Query psy9563
Match_columns 192
No_of_seqs 112 out of 1045
Neff 7.6
Searched_HMMs 46136
Date Fri Aug 16 22:49:44 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9563.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9563hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12775 AAA_7: P-loop contain 100.0 2E-44 4.3E-49 302.0 8.0 143 1-146 130-272 (272)
2 KOG3595|consensus 100.0 2E-36 4.3E-41 297.6 16.1 184 1-192 222-405 (1395)
3 COG5245 DYN1 Dynein, heavy cha 99.9 1.7E-26 3.7E-31 219.8 10.5 172 1-178 1593-1766(3164)
4 COG5271 MDN1 AAA ATPase contai 98.0 6.8E-05 1.5E-09 75.4 11.3 143 14-173 1649-1793(4600)
5 PF12774 AAA_6: Hydrolytic ATP 97.9 7E-05 1.5E-09 61.6 8.5 89 19-123 133-221 (231)
6 TIGR01650 PD_CobS cobaltochela 97.1 0.01 2.2E-07 51.2 11.6 140 14-181 171-320 (327)
7 TIGR02640 gas_vesic_GvpN gas v 96.4 0.019 4.1E-07 47.9 8.3 89 20-129 151-240 (262)
8 COG5271 MDN1 AAA ATPase contai 93.5 0.11 2.5E-06 53.7 4.9 91 20-125 999-1093(4600)
9 PHA02244 ATPase-like protein 92.5 0.57 1.2E-05 41.4 7.5 81 19-125 220-307 (383)
10 PRK10733 hflB ATP-dependent me 86.2 2.9 6.3E-05 39.5 7.4 47 18-68 288-337 (644)
11 TIGR01241 FtsH_fam ATP-depende 79.9 6.2 0.00013 35.9 6.7 126 19-151 192-323 (495)
12 TIGR03689 pup_AAA proteasome A 77.3 8.2 0.00018 35.6 6.7 48 19-70 332-382 (512)
13 TIGR00763 lon ATP-dependent pr 75.2 4.6 0.0001 38.9 4.7 47 17-67 460-506 (775)
14 PRK09862 putative ATP-dependen 72.0 5.5 0.00012 36.6 4.2 57 2-58 319-393 (506)
15 TIGR02881 spore_V_K stage V sp 71.1 26 0.00057 28.8 7.8 49 20-68 143-193 (261)
16 PRK11331 5-methylcytosine-spec 70.9 17 0.00037 33.0 7.0 40 14-53 319-358 (459)
17 TIGR02639 ClpA ATP-dependent C 70.2 30 0.00066 33.1 8.9 136 20-159 311-460 (731)
18 PF12780 AAA_8: P-loop contain 69.5 8.2 0.00018 32.4 4.4 91 19-117 160-256 (268)
19 KOG3078|consensus 68.0 5.7 0.00012 32.8 3.1 30 20-50 15-44 (235)
20 PF03028 Dynein_heavy: Dynein 65.7 37 0.0008 32.3 8.5 143 20-174 203-352 (707)
21 smart00350 MCM minichromosome 65.6 17 0.00036 33.4 5.9 51 19-70 342-404 (509)
22 PRK11034 clpA ATP-dependent Cl 63.4 4.9 0.00011 38.8 2.1 112 20-132 315-440 (758)
23 PRK12422 chromosomal replicati 61.4 66 0.0014 29.0 8.9 47 21-68 236-286 (445)
24 PF15466 DUF4635: Domain of un 60.4 26 0.00056 25.9 4.9 37 133-171 81-117 (135)
25 TIGR03345 VI_ClpV1 type VI sec 56.2 10 0.00022 37.1 3.0 47 20-66 316-363 (852)
26 PF12041 DELLA: Transcriptiona 54.5 6.5 0.00014 26.4 0.9 18 108-127 45-62 (73)
27 TIGR01360 aden_kin_iso1 adenyl 53.8 3.4 7.3E-05 31.7 -0.6 29 20-48 2-30 (188)
28 PF00493 MCM: MCM2/3/5 family 53.6 26 0.00057 30.2 4.8 51 20-71 164-226 (331)
29 TIGR02928 orc1/cdc6 family rep 53.0 59 0.0013 27.7 7.0 63 19-83 164-228 (365)
30 PF13401 AAA_22: AAA domain; P 51.9 9.5 0.00021 27.2 1.6 49 22-70 5-63 (131)
31 PF02091 tRNA-synt_2e: Glycyl- 51.0 23 0.0005 29.8 3.8 49 20-68 47-96 (284)
32 PRK14086 dnaA chromosomal repl 49.3 67 0.0015 30.4 7.0 33 36-68 426-461 (617)
33 PLN00020 ribulose bisphosphate 48.6 32 0.00069 30.8 4.6 76 17-102 265-343 (413)
34 PF03225 Viral_Hsp90: Viral he 48.4 95 0.0021 28.6 7.8 44 106-153 399-447 (512)
35 TIGR00388 glyQ glycyl-tRNA syn 48.3 23 0.00051 29.9 3.5 48 21-68 50-98 (293)
36 PTZ00454 26S protease regulato 47.9 28 0.00061 31.0 4.2 46 19-68 283-331 (398)
37 PF00406 ADK: Adenylate kinase 47.5 2.3 4.9E-05 31.9 -2.4 26 27-52 2-27 (151)
38 KOG0730|consensus 46.8 39 0.00084 32.2 5.0 47 19-69 569-618 (693)
39 PRK09348 glyQ glycyl-tRNA synt 46.8 24 0.00053 29.6 3.3 49 21-69 53-102 (283)
40 COG0752 GlyQ Glycyl-tRNA synth 46.6 31 0.00067 28.9 3.9 48 21-68 54-102 (298)
41 TIGR01359 UMP_CMP_kin_fam UMP- 45.9 4.9 0.00011 30.9 -0.8 29 24-52 2-30 (183)
42 PRK03992 proteasome-activating 45.4 36 0.00077 30.0 4.5 46 19-68 269-317 (389)
43 TIGR03346 chaperone_ClpB ATP-d 45.2 14 0.00031 36.0 2.1 47 20-66 302-349 (852)
44 PLN02674 adenylate kinase 44.9 11 0.00023 31.3 1.1 28 25-52 35-62 (244)
45 PRK14088 dnaA chromosomal repl 44.7 60 0.0013 29.2 5.9 46 22-68 229-278 (440)
46 cd00733 GlyRS_alpha_core Class 43.9 30 0.00064 29.1 3.4 47 22-68 50-97 (279)
47 PF08349 DUF1722: Protein of u 43.5 65 0.0014 23.3 5.0 22 148-170 59-80 (117)
48 PF13124 DUF3963: Protein of u 42.7 12 0.00026 21.7 0.7 36 60-95 3-38 (40)
49 PRK06620 hypothetical protein; 41.5 35 0.00075 27.5 3.5 44 21-67 115-161 (214)
50 PLN02200 adenylate kinase fami 40.8 8 0.00017 31.7 -0.3 32 21-52 43-74 (234)
51 PRK10787 DNA-binding ATP-depen 40.4 41 0.0009 32.7 4.3 46 17-67 462-507 (784)
52 CHL00176 ftsH cell division pr 40.3 1.2E+02 0.0026 28.8 7.4 46 19-68 320-368 (638)
53 COG0464 SpoVK ATPases of the A 40.1 41 0.00089 30.4 4.1 48 17-68 375-425 (494)
54 PF13207 AAA_17: AAA domain; P 40.0 8.1 0.00018 27.3 -0.4 26 24-49 2-27 (121)
55 PRK14700 recombination factor 39.5 48 0.001 28.4 4.2 47 20-68 8-54 (300)
56 PHA02544 44 clamp loader, smal 39.2 43 0.00092 28.1 3.9 45 20-68 131-175 (316)
57 CHL00195 ycf46 Ycf46; Provisio 38.4 54 0.0012 30.0 4.6 46 20-69 360-408 (489)
58 COG4817 DNA-binding ferritin-l 38.0 1.1E+02 0.0025 22.1 5.2 89 80-176 18-106 (111)
59 PRK00080 ruvB Holliday junctio 37.9 50 0.0011 28.1 4.1 47 18-68 148-195 (328)
60 PF04622 ERG2_Sigma1R: ERG2 an 37.1 1E+02 0.0023 25.1 5.6 61 96-163 18-78 (216)
61 KOG2035|consensus 36.9 1.2E+02 0.0027 26.2 6.1 47 18-68 155-201 (351)
62 PRK08084 DNA replication initi 36.4 36 0.00079 27.6 2.9 45 21-66 132-180 (235)
63 PRK08233 hypothetical protein; 35.9 14 0.0003 28.1 0.3 30 22-51 4-36 (182)
64 cd01851 GBP Guanylate-binding 35.7 2E+02 0.0044 23.1 7.2 17 106-122 132-148 (224)
65 COG2256 MGS1 ATPase related to 35.0 3.4E+02 0.0074 24.6 8.8 98 17-124 127-237 (436)
66 PRK14531 adenylate kinase; Pro 34.6 8.6 0.00019 29.9 -1.0 28 24-51 5-32 (183)
67 TIGR02880 cbbX_cfxQ probable R 34.6 26 0.00056 29.5 1.8 50 19-68 159-210 (284)
68 PF13671 AAA_33: AAA domain; P 34.2 10 0.00022 27.6 -0.7 28 23-50 1-28 (143)
69 PF05621 TniB: Bacterial TniB 34.0 19 0.00042 30.9 0.9 70 29-103 69-149 (302)
70 TIGR01243 CDC48 AAA family ATP 33.8 66 0.0014 30.8 4.6 46 18-67 588-636 (733)
71 PF11315 Med30: Mediator compl 33.8 1.1E+02 0.0024 23.6 4.9 32 81-112 10-41 (150)
72 PRK13290 ectC L-ectoine syntha 33.5 51 0.0011 24.3 3.0 25 11-35 91-115 (125)
73 PRK09087 hypothetical protein; 32.8 2.3E+02 0.005 22.8 7.1 46 22-68 120-168 (226)
74 KOG4065|consensus 32.2 7.8 0.00017 28.7 -1.5 20 100-120 61-80 (144)
75 PRK00411 cdc6 cell division co 31.7 1.8E+02 0.004 25.0 6.8 59 20-80 173-233 (394)
76 COG0563 Adk Adenylate kinase a 31.6 12 0.00026 29.3 -0.6 28 24-51 3-30 (178)
77 TIGR01242 26Sp45 26S proteasom 31.2 93 0.002 26.9 4.8 45 19-67 260-307 (364)
78 TIGR00362 DnaA chromosomal rep 30.9 1.7E+02 0.0037 25.7 6.4 32 37-68 249-283 (405)
79 PRK14532 adenylate kinase; Pro 30.1 15 0.00032 28.4 -0.4 28 25-52 4-31 (188)
80 cd01672 TMPK Thymidine monopho 29.8 28 0.0006 26.5 1.1 34 23-56 2-40 (200)
81 PRK06762 hypothetical protein; 29.5 18 0.0004 27.2 0.1 29 22-50 3-33 (166)
82 PTZ00361 26 proteosome regulat 29.4 80 0.0017 28.5 4.1 47 18-68 320-369 (438)
83 KOG0737|consensus 28.6 54 0.0012 29.1 2.8 45 20-68 231-276 (386)
84 TIGR00041 DTMP_kinase thymidyl 28.4 38 0.00081 26.1 1.7 39 22-60 4-47 (195)
85 PRK14962 DNA polymerase III su 28.1 91 0.002 28.4 4.3 45 20-68 147-191 (472)
86 PRK08727 hypothetical protein; 27.6 74 0.0016 25.7 3.3 48 20-67 126-176 (233)
87 COG0714 MoxR-like ATPases [Gen 27.4 73 0.0016 27.2 3.4 43 20-62 154-198 (329)
88 PHA02530 pseT polynucleotide k 27.2 20 0.00044 29.8 -0.1 30 22-51 3-33 (300)
89 PF04555 XhoI: Restriction end 26.9 1.4E+02 0.003 24.0 4.6 77 4-120 54-133 (196)
90 PRK00149 dnaA chromosomal repl 26.7 1.2E+02 0.0027 27.1 4.9 46 22-68 247-295 (450)
91 cd01428 ADK Adenylate kinase ( 26.5 18 0.0004 27.7 -0.4 28 24-51 2-29 (194)
92 TIGR01351 adk adenylate kinase 26.1 16 0.00035 29.0 -0.8 27 25-51 3-29 (210)
93 PRK14530 adenylate kinase; Pro 26.0 16 0.00035 29.0 -0.8 27 24-50 6-32 (215)
94 PTZ00111 DNA replication licen 25.1 1.2E+02 0.0027 30.1 4.8 49 20-68 600-659 (915)
95 CHL00095 clpC Clp protease ATP 25.0 46 0.001 32.4 1.9 48 20-67 307-355 (821)
96 PF15391 DUF4614: Domain of un 24.9 2.5E+02 0.0054 22.3 5.7 38 82-122 138-175 (181)
97 PLN02459 probable adenylate ki 24.4 34 0.00073 28.7 0.8 26 27-52 35-60 (261)
98 PRK08356 hypothetical protein; 24.3 27 0.00059 27.3 0.2 30 22-51 6-36 (195)
99 PRK10865 protein disaggregatio 24.3 60 0.0013 31.9 2.6 48 20-67 307-355 (857)
100 PRK14087 dnaA chromosomal repl 23.8 2.1E+02 0.0045 25.8 5.8 33 36-68 255-290 (450)
101 CHL00181 cbbX CbbX; Provisiona 23.5 52 0.0011 27.7 1.8 50 19-68 160-211 (287)
102 TIGR02903 spore_lon_C ATP-depe 23.0 1.9E+02 0.0042 27.3 5.5 46 20-68 323-368 (615)
103 smart00763 AAA_PrkA PrkA AAA d 22.7 1.9E+02 0.0041 25.6 5.1 49 20-68 277-329 (361)
104 COG5192 BMS1 GTP-binding prote 22.6 18 0.0004 34.1 -1.2 25 22-46 70-94 (1077)
105 TIGR03263 guanyl_kin guanylate 21.7 27 0.00058 26.6 -0.3 25 22-46 2-26 (180)
106 COG0572 Udk Uridine kinase [Nu 21.6 36 0.00077 27.9 0.4 28 19-46 6-33 (218)
107 KOG3308|consensus 21.1 90 0.002 25.6 2.5 108 22-129 5-135 (225)
108 cd05129 RasGAP_RAP6 Rab5-activ 20.9 3.5E+02 0.0076 23.7 6.4 104 56-159 163-293 (353)
109 PRK04132 replication factor C 20.8 1.5E+02 0.0033 29.2 4.5 45 19-67 659-703 (846)
110 COG4016 Uncharacterized protei 20.8 74 0.0016 24.3 1.9 30 3-33 26-56 (165)
111 KOG0740|consensus 20.8 91 0.002 28.2 2.8 46 20-69 290-336 (428)
112 PF01763 Herpes_UL6: Herpesvir 20.5 68 0.0015 30.0 2.0 29 135-163 465-494 (557)
113 PRK13975 thymidylate kinase; P 20.4 44 0.00096 25.7 0.7 37 22-58 3-39 (196)
114 PF00308 Bac_DnaA: Bacterial d 20.4 3.1E+02 0.0067 21.9 5.7 47 22-69 132-182 (219)
115 PLN03060 inositol phosphatase- 20.1 4E+02 0.0087 21.6 6.1 111 47-173 60-190 (206)
No 1
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=100.00 E-value=2e-44 Score=302.04 Aligned_cols=143 Identities=43% Similarity=0.748 Sum_probs=127.7
Q ss_pred CcccceecCCCCCCeeeecceEEEEEeeCCCCCCCCCccccccceeEEEecCCCHHHHHHHHHHHHhhhhccCCCCCHHH
Q psy9563 1 MNMKGFYSLEKPGEFTTLIDVQFVAAMAQPGGGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEGHYNAKRGFPIEV 80 (192)
Q Consensus 1 l~~~g~Yd~~~~~~~~~i~~i~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~~~i 80 (192)
|++|||||++ .++|+.|+||++||||+| ++||++||+||+|||+++++++|++++|.+||++++++++.. .+|.+++
T Consensus 130 i~~~g~yd~~-~~~~~~i~~i~~vaa~~p-~~Gr~~is~R~~r~f~i~~~~~p~~~sl~~If~~il~~~l~~-~~f~~~v 206 (272)
T PF12775_consen 130 IDYGGFYDRK-KLEWKSIEDIQFVAAMNP-TGGRNPISPRFLRHFNILNIPYPSDESLNTIFSSILQSHLKN-GGFPEDV 206 (272)
T ss_dssp HHCSEEECTT-TTEEEEECSEEEEEEESS-TTT--SHHHHHHTTEEEEE----TCCHHHHHHHHHHHHHTCH-TTSSGGG
T ss_pred HHhcCcccCC-CcEEEEEeeeEEEEecCC-CCCCCCCChHHhhheEEEEecCCChHHHHHHHHHHHhhhccc-CCCChHH
Confidence 5799999985 579999999999999997 568999999999999999999999999999999999999953 4688889
Q ss_pred HHHHHhHHHHHHHHHHHHHhhcCCCCCCcceEeehhhHHHHhhhhhcccccccCChHHHHHHHHHH
Q psy9563 81 RNLVKQLIPLTRLLWKSTRAQLLPTPAKFHYVFSLRDLSRIWQGMVGTLSTVIDSEKVLMLLWKHE 146 (192)
Q Consensus 81 ~~~~~~lv~ati~ly~~i~~~~~ptp~~~HY~Fnlrdl~r~~~gl~~~~~~~~~~~~~l~rlw~hE 146 (192)
+.+++++++||+++|++++++|+|||.++||+||||||+||+|||+++.++.+.+...++|||.||
T Consensus 207 ~~~~~~lv~ati~ly~~i~~~~~ptp~k~HY~FnlRDlsrv~qGil~~~~~~~~~~~~l~rLW~HE 272 (272)
T PF12775_consen 207 QKLADKLVQATIELYQKIRQQFLPTPSKPHYTFNLRDLSRVFQGILLASPESIKTKESLLRLWVHE 272 (272)
T ss_dssp CCCHHHHHHHHHHHHHHHHHHS-TTTTCTTTTSHHHHHHHHHHHHHHHHCTSSS-SHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhhhcccCCCCccceeeccHHHHHHHHHHHHhcChhhcCCHHHheEeecCC
Confidence 999999999999999999999999999999999999999999999999999999999999999999
No 2
>KOG3595|consensus
Probab=100.00 E-value=2e-36 Score=297.64 Aligned_cols=184 Identities=35% Similarity=0.635 Sum_probs=170.9
Q ss_pred CcccceecCCCCCCeeeecceEEEEEeeCCCCCCCCCccccccceeEEEecCCCHHHHHHHHHHHHhhhhccCCCCCHHH
Q psy9563 1 MNMKGFYSLEKPGEFTTLIDVQFVAAMAQPGGGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEGHYNAKRGFPIEV 80 (192)
Q Consensus 1 l~~~g~Yd~~~~~~~~~i~~i~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~~~i 80 (192)
++++||||+.+ .+|+.|+||++++||+||+|||+++++||+|||.+++++.|+.+++.+||+.++.+|+. +...+
T Consensus 222 ~e~~g~~~~~~-~~~~~i~~i~~~~a~~~~~~gr~~i~~r~~r~f~~~~~~~~~~~sl~~if~~~~~~~~~----~~~~~ 296 (1395)
T KOG3595|consen 222 LEHGGFYDRKK-SEWVEIENVQLVGAMNPPGGGRNDITERFLRHFLIVSLNYPSQESLTQIFNTILTGHLR----FAPAF 296 (1395)
T ss_pred HHhceeecccc-cceeEEeeeEEEeecCCCCCccCcccHHHHHHeeeEeeCCCChhhHHHHHHHHHhcccC----ccHHH
Confidence 47999999976 89999999999999999999999999999999999999999999999999999999983 66777
Q ss_pred HHHHHhHHHHHHHHHHHHHhhcCCCCCCcceEeehhhHHHHhhhhhcccccccCChHHHHHHHHHHHHHHHHhhcCChhh
Q psy9563 81 RNLVKQLIPLTRLLWKSTRAQLLPTPAKFHYVFSLRDLSRIWQGMVGTLSTVIDSEKVLMLLWKHEVTRVFSDRFTIMSD 160 (192)
Q Consensus 81 ~~~~~~lv~ati~ly~~i~~~~~ptp~~~HY~Fnlrdl~r~~~gl~~~~~~~~~~~~~l~rlw~hE~~Rvf~DRLv~~~d 160 (192)
......++++|+.+|...+.+|.|||.++||+|||||++||++|+..+.+....+...++++|.||+.|||.|||++.+|
T Consensus 297 ~~~~~~i~~~~~~~~~~~~~~~~~t~~~~hyv~~lrd~~r~~~~i~~~~~~~~~~~~~l~~~~~~e~~rv~~drlv~~~~ 376 (1395)
T KOG3595|consen 297 RTSIEPIVNASVDFYPKVQENFLPTPSKSHYVFNLRDLSRVVQGILLAVSEALLTLEDLIRLWVHEAIRVFADRLVDDED 376 (1395)
T ss_pred HHhHHHHHHHHHHHHHHHHHhcCCCCCcceeeechhhhhhheeehcccCcHhhccHHHHHHHHHHHHHHhhhhhcccHHH
Confidence 66799999999999999999999999999999999999999999999997778899999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhcchhhhhcCCCCCccC
Q psy9563 161 KHWFDDEVLNLVEQNLGVKYREMAGTDPVFVD 192 (192)
Q Consensus 161 ~~~f~~~l~~~~~~~f~~~~~~~~~~~~~f~d 192 (192)
++||++.+..++.+.|+... ...+.+|||
T Consensus 377 ~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~ 405 (1395)
T KOG3595|consen 377 RQWFDKKLQEVLLKLFEADS---LQMPLLYGD 405 (1395)
T ss_pred HHHHHHHHHHHHHHHhhhhh---hcCCceeee
Confidence 99999999999999998765 334455553
No 3
>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]
Probab=99.93 E-value=1.7e-26 Score=219.76 Aligned_cols=172 Identities=19% Similarity=0.275 Sum_probs=154.8
Q ss_pred CcccceecCCCCCCeeeecceEEEEEeeCCC-CCCCCCccccccceeEEEecCCCHHHHHHHHHHHHhhhhccCCCCCHH
Q psy9563 1 MNMKGFYSLEKPGEFTTLIDVQFVAAMAQPG-GGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEGHYNAKRGFPIE 79 (192)
Q Consensus 1 l~~~g~Yd~~~~~~~~~i~~i~~vaa~~p~~-~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~~~ 79 (192)
++++|||..- ..+|++|.+|.++||||||+ .||.+.+.||+|+-.++++.+|+..+|.+||..++.+-+. ..++
T Consensus 1593 ~e~QGfw~s~-~~~wvTI~~i~l~Gacnp~td~gRv~~~eRf~r~~v~vf~~ype~~SL~~Iyea~l~~s~l----~~~e 1667 (3164)
T COG5245 1593 VERQGFWSSI-AVSWVTICGIILYGACNPGTDEGRVKYYERFIRKPVFVFCCYPELASLRNIYEAVLMGSYL----CFDE 1667 (3164)
T ss_pred HHhcccccch-hhhHhhhcceEEEccCCCCCCcccCccHHHHhcCceEEEecCcchhhHHHHHHHHHHHHHH----hhHH
Confidence 4789999864 36899999999999999998 5999999999999999999999999999999999987663 4567
Q ss_pred HHHHHHhHHHHHHHHHHHHHhhcCCCCCCcceEeehhhHHHHhhhhhccccccc-CChHHHHHHHHHHHHHHHHhhcCCh
Q psy9563 80 VRNLVKQLIPLTRLLWKSTRAQLLPTPAKFHYVFSLRDLSRIWQGMVGTLSTVI-DSEKVLMLLWKHEVTRVFSDRFTIM 158 (192)
Q Consensus 80 i~~~~~~lv~ati~ly~~i~~~~~ptp~~~HY~Fnlrdl~r~~~gl~~~~~~~~-~~~~~l~rlw~hE~~Rvf~DRLv~~ 158 (192)
.+.+...+++|++++|...++++. +-...||.|+||||+||+.|+..+..... ++...++++|+||++|++.||||..
T Consensus 1668 f~~~se~~~~aSv~ly~~~k~~~k-~~lq~~y~y~pReLtR~lr~i~~yaeT~~~t~~~slI~~wy~ea~r~~~dRLV~q 1746 (3164)
T COG5245 1668 FNRLSEETMSASVELYLSSKDKTK-FFLQMNYGYKPRELTRSLRAIFGYAETRIDTPDVSLIIDWYCEAIREKIDRLVQQ 1746 (3164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhh-hhcccccccChHHHHHHHHHHHhHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 788999999999999999999886 55788999999999999999998776543 3456899999999999999999999
Q ss_pred hhHHHHHHHHHHHHHhhhcc
Q psy9563 159 SDKHWFDDEVLNLVEQNLGV 178 (192)
Q Consensus 159 ~d~~~f~~~l~~~~~~~f~~ 178 (192)
++..|+++.+.++..+.++.
T Consensus 1747 kE~st~~q~ly~~~~~~~~e 1766 (3164)
T COG5245 1747 KESSTSRQDLYDFGLRAIRE 1766 (3164)
T ss_pred HhcchHHHHHHHHHHHhhhh
Confidence 99999999999999999984
No 4
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=97.98 E-value=6.8e-05 Score=75.42 Aligned_cols=143 Identities=14% Similarity=0.101 Sum_probs=108.5
Q ss_pred CeeeecceEEEEEeeCC--CCCCCCCccccccceeEEEecCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHhHHHHH
Q psy9563 14 EFTTLIDVQFVAAMAQP--GGGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEGHYNAKRGFPIEVRNLVKQLIPLT 91 (192)
Q Consensus 14 ~~~~i~~i~~vaa~~p~--~~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~~~i~~~~~~lv~at 91 (192)
.+.-=.|..+.||-||. ||||.-+|..|+.+|+++.++.-..+++..|-..+..+ ..++ ..-+++..+
T Consensus 1649 ~f~~HpnfrVFAaqNPq~qggGRKgLPkSF~nRFsvV~~d~lt~dDi~~Ia~~~yp~-------v~~d---~~~kiik~m 1718 (4600)
T COG5271 1649 TFDVHPNFRVFAAQNPQDQGGGRKGLPKSFLNRFSVVKMDGLTTDDITHIANKMYPQ-------VNED---WRLKIIKFM 1718 (4600)
T ss_pred eeeccCCeeeeeecCchhcCCCcccCCHHHhhhhheEEecccccchHHHHHHhhCCc-------cChH---HHHHHHHHH
Confidence 34445588999999984 68999999999999999999999999999887665421 3333 345678888
Q ss_pred HHHHHHHHhhcCCCCCCcceEeehhhHHHHhhhhhcccccccCChHHHHHHHHHHHHHHHHhhcCChhhHHHHHHHHHHH
Q psy9563 92 RLLWKSTRAQLLPTPAKFHYVFSLRDLSRIWQGMVGTLSTVIDSEKVLMLLWKHEVTRVFSDRFTIMSDKHWFDDEVLNL 171 (192)
Q Consensus 92 i~ly~~i~~~~~ptp~~~HY~Fnlrdl~r~~~gl~~~~~~~~~~~~~l~rlw~hE~~Rvf~DRLv~~~d~~~f~~~l~~~ 171 (192)
-.+-.+|++...-...-+-+.||+||--||.+-|-.+..-..-++..++..-+-- |+-+-+||.+-..++.++
T Consensus 1719 s~lqd~i~k~~~~g~~gsPwefnlrdTLRwl~llNq~~~~edvd~~dfid~~V~~-------r~rtv~dr~rt~~l~~ev 1791 (4600)
T COG5271 1719 SRLQDNIEKDISFGSFGSPWEFNLRDTLRWLILLNQVGTLEDVDTSDFIDESVVR-------RMRTVEDRVRTCELFKEV 1791 (4600)
T ss_pred HHHHHhhhhhhcccCCCCCeEEehHHHHHHHHHhhccCccccCCHHHHHHHHHHH-------HhhhHhhhhHHHHHHHHH
Confidence 8888999988777777888999999999999998888765455555555443322 344566777777766666
Q ss_pred HH
Q psy9563 172 VE 173 (192)
Q Consensus 172 ~~ 173 (192)
+.
T Consensus 1792 fg 1793 (4600)
T COG5271 1792 FG 1793 (4600)
T ss_pred hc
Confidence 65
No 5
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=97.89 E-value=7e-05 Score=61.62 Aligned_cols=89 Identities=25% Similarity=0.352 Sum_probs=55.5
Q ss_pred cceEEEEEeeCCCCCCCCCccccccceeEEEecCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHhHHHHHHHHHHHH
Q psy9563 19 IDVQFVAAMAQPGGGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEGHYNAKRGFPIEVRNLVKQLIPLTRLLWKST 98 (192)
Q Consensus 19 ~~i~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~~~i~~~~~~lv~ati~ly~~i 98 (192)
.+..+..+|||...||..+|+-|.+.|+.+.+..|+.+.+. ..+|.+ .+|.+ ++.++.-...+|+..
T Consensus 133 ~~~~iFiT~np~y~gr~~LP~nLk~lFRpvam~~PD~~~I~---ei~L~s-----~GF~~-----a~~La~kl~~l~~l~ 199 (231)
T PF12774_consen 133 PNCGIFITMNPGYAGRSELPENLKALFRPVAMMVPDLSLIA---EILLLS-----QGFKD-----AKSLAKKLVSLFQLC 199 (231)
T ss_dssp TT-EEEEEE-B-CCCC--S-HHHCTTEEEEE--S--HHHHH---HHHHHC-----CCTSS-----HHHHHHHHHHHHHHH
T ss_pred cceeEEEeeccccCCcccCCHhHHHHhheeEEeCCCHHHHH---HHHHHH-----cCchh-----HHHHHHHHHHHHHHH
Confidence 47889999998778999999999999999999999865443 333332 36753 345566677788777
Q ss_pred HhhcCCCCCCcceEeehhhHHHHhh
Q psy9563 99 RAQLLPTPAKFHYVFSLRDLSRIWQ 123 (192)
Q Consensus 99 ~~~~~ptp~~~HY~Fnlrdl~r~~~ 123 (192)
.+.+. ...||.|.||-|..|+.
T Consensus 200 ~~~lS---~q~hydfgLRalk~vl~ 221 (231)
T PF12774_consen 200 KEQLS---KQDHYDFGLRALKSVLR 221 (231)
T ss_dssp HHCS----SSTT---SHHHHHHHHH
T ss_pred HHhhc---cCccccccHHHHHHHHH
Confidence 66664 46799999999998875
No 6
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=97.07 E-value=0.01 Score=51.24 Aligned_cols=140 Identities=12% Similarity=0.074 Sum_probs=95.3
Q ss_pred Ceeeec-ceEEEEEeeCCC--------CCCCCCccccccceeE-EEecCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHH
Q psy9563 14 EFTTLI-DVQFVAAMAQPG--------GGRNDIPSRLKRQFCI-FNCVLPSDKAIDNIFSVIGEGHYNAKRGFPIEVRNL 83 (192)
Q Consensus 14 ~~~~i~-~i~~vaa~~p~~--------~gr~~i~~Rl~r~f~~-~~~~~ps~~~l~~I~~~il~~~l~~~~~f~~~i~~~ 83 (192)
+..... +..++||+||.+ .|.+.+++-++.+|.+ +.++||+.++-..|....... ... ..
T Consensus 171 ~~i~~hp~FrviAT~Np~g~Gd~~G~y~Gt~~l~~A~lDRF~i~~~~~Yp~~e~E~~Il~~~~~~-------~~~---~~ 240 (327)
T TIGR01650 171 RVIRAHPAFRLFATANTIGLGDTTGLYHGTQQINQAQMDRWSIVTTLNYLEHDNEAAIVLAKAKG-------FDD---TE 240 (327)
T ss_pred eEecCCCCeEEEEeeCCCCcCCCCcceeeeecCCHHHHhheeeEeeCCCCCHHHHHHHHHhhccC-------CCc---cc
Confidence 344344 789999999965 3788999999999985 589999999988887654221 111 01
Q ss_pred HHhHHHHHHHHHHHHHhhcCCCCCCcceEeehhhHHHHhhhhhcccccccCChHHHHHHHHHHHHHHHHhhcCChhhHHH
Q psy9563 84 VKQLIPLTRLLWKSTRAQLLPTPAKFHYVFSLRDLSRIWQGMVGTLSTVIDSEKVLMLLWKHEVTRVFSDRFTIMSDKHW 163 (192)
Q Consensus 84 ~~~lv~ati~ly~~i~~~~~ptp~~~HY~Fnlrdl~r~~~gl~~~~~~~~~~~~~l~rlw~hE~~Rvf~DRLv~~~d~~~ 163 (192)
.+.++..++++-..+++.+. ........|+|.+-+|.+....... + ..|=-.+.|.+|. ++++|..
T Consensus 241 ~~~i~~~mV~la~~tR~~~~--~~~i~~~~SpR~li~w~~~~~~f~~----~-------~~~a~~~~~~n~~-~~~er~~ 306 (327)
T TIGR01650 241 GKDIINAMVRVADMTRNAFI--NGDISTVMSPRTVITWAENAEIFDH----D-------IALAFRLTFLNKC-DELERPT 306 (327)
T ss_pred hHHHHHHHHHHHHHHHhhhc--cCCccccccHHHHHHHHHHHHhhCc----c-------HHHHHHHHHHhcC-CHHHHHH
Confidence 34566777777777777552 2356678999999999987664421 1 1233456788884 7778776
Q ss_pred HHHHHHHHHHhhhcchhh
Q psy9563 164 FDDEVLNLVEQNLGVKYR 181 (192)
Q Consensus 164 f~~~l~~~~~~~f~~~~~ 181 (192)
..+ ..+..||.+..
T Consensus 307 ~~e----~~q~~f~~~~~ 320 (327)
T TIGR01650 307 VAE----FFQRAFGEDLP 320 (327)
T ss_pred HHH----HHHHHcCCCCc
Confidence 554 66677776543
No 7
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=96.41 E-value=0.019 Score=47.87 Aligned_cols=89 Identities=11% Similarity=0.009 Sum_probs=66.7
Q ss_pred ceEEEEEeeCCC-CCCCCCccccccceeEEEecCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHhHHHHHHHHHHHH
Q psy9563 20 DVQFVAAMAQPG-GGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEGHYNAKRGFPIEVRNLVKQLIPLTRLLWKST 98 (192)
Q Consensus 20 ~i~~vaa~~p~~-~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~~~i~~~~~~lv~ati~ly~~i 98 (192)
+..+|+|+||+. .|...+++-|.+.|..+.+++|+.++...|.... + +.. +.+++..++++..+
T Consensus 151 ~frvIaTsN~~~~~g~~~l~~aL~~R~~~i~i~~P~~~~e~~Il~~~----~----~~~-------~~~~~~iv~~~~~~ 215 (262)
T TIGR02640 151 EFRVIFTSNPVEYAGVHETQDALLDRLITIFMDYPDIDTETAILRAK----T----DVA-------EDSAATIVRLVREF 215 (262)
T ss_pred CCEEEEeeCCccccceecccHHHHhhcEEEECCCCCHHHHHHHHHHh----h----CCC-------HHHHHHHHHHHHHH
Confidence 788999999875 6888889999999999999999999988887653 2 122 34567788888888
Q ss_pred HhhcCCCCCCcceEeehhhHHHHhhhhhccc
Q psy9563 99 RAQLLPTPAKFHYVFSLRDLSRIWQGMVGTL 129 (192)
Q Consensus 99 ~~~~~ptp~~~HY~Fnlrdl~r~~~gl~~~~ 129 (192)
++. ..++..++|-.-.|.+.+....
T Consensus 216 R~~------~~~~~~~~r~~i~~~~~~~~~~ 240 (262)
T TIGR02640 216 RAS------GDEITSGLRASLMIAEVATQQD 240 (262)
T ss_pred Hhh------CCccCCcHHHHHHHHHHHHHcC
Confidence 731 2345557887777777666543
No 8
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=93.46 E-value=0.11 Score=53.69 Aligned_cols=91 Identities=14% Similarity=0.208 Sum_probs=61.8
Q ss_pred ceEEEEEeeCCC--CCCCCCccccccceeEEEecCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHhHHHHHHHHHHH
Q psy9563 20 DVQFVAAMAQPG--GGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEGHYNAKRGFPIEVRNLVKQLIPLTRLLWKS 97 (192)
Q Consensus 20 ~i~~vaa~~p~~--~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~~~i~~~~~~lv~ati~ly~~ 97 (192)
+..+.|+-|||| |||.-+|.-|-.+|-=++.+.-..++|..|...- - +. +++-+.-++++|..
T Consensus 999 ~F~lFATQNppg~YgGRK~LSrAFRNRFlE~hFddipedEle~ILh~r----c----~i-------apSyakKiVeVyr~ 1063 (4600)
T COG5271 999 NFRLFATQNPPGGYGGRKGLSRAFRNRFLEMHFDDIPEDELEEILHGR----C----EI-------APSYAKKIVEVYRG 1063 (4600)
T ss_pred CeeEEeecCCCccccchHHHHHHHHhhhHhhhcccCcHHHHHHHHhcc----C----cc-------CHHHHHHHHHHHHH
Confidence 788999999999 6999999888888888888888888888776321 1 12 33445667778876
Q ss_pred HHhhcCCC--CCCcceEeehhhHHHHhhhh
Q psy9563 98 TRAQLLPT--PAKFHYVFSLRDLSRIWQGM 125 (192)
Q Consensus 98 i~~~~~pt--p~~~HY~Fnlrdl~r~~~gl 125 (192)
++..-..+ -..-.-.-+||||.||.-..
T Consensus 1064 Ls~rRs~~rifeqknsfaTLRDLFrWa~R~ 1093 (4600)
T COG5271 1064 LSSRRSINRIFEQKNSFATLRDLFRWAGRI 1093 (4600)
T ss_pred hhhhhhHHHHHHhhhhHHHHHHHHHHhccc
Confidence 65432111 11112234899999997544
No 9
>PHA02244 ATPase-like protein
Probab=92.55 E-value=0.57 Score=41.36 Aligned_cols=81 Identities=17% Similarity=0.057 Sum_probs=56.6
Q ss_pred cceEEEEEeeCCC-C------CCCCCccccccceeEEEecCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHhHHHHH
Q psy9563 19 IDVQFVAAMAQPG-G------GRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEGHYNAKRGFPIEVRNLVKQLIPLT 91 (192)
Q Consensus 19 ~~i~~vaa~~p~~-~------gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~~~i~~~~~~lv~at 91 (192)
.+..+|||+||++ | |++.+++-++.+|.++.+++|+..+.. |-. . ...+
T Consensus 220 ~~FRlIATsN~~~~G~~~~y~G~k~L~~AllDRFv~I~~dyp~~~E~~-i~~-~----------------------~~~l 275 (383)
T PHA02244 220 EDFRVISAGNTLGKGADHIYVARNKIDGATLDRFAPIEFDYDEKIEHL-ISN-G----------------------DEDL 275 (383)
T ss_pred CCEEEEEeeCCCccCcccccCCCcccCHHHHhhcEEeeCCCCcHHHHH-Hhh-h----------------------HHHH
Confidence 5899999999975 2 788999999999999999999842221 110 0 1233
Q ss_pred HHHHHHHHhhcCCCCCCcceEeehhhHHHHhhhh
Q psy9563 92 RLLWKSTRAQLLPTPAKFHYVFSLRDLSRIWQGM 125 (192)
Q Consensus 92 i~ly~~i~~~~~ptp~~~HY~Fnlrdl~r~~~gl 125 (192)
+++-..++..+. ...--+.||+|++-+|.+++
T Consensus 276 v~~a~~lR~~~~--~~~l~~~~StR~li~~a~~~ 307 (383)
T PHA02244 276 VNFVALLRHEMA--EKGLDHVFSMRAIIHGKKFD 307 (383)
T ss_pred HHHHHHHHHHHh--cCCCCccccHHHHHHHHHhh
Confidence 344444444331 24567889999999999873
No 10
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=86.22 E-value=2.9 Score=39.48 Aligned_cols=47 Identities=21% Similarity=0.236 Sum_probs=35.7
Q ss_pred ecceEEEEEeeCCCCCCCCCcccccc--ce-eEEEecCCCHHHHHHHHHHHHhh
Q psy9563 18 LIDVQFVAAMAQPGGGRNDIPSRLKR--QF-CIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 18 i~~i~~vaa~~p~~~gr~~i~~Rl~r--~f-~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
-+++.+|||+|.|. .|+++++| .| +.+.++.|+.++-..|+..+++.
T Consensus 288 ~~~vivIaaTN~p~----~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~ 337 (644)
T PRK10733 288 NEGIIVIAATNRPD----VLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRR 337 (644)
T ss_pred CCCeeEEEecCChh----hcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhc
Confidence 45789999999875 55666664 34 56789999999999998777654
No 11
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=79.87 E-value=6.2 Score=35.87 Aligned_cols=126 Identities=18% Similarity=0.184 Sum_probs=66.6
Q ss_pred cceEEEEEeeCCCCCCCCCcccccc--ce-eEEEecCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHhHHHHH-HHH
Q psy9563 19 IDVQFVAAMAQPGGGRNDIPSRLKR--QF-CIFNCVLPSDKAIDNIFSVIGEGHYNAKRGFPIEVRNLVKQLIPLT-RLL 94 (192)
Q Consensus 19 ~~i~~vaa~~p~~~gr~~i~~Rl~r--~f-~~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~~~i~~~~~~lv~at-i~l 94 (192)
.++.+|||.|.|. .|++.++| .| ..+.++.|+.++-..|+...+...-.. -..++..++......+ -++
T Consensus 192 ~~v~vI~aTn~~~----~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~---~~~~l~~la~~t~G~sgadl 264 (495)
T TIGR01241 192 TGVIVIAATNRPD----VLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLA---PDVDLKAVARRTPGFSGADL 264 (495)
T ss_pred CCeEEEEecCChh----hcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCC---cchhHHHHHHhCCCCCHHHH
Confidence 3578999988773 56676765 33 689999999999999998877543110 0111211211110000 011
Q ss_pred HHHHHhhcCCCCCCcceEeehhhHHHHhhhhhccccc--ccCChHHHHHHHHHHHHHHH
Q psy9563 95 WKSTRAQLLPTPAKFHYVFSLRDLSRIWQGMVGTLST--VIDSEKVLMLLWKHEVTRVF 151 (192)
Q Consensus 95 y~~i~~~~~ptp~~~HY~Fnlrdl~r~~~gl~~~~~~--~~~~~~~l~rlw~hE~~Rvf 151 (192)
-.-+.....-...+-....+..|+...++.+..-... ...+....-++.+||+-...
T Consensus 265 ~~l~~eA~~~a~~~~~~~i~~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~A~hEaGhAl 323 (495)
T TIGR01241 265 ANLLNEAALLAARKNKTEITMNDIEEAIDRVIAGPEKKSRVISEKEKKLVAYHEAGHAL 323 (495)
T ss_pred HHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHhHHH
Confidence 1111100000001122346778888887766543211 12245567789999997653
No 12
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=77.32 E-value=8.2 Score=35.56 Aligned_cols=48 Identities=19% Similarity=0.190 Sum_probs=39.5
Q ss_pred cceEEEEEeeCCCCCCCCCcccccc--ce-eEEEecCCCHHHHHHHHHHHHhhhh
Q psy9563 19 IDVQFVAAMAQPGGGRNDIPSRLKR--QF-CIFNCVLPSDKAIDNIFSVIGEGHY 70 (192)
Q Consensus 19 ~~i~~vaa~~p~~~gr~~i~~Rl~r--~f-~~~~~~~ps~~~l~~I~~~il~~~l 70 (192)
.++.+|||.|.|. .|++.++| .| ..+.++.|+.++...|+..++...+
T Consensus 332 ~~ViVI~ATN~~d----~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~~l 382 (512)
T TIGR03689 332 DNVIVIGASNRED----MIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTDSL 382 (512)
T ss_pred CceEEEeccCChh----hCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhccC
Confidence 5788999988764 68889987 55 3599999999999999999887544
No 13
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=75.18 E-value=4.6 Score=38.95 Aligned_cols=47 Identities=17% Similarity=0.114 Sum_probs=39.7
Q ss_pred eecceEEEEEeeCCCCCCCCCccccccceeEEEecCCCHHHHHHHHHHHHh
Q psy9563 17 TLIDVQFVAAMAQPGGGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGE 67 (192)
Q Consensus 17 ~i~~i~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~ 67 (192)
...++.||+|.|.+ ..|++-|++.|.++.++.|+.++...|....+.
T Consensus 460 d~s~v~~I~TtN~~----~~i~~~L~~R~~vi~~~~~~~~e~~~I~~~~l~ 506 (775)
T TIGR00763 460 DLSKVIFIATANSI----DTIPRPLLDRMEVIELSGYTEEEKLEIAKKYLI 506 (775)
T ss_pred ccCCEEEEEecCCc----hhCCHHHhCCeeEEecCCCCHHHHHHHHHHHHH
Confidence 34578999999864 368899999999999999999999999987663
No 14
>PRK09862 putative ATP-dependent protease; Provisional
Probab=72.02 E-value=5.5 Score=36.62 Aligned_cols=57 Identities=18% Similarity=0.201 Sum_probs=37.4
Q ss_pred cccceecCCCCCCeeeecceEEEEEeeCCCCCCC-----------------CCccccccceeE-EEecCCCHHHH
Q psy9563 2 NMKGFYSLEKPGEFTTLIDVQFVAAMAQPGGGRN-----------------DIPSRLKRQFCI-FNCVLPSDKAI 58 (192)
Q Consensus 2 ~~~g~Yd~~~~~~~~~i~~i~~vaa~~p~~~gr~-----------------~i~~Rl~r~f~~-~~~~~ps~~~l 58 (192)
+.|.++-.......+.-.++++||||||...|.. .+|.-++-+|-+ +.+++|+.+.|
T Consensus 319 E~g~v~I~r~g~~~~~pa~f~lIAa~NP~pcG~~~~~~c~c~~~~~~~Y~~~ls~plLDRfdL~v~v~~~~~~~l 393 (506)
T PRK09862 319 ESGQIHLSRTRAKITYPARFQLVAAMNPSPTGHYQGNHNRCTPEQTLRYLNRLSGPFLDRFDLSLEIPLPPPGIL 393 (506)
T ss_pred HcCcEEEecCCcceeccCCEEEEEeecCccceecCCCCCCcCHHHHHHHHhhCCHhHHhhccEEEEeCCCCHHHH
Confidence 4555652222344555679999999998543322 477788888876 78888876643
No 15
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=71.09 E-value=26 Score=28.77 Aligned_cols=49 Identities=8% Similarity=-0.036 Sum_probs=34.8
Q ss_pred ceEEEEEeeCCCC-CCCCCccccccce-eEEEecCCCHHHHHHHHHHHHhh
Q psy9563 20 DVQFVAAMAQPGG-GRNDIPSRLKRQF-CIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 20 ~i~~vaa~~p~~~-gr~~i~~Rl~r~f-~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
++.++++..+... .-..++|.|.+.| ..+.++.++.+++..|...++..
T Consensus 143 ~~~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~~ 193 (261)
T TIGR02881 143 EFVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVKE 193 (261)
T ss_pred CEEEEecCCcchhHHHHhcChHHHhccceEEEECCCCHHHHHHHHHHHHHH
Confidence 4566666543221 1124678888888 56999999999999999988765
No 16
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=70.88 E-value=17 Score=33.03 Aligned_cols=40 Identities=15% Similarity=0.197 Sum_probs=33.7
Q ss_pred CeeeecceEEEEEeeCCCCCCCCCccccccceeEEEecCC
Q psy9563 14 EFTTLIDVQFVAAMAQPGGGRNDIPSRLKRQFCIFNCVLP 53 (192)
Q Consensus 14 ~~~~i~~i~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~p 53 (192)
.|..-.|+.+|||||....|-..++.=|.|.|..+.+.+.
T Consensus 319 ~f~iP~Nl~IIgTMNt~Drs~~~lD~AlrRRF~fi~i~p~ 358 (459)
T PRK11331 319 RFYVPENVYIIGLMNTADRSLAVVDYALRRRFSFIDIEPG 358 (459)
T ss_pred cccCCCCeEEEEecCccccchhhccHHHHhhhheEEecCC
Confidence 4677789999999998766666889999999999998763
No 17
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=70.16 E-value=30 Score=33.14 Aligned_cols=136 Identities=11% Similarity=0.051 Sum_probs=78.6
Q ss_pred ceEEEEEeeCCCC-CCCCCccccccceeEEEecCCCHHHHHHHHHHHHhhhhcc-CCCCCHHHHHHHHhH----------
Q psy9563 20 DVQFVAAMAQPGG-GRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEGHYNA-KRGFPIEVRNLVKQL---------- 87 (192)
Q Consensus 20 ~i~~vaa~~p~~~-gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~~l~~-~~~f~~~i~~~~~~l---------- 87 (192)
.+++|||++++.. -...+++=|.|+|..+.++.|+.++...|...+...+-.. .-.+.++.-..+-.+
T Consensus 311 ~i~~IgaTt~~e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~~~~e~~~~v~i~~~al~~~~~ls~ryi~~r~~ 390 (731)
T TIGR02639 311 KLRCIGSTTYEEYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLKEKYEEFHHVKYSDEALEAAVELSARYINDRFL 390 (731)
T ss_pred CeEEEEecCHHHHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHHHHHHhccCcccCHHHHHHHHHhhhcccccccC
Confidence 5899999986432 1235577788999999999999999999998766543210 012444322111111
Q ss_pred HHHHHHHHHHHHhhc--CCCCCCcceEeehhhHHHHhhhhhcccccccCChHHHHHHHHHHHHHHHHhhcCChh
Q psy9563 88 IPLTRLLWKSTRAQL--LPTPAKFHYVFSLRDLSRIWQGMVGTLSTVIDSEKVLMLLWKHEVTRVFSDRFTIMS 159 (192)
Q Consensus 88 v~ati~ly~~i~~~~--~ptp~~~HY~Fnlrdl~r~~~gl~~~~~~~~~~~~~l~rlw~hE~~Rvf~DRLv~~~ 159 (192)
-...|++.+..++.. .|.. +.--..+..|+..++..+...+...... +...+ ..+..+.+..|++..+
T Consensus 391 P~kai~lld~a~a~~~~~~~~-~~~~~v~~~~i~~~i~~~tgiP~~~~~~-~~~~~--l~~l~~~l~~~v~GQ~ 460 (731)
T TIGR02639 391 PDKAIDVIDEAGASFRLRPKA-KKKANVSVKDIENVVAKMAHIPVKTVSV-DDREK--LKNLEKNLKAKIFGQD 460 (731)
T ss_pred CHHHHHHHHHhhhhhhcCccc-ccccccCHHHHHHHHHHHhCCChhhhhh-HHHHH--HHHHHHHHhcceeCcH
Confidence 223477777666533 2221 1223468889999998877666433221 11111 1334556666666543
No 18
>PF12780 AAA_8: P-loop containing dynein motor region D4; InterPro: IPR024317 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four (D1 - D4) correspond to the ATP binding sites with P-loop signatures described previously, and two (D5, D6) are modules in which the P loop has been lost in evolution. This particular entry represents the D4 ATP-binding domain of the motor [].; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=69.48 E-value=8.2 Score=32.44 Aligned_cols=91 Identities=14% Similarity=0.058 Sum_probs=53.8
Q ss_pred cceEEEEEeeCCCCC-CC--CCccccccceeEEEecCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHhHHHHHHHHH
Q psy9563 19 IDVQFVAAMAQPGGG-RN--DIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEGHYNAKRGFPIEVRNLVKQLIPLTRLLW 95 (192)
Q Consensus 19 ~~i~~vaa~~p~~~g-r~--~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~~~i~~~~~~lv~ati~ly 95 (192)
+++.+|-+|.|.|.- |. .-.|.|.+...+..+..=+.++|..|-..+|+..- ..+++ +.++++.++..++
T Consensus 160 ~nLHivl~~sp~~~~~r~~~~~fPaL~~~ctIdW~~~W~~eaL~~Va~~~l~~~~----~~~~~---~~~~l~~~~~~iH 232 (268)
T PF12780_consen 160 KNLHIVLCMSPVGPNFRDRCRSFPALVNCCTIDWFDPWPEEALLSVANKFLSDIE----LLSEE---LKKSLAEIMVFIH 232 (268)
T ss_dssp CCEEEEEEESTTTTCCCHHHHHHCCHHHHSEEEEEES--HHHHHHHHHHHCCHHH----TSS-----HHHHHHHHHHHHH
T ss_pred hheeEEEEECCCCchHHHHHHhCcchhcccEEEeCCcCCHHHHHHHHHHHHHhhc----ccchh---HHHHHHHHHHHHh
Confidence 489999999986632 22 23578888899999998899999999988886542 12333 3445666666666
Q ss_pred HHHHh---hcCCCCCCcceEeehhh
Q psy9563 96 KSTRA---QLLPTPAKFHYVFSLRD 117 (192)
Q Consensus 96 ~~i~~---~~~ptp~~~HY~Fnlrd 117 (192)
..+.+ .+. ...+-||..+|+.
T Consensus 233 ~sv~~~s~~y~-~~~~r~~yvTP~s 256 (268)
T PF12780_consen 233 QSVEEISRKYL-QELRRYNYVTPKS 256 (268)
T ss_dssp HHHHHHHHHHH-HHCS------HHH
T ss_pred ccchHhHHHHH-HHcCCcceECcHH
Confidence 55443 222 1235677777773
No 19
>KOG3078|consensus
Probab=68.00 E-value=5.7 Score=32.83 Aligned_cols=30 Identities=27% Similarity=0.584 Sum_probs=24.2
Q ss_pred ceEEEEEeeCCCCCCCCCccccccceeEEEe
Q psy9563 20 DVQFVAAMAQPGGGRNDIPSRLKRQFCIFNC 50 (192)
Q Consensus 20 ~i~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~ 50 (192)
.++++. +++||.|+.+.++|+...|.++++
T Consensus 15 ~~~~v~-~G~pg~gkgt~a~~l~~~~~~~hl 44 (235)
T KOG3078|consen 15 GVRAVL-LGAPGSGKGTQAPRLTKNFGVIHI 44 (235)
T ss_pred ceEEEE-EeCCCCCCCccCHHHHHhcCCccc
Confidence 455553 466899999999999999999995
No 20
>PF03028 Dynein_heavy: Dynein heavy chain and region D6 of dynein motor; InterPro: IPR004273 Dynein is a multisubunit microtubule-dependent motor enzyme that acts as the force generating protein of eukaryotic cilia and flagella. The cytoplasmic isoform of dynein acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. Dynein is composed of a number of ATP-binding large subunits, intermediate size subunits and small subunits (see IPR001372 from INTERPRO). This family represents the C-terminal region of dynein heavy chain. The dynein heavy chain also exhibits ATPase activity and microtubule binding ability and acts as a motor for the movement of organelles and vesicles along microtubules. ; GO: 0003777 microtubule motor activity, 0007018 microtubule-based movement, 0030286 dynein complex; PDB: 3VKG_A 3VKH_C 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=65.71 E-value=37 Score=32.30 Aligned_cols=143 Identities=13% Similarity=0.122 Sum_probs=76.7
Q ss_pred ceEEEEEeeCCCCCCCCCccccccceeEEEecCCC--HHHHHHHHHHHHhhhhccCCCCCHHHHHHHHhHHHHHHHHHHH
Q psy9563 20 DVQFVAAMAQPGGGRNDIPSRLKRQFCIFNCVLPS--DKAIDNIFSVIGEGHYNAKRGFPIEVRNLVKQLIPLTRLLWKS 97 (192)
Q Consensus 20 ~i~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~ps--~~~l~~I~~~il~~~l~~~~~f~~~i~~~~~~lv~ati~ly~~ 97 (192)
+-.+..++.|. ..+|.-+++....+....|+ .+.|..+|..+-...+... .-+.+.+.+ . ..+.+++.
T Consensus 203 ~FRL~lt~~~~----~~~P~~lL~~s~kv~~E~p~gik~~l~~~~~~~~~~~~~~~-~~~~~~~~l----~-f~L~~fHa 272 (707)
T PF03028_consen 203 NFRLFLTSEPS----PSFPISLLQSSIKVTYEPPPGIKANLLRTYNSISQDFFEMC-SKPPEWRRL----L-FLLAWFHA 272 (707)
T ss_dssp T-EEEEEEESS----TTS-HHHHHCSEEEEE---SSHHHHHHHHHCC--SCCHHHT-SSSCHHHHH----H-HHHHHHHH
T ss_pred ceEEEEEecCc----ccCCHHHHHcccceeeCChhHHHHHHHHHHHhhhhhhhhcc-chHHHHHHH----H-HHHHHHHH
Confidence 33444455542 34889999999999999998 4777777766443333211 112222222 2 33333433
Q ss_pred HH---hhcCCCCCCcceEeehhhHHHHhhhhhcccccc--cCChHHHHHHHHHHHHHHHHhhcCChhhHHHHHHHHHHHH
Q psy9563 98 TR---AQLLPTPAKFHYVFSLRDLSRIWQGMVGTLSTV--IDSEKVLMLLWKHEVTRVFSDRFTIMSDKHWFDDEVLNLV 172 (192)
Q Consensus 98 i~---~~~~ptp~~~HY~Fnlrdl~r~~~gl~~~~~~~--~~~~~~l~rlw~hE~~Rvf~DRLv~~~d~~~f~~~l~~~~ 172 (192)
+. ..+.|.-=.--|.||--|+.--++-+...-... -.-+-.-++-..-|+ +|+=|+.++.|++.+..++.+.+
T Consensus 273 vl~eR~~y~p~Gw~~~Y~f~~sDl~~a~~~l~~~~~~~~~~~ipw~~l~~l~~~i--~YGGrv~d~~D~r~l~~~~~~~f 350 (707)
T PF03028_consen 273 VLQERRRYGPLGWNKPYEFNDSDLRAALDILDNWLDESSPESIPWDALRYLIGEI--VYGGRVDDEWDRRLLNTLLNQFF 350 (707)
T ss_dssp HHHHHHHCTTTTSSS-----HHHHHHHHHHHHHHHHHCSCCCTTHHHHHHHHHHT--TTTTT-SSHHHHHHHHHHHHHHS
T ss_pred HHHHHHhcCCcccceeeeechHHHHHHHHHHHHHHhhccccCCcHHHHHHHhhhc--eecCeeccHHHHHHHHHHHHHHc
Confidence 33 467888778899999999987766553322111 111223334444443 79999999999999999888877
Q ss_pred Hh
Q psy9563 173 EQ 174 (192)
Q Consensus 173 ~~ 174 (192)
..
T Consensus 351 ~~ 352 (707)
T PF03028_consen 351 NP 352 (707)
T ss_dssp SG
T ss_pred Cc
Confidence 54
No 21
>smart00350 MCM minichromosome maintenance proteins.
Probab=65.62 E-value=17 Score=33.36 Aligned_cols=51 Identities=18% Similarity=0.216 Sum_probs=38.6
Q ss_pred cceEEEEEeeCCCCCCC----------CCccccccceeE--EEecCCCHHHHHHHHHHHHhhhh
Q psy9563 19 IDVQFVAAMAQPGGGRN----------DIPSRLKRQFCI--FNCVLPSDKAIDNIFSVIGEGHY 70 (192)
Q Consensus 19 ~~i~~vaa~~p~~~gr~----------~i~~Rl~r~f~~--~~~~~ps~~~l~~I~~~il~~~l 70 (192)
.+..++||+||-. |++ .+++-+++.|-+ +..++|+.+.=..|...++..|-
T Consensus 342 ~~~~viAa~NP~~-g~y~~~~~~~~n~~l~~~lLsRFdLi~~~~d~~~~~~d~~i~~~i~~~~~ 404 (509)
T smart00350 342 ARCSVLAAANPIG-GRYDPKLTPEENIDLPAPILSRFDLLFVVLDEVDEERDRELAKHVVDLHR 404 (509)
T ss_pred CCcEEEEEeCCCC-cccCCCcChhhccCCChHHhCceeeEEEecCCCChHHHHHHHHHHHHhhc
Confidence 3789999999754 433 789999999944 45578888877788887776553
No 22
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=63.41 E-value=4.9 Score=38.78 Aligned_cols=112 Identities=11% Similarity=0.085 Sum_probs=68.9
Q ss_pred ceEEEEEeeCCCC-CCCCCccccccceeEEEecCCCHHHHHHHHHHHHhhhhcc-CCCCCHHHH-HHH---------HhH
Q psy9563 20 DVQFVAAMAQPGG-GRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEGHYNA-KRGFPIEVR-NLV---------KQL 87 (192)
Q Consensus 20 ~i~~vaa~~p~~~-gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~~l~~-~~~f~~~i~-~~~---------~~l 87 (192)
++++|||.+++.. .....++.|.|+|..+.++.|+.++...|...+...+-.. .-.+.++.. ..+ ..+
T Consensus 315 ~i~vIgATt~~E~~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~r~l 394 (758)
T PRK11034 315 KIRVIGSTTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHL 394 (758)
T ss_pred CeEEEecCChHHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccCccC
Confidence 5899999997642 2236789999999999999999999999988654332210 012333321 111 112
Q ss_pred HHHHHHHHHHHHhhc--CCCCCCcceEeehhhHHHHhhhhhcccccc
Q psy9563 88 IPLTRLLWKSTRAQL--LPTPAKFHYVFSLRDLSRIWQGMVGTLSTV 132 (192)
Q Consensus 88 v~ati~ly~~i~~~~--~ptp~~~HY~Fnlrdl~r~~~gl~~~~~~~ 132 (192)
-...+++.+..+... .|.. +-....+..|+..++......+...
T Consensus 395 PdKaidlldea~a~~~~~~~~-~~~~~v~~~~i~~v~~~~tgip~~~ 440 (758)
T PRK11034 395 PDKAIDVIDEAGARARLMPVS-KRKKTVNVADIESVVARIARIPEKS 440 (758)
T ss_pred hHHHHHHHHHHHHhhccCccc-ccccccChhhHHHHHHHHhCCChhh
Confidence 225667776666433 2321 2233567788999888777665443
No 23
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=61.42 E-value=66 Score=29.03 Aligned_cols=47 Identities=13% Similarity=0.168 Sum_probs=33.4
Q ss_pred eEEEEEee-CCCCCCCCCccccccce---eEEEecCCCHHHHHHHHHHHHhh
Q psy9563 21 VQFVAAMA-QPGGGRNDIPSRLKRQF---CIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 21 i~~vaa~~-p~~~gr~~i~~Rl~r~f---~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
-++|.+++ +|.. -..+.+||.++| -++.+.+|+.+++..|.......
T Consensus 236 k~IIlts~~~p~~-l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~ 286 (445)
T PRK12422 236 KLIVISSTCAPQD-LKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKAEA 286 (445)
T ss_pred CcEEEecCCCHHH-HhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHHHH
Confidence 34555544 3431 124789999999 59999999999999888776654
No 24
>PF15466 DUF4635: Domain of unknown function (DUF4635)
Probab=60.41 E-value=26 Score=25.90 Aligned_cols=37 Identities=16% Similarity=0.250 Sum_probs=28.6
Q ss_pred cCChHHHHHHHHHHHHHHHHhhcCChhhHHHHHHHHHHH
Q psy9563 133 IDSEKVLMLLWKHEVTRVFSDRFTIMSDKHWFDDEVLNL 171 (192)
Q Consensus 133 ~~~~~~l~rlw~hE~~Rvf~DRLv~~~d~~~f~~~l~~~ 171 (192)
...+-..+|=|.-|...||-.|| +++.+...+++.+.
T Consensus 81 seEPik~~r~WLkenLhvflEkL--E~EvreLEQlV~DL 117 (135)
T PF15466_consen 81 SEEPIKAIRNWLKENLHVFLEKL--EKEVRELEQLVRDL 117 (135)
T ss_pred ccchHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHH
Confidence 34466789999999999999999 56666666665543
No 25
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=56.16 E-value=10 Score=37.10 Aligned_cols=47 Identities=13% Similarity=0.179 Sum_probs=37.8
Q ss_pred ceEEEEEeeCCCC-CCCCCccccccceeEEEecCCCHHHHHHHHHHHH
Q psy9563 20 DVQFVAAMAQPGG-GRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIG 66 (192)
Q Consensus 20 ~i~~vaa~~p~~~-gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il 66 (192)
++++|||.+++.. -...+++=|.|+|.++.++.|+.++...|...+.
T Consensus 316 ~l~~IgaTT~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~ 363 (852)
T TIGR03345 316 ELRTIAATTWAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLA 363 (852)
T ss_pred CeEEEEecCHHHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHH
Confidence 4899999987542 2345788899999999999999999999965444
No 26
>PF12041 DELLA: Transcriptional regulator DELLA protein N terminal; InterPro: IPR021914 Gibberellins are plant hormones which have great impact on growth signalling. DELLA proteins are transcriptional regulators of growth related proteins which are downregulated when gibberellins bind to their receptor GID1. GID1 forms a complex with DELLA proteins and signals them towards 26S proteasome. The N-terminal of DELLA proteins contains conserved DELLA and VHYNP motifs which are important for GID1 binding and proteolysis of the DELLA proteins [].; PDB: 2ZSH_B 2ZSI_B.
Probab=54.47 E-value=6.5 Score=26.42 Aligned_cols=18 Identities=33% Similarity=0.506 Sum_probs=14.4
Q ss_pred CcceEeehhhHHHHhhhhhc
Q psy9563 108 KFHYVFSLRDLSRIWQGMVG 127 (192)
Q Consensus 108 ~~HY~Fnlrdl~r~~~gl~~ 127 (192)
..|| ||.||+.|+++|+.
T Consensus 45 TVhy--NPSDLs~WvesMLs 62 (73)
T PF12041_consen 45 TVHY--NPSDLSSWVESMLS 62 (73)
T ss_dssp HCCS---TTBHHHHHHHHHH
T ss_pred hhcc--ChHHHHHHHHHHHH
Confidence 4565 79999999999984
No 27
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=53.78 E-value=3.4 Score=31.71 Aligned_cols=29 Identities=10% Similarity=0.360 Sum_probs=24.2
Q ss_pred ceEEEEEeeCCCCCCCCCccccccceeEE
Q psy9563 20 DVQFVAAMAQPGGGRNDIPSRLKRQFCIF 48 (192)
Q Consensus 20 ~i~~vaa~~p~~~gr~~i~~Rl~r~f~~~ 48 (192)
++.+++-++|||+|+.++..++...+...
T Consensus 2 ~~~ii~i~G~~GsGKsTl~~~l~~~~g~~ 30 (188)
T TIGR01360 2 KCKIIFIVGGPGSGKGTQCEKIVEKYGFT 30 (188)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHhCCc
Confidence 56788899999999999999998876433
No 28
>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite.; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.
Probab=53.57 E-value=26 Score=30.17 Aligned_cols=51 Identities=22% Similarity=0.281 Sum_probs=28.6
Q ss_pred ceEEEEEeeCCCCCCC----------CCccccccceeEEE--ecCCCHHHHHHHHHHHHhhhhc
Q psy9563 20 DVQFVAAMAQPGGGRN----------DIPSRLKRQFCIFN--CVLPSDKAIDNIFSVIGEGHYN 71 (192)
Q Consensus 20 ~i~~vaa~~p~~~gr~----------~i~~Rl~r~f~~~~--~~~ps~~~l~~I~~~il~~~l~ 71 (192)
+..++||+||.. |+. .+++-|++.|=++. .+.|+.+.=..|-..++..|..
T Consensus 164 r~svlaa~NP~~-g~~~~~~~~~~ni~l~~~LLSRFDLif~l~D~~d~~~D~~la~~il~~~~~ 226 (331)
T PF00493_consen 164 RCSVLAAANPKF-GRYDPNKSLSENINLPPPLLSRFDLIFLLRDKPDEEEDERLAEHILDSHRN 226 (331)
T ss_dssp --EEEEEE--TT---S-TTS-CGCCT-S-CCCHCC-SEEECC--TTT-HHHHHHHHHHHTTT--
T ss_pred hhhhHHHHhhhh-hhcchhhhhHHhcccchhhHhhcCEEEEeccccccccccccceEEEecccc
Confidence 789999999864 322 57889999998776 3667766666677777777653
No 29
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=52.95 E-value=59 Score=27.74 Aligned_cols=63 Identities=13% Similarity=0.065 Sum_probs=42.0
Q ss_pred cceEEEEEeeCCCCCCCCCccccccce--eEEEecCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHH
Q psy9563 19 IDVQFVAAMAQPGGGRNDIPSRLKRQF--CIFNCVLPSDKAIDNIFSVIGEGHYNAKRGFPIEVRNL 83 (192)
Q Consensus 19 ~~i~~vaa~~p~~~gr~~i~~Rl~r~f--~~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~~~i~~~ 83 (192)
.++.+|++.|.+.- ...+.+|+.+.| ..+.+++++.+++..|....+...+.. ..+.+++-+.
T Consensus 164 ~~v~lI~i~n~~~~-~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~-~~~~~~~l~~ 228 (365)
T TIGR02928 164 AKVGVIGISNDLKF-RENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYD-GVLDDGVIPL 228 (365)
T ss_pred CeEEEEEEECCcch-HhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccC-CCCChhHHHH
Confidence 35788888876532 124677777777 478999999999999998887633321 2355544333
No 30
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=51.93 E-value=9.5 Score=27.21 Aligned_cols=49 Identities=20% Similarity=0.281 Sum_probs=37.4
Q ss_pred EEEEEeeCCCCCCCCCcccccc----------ceeEEEecCCCHHHHHHHHHHHHhhhh
Q psy9563 22 QFVAAMAQPGGGRNDIPSRLKR----------QFCIFNCVLPSDKAIDNIFSVIGEGHY 70 (192)
Q Consensus 22 ~~vaa~~p~~~gr~~i~~Rl~r----------~f~~~~~~~ps~~~l~~I~~~il~~~l 70 (192)
.++.-.++||.|+..+-.++.+ +..++++..|+..+...++..++...-
T Consensus 5 ~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~ 63 (131)
T PF13401_consen 5 RILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALG 63 (131)
T ss_dssp --EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT
T ss_pred cccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhC
Confidence 3556678899999888888887 678889988888888888888887654
No 31
>PF02091 tRNA-synt_2e: Glycyl-tRNA synthetase alpha subunit; InterPro: IPR002310 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. In eubacteria, glycyl-tRNA synthetase (6.1.1.14 from EC) is an alpha2/beta2 tetramer composed of 2 different subunits [, , ]. In some eubacteria, in archaea and eukaryota, glycyl-tRNA synthetase is an alpha2 dimer (see IPR002315 from INTERPRO). It belongs to class IIc and is one of the most complex synthetases. What is most interesting is the lack of similarity between the two types: divergence at the sequence level is so great that it is impossible to infer descent from common genes. The alpha and beta subunits (see IPR002311 from INTERPRO) also lack significant sequence similarity. However, they are translated from a single mRNA [], and a single chain glycyl-tRNA synthetase from Chlamydia trachomatis has been found to have significant similarity with both domains, suggesting divergence from a single polypeptide chain []. This entry represents the alpha subunit of glycyl-tRNA synthetase.; GO: 0000166 nucleotide binding, 0004820 glycine-tRNA ligase activity, 0005524 ATP binding, 0006426 glycyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3RF1_A 3UFG_B 3RGL_B 1J5W_B.
Probab=50.97 E-value=23 Score=29.85 Aligned_cols=49 Identities=24% Similarity=0.422 Sum_probs=33.8
Q ss_pred ceEEEEEeeCCCCCCC-CCccccccceeEEEecCCCHHHHHHHHHHHHhh
Q psy9563 20 DVQFVAAMAQPGGGRN-DIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 20 ~i~~vaa~~p~~~gr~-~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
++-+|--+.-|+.||. +=|+||.+|+..=.+-.|+.+.++.+|-.-|+.
T Consensus 47 ~vaYVqPsrRP~DGRYGeNPNRLq~y~QfQVilKPsP~niq~lYL~SL~~ 96 (284)
T PF02091_consen 47 NVAYVQPSRRPTDGRYGENPNRLQHYYQFQVILKPSPDNIQELYLESLEA 96 (284)
T ss_dssp EEEEEEEEE-GGG--TTTSSS--SEEEEEEEEEES--TTHHHHHHHHHHH
T ss_pred cccccccCCCCCCCccCCCchHhhhhheeEEEEcCCCccHHHHHHHHHHH
Confidence 3667777777888887 448999999998888899999999999777765
No 32
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=49.25 E-value=67 Score=30.41 Aligned_cols=33 Identities=18% Similarity=0.193 Sum_probs=27.4
Q ss_pred CCcccccccee---EEEecCCCHHHHHHHHHHHHhh
Q psy9563 36 DIPSRLKRQFC---IFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 36 ~i~~Rl~r~f~---~~~~~~ps~~~l~~I~~~il~~ 68 (192)
.+.+||.+.|. ++.|..|+.+....|.......
T Consensus 426 ~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kka~~ 461 (617)
T PRK14086 426 TLEDRLRNRFEWGLITDVQPPELETRIAILRKKAVQ 461 (617)
T ss_pred hccHHHHhhhhcCceEEcCCCCHHHHHHHHHHHHHh
Confidence 57889999884 8899999999999998876543
No 33
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=48.59 E-value=32 Score=30.76 Aligned_cols=76 Identities=16% Similarity=0.151 Sum_probs=49.6
Q ss_pred eecceEEEEEeeCCCCCCCCCcccccc--ceeEEEecCCCHHHHHHHHHHHHhhhhccCCCCC-HHHHHHHHhHHHHHHH
Q psy9563 17 TLIDVQFVAAMAQPGGGRNDIPSRLKR--QFCIFNCVLPSDKAIDNIFSVIGEGHYNAKRGFP-IEVRNLVKQLIPLTRL 93 (192)
Q Consensus 17 ~i~~i~~vaa~~p~~~gr~~i~~Rl~r--~f~~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~-~~i~~~~~~lv~ati~ 93 (192)
...+|-+|||.|-|. .|++-|+| +|--. +..|+.++-..|...+++.. +.+ .++..+++..-.+.++
T Consensus 265 ~~~~V~VIaTTNrpd----~LDpALlRpGRfDk~-i~lPd~e~R~eIL~~~~r~~-----~l~~~dv~~Lv~~f~gq~~D 334 (413)
T PLN00020 265 EIPRVPIIVTGNDFS----TLYAPLIRDGRMEKF-YWAPTREDRIGVVHGIFRDD-----GVSREDVVKLVDTFPGQPLD 334 (413)
T ss_pred cCCCceEEEeCCCcc----cCCHhHcCCCCCCce-eCCCCHHHHHHHHHHHhccC-----CCCHHHHHHHHHcCCCCCch
Confidence 356799999998764 45666666 44332 34799999999988777642 333 3455555555555677
Q ss_pred HHHHHHhhc
Q psy9563 94 LWKSTRAQL 102 (192)
Q Consensus 94 ly~~i~~~~ 102 (192)
+|..+++..
T Consensus 335 f~GAlrar~ 343 (413)
T PLN00020 335 FFGALRARV 343 (413)
T ss_pred hhhHHHHHH
Confidence 777766543
No 34
>PF03225 Viral_Hsp90: Viral heat shock protein Hsp90 homologue ; InterPro: IPR004909 This family includes the Beet yellows virus heat shock protein 90 homologue and other hypothetical proteins.
Probab=48.41 E-value=95 Score=28.64 Aligned_cols=44 Identities=11% Similarity=0.256 Sum_probs=34.7
Q ss_pred CCCcceEeehhhHHH-HhhhhhcccccccCChHHHHHHH----HHHHHHHHHh
Q psy9563 106 PAKFHYVFSLRDLSR-IWQGMVGTLSTVIDSEKVLMLLW----KHEVTRVFSD 153 (192)
Q Consensus 106 p~~~HY~Fnlrdl~r-~~~gl~~~~~~~~~~~~~l~rlw----~hE~~Rvf~D 153 (192)
....-+.+++.++.+ ++.-+....|+. .+++|+| .|+|.++|.+
T Consensus 399 ~~~~~~~i~~s~v~~~~f~~vq~~~p~~----~Ni~R~w~~~ra~~A~~lfk~ 447 (512)
T PF03225_consen 399 FKGESKSIDMSDVESHVFNEVQSRHPEV----RNIRRQWCGPRANRAIRLFKS 447 (512)
T ss_pred ccCceeEEehHHHHHHHHHHHHhhCcch----HHHHHHHhhhhhHHHHHHHHh
Confidence 344456889999999 888888777653 5789999 6899999985
No 35
>TIGR00388 glyQ glycyl-tRNA synthetase, tetrameric type, alpha subunit. This tetrameric form of glycyl-tRNA synthetase (2 alpha, 2 beta) is found in the majority of completed eubacterial genomes, with the two genes fused in a few species. A substantially different homodimeric form (not recognized by this model) replaces this form in the Archaea, animals, yeasts, and some eubacteria.
Probab=48.27 E-value=23 Score=29.87 Aligned_cols=48 Identities=23% Similarity=0.405 Sum_probs=36.6
Q ss_pred eEEEEEeeCCCCCCC-CCccccccceeEEEecCCCHHHHHHHHHHHHhh
Q psy9563 21 VQFVAAMAQPGGGRN-DIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 21 i~~vaa~~p~~~gr~-~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
+-+|--+.-|+.||. +=|+||.+++..=.+-.|+.+.++.+|-.-|+.
T Consensus 50 vAYVqPsRRP~DGRYGeNPNRLq~yyQfQVilKPsP~niQelYL~SL~~ 98 (293)
T TIGR00388 50 VAYVEPSRRPTDGRYGENPNRLQHYYQFQVVIKPSPDNIQELYLDSLRA 98 (293)
T ss_pred eccccCCCCCCCCCCCCCchhhhheeeeEEEECCCCccHHHHHHHHHHH
Confidence 344444444677887 557999999998888899999999999766654
No 36
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=47.93 E-value=28 Score=30.95 Aligned_cols=46 Identities=20% Similarity=0.317 Sum_probs=36.1
Q ss_pred cceEEEEEeeCCCCCCCCCcccccc--ce-eEEEecCCCHHHHHHHHHHHHhh
Q psy9563 19 IDVQFVAAMAQPGGGRNDIPSRLKR--QF-CIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 19 ~~i~~vaa~~p~~~gr~~i~~Rl~r--~f-~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
.++.+|+|.|.| ..|++.++| +| ..+.++.|+.++-..|+..++..
T Consensus 283 ~~v~VI~aTN~~----d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~ 331 (398)
T PTZ00454 283 TNVKVIMATNRA----DTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSK 331 (398)
T ss_pred CCEEEEEecCCc----hhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhc
Confidence 478899998876 377888887 33 46899999999998899876643
No 37
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=47.46 E-value=2.3 Score=31.91 Aligned_cols=26 Identities=19% Similarity=0.581 Sum_probs=23.3
Q ss_pred eeCCCCCCCCCccccccceeEEEecC
Q psy9563 27 MAQPGGGRNDIPSRLKRQFCIFNCVL 52 (192)
Q Consensus 27 ~~p~~~gr~~i~~Rl~r~f~~~~~~~ 52 (192)
++|||+|+.+++.|+...+.+.++..
T Consensus 2 ~G~PgsGK~t~~~~la~~~~~~~is~ 27 (151)
T PF00406_consen 2 LGPPGSGKGTQAKRLAKRYGLVHISV 27 (151)
T ss_dssp EESTTSSHHHHHHHHHHHHTSEEEEH
T ss_pred cCCCCCChHHHHHHHHHhcCcceech
Confidence 57999999999999999999888864
No 38
>KOG0730|consensus
Probab=46.80 E-value=39 Score=32.19 Aligned_cols=47 Identities=26% Similarity=0.196 Sum_probs=37.8
Q ss_pred cceEEEEEeeCCCCCCCCCcccccc---ceeEEEecCCCHHHHHHHHHHHHhhh
Q psy9563 19 IDVQFVAAMAQPGGGRNDIPSRLKR---QFCIFNCVLPSDKAIDNIFSVIGEGH 69 (192)
Q Consensus 19 ~~i~~vaa~~p~~~gr~~i~~Rl~r---~f~~~~~~~ps~~~l~~I~~~il~~~ 69 (192)
.+|.++||-|-|- .|++=|+| .=.+++++.|+.++=..|+....+.+
T Consensus 569 k~V~ViAATNRpd----~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkm 618 (693)
T KOG0730|consen 569 KNVLVIAATNRPD----MIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKM 618 (693)
T ss_pred CcEEEEeccCChh----hcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcC
Confidence 5899999999763 66777777 34799999999999888988877653
No 39
>PRK09348 glyQ glycyl-tRNA synthetase subunit alpha; Validated
Probab=46.76 E-value=24 Score=29.63 Aligned_cols=49 Identities=22% Similarity=0.345 Sum_probs=37.3
Q ss_pred eEEEEEeeCCCCCCCC-CccccccceeEEEecCCCHHHHHHHHHHHHhhh
Q psy9563 21 VQFVAAMAQPGGGRND-IPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEGH 69 (192)
Q Consensus 21 i~~vaa~~p~~~gr~~-i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~~ 69 (192)
+-+|--+.-|+.||.- =|+||.+++..=.+-.||.+.++.+|-.-|+..
T Consensus 53 vaYvqPsRRP~DGRYGeNPNRLq~y~QfQVilKPsP~niQelYL~SL~~l 102 (283)
T PRK09348 53 AAYVQPSRRPTDGRYGENPNRLQHYYQFQVILKPSPDNIQELYLGSLEAL 102 (283)
T ss_pred cccccCCCCCCCCCcCCCchhhhhheeeEEEEcCCCccHHHHHHHHHHHh
Confidence 3344444447778874 479999999988888999999999997777654
No 40
>COG0752 GlyQ Glycyl-tRNA synthetase, alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=46.61 E-value=31 Score=28.93 Aligned_cols=48 Identities=23% Similarity=0.392 Sum_probs=35.7
Q ss_pred eEEEEEeeCCCCCCC-CCccccccceeEEEecCCCHHHHHHHHHHHHhh
Q psy9563 21 VQFVAAMAQPGGGRN-DIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 21 i~~vaa~~p~~~gr~-~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
+-+|.-+.-|+.||. +=|+||.++...=.+-.|+.+.++.+|-.-|+.
T Consensus 54 aAYVqPSRRP~DGRYGenPNRlq~yyQfQVilKPsP~NiQeLYL~SL~~ 102 (298)
T COG0752 54 AAYVQPSRRPTDGRYGENPNRLQHYYQFQVIIKPSPDNIQELYLGSLEA 102 (298)
T ss_pred eeeeccCCCCCCCCCCCCchhhhhheeEEEEecCCCccHHHHHHHHHHH
Confidence 344444445677777 447999999988888899999999999766654
No 41
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=45.94 E-value=4.9 Score=30.86 Aligned_cols=29 Identities=17% Similarity=0.347 Sum_probs=24.6
Q ss_pred EEEeeCCCCCCCCCccccccceeEEEecC
Q psy9563 24 VAAMAQPGGGRNDIPSRLKRQFCIFNCVL 52 (192)
Q Consensus 24 vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~ 52 (192)
|.-++|||+|+.+++.+|..++.+.++..
T Consensus 2 i~i~G~pGsGKst~a~~la~~~~~~~is~ 30 (183)
T TIGR01359 2 VFVLGGPGSGKGTQCAKIVENFGFTHLSA 30 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCeEEEC
Confidence 55678999999999999999998777754
No 42
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=45.44 E-value=36 Score=30.01 Aligned_cols=46 Identities=20% Similarity=0.289 Sum_probs=35.3
Q ss_pred cceEEEEEeeCCCCCCCCCcccccc--ce-eEEEecCCCHHHHHHHHHHHHhh
Q psy9563 19 IDVQFVAAMAQPGGGRNDIPSRLKR--QF-CIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 19 ~~i~~vaa~~p~~~gr~~i~~Rl~r--~f-~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
.++.+|||.|.|. .+++.++| +| ..+.++.|+.++-..|+...+..
T Consensus 269 ~~v~VI~aTn~~~----~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~ 317 (389)
T PRK03992 269 GNVKIIAATNRID----ILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRK 317 (389)
T ss_pred CCEEEEEecCChh----hCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhcc
Confidence 4788999998763 56676765 34 57999999999999998876543
No 43
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=45.21 E-value=14 Score=36.02 Aligned_cols=47 Identities=13% Similarity=0.113 Sum_probs=37.8
Q ss_pred ceEEEEEeeCCCCCC-CCCccccccceeEEEecCCCHHHHHHHHHHHH
Q psy9563 20 DVQFVAAMAQPGGGR-NDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIG 66 (192)
Q Consensus 20 ~i~~vaa~~p~~~gr-~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il 66 (192)
++++|||.+++..-+ ..+++-|.|+|..+.++.|+.++...|+..+.
T Consensus 302 ~i~~IgaTt~~e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~ 349 (852)
T TIGR03346 302 ELHCIGATTLDEYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGLK 349 (852)
T ss_pred ceEEEEeCcHHHHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHH
Confidence 588999988754322 35689999999999999999999999887653
No 44
>PLN02674 adenylate kinase
Probab=44.94 E-value=11 Score=31.31 Aligned_cols=28 Identities=18% Similarity=0.549 Sum_probs=24.0
Q ss_pred EEeeCCCCCCCCCccccccceeEEEecC
Q psy9563 25 AAMAQPGGGRNDIPSRLKRQFCIFNCVL 52 (192)
Q Consensus 25 aa~~p~~~gr~~i~~Rl~r~f~~~~~~~ 52 (192)
.-++|||.|+.+++.+|.+++.+.++..
T Consensus 35 ~l~G~PGsGKgT~a~~La~~~~~~his~ 62 (244)
T PLN02674 35 ILIGPPGSGKGTQSPIIKDEYCLCHLAT 62 (244)
T ss_pred EEECCCCCCHHHHHHHHHHHcCCcEEch
Confidence 3478999999999999999999888743
No 45
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=44.74 E-value=60 Score=29.18 Aligned_cols=46 Identities=20% Similarity=0.234 Sum_probs=32.5
Q ss_pred EEEEEe-eCCCCCCCCCcccccccee---EEEecCCCHHHHHHHHHHHHhh
Q psy9563 22 QFVAAM-AQPGGGRNDIPSRLKRQFC---IFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 22 ~~vaa~-~p~~~gr~~i~~Rl~r~f~---~~~~~~ps~~~l~~I~~~il~~ 68 (192)
++|.+. .+|.. -..+.+|+.++|. ++.+.+|+.+....|.......
T Consensus 229 ~iIitsd~~p~~-l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~~~ 278 (440)
T PRK14088 229 QIVICSDREPQK-LSEFQDRLVSRFQMGLVAKLEPPDEETRKKIARKMLEI 278 (440)
T ss_pred eEEEECCCCHHH-HHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHHHHHHh
Confidence 444444 34431 1135688888887 8999999999999998877653
No 46
>cd00733 GlyRS_alpha_core Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the attachment of glycine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. This alignment contains only sequences from the GlyRS form which heterotetramerizes. The homodimer form of GlyRS is in a different family of class II aaRS. Class II assignment is based upon structure and the presence of three characteristic sequence motifs.
Probab=43.86 E-value=30 Score=29.08 Aligned_cols=47 Identities=23% Similarity=0.393 Sum_probs=36.2
Q ss_pred EEEEEeeCCCCCCCCC-ccccccceeEEEecCCCHHHHHHHHHHHHhh
Q psy9563 22 QFVAAMAQPGGGRNDI-PSRLKRQFCIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 22 ~~vaa~~p~~~gr~~i-~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
-+|--+.-|+.||.-- |+||.+++..=.+-.|+.+.++.+|-.-|+.
T Consensus 50 AYVqPsrRP~DGRYGeNPNRLq~y~QfQViiKPsP~niQelYL~SL~~ 97 (279)
T cd00733 50 AYVEPSRRPTDGRYGENPNRLQHYYQFQVIIKPSPDNIQELYLESLEA 97 (279)
T ss_pred ccccCCCCCCCCCcCCCchhhhhheeeEEEECCCCccHHHHHHHHHHH
Confidence 3443444467788755 7999999998888899999999999777765
No 47
>PF08349 DUF1722: Protein of unknown function (DUF1722); InterPro: IPR013560 This domain of unknown function is found in bacteria and archaea and is homologous to the hypothetical protein ybgA from Escherichia coli.
Probab=43.52 E-value=65 Score=23.27 Aligned_cols=22 Identities=18% Similarity=0.285 Sum_probs=17.2
Q ss_pred HHHHHhhcCChhhHHHHHHHHHH
Q psy9563 148 TRVFSDRFTIMSDKHWFDDEVLN 170 (192)
Q Consensus 148 ~Rvf~DRLv~~~d~~~f~~~l~~ 170 (192)
.--|++++ +++||+.|.+++.+
T Consensus 59 ~Gyfk~~l-s~~EK~~~~~~i~~ 80 (117)
T PF08349_consen 59 FGYFKKKL-SSEEKQHFLDLIED 80 (117)
T ss_pred HHHHHHhC-CHHHHHHHHHHHHH
Confidence 44588887 68899999988754
No 48
>PF13124 DUF3963: Protein of unknown function (DUF3963)
Probab=42.67 E-value=12 Score=21.65 Aligned_cols=36 Identities=14% Similarity=0.254 Sum_probs=19.8
Q ss_pred HHHHHHHhhhhccCCCCCHHHHHHHHhHHHHHHHHH
Q psy9563 60 NIFSVIGEGHYNAKRGFPIEVRNLVKQLIPLTRLLW 95 (192)
Q Consensus 60 ~I~~~il~~~l~~~~~f~~~i~~~~~~lv~ati~ly 95 (192)
.||...++.+|...+++...+.-....+|-+.+.+|
T Consensus 3 ~i~~~fieryfddiqkwirnit~cfal~vv~lvslw 38 (40)
T PF13124_consen 3 YIYTAFIERYFDDIQKWIRNITFCFALLVVVLVSLW 38 (40)
T ss_pred eehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 577888887775433333344444444555555544
No 49
>PRK06620 hypothetical protein; Validated
Probab=41.53 E-value=35 Score=27.45 Aligned_cols=44 Identities=9% Similarity=0.024 Sum_probs=33.3
Q ss_pred eEEEEEeeCCCCCCCCCcccccccee---EEEecCCCHHHHHHHHHHHHh
Q psy9563 21 VQFVAAMAQPGGGRNDIPSRLKRQFC---IFNCVLPSDKAIDNIFSVIGE 67 (192)
Q Consensus 21 i~~vaa~~p~~~gr~~i~~Rl~r~f~---~~~~~~ps~~~l~~I~~~il~ 67 (192)
..+++|..+|. . ..+ ++|.+++. ++.+..|+.+.+..+......
T Consensus 115 ~ilits~~~p~-~-l~l-~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~ 161 (214)
T PRK06620 115 YLLLTSSDKSR-N-FTL-PDLSSRIKSVLSILLNSPDDELIKILIFKHFS 161 (214)
T ss_pred EEEEEcCCCcc-c-cch-HHHHHHHhCCceEeeCCCCHHHHHHHHHHHHH
Confidence 35566666665 2 246 89999999 999999999998887766654
No 50
>PLN02200 adenylate kinase family protein
Probab=40.76 E-value=8 Score=31.67 Aligned_cols=32 Identities=13% Similarity=0.216 Sum_probs=26.7
Q ss_pred eEEEEEeeCCCCCCCCCccccccceeEEEecC
Q psy9563 21 VQFVAAMAQPGGGRNDIPSRLKRQFCIFNCVL 52 (192)
Q Consensus 21 i~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~ 52 (192)
..++.-+++||.|+.+++.+|.+++.+.++..
T Consensus 43 ~~ii~I~G~PGSGKsT~a~~La~~~g~~his~ 74 (234)
T PLN02200 43 PFITFVLGGPGSGKGTQCEKIVETFGFKHLSA 74 (234)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHhCCeEEEc
Confidence 35778889999999999999999988777643
No 51
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=40.35 E-value=41 Score=32.68 Aligned_cols=46 Identities=24% Similarity=0.159 Sum_probs=39.5
Q ss_pred eecceEEEEEeeCCCCCCCCCccccccceeEEEecCCCHHHHHHHHHHHHh
Q psy9563 17 TLIDVQFVAAMAQPGGGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGE 67 (192)
Q Consensus 17 ~i~~i~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~ 67 (192)
.+.++.||||.|.- .|++.|+.++.++.+..++.+++..|....|.
T Consensus 462 dls~v~~i~TaN~~-----~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L~ 507 (784)
T PRK10787 462 DLSDVMFVATSNSM-----NIPAPLLDRMEVIRLSGYTEDEKLNIAKRHLL 507 (784)
T ss_pred cCCceEEEEcCCCC-----CCCHHHhcceeeeecCCCCHHHHHHHHHHhhh
Confidence 35789999987632 49999999999999999999999999988774
No 52
>CHL00176 ftsH cell division protein; Validated
Probab=40.25 E-value=1.2e+02 Score=28.78 Aligned_cols=46 Identities=22% Similarity=0.252 Sum_probs=34.7
Q ss_pred cceEEEEEeeCCCCCCCCCcccccc--ce-eEEEecCCCHHHHHHHHHHHHhh
Q psy9563 19 IDVQFVAAMAQPGGGRNDIPSRLKR--QF-CIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 19 ~~i~~vaa~~p~~~gr~~i~~Rl~r--~f-~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
.++.+|||.|.|. .+++.|+| .| +.+.++.|+.++...|+...++.
T Consensus 320 ~~ViVIaaTN~~~----~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~ 368 (638)
T CHL00176 320 KGVIVIAATNRVD----ILDAALLRPGRFDRQITVSLPDREGRLDILKVHARN 368 (638)
T ss_pred CCeeEEEecCchH----hhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhh
Confidence 3688999988763 45666665 22 57899999999999998887654
No 53
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=40.13 E-value=41 Score=30.38 Aligned_cols=48 Identities=25% Similarity=0.324 Sum_probs=37.4
Q ss_pred eecceEEEEEeeCCCCCCCCCcccccc--ce-eEEEecCCCHHHHHHHHHHHHhh
Q psy9563 17 TLIDVQFVAAMAQPGGGRNDIPSRLKR--QF-CIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 17 ~i~~i~~vaa~~p~~~gr~~i~~Rl~r--~f-~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
...+|.++||.|.|- .+++-++| .| .+++++.|+.++-..||...+..
T Consensus 375 ~~~~v~vi~aTN~p~----~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~ 425 (494)
T COG0464 375 KAEGVLVIAATNRPD----DLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRD 425 (494)
T ss_pred ccCceEEEecCCCcc----ccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcc
Confidence 456788999999875 44555555 44 48899999999999999888763
No 54
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=39.98 E-value=8.1 Score=27.31 Aligned_cols=26 Identities=15% Similarity=0.377 Sum_probs=20.8
Q ss_pred EEEeeCCCCCCCCCccccccceeEEE
Q psy9563 24 VAAMAQPGGGRNDIPSRLKRQFCIFN 49 (192)
Q Consensus 24 vaa~~p~~~gr~~i~~Rl~r~f~~~~ 49 (192)
|+-+++||.|+.++..+|..++...+
T Consensus 2 I~I~G~~gsGKST~a~~La~~~~~~~ 27 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAERLGFPV 27 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHTCEE
T ss_pred EEEECCCCCCHHHHHHHHHHHHCCeE
Confidence 56678999999999999999854333
No 55
>PRK14700 recombination factor protein RarA; Provisional
Probab=39.50 E-value=48 Score=28.45 Aligned_cols=47 Identities=11% Similarity=0.045 Sum_probs=39.8
Q ss_pred ceEEEEEeeCCCCCCCCCccccccceeEEEecCCCHHHHHHHHHHHHhh
Q psy9563 20 DVQFVAAMAQPGGGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 20 ~i~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
.|.+|||.+.+ -.+.|.+=|++..+|+.+...+.+++..|...-+..
T Consensus 8 ~i~LIGATTEN--P~f~vn~ALlSR~~v~~l~~L~~~di~~il~ral~~ 54 (300)
T PRK14700 8 KIILIGATTEN--PTYYLNDALVSRLFILRLKRLSLVATQKLIEKALSQ 54 (300)
T ss_pred cEEEEeecCCC--ccceecHhhhhhhheeeecCCCHHHHHHHHHHHHHh
Confidence 48899998641 136889999999999999999999999999888864
No 56
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=39.17 E-value=43 Score=28.08 Aligned_cols=45 Identities=11% Similarity=0.215 Sum_probs=35.1
Q ss_pred ceEEEEEeeCCCCCCCCCccccccceeEEEecCCCHHHHHHHHHHHHhh
Q psy9563 20 DVQFVAAMAQPGGGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 20 ~i~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
++.+|.+++.+ ..+.+.+.+++.++.++.|+.++...|...++..
T Consensus 131 ~~~~Ilt~n~~----~~l~~~l~sR~~~i~~~~p~~~~~~~il~~~~~~ 175 (316)
T PHA02544 131 NCSFIITANNK----NGIIEPLRSRCRVIDFGVPTKEEQIEMMKQMIVR 175 (316)
T ss_pred CceEEEEcCCh----hhchHHHHhhceEEEeCCCCHHHHHHHHHHHHHH
Confidence 56788888754 3678899999999999999998887776655443
No 57
>CHL00195 ycf46 Ycf46; Provisional
Probab=38.37 E-value=54 Score=30.03 Aligned_cols=46 Identities=28% Similarity=0.314 Sum_probs=36.0
Q ss_pred ceEEEEEeeCCCCCCCCCcccccc--ce-eEEEecCCCHHHHHHHHHHHHhhh
Q psy9563 20 DVQFVAAMAQPGGGRNDIPSRLKR--QF-CIFNCVLPSDKAIDNIFSVIGEGH 69 (192)
Q Consensus 20 ~i~~vaa~~p~~~gr~~i~~Rl~r--~f-~~~~~~~ps~~~l~~I~~~il~~~ 69 (192)
+|-+|||.|.|. .|++-++| .| .+++++.|+.++-..|+...+...
T Consensus 360 ~V~vIaTTN~~~----~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~ 408 (489)
T CHL00195 360 PVFVVATANNID----LLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKF 408 (489)
T ss_pred ceEEEEecCChh----hCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhc
Confidence 578889988663 56666665 44 588999999999999999888653
No 58
>COG4817 DNA-binding ferritin-like protein (Dps family) [General function prediction only]
Probab=38.03 E-value=1.1e+02 Score=22.11 Aligned_cols=89 Identities=12% Similarity=0.070 Sum_probs=48.5
Q ss_pred HHHHHHhHHHHHHHHHHHHHhhcCCCCCCcceEeehhhHHHHhhhhhcccccccCChHHHHHHHHHHHHHHHHhhcCChh
Q psy9563 80 VRNLVKQLIPLTRLLWKSTRAQLLPTPAKFHYVFSLRDLSRIWQGMVGTLSTVIDSEKVLMLLWKHEVTRVFSDRFTIMS 159 (192)
Q Consensus 80 i~~~~~~lv~ati~ly~~i~~~~~ptp~~~HY~Fnlrdl~r~~~gl~~~~~~~~~~~~~l~rlw~hE~~Rvf~DRLv~~~ 159 (192)
..+-+++|-.---..|+.|++.+- |.-++=+...+++.+++-.-.+...+...+..+.. +-.-.|+|-|+++.
T Consensus 18 ~e~RakkLPkdY~~aykeIqkYlw------~~g~t~~~~~~Il~~iLelfE~aaadgk~v~dv~G-dDvA~F~D~Ll~D~ 90 (111)
T COG4817 18 FENRAKKLPKDYYTAYKEIQKYLW------KSGPTGWNEMKILGNILELFEEAAADGKEVTDVLG-DDVATFCDALLGDY 90 (111)
T ss_pred HHHHHHHCcHHHHHHHHHHHHHHH------HcCcchhHHHHHHHHHHHHHHHHHhccccHHHHhc-chHHHHHHHHHcch
Confidence 345566777777788999988762 11123344445777776433222222222322222 23568999999987
Q ss_pred hHHHHHHHHHHHHHhhh
Q psy9563 160 DKHWFDDEVLNLVEQNL 176 (192)
Q Consensus 160 d~~~f~~~l~~~~~~~f 176 (192)
++. |.+--++.+++++
T Consensus 91 ~kt-w~dK~r~kLn~~v 106 (111)
T COG4817 91 EKT-WRDKYRSKLNKSV 106 (111)
T ss_pred HHH-HHHHHHHHHHHHH
Confidence 443 3344444555444
No 59
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=37.93 E-value=50 Score=28.11 Aligned_cols=47 Identities=15% Similarity=0.217 Sum_probs=35.9
Q ss_pred ecceEEEEEeeCCCCCCCCCccccccce-eEEEecCCCHHHHHHHHHHHHhh
Q psy9563 18 LIDVQFVAAMAQPGGGRNDIPSRLKRQF-CIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 18 i~~i~~vaa~~p~~~gr~~i~~Rl~r~f-~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
+.++.+|+|.++++ .+++.|.+.| .++.+++|+.+++..|.......
T Consensus 148 l~~~~li~at~~~~----~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~ 195 (328)
T PRK00080 148 LPPFTLIGATTRAG----LLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARI 195 (328)
T ss_pred CCCceEEeecCCcc----cCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHH
Confidence 34578888888654 4667777777 46899999999999999876654
No 60
>PF04622 ERG2_Sigma1R: ERG2 and Sigma1 receptor like protein; InterPro: IPR006716 This family consists of the fungal C-8 sterol isomerase and mammalian sigma1 receptor. C-8 sterol isomerase (delta-8--delta-7 sterol isomerase), catalyses a reaction in ergosterol biosynthesis, which results in unsaturation at C-7 in the B ring of sterols []. Sigma 1 receptor is a low molecular mass mammalian protein located in the endoplasmic reticulum [], which interacts with endogenous steroid hormones, such as progesterone and testosterone []. It also binds the sigma ligands, which are a set of chemically unrelated drugs including haloperidol, pentazocine, and ditolylguanidine []. Sigma1 effectors are not well understood, but sigma1 agonists have been observed to affect NMDA receptor function, the alpha-adrenergic system and opioid analgesia.; GO: 0000247 C-8 sterol isomerase activity, 0006696 ergosterol biosynthetic process, 0005783 endoplasmic reticulum
Probab=37.08 E-value=1e+02 Score=25.11 Aligned_cols=61 Identities=18% Similarity=0.334 Sum_probs=43.7
Q ss_pred HHHHhhcCCCCCCcceEeehhhHHHHhhhhhcccccccCChHHHHHHHHHHHHHHHHhhcCChhhHHH
Q psy9563 96 KSTRAQLLPTPAKFHYVFSLRDLSRIWQGMVGTLSTVIDSEKVLMLLWKHEVTRVFSDRFTIMSDKHW 163 (192)
Q Consensus 96 ~~i~~~~~ptp~~~HY~Fnlrdl~r~~~gl~~~~~~~~~~~~~l~rlw~hE~~Rvf~DRLv~~~d~~~ 163 (192)
..+...++| ..|+|++..|.++.+.-....+ .+....+.-..-|-.+.+.|.....+|.+|
T Consensus 18 ~~~~~~l~~----~~YiFdp~~l~~ia~~~ia~~~---~~~~~~~~~l~~~L~~~y~~~i~~~~~~~W 78 (216)
T PF04622_consen 18 YALQYWLLP----KSYIFDPKVLHEIAKKAIARHP---NDTEEILSDLVDELRKKYPDHILPSNDSEW 78 (216)
T ss_pred HHHHHHhcC----ccEEeCHHHHHHHHHHHHhhcC---CCHHHHHHHHHHHHHhHCCCCcCCCCCCce
Confidence 344444544 4799999999999975554332 456778888888888899996656667777
No 61
>KOG2035|consensus
Probab=36.89 E-value=1.2e+02 Score=26.19 Aligned_cols=47 Identities=13% Similarity=0.232 Sum_probs=36.5
Q ss_pred ecceEEEEEeeCCCCCCCCCccccccceeEEEecCCCHHHHHHHHHHHHhh
Q psy9563 18 LIDVQFVAAMAQPGGGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 18 i~~i~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
..++.+|-+||.-+ .|-+=+.+..-.+.++.|+++++..+.+.+++.
T Consensus 155 s~~~RlIl~cns~S----riIepIrSRCl~iRvpaps~eeI~~vl~~v~~k 201 (351)
T KOG2035|consen 155 SSNCRLILVCNSTS----RIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKK 201 (351)
T ss_pred hcCceEEEEecCcc----cchhHHhhheeEEeCCCCCHHHHHHHHHHHHHH
Confidence 45788898998432 344456677889999999999999999988854
No 62
>PRK08084 DNA replication initiation factor; Provisional
Probab=36.36 E-value=36 Score=27.59 Aligned_cols=45 Identities=13% Similarity=0.064 Sum_probs=32.7
Q ss_pred eEEEEEee-CCCCCCCCCccccccce---eEEEecCCCHHHHHHHHHHHH
Q psy9563 21 VQFVAAMA-QPGGGRNDIPSRLKRQF---CIFNCVLPSDKAIDNIFSVIG 66 (192)
Q Consensus 21 i~~vaa~~-p~~~gr~~i~~Rl~r~f---~~~~~~~ps~~~l~~I~~~il 66 (192)
.+++.|.+ ||. .=..+.++|.+++ .++.+.+|+.+++..|.....
T Consensus 132 ~~li~ts~~~p~-~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a 180 (235)
T PRK08084 132 TRLLITGDRPPR-QLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQLRA 180 (235)
T ss_pred CeEEEeCCCChH-HcCcccHHHHHHHhCCceeeecCCCHHHHHHHHHHHH
Confidence 45666554 443 2224579999999 799999999999999876533
No 63
>PRK08233 hypothetical protein; Provisional
Probab=35.88 E-value=14 Score=28.05 Aligned_cols=30 Identities=20% Similarity=0.427 Sum_probs=23.7
Q ss_pred EEEEEeeCCCCCCCCCcccccccee---EEEec
Q psy9563 22 QFVAAMAQPGGGRNDIPSRLKRQFC---IFNCV 51 (192)
Q Consensus 22 ~~vaa~~p~~~gr~~i~~Rl~r~f~---~~~~~ 51 (192)
.+|+-+++||+|+.++..+|..++. ++.++
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~~l~~~~~~~~d 36 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHKLKNSKALYFD 36 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhCCCCceEEEC
Confidence 5777788999999999999988774 44443
No 64
>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain. Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein
Probab=35.75 E-value=2e+02 Score=23.08 Aligned_cols=17 Identities=29% Similarity=0.216 Sum_probs=13.4
Q ss_pred CCCcceEeehhhHHHHh
Q psy9563 106 PAKFHYVFSLRDLSRIW 122 (192)
Q Consensus 106 p~~~HY~Fnlrdl~r~~ 122 (192)
..+|+..|-+||.+.-.
T Consensus 132 ~~~p~ll~vvRD~~~~~ 148 (224)
T cd01851 132 KPKPLLLFVVRDFSLDT 148 (224)
T ss_pred cCCCceEEEEecCcCCc
Confidence 45889999999987643
No 65
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=34.99 E-value=3.4e+02 Score=24.58 Aligned_cols=98 Identities=16% Similarity=0.155 Sum_probs=61.2
Q ss_pred eec--ceEEEEEeeCCCCCCCCCccccccceeEEEecCCCHHHHHHHHHHHHhhhhccCCCCC-------HHHHHHHHhH
Q psy9563 17 TLI--DVQFVAAMAQPGGGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEGHYNAKRGFP-------IEVRNLVKQL 87 (192)
Q Consensus 17 ~i~--~i~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~-------~~i~~~~~~l 87 (192)
.+| .|.+|||.+.+ -.+.|++=|++...|+.+.+-+.+++..+...-+.. ..++++ +++.+.+-.+
T Consensus 127 ~vE~G~iilIGATTEN--PsF~ln~ALlSR~~vf~lk~L~~~di~~~l~ra~~~---~~rgl~~~~~~i~~~a~~~l~~~ 201 (436)
T COG2256 127 HVENGTIILIGATTEN--PSFELNPALLSRARVFELKPLSSEDIKKLLKRALLD---EERGLGGQIIVLDEEALDYLVRL 201 (436)
T ss_pred hhcCCeEEEEeccCCC--CCeeecHHHhhhhheeeeecCCHHHHHHHHHHHHhh---hhcCCCcccccCCHHHHHHHHHh
Confidence 345 48888887531 237889999999999999999999999888762221 223444 4444333333
Q ss_pred ----HHHHHHHHHHHHhhcCCCCCCcceEeehhhHHHHhhh
Q psy9563 88 ----IPLTRLLWKSTRAQLLPTPAKFHYVFSLRDLSRIWQG 124 (192)
Q Consensus 88 ----v~ati~ly~~i~~~~~ptp~~~HY~Fnlrdl~r~~~g 124 (192)
+.+.+.+.+.+.....|. . .+++-++.+++|.
T Consensus 202 s~GD~R~aLN~LE~~~~~~~~~--~---~~~~~~l~~~l~~ 237 (436)
T COG2256 202 SNGDARRALNLLELAALSAEPD--E---VLILELLEEILQR 237 (436)
T ss_pred cCchHHHHHHHHHHHHHhcCCC--c---ccCHHHHHHHHhh
Confidence 334455554443333222 2 5667788887775
No 66
>PRK14531 adenylate kinase; Provisional
Probab=34.61 E-value=8.6 Score=29.87 Aligned_cols=28 Identities=18% Similarity=0.318 Sum_probs=23.4
Q ss_pred EEEeeCCCCCCCCCccccccceeEEEec
Q psy9563 24 VAAMAQPGGGRNDIPSRLKRQFCIFNCV 51 (192)
Q Consensus 24 vaa~~p~~~gr~~i~~Rl~r~f~~~~~~ 51 (192)
|.-++|||+|+.+++.+|.+.+.+.+++
T Consensus 5 i~i~G~pGsGKsT~~~~la~~~g~~~is 32 (183)
T PRK14531 5 LLFLGPPGAGKGTQAARLCAAHGLRHLS 32 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCCeEe
Confidence 4558899999999999999988776664
No 67
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=34.59 E-value=26 Score=29.46 Aligned_cols=50 Identities=8% Similarity=-0.068 Sum_probs=36.4
Q ss_pred cceEEEEEeeCCC-CCCCCCccccccce-eEEEecCCCHHHHHHHHHHHHhh
Q psy9563 19 IDVQFVAAMAQPG-GGRNDIPSRLKRQF-CIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 19 ~~i~~vaa~~p~~-~gr~~i~~Rl~r~f-~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
.++.+|+|..++. .--..++|-|.+.| ..+.+++++.+++..|+..+++.
T Consensus 159 ~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~~ 210 (284)
T TIGR02880 159 DDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLKE 210 (284)
T ss_pred CCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHHH
Confidence 4677888776532 11123467777777 47999999999999999988876
No 68
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=34.18 E-value=10 Score=27.60 Aligned_cols=28 Identities=18% Similarity=0.465 Sum_probs=22.1
Q ss_pred EEEEeeCCCCCCCCCccccccceeEEEe
Q psy9563 23 FVAAMAQPGGGRNDIPSRLKRQFCIFNC 50 (192)
Q Consensus 23 ~vaa~~p~~~gr~~i~~Rl~r~f~~~~~ 50 (192)
+|.-|+|||+|+.++..++.++.....+
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~~~~~~i 28 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKRLGAVVI 28 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHSTEEEE
T ss_pred CEEEECCCCCCHHHHHHHHHHHCCCEEE
Confidence 4567899999999999999877664444
No 69
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=33.95 E-value=19 Score=30.87 Aligned_cols=70 Identities=16% Similarity=0.238 Sum_probs=46.3
Q ss_pred CCCCCCCCCccccc-----------cceeEEEecCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHhHHHHHHHHHHH
Q psy9563 29 QPGGGRNDIPSRLK-----------RQFCIFNCVLPSDKAIDNIFSVIGEGHYNAKRGFPIEVRNLVKQLIPLTRLLWKS 97 (192)
Q Consensus 29 p~~~gr~~i~~Rl~-----------r~f~~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~~~i~~~~~~lv~ati~ly~~ 97 (192)
+++.|+..|-.||. ..+.|+++..|...+...+|.+||...... +... .-...+-+..+.+...
T Consensus 69 ~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP---~~~~--~~~~~~~~~~~~llr~ 143 (302)
T PF05621_consen 69 DSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAP---YRPR--DRVAKLEQQVLRLLRR 143 (302)
T ss_pred CCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcc---cCCC--CCHHHHHHHHHHHHHH
Confidence 34457766666666 345799999999999999999999886542 3221 1223444555667766
Q ss_pred HHhhcC
Q psy9563 98 TRAQLL 103 (192)
Q Consensus 98 i~~~~~ 103 (192)
+...++
T Consensus 144 ~~vrmL 149 (302)
T PF05621_consen 144 LGVRML 149 (302)
T ss_pred cCCcEE
Confidence 665554
No 70
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=33.84 E-value=66 Score=30.82 Aligned_cols=46 Identities=26% Similarity=0.400 Sum_probs=35.7
Q ss_pred ecceEEEEEeeCCCCCCCCCcccccc--ce-eEEEecCCCHHHHHHHHHHHHh
Q psy9563 18 LIDVQFVAAMAQPGGGRNDIPSRLKR--QF-CIFNCVLPSDKAIDNIFSVIGE 67 (192)
Q Consensus 18 i~~i~~vaa~~p~~~gr~~i~~Rl~r--~f-~~~~~~~ps~~~l~~I~~~il~ 67 (192)
-.++.+|||.|.|. .|++-++| .| .+++++.|+.++-..|+...++
T Consensus 588 ~~~v~vI~aTn~~~----~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~ 636 (733)
T TIGR01243 588 LSNVVVIAATNRPD----ILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTR 636 (733)
T ss_pred CCCEEEEEeCCChh----hCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhc
Confidence 35788999998764 56777765 44 5889999999999999976554
No 71
>PF11315 Med30: Mediator complex subunit 30; InterPro: IPR021019 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med30 is a metazoan-specific subunit of Mediator [], having no homologues in yeasts.
Probab=33.77 E-value=1.1e+02 Score=23.58 Aligned_cols=32 Identities=16% Similarity=0.294 Sum_probs=25.7
Q ss_pred HHHHHhHHHHHHHHHHHHHhhcCCCCCCcceE
Q psy9563 81 RNLVKQLIPLTRLLWKSTRAQLLPTPAKFHYV 112 (192)
Q Consensus 81 ~~~~~~lv~ati~ly~~i~~~~~ptp~~~HY~ 112 (192)
++.++.|++-|.++|+.++..-+|+....++.
T Consensus 10 QEtVQdIvsrt~elF~~lk~~QlPng~t~~~~ 41 (150)
T PF11315_consen 10 QETVQDIVSRTQELFQALKNPQLPNGSTQQQN 41 (150)
T ss_pred HHHHHHHHHHHHHHHHHHhcccCCCCccchhh
Confidence 56688889999999999998888886555544
No 72
>PRK13290 ectC L-ectoine synthase; Reviewed
Probab=33.50 E-value=51 Score=24.31 Aligned_cols=25 Identities=20% Similarity=0.268 Sum_probs=20.0
Q ss_pred CCCCeeeecceEEEEEeeCCCCCCC
Q psy9563 11 KPGEFTTLIDVQFVAAMAQPGGGRN 35 (192)
Q Consensus 11 ~~~~~~~i~~i~~vaa~~p~~~gr~ 35 (192)
....|++.++..++++++||.-|+.
T Consensus 91 ~~H~~~N~e~~~~l~v~tP~~~~~~ 115 (125)
T PRK13290 91 DRHYLRAGEDMRLVCVFNPPLTGRE 115 (125)
T ss_pred CcEEEEcCCCEEEEEEECCCCCCcc
Confidence 3567888899999999999877754
No 73
>PRK09087 hypothetical protein; Validated
Probab=32.80 E-value=2.3e+02 Score=22.80 Aligned_cols=46 Identities=13% Similarity=0.154 Sum_probs=33.1
Q ss_pred EEEEEeeCCCCCCCCCccccccce---eEEEecCCCHHHHHHHHHHHHhh
Q psy9563 22 QFVAAMAQPGGGRNDIPSRLKRQF---CIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 22 ~~vaa~~p~~~gr~~i~~Rl~r~f---~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
.+++|..+|.. -....++|.+++ .++.+..|+.+++..|.....+.
T Consensus 120 ilits~~~p~~-~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~~ 168 (226)
T PRK09087 120 LLMTSRLWPSS-WNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLFAD 168 (226)
T ss_pred EEEECCCChHH-hccccccHHHHHhCCceeecCCCCHHHHHHHHHHHHHH
Confidence 34444444431 123368888888 89999999999999999888765
No 74
>KOG4065|consensus
Probab=32.21 E-value=7.8 Score=28.73 Aligned_cols=20 Identities=45% Similarity=0.971 Sum_probs=16.0
Q ss_pred hhcCCCCCCcceEeehhhHHH
Q psy9563 100 AQLLPTPAKFHYVFSLRDLSR 120 (192)
Q Consensus 100 ~~~~ptp~~~HY~Fnlrdl~r 120 (192)
.++.|...++|| |||+|+.+
T Consensus 61 a~mtpeqlqfHY-F~MHDldk 80 (144)
T KOG4065|consen 61 AKMTPEQLQFHY-FSMHDLDK 80 (144)
T ss_pred hhCCHHHHhhhh-hhhhccCc
Confidence 467777788999 79999865
No 75
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=31.73 E-value=1.8e+02 Score=25.01 Aligned_cols=59 Identities=14% Similarity=-0.013 Sum_probs=38.8
Q ss_pred ceEEEEEeeCCCCCCCCCccccccce--eEEEecCCCHHHHHHHHHHHHhhhhccCCCCCHHH
Q psy9563 20 DVQFVAAMAQPGGGRNDIPSRLKRQF--CIFNCVLPSDKAIDNIFSVIGEGHYNAKRGFPIEV 80 (192)
Q Consensus 20 ~i~~vaa~~p~~~gr~~i~~Rl~r~f--~~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~~~i 80 (192)
++.+|++.+++.- ...+++|+.+.+ ..+.+++++.+++..|+...+..-+.. ..+.+++
T Consensus 173 ~v~vI~i~~~~~~-~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~-~~~~~~~ 233 (394)
T PRK00411 173 RIGVIGISSDLTF-LYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYP-GVVDDEV 233 (394)
T ss_pred eEEEEEEECCcch-hhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhccc-CCCCHhH
Confidence 6778888876531 112566665555 467899999999999998877644321 2355544
No 76
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=31.58 E-value=12 Score=29.33 Aligned_cols=28 Identities=14% Similarity=0.460 Sum_probs=22.9
Q ss_pred EEEeeCCCCCCCCCccccccceeEEEec
Q psy9563 24 VAAMAQPGGGRNDIPSRLKRQFCIFNCV 51 (192)
Q Consensus 24 vaa~~p~~~gr~~i~~Rl~r~f~~~~~~ 51 (192)
|.-++|||+|+.+.+.+|...+.+.+++
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hls 30 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLD 30 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEc
Confidence 3446789999999999999997777765
No 77
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=31.20 E-value=93 Score=26.90 Aligned_cols=45 Identities=24% Similarity=0.328 Sum_probs=34.3
Q ss_pred cceEEEEEeeCCCCCCCCCcccccc--ce-eEEEecCCCHHHHHHHHHHHHh
Q psy9563 19 IDVQFVAAMAQPGGGRNDIPSRLKR--QF-CIFNCVLPSDKAIDNIFSVIGE 67 (192)
Q Consensus 19 ~~i~~vaa~~p~~~gr~~i~~Rl~r--~f-~~~~~~~ps~~~l~~I~~~il~ 67 (192)
.++.+|+|.|.|. .+++.++| .| ..+.++.|+.++-..|+...+.
T Consensus 260 ~~v~vI~ttn~~~----~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~ 307 (364)
T TIGR01242 260 GNVKVIAATNRPD----ILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTR 307 (364)
T ss_pred CCEEEEEecCChh----hCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHh
Confidence 4788999998763 56666665 22 4789999999999999876654
No 78
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=30.85 E-value=1.7e+02 Score=25.66 Aligned_cols=32 Identities=19% Similarity=0.254 Sum_probs=26.9
Q ss_pred Ccccccccee---EEEecCCCHHHHHHHHHHHHhh
Q psy9563 37 IPSRLKRQFC---IFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 37 i~~Rl~r~f~---~~~~~~ps~~~l~~I~~~il~~ 68 (192)
+.+|+.+.|. ++.++.|+.++...|.....+.
T Consensus 249 l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~~~~ 283 (405)
T TIGR00362 249 LEERLRSRFEWGLVVDIEPPDLETRLAILQKKAEE 283 (405)
T ss_pred hhhhhhhhccCCeEEEeCCCCHHHHHHHHHHHHHH
Confidence 5688888884 7999999999999998887765
No 79
>PRK14532 adenylate kinase; Provisional
Probab=30.05 E-value=15 Score=28.43 Aligned_cols=28 Identities=14% Similarity=0.241 Sum_probs=23.5
Q ss_pred EEeeCCCCCCCCCccccccceeEEEecC
Q psy9563 25 AAMAQPGGGRNDIPSRLKRQFCIFNCVL 52 (192)
Q Consensus 25 aa~~p~~~gr~~i~~Rl~r~f~~~~~~~ 52 (192)
.-++|||+|+.+++.+|.+.+...+++.
T Consensus 4 ~~~G~pGsGKsT~a~~la~~~g~~~is~ 31 (188)
T PRK14532 4 ILFGPPAAGKGTQAKRLVEERGMVQLST 31 (188)
T ss_pred EEECCCCCCHHHHHHHHHHHcCCeEEeC
Confidence 3478899999999999999998877743
No 80
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=29.77 E-value=28 Score=26.53 Aligned_cols=34 Identities=15% Similarity=0.261 Sum_probs=27.2
Q ss_pred EEEEeeCCCCCCCCCccccccce-----eEEEecCCCHH
Q psy9563 23 FVAAMAQPGGGRNDIPSRLKRQF-----CIFNCVLPSDK 56 (192)
Q Consensus 23 ~vaa~~p~~~gr~~i~~Rl~r~f-----~~~~~~~ps~~ 56 (192)
+|+-.+++|+|+.++..+|..++ .++.+..|...
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~~~~~~ 40 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAERLEARGYEVVLTREPGGT 40 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCCCC
Confidence 56777899999999999998766 67778777753
No 81
>PRK06762 hypothetical protein; Provisional
Probab=29.54 E-value=18 Score=27.17 Aligned_cols=29 Identities=14% Similarity=0.368 Sum_probs=22.7
Q ss_pred EEEEEeeCCCCCCCCCccccccce--eEEEe
Q psy9563 22 QFVAAMAQPGGGRNDIPSRLKRQF--CIFNC 50 (192)
Q Consensus 22 ~~vaa~~p~~~gr~~i~~Rl~r~f--~~~~~ 50 (192)
.+|+-+++||.|+.++...|.+++ .++.+
T Consensus 3 ~li~i~G~~GsGKST~A~~L~~~l~~~~~~i 33 (166)
T PRK06762 3 TLIIIRGNSGSGKTTIAKQLQERLGRGTLLV 33 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhCCCeEEe
Confidence 456678999999999999998886 44444
No 82
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=29.43 E-value=80 Score=28.54 Aligned_cols=47 Identities=19% Similarity=0.171 Sum_probs=35.8
Q ss_pred ecceEEEEEeeCCCCCCCCCcccccc---ceeEEEecCCCHHHHHHHHHHHHhh
Q psy9563 18 LIDVQFVAAMAQPGGGRNDIPSRLKR---QFCIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 18 i~~i~~vaa~~p~~~gr~~i~~Rl~r---~f~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
-.++.+|+|.|.+ ..+++.++| .-..+.++.|+.++...|+...+..
T Consensus 320 ~~~V~VI~ATNr~----d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k 369 (438)
T PTZ00361 320 RGDVKVIMATNRI----ESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSK 369 (438)
T ss_pred cCCeEEEEecCCh----HHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhc
Confidence 3478899998855 356677764 3468999999999999999876643
No 83
>KOG0737|consensus
Probab=28.55 E-value=54 Score=29.07 Aligned_cols=45 Identities=24% Similarity=0.350 Sum_probs=37.7
Q ss_pred ceEEEEEeeCCCCCCCCCccccccce-eEEEecCCCHHHHHHHHHHHHhh
Q psy9563 20 DVQFVAAMAQPGGGRNDIPSRLKRQF-CIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 20 ~i~~vaa~~p~~~gr~~i~~Rl~r~f-~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
.|.++||-|-| .++..+.+|.+ +.++++-|+..+=..|+..+|+.
T Consensus 231 rVlVlgATNRP----~DlDeAiiRR~p~rf~V~lP~~~qR~kILkviLk~ 276 (386)
T KOG0737|consen 231 RVLVLGATNRP----FDLDEAIIRRLPRRFHVGLPDAEQRRKILKVILKK 276 (386)
T ss_pred eEEEEeCCCCC----ccHHHHHHHhCcceeeeCCCchhhHHHHHHHHhcc
Confidence 37888887765 58889988888 48999999999999999999864
No 84
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=28.44 E-value=38 Score=26.11 Aligned_cols=39 Identities=18% Similarity=0.313 Sum_probs=29.1
Q ss_pred EEEEEeeCCCCCCCCCcccccccee-----EEEecCCCHHHHHH
Q psy9563 22 QFVAAMAQPGGGRNDIPSRLKRQFC-----IFNCVLPSDKAIDN 60 (192)
Q Consensus 22 ~~vaa~~p~~~gr~~i~~Rl~r~f~-----~~~~~~ps~~~l~~ 60 (192)
.+|+-.+++|+|+.++..+|..++. ++.+..|....+..
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~l~~~g~~v~~~~~~~~~~~~~ 47 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKLLQENGYDVLFTREPGGTPIGE 47 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCCCChHHH
Confidence 4677788999999999999998874 56677776443333
No 85
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=28.06 E-value=91 Score=28.42 Aligned_cols=45 Identities=20% Similarity=0.250 Sum_probs=36.0
Q ss_pred ceEEEEEeeCCCCCCCCCccccccceeEEEecCCCHHHHHHHHHHHHhh
Q psy9563 20 DVQFVAAMAQPGGGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 20 ~i~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
.+.+|+|++.| ..+++++.+++.++.+.+++.+++..+...+.+.
T Consensus 147 ~vv~Ilattn~----~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~ 191 (472)
T PRK14962 147 HVVFVLATTNL----EKVPPTIISRCQVIEFRNISDELIIKRLQEVAEA 191 (472)
T ss_pred cEEEEEEeCCh----HhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHH
Confidence 46677666543 3688999999999999999999999888877653
No 86
>PRK08727 hypothetical protein; Validated
Probab=27.55 E-value=74 Score=25.72 Aligned_cols=48 Identities=10% Similarity=0.078 Sum_probs=33.0
Q ss_pred ceEEEEEeeCCCCCCCCCccccccc---eeEEEecCCCHHHHHHHHHHHHh
Q psy9563 20 DVQFVAAMAQPGGGRNDIPSRLKRQ---FCIFNCVLPSDKAIDNIFSVIGE 67 (192)
Q Consensus 20 ~i~~vaa~~p~~~gr~~i~~Rl~r~---f~~~~~~~ps~~~l~~I~~~il~ 67 (192)
+..+|.|++-+-..=..+.++|.++ ..++.++.|+.+++..|......
T Consensus 126 ~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~a~ 176 (233)
T PRK08727 126 GITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRERAQ 176 (233)
T ss_pred CCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHHHHH
Confidence 3456666653222222356788877 46899999999999999987543
No 87
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=27.39 E-value=73 Score=27.15 Aligned_cols=43 Identities=16% Similarity=0.220 Sum_probs=32.7
Q ss_pred ceEEEEEeeCC-CCCCCCCccccccce-eEEEecCCCHHHHHHHH
Q psy9563 20 DVQFVAAMAQP-GGGRNDIPSRLKRQF-CIFNCVLPSDKAIDNIF 62 (192)
Q Consensus 20 ~i~~vaa~~p~-~~gr~~i~~Rl~r~f-~~~~~~~ps~~~l~~I~ 62 (192)
...++||.||. ..|.+++++=+++.| -.+++++|..+....|.
T Consensus 154 ~f~viaT~Np~e~~g~~~l~eA~ldRf~~~~~v~yp~~~~e~~~i 198 (329)
T COG0714 154 PFIVIATQNPGEYEGTYPLPEALLDRFLLRIYVDYPDSEEEERII 198 (329)
T ss_pred CCEEEEccCccccCCCcCCCHHHHhhEEEEEecCCCCchHHHHHH
Confidence 56778888853 368899999999999 89999999555544433
No 88
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=27.22 E-value=20 Score=29.83 Aligned_cols=30 Identities=13% Similarity=0.297 Sum_probs=24.2
Q ss_pred EEEEEeeCCCCCCCCCccccccce-eEEEec
Q psy9563 22 QFVAAMAQPGGGRNDIPSRLKRQF-CIFNCV 51 (192)
Q Consensus 22 ~~vaa~~p~~~gr~~i~~Rl~r~f-~~~~~~ 51 (192)
.++.-+++||.|+.++..+|.+++ ....++
T Consensus 3 ~liil~G~pGSGKSTla~~L~~~~~~~~~l~ 33 (300)
T PHA02530 3 KIILTVGVPGSGKSTWAREFAAKNPKAVNVN 33 (300)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHHCCCCEEEe
Confidence 356668999999999999999988 666663
No 89
>PF04555 XhoI: Restriction endonuclease XhoI; InterPro: IPR007636 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents type II restriction enzymes such as XhoI (3.1.21.4 from EC), which recognises the double-stranded sequence CTCGAG and cleave after C-1 [].; GO: 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system
Probab=26.87 E-value=1.4e+02 Score=23.97 Aligned_cols=77 Identities=19% Similarity=0.361 Sum_probs=46.1
Q ss_pred cceecCCCCCCeeeecceEEEEEeeCCC-CCCCCCccccccceeEEEecCCCHHHHHHHHHHHHhhhhccCCCCCHHHHH
Q psy9563 4 KGFYSLEKPGEFTTLIDVQFVAAMAQPG-GGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEGHYNAKRGFPIEVRN 82 (192)
Q Consensus 4 ~g~Yd~~~~~~~~~i~~i~~vaa~~p~~-~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~~~i~~ 82 (192)
=|||...|......+.+=++|||+--.+ .| | +|.+...+
T Consensus 54 PGyfRptK~WDllVv~~g~LvAAiE~KSqvG-------------------p---------------------SFGNNfNN 93 (196)
T PF04555_consen 54 PGYFRPTKNWDLLVVYDGELVAAIEFKSQVG-------------------P---------------------SFGNNFNN 93 (196)
T ss_pred cccccccCcccEEEEECCcEEEEEEehhccC-------------------c---------------------cccCcccc
Confidence 4899887766666777889999986433 22 1 12222223
Q ss_pred HHHhHHHHHHHHHHHHHhhcCCCCCC--cceEeehhhHHH
Q psy9563 83 LVKQLIPLTRLLWKSTRAQLLPTPAK--FHYVFSLRDLSR 120 (192)
Q Consensus 83 ~~~~lv~ati~ly~~i~~~~~ptp~~--~HY~Fnlrdl~r 120 (192)
-.+..+.+..+++...++.......+ .-|.|=+.|=.+
T Consensus 94 RtEEAlGsA~Dl~tA~reg~fg~~~~P~lGylml~Ed~p~ 133 (196)
T PF04555_consen 94 RTEEALGSATDLWTAYREGAFGKSPRPWLGYLMLVEDCPE 133 (196)
T ss_pred hhHHhhccHHHHHHHHHhcccCCCCCCeeEEEEEEeeccc
Confidence 34455677888998888765444335 346655544333
No 90
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=26.69 E-value=1.2e+02 Score=27.06 Aligned_cols=46 Identities=15% Similarity=0.166 Sum_probs=33.1
Q ss_pred EEEEEeeCCCCCCCCCccccccce---eEEEecCCCHHHHHHHHHHHHhh
Q psy9563 22 QFVAAMAQPGGGRNDIPSRLKRQF---CIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 22 ~~vaa~~p~~~gr~~i~~Rl~r~f---~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
.+++|-.+|.. -..+.+||.+.| .++.+..|+.+....|.......
T Consensus 247 iiits~~~p~~-l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~~~ 295 (450)
T PRK00149 247 IVLTSDRPPKE-LPGLEERLRSRFEWGLTVDIEPPDLETRIAILKKKAEE 295 (450)
T ss_pred EEEECCCCHHH-HHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHHHHHH
Confidence 34444445531 112678999888 48999999999999999888764
No 91
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=26.51 E-value=18 Score=27.73 Aligned_cols=28 Identities=18% Similarity=0.482 Sum_probs=22.8
Q ss_pred EEEeeCCCCCCCCCccccccceeEEEec
Q psy9563 24 VAAMAQPGGGRNDIPSRLKRQFCIFNCV 51 (192)
Q Consensus 24 vaa~~p~~~gr~~i~~Rl~r~f~~~~~~ 51 (192)
|.-+++||.|+.+++.+|..++.+.++.
T Consensus 2 I~i~G~pGsGKst~a~~La~~~~~~~i~ 29 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKKYGLPHIS 29 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCeEEE
Confidence 3456789999999999999988777765
No 92
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=26.12 E-value=16 Score=28.95 Aligned_cols=27 Identities=15% Similarity=0.433 Sum_probs=22.0
Q ss_pred EEeeCCCCCCCCCccccccceeEEEec
Q psy9563 25 AAMAQPGGGRNDIPSRLKRQFCIFNCV 51 (192)
Q Consensus 25 aa~~p~~~gr~~i~~Rl~r~f~~~~~~ 51 (192)
.-++|||+|+.+++.+|...+.+.++.
T Consensus 3 ~i~G~pGsGKsT~a~~La~~~g~~~is 29 (210)
T TIGR01351 3 VLLGPPGSGKGTQAKRIAEKYGLPHIS 29 (210)
T ss_pred EEECCCCCCHHHHHHHHHHHcCCCeee
Confidence 346889999999999999888766664
No 93
>PRK14530 adenylate kinase; Provisional
Probab=26.00 E-value=16 Score=29.04 Aligned_cols=27 Identities=22% Similarity=0.498 Sum_probs=22.7
Q ss_pred EEEeeCCCCCCCCCccccccceeEEEe
Q psy9563 24 VAAMAQPGGGRNDIPSRLKRQFCIFNC 50 (192)
Q Consensus 24 vaa~~p~~~gr~~i~~Rl~r~f~~~~~ 50 (192)
|+-++|||+|+.++..+|.+++.+.++
T Consensus 6 I~i~G~pGsGKsT~~~~La~~~~~~~i 32 (215)
T PRK14530 6 ILLLGAPGAGKGTQSSNLAEEFGVEHV 32 (215)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence 344789999999999999999887666
No 94
>PTZ00111 DNA replication licensing factor MCM4; Provisional
Probab=25.10 E-value=1.2e+02 Score=30.06 Aligned_cols=49 Identities=12% Similarity=0.057 Sum_probs=33.1
Q ss_pred ceEEEEEeeCCCC---------CCCCCccccccceeEE--EecCCCHHHHHHHHHHHHhh
Q psy9563 20 DVQFVAAMAQPGG---------GRNDIPSRLKRQFCIF--NCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 20 ~i~~vaa~~p~~~---------gr~~i~~Rl~r~f~~~--~~~~ps~~~l~~I~~~il~~ 68 (192)
++.+|||+||..| +...+++-|+++|-++ .++.|+.+.=..|-..+++.
T Consensus 600 r~rVIAAaNP~~gryd~~~s~~eni~Lp~~LLSRFDLIf~l~D~~d~~~D~~lA~hI~~~ 659 (915)
T PTZ00111 600 ETAILASCNPINSRYNKNKAVIENINISPSLFTRFDLIYLVLDHIDQDTDQLISLSIAKD 659 (915)
T ss_pred CeEEEEEcCCcccccCcccCcccccCCChHHhhhhcEEEEecCCCChHHHHHHHHHHHHh
Confidence 7999999998532 3457788899999554 45666655544455555543
No 95
>CHL00095 clpC Clp protease ATP binding subunit
Probab=24.96 E-value=46 Score=32.43 Aligned_cols=48 Identities=17% Similarity=0.116 Sum_probs=37.6
Q ss_pred ceEEEEEeeCCCCCC-CCCccccccceeEEEecCCCHHHHHHHHHHHHh
Q psy9563 20 DVQFVAAMAQPGGGR-NDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGE 67 (192)
Q Consensus 20 ~i~~vaa~~p~~~gr-~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~ 67 (192)
++++|||++++..-+ ....+-|.|.|..+.++.|+.++...|...+..
T Consensus 307 ~l~~IgaTt~~ey~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l~~ 355 (821)
T CHL00095 307 ELQCIGATTLDEYRKHIEKDPALERRFQPVYVGEPSVEETIEILFGLRS 355 (821)
T ss_pred CcEEEEeCCHHHHHHHHhcCHHHHhcceEEecCCCCHHHHHHHHHHHHH
Confidence 489999998754222 245788999999999999999998888876543
No 96
>PF15391 DUF4614: Domain of unknown function (DUF4614)
Probab=24.90 E-value=2.5e+02 Score=22.34 Aligned_cols=38 Identities=26% Similarity=0.391 Sum_probs=28.2
Q ss_pred HHHHhHHHHHHHHHHHHHhhcCCCCCCcceEeehhhHHHHh
Q psy9563 82 NLVKQLIPLTRLLWKSTRAQLLPTPAKFHYVFSLRDLSRIW 122 (192)
Q Consensus 82 ~~~~~lv~ati~ly~~i~~~~~ptp~~~HY~Fnlrdl~r~~ 122 (192)
.+.+..+.++-.|+..+...+- +..+||. +|-|-...+
T Consensus 138 ~LTqqFve~sr~LH~Sll~SL~--~~~~hY~-TLEetKeyI 175 (181)
T PF15391_consen 138 SLTQQFVEASRHLHQSLLQSLD--ADSFHYH-TLEETKEYI 175 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHhcC--CCCccee-eHHHHHHHH
Confidence 4567788899999999998885 3578997 665554443
No 97
>PLN02459 probable adenylate kinase
Probab=24.36 E-value=34 Score=28.75 Aligned_cols=26 Identities=23% Similarity=0.404 Sum_probs=22.5
Q ss_pred eeCCCCCCCCCccccccceeEEEecC
Q psy9563 27 MAQPGGGRNDIPSRLKRQFCIFNCVL 52 (192)
Q Consensus 27 ~~p~~~gr~~i~~Rl~r~f~~~~~~~ 52 (192)
++|||.|+.+++.+|...+.+.++..
T Consensus 35 ~G~PGsGK~T~a~~la~~~~~~~is~ 60 (261)
T PLN02459 35 LGCPGVGKGTYASRLSKLLGVPHIAT 60 (261)
T ss_pred ECCCCCCHHHHHHHHHHHhCCcEEeC
Confidence 68999999999999999988777744
No 98
>PRK08356 hypothetical protein; Provisional
Probab=24.29 E-value=27 Score=27.31 Aligned_cols=30 Identities=17% Similarity=0.543 Sum_probs=21.4
Q ss_pred EEEEEeeCCCCCCCCCccccccc-eeEEEec
Q psy9563 22 QFVAAMAQPGGGRNDIPSRLKRQ-FCIFNCV 51 (192)
Q Consensus 22 ~~vaa~~p~~~gr~~i~~Rl~r~-f~~~~~~ 51 (192)
.+++-++|||+|+.+++.+|... |.++...
T Consensus 6 ~~i~~~G~~gsGK~t~a~~l~~~g~~~is~~ 36 (195)
T PRK08356 6 MIVGVVGKIAAGKTTVAKFFEEKGFCRVSCS 36 (195)
T ss_pred EEEEEECCCCCCHHHHHHHHHHCCCcEEeCC
Confidence 46778899999999999998542 3344443
No 99
>PRK10865 protein disaggregation chaperone; Provisional
Probab=24.28 E-value=60 Score=31.88 Aligned_cols=48 Identities=19% Similarity=0.127 Sum_probs=36.9
Q ss_pred ceEEEEEeeCCCCC-CCCCccccccceeEEEecCCCHHHHHHHHHHHHh
Q psy9563 20 DVQFVAAMAQPGGG-RNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGE 67 (192)
Q Consensus 20 ~i~~vaa~~p~~~g-r~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~ 67 (192)
++++|||.+++..- -..+++=|.|+|..+.++.|+.++...|...+..
T Consensus 307 ~l~~IgaTt~~e~r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~~ 355 (857)
T PRK10865 307 ELHCVGATTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLKE 355 (857)
T ss_pred CCeEEEcCCCHHHHHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHhh
Confidence 58899998876421 1346777889998999999999999988876543
No 100
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=23.78 E-value=2.1e+02 Score=25.83 Aligned_cols=33 Identities=15% Similarity=0.098 Sum_probs=28.8
Q ss_pred CCcccccccee---EEEecCCCHHHHHHHHHHHHhh
Q psy9563 36 DIPSRLKRQFC---IFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 36 ~i~~Rl~r~f~---~~~~~~ps~~~l~~I~~~il~~ 68 (192)
.+.+||.++|. ++.+.+|+.++...|....++.
T Consensus 255 ~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~ 290 (450)
T PRK14087 255 GFDNRLITRFNMGLSIAIQKLDNKTATAIIKKEIKN 290 (450)
T ss_pred hccHHHHHHHhCCceeccCCcCHHHHHHHHHHHHHh
Confidence 56799999996 8899999999999999887764
No 101
>CHL00181 cbbX CbbX; Provisional
Probab=23.48 E-value=52 Score=27.73 Aligned_cols=50 Identities=10% Similarity=-0.017 Sum_probs=34.2
Q ss_pred cceEEEEEeeCCC-CCCCCCcccccccee-EEEecCCCHHHHHHHHHHHHhh
Q psy9563 19 IDVQFVAAMAQPG-GGRNDIPSRLKRQFC-IFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 19 ~~i~~vaa~~p~~-~gr~~i~~Rl~r~f~-~~~~~~ps~~~l~~I~~~il~~ 68 (192)
.++.+|+|..+.. .--..++|-|.|.|. .+.+++++.+++..|+..+++.
T Consensus 160 ~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~~ 211 (287)
T CHL00181 160 DDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIMLEE 211 (287)
T ss_pred CCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHHHH
Confidence 3567777754321 000123466777775 7999999999999999998875
No 102
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=22.95 E-value=1.9e+02 Score=27.25 Aligned_cols=46 Identities=15% Similarity=0.124 Sum_probs=34.0
Q ss_pred ceEEEEEeeCCCCCCCCCccccccceeEEEecCCCHHHHHHHHHHHHhh
Q psy9563 20 DVQFVAAMAQPGGGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGEG 68 (192)
Q Consensus 20 ~i~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~~ 68 (192)
++.+++|.+.. ...+++.|.+++..+.+++.+.+++..|....+..
T Consensus 323 ~~VLI~aTt~~---~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~ 368 (615)
T TIGR02903 323 DFVLIGATTRD---PEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEK 368 (615)
T ss_pred eEEEEEecccc---ccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHH
Confidence 35555554431 12567888888999999999999999999887764
No 103
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=22.73 E-value=1.9e+02 Score=25.55 Aligned_cols=49 Identities=10% Similarity=-0.003 Sum_probs=35.9
Q ss_pred ceEEEEEeeCCCC-CC--CCCccccccceeEEEecCCCHHHHH-HHHHHHHhh
Q psy9563 20 DVQFVAAMAQPGG-GR--NDIPSRLKRQFCIFNCVLPSDKAID-NIFSVIGEG 68 (192)
Q Consensus 20 ~i~~vaa~~p~~~-gr--~~i~~Rl~r~f~~~~~~~ps~~~l~-~I~~~il~~ 68 (192)
|..+||++|+.-. .+ ....+=|++.+..+.+++|..-+.+ .||...+..
T Consensus 277 d~liia~sNe~e~~~~~~~k~~eaf~dR~~~i~vpY~l~~~~E~~Iy~k~~~~ 329 (361)
T smart00763 277 DGLIIAHSNESEWQRFKSNKKNEALLDRIIKVKVPYCLRVSEEAQIYEKLLRN 329 (361)
T ss_pred ceEEEEeCCHHHHhhhhccccchhhhhceEEEeCCCcCCHHHHHHHHHHHhcc
Confidence 5688999998631 11 1336889999999999999864444 599988864
No 104
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=22.59 E-value=18 Score=34.06 Aligned_cols=25 Identities=32% Similarity=0.591 Sum_probs=20.3
Q ss_pred EEEEEeeCCCCCCCCCcccccccee
Q psy9563 22 QFVAAMAQPGGGRNDIPSRLKRQFC 46 (192)
Q Consensus 22 ~~vaa~~p~~~gr~~i~~Rl~r~f~ 46 (192)
.++|.|+|||.|+.++=..|.|.|+
T Consensus 70 fIvavvGPpGtGKsTLirSlVrr~t 94 (1077)
T COG5192 70 FIVAVVGPPGTGKSTLIRSLVRRFT 94 (1077)
T ss_pred eEEEeecCCCCChhHHHHHHHHHHH
Confidence 5789999999998888777777664
No 105
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=21.69 E-value=27 Score=26.56 Aligned_cols=25 Identities=12% Similarity=0.169 Sum_probs=20.8
Q ss_pred EEEEEeeCCCCCCCCCcccccccee
Q psy9563 22 QFVAAMAQPGGGRNDIPSRLKRQFC 46 (192)
Q Consensus 22 ~~vaa~~p~~~gr~~i~~Rl~r~f~ 46 (192)
++++-++|+|.|+.++...|.+.+.
T Consensus 2 ~ii~l~G~~GsGKsTl~~~L~~~~~ 26 (180)
T TIGR03263 2 LLIVISGPSGVGKSTLVKALLEEDP 26 (180)
T ss_pred cEEEEECCCCCCHHHHHHHHHccCc
Confidence 3677889999999999988888764
No 106
>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]
Probab=21.58 E-value=36 Score=27.86 Aligned_cols=28 Identities=18% Similarity=0.361 Sum_probs=24.8
Q ss_pred cceEEEEEeeCCCCCCCCCcccccccee
Q psy9563 19 IDVQFVAAMAQPGGGRNDIPSRLKRQFC 46 (192)
Q Consensus 19 ~~i~~vaa~~p~~~gr~~i~~Rl~r~f~ 46 (192)
+.+-+||-.+++|+|+.+++.++...|.
T Consensus 6 ~~~iiIgIaG~SgSGKTTva~~l~~~~~ 33 (218)
T COG0572 6 EKVIIIGIAGGSGSGKTTVAKELSEQLG 33 (218)
T ss_pred CceEEEEEeCCCCCCHHHHHHHHHHHhC
Confidence 5678899999889999999999999987
No 107
>KOG3308|consensus
Probab=21.10 E-value=90 Score=25.55 Aligned_cols=108 Identities=11% Similarity=0.129 Sum_probs=59.7
Q ss_pred EEEEEeeCCCCCCCCCccccccce---eEEEecCC--CHHHHHHHHHHHHhhhhccCCC---CCHHHHHHHHh------H
Q psy9563 22 QFVAAMAQPGGGRNDIPSRLKRQF---CIFNCVLP--SDKAIDNIFSVIGEGHYNAKRG---FPIEVRNLVKQ------L 87 (192)
Q Consensus 22 ~~vaa~~p~~~gr~~i~~Rl~r~f---~~~~~~~p--s~~~l~~I~~~il~~~l~~~~~---f~~~i~~~~~~------l 87 (192)
-+||-.+-..+|+.+|..-|.|+| ++|+-+.. .++++...++.+..+.+.+... |.+.+.-.+.. .
T Consensus 5 ~ivgiSG~TnsGKTTLak~l~~~f~~~~lIhqDDFyKp~~Ei~v~~~n~~~wd~~esLdm~~fl~~ia~~l~~~~~~~~a 84 (225)
T KOG3308|consen 5 LIVGISGCTNSGKTTLAKSLHRFFPGCSLIHQDDFYKPENEIEVDYNNIDNWDLLESLDMEKFLEKIATWLDSRHNAPEA 84 (225)
T ss_pred EEEEeecccCCCHhHHHHHHHHHccCCeeeccccccCchhhhhcccCCcchhcchhhhhHHHHHHHHHHHhcCccccchH
Confidence 344444444589999998888888 45555443 3566666776555554432111 11111100000 1
Q ss_pred HHH--HHHHHHHHHhhcCCCCCCcceE-------eehhhHHHHhhhhhccc
Q psy9563 88 IPL--TRLLWKSTRAQLLPTPAKFHYV-------FSLRDLSRIWQGMVGTL 129 (192)
Q Consensus 88 v~a--ti~ly~~i~~~~~ptp~~~HY~-------Fnlrdl~r~~~gl~~~~ 129 (192)
-.+ +.+.+....+++.+...+.||+ ||..++...++...+..
T Consensus 85 r~~~v~~~~~~~~~~~~q~~~~~~~iviidGfmiy~y~p~~~~~d~~im~~ 135 (225)
T KOG3308|consen 85 REHLVSYANFEHYAQQFQIKAYKNHIVIIDGFMIYNYKPQVDLFDRIIMLT 135 (225)
T ss_pred hhhhhhhhHHHHHhhhcCcccccCcEEEEecceEEecchhhhhhhhheeee
Confidence 111 2234556666776666778874 78888888877655443
No 108
>cd05129 RasGAP_RAP6 Rab5-activating protein 6 (RAP6) is an endosomal protein with a role in the regulation of receptor-mediated endocytosis. RAP6 contains a Vps9 domain, which is involved in the activation of Rab5, and a Ras GAP domain (RGD). Rab5 is a small GTPase required for the control of the endocystic route, and its activity is regulated by guanine nucleotide exchange factor, such as Rabex5, and GAPs, such as RN-tre. Human Rap6 protein is localized on the plasma membrane and on the endosome. RAP6 binds to Rab5 and Ras through the Vps9 and RGD domains, respectively.
Probab=20.92 E-value=3.5e+02 Score=23.74 Aligned_cols=104 Identities=15% Similarity=0.139 Sum_probs=58.3
Q ss_pred HHHHHHHHHHHhhhhccCCCCCHHHHHHHHhHHHHHHHHHH--------HHHh-----hcCCC-------------CCCc
Q psy9563 56 KAIDNIFSVIGEGHYNAKRGFPIEVRNLVKQLIPLTRLLWK--------STRA-----QLLPT-------------PAKF 109 (192)
Q Consensus 56 ~~l~~I~~~il~~~l~~~~~f~~~i~~~~~~lv~ati~ly~--------~i~~-----~~~pt-------------p~~~ 109 (192)
..|..|.+.++.+.......+|..++-++..+-++..+-|. -|.. -+.|- |-..
T Consensus 163 ~~L~~i~~~Fl~~I~~S~~~~PyglR~Ick~i~~~L~~kfp~~~~ei~~~VG~~iflRfi~PAIVsPe~~gIvd~~~is~ 242 (353)
T cd05129 163 AKLVALVNKFIGSLKQNTYCFPPSLRWIVSQMSKILSKVGRLESGEVRAMCTDLLFTCFICPAIVNPEQYGIIDDAPISE 242 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhchhcCChhhcCCCCCCCCCH
Confidence 34455555555555443345777776666655544333221 1111 01111 1233
Q ss_pred ceEeehhhHHHHhhhhhcccccccCCh-HHHHHHHHHHHHHHHHhhcCChh
Q psy9563 110 HYVFSLRDLSRIWQGMVGTLSTVIDSE-KVLMLLWKHEVTRVFSDRFTIMS 159 (192)
Q Consensus 110 HY~Fnlrdl~r~~~gl~~~~~~~~~~~-~~l~rlw~hE~~Rvf~DRLv~~~ 159 (192)
.-..||--|+|++|.+..-+..+..+. ...+.-|-+|+.+.|-|.+++..
T Consensus 243 ~~RrNL~~IAKvLQ~lA~~~~~~~~~~~m~~ln~~~~~~~~~fl~~~~d~~ 293 (353)
T cd05129 243 VARFNLMQVGQILQMLALNKFESPDPRYKDILLKFDKDCVAAFLDVLIDGL 293 (353)
T ss_pred HHHHhHHHHHHHHHHHHcCCccCCccHHHHHHhhhhHHHHHHHHHHHHhcc
Confidence 456888899999999987554322211 23456789999999988776543
No 109
>PRK04132 replication factor C small subunit; Provisional
Probab=20.80 E-value=1.5e+02 Score=29.21 Aligned_cols=45 Identities=20% Similarity=0.297 Sum_probs=37.3
Q ss_pred cceEEEEEeeCCCCCCCCCccccccceeEEEecCCCHHHHHHHHHHHHh
Q psy9563 19 IDVQFVAAMAQPGGGRNDIPSRLKRQFCIFNCVLPSDKAIDNIFSVIGE 67 (192)
Q Consensus 19 ~~i~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~ps~~~l~~I~~~il~ 67 (192)
.++.||.+||++. .|.+-+.+++.++.+.+|+.+++..+...+..
T Consensus 659 ~~~~FILi~N~~~----kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~ 703 (846)
T PRK04132 659 SNVRFILSCNYSS----KIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAE 703 (846)
T ss_pred CCeEEEEEeCChh----hCchHHhhhceEEeCCCCCHHHHHHHHHHHHH
Confidence 4789999999874 56677888999999999999999887776654
No 110
>COG4016 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.78 E-value=74 Score=24.25 Aligned_cols=30 Identities=30% Similarity=0.307 Sum_probs=22.9
Q ss_pred ccceecCCCCCCeeeecceEEEEEeeCCC-CC
Q psy9563 3 MKGFYSLEKPGEFTTLIDVQFVAAMAQPG-GG 33 (192)
Q Consensus 3 ~~g~Yd~~~~~~~~~i~~i~~vaa~~p~~-~g 33 (192)
|-|+|... .+.|+-..||.+||||=.|+ .|
T Consensus 26 Y~g~~~~~-~~~~~l~~~V~vvaa~FiPtisG 56 (165)
T COG4016 26 YEGFEFKY-LFSLKLMKNVRVVAAMFIPTISG 56 (165)
T ss_pred CCCchhhh-heeeeeccceEEEEEeecchhHh
Confidence 55666642 46788888999999999887 45
No 111
>KOG0740|consensus
Probab=20.77 E-value=91 Score=28.19 Aligned_cols=46 Identities=15% Similarity=0.252 Sum_probs=35.4
Q ss_pred ceEEEEEeeCCCCCCCCCccccccce-eEEEecCCCHHHHHHHHHHHHhhh
Q psy9563 20 DVQFVAAMAQPGGGRNDIPSRLKRQF-CIFNCVLPSDKAIDNIFSVIGEGH 69 (192)
Q Consensus 20 ~i~~vaa~~p~~~gr~~i~~Rl~r~f-~~~~~~~ps~~~l~~I~~~il~~~ 69 (192)
+|.++||-|.|- .++.=+.|.| ..++++-|+.++-..|...+|+.+
T Consensus 290 rvlvigaTN~P~----e~Dea~~Rrf~kr~yiplPd~etr~~~~~~ll~~~ 336 (428)
T KOG0740|consen 290 RVLVIGATNRPW----ELDEAARRRFVKRLYIPLPDYETRSLLWKQLLKEQ 336 (428)
T ss_pred eEEEEecCCCch----HHHHHHHHHhhceeeecCCCHHHHHHHHHHHHHhC
Confidence 688999998874 3443344444 478899999999999999999875
No 112
>PF01763 Herpes_UL6: Herpesvirus UL6 like; InterPro: IPR002660 This family consists of various proteins from the Herpesviridae that are similar to Human herpesvirus 1 (HHV-1) UL6 virion protein. UL6 is essential for cleavage and packaging of the viral genome [].; GO: 0006323 DNA packaging
Probab=20.47 E-value=68 Score=29.97 Aligned_cols=29 Identities=31% Similarity=0.465 Sum_probs=23.1
Q ss_pred ChHHHHHHHHHHHHHHHH-hhcCChhhHHH
Q psy9563 135 SEKVLMLLWKHEVTRVFS-DRFTIMSDKHW 163 (192)
Q Consensus 135 ~~~~l~rlw~hE~~Rvf~-DRLv~~~d~~~ 163 (192)
+.+.|-+||-||-.|.|. -|.++.+-++.
T Consensus 465 ~~~rLs~LWE~El~RtFKL~r~vnNQGqe~ 494 (557)
T PF01763_consen 465 DEKRLSRLWEQELFRTFKLRRVVNNQGQEV 494 (557)
T ss_pred HHHHHHHHHHHHHHHHcccccccCCCCceE
Confidence 456789999999999998 67777666654
No 113
>PRK13975 thymidylate kinase; Provisional
Probab=20.44 E-value=44 Score=25.72 Aligned_cols=37 Identities=22% Similarity=0.359 Sum_probs=27.2
Q ss_pred EEEEEeeCCCCCCCCCccccccceeEEEecCCCHHHH
Q psy9563 22 QFVAAMAQPGGGRNDIPSRLKRQFCIFNCVLPSDKAI 58 (192)
Q Consensus 22 ~~vaa~~p~~~gr~~i~~Rl~r~f~~~~~~~ps~~~l 58 (192)
.+|+-.+++|.|+.++..+|...+.......|++..+
T Consensus 3 ~~I~ieG~~GsGKtT~~~~L~~~l~~~~~~~~~~~~~ 39 (196)
T PRK13975 3 KFIVFEGIDGSGKTTQAKLLAEKLNAFWTCEPTDGKI 39 (196)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhCCCeeECCCCChH
Confidence 3677788999999999999998887544445654333
No 114
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=20.36 E-value=3.1e+02 Score=21.90 Aligned_cols=47 Identities=13% Similarity=0.255 Sum_probs=27.2
Q ss_pred EEEEEe-eCCCCCCCCCcccccccee---EEEecCCCHHHHHHHHHHHHhhh
Q psy9563 22 QFVAAM-AQPGGGRNDIPSRLKRQFC---IFNCVLPSDKAIDNIFSVIGEGH 69 (192)
Q Consensus 22 ~~vaa~-~p~~~gr~~i~~Rl~r~f~---~~~~~~ps~~~l~~I~~~il~~~ 69 (192)
++|.|. .+|.. -..+.+||.+.+. ++.+..|+.++...|........
T Consensus 132 ~li~ts~~~P~~-l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~ 182 (219)
T PF00308_consen 132 QLILTSDRPPSE-LSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKER 182 (219)
T ss_dssp EEEEEESS-TTT-TTTS-HHHHHHHHCSEEEEE----HHHHHHHHHHHHHHT
T ss_pred eEEEEeCCCCcc-ccccChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHHh
Confidence 444444 45542 1236777777664 89999999999999988777653
No 115
>PLN03060 inositol phosphatase-like protein; Provisional
Probab=20.14 E-value=4e+02 Score=21.60 Aligned_cols=111 Identities=18% Similarity=0.169 Sum_probs=55.5
Q ss_pred EEEecCCCHHHHHHHHHHHHhhhhccCCCCCH-HHHHHHHhHHH----HHH-HHHHHH----------HhhcCC--CCCC
Q psy9563 47 IFNCVLPSDKAIDNIFSVIGEGHYNAKRGFPI-EVRNLVKQLIP----LTR-LLWKST----------RAQLLP--TPAK 108 (192)
Q Consensus 47 ~~~~~~ps~~~l~~I~~~il~~~l~~~~~f~~-~i~~~~~~lv~----ati-~ly~~i----------~~~~~p--tp~~ 108 (192)
.+.=.||..+....||+++..+. ++.+ .++.-++.+.. .+. ++-..+ ...+.. .-.+
T Consensus 60 ~fm~GY~Pee~~~~IF~Alc~a~-----~~dp~~~r~dA~~l~~~a~~~s~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~ 134 (206)
T PLN03060 60 QLMDGYPNATDRDAIFKAYIEAL-----GEDPDQYRKDAKKLEEWASSQSASGIADFNSGDGEVEAVLKDIAERAAGKTK 134 (206)
T ss_pred HHHcCCCChHHHHHHHHHHHHHc-----CCCHHHHHHHHHHHHHHHhcCCHHHHHHHHhcccccchHHHHHHHHhhcCCC
Confidence 34456788999999999998763 4543 34333333222 111 111111 111111 1245
Q ss_pred cceEeehhhHHHHhh-hhhccccccc-CChHHHHHHHHHHHHHHHHhhcCChhhHHHHHHHHHHHHH
Q psy9563 109 FHYVFSLRDLSRIWQ-GMVGTLSTVI-DSEKVLMLLWKHEVTRVFSDRFTIMSDKHWFDDEVLNLVE 173 (192)
Q Consensus 109 ~HY~Fnlrdl~r~~~-gl~~~~~~~~-~~~~~l~rlw~hE~~Rvf~DRLv~~~d~~~f~~~l~~~~~ 173 (192)
+|| +|++- ||+..-...- .++ ..+.=|+ |...+=.+|+ ++|-..|...|....+
T Consensus 135 f~Y-------SRl~AIGL~~LLe~a~~~d~-~~l~~l~-~~L~ls~~kv--~kDL~lYrsnLeKm~q 190 (206)
T PLN03060 135 FHY-------SRFFAIGLFRLLECAKASDP-AVLEKLS-KALNVSKRSV--DRDLDVYRNLLSKLAQ 190 (206)
T ss_pred cch-------HHHHHHHHHHHHHHcCCCCH-HHHHHHH-HHcCCCHHHH--HhhHHHHHhHHHHHHH
Confidence 666 46653 5554322111 133 3444444 5566666766 5677778777765443
Done!