Similarity=0.177 Sum_probs=69.7
Q ss_pred eeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHH
Q psy13822 8 FREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDL 87 (123)
Q Consensus 8 ~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~ 87 (123)
.++.+++++||.+|..+.+..+.+.--.++.++...+.+.+.. +..+-++.||.+.++... . ....+.+.+-.+
T Consensus 234 ~~~~~ll~idId~Fk~INd~~Gh~~GD~lL~~vA~~L~~~l~~-~d~laRlggdeFavll~~--~---~~~~a~~~~~rl 307 (366)
T PRK10245 234 HRDATLLIIDIDHFKSINDTWGHDVGDEAIVALTRQLQITLRG-SDVIGRFGGDEFAVIMSG--T---PAESAITAMSRV 307 (366)
T ss_pred CCCEEEEEEECCcchHHHHhhCchHHHHHHHHHHHHHHHhCCC-CCEEEEEcCcEEEEEeCC--C---CHHHHHHHHHHH
Confidence 4568999999999999999998888888888888888887755 457788999999988732 1 223345555666
Q ss_pred HHHhhhhhhcCCCCCceeEEEeee
Q psy13822 88 LHHSGRFKIRHLPYTPLRLRIGLH 111 (123)
Q Consensus 88 ~~~~~~~~~~~~~~~~l~~rIGi~ 111 (123)
++.++...........+++.||+.
T Consensus 308 ~~~l~~~~~~~~~~i~~s~SiGia 331 (366)
T PRK10245 308 HEGLNTLRLPNAPQVTLRISVGVA 331 (366)
T ss_pred HHHHhhcccCCCCceEEEEEEEEE
Confidence 666665443322233566777775
No 15
>PF00990 GGDEF: GGDEF domain; InterPro: IPR000160 This domain appears to be ubiquitous in bacteria and is often linked to a regulatory domain, such as a phosphorylation receiver or oxygen sensing domain. Its function is to synthesize cyclic di-GMP, which is used as an intracellular signalling molecule in a wide variety of bacteria [,]. Enzymatic activity can be strongly influenced by the adjacent domains. Processes regulated by this domain include exopolysaccharide synthesis, biofilm formation, motility and cell differentiation. Structural studies of PleD from Caulobacter crescentus show that this domain forms a five-stranded beta sheet surrounded by helices, similar to the catalytic core of adenylate cyclase [].; PDB: 3IGN_A 3BRE_B 3EZU_A 3ICL_B 3PJX_A 3PJW_A 3HVW_A 3HVA_B 3I5C_B 3I5B_B ....
Probab=97.42 E-value=0.0012 Score=41.86 Aligned_cols=103 Identities=11% Similarity=0.011 Sum_probs=69.7
Q ss_pred eeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHH
Q psy13822 8 FREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDL 87 (123)
Q Consensus 8 ~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~ 87 (123)
....++++++|.++..+....+.+..-.++..+...+...+.. +..+.++.+|.+++++.. ...+.+....+....+
T Consensus 30 ~~~~~l~~i~i~~~~~l~~~~G~~~~~~~l~~i~~~L~~~~~~-~~~~~r~~~~~f~il~~~--~~~~~~~~~~~~~~~~ 106 (161)
T PF00990_consen 30 GEPFALVLIDIDNLDELNEKYGYEVGDEILRQIAKRLKKQLRE-SDILARLGDDEFAILLPD--TDSEEAEELAERLERL 106 (161)
T ss_dssp TSEEEEEEEEETTHHHHHHHHHHHHHHHHHHHHHHHHHHHCCT-TSEEEEEETTEEEEEEET--CTHHHHHHHHHHHHHH
T ss_pred CCCceEEEEeccccccccccccccccccccccccccccccccc-ccccccccchheeecccc--cccccchhhhhhhhhh
Confidence 4678999999999999999888888888888888888888777 667788899999888732 2223344555555555
Q ss_pred HHHhhhhhhcCCCCCceeEEEeeecC
Q psy13822 88 LHHSGRFKIRHLPYTPLRLRIGLHTG 113 (123)
Q Consensus 88 ~~~~~~~~~~~~~~~~l~~rIGi~~G 113 (123)
.+.+............+.+.+|+...
T Consensus 107 ~~~~~~~~~~~~~~~~~~~~~G~~~~ 132 (161)
T PF00990_consen 107 IDELNEPIDIDGIEVHLTLSIGIAVY 132 (161)
T ss_dssp HHHHCCEEESTTEEEECEEEEEEEEE
T ss_pred hhhcccccccccccccccccceEEEe
Confidence 54444321111111245666666554
No 16
>smart00267 GGDEF diguanylate cyclase. Diguanylate cyclase, present in a variety of bacteria
Probab=97.35 E-value=0.0079 Score=37.83 Aligned_cols=97 Identities=14% Similarity=0.135 Sum_probs=66.5
Q ss_pred eEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHHHH
Q psy13822 10 EVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDLLH 89 (123)
Q Consensus 10 ~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~~ 89 (123)
..+++.++|.+|..+....+.+....++..+...+.+.+.. +..+.++.+|.++++.... ....+...+..+.+
T Consensus 34 ~~~l~~i~i~~~~~~~~~~g~~~~~~~l~~i~~~l~~~~~~-~~~~~r~~~~~f~ii~~~~-----~~~~~~~~~~~l~~ 107 (163)
T smart00267 34 PFALLLIDLDNFKDINDTYGHAVGDELLQEVAQRLSSCLRP-GDLLARLGGDEFALLLPET-----SLEEAIALAERILQ 107 (163)
T ss_pred eEEEEEEEccccchhhhccCchhHHHHHHHHHHHHHHhcCC-CCEEEEecCceEEEEecCC-----CHHHHHHHHHHHHH
Confidence 38899999999999999999999999999998888888766 4577778888888887332 12234444555555
Q ss_pred HhhhhhhcCCCCCceeEEEeeec
Q psy13822 90 HSGRFKIRHLPYTPLRLRIGLHT 112 (123)
Q Consensus 90 ~~~~~~~~~~~~~~l~~rIGi~~ 112 (123)
.+............+.+.+|+..
T Consensus 108 ~~~~~~~~~~~~~~~~~~~g~~~ 130 (163)
T smart00267 108 QLREPIIIHGIPLYLTISIGVAA 130 (163)
T ss_pred HHhCccccCCcEEEEEEEEEEEe
Confidence 55443222211224666666654
No 17
>PRK02240 GTP cyclohydrolase III; Provisional
Probab=97.30 E-value=0.008 Score=42.13 Aligned_cols=60 Identities=17% Similarity=0.138 Sum_probs=51.5
Q ss_pred eeeEEEEEeeccChhhhcc-CCCHHHHHHHHHHHHHHHHHHHhh-cCeEEEeeeCcEEEEEe
Q psy13822 8 FREVTIYFSDIVGFTTISA-YSTPFEVVDLLNDLYTCFDATINA-YNVYKVETIGDAYMVVG 67 (123)
Q Consensus 8 ~~~~tvlf~di~~~t~l~~-~~~~~~~~~~l~~~~~~~~~~v~~-~gg~~~~~~Gd~~~~~f 67 (123)
-..+++...||.++|.... ..+|-+....+++.+..+.+.+.+ +|+.-.-.-||-+|++.
T Consensus 132 ~~~v~iaH~Di~~~T~~~td~~~~~dt~~~i~~~~~~l~~~~~~~~g~l~ff~GGDN~~~~~ 193 (254)
T PRK02240 132 DGYVQIAHFDINDITGTYTDIENAFDTFLEIEQAYLALMRELRKAHDALSFFVGGDNFMAPC 193 (254)
T ss_pred CCceEEEEEeeecccceeeccCchhHHHHHHHHHHHHHHHHHHHhcCcEEEEecCceEEEEC
Confidence 5678999999999999865 448989888889988888888888 88877777799999997
No 18
>COG2199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]
Probab=97.12 E-value=0.018 Score=37.78 Aligned_cols=100 Identities=11% Similarity=0.048 Sum_probs=69.5
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDLL 88 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~ 88 (123)
...+++++||.+|-.+-+..+...--.+|..+...+...+.... .+-++-||.+.+++.... ...+...+-.++
T Consensus 50 ~~~~l~~iDiD~Fk~iND~~Gh~~GD~vL~~va~~L~~~~~~~~-~~~R~gGdEF~i~l~~~~-----~~~~~~~~~~l~ 123 (181)
T COG2199 50 EPLALLLLDLDHFKQINDTYGHAAGDEVLREVARRLRSNLREGD-LVARLGGDEFAVLLPGTS-----LEEAARLAERIR 123 (181)
T ss_pred CCeEEEEEeCcCCccccccccchHHHHHHHHHHHHHHHhcCCCC-EEEEeccceeEEEeCCCC-----HHHHHHHHHHHH
Confidence 46899999999999988788877777888888888888887766 888899999999984432 444555555555
Q ss_pred HHhhhhhhcCCCCCceeEEEeeecCc
Q psy13822 89 HHSGRFKIRHLPYTPLRLRIGLHTGR 114 (123)
Q Consensus 89 ~~~~~~~~~~~~~~~l~~rIGi~~G~ 114 (123)
..+...........++.+.||+.+-+
T Consensus 124 ~~~~~~~~~~~~~~~~t~siGi~~~~ 149 (181)
T COG2199 124 AALEEPFFLGGEELRVTVSIGVALYP 149 (181)
T ss_pred HHHHcccccCCceEEEEEEEEEEecC
Confidence 55544332110122667777766543
No 19
>cd01949 GGDEF Diguanylate-cyclase (DGC) or GGDEF domain. Diguanylate-cyclase (DGC) or GGDEF domain: Originally named after a conserved residue pattern, and initially described as a domain of unknown function 1 (DUF1). This domain is widely present in bacteria, linked to a wide range of non-homologous domains in a variety of cell signaling proteins. The domain shows homology to the adenylyl cyclase catalytic domain. This correlates with the functional information available on two GGDEF-containing proteins, namely diguanylate cyclase and phosphodiesterase A of Acetobacter xylinum, both of which regulate the turnover of cyclic diguanosine monophosphate. Together with the EAL domain, GGDEF might be involved in regulating cell surface adhesion in bacteria.
Probab=97.04 E-value=0.021 Score=35.64 Aligned_cols=60 Identities=13% Similarity=0.159 Sum_probs=49.9
Q ss_pred eeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeC
Q psy13822 8 FREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGG 68 (123)
Q Consensus 8 ~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg 68 (123)
....+++.+++.+|..+....+.+....++..+...+.+.+.. +..+..+.++.++++..
T Consensus 29 ~~~~~l~~i~i~~~~~i~~~~g~~~~~~~l~~~~~~l~~~~~~-~~~~~~~~~~~f~~l~~ 88 (158)
T cd01949 29 GRPLALLLIDIDHFKQINDTYGHAAGDEVLKEVAERLRSSLRE-SDLVARLGGDEFAILLP 88 (158)
T ss_pred CCeEEEEEEEchhhhHHHHhhChHhHHHHHHHHHHHHHHhCCC-CCEEEEecCCeEEEEeC
Confidence 3568899999999999999999988888999988888887755 45677777888888873
No 20
>PRK09894 diguanylate cyclase; Provisional
Probab=96.81 E-value=0.043 Score=38.75 Aligned_cols=99 Identities=11% Similarity=0.088 Sum_probs=66.2
Q ss_pred eeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHH
Q psy13822 8 FREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDL 87 (123)
Q Consensus 8 ~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~ 87 (123)
.+..+++++||.+|..+....+...--.+|..+...+.+.+... ..+-++-||.+++++.. . ....+...+-.+
T Consensus 156 ~~~~~l~~i~id~f~~in~~~G~~~gd~~L~~ia~~l~~~~~~~-~~~~R~~g~~F~ill~~--~---~~~~~~~~~~~l 229 (296)
T PRK09894 156 PQNLYLALLDIDRFKLVNDTYGHLIGDVVLRTLATYLASWTRDY-ETVYRYGGEEFIICLKA--A---TDEEACRAGERI 229 (296)
T ss_pred CCcEEEEEEECccccHHHHccCcHHHHHHHHHHHHHHHHhCCCC-CEEEEEcCCeEEEEeCC--C---CHHHHHHHHHHH
Confidence 34588999999999999999998888888888888888877554 46778889999888632 1 123344455555
Q ss_pred HHHhhhhhhcCC-CCCceeEEEeeec
Q psy13822 88 LHHSGRFKIRHL-PYTPLRLRIGLHT 112 (123)
Q Consensus 88 ~~~~~~~~~~~~-~~~~l~~rIGi~~ 112 (123)
++.+........ ....+.+.||+..
T Consensus 230 ~~~~~~~~~~~~~~~~~~~~siGv~~ 255 (296)
T PRK09894 230 RQLIANHAITHSDGRINITATFGVSR 255 (296)
T ss_pred HHHHHhCCcccCCceEEEEEEEEEEE
Confidence 555543222111 1135566666653
No 21
>PRK02240 GTP cyclohydrolase III; Provisional
Probab=96.78 E-value=0.017 Score=40.51 Aligned_cols=57 Identities=19% Similarity=0.189 Sum_probs=48.6
Q ss_pred EEEeeccChhhhccCCCH---HHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCC
Q psy13822 13 IYFSDIVGFTTISAYSTP---FEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGL 69 (123)
Q Consensus 13 vlf~di~~~t~l~~~~~~---~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~ 69 (123)
+..+.|.||-+++..+.| .++..+-.+++..+.+.+.++||...-+-||-++++.+.
T Consensus 4 it~iqid~YgpWT~t~~prRE~dlQ~lQsrLya~L~~~~~~~ggl~Ff~RgDN~iavtNG 63 (254)
T PRK02240 4 ITLIQIDNYGPWTVTPNPRRESDLQALQSRLYADLAQQFGARDGYVFFTRFDNMIAVTNG 63 (254)
T ss_pred EEEEEecCCCcCcCCCCCccHHHHHHHHHHHHHHHHHHHHhCCCEEEeccCceEEEEcCC
Confidence 445778899999998876 457777788999999999999999999999999999743
No 22
>TIGR00254 GGDEF diguanylate cyclase (GGDEF) domain. The GGDEF domain is named for the motif GG[DE]EF shared by many proteins carrying the domain. There is evidence that the domain has diguanylate cyclase activity. Several proteins carrying this domain also carry domains with functions relating to environmental sensing. These include PleD, a response regulator protein involved in the swarmer-to-stalked cell transition in Caulobacter crescentus, and FixL, a heme-containing oxygen sensor protein.
Probab=96.75 E-value=0.055 Score=34.27 Aligned_cols=98 Identities=13% Similarity=0.107 Sum_probs=64.1
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDLL 88 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~ 88 (123)
...+++.+++.+|..+....+.+..-.++..+...+.+.+.. +..+.++.++.+++++... + ...+...+-.+.
T Consensus 32 ~~~~l~~i~i~~~~~i~~~~G~~~~~~ll~~~a~~l~~~~~~-~~~i~r~~~~~f~il~~~~--~---~~~~~~l~~~i~ 105 (165)
T TIGR00254 32 RSFSVLMIDIDNFKKINDTLGHDVGDEVLREVARILQSSVRG-SDVVGRYGGEEFVVILPGT--P---LEDALSKAERLR 105 (165)
T ss_pred CceEEEEEeccchhHHHHhhChhhHHHHHHHHHHHHHHhcCc-CCEEEEecCCeEEEEeCCC--C---hHHHHHHHHHHH
Confidence 457899999999999999888888888888888888887743 4567778888888886322 1 223334444555
Q ss_pred HHhhhhhhcCC--CCCceeEEEeeec
Q psy13822 89 HHSGRFKIRHL--PYTPLRLRIGLHT 112 (123)
Q Consensus 89 ~~~~~~~~~~~--~~~~l~~rIGi~~ 112 (123)
+.+........ ....+.+++|+..
T Consensus 106 ~~~~~~~~~~~~~~~~~~~~~~g~~~ 131 (165)
T TIGR00254 106 DAINSKPIEVAGSETLTVTVSIGVAC 131 (165)
T ss_pred HHHHhCeeccCCCceEEEEEEEEEEE
Confidence 55443322111 1124666677654
No 23
>PRK11059 regulatory protein CsrD; Provisional
Probab=96.71 E-value=0.052 Score=42.87 Aligned_cols=99 Identities=13% Similarity=0.124 Sum_probs=71.9
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhc-CeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAY-NVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDL 87 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~-gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~ 87 (123)
...+++++|+.+|..+-+..+...--.+|.++-..+...+.++ +..+-++-||.+.++... .+...+...|-.+
T Consensus 258 ~~~~ll~idid~fk~iNd~~Gh~~gD~~L~~va~~L~~~~~~~~~~~~aR~ggdeFaill~~-----~~~~~a~~~a~~l 332 (640)
T PRK11059 258 AHGVVMLIRLPDFDLLQEEWGESQVEELLFELINLLSTFVMRYPGALLARYSRSDFAVLLPH-----RSLKEADSLASQL 332 (640)
T ss_pred CcEEEEEEECchHHHHHHhcChHHHHHHHHHHHHHHHHHHhcCCCCEEEEecCCEEEEEeCC-----CChHHHHHHHHHH
Confidence 3578999999999999999999988899999999999998876 556778899999888732 1224455666677
Q ss_pred HHHhhhhhhcCCCCCceeEEEeeec
Q psy13822 88 LHHSGRFKIRHLPYTPLRLRIGLHT 112 (123)
Q Consensus 88 ~~~~~~~~~~~~~~~~l~~rIGi~~ 112 (123)
++.+..............+.||+..
T Consensus 333 ~~~i~~~~~~~~~~~~~~~siGia~ 357 (640)
T PRK11059 333 LKAVDALPPPKMLDRDDFLHIGICA 357 (640)
T ss_pred HHHHHhccCCcccCcccEEEEEEEe
Confidence 7666654332222234456777654
No 24
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=96.31 E-value=0.081 Score=43.28 Aligned_cols=99 Identities=10% Similarity=0.161 Sum_probs=76.8
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDLL 88 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~ 88 (123)
.+.++..+.+.||.+....++..+-..+...+-..+.+-+..|++++-++..|.|++++ +...-....+--.+++
T Consensus 203 ~~~v~g~i~iDNyde~~~~~~~~~~s~l~~~i~~~l~~~~~~~~~~~r~~~~dry~~~~-----~~~~l~~~~~~kF~iL 277 (838)
T PRK14538 203 KTLALAMITFDNLEESLIRYDLSEQSQIQGEYLSALSDFIEPYEGYLKQLIDDRFLLLI-----NRQNLDKMIENKFSIL 277 (838)
T ss_pred cCcEEEEEEeeCHHHHhcccchHHHHHHHHHHHHHHHHHHHhCCEEEEEecCCcEEEEE-----EHHHHHHHHHhCCcHH
Confidence 34566777788999998888888888888888888999999999999999999999998 2344455555566777
Q ss_pred HHhhhhhhcCCCCCceeEEEeeecCc
Q psy13822 89 HHSGRFKIRHLPYTPLRLRIGLHTGR 114 (123)
Q Consensus 89 ~~~~~~~~~~~~~~~l~~rIGi~~G~ 114 (123)
+.++..+.. ...++.+.||+.+|.
T Consensus 278 d~ir~~~~~--~~~~vTLSiGig~g~ 301 (838)
T PRK14538 278 DTIRNISHK--YQLKVTLSMGIACWN 301 (838)
T ss_pred HHHHHhhcC--CCCceEEEEEEeCCC
Confidence 777765443 245788888888874
No 25
>PRK09966 putative inner membrane diguanylate cyclase; Provisional
Probab=96.31 E-value=0.091 Score=38.93 Aligned_cols=101 Identities=13% Similarity=-0.033 Sum_probs=66.1
Q ss_pred eeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHH
Q psy13822 8 FREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDL 87 (123)
Q Consensus 8 ~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~ 87 (123)
....+++++|+.+|..+-+..+.+..-.++..+...+.+.+..+ ..+-++.||.+.++..... ....+...+-.+
T Consensus 276 ~~~~~l~~i~id~f~~in~~~G~~~gd~~l~~~a~~L~~~~~~~-~~~~R~~~deF~ill~~~~----~~~~~~~~~~~i 350 (407)
T PRK09966 276 RKTSALLFLDGDNFKYINDTWGHATGDRVLIEIAKRLAEFGGLR-HKAYRLGGDEFAMVLYDVQ----SESEVQQICSAL 350 (407)
T ss_pred CCceEEEEEECccchHHHhhhchHHHHHHHHHHHHHHHHhCCCC-CEEEEEccceEEEEEcCCC----CHHHHHHHHHHH
Confidence 34578999999999999999998888888888888887766543 5677888999988884321 122344445555
Q ss_pred HHHhhhhhhc-CCCCCceeEEEeeecC
Q psy13822 88 LHHSGRFKIR-HLPYTPLRLRIGLHTG 113 (123)
Q Consensus 88 ~~~~~~~~~~-~~~~~~l~~rIGi~~G 113 (123)
.+.+...... ......+.+.||+...
T Consensus 351 ~~~~~~~~~~~~~~~~~~~~siG~~~~ 377 (407)
T PRK09966 351 TQIFNLPFDLHNGHQTTMTLSIGYAMT 377 (407)
T ss_pred HHHHhCCeeecCCcEEEEEEEEEEEeC
Confidence 5555432111 1112345666666543
No 26
>PRK15426 putative diguanylate cyclase YedQ; Provisional
Probab=96.01 E-value=0.17 Score=39.18 Aligned_cols=98 Identities=12% Similarity=0.065 Sum_probs=66.6
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDLL 88 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~ 88 (123)
+..+++++||.+|..+-+..+.+.--.+|..+...+...+.. +..+-++-||.|+++.... + ...+...+-.+.
T Consensus 428 ~~~~l~~idid~fk~iNd~~G~~~GD~~L~~~a~~l~~~~~~-~~~~~R~ggdeF~ill~~~--~---~~~~~~~~~~l~ 501 (570)
T PRK15426 428 QPFSVIQLDLDHFKSINDRFGHQAGDRVLSHAAGLISSSLRA-QDVAGRVGGEEFCVVLPGA--S---LAEAAQVAERIR 501 (570)
T ss_pred CcEEEEEEECcccCHhhHhhChHHHHHHHHHHHHHHHHhCCC-CCEEEeecCcEEEEEeCCC--C---HHHHHHHHHHHH
Confidence 458899999999999999999988888999998888887764 4577788999998887322 1 233444455555
Q ss_pred HHhhhhhhc--CCCCCceeEEEeeec
Q psy13822 89 HHSGRFKIR--HLPYTPLRLRIGLHT 112 (123)
Q Consensus 89 ~~~~~~~~~--~~~~~~l~~rIGi~~ 112 (123)
+.+...... ......+.+.+|+..
T Consensus 502 ~~~~~~~~~~~~~~~~~~~~s~Gv~~ 527 (570)
T PRK15426 502 LRINEKEILVAKSTTIRISASLGVSS 527 (570)
T ss_pred HHHhcccccccCCcEEEEEEEEEEEE
Confidence 555432111 111124566666654
No 27
>PRK13561 putative diguanylate cyclase; Provisional
Probab=95.93 E-value=0.13 Score=40.56 Aligned_cols=81 Identities=7% Similarity=0.034 Sum_probs=59.6
Q ss_pred eeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHH
Q psy13822 8 FREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDL 87 (123)
Q Consensus 8 ~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~ 87 (123)
....+++++|+.+|..+-+..+.+.--.++.++...+.+.+... ..+-++.||.+.++.... +....+...+-.+
T Consensus 256 ~~~~~l~~idld~f~~in~~~G~~~gD~lL~~ia~~L~~~~~~~-~~~aRl~gdeF~ill~~~----~~~~~~~~~~~~i 330 (651)
T PRK13561 256 KQTTALMIITCETLRDTAGVLKEAQREILLLTLVEKLKSVLSPR-MVLAQISGYDFAIIANGV----KEPWHAITLGQQV 330 (651)
T ss_pred CCCeEEEEEECCchHHHHHhhChHHHHHHHHHHHHHHHHhCCCC-cEEEEEeCCEEEEEECCC----CCHHHHHHHHHHH
Confidence 34678999999999999999998888888999988888887654 577889999999887322 2223344445555
Q ss_pred HHHhhh
Q psy13822 88 LHHSGR 93 (123)
Q Consensus 88 ~~~~~~ 93 (123)
.+.+..
T Consensus 331 ~~~~~~ 336 (651)
T PRK13561 331 LTIINE 336 (651)
T ss_pred HHHHcC
Confidence 555543
No 28
>PRK11829 biofilm formation regulator HmsP; Provisional
Probab=95.79 E-value=0.15 Score=40.25 Aligned_cols=80 Identities=9% Similarity=0.072 Sum_probs=59.5
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDLL 88 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~ 88 (123)
...+++++|+.+|..+-+..+.+.--.+|.++...+.+.+... ..+-++.||.+.++.... +....+...+-.++
T Consensus 261 ~~~~l~~idid~f~~in~~~G~~~gD~lL~~va~~l~~~~~~~-~~~aRl~gdeF~vl~~~~----~~~~~~~~~~~~i~ 335 (660)
T PRK11829 261 DHFHLLVIGIETLQEVSGAMSEAQHQQLLLTIVQRIEQCIDDS-DLLAQLSKTEFAVLARGT----RRSFPAMQLARRIM 335 (660)
T ss_pred CCEEEEEEECCcHHHHHHhhChHHHHHHHHHHHHHHHHhCCCC-cEEEEEeCCEEEEEEcCC----CCHHHHHHHHHHHH
Confidence 4578999999999999999998888888888888888776543 577788999998887322 22234555566666
Q ss_pred HHhhh
Q psy13822 89 HHSGR 93 (123)
Q Consensus 89 ~~~~~ 93 (123)
+.+..
T Consensus 336 ~~~~~ 340 (660)
T PRK11829 336 SQVTQ 340 (660)
T ss_pred HHhcC
Confidence 66554
No 29
>TIGR02577 cas_TM1794_Crm2 CRISPR-associated protein, Crm2 family. This model represent a Crm2 family of the CRISPR-associated RAMP module, a set of six genes recurring found together in prokaryotic genomes. This gene cluster is found only in species with CRISPR repeats, usually near the repeats themselves. Because most of the six (but not this family) contain RAMP domains, and because its appearance in a genome appears to depend on other CRISPR-associated Cas genes, the set is designated the CRISPR RAMP module. This protein, typified by TM1794 from Thermotoga maritima, is designated Crm2, for CRISPR RAMP Module protein 2.
Probab=95.50 E-value=0.57 Score=36.12 Aligned_cols=81 Identities=14% Similarity=-0.048 Sum_probs=63.2
Q ss_pred eeeEEEEEeeccChhhhccCC------------------CH---HHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEE
Q psy13822 8 FREVTIYFSDIVGFTTISAYS------------------TP---FEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVV 66 (123)
Q Consensus 8 ~~~~tvlf~di~~~t~l~~~~------------------~~---~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~ 66 (123)
..-.+++.+|-.+.-.+.... ++ ..+-+.|+.|+....+.+..++|.++-.-||-++++
T Consensus 341 ~~y~Ail~aDGD~mG~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lS~aL~~f~~~~~~~v~~~~g~~VYaGGDDvlai 420 (482)
T TIGR02577 341 RPYYAILKADGDRMGKLLRGEIRPEEKERIHPKKVKNLTTPAAHVAFSRALAEFSLKAVKIVVNEHGELVYAGGDDVLAL 420 (482)
T ss_pred CceEEEEEccccchHHHHhCCCccccccccccccccccCCHHHHHHHHHHHHHHHHHHHHHhhhhCeEEEEEccCcEEEE
Confidence 445889999988877766542 23 566777888888888888888899999999999999
Q ss_pred eCCCCCCchHHHHHHHHHHHHHHHhhhhhh
Q psy13822 67 GGLPVRIPDHADQIATMALDLLHHSGRFKI 96 (123)
Q Consensus 67 fg~~~~~~~~~~~a~~~al~~~~~~~~~~~ 96 (123)
. ....|+.+|.++++.......
T Consensus 421 ~--------p~~~al~~a~~l~~~F~~~~~ 442 (482)
T TIGR02577 421 L--------PVDTALDVAKELRKEFRESLE 442 (482)
T ss_pred c--------cHHHHHHHHHHHHHHHHHHhh
Confidence 6 456699999999988877643
No 30
>COG3706 PleD Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]
Probab=95.45 E-value=0.2 Score=38.00 Aligned_cols=103 Identities=16% Similarity=0.160 Sum_probs=72.3
Q ss_pred ceeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHH
Q psy13822 7 DFREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALD 86 (123)
Q Consensus 7 ~~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~ 86 (123)
+.+..+++++||.+|-..-+..+..---+.|..+...+.+.+ +.-..+-+|-|+.|++++. ..+...|+..|=.
T Consensus 298 ~~~pls~~m~DID~FK~iNDt~GH~~GDevLr~vA~~L~~~v-r~~Dl~aRyGGEEF~vvlp-----~t~~~~Ai~iaer 371 (435)
T COG3706 298 EGRPLSLLMLDIDDFKEINDTYGHDVGDEVLRQVARRLRQTV-RGLDLVARYGGEEFAVVLP-----DTDLEAAIAIAER 371 (435)
T ss_pred cCCCeeEEEEecccccccccccCCccHHHHHHHHHHHHHhhc-cccccceecCCeeEEEEec-----CCCHHHHHHHHHH
Confidence 467799999999999988777655444456666666666666 4456677788888888872 2336778888888
Q ss_pred HHHHhhhhhhcCCC---CCceeEEEeeecCce
Q psy13822 87 LLHHSGRFKIRHLP---YTPLRLRIGLHTGRP 115 (123)
Q Consensus 87 ~~~~~~~~~~~~~~---~~~l~~rIGi~~G~v 115 (123)
++..++........ ...+.+-||++++.-
T Consensus 372 Ir~~i~~~~~~~~~~~~~~~~TiSiGVa~~~p 403 (435)
T COG3706 372 IRQKINELPFVHELSREPLEVTISIGVAEGKP 403 (435)
T ss_pred HHHHHhcCCccccccccceEEEEEEEEEecCC
Confidence 88888766442211 235788888887653
No 31
>PRK10060 RNase II stability modulator; Provisional
Probab=95.31 E-value=0.28 Score=39.10 Aligned_cols=99 Identities=16% Similarity=0.106 Sum_probs=63.7
Q ss_pred eeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHH
Q psy13822 8 FREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDL 87 (123)
Q Consensus 8 ~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~ 87 (123)
....+++++|+.+|..+-+..+...--.+|.++-..+...+... ..+-++-||.|.++... . ....+...+-.+
T Consensus 264 ~~~~~ll~idld~fk~iNd~~G~~~gD~lL~~va~~L~~~~~~~-d~vaRlggdeF~ill~~--~---~~~~~~~~~~~i 337 (663)
T PRK10060 264 NNQVGIVYLDLDNFKKVNDAYGHMFGDQLLQDVSLAILSCLEED-QTLARLGGDEFLVLASH--T---SQAALEAMASRI 337 (663)
T ss_pred CCcEEEEEEECcchhHHHHhhCcHHHHHHHHHHHHHHHHhCCCC-CEEEEEcCCEEEEEEcC--C---CHHHHHHHHHHH
Confidence 34678999999999988888887777778888888887766543 57888899999888732 1 122344445555
Q ss_pred HHHhhhhhhcCCCCCceeEEEeeec
Q psy13822 88 LHHSGRFKIRHLPYTPLRLRIGLHT 112 (123)
Q Consensus 88 ~~~~~~~~~~~~~~~~l~~rIGi~~ 112 (123)
++.+.....-......+.+.||+..
T Consensus 338 ~~~l~~~~~~~~~~~~~~~siGia~ 362 (663)
T PRK10060 338 LTRLRLPFRIGLIEVYTGCSIGIAL 362 (663)
T ss_pred HHHcCCCEEECCEEEEEEEEEEEEE
Confidence 5555432111111123455666643
No 32
>PF10851 DUF2652: Protein of unknown function (DUF2652) ; InterPro: IPR020503 This entry contains proteins with no known function.
Probab=94.97 E-value=0.47 Score=29.30 Aligned_cols=78 Identities=18% Similarity=0.131 Sum_probs=45.6
Q ss_pred HHHHHhhcCe-EEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHHHHHhhhhhhcC-------CCCCceeEEEeeecCce
Q psy13822 44 FDATINAYNV-YKVETIGDAYMVVGGLPVRIPDHADQIATMALDLLHHSGRFKIRH-------LPYTPLRLRIGLHTGRP 115 (123)
Q Consensus 44 ~~~~v~~~gg-~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~~~~~~~~~~~-------~~~~~l~~rIGi~~G~v 115 (123)
+..+++...| .+-+..||+++.+-.......+-.++...+-.+..+..+.+.... ....+++++.-+|+|++
T Consensus 5 LE~iI~an~~l~lseiEGDAilFy~~~~~~~~~v~~q~~~M~~aF~~~~~~~~~~~~C~C~aC~~~~~LsLKfV~H~Ge~ 84 (116)
T PF10851_consen 5 LEAIIDANLGLKLSEIEGDAILFYKYGKDTSVEVCRQCERMRRAFHQRREQLKKDRICQCGACAQLINLSLKFVAHYGEV 84 (116)
T ss_pred HHHHHccCCCcEEEEecccEEEEEcCCCCccHHHHHHHHHHHHHHHHHHHHHhhcccCCchhhhhhhcceEEEEEEeeee
Confidence 4556666644 778899999886642221212233333333333444444443322 33458999999999998
Q ss_pred eEEeec
Q psy13822 116 VSKHLR 121 (123)
Q Consensus 116 ~~g~iG 121 (123)
..=.+|
T Consensus 85 ~~~~Vk 90 (116)
T PF10851_consen 85 AQQKVK 90 (116)
T ss_pred eeeeec
Confidence 766655
No 33
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=94.86 E-value=0.36 Score=38.74 Aligned_cols=99 Identities=15% Similarity=0.161 Sum_probs=64.6
Q ss_pred eeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHH
Q psy13822 8 FREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDL 87 (123)
Q Consensus 8 ~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~ 87 (123)
....+++++||.+|..+.+..+....-.+|.++-..+.+.+.. +..+-++.||.++++... . ....+...+-.+
T Consensus 401 ~~~~~l~~i~i~~~~~in~~~G~~~~d~ll~~~a~~l~~~~~~-~~~~~r~~~~eF~il~~~--~---~~~~~~~~~~~l 474 (799)
T PRK11359 401 AVSPVVYLIGVDHFQDVIDSLGYAWADQALLEVVNRFREKLKP-DQYLCRIEGTQFVLVSLE--N---DVSNITQIADEL 474 (799)
T ss_pred CCCEEEEEEECCcHHHHHHHhCcHHHHHHHHHHHHHHHHhCCC-CCEEEEEcCCEEEEEEcC--C---CHHHHHHHHHHH
Confidence 3568899999999999999998888888888888888887754 367788889999888732 1 122344444444
Q ss_pred HHHhhhhhhcCCCCCceeEEEeeec
Q psy13822 88 LHHSGRFKIRHLPYTPLRLRIGLHT 112 (123)
Q Consensus 88 ~~~~~~~~~~~~~~~~l~~rIGi~~ 112 (123)
.+.+............+.+.||+.+
T Consensus 475 ~~~~~~~~~~~~~~~~~~~sig~~~ 499 (799)
T PRK11359 475 RNVVSKPIMIDDKPFPLTLSIGISY 499 (799)
T ss_pred HHHhcCCEEECCEEEEEEEEEEEEe
Confidence 4444332111111124556666654
No 34
>PRK09776 putative diguanylate cyclase; Provisional
Probab=94.82 E-value=0.52 Score=39.22 Aligned_cols=98 Identities=10% Similarity=0.080 Sum_probs=65.5
Q ss_pred eeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHH
Q psy13822 8 FREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDL 87 (123)
Q Consensus 8 ~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~ 87 (123)
..+.+++++||.+|..+-+..+...--.+|.++-..+.+.+... ..+-++-||.+.++... .+ ...+...+-.+
T Consensus 694 ~~~~~l~~idid~fk~in~~~G~~~gd~~L~~~a~~l~~~~~~~-~~~~R~~gdeF~vl~~~--~~---~~~~~~~~~~l 767 (1092)
T PRK09776 694 HQRHALVFIDLDRFKAVNDSAGHAAGDALLRELASLMLSMLRSS-DVLARLGGDEFGLLLPD--CN---VESARFIATRI 767 (1092)
T ss_pred CCcEEEEEEECcchHHHHHhhChhhHHHHHHHHHHHHHHhCCCc-CEEEEecCcEEEEEeCC--CC---hHHHHHHHHHH
Confidence 34588999999999999998888888888888888888777544 46778889999888732 12 23344555566
Q ss_pred HHHhhhhhhcC-CCCCceeEEEeee
Q psy13822 88 LHHSGRFKIRH-LPYTPLRLRIGLH 111 (123)
Q Consensus 88 ~~~~~~~~~~~-~~~~~l~~rIGi~ 111 (123)
++.+....... ....++.+.||+.
T Consensus 768 ~~~~~~~~~~~~~~~~~~~~siGi~ 792 (1092)
T PRK09776 768 ISAINDYHFPWEGRVYRVGASAGIT 792 (1092)
T ss_pred HHHHhhCCcccCCceEEEEEEEEEE
Confidence 66554432211 1122456666654
No 35
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=94.70 E-value=0.79 Score=36.18 Aligned_cols=98 Identities=10% Similarity=0.148 Sum_probs=71.6
Q ss_pred EEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHHHHH
Q psy13822 11 VTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDLLHH 90 (123)
Q Consensus 11 ~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~~~ 90 (123)
..+..+.+.||-..+..++.++...+-+..-+.+.+..+.|+-+.-++.+|.++++-. ..--.....--..+++.
T Consensus 175 ~vl~~i~vDNyDe~t~~~~d~~rs~inS~V~s~l~~~a~~~~if~rr~s~drf~~~~~-----~~~L~~l~~~kF~iLd~ 249 (655)
T COG3887 175 PVLGIISVDNYDEVTQGLSDSDRSQINSFVTSFLEEWATEYNIFLRRYSSDRFYAFTN-----YKILEKLEEDKFSILDE 249 (655)
T ss_pred ceEEEEEeccHHHHhcCCChhhHHHHHHHHHHHHHHHHHHhhhhheeecCCeEEEEec-----HHHHHHHHHhhhHHHHH
Confidence 3455666778999999888877777777777778888889999999999999999972 23334455555566666
Q ss_pred hhhhhhcCCCCCceeEEEeeecCce
Q psy13822 91 SGRFKIRHLPYTPLRLRIGLHTGRP 115 (123)
Q Consensus 91 ~~~~~~~~~~~~~l~~rIGi~~G~v 115 (123)
+++... ....++.+.||+.+|.-
T Consensus 250 ~RE~s~--~~~ipLTLSiGvg~g~~ 272 (655)
T COG3887 250 FREESS--QKNIPLTLSIGVGYGEN 272 (655)
T ss_pred HHHHhh--ccCcceEEEEEeccCcc
Confidence 555432 23568999999999864
No 36
>TIGR02578 cas_TM1811_Csm1 CRISPR-associated protein, Csm1 family. The family is designated Csm2, for CRISPR/Cas Subtype Mtube Protein 2. A typical example is TM1811 from Thermotoga maritima. CRISPR are Clustered Regularly Interspaced Short Palindromic Repeats. This protein family belongs to a conserved gene cluster regularly found near CRISPR repeats.
Probab=92.78 E-value=3.1 Score=33.41 Aligned_cols=92 Identities=17% Similarity=0.244 Sum_probs=63.1
Q ss_pred eeEEEEEeeccChhhhccCC----C-H---HHHHHHHHHHHHH-HHHHHhhc----CeEEEeeeCcEEEEEeCCCCCCch
Q psy13822 9 REVTIYFSDIVGFTTISAYS----T-P---FEVVDLLNDLYTC-FDATINAY----NVYKVETIGDAYMVVGGLPVRIPD 75 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~----~-~---~~~~~~l~~~~~~-~~~~v~~~----gg~~~~~~Gd~~~~~fg~~~~~~~ 75 (123)
..+++|-+|+.+.-.+-... . . ..+-+.|+.||.. +..+++.+ .++++-.-||-++++-
T Consensus 521 ~~lavl~~D~DnlG~~f~~g~~~~~~~s~~~~lS~~l~~fF~~~v~~i~~~~~~~~~~~~VYaGGDDv~~ig-------- 592 (648)
T TIGR02578 521 KKLGVLKMDVDNLGEIFASGLKRPTRISRLATLSRQLELFFKLYLLHLAEDKRNKRNLYVVYSGGDDLFLIG-------- 592 (648)
T ss_pred ceEEEEEccccCHHHHHHhccCCcchHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCEEEEEEccccEEEEc--------
Confidence 56899999998866665332 1 1 3455566665554 56667666 7888888899998885
Q ss_pred HHHHHHHHHHHHHHHhhhhhhcCCCCCceeEEEeeec
Q psy13822 76 HADQIATMALDLLHHSGRFKIRHLPYTPLRLRIGLHT 112 (123)
Q Consensus 76 ~~~~a~~~al~~~~~~~~~~~~~~~~~~l~~rIGi~~ 112 (123)
+...++.+|.++++...+.... ..+.+..||..
T Consensus 593 ~~~~~l~~A~~i~~~F~~~~~~----~~~TlSaGi~i 625 (648)
T TIGR02578 593 PWNAVLELASDIREYFEKFTCR----DKITISAGVVV 625 (648)
T ss_pred cHHHHHHHHHHHHHHHHHHhCC----CCeeEEEEEEE
Confidence 3467889999999998876432 34555555543
No 37
>PF05165 GGDN: GGDN family; InterPro: IPR007839 GTP cyclohydrolase III catalyses the formation of 2-amino-5-formylamino-6- ribofuranosylamino-4(3H)-pyrimidinone ribonucleotide monophosphate and inorganic phosphate from GTP. The enzyme also has an independent pyrophosphate phosphohydrolase activity. The proteins are 200-270 amino acids in length.; GO: 0003933 GTP cyclohydrolase activity, 0009058 biosynthetic process; PDB: 2QV6_B.
Probab=91.94 E-value=3.2 Score=29.24 Aligned_cols=54 Identities=13% Similarity=0.135 Sum_probs=42.5
Q ss_pred EeeccChhhhccCCCHH---HHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeC
Q psy13822 15 FSDIVGFTTISAYSTPF---EVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGG 68 (123)
Q Consensus 15 f~di~~~t~l~~~~~~~---~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg 68 (123)
.+.|.||-++++.+.|. ++..+-.+++..+.+.+...||.+..+.=|.++++-+
T Consensus 3 ~i~l~~Y~eWTetlg~~RE~~iQ~lQa~l~~~l~~~~~~~~g~~~~~R~D~~iavtn 59 (246)
T PF05165_consen 3 LIQLDNYREWTETLGPDREWDIQTLQARLYADLQQFFSSRGGLVFPTRYDNMIAVTN 59 (246)
T ss_dssp EEEETTHHHHCCSSS---HHHHHHHHHHHHHHHHHHHHTTT-EEE-TTSSEEEEE-T
T ss_pred eEEecCCccCcCCCCCchHHHHHHHHHHHHHHHHHHHHhcCCEEeeeeeeeEEEeec
Confidence 36788999999999773 4666668899999999999999999999999999974
No 38
>COG2429 Archaeal GTP cyclohydrolase III [Nucleotide transport and metabolism]
Probab=89.65 E-value=1.8 Score=30.10 Aligned_cols=55 Identities=13% Similarity=0.169 Sum_probs=45.0
Q ss_pred EEEeeccChhhhccCCCH---HHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEe
Q psy13822 13 IYFSDIVGFTTISAYSTP---FEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVG 67 (123)
Q Consensus 13 vlf~di~~~t~l~~~~~~---~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~f 67 (123)
+..+-|.||-.+++...| -++..+-++++..+.+.+..++|++..+.=|-++++-
T Consensus 4 it~Iqld~YgpWT~~p~prRE~dlQtlQarlyadl~~~~~~~~g~vf~~RfDnmlait 61 (250)
T COG2429 4 ITLIQLDNYGPWTETPGPRREWDLQTLQARLYADLQKIFGGRGGLVFFTRFDNMLAIT 61 (250)
T ss_pred EEEEEecCcCcccCcCCCchHHHHHHHHHHHHHHHHHHHhccCCeeeeeehhhhhHhh
Confidence 445678899999998877 4466677889999999999999999888888777765
No 39
>PF11294 DUF3095: Protein of unknown function (DUF3095); InterPro: IPR021445 Some members in this bacterial family of proteins are annotated as adenylyl cyclase however this cannot be confirmed. Currently no function is known.
Probab=88.42 E-value=4.5 Score=30.31 Aligned_cols=71 Identities=17% Similarity=0.049 Sum_probs=37.0
Q ss_pred eEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEe--eeCcEEEEEeCCCCCCchHHHHHHHHHH
Q psy13822 10 EVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVE--TIGDAYMVVGGLPVRIPDHADQIATMAL 85 (123)
Q Consensus 10 ~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~--~~Gd~~~~~fg~~~~~~~~~~~a~~~al 85 (123)
+-.|..+||+|||.....=.-+++...=-..... ++...++.-.- |-|||..+.- |....+.++.|+....
T Consensus 26 dW~v~vaDIv~ST~AIa~GrYK~VNm~Ga~~IaA---v~N~~~~~~~PFvFGGDGA~~~v--Pp~~~~~ar~aLa~~~ 98 (373)
T PF11294_consen 26 DWFVGVADIVNSTKAIAAGRYKDVNMAGAAVIAA---VLNALGGRDFPFVFGGDGATFAV--PPSLLEAAREALAAVR 98 (373)
T ss_pred CcEEEEeehhccHHHHHcCCcccchHHHHHHHHH---HHhcccCCCCCeEecCCCeEEec--CHHHHHHHHHHHHHHH
Confidence 4578899999999987653333322221222222 22333443333 5689887765 3333344444444333
No 40
>PRK09581 pleD response regulator PleD; Reviewed
Probab=86.84 E-value=11 Score=27.98 Aligned_cols=97 Identities=11% Similarity=0.062 Sum_probs=54.5
Q ss_pred eEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHHHH
Q psy13822 10 EVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDLLH 89 (123)
Q Consensus 10 ~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~~ 89 (123)
..+++++++.+|..+....+....-.++..+...+.+.+..+ ..+.+..++.++++.... ..+ .+-..+-.+.+
T Consensus 323 ~~~~l~i~i~~~~~i~~~~g~~~~~~~l~~i~~~l~~~~~~~-~~~~r~~~~~f~ill~~~--~~~---~~~~~~~~l~~ 396 (457)
T PRK09581 323 PLSLMMIDIDHFKKVNDTYGHDAGDEVLREFAKRLRNNIRGT-DLIARYGGEEFVVVMPDT--DIE---DAIAVAERIRR 396 (457)
T ss_pred cEEEEEEecchhhHhHHhhChhhHHHHHHHHHHHHHhhCCCC-cEEEEecCCEEEEEeCCC--CHH---HHHHHHHHHHH
Confidence 357888999888887666665555556666666666666543 455667778888776332 111 23333444554
Q ss_pred HhhhhhhcCC-CC--CceeEEEeeec
Q psy13822 90 HSGRFKIRHL-PY--TPLRLRIGLHT 112 (123)
Q Consensus 90 ~~~~~~~~~~-~~--~~l~~rIGi~~ 112 (123)
.+........ .. ..+++.||+..
T Consensus 397 ~~~~~~~~~~~~~~~~~~~~~iGi~~ 422 (457)
T PRK09581 397 KIAEEPFIISDGKERLNVTVSIGVAE 422 (457)
T ss_pred HHHhCccccCCCCcceEEEEEEEEEE
Confidence 4432211110 11 35667777654
No 41
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=84.66 E-value=5.5 Score=23.51 Aligned_cols=39 Identities=5% Similarity=-0.011 Sum_probs=25.2
Q ss_pred HHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHH
Q psy13822 39 DLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIA 81 (123)
Q Consensus 39 ~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~ 81 (123)
.+-..+.++.+.+||.++...|...++-|.. .+.|.+|.
T Consensus 18 ~I~~RL~qLsdNCGGkVl~v~~~tAilrF~~----~~~A~RA~ 56 (90)
T PF11608_consen 18 SIKNRLRQLSDNCGGKVLSVSGGTAILRFPN----QEFAERAQ 56 (90)
T ss_dssp HHHHHHHHHHHTTT--EEE--TT-EEEEESS----HHHHHHHH
T ss_pred HHHHHHHHHhhccCCEEEEEeCCEEEEEeCC----HHHHHHHH
Confidence 4456777888889999999999999999933 36666554
No 42
>PRK14839 undecaprenyl pyrophosphate synthase; Provisional
Probab=77.95 E-value=21 Score=25.10 Aligned_cols=82 Identities=21% Similarity=0.180 Sum_probs=47.5
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhc--CeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAY--NVYKVETIGDAYMVVGGLPVRIPDHADQIATMALD 86 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~--gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~ 86 (123)
+.+|+......|| .-+++|+-.+++-+...+.+.+... .|..++++||-=+ . ++...++++-+-+
T Consensus 55 ~~lTvYaFS~EN~-----~R~~~EV~~Lm~L~~~~l~~~~~~~~~~~irvr~iGd~~~----L----p~~l~~~i~~~e~ 121 (239)
T PRK14839 55 GTLTLYAFSSDNW-----RRPAAEVGGLMRLLRAYLRNETERLARNGVRLTVIGRRDR----L----PDGIPEAIARAEA 121 (239)
T ss_pred CEEEEEEechhhc-----CCCHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEeChhh----C----CHHHHHHHHHHHH
Confidence 4577776666666 3477787777766655555444332 4777788888521 2 3444444433332
Q ss_pred HHHHhhhhhhcCCCCCceeEEEeeecC
Q psy13822 87 LLHHSGRFKIRHLPYTPLRLRIGLHTG 113 (123)
Q Consensus 87 ~~~~~~~~~~~~~~~~~l~~rIGi~~G 113 (123)
.- ..+..+.+-|.+++|
T Consensus 122 ~T----------~~n~~~~Lnia~~Yg 138 (239)
T PRK14839 122 AT----------AGGDRLHLRIAVDYS 138 (239)
T ss_pred Hh----------cCCCceEEEEEecCC
Confidence 21 124467788888876
No 43
>PRK14841 undecaprenyl pyrophosphate synthase; Provisional
Probab=72.86 E-value=30 Score=24.27 Aligned_cols=82 Identities=15% Similarity=0.155 Sum_probs=47.4
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhh--cCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINA--YNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALD 86 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~--~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~ 86 (123)
+.+|+......||. -+++|+-.+++-+...+.+.... ..+..++++||-=+ +| +...++++-+-+
T Consensus 49 k~lTvYaFS~eN~~-----R~~~Ev~~Lm~L~~~~l~~~~~~~~~~~irvr~iG~~~~----Lp----~~~~~~i~~~e~ 115 (233)
T PRK14841 49 KYLTAFSFSTENWK-----RPKEEVEFLMDLFVQMIDREMELLRRERVRVRILGRKEG----LP----EKVLKKWQEVEE 115 (233)
T ss_pred CEEEEEeeeHhhcC-----CCHHHHHHHHHHHHHHHHHHHHHHHHcCcEEEEEeChhh----CC----HHHHHHHHHHHH
Confidence 45777766666663 47778777777666666554432 24777888888432 23 434433333222
Q ss_pred HHHHhhhhhhcCCCCCceeEEEeeecC
Q psy13822 87 LLHHSGRFKIRHLPYTPLRLRIGLHTG 113 (123)
Q Consensus 87 ~~~~~~~~~~~~~~~~~l~~rIGi~~G 113 (123)
.- ..+..+.+.|.+++|
T Consensus 116 ~T----------~~~~~~~Lnia~~Yg 132 (233)
T PRK14841 116 KT----------KEFDRMTLVIAFNYG 132 (233)
T ss_pred Hh----------cCCCCcEEEEEecCC
Confidence 21 123456788888876
No 44
>PRK14840 undecaprenyl pyrophosphate synthase; Provisional
Probab=71.55 E-value=33 Score=24.31 Aligned_cols=81 Identities=19% Similarity=0.310 Sum_probs=47.2
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHH---hhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATI---NAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMAL 85 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v---~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al 85 (123)
+.+|+....+.||. -+++|+-.+++-+...+.+.+ .++ |..++++||-=+ + ++....+++-+.
T Consensus 68 k~lTvYaFS~EN~~-----R~~~EV~~Lm~L~~~~l~~~~~~~~~~-~irvr~iGd~~~----L----p~~l~~~i~~~e 133 (250)
T PRK14840 68 EVLTLFAFSTENFS-----RSKEEVAELFSLFNSQLDSQLPYLHEN-EIRLRCIGDLSK----L----PQELQNNIEQAS 133 (250)
T ss_pred CEEEEEEeehhhcC-----CCHHHHHHHHHHHHHHHHHHHHHHHHC-CCEEEEEeChhh----C----CHHHHHHHHHHH
Confidence 56777776777773 467777666655555555544 334 777888888432 2 344444443333
Q ss_pred HHHHHhhhhhhcCCCCCceeEEEeeecC
Q psy13822 86 DLLHHSGRFKIRHLPYTPLRLRIGLHTG 113 (123)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~l~~rIGi~~G 113 (123)
+.- ..+..+.+.|.+++|
T Consensus 134 ~~T----------~~~~~~~Lnla~~Yg 151 (250)
T PRK14840 134 SAT----------AHYSRMELVLAINYG 151 (250)
T ss_pred HHh----------ccCCceEEEEEecCC
Confidence 321 124456778877776
No 45
>PRK14828 undecaprenyl pyrophosphate synthase; Provisional
Probab=71.45 E-value=34 Score=24.34 Aligned_cols=81 Identities=14% Similarity=0.205 Sum_probs=48.3
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDLL 88 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~ 88 (123)
+.+|+......||. -+++|+-.+++-+...+.+... .++..+++.||-=+ -++...++++.+-+.
T Consensus 73 k~lTvYaFS~eN~~-----R~~~Ev~~Lm~L~~~~l~~~~~-~~~irv~~iG~~~~--------lp~~~~~~~~~~e~~- 137 (256)
T PRK14828 73 NVVTLYLLSTDNLG-----RPSEELNPLLDIIEDVVRQLAP-DGRWRVRHVGSLDL--------LPAPSANRLKEAEEA- 137 (256)
T ss_pred CEEEEEEEEhhhcC-----CCHHHHHHHHHHHHHHHHHHHH-hCCeEEEEECChhh--------CCHHHHHHHHHHHHh-
Confidence 45777666666663 4778888888777777777664 45667777776432 234444444332221
Q ss_pred HHhhhhhhcCCCCCceeEEEeeecC
Q psy13822 89 HHSGRFKIRHLPYTPLRLRIGLHTG 113 (123)
Q Consensus 89 ~~~~~~~~~~~~~~~l~~rIGi~~G 113 (123)
-..+..+.+.|.+++|
T Consensus 138 ---------T~~~~~~~Lnia~~Yg 153 (256)
T PRK14828 138 ---------TVGNDGIKVNVAVGYG 153 (256)
T ss_pred ---------hcCCCCcEEEEEecCC
Confidence 1124456777777776
No 46
>PRK14842 undecaprenyl pyrophosphate synthase; Provisional
Probab=70.24 E-value=35 Score=24.05 Aligned_cols=82 Identities=11% Similarity=0.168 Sum_probs=46.6
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhh--cCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINA--YNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALD 86 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~--~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~ 86 (123)
+.+|+....+.||. -+++|+-.+++-+...+.+.... ..|..++++||-=+ . ++....+++-+.+
T Consensus 54 ~~vTvYaFS~eN~~-----R~~~EV~~Lm~L~~~~l~~~~~~~~~~~irv~~iG~~~~----L----p~~l~~~i~~~e~ 120 (241)
T PRK14842 54 KNISLYAFSTENWK-----RPITEIRSIFGLLVEFIETRLDTIHARGIRIHHSGSRKK----L----TRTVLDKIDFAMA 120 (241)
T ss_pred CEEEEEEeehhhcC-----CCHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEeChhh----C----CHHHHHHHHHHHH
Confidence 45777776777763 46777766666665555554433 24777778887532 2 3433333333322
Q ss_pred HHHHhhhhhhcCCCCCceeEEEeeecC
Q psy13822 87 LLHHSGRFKIRHLPYTPLRLRIGLHTG 113 (123)
Q Consensus 87 ~~~~~~~~~~~~~~~~~l~~rIGi~~G 113 (123)
.- ..+..+.+.|.+++|
T Consensus 121 ~T----------~~~~~~~Lnia~~Yg 137 (241)
T PRK14842 121 KT----------KKNKNLTVNFCLNYG 137 (241)
T ss_pred Hh----------cCCCceEEEEEecCC
Confidence 21 124467788888887
No 47
>PRK14837 undecaprenyl pyrophosphate synthase; Provisional
Probab=69.39 E-value=36 Score=23.83 Aligned_cols=83 Identities=17% Similarity=0.238 Sum_probs=46.9
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhh--cCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINA--YNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALD 86 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~--~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~ 86 (123)
+.+|+......||. -+++|+..+|+-+...+.+.... ..+..++++||-=+ + ++...++++-+.+
T Consensus 52 ~~lT~YaFS~EN~~-----Rp~~EV~~Lm~L~~~~l~~~~~~~~~~~irvr~iGd~~~----L----p~~l~~~i~~~e~ 118 (230)
T PRK14837 52 KYLSLYVFSTENWN-----RTDSEIEHLMFLIADYLSSEFNFYKKNNIKIIVSGDIES----L----SEEVKKSIKDAIS 118 (230)
T ss_pred CEEEEEEeehhhcC-----CCHHHHHHHHHHHHHHHHHHHHHHHHCCcEEEEEcChhh----C----CHHHHHHHHHHHH
Confidence 45677666666663 47777777766666555544332 13667788887533 1 3444444333332
Q ss_pred HHHHhhhhhhcCCCCCceeEEEeeecCc
Q psy13822 87 LLHHSGRFKIRHLPYTPLRLRIGLHTGR 114 (123)
Q Consensus 87 ~~~~~~~~~~~~~~~~~l~~rIGi~~G~ 114 (123)
.- ..+..+.+.|.+++|-
T Consensus 119 ~T----------~~n~~~~Lnia~~Ygg 136 (230)
T PRK14837 119 FT----------KNFDGLVLNLAINYGG 136 (230)
T ss_pred Hh----------cCCCCcEEEEEecCCC
Confidence 21 1244678888888873
No 48
>TIGR00055 uppS undecaprenyl diphosphate synthase. Alternate name: undecaprenyl pyrophosphate synthetase. Activity has been demonstrated experimentally for members of this family from Micrococcus luteus, E. coli, Haemophilus influenzae, and Streptococcus pneumoniae.
Probab=69.18 E-value=36 Score=23.75 Aligned_cols=82 Identities=18% Similarity=0.181 Sum_probs=46.9
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhh--cCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINA--YNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALD 86 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~--~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~ 86 (123)
+.+|+......||. -+++|+-.+|+=+...+.+.... ..|..++++||-=+ + ++...++++-+.+
T Consensus 45 ~~lT~yaFStEN~~-----Rp~~EV~~Lm~L~~~~l~~~~~~~~~~~irvr~iGd~~~----L----p~~~~~~i~~~e~ 111 (226)
T TIGR00055 45 ECLTLYAFSTENWK-----RPKEEVDFLMELFEKKLDREVKELHRYNVRIRIIGDLSL----L----SKELQEKIKKAEE 111 (226)
T ss_pred CEEEEEEeehhhcC-----cCHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEeChhh----C----CHHHHHHHHHHHH
Confidence 45677666666663 36777766666655555544332 24777888888432 2 3444444433322
Q ss_pred HHHHhhhhhhcCCCCCceeEEEeeecC
Q psy13822 87 LLHHSGRFKIRHLPYTPLRLRIGLHTG 113 (123)
Q Consensus 87 ~~~~~~~~~~~~~~~~~l~~rIGi~~G 113 (123)
.- ..+..+.+.|.+++|
T Consensus 112 ~T----------~~n~~~~lnia~~Yg 128 (226)
T TIGR00055 112 DT----------KNNTDFTLNIAFNYG 128 (226)
T ss_pred Hh----------cCCCceEEEEEecCC
Confidence 21 134467888888886
No 49
>PRK14838 undecaprenyl pyrophosphate synthase; Provisional
Probab=68.65 E-value=38 Score=23.87 Aligned_cols=82 Identities=18% Similarity=0.191 Sum_probs=48.9
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDLL 88 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~ 88 (123)
+.+|+....+.|| .-+++|+-.+++-+...+.+..-...+..+++.||-=+ + ++...++++-+-+.-
T Consensus 56 ~~lT~YaFS~EN~-----kR~~~Ev~~Lm~l~~~~l~~~~~~~~~irir~iG~~~~----L----p~~l~~~i~~~e~~T 122 (242)
T PRK14838 56 KFLTLYTFSTENW-----NRPSDEVAALMSLLLDSIEEETFMKNNIRFRIIGDIAK----L----PEEVQERLNECEEHT 122 (242)
T ss_pred CEEEEEeechhhc-----CCCHHHHHHHHHHHHHHHHHHHHHHcCcEEEEEeChhh----C----CHHHHHHHHHHHHHh
Confidence 4567766666666 34778888888777777765433335778888887432 2 344444443333321
Q ss_pred HHhhhhhhcCCCCCceeEEEeeecC
Q psy13822 89 HHSGRFKIRHLPYTPLRLRIGLHTG 113 (123)
Q Consensus 89 ~~~~~~~~~~~~~~~l~~rIGi~~G 113 (123)
..+..+.+.|.+++|
T Consensus 123 ----------~~~~~~~lnia~~Yg 137 (242)
T PRK14838 123 ----------AKNTGMCLVLALSYS 137 (242)
T ss_pred ----------cCCCceEEEEeecCC
Confidence 124456778888776
No 50
>PHA03140 helicase-primase primase subunit; Provisional
Probab=68.39 E-value=37 Score=27.96 Aligned_cols=40 Identities=18% Similarity=0.224 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCC
Q psy13822 31 FEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLP 70 (123)
Q Consensus 31 ~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~ 70 (123)
+-++-+.|.+-..+++.....+=-+=.+.+||+..+|+..
T Consensus 478 ~aii~i~N~Is~~vE~~A~~~~FAiCtYvKDGFWG~F~~~ 517 (772)
T PHA03140 478 KAIIALANAISACVERAANERNFAICTYVKDGFWGAFGDL 517 (772)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCeeEEeeccCceeEecccc
Confidence 3455666788888888888888778888999999999765
No 51
>PRK14834 undecaprenyl pyrophosphate synthase; Provisional
Probab=67.78 E-value=41 Score=23.84 Aligned_cols=82 Identities=22% Similarity=0.203 Sum_probs=47.2
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhh--cCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINA--YNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALD 86 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~--~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~ 86 (123)
+.+|+......||. -+++|+-.+++-+...+.+.... ..|..+++.||-=+ . ++...++++-+.+
T Consensus 60 ~~lTvYaFS~eN~~-----R~~~EV~~Lm~L~~~~l~~~~~~~~~~~iri~viGd~~~----L----p~~l~~~i~~~e~ 126 (249)
T PRK14834 60 GYLTLFAFSSENWS-----RPASEVSDLFGLLRLFIRRDLAELHRNGVRVRVIGERAG----L----EADICALLNEAEE 126 (249)
T ss_pred CEEEEEEEeccccC-----CCHHHHHHHHHHHHHHHHHHHHHHHHCCcEEEEEcChhh----C----CHHHHHHHHHHHH
Confidence 56777777777774 46677776666655555554433 24777888998322 2 3433333332222
Q ss_pred HHHHhhhhhhcCCCCCceeEEEeeecC
Q psy13822 87 LLHHSGRFKIRHLPYTPLRLRIGLHTG 113 (123)
Q Consensus 87 ~~~~~~~~~~~~~~~~~l~~rIGi~~G 113 (123)
.- ..+..+.+.|.+++|
T Consensus 127 ~T----------~~~~~~~lnla~~Yg 143 (249)
T PRK14834 127 LT----------RNNTGLNLVIAFNYG 143 (249)
T ss_pred hh----------ccCCceEEEEEeccC
Confidence 21 134567778888776
No 52
>PRK14835 undecaprenyl pyrophosphate synthase; Provisional
Probab=66.52 E-value=46 Score=23.97 Aligned_cols=82 Identities=22% Similarity=0.191 Sum_probs=48.8
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHh----hcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATIN----AYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMA 84 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~----~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~a 84 (123)
+.+|+....+.||. -+++|+..+++-+...+.+.+. ...|..+++.||-- .+ ++....++.-+
T Consensus 87 k~lTvYaFS~EN~~-----R~~~EV~~Lm~L~~~~l~~~~~~~~~~~~~irir~iGd~~----~L----p~~l~~~i~~~ 153 (275)
T PRK14835 87 PTVTIWVFSTDNFS-----RSPAEVETLMNLFEREARRMAVDPRIHANRVRVRAIGRHD----GF----PPKVLEALEEL 153 (275)
T ss_pred CEEEEEEEEccccC-----CCHHHHHHHHHHHHHHHHHHhchhhhhhCCeEEEEecChh----hC----CHHHHHHHHHH
Confidence 56777776777773 4777887777777777766542 12488888999842 12 34444444333
Q ss_pred HHHHHHhhhhhhcCCCCCceeEEEeeecC
Q psy13822 85 LDLLHHSGRFKIRHLPYTPLRLRIGLHTG 113 (123)
Q Consensus 85 l~~~~~~~~~~~~~~~~~~l~~rIGi~~G 113 (123)
.+.- ..+..+.+.|.+++|
T Consensus 154 e~~T----------~~~~~~~Lnia~~Yg 172 (275)
T PRK14835 154 EERT----------EGHEGMLLNIAVGYG 172 (275)
T ss_pred HHHh----------cCCCCeEEEEEeccC
Confidence 2221 123456777777776
No 53
>PRK14836 undecaprenyl pyrophosphate synthase; Provisional
Probab=64.55 E-value=44 Score=23.72 Aligned_cols=69 Identities=23% Similarity=0.255 Sum_probs=40.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhhc--CeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHHHHHhhhhhhcCCCCCce
Q psy13822 27 YSTPFEVVDLLNDLYTCFDATINAY--NVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDLLHHSGRFKIRHLPYTPL 104 (123)
Q Consensus 27 ~~~~~~~~~~l~~~~~~~~~~v~~~--gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~~~~~~~~~~~~~~~~l 104 (123)
.-+++|+-.+|+-+...+.+..... .+..+++.||.=+ . ++...++++-+-+.- ..+..+
T Consensus 73 ~R~~~EV~~Lm~l~~~~l~~~~~~~~~~~irv~viG~~~~----L----p~~~~~~i~~~e~~T----------~~n~~~ 134 (253)
T PRK14836 73 LRPADEVSALMELFLKALDREVDKLHRNGIRVRFIGDRSR----L----SPKLQERMEYAERLT----------ASNTRL 134 (253)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEecccc----C----CHHHHHHHHHHHHHh----------ccCCce
Confidence 3477888888887777776655432 4777888888543 2 233333332222221 123467
Q ss_pred eEEEeeecC
Q psy13822 105 RLRIGLHTG 113 (123)
Q Consensus 105 ~~rIGi~~G 113 (123)
.+.+.+++|
T Consensus 135 ~Lnla~~Yg 143 (253)
T PRK14836 135 ILSLAVSYG 143 (253)
T ss_pred EEEEEecCC
Confidence 788888876
No 54
>PRK14833 undecaprenyl pyrophosphate synthase; Provisional
Probab=64.21 E-value=47 Score=23.28 Aligned_cols=82 Identities=16% Similarity=0.162 Sum_probs=45.3
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhc--CeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAY--NVYKVETIGDAYMVVGGLPVRIPDHADQIATMALD 86 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~--gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~ 86 (123)
+.+|+....+.||. -+++|+-.+++-+...+.+..... .+..+++.||-=+ + ++....+++-+-+
T Consensus 50 ~~lTvyaFS~eN~~-----R~~~Ev~~Lm~L~~~~l~~~~~~~~~~~irvr~iG~~~~----L----p~~~~~~i~~~e~ 116 (233)
T PRK14833 50 ECLTLYAFSTENWK-----RPKSEVDFLMKLLKKYLKDERSTYLENNIRFKAIGDLEG----F----SKELRDTILQLEE 116 (233)
T ss_pred CEEEEeecchhhcC-----cCHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEEEeChhh----C----CHHHHHHHHHHHH
Confidence 45677666666662 467777777666555555433322 3778888888321 2 2333333322222
Q ss_pred HHHHhhhhhhcCCCCCceeEEEeeecC
Q psy13822 87 LLHHSGRFKIRHLPYTPLRLRIGLHTG 113 (123)
Q Consensus 87 ~~~~~~~~~~~~~~~~~l~~rIGi~~G 113 (123)
. -..+..+.+.|.+++|
T Consensus 117 ~----------T~~~~~~~Lnia~~Y~ 133 (233)
T PRK14833 117 D----------TRSFKGFTQVLALNYG 133 (233)
T ss_pred H----------ccCCCceEEEEEecCC
Confidence 1 1134467888888886
No 55
>cd00475 CIS_IPPS Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl diphosphates. A few can also catalyze the condensation of IPP to trans-geranyl diphosphate to form the short-chain cis,trans- FPP. In prokaryotes, the cis-IPPS, undecaprenyl diphosphate synthase (UPP synthase) catalyzes the formation of the carrier lipid UPP in bacterial cell wall peptidooglycan biosynthesis. Similarly, in eukaryotes, the cis-IPPS, dehydrodolichyl diphosphate (dedol-PP) synthase catalyzes the formation of the polyisoprenoid glycosyl carrier lipid dolichyl monophosphate. cis-IPPS are mechanistically and structurally distinct from trans-IPPS, lacking the DDXXD motifs, yet requiring Mg2+ for activity.
Probab=62.88 E-value=49 Score=22.99 Aligned_cols=50 Identities=20% Similarity=0.209 Sum_probs=32.7
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhh--cCeEEEeeeCcEE
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINA--YNVYKVETIGDAY 63 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~--~gg~~~~~~Gd~~ 63 (123)
+.+|+......||. -+++|+..+++-+...+.+.+.. ..+..+++.||-=
T Consensus 46 ~~lTvyaFS~eN~~-----R~~~EV~~Lm~l~~~~l~~~~~~~~~~~i~vr~iGd~~ 97 (221)
T cd00475 46 KEVTLYAFSTENWK-----RPKEEVDFLMELFRDVLRRILKELEKLGVRIRIIGDLS 97 (221)
T ss_pred CEEEEEeechhhhC-----cCHHHHHHHHHHHHHHHHHHHHHHHHCCcEEEEEeChh
Confidence 45677666666663 47778777777666666665543 2477778888753
No 56
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=62.53 E-value=40 Score=21.90 Aligned_cols=30 Identities=23% Similarity=0.251 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhhcC-eEEEeeeCcEEEEEeC
Q psy13822 39 DLYTCFDATINAYN-VYKVETIGDAYMVVGG 68 (123)
Q Consensus 39 ~~~~~~~~~v~~~g-g~~~~~~Gd~~~~~fg 68 (123)
.+...+-+.+..+| -.++++.++.+.+.|.
T Consensus 48 ~l~~~ll~~~~~~GevvLvRfv~~~mwVTF~ 78 (146)
T PF08952_consen 48 NLMDELLQKFAQYGEVVLVRFVGDTMWVTFR 78 (146)
T ss_dssp HHHHHHHHHHHCCS-ECEEEEETTCEEEEES
T ss_pred HHHHHHHHHHHhCCceEEEEEeCCeEEEEEC
Confidence 34445555566676 6788999999999993
No 57
>PHA03144 helicase-primase primase subunit; Provisional
Probab=61.72 E-value=36 Score=27.98 Aligned_cols=41 Identities=17% Similarity=0.238 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCC
Q psy13822 32 EVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVR 72 (123)
Q Consensus 32 ~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~ 72 (123)
-+.-+.|.+-..+++.....|=-+=.+.+||+..+|+....
T Consensus 472 ~ii~i~N~Is~~vE~~A~~~~FAiCtYvkDGfWG~f~~~~~ 512 (746)
T PHA03144 472 ALIALANAVSRALERAANAVGFAVCTYVKDGFWGVLGVDPQ 512 (746)
T ss_pred HHHHHHHHHHHHHHHHHhhcCeeEEeecCCceEEeccCCcc
Confidence 35556677778888888888877888899999999987543
No 58
>KOG1602|consensus
Probab=61.36 E-value=52 Score=23.58 Aligned_cols=48 Identities=25% Similarity=0.364 Sum_probs=36.6
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhh-----cCeEEEeeeCc
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINA-----YNVYKVETIGD 61 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~-----~gg~~~~~~Gd 61 (123)
+.+|+..-.|.|| .-+|+|+-.+|+=+...+.+..++ ..|..+++.||
T Consensus 82 ~~vT~fAFSieNF-----kRs~eEVd~LM~L~~~k~~~~~~~~~~~~~~gvririiGd 134 (271)
T KOG1602|consen 82 KEVTVFAFSIENF-----KRSPEEVDGLMDLALEKIERLLEQGEKLDKYGVRIRVIGD 134 (271)
T ss_pred cEEEEEEEehhhh-----CCCHHHHHHHHHHHHHHHHHHHHHhhhhhhcCeEEEEEcc
Confidence 4688888888888 458888888888888888876665 25677778886
No 59
>PF01255 Prenyltransf: Putative undecaprenyl diphosphate synthase; InterPro: IPR001441 Synonym(s): Di-trans-poly-cis-undecaprenyl-diphosphate synthase, Undecaprenyl pyrophosphate synthetase, Undecaprenyl pyrophosphate synthase, UPP synthetase Di-trans-poly-cis-decaprenylcistransferase (2.5.1.31 from EC) (UPP synthetase) generates undecaprenyl pyrophosphate (UPP) from isopentenyl pyrophosphate (IPP) []. This bacterial enzyme is also found in archaebacteria and in a number of uncharacterised proteins including some from yeasts. This entry also matches related enzymes that transfer alkyl groups, such as dehydrodolichyl diphosphate synthase.; GO: 0016765 transferase activity, transferring alkyl or aryl (other than methyl) groups; PDB: 2D2R_B 2DTN_B 1F75_B 1X07_A 2E9D_A 1JP3_A 3QAS_A 1X09_A 1V7U_B 2E9A_A ....
Probab=59.91 E-value=55 Score=22.61 Aligned_cols=49 Identities=22% Similarity=0.287 Sum_probs=31.0
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhc----CeEEEeeeCcE
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAY----NVYKVETIGDA 62 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~----gg~~~~~~Gd~ 62 (123)
+.+|+......||. -+++|+..+++-+...+.+.+... .|..+++.||-
T Consensus 40 ~~lTvYaFS~eN~~-----R~~~EV~~Lm~l~~~~l~~~~~~~~~~~~~irvr~iGd~ 92 (223)
T PF01255_consen 40 KYLTVYAFSTENWK-----RPKEEVDALMDLFERYLRELIDELNFHKNGIRVRVIGDL 92 (223)
T ss_dssp SEEEEEEEETTGGG-----S-HHHHHHHHHHHHHHHHHHHHHHH--HTTEEEEEES-G
T ss_pred CEEEEEEecchhhc-----CCHHHHHHHHHHHHHHHHHHhhhcchhhcCeeEEEEecc
Confidence 45777766666663 477787777766666666555422 57888888886
No 60
>PRK05406 LamB/YcsF family protein; Provisional
Probab=59.84 E-value=16 Score=25.85 Aligned_cols=50 Identities=16% Similarity=0.121 Sum_probs=43.9
Q ss_pred EeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEE
Q psy13822 15 FSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYM 64 (123)
Q Consensus 15 f~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~ 64 (123)
|=|+.||-+-.-.++++|+...+..-...+..+...+|..+......|.+
T Consensus 66 ypD~~gFGRR~m~~s~~el~~~v~yQigAL~~~a~~~g~~l~hVKPHGAL 115 (246)
T PRK05406 66 YPDLEGFGRRNMDLSPEELYALVLYQIGALQAIARAAGGRVSHVKPHGAL 115 (246)
T ss_pred CCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCeeEEeCccHHH
Confidence 66999999999999999999999999999999999999888776666544
No 61
>COG1353 Predicted CRISPR-associated polymerase [Defense mechanisms]
Probab=59.83 E-value=1e+02 Score=25.74 Aligned_cols=83 Identities=17% Similarity=0.191 Sum_probs=53.0
Q ss_pred ceeeEEEEEeeccChhhhccCCCHH-------HHHHHHHHHHHHH-HHHHhh--------------cCeEEEeeeCcEEE
Q psy13822 7 DFREVTIYFSDIVGFTTISAYSTPF-------EVVDLLNDLYTCF-DATINA--------------YNVYKVETIGDAYM 64 (123)
Q Consensus 7 ~~~~~tvlf~di~~~t~l~~~~~~~-------~~~~~l~~~~~~~-~~~v~~--------------~gg~~~~~~Gd~~~ 64 (123)
...-..++.+|+.++..+....... ...+.+.-+|... ..++.. ..|+++---||-++
T Consensus 518 ~~~~~~~lk~DvD~mGk~~~~~~~~~~is~~s~~s~~~s~ff~~~~~~i~~~~~~~~~~~~~~~~~~~~~iVYsGGDDvl 597 (799)
T COG1353 518 GTKYLAILKMDVDNMGKLFSEGLKKDTISRYSTFSRMLSLFFRGYLNKIAEDIRFRVLPSPLLDEDPNGYIVYSGGDDVL 597 (799)
T ss_pred ccceeEEEEecHHHHHHHHHhhccccchhhhccchHHHHHHHHHHHHHHhhchhhhhccccccCCCCcEEEEEecCCceE
Confidence 4455889999999988886542111 1223333333332 233332 34888878888888
Q ss_pred EEeCCCCCCchHHHHHHHHHHHHHHHhhhhhhc
Q psy13822 65 VVGGLPVRIPDHADQIATMALDLLHHSGRFKIR 97 (123)
Q Consensus 65 ~~fg~~~~~~~~~~~a~~~al~~~~~~~~~~~~ 97 (123)
++- +-..++.+|.++++....+...
T Consensus 598 a~g--------~~d~vld~a~el~~~F~~~~~~ 622 (799)
T COG1353 598 AVG--------PWDDVLDFAKELRELFSEFTGK 622 (799)
T ss_pred Eec--------cHHHHHHHHHHHHHHHHHHhcC
Confidence 873 4456889999999888877543
No 62
>COG1540 Uncharacterized proteins, homologs of lactam utilization protein B [General function prediction only]
Probab=59.55 E-value=19 Score=25.40 Aligned_cols=50 Identities=16% Similarity=0.112 Sum_probs=42.8
Q ss_pred EeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEE
Q psy13822 15 FSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYM 64 (123)
Q Consensus 15 f~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~ 64 (123)
|=|+.||-+-.-.++|+++...+---...+..+.+.+|+.+-.....|.+
T Consensus 66 yPDl~gFGRr~m~~~~~e~~a~~lYQiGAL~a~~~a~G~~~~hVKpHGAL 115 (252)
T COG1540 66 YPDLVGFGRREMALSPEELYAQVLYQIGALQAFARAQGGVVQHVKPHGAL 115 (252)
T ss_pred CccccccCccccCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEecccHHH
Confidence 56899999999999999999999888899999999999988776665543
No 63
>PRK12569 hypothetical protein; Provisional
Probab=57.81 E-value=25 Score=24.85 Aligned_cols=50 Identities=20% Similarity=0.198 Sum_probs=44.0
Q ss_pred EeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEE
Q psy13822 15 FSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYM 64 (123)
Q Consensus 15 f~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~ 64 (123)
|=|+.||-+-.-.++++++...+..-...+..+...+|..+......|.+
T Consensus 69 yPD~~gFGRr~m~~s~~el~~~v~yQigaL~~~~~~~g~~l~hVKPHGAL 118 (245)
T PRK12569 69 FRDLVGFGRRHINASPQELVNDVLYQLGALREFARAHGVRLQHVKPHGAL 118 (245)
T ss_pred CCcCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCeeEEecCCHHH
Confidence 66899999999999999999999999999999999999888776666543
No 64
>PF03746 LamB_YcsF: LamB/YcsF family; InterPro: IPR005501 This entry represents the uncharacterised protein family UPF0271, including LamB. The lam locus of Emericella nidulans (Aspergillus nidulans) consists of two divergently transcribed genes, lamA and lamB, involved in the utilization of lactams such as 2-pyrrolidinone. Both genes are under the control of the positive regulatory gene amdR and are subject to carbon and nitrogen metabolite repression []. The exact molecular function of the proteins in this family is unknown.; PDB: 1V6T_A 1XW8_A 2XU2_A 2DFA_A.
Probab=56.41 E-value=23 Score=25.01 Aligned_cols=49 Identities=20% Similarity=0.086 Sum_probs=32.5
Q ss_pred EeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEE
Q psy13822 15 FSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAY 63 (123)
Q Consensus 15 f~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~ 63 (123)
|=|..||-+-.-.++++++...+-.-...+..+...+|+.+-.....|-
T Consensus 64 yPD~~gFGRr~m~~s~~el~~~v~yQigaL~~~a~~~g~~l~hVKPHGA 112 (242)
T PF03746_consen 64 YPDREGFGRRSMDISPEELRDSVLYQIGALQAIAAAEGVPLHHVKPHGA 112 (242)
T ss_dssp -S-TTTTT-S-----HHHHHHHHHHHHHHHHHHHHHTT--EEEE---HH
T ss_pred CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCeeEEecccHH
Confidence 6799999999999999999999999999999999999988876655554
No 65
>COG5001 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]
Probab=55.32 E-value=51 Score=25.64 Aligned_cols=98 Identities=17% Similarity=0.161 Sum_probs=53.8
Q ss_pred ceeeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhhcCeEE---EeeeCcEEEEEeCCCCCCchHHHHHHHH
Q psy13822 7 DFREVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINAYNVYK---VETIGDAYMVVGGLPVRIPDHADQIATM 83 (123)
Q Consensus 7 ~~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~---~~~~Gd~~~~~fg~~~~~~~~~~~a~~~ 83 (123)
..+.....++|+.||...-+..+...=-++| -.+.+-++.+.|.. -+.-||.+-.+-.. .++++.+++.
T Consensus 256 ~g~rl~lgvIDLDgFKpvND~~GH~~GDrLL----i~V~~RL~A~~~ap~~aaRLGGDEFa~i~p~---~~dDA~rva~- 327 (663)
T COG5001 256 SGRRLVLGVIDLDGFKPVNDAFGHATGDRLL----IEVGRRLKAFDGAPILAARLGGDEFALIIPA---LEDDALRVAG- 327 (663)
T ss_pred cCCceEEEEEeccCCeeccccccccchhHHH----HHHHHHHHhhcCCcHHHHHhcCCeeEEEccC---CCcHHHHhcc-
Confidence 3456788999999998765544332222233 33333344444433 23458887766533 3566777666
Q ss_pred HHHHHHHhhhhhhcCCCCCceeEEEeeecCcee
Q psy13822 84 ALDLLHHSGRFKIRHLPYTPLRLRIGLHTGRPV 116 (123)
Q Consensus 84 al~~~~~~~~~~~~~~~~~~l~~rIGi~~G~v~ 116 (123)
|.++.+.+...- .....+++||-..|-+.
T Consensus 328 a~al~e~L~ApY----~l~~~~v~vgASiGia~ 356 (663)
T COG5001 328 ARALCESLQAPY----DLRGVRVQVGASIGIAP 356 (663)
T ss_pred hHHHHHHhCCCc----ccCCceEEeeeeeeeee
Confidence 666666554321 22345566666655443
No 66
>PRK14832 undecaprenyl pyrophosphate synthase; Provisional
Probab=53.73 E-value=79 Score=22.51 Aligned_cols=82 Identities=15% Similarity=0.162 Sum_probs=46.5
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhh--cCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINA--YNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALD 86 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~--~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~ 86 (123)
+.+|+......||. -+++|+-.+++-+...+.+.... ..|..+++.||-=+ + ++...++++-+-+
T Consensus 64 ~~lTvyaFS~EN~~-----Rp~~EV~~Lm~L~~~~l~~~~~~~~~~~irv~~iGd~~~----L----p~~l~~~i~~~e~ 130 (253)
T PRK14832 64 KALTAYAFSTENWQ-----RPIEEVDFLMLLFERLLRRELAQMHREGVRISFIGDLSA----L----PKSLQTEMERSMT 130 (253)
T ss_pred CEEEEEEeehhhcC-----CCHHHHHHHHHHHHHHHHHHHHHHHhcCCEEEEEeCchh----C----CHHHHHHHHHHHH
Confidence 45777776677663 46777776666555555554432 24778888888422 2 3444444333322
Q ss_pred HHHHhhhhhhcCCCCCceeEEEeeecC
Q psy13822 87 LLHHSGRFKIRHLPYTPLRLRIGLHTG 113 (123)
Q Consensus 87 ~~~~~~~~~~~~~~~~~l~~rIGi~~G 113 (123)
.- ..+..+.+.|.+++|
T Consensus 131 ~T----------~~~~~~~Lnia~~Yg 147 (253)
T PRK14832 131 ET----------LNNQAIHFTVAVNYG 147 (253)
T ss_pred Hh----------cCCCceEEEEEecCC
Confidence 21 123456778887776
No 67
>COG5040 BMH1 14-3-3 family protein [Signal transduction mechanisms]
Probab=51.84 E-value=25 Score=24.18 Aligned_cols=59 Identities=19% Similarity=0.202 Sum_probs=28.6
Q ss_pred eEEEeeeCc--EEEEEeCCCCCCchHHHHHHHHHHHHHHHhhhhhhc-CCCCCceeEEEeeecCce
Q psy13822 53 VYKVETIGD--AYMVVGGLPVRIPDHADQIATMALDLLHHSGRFKIR-HLPYTPLRLRIGLHTGRP 115 (123)
Q Consensus 53 g~~~~~~Gd--~~~~~fg~~~~~~~~~~~a~~~al~~~~~~~~~~~~-~~~~~~l~~rIGi~~G~v 115 (123)
.+..|..|| .+++-|.......+.+..++.+-. ........ -.+-.|++++.++++.-.
T Consensus 120 vFyyKMKGDYyRYlAEf~~G~~~~e~a~~slE~YK----~AseiA~teLpPT~PirLGLALNfSVF 181 (268)
T COG5040 120 VFYYKMKGDYYRYLAEFSVGEAREEAADSSLEAYK----AASEIATTELPPTHPIRLGLALNFSVF 181 (268)
T ss_pred EEEEeecchHHHHHHHhccchHhHHHHHhHHHHHH----HHHHHhhccCCCCCchhhhheecceee
Confidence 445556677 556666554433333333333322 22222222 123447777777777543
No 68
>COG2450 Uncharacterized conserved protein [Function unknown]
Probab=47.77 E-value=57 Score=20.59 Aligned_cols=32 Identities=9% Similarity=0.073 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEE
Q psy13822 35 DLLNDLYTCFDATINAYNVYKVETIGDAYMVV 66 (123)
Q Consensus 35 ~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~ 66 (123)
..+.+....+.++.+.+||.+.+.-.+-+++.
T Consensus 79 ~~~~~V~e~lr~~a~~~ggdi~~l~~n~viIT 110 (124)
T COG2450 79 DLFERVIEELRDTAEEVGGDIAKLGDNVVIIT 110 (124)
T ss_pred hHHHHHHHHHHHHHHHhCchhhhhcCCEEEEC
Confidence 35677788899999999999998866655543
No 69
>PRK10240 undecaprenyl pyrophosphate synthase; Provisional
Probab=46.31 E-value=1e+02 Score=21.60 Aligned_cols=82 Identities=18% Similarity=0.227 Sum_probs=46.1
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhh--cCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINA--YNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALD 86 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~--~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~ 86 (123)
+.+|+......||. -+++|+-.+++-+...+.+.... ..+..++++||-=+ + ++...++++-+-+
T Consensus 39 ~~lT~yaFS~eN~~-----R~~~Ev~~Lm~l~~~~l~~~~~~~~~~~i~vr~iG~~~~----L----p~~l~~~i~~~e~ 105 (229)
T PRK10240 39 EALTLYAFSSENWN-----RPAQEVSALMELFVWALDSEVKSLHRHNVRLRIIGDTSR----F----NSRLQERIRKSEA 105 (229)
T ss_pred CEEEEEeeehhhcC-----cCHHHHHHHHHHHHHHHHHHHHHHHHCCcEEEEEeChhh----C----CHHHHHHHHHHHH
Confidence 45677666666663 46777777766666666554433 24777888887432 2 3433333333222
Q ss_pred HHHHhhhhhhcCCCCCceeEEEeeecC
Q psy13822 87 LLHHSGRFKIRHLPYTPLRLRIGLHTG 113 (123)
Q Consensus 87 ~~~~~~~~~~~~~~~~~l~~rIGi~~G 113 (123)
.- .....+.+.|.+++|
T Consensus 106 ~T----------~~~~~~~Lnla~~Yg 122 (229)
T PRK10240 106 LT----------AGNTGLTLNIAANYG 122 (229)
T ss_pred Hh----------cCCCCeEEEEEeccC
Confidence 21 123456777777776
No 70
>PF03460 NIR_SIR_ferr: Nitrite/Sulfite reductase ferredoxin-like half domain; InterPro: IPR005117 Sulphite reductases (SiRs) and related nitrite reductases (NiRs) catalyse the six-electron reduction reactions of sulphite to sulphide, and nitrite to ammonia, respectively. The Escherichia coli SiR enzyme is a complex composed of two proteins, a flavoprotein alpha-component (SiR-FP) and a hemoprotein beta-component (SiR-HP), and has an alpha(8)beta(4) quaternary structure []. SiR-FP contains both FAD and FMN, while SiR-HP contains a Fe(4)S(4) cluster coupled to a sirohaem through a cysteine bridge. Electrons are transferred from NADPH to FAD, and on to FMN in SiR-FP, from which they are transferred to the metal centre of SiR-HP, where they reduce the siroheme-bound sulphite. SiR-HP has a two-fold symmetry, which generates a distinctive three-domain alpha/beta fold that controls assembly and reactivity []. This entry describes the ferrodoxin-like (alpha/beta sandwich) domain, which consists of a duplication containing two subdomains of this fold.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3B0H_A 4GEP_A 2GEP_A 2AOP_A 5AOP_A 6GEP_A 4AOP_A 1AOP_A 3AOP_A 8GEP_A ....
Probab=43.13 E-value=24 Score=19.16 Aligned_cols=37 Identities=8% Similarity=0.105 Sum_probs=24.1
Q ss_pred HHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHH
Q psy13822 41 YTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHA 77 (123)
Q Consensus 41 ~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~ 77 (123)
+..+.+++++||.-.+++.++.-+.+.+.+..+-...
T Consensus 26 l~~la~ia~~yg~~~irlT~~Q~l~l~~v~~~~~~~i 62 (69)
T PF03460_consen 26 LRALAEIAEKYGDGEIRLTTRQNLQLRGVPEENLPAI 62 (69)
T ss_dssp HHHHHHHHHHHSTSEEEEETTSCEEEEEEEGGGHHHH
T ss_pred HHHHHHHHHHhCCCeEEECCCCeEEEeCCCHHHHHHH
Confidence 4678888899985555676666666666665443333
No 71
>PRK14830 undecaprenyl pyrophosphate synthase; Provisional
Probab=41.72 E-value=1.3e+02 Score=21.42 Aligned_cols=49 Identities=24% Similarity=0.224 Sum_probs=28.6
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHH---HHhhcCeEEEeeeCcEE
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDA---TINAYNVYKVETIGDAY 63 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~---~v~~~gg~~~~~~Gd~~ 63 (123)
+.+|+......||. -+++|+..+++-+-..+.+ .+.++ +..+++.||.-
T Consensus 68 ~~vTvYaFS~eN~~-----R~~~Ev~~Lm~l~~~~l~~~~~~~~~~-~iri~viG~~~ 119 (251)
T PRK14830 68 KVLTLYAFSTENWK-----RPKDEVKFLMNLPVEFLDKFVPELIEN-NVKVNVIGDTD 119 (251)
T ss_pred CEEEEEEEehhhcC-----CCHHHHHHHHHHHHHHHHHHHHHHHHc-CCEEEEEcChh
Confidence 45677665555553 4667766666544444444 33334 67778888864
No 72
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=41.62 E-value=61 Score=17.77 Aligned_cols=46 Identities=13% Similarity=0.139 Sum_probs=30.4
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCc-EEEEEeCCCCCCchHHHHHHH
Q psy13822 26 AYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGD-AYMVVGGLPVRIPDHADQIAT 82 (123)
Q Consensus 26 ~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd-~~~~~fg~~~~~~~~~~~a~~ 82 (123)
+.++++++..++.+| ...-+...++++.| +.-++|. +++.|.+|+.
T Consensus 14 d~lsT~dI~~y~~~y-------~~~~~~~~IEWIdDtScNvvf~----d~~~A~~AL~ 60 (62)
T PF10309_consen 14 DELSTDDIKAYFSEY-------FDEEGPFRIEWIDDTSCNVVFK----DEETAARALV 60 (62)
T ss_pred CCCCHHHHHHHHHHh-------cccCCCceEEEecCCcEEEEEC----CHHHHHHHHH
Confidence 457888887777777 22235677888877 6778883 3466666654
No 73
>PF07045 DUF1330: Protein of unknown function (DUF1330); InterPro: IPR010753 This family consists of several hypothetical bacterial proteins of around 90 residues in length. The function of this family is unknown.; PDB: 2FIU_B 3HHL_A 3DCA_D 3LO3_I.
Probab=38.95 E-value=66 Score=17.36 Aligned_cols=32 Identities=13% Similarity=0.198 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeC
Q psy13822 36 LLNDLYTCFDATINAYNVYKVETIGDAYMVVGG 68 (123)
Q Consensus 36 ~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg 68 (123)
.+.+|...+..++++|||.++-. |+..-..-|
T Consensus 3 ~~~~Y~~~~~~~l~~~GG~~l~~-~~~~~~leG 34 (65)
T PF07045_consen 3 AYQEYREAVPPILEKYGGRVLAR-GGEPEVLEG 34 (65)
T ss_dssp HHHHHHHHHHHHHHHTT-EEEEE-CEEEEEEES
T ss_pred HHHHHHHHHHHHHHHcCCEEEEE-CCceeEEec
Confidence 46788899999999999998754 555555555
No 74
>PRK14827 undecaprenyl pyrophosphate synthase; Provisional
Probab=37.81 E-value=1.6e+02 Score=21.52 Aligned_cols=81 Identities=12% Similarity=0.099 Sum_probs=41.0
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHH---HHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDA---TINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMAL 85 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~---~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al 85 (123)
+.+|+.-....|| .-+++|+-.+++-+...+.+ .+.++ |..++++||-=+ + ++...++++-+-
T Consensus 113 ~~lTvYaFStEN~-----kR~~~EV~~Lm~L~~~~l~~~~~~~~~~-~irir~iG~~~~----L----p~~v~~~i~~~e 178 (296)
T PRK14827 113 KWLSLYAFSTENW-----KRSPEEVRFLMGFNRDVVRRRRDNLNKM-GVRIRWVGSRPR----L----WRSVINELAIAE 178 (296)
T ss_pred CEEEEeeecchhh-----cCCHHHHHHHHHHHHHHHHHHHHHHHHC-CcEEEEEechhh----C----CHHHHHHHHHHH
Confidence 3456655445555 24666655555444444433 33444 777788888432 2 233333332222
Q ss_pred HHHHHhhhhhhcCCCCCceeEEEeeecC
Q psy13822 86 DLLHHSGRFKIRHLPYTPLRLRIGLHTG 113 (123)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~l~~rIGi~~G 113 (123)
+.- ..+..+.+.|.+++|
T Consensus 179 ~~T----------~~n~~~~Lnia~~Yg 196 (296)
T PRK14827 179 EMT----------KSNDVITINYCVNYG 196 (296)
T ss_pred HHh----------cCCCCeEEEEEecCC
Confidence 221 124467778877776
No 75
>KOG2144|consensus
Probab=35.39 E-value=84 Score=23.15 Aligned_cols=46 Identities=24% Similarity=0.191 Sum_probs=31.4
Q ss_pred eeeEEEEEeeccChhhhccCC-CHHHHHHHHHHHHHHHHHHHhhcCeEE
Q psy13822 8 FREVTIYFSDIVGFTTISAYS-TPFEVVDLLNDLYTCFDATINAYNVYK 55 (123)
Q Consensus 8 ~~~~tvlf~di~~~t~l~~~~-~~~~~~~~l~~~~~~~~~~v~~~gg~~ 55 (123)
-.+|+|+|+|+..|-. ... +.+.+.+....|+..+..++...+--+
T Consensus 65 GC~VtIl~AD~hA~Ld--Nmkap~e~~~~rv~yYe~~Ik~~l~~~nv~l 111 (360)
T KOG2144|consen 65 GCEVTILFADLHAFLD--NMKAPDELVIRRVGYYEKEIKAALGSINVPL 111 (360)
T ss_pred CCeEEEEehHHHHHHh--cccchHHHHHHHHHHHHHHHHHHHhhcCCcH
Confidence 3689999999987733 333 345566667777777777777665443
No 76
>smart00411 BHL bacterial (prokaryotic) histone like domain.
Probab=33.32 E-value=96 Score=17.62 Aligned_cols=39 Identities=13% Similarity=0.059 Sum_probs=28.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEe
Q psy13822 27 YSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVG 67 (123)
Q Consensus 27 ~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~f 67 (123)
.++..++..+++.++..+.+.+...+ .+++.|=|.+-+.
T Consensus 15 ~~~~~~v~~vl~~l~~~i~~~L~~g~--~V~i~g~G~F~~~ 53 (90)
T smart00411 15 GLSKKDAKAAVDAFLEIITEALKKGE--KVELRGFGTFEVR 53 (90)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHhCCC--eEEEeCcEEEEEE
Confidence 46788999999999999999887754 4445554554443
No 77
>PF02197 RIIa: Regulatory subunit of type II PKA R-subunit; InterPro: IPR003117 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. In the absence of cAMP, Protein Kinase A (PKA) exists as an equimolar tetramer of regulatory (R) and catalytic (C) subunits []. In addition to its role as an inhibitor of the C subunit, the R subunit anchors the holoenzyme to specific intracellular locations and prevents the C subunit from entering the nucleus. All R subunits have a conserved domain structure consisting of the N-terminal dimerization domain, inhibitory region, cAMP-binding domain A and cAMP-binding domain B. R subunits interact with C subunits primarily through the inhibitory site. The cAMP-binding domains show extensive sequence similarity and bind cAMP cooperatively. Two types of regulatory (R) subunits exist - types I and I - which differ in molecular weight, sequence, autophosphorylation cabaility, cellular location and tissue distribution. Types I and II were further sub-divided into alpha and beta subtypes, based mainly on sequence similarity. This entry represents types I-alpha, I-beta, II-alpha and II-beta regulatory subunits of PKA proteins. These subunits contain the dimerisation interface and binding site for A-kinase-anchoring proteins (AKAPs).; GO: 0008603 cAMP-dependent protein kinase regulator activity, 0007165 signal transduction; PDB: 2IZY_E 1R2A_A 1L6E_A 2IZX_B 2KYG_A 2EZW_B 3IM4_B 3IM3_A 4F9K_C 2HWN_B ....
Probab=32.87 E-value=14 Score=18.03 Aligned_cols=22 Identities=9% Similarity=0.297 Sum_probs=13.5
Q ss_pred ccCCCHHHHHHHHHHHHHHHHH
Q psy13822 25 SAYSTPFEVVDLLNDLYTCFDA 46 (123)
Q Consensus 25 ~~~~~~~~~~~~l~~~~~~~~~ 46 (123)
.....|+++..+..+||..+.+
T Consensus 14 vl~~qP~Di~~F~a~yF~~L~~ 35 (38)
T PF02197_consen 14 VLREQPDDILQFAADYFEKLEK 35 (38)
T ss_dssp HHHH--S-HHHHHHHHHHHHHH
T ss_pred HHHHCCCcHHHHHHHHHHHHHH
Confidence 3344788899999998876654
No 78
>PHA03181 helicase-primase primase subunit; Provisional
Probab=32.43 E-value=3e+02 Score=23.03 Aligned_cols=39 Identities=10% Similarity=-0.037 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCC
Q psy13822 32 EVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLP 70 (123)
Q Consensus 32 ~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~ 70 (123)
-+.-+.|.+-..+++.....+=-+=.+.+||+..+|+..
T Consensus 481 aii~i~N~Is~~vE~~A~~~~FAiCtYvkDGfWG~F~~~ 519 (764)
T PHA03181 481 AIIGIGNHISLEVEATASTLMFAPCTYVKDGMWGTFIDK 519 (764)
T ss_pred HHHHHHHHHHHHHHHHHhhcCeeEEeecCCceEEecccc
Confidence 355566777888888888888778888999999999754
No 79
>PRK14829 undecaprenyl pyrophosphate synthase; Provisional
Probab=32.24 E-value=1.8e+02 Score=20.49 Aligned_cols=48 Identities=15% Similarity=0.163 Sum_probs=26.7
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHH---HHhhcCeEEEeeeCcE
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDA---TINAYNVYKVETIGDA 62 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~---~v~~~gg~~~~~~Gd~ 62 (123)
+.+|+......||. -+++|+-.+++-+...+.+ .+.++ |..++++||.
T Consensus 60 ~~vTvYaFS~eN~k-----R~~~Ev~~lm~L~~~~l~~~~~~~~~~-~iri~~iG~~ 110 (243)
T PRK14829 60 PYLSLYTFSTENWK-----RSPDEVRFLMGFSRDVIHRRREQMDEW-GVRVRWSGRR 110 (243)
T ss_pred CEEEEeeecchhhC-----CCHHHHHHHHHHHHHHHHHHHHHHHHc-CcEEEEEech
Confidence 44666655555553 3556665555444444433 33444 6777888884
No 80
>PF14544 DUF4443: Domain of unknown function (DUF4443); PDB: 2P8T_A.
Probab=31.93 E-value=57 Score=20.07 Aligned_cols=29 Identities=21% Similarity=0.101 Sum_probs=17.7
Q ss_pred eeCcEEEEEeCCCCCCchHHHHHHHHHHHHH
Q psy13822 58 TIGDAYMVVGGLPVRIPDHADQIATMALDLL 88 (123)
Q Consensus 58 ~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~ 88 (123)
-.||.+++.|+.. ..++...|...|+.+.
T Consensus 76 ~egD~IIIt~ae~--~~~A~ksa~~~al~~~ 104 (108)
T PF14544_consen 76 SEGDLIIITWAED--PGDAMKSAYHVALFLK 104 (108)
T ss_dssp -TT-EEEEEE-SS--HHHHHHHHHHHHHHHH
T ss_pred cCCCEEEEEccCC--HHHHHHHHHHHHHHhc
Confidence 4599999999543 2355566777777664
No 81
>PRK14831 undecaprenyl pyrophosphate synthase; Provisional
Probab=30.68 E-value=2e+02 Score=20.42 Aligned_cols=82 Identities=13% Similarity=0.140 Sum_probs=42.3
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHHHHhh--cCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDATINA--YNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALD 86 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~~v~~--~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~ 86 (123)
+.+|+......|| .-+++|+-.+++-+...+.+.... ..|..++++||--+ . ++...++++-+.+
T Consensus 66 ~~vT~yaFS~eN~-----kR~~~Ev~~Lm~L~~~~l~~~~~~~~~~~iri~~iG~~~~----L----p~~l~~~i~~~e~ 132 (249)
T PRK14831 66 GALTAYAFSTENW-----SRPLEEVNFLMTLFERVLRRELEELMEENVRIRFVGDLDP----L----PKSLQEEISRSTE 132 (249)
T ss_pred CEEEEeecchhhh-----CcCHHHHHHHHHHHHHHHHHHHHHHHHCCcEEEEEechhh----C----CHHHHHHHHHHHH
Confidence 3456655455555 246667665555554444443322 24677888888432 2 3444444333322
Q ss_pred HHHHhhhhhhcCCCCCceeEEEeeecC
Q psy13822 87 LLHHSGRFKIRHLPYTPLRLRIGLHTG 113 (123)
Q Consensus 87 ~~~~~~~~~~~~~~~~~l~~rIGi~~G 113 (123)
.- ..+..+.+.+.+++|
T Consensus 133 ~T----------~~~~~~~Lnia~~Yg 149 (249)
T PRK14831 133 LT----------KNNNGIHFNVCTNYG 149 (249)
T ss_pred Hh----------ccCCceEEEEEecCC
Confidence 21 123456777777775
No 82
>cd00591 HU_IHF Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-order nucleoprotein complex assembly. The dimer subunits associate to form a compact globular core from which two beta ribbon arms (one from each subunit) protrude. The beta arms track and bind the DNA minor groove. Despite sequence and structural similarity, IHF and HU can be distinguished by their different DNA substrate preferences.
Probab=30.67 E-value=1.1e+02 Score=17.28 Aligned_cols=39 Identities=13% Similarity=0.056 Sum_probs=28.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEe
Q psy13822 27 YSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVG 67 (123)
Q Consensus 27 ~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~f 67 (123)
.++..++..+++.++..+.+.+...+ .+++.|=|.+-+.
T Consensus 14 ~~~~~~v~~vl~~~~~~i~~~L~~g~--~V~l~~~G~F~~~ 52 (87)
T cd00591 14 GLSKKDAEAAVDAFLDVITEALAKGE--KVELPGFGTFEVR 52 (87)
T ss_pred CcCHHHHHHHHHHHHHHHHHHHhCCC--eEEEeCCEEEEEE
Confidence 56889999999999999998887544 5555555554443
No 83
>PTZ00349 dehydrodolichyl diphosphate synthetase; Provisional
Probab=29.49 E-value=2.4e+02 Score=20.96 Aligned_cols=81 Identities=15% Similarity=0.162 Sum_probs=45.9
Q ss_pred eeEEEEEeeccChhhhccCCCHHHHHHHHHHHHHHHHH------HHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHH
Q psy13822 9 REVTIYFSDIVGFTTISAYSTPFEVVDLLNDLYTCFDA------TINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIAT 82 (123)
Q Consensus 9 ~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~~~~~~~------~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~ 82 (123)
+.+|+....+.||. -+++|+-.+|+=+...+.+ .+.+ .|..++++||-=+ . ++...++++
T Consensus 65 k~lTlYAFStENwk-----Rp~~EV~~Lm~L~~~~l~~~~~~~~~l~~-~~irirviGd~~~----L----p~~l~~~i~ 130 (322)
T PTZ00349 65 KILSVFSFSLLNYN-----RSPEEIHFLFYLNLLILINEDFFFKFIKD-NKIKIKIIGNLSY----I----NDAYRKIIH 130 (322)
T ss_pred CEEEEEEeehhhhC-----CCHHHHHHHHHHHHHHHHHhhhhHHHHHH-CCCEEEEEeChhh----C----CHHHHHHHH
Confidence 45677766676663 4677776666555443333 2333 4777888888422 2 344444444
Q ss_pred HHHHHHHHhhhhhhcCCCCCceeEEEeeecC
Q psy13822 83 MALDLLHHSGRFKIRHLPYTPLRLRIGLHTG 113 (123)
Q Consensus 83 ~al~~~~~~~~~~~~~~~~~~l~~rIGi~~G 113 (123)
-+.+.- ..+..+.+.|.++||
T Consensus 131 ~~e~~T----------~~n~~~~Lnia~~Yg 151 (322)
T PTZ00349 131 DIEEKT----------ENFDNILLNIFFSYT 151 (322)
T ss_pred HHHHHh----------CCCCCcEEEEEecCC
Confidence 333331 124467888888887
No 84
>PF01106 NifU: NifU-like domain; InterPro: IPR001075 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This entry represents the C-terminal of NifU and homologous proteins. NifU contains two domains: an N-terminal (IPR002871 from INTERPRO) and a C-terminal domain []. These domains exist either together or on different polypeptides, both domains being found in organisms that do not fix nitrogen (e.g. yeast), so they have a broader significance in the cell than nitrogen fixation. ; GO: 0005506 iron ion binding, 0051536 iron-sulfur cluster binding, 0016226 iron-sulfur cluster assembly; PDB: 2JNV_A 2Z51_A 1TH5_A 1VEH_A 1XHJ_A.
Probab=28.72 E-value=1.1e+02 Score=16.84 Aligned_cols=34 Identities=6% Similarity=-0.109 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHhhcCe--EEEeeeCcEEEEEeCCCC
Q psy13822 38 NDLYTCFDATINAYNV--YKVETIGDAYMVVGGLPV 71 (123)
Q Consensus 38 ~~~~~~~~~~v~~~gg--~~~~~~Gd~~~~~fg~~~ 71 (123)
++.+..++..+..+|| .+..+.++.+.+-+....
T Consensus 2 ~~~l~~IrP~L~~dGGdv~lv~v~~~~V~V~l~GaC 37 (68)
T PF01106_consen 2 EEVLEEIRPYLQSDGGDVELVDVDDGVVYVRLTGAC 37 (68)
T ss_dssp HHHHHHCHHHHHHTTEEEEEEEEETTEEEEEEESSC
T ss_pred HHHHHHhChHHHhcCCcEEEEEecCCEEEEEEEeCC
Confidence 4556668888999988 556788898888774443
No 85
>PF15530 Toxin_50: Putative toxin 50
Probab=28.33 E-value=35 Score=22.34 Aligned_cols=21 Identities=14% Similarity=0.139 Sum_probs=17.7
Q ss_pred CceeEEEeeecCceeEEeecC
Q psy13822 102 TPLRLRIGLHTGRPVSKHLRK 122 (123)
Q Consensus 102 ~~l~~rIGi~~G~v~~g~iG~ 122 (123)
.+....|||.+||-+-|.+|.
T Consensus 83 ~~a~asiGi~FGPYfpg~~gd 103 (168)
T PF15530_consen 83 ARAGASIGISFGPYFPGVFGD 103 (168)
T ss_pred eeecceEeeecCCcCccccCC
Confidence 456778999999999999874
No 86
>COG1877 OtsB Trehalose-6-phosphatase [Carbohydrate transport and metabolism]
Probab=27.91 E-value=2.3e+02 Score=20.31 Aligned_cols=45 Identities=9% Similarity=-0.075 Sum_probs=38.5
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCC
Q psy13822 26 AYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLP 70 (123)
Q Consensus 26 ~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~ 70 (123)
....+++.+.++.+....++..+++..|-.++..|-++...+.--
T Consensus 99 ~~~~~~~~~~~~~~v~~~l~~~v~r~pGs~iE~K~~a~~~Hyr~a 143 (266)
T COG1877 99 INLAEEADLRWLKEVAAILEYYVERTPGSYIERKGFAVALHYRNA 143 (266)
T ss_pred EecCHHHHhhHHHHHHHHHHHHhhcCCCeEEEEcCcEEEEeeccC
Confidence 345778888999999999999999999999999998888888543
No 87
>COG0417 PolB DNA polymerase elongation subunit (family B) [DNA replication, recombination, and repair]
Probab=26.73 E-value=3.8e+02 Score=22.44 Aligned_cols=55 Identities=5% Similarity=0.006 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHHHHHhhh
Q psy13822 34 VDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDLLHHSGR 93 (123)
Q Consensus 34 ~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~~~~~~ 93 (123)
..+=++++....+++++.|..++....|++++..+.+. ...|.....++.+.+++
T Consensus 536 T~~gR~ii~~t~~~ae~~G~~ViyGDTDSlfv~~~~~~-----~~ea~~~~~~l~~~vn~ 590 (792)
T COG0417 536 TAFGREILRETKELAEEMGLRVIYGDTDSLFVTLPGAT-----YEEAIKIGEELVEEVNE 590 (792)
T ss_pred HHHHHHHHHHHHHHHHHcCCEEEEECCceeEEEcCCCc-----hHHHHHHHHHHHHHHhh
Confidence 33335677888899999999999999999999986554 34444455555555443
No 88
>PF00113 Enolase_C: Enolase, C-terminal TIM barrel domain; InterPro: IPR020810 Enolase (2-phospho-D-glycerate hydrolase) is an essential glycolytic enzyme that catalyses the interconversion of 2-phosphoglycerate and phosphoenolpyruvate [, ]. In vertebrates, there are 3 different, tissue-specific isoenzymes, designated alpha, beta and gamma. Alpha is present in most tissues, beta is localised in muscle tissue, and gamma is found only in nervous tissue. The functional enzyme exists as a dimer of any 2 isoforms. In immature organs and in adult liver, it is usually an alpha homodimer, in adult skeletal muscle, a beta homodimer, and in adult neurons, a gamma homodimer. In developing muscle, it is usually an alpha/beta heterodimer, and in the developing nervous system, an alpha/gamma heterodimer []. The tissue specific forms display minor kinetic differences. Tau-crystallin, one of the major lens proteins in some fish, reptiles and birds, has been shown [] to be evolutionary related to enolase. Neuron-specific enolase is released in a variety of neurological diseases, such as multiple sclerosis and after seizures or acute stroke. Several tumour cells have also been found positive for neuron-specific enolase. Beta-enolase deficiency is associated with glycogenosis type XIII defect.; GO: 0000287 magnesium ion binding, 0004634 phosphopyruvate hydratase activity, 0006096 glycolysis, 0000015 phosphopyruvate hydratase complex; PDB: 2FYM_D 3H8A_C 1E9I_D 3TQP_B 2PU1_A 1OEP_A 2PA6_A 1PDY_A 1PDZ_A 3UJ2_E ....
Probab=26.31 E-value=58 Score=23.69 Aligned_cols=34 Identities=12% Similarity=0.197 Sum_probs=26.0
Q ss_pred CHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcE
Q psy13822 29 TPFEVVDLLNDLYTCFDATINAYNVYKVETIGDA 62 (123)
Q Consensus 29 ~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~ 62 (123)
+-.+.+++..+++..+.+++++.+|......||.
T Consensus 36 s~~eal~~~~eVy~~Lk~il~~k~G~~~t~vgDe 69 (295)
T PF00113_consen 36 SFSEALRMGAEVYHALKKILKKKGGKFATNVGDE 69 (295)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHH-GGGGSBETT
T ss_pred CHHHHHHhhhHHHHHHHHHHhhcccccccccCcc
Confidence 5577888999999999999988776655556663
No 89
>PF01025 GrpE: GrpE; InterPro: IPR000740 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolysing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. In prokaryotes the grpE protein. Dimeric GrpE is the co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold []. DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. The X-ray crystal structure of GrpE in complex with the ATPase domain of DnaK revealed that GrpE is an asymmetric homodimer, bent in a manner that favours extensive contacts with only one DnaKATPase monomer []. GrpE does not actively compete for the atomic positions occupied by the nucleotide. GrpE and ADP mutually reduce one another's affinity for DnaK 200-fold, and ATP instantly dissociates GrpE from DnaK.; GO: 0000774 adenyl-nucleotide exchange factor activity, 0042803 protein homodimerization activity, 0051087 chaperone binding, 0006457 protein folding; PDB: 3A6M_A 4ANI_A 1DKG_B.
Probab=25.88 E-value=1.6e+02 Score=18.96 Aligned_cols=34 Identities=12% Similarity=0.322 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEE
Q psy13822 30 PFEVVDLLNDLYTCFDATINAYNVYKVETIGDAY 63 (123)
Q Consensus 30 ~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~ 63 (123)
...+..-++.+...+.+++.++|...+...|+-|
T Consensus 87 ~~~~~~g~~~~~~~l~~~L~~~Gv~~i~~~G~~F 120 (165)
T PF01025_consen 87 EESLLEGLEMILKQLEDILEKNGVEEIEPVGEPF 120 (165)
T ss_dssp CHHHHHHHHHHHHHHHHHHHTTTEEEE--TSSB-
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCEecCCCCCCC
Confidence 3567778889999999999999999998888754
No 90
>PF13767 DUF4168: Domain of unknown function (DUF4168)
Probab=25.77 E-value=74 Score=17.93 Aligned_cols=35 Identities=14% Similarity=0.123 Sum_probs=26.8
Q ss_pred hccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEee
Q psy13822 24 ISAYSTPFEVVDLLNDLYTCFDATINAYNVYKVET 58 (123)
Q Consensus 24 l~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~ 58 (123)
+....++.+...+..++...+.++|+.+|-.+.+|
T Consensus 27 l~~~~~~~~~~~l~~~a~~~~~~~I~~~GLtv~~f 61 (78)
T PF13767_consen 27 LQAAEDPEEIQELQEEAQEEMVEAIEENGLTVERF 61 (78)
T ss_pred HHHccCHHHHHHHHHHHHHHHHHHHHHcCCCHHHH
Confidence 34445788888899999999999998888665443
No 91
>PF07765 KIP1: KIP1-like protein; InterPro: IPR011684 This is a group of sequences found exclusively in plants. They are similar to kinase interacting protein 1 (KIP1), which has been found to interact with the kinase domain of PRK1, a receptor-like kinase []. This particular region contains two coiled-coils, which are described as motifs involved in protein-protein interactions []. It has also been suggested that the coiled-coils of the protein allow it to dimerise in vivo [].
Probab=25.55 E-value=1.4e+02 Score=17.04 Aligned_cols=23 Identities=17% Similarity=0.544 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcC
Q psy13822 30 PFEVVDLLNDLYTCFDATINAYN 52 (123)
Q Consensus 30 ~~~~~~~l~~~~~~~~~~v~~~g 52 (123)
-.+++.++.+|+...+.+.++|+
T Consensus 52 Rp~Li~~vee~yr~YrsLAerYD 74 (74)
T PF07765_consen 52 RPELISLVEEFYRSYRSLAERYD 74 (74)
T ss_pred cHHHHHHHHHHHHHHHHHHHhcC
Confidence 35788999999999988888764
No 92
>TIGR00988 hip integration host factor, beta subunit. This protein forms a site-specific DNA-binding heterodimer with the homologous integration host factor alpha subunit. It is closely related to the DNA-binding protein HU.
Probab=25.29 E-value=1.5e+02 Score=17.16 Aligned_cols=39 Identities=10% Similarity=0.100 Sum_probs=27.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEe
Q psy13822 27 YSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVG 67 (123)
Q Consensus 27 ~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~f 67 (123)
.++..++...++.++..+.+.+.+.+- +++.|=|.+-+.
T Consensus 16 ~~s~~~v~~vv~~~~~~i~~~L~~g~~--V~l~gfG~F~~~ 54 (94)
T TIGR00988 16 HLPAKDVEDAVKTMLEHMASALAQGDR--IEIRGFGSFSLH 54 (94)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHcCCe--EEEcCcEEEEEE
Confidence 468899999999999999998877554 344444444333
No 93
>COG5470 Uncharacterized conserved protein [Function unknown]
Probab=25.00 E-value=1.6e+02 Score=17.71 Aligned_cols=24 Identities=8% Similarity=0.083 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHhhcCeEEEee
Q psy13822 35 DLLNDLYTCFDATINAYNVYKVET 58 (123)
Q Consensus 35 ~~l~~~~~~~~~~v~~~gg~~~~~ 58 (123)
....+|.+....++++|||..+-.
T Consensus 16 e~y~~Y~~~~~~a~~~~Ggr~LvR 39 (96)
T COG5470 16 EQYKDYVSKAKPAIEKFGGRYLVR 39 (96)
T ss_pred HHHHHHHHHhHHHHHHhCCeeEee
Confidence 356788889999999998877644
No 94
>PF07342 DUF1474: Protein of unknown function (DUF1474); InterPro: IPR009942 This entry is represented by Bacteriophage PT1028, Orf16. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several bacterial proteins of around 100 residues in length. Members of this family seem to be found exclusively in Staphylococcus aureus. The function of this family is unknown.
Probab=24.75 E-value=1.3e+02 Score=18.21 Aligned_cols=25 Identities=20% Similarity=0.333 Sum_probs=20.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhhc
Q psy13822 27 YSTPFEVVDLLNDLYTCFDATINAY 51 (123)
Q Consensus 27 ~~~~~~~~~~l~~~~~~~~~~v~~~ 51 (123)
+..-.+.+.+|.-|...++.+++++
T Consensus 58 RI~n~Q~~dL~~~Ylkefd~li~kF 82 (100)
T PF07342_consen 58 RIQNTQTIDLMHMYLKEFDELIEKF 82 (100)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455788999999999999999776
No 95
>PF08987 DUF1892: Protein of unknown function (DUF1892); InterPro: IPR015080 Proteins in this entry, which are synthesised by Saccharomycetes, adopt a structure consisting of a four-stranded beta-sheet, with strand order beta2-beta1-beta4-beta3, and two alpha-helices, with an overall topology of beta-beta-alpha-beta-beta-alpha. They have no known function []. ; PDB: 1N6Z_A.
Probab=24.53 E-value=1.8e+02 Score=18.01 Aligned_cols=36 Identities=25% Similarity=0.234 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHhh-cCeEE-EeeeCcEEEEEe
Q psy13822 32 EVVDLLNDLYTCFDATINA-YNVYK-VETIGDAYMVVG 67 (123)
Q Consensus 32 ~~~~~l~~~~~~~~~~v~~-~gg~~-~~~~Gd~~~~~f 67 (123)
+-+..||.+|..|++.+.- +.|++ .....||+++.-
T Consensus 49 ~~~d~lN~wFDkFDEeIciPNEGhIKYEI~SDGLVVli 86 (115)
T PF08987_consen 49 DEFDELNEWFDKFDEEICIPNEGHIKYEIGSDGLVVLI 86 (115)
T ss_dssp T-HHHHHHHHHHHHHHHHTT--S-EEEEEETTTEEEEE
T ss_pred chHHHHHHHHHhhcceeecCCCCceEEEecCCcEEEEE
Confidence 3467899999999987754 45654 445678887775
No 96
>PF02913 FAD-oxidase_C: FAD linked oxidases, C-terminal domain; InterPro: IPR004113 Some oxygen-dependent oxidoreductases are flavoproteins that contain a covalently bound FAD group which is attached to a histidine via an 8-alpha-(N3-histidyl)-riboflavin linkage. The region around the histidine that binds the FAD group is conserved in these enzymes (see IPR006093 from INTERPRO).; GO: 0003824 catalytic activity, 0050660 flavin adenine dinucleotide binding; PDB: 1WVE_B 1DII_B 1WVF_A 1DIQ_A 2UUU_B 2UUV_A 1W1M_A 1E8H_B 1E0Y_B 1DZN_B ....
Probab=24.36 E-value=2.2e+02 Score=18.95 Aligned_cols=63 Identities=14% Similarity=0.188 Sum_probs=35.7
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhhcC--eEEEeeeCcEE-EEEeCCCCCCchHHHHHHHHHHHHHHHhhhh
Q psy13822 28 STPFEVVDLLNDLYTCFDATINAYN--VYKVETIGDAY-MVVGGLPVRIPDHADQIATMALDLLHHSGRF 94 (123)
Q Consensus 28 ~~~~~~~~~l~~~~~~~~~~v~~~g--g~~~~~~Gd~~-~~~fg~~~~~~~~~~~a~~~al~~~~~~~~~ 94 (123)
.++.++ .+++..+.+.+++++ ....-..||+- ..++-.+..++....++.++..++.+.+.+.
T Consensus 135 vp~~~l----~~~~~~~~~~~~~~~~~~~~~gH~~~g~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 (248)
T PF02913_consen 135 VPPSRL----PEFLREIRALLREYGLEVCHFGHAGDGNLHLYILFDPRDPEEPERAEALWDELYELVLEL 200 (248)
T ss_dssp SCHHHH----HHHHHHHHHHHHHCTEEEEEEEEEEECEEEEEEEEETTSHHHHHHHHHHHHHHHHHHHHT
T ss_pred ccchhh----hhHHHhhhhhhhhccccccceEEccCCeEEEEeecccchHHHHHHHHHHHHHHHHHHHhc
Confidence 466655 445556666666776 33333456654 3344444444566666767777776665544
No 97
>PRK10664 transcriptional regulator HU subunit beta; Provisional
Probab=24.19 E-value=1.6e+02 Score=17.15 Aligned_cols=39 Identities=10% Similarity=0.074 Sum_probs=28.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEe
Q psy13822 27 YSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVG 67 (123)
Q Consensus 27 ~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~f 67 (123)
.++..++..+++.+++.+.+.+...+- +.+.|=|-+-+.
T Consensus 15 ~~s~~~~~~~v~~~~~~i~~~L~~~~~--v~l~gfG~F~v~ 53 (90)
T PRK10664 15 DISKAAAGRALDAIIASVTESLKEGDD--VALVGFGTFAVK 53 (90)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHhCCCE--EEECCcEEEEEE
Confidence 467889999999999999999877664 445564444443
No 98
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=23.71 E-value=96 Score=25.00 Aligned_cols=43 Identities=12% Similarity=0.166 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEE-eCCCCCC
Q psy13822 31 FEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVV-GGLPVRI 73 (123)
Q Consensus 31 ~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~-fg~~~~~ 73 (123)
......+|+++..+++....-.-|++...|-.+.+. |+.|.+-
T Consensus 81 ~~~~~~~n~~L~~in~~a~ss~iYlid~~G~~iaASNw~~p~SF 124 (603)
T COG4191 81 PALRAAANRYLEQINEAAGSSAIYLIDPTGLTLAASNWNLPTSF 124 (603)
T ss_pred hHHHHHHHHHHHHHHhhccCCeEEEECCCCcEEeeccCCCCCcc
Confidence 566788999999999999999999999999999998 9888763
No 99
>PRK00207 sulfur transfer complex subunit TusD; Validated
Probab=23.41 E-value=2e+02 Score=17.96 Aligned_cols=28 Identities=21% Similarity=0.179 Sum_probs=20.5
Q ss_pred EEEEeCCCCCCchHHHHHHHHHHHHHHH
Q psy13822 63 YMVVGGLPVRIPDHADQIATMALDLLHH 90 (123)
Q Consensus 63 ~~~~fg~~~~~~~~~~~a~~~al~~~~~ 90 (123)
++.++..+.-..+.+++|+++|+.+.+.
T Consensus 3 ~~iv~~~~Py~~~~~~~al~~A~aa~~~ 30 (128)
T PRK00207 3 YAIAVTGPAYGTQQASSAYQFAQALLAE 30 (128)
T ss_pred EEEEEcCCCCCCHHHHHHHHHHHHHHhC
Confidence 4555655445578899999999998765
No 100
>cd04734 OYE_like_3_FMN Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase. One member of this subgroup, the Sinorhizobium meliloti stachydrine utilization protein stcD, has been idenified as a putative N-methylproline demethylase.
Probab=23.12 E-value=3.1e+02 Score=20.19 Aligned_cols=83 Identities=7% Similarity=0.001 Sum_probs=49.5
Q ss_pred ccCCCHHHHHHHHHHHHHHHHHHHhh-cCeEEEeeeCcEE-EEEeCCCCCC------chHHHHHHHHHHHHHHHhhhhhh
Q psy13822 25 SAYSTPFEVVDLLNDLYTCFDATINA-YNVYKVETIGDAY-MVVGGLPVRI------PDHADQIATMALDLLHHSGRFKI 96 (123)
Q Consensus 25 ~~~~~~~~~~~~l~~~~~~~~~~v~~-~gg~~~~~~Gd~~-~~~fg~~~~~------~~~~~~a~~~al~~~~~~~~~~~ 96 (123)
...++.+++..++++|.....+..+. ++|.-++. +.|+ +.-|-.|..+ .-.-.+=+++.+++++++.+.-
T Consensus 128 ~~~mt~~eI~~ii~~f~~AA~ra~~aGfDgVeih~-ahGyLl~qFlsp~~N~RtD~yGGslenR~r~~~eiv~~ir~~v- 205 (343)
T cd04734 128 PKAMEEEDIEEIIAAFADAARRCQAGGLDGVELQA-AHGHLIDQFLSPLTNRRTDEYGGSLENRMRFLLEVLAAVRAAV- 205 (343)
T ss_pred CCcCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEcc-ccchHHHHhhCCCcCCCCCcCCCCHHHHhHHHHHHHHHHHHHc-
Confidence 35688999999999999888776644 45655543 3333 3334333211 1233445577788877776542
Q ss_pred cCCCCCceeEEEeee
Q psy13822 97 RHLPYTPLRLRIGLH 111 (123)
Q Consensus 97 ~~~~~~~l~~rIGi~ 111 (123)
.....+.+|++.+
T Consensus 206 --g~~~~v~iRl~~~ 218 (343)
T cd04734 206 --GPDFIVGIRISGD 218 (343)
T ss_pred --CCCCeEEEEeehh
Confidence 1233577887753
No 101
>PF10369 ALS_ss_C: Small subunit of acetolactate synthase; InterPro: IPR019455 This entry represents the C-terminal domain of the small subunit of acetolactate synthase (the N-terminal domain being an ACT domain). Acetolactate synthase is a tetrameric enzyme, composed of two large and two small subunits, which catalyses the first step in branched-chain amino acid biosynthesis. This reaction is sensitive to certain herbicides []. ; PDB: 2F1F_B 2FGC_A 2PC6_A.
Probab=22.91 E-value=1.5e+02 Score=16.55 Aligned_cols=26 Identities=8% Similarity=0.028 Sum_probs=21.8
Q ss_pred HHHHHHHhhcCeEEEeeeCcEEEEEe
Q psy13822 42 TCFDATINAYNVYKVETIGDAYMVVG 67 (123)
Q Consensus 42 ~~~~~~v~~~gg~~~~~~Gd~~~~~f 67 (123)
..+.++++.|+|.++....|.++.-.
T Consensus 17 ~ei~~l~~~f~a~ivd~~~~~~iie~ 42 (75)
T PF10369_consen 17 SEILQLAEIFRARIVDVSPDSIIIEL 42 (75)
T ss_dssp HHHHHHHHHTT-EEEEEETTEEEEEE
T ss_pred HHHHHHHHHhCCEEEEECCCEEEEEE
Confidence 66788999999999999999887776
No 102
>cd05532 POLBc_alpha DNA polymerase type-B alpha subfamily catalytic domain. Three DNA-dependent DNA polymerases type B (alpha, delta, and epsilon) have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase (Pol) alpha is almost exclusively required for the initiation of DNA replication and the priming of Okazaki fragments during elongation. In most organisms no specific repair role, other than check point control, has been assigned to this enzyme. Pol alpha contains both polymerase and exonuclease domains, but lacks exonuclease activity suggesting that the exonuclease domain may be for structural purposes only.
Probab=21.99 E-value=3.6e+02 Score=20.45 Aligned_cols=32 Identities=13% Similarity=0.140 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCC
Q psy13822 38 NDLYTCFDATINAYNVYKVETIGDAYMVVGGL 69 (123)
Q Consensus 38 ~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~ 69 (123)
+.......+.++..|..++.-..|++++.++.
T Consensus 142 R~~l~~~~~~~e~~g~~ViYgDTDSifv~~~~ 173 (400)
T cd05532 142 REILQKTKDLVEKMNLEVIYGDTDSIMINTGT 173 (400)
T ss_pred HHHHHHHHHHHHHcCCEEEEeCCCeEEEecCC
Confidence 44667777888888999998899999999854
No 103
>PF14908 DUF4496: Domain of unknown function (DUF4496)
Probab=21.80 E-value=2.2e+02 Score=17.84 Aligned_cols=47 Identities=11% Similarity=0.198 Sum_probs=36.1
Q ss_pred Chhhhcc--CCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEe
Q psy13822 20 GFTTISA--YSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVG 67 (123)
Q Consensus 20 ~~t~l~~--~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~f 67 (123)
+|+.++. ..+.+.+...+++++..+.+.+....-..+.+ |=|.+.+-
T Consensus 84 n~~~ia~~~~~~kd~v~~~l~~~~~~l~~~l~~~~~v~i~f-gvG~L~~~ 132 (140)
T PF14908_consen 84 NYSEIAASCGFSKDVVEACLREIFQALGDALRNGQNVEIDF-GVGVLSIR 132 (140)
T ss_pred CHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEE-eEEEEEEE
Confidence 6777763 45788899999999999999999766666667 77766654
No 104
>KOG1405|consensus
Probab=21.61 E-value=3.8e+02 Score=20.62 Aligned_cols=34 Identities=12% Similarity=0.004 Sum_probs=29.2
Q ss_pred HHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCC
Q psy13822 39 DLYTCFDATINAYNVYKVETIGDAYMVVGGLPVR 72 (123)
Q Consensus 39 ~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~ 72 (123)
.++..+.++-.+|.|.+.+..|-|-++.|..|..
T Consensus 399 ~l~~gL~~Lq~~~p~~~~~~RGrGTF~a~d~ps~ 432 (484)
T KOG1405|consen 399 ALLKGLLELQAKYPGKINNLRGRGTFIAWDCPSG 432 (484)
T ss_pred HHHHHHHHHHHhCchhhhcccccceEEEEeCCCh
Confidence 4567777888899999999999999999988755
No 105
>PF09677 TrbI_Ftype: Type-F conjugative transfer system protein (TrbI_Ftype); InterPro: IPR014115 This entry represents TrbI, an essential component of the F-type conjugative transfer system for plasmid DNA transfer that has been shown to be localized to the periplasm [, ].
Probab=21.51 E-value=1.7e+02 Score=18.02 Aligned_cols=54 Identities=22% Similarity=0.282 Sum_probs=35.1
Q ss_pred EEEEeeccC----hhh--hccCCCHHHHHHHHHHHHHHHHHHHhhcC--eEEEeeeCcEEEE
Q psy13822 12 TIYFSDIVG----FTT--ISAYSTPFEVVDLLNDLYTCFDATINAYN--VYKVETIGDAYMV 65 (123)
Q Consensus 12 tvlf~di~~----~t~--l~~~~~~~~~~~~l~~~~~~~~~~v~~~g--g~~~~~~Gd~~~~ 65 (123)
.+...|+.+ |.. ....++|++.-....+|...+++.+.+|+ +..+=..+..++.
T Consensus 32 ~iV~~dl~~tv~~f~~~~a~~~lt~~q~~a~t~~F~~aL~~~L~~~~~~h~~vILv~~AVv~ 93 (111)
T PF09677_consen 32 RIVTFDLKGTVDEFVQQLARSSLTPEQVEALTQRFMQALEASLAEYQAEHHVVILVSPAVVS 93 (111)
T ss_pred ceEEeeHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHcCCeEEEechHHhC
Confidence 355556654 222 23467999999999999999999998863 2222244555554
No 106
>cd00145 POLBc DNA polymerase type-B family catalytic domain. DNA-directed DNA polymerases elongate DNA by adding nucleotide triphosphate (dNTP) residues to the 5'-end of the growing chain of DNA. DNA-directed DNA polymerases are multifunctional with both synthetic (polymerase) and degradative modes (exonucleases) and play roles in the processes of DNA replication, repair, and recombination. DNA-dependent DNA polymerases can be classified in six main groups based upon their phylogenetic relationships with E. coli polymerase I (class A), E. coli polymerase II (class B), E. coli polymerase III (class C), euryarchaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB, and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family B DNA polymerases include E. coli DNA polymerase II, some eubacterial phage DNA polymerases, nuclear replicative DNA polymerases (alpha, delta, epsilon, and zeta), and eukaryotic viral and plasmid-borne enzymes. DNA polymerase is
Probab=21.47 E-value=3.3e+02 Score=19.87 Aligned_cols=55 Identities=7% Similarity=-0.017 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCCCchHHHHHHHHHHHHHHHh
Q psy13822 33 VVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVRIPDHADQIATMALDLLHHS 91 (123)
Q Consensus 33 ~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~~~~~~~~a~~~al~~~~~~ 91 (123)
+...=+.+.....+.++.+|..++.-..|++++.++.. .....+.+.+.++.+.+
T Consensus 134 IT~~GR~~l~~~~~~ie~~g~~VIYGDTDSifv~~~~~----~~~~~~~~~~~~~~~~i 188 (323)
T cd00145 134 ITSFGREIIQDTIALVEEHGARVIYGDTDSIFVSLPKM----GTKEDAIKEGREILQEL 188 (323)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEEECCCceEEEeCCC----CCHHHHHHHHHHHHHHh
Confidence 33334556777888889999999999999999998641 12334555555665544
No 107
>PF07927 YcfA: YcfA-like protein; InterPro: IPR012933 This entry represents UPF0395, which contains viral, archaeal and bacterial proteins. It includes YncN of Escherichia coli K12. Most of these proteins are hypothetical proteins of unknown function. ; GO: 0016788 hydrolase activity, acting on ester bonds; PDB: 1WHZ_A.
Probab=20.85 E-value=1.4e+02 Score=15.24 Aligned_cols=28 Identities=7% Similarity=0.013 Sum_probs=20.2
Q ss_pred HHHHHHHHhhcCeEEEeeeCcEEEEEeC
Q psy13822 41 YTCFDATINAYNVYKVETIGDAYMVVGG 68 (123)
Q Consensus 41 ~~~~~~~v~~~gg~~~~~~Gd~~~~~fg 68 (123)
+..+.++++++|....+..|+......+
T Consensus 1 ~~el~k~L~~~G~~~~r~~GSH~~~~~~ 28 (56)
T PF07927_consen 1 WRELIKLLEKAGFEEVRQKGSHHIFRHP 28 (56)
T ss_dssp -HHHHHHHHHTT-EEEEEETTEEEEE-T
T ss_pred ChHHHHHHHHCCCEEecCCCCEEEEEeC
Confidence 4578889999999888878888776653
No 108
>PRK11127 autonomous glycyl radical cofactor GrcA; Provisional
Probab=20.84 E-value=1.1e+02 Score=19.35 Aligned_cols=34 Identities=24% Similarity=0.420 Sum_probs=24.6
Q ss_pred CCCceeeEEEEEeeccChhhhccCCCHHHHHHHHHHH
Q psy13822 4 DPEDFREVTIYFSDIVGFTTISAYSTPFEVVDLLNDL 40 (123)
Q Consensus 4 ~~~~~~~~tvlf~di~~~t~l~~~~~~~~~~~~l~~~ 40 (123)
.|+.|++++| .+.||+.....++++.-..++++-
T Consensus 89 ~PEkYpdLiV---RVsGYSa~F~~Lt~e~Q~eVI~RT 122 (127)
T PRK11127 89 HPEKYPQLTI---RVSGYAVRFNSLTPEQQRDVIART 122 (127)
T ss_pred ChhcCCCeEE---EEeeEEeehhhCCHHHHHHHHHHH
Confidence 4677777765 557888777788888777777664
No 109
>smart00394 RIIa RIIalpha, Regulatory subunit portion of type II PKA R-subunit. RIIalpha, Regulatory subunit portion of type II PKA R-subunit. Contains dimerisation interface and binding site for A-kinase-anchoring proteins (AKAPs).
Probab=20.79 E-value=46 Score=15.95 Aligned_cols=21 Identities=14% Similarity=0.379 Sum_probs=14.7
Q ss_pred cCCCHHHHHHHHHHHHHHHHH
Q psy13822 26 AYSTPFEVVDLLNDLYTCFDA 46 (123)
Q Consensus 26 ~~~~~~~~~~~l~~~~~~~~~ 46 (123)
....|.++..+...||..+.+
T Consensus 15 l~~qP~d~~~f~~~yF~kL~~ 35 (38)
T smart00394 15 LRAQPSDLVQFAADYFEKLEE 35 (38)
T ss_pred HHHCCCcHHHHHHHHHHHHHH
Confidence 345777888888888866543
No 110
>PF03249 TSA: Type specific antigen; InterPro: IPR004933 There are several antigenic variants in Rickettsia tsutsugamushi, and a type-specific antigen (TSA) of 56-kilodaltons located on the rickettsial surface is responsible for the variation [, ]. TSA proteins are probably integral membrane proteins. ; GO: 0016021 integral to membrane
Probab=20.49 E-value=1.2e+02 Score=23.07 Aligned_cols=48 Identities=6% Similarity=0.160 Sum_probs=38.8
Q ss_pred ccCCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEeCCCCC
Q psy13822 25 SAYSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVGGLPVR 72 (123)
Q Consensus 25 ~~~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~fg~~~~ 72 (123)
....+-+++..-|+++...++++-++++|++.+-.-+-+-.-|-.|..
T Consensus 262 PNSASveqiq~kmqeln~~le~~r~sfdg~i~nafa~qiqlnf~ipq~ 309 (503)
T PF03249_consen 262 PNSASVEQIQNKMQELNDILEELRESFDGYIGNAFANQIQLNFRIPQQ 309 (503)
T ss_pred CCcccHHHHHHHHHHHHHHHHHHHHhhhhhHHHHhhhhheeeeecchH
Confidence 345577899999999999999999999999977777777788866643
No 111
>PHA00781 hypothetical protein
Probab=20.48 E-value=1.2e+02 Score=15.99 Aligned_cols=22 Identities=18% Similarity=0.401 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHhhcCeEE
Q psy13822 34 VDLLNDLYTCFDATINAYNVYK 55 (123)
Q Consensus 34 ~~~l~~~~~~~~~~v~~~gg~~ 55 (123)
+..-++++.++.+++..|+|.+
T Consensus 13 F~~t~EL~eRl~svIH~YDGEI 34 (59)
T PHA00781 13 FPITQELYERLESVIHDYDGEI 34 (59)
T ss_pred CcchHHHHHHHHHHHHHhcccc
Confidence 3345677888889999998876
No 112
>PRK10753 transcriptional regulator HU subunit alpha; Provisional
Probab=20.03 E-value=2e+02 Score=16.69 Aligned_cols=39 Identities=10% Similarity=0.112 Sum_probs=28.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhhcCeEEEeeeCcEEEEEe
Q psy13822 27 YSTPFEVVDLLNDLYTCFDATINAYNVYKVETIGDAYMVVG 67 (123)
Q Consensus 27 ~~~~~~~~~~l~~~~~~~~~~v~~~gg~~~~~~Gd~~~~~f 67 (123)
.++..++...++.+++.+.+.+...+ .+.+.|=|-+-+.
T Consensus 15 ~~s~~~~~~~v~~~~~~i~~~L~~g~--~V~i~gfG~F~v~ 53 (90)
T PRK10753 15 ELSKTQAKAALESTLAAITESLKEGD--AVQLVGFGTFKVN 53 (90)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHcCC--eEEEcCCEEEEEe
Confidence 46778899999999999999886554 3455665555554
Done!