Query 027365
Match_columns 224
No_of_seqs 16 out of 18
Neff 2.0
Searched_HMMs 46136
Date Fri Mar 29 08:52:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027365.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027365hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14290 DUF4370: Domain of un 100.0 5E-115 1E-119 751.4 19.0 220 1-224 1-239 (239)
2 PLN02749 Uncharacterized prote 100.0 8E-101 2E-105 639.9 14.8 156 69-224 1-173 (173)
3 PRK08230 tartrate dehydratase 74.9 6.9 0.00015 36.2 5.5 53 87-140 9-61 (299)
4 PF00268 Ribonuc_red_sm: Ribon 72.1 63 0.0014 27.7 10.4 94 80-176 11-117 (281)
5 PRK00411 cdc6 cell division co 71.9 67 0.0014 27.9 10.5 39 73-111 197-237 (394)
6 PF04328 DUF466: Protein of un 68.0 6.1 0.00013 28.8 2.9 42 146-187 10-57 (65)
7 PRK10702 endonuclease III; Pro 66.5 7.5 0.00016 33.1 3.6 74 83-159 42-118 (211)
8 PRK06246 fumarate hydratase; P 63.0 18 0.00039 33.0 5.5 59 81-140 2-60 (280)
9 COG1951 TtdA Tartrate dehydrat 62.6 21 0.00046 33.2 6.0 55 86-141 8-62 (297)
10 PF06798 PrkA: PrkA serine pro 60.9 20 0.00044 31.7 5.4 50 138-188 83-162 (254)
11 PF02436 PYC_OADA: Conserved c 56.1 13 0.00028 31.9 3.2 89 85-174 56-164 (196)
12 TIGR01478 STEVOR variant surfa 55.7 15 0.00033 34.2 3.9 47 71-117 41-99 (295)
13 PF05681 Fumerase: Fumarate hy 54.5 24 0.00053 31.9 4.8 51 89-140 2-52 (271)
14 PF00101 RuBisCO_small: Ribulo 51.7 12 0.00027 29.3 2.2 26 75-100 3-28 (99)
15 COG4423 Uncharacterized protei 51.3 36 0.00078 26.5 4.7 48 82-129 4-52 (81)
16 PRK10880 adenine DNA glycosyla 49.4 28 0.0006 32.3 4.5 72 84-159 44-118 (350)
17 cd03527 RuBisCO_small Ribulose 48.2 20 0.00043 28.4 2.9 26 75-100 4-29 (99)
18 PTZ00370 STEVOR; Provisional 44.8 28 0.00061 32.5 3.8 54 69-122 39-103 (296)
19 PF11841 DUF3361: Domain of un 44.8 76 0.0016 27.0 6.0 57 88-144 37-97 (160)
20 PRK15389 fumarate hydratase; P 43.5 47 0.001 33.1 5.3 59 82-140 40-98 (536)
21 COG1107 Archaea-specific RecJ- 42.3 45 0.00097 34.5 5.0 89 98-197 506-601 (715)
22 TIGR00722 ttdA_fumA_fumB hydro 42.3 48 0.001 30.2 4.8 51 89-140 2-52 (273)
23 PF02861 Clp_N: Clp amino term 42.1 26 0.00056 22.1 2.3 23 165-187 31-53 (53)
24 cd07119 ALDH_BADH-GbsA Bacillu 39.8 49 0.0011 30.4 4.5 50 75-124 24-81 (482)
25 TIGR01083 nth endonuclease III 39.8 62 0.0013 26.6 4.7 75 82-159 38-115 (191)
26 TIGR01084 mutY A/G-specific ad 38.5 52 0.0011 29.3 4.3 71 83-159 39-114 (275)
27 TIGR03688 pupylate_PafA2 prote 37.8 7.2 0.00016 38.2 -1.2 72 68-179 87-160 (485)
28 TIGR00635 ruvB Holliday juncti 37.7 2.5E+02 0.0053 23.6 8.3 58 77-136 153-210 (305)
29 TIGR03686 pupylate_PafA protea 36.7 8.9 0.00019 37.4 -0.8 76 68-179 48-126 (453)
30 PRK06310 DNA polymerase III su 34.2 61 0.0013 27.9 4.0 89 99-201 130-239 (250)
31 KOG4548 Mitochondrial ribosoma 34.0 76 0.0016 29.4 4.7 109 77-204 34-154 (263)
32 PF04703 FaeA: FaeA-like prote 33.2 47 0.001 24.1 2.7 22 151-172 20-43 (62)
33 PLN02466 aldehyde dehydrogenas 32.4 2.6E+02 0.0057 26.9 8.2 49 75-123 84-140 (538)
34 COG3215 PilZ Tfp pilus assembl 31.9 28 0.00061 28.9 1.5 20 170-189 86-107 (117)
35 PLN02289 ribulose-bisphosphate 31.5 39 0.00085 29.7 2.4 31 70-101 64-94 (176)
36 PRK07539 NADH dehydrogenase su 30.3 2.9E+02 0.0063 22.3 7.4 48 107-159 6-53 (154)
37 TIGR01408 Ube1 ubiquitin-activ 29.6 84 0.0018 33.1 4.7 16 205-220 420-435 (1008)
38 PF10152 DUF2360: Predicted co 29.5 32 0.0007 28.0 1.5 31 160-204 115-145 (148)
39 COG3562 KpsS Capsule polysacch 29.3 23 0.0005 34.4 0.7 32 179-217 293-333 (403)
40 PRK06041 flagellar assembly pr 28.6 1.1E+02 0.0024 29.8 5.1 27 160-186 146-172 (553)
41 PF07849 DUF1641: Protein of u 28.3 49 0.0011 22.1 1.9 16 82-97 19-34 (42)
42 PF02074 Peptidase_M32: Carbox 28.3 1.5E+02 0.0033 28.9 6.0 64 102-176 97-166 (494)
43 PF15062 ARL6IP6: Haemopoietic 27.8 13 0.00029 29.3 -0.9 30 140-175 22-53 (85)
44 PRK15338 type III secretion sy 26.2 2.3E+02 0.005 27.3 6.6 93 78-175 117-215 (372)
45 KOG2120 SCF ubiquitin ligase, 25.6 86 0.0019 30.6 3.7 37 97-144 95-131 (419)
46 cd00056 ENDO3c endonuclease II 25.5 1.8E+02 0.0039 22.4 4.9 98 83-184 13-121 (158)
47 PRK09847 gamma-glutamyl-gamma- 25.1 2.1E+02 0.0045 26.9 6.1 49 75-123 46-102 (494)
48 PRK11241 gabD succinate-semial 24.4 1.1E+02 0.0023 28.8 4.1 49 75-123 37-91 (482)
49 PF01579 DUF19: Domain of unkn 24.1 50 0.0011 24.6 1.6 40 130-169 107-146 (160)
50 PTZ00226 fumarate hydratase; P 23.5 1.8E+02 0.004 29.4 5.7 65 76-140 64-128 (570)
51 TIGR01600 phage_tail_L lambda- 23.4 22 0.00047 32.0 -0.6 31 140-170 73-105 (225)
52 PF10191 COG7: Golgi complex c 23.4 1.8E+02 0.004 29.4 5.7 81 91-175 279-367 (766)
53 PF03789 ELK: ELK domain ; In 23.2 61 0.0013 19.9 1.5 15 138-152 7-21 (22)
54 COG2766 PrkA Putative Ser prot 23.0 1.3E+02 0.0028 31.0 4.6 27 160-187 505-548 (649)
55 PF12767 SAGA-Tad1: Transcript 22.5 73 0.0016 27.4 2.4 49 145-193 11-62 (252)
56 PF03810 IBN_N: Importin-beta 22.5 94 0.002 20.8 2.5 25 91-115 39-71 (77)
57 KOG0034 Ca2+/calmodulin-depend 22.4 81 0.0018 26.9 2.7 48 83-130 121-168 (187)
58 PF07528 DZF: DZF domain; Int 22.3 1.3E+02 0.0027 26.8 3.9 67 67-135 114-185 (248)
59 TIGR00270 conserved hypothetic 22.2 1.9E+02 0.0041 24.0 4.7 55 136-193 65-128 (154)
60 PF13863 DUF4200: Domain of un 22.1 3.2E+02 0.0069 20.4 5.6 80 92-173 26-119 (126)
61 PF03136 Pup_ligase: Pup-ligas 22.0 32 0.00069 33.4 0.2 76 67-179 70-146 (444)
62 PF01077 NIR_SIR: Nitrite and 22.0 35 0.00076 26.5 0.4 27 162-190 131-157 (157)
63 PF05480 Staph_haemo: Staphylo 21.9 66 0.0014 22.6 1.7 29 87-115 7-35 (43)
64 cd07149 ALDH_y4uC Uncharacteri 21.9 1.5E+02 0.0033 26.7 4.4 45 77-121 12-62 (453)
65 PF05960 DUF885: Bacterial pro 21.6 5.4E+02 0.012 23.8 7.9 82 122-206 177-275 (549)
66 PTZ00171 acyl carrier protein; 21.5 3.7E+02 0.0081 22.2 6.3 29 78-107 61-89 (148)
67 TIGR01237 D1pyr5carbox2 delta- 21.5 1.4E+02 0.0031 28.0 4.3 48 76-123 59-112 (511)
68 PF03087 DUF241: Arabidopsis p 21.4 5.4E+02 0.012 22.2 9.2 91 87-196 8-105 (231)
69 PF05266 DUF724: Protein of un 21.2 2.7E+02 0.0058 23.9 5.5 100 92-196 40-146 (190)
70 cd01049 RNRR2 Ribonucleotide R 21.2 5.1E+02 0.011 21.9 10.6 57 82-141 5-61 (288)
71 PRK09614 nrdF ribonucleotide-d 20.8 5.9E+02 0.013 22.5 10.9 96 77-175 11-119 (324)
72 cd07141 ALDH_F1AB_F2_RALDH1 NA 20.6 3E+02 0.0064 25.6 6.1 49 75-123 33-90 (481)
73 PRK05472 redox-sensing transcr 20.4 1.5E+02 0.0032 24.5 3.7 54 152-218 38-98 (213)
74 PRK07942 DNA polymerase III su 20.4 1.9E+02 0.0041 24.5 4.4 51 124-174 159-216 (232)
75 TIGR01477 RIFIN variant surfac 20.2 44 0.00095 31.8 0.7 15 176-190 100-114 (353)
No 1
>PF14290 DUF4370: Domain of unknown function (DUF4370)
Probab=100.00 E-value=4.7e-115 Score=751.40 Aligned_cols=220 Identities=67% Similarity=1.046 Sum_probs=209.6
Q ss_pred CchhhhHHHHHHHHHHhhhhhhHHhh--hhhhhhhhcccccccccCCCCCCCCCCCCCCCCCCcccccccccccccccCC
Q 027365 1 MEKIAVMSVRSIRRAACVRSSIIAAA--NNHHLRHLSSSRSLFSLSSPAASIPSKSIPFDCRSSLVMSIGCNRSFSEDVA 78 (224)
Q Consensus 1 mek~~m~~lrs~~r~a~~~s~~~~~~--~~~~~~h~s~~~sl~t~~~~~~~~ps~~~~~d~~~~~s~~~~~~R~fS~d~~ 78 (224)
||| ||+.||++||++|++|++.++. .+++++|..+.+++++++++.+ +. ++++||++||+||||++|+||+|++
T Consensus 1 m~~-~~~~lr~~~R~~~~~s~~~~~~~~~~~~~~~~~~~~s~~~l~~~~~--~~-~~~s~~~~~~a~s~~~~R~fS~d~~ 76 (239)
T PF14290_consen 1 MEK-AMSALRSLLRSAALRSSRSSSASRSHHQIRHHLSSRSLFTLSSPSS--RN-RISSDCGGPFAMSWGSRRFFSEDVS 76 (239)
T ss_pred Cch-HHHHHHHHHHHHHHHHhhhhhhhcchhhhhhhhhhccccCCCCccc--cc-cccccccCCcccccchhhhcccccc
Confidence 787 5999999999999999987555 3477788558999999988873 33 8899999999999999999999999
Q ss_pred CCCCCCCHHHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccch
Q 027365 79 HMPVIRDPEIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEFIGIIMNIKMEFDDEIGL 158 (224)
Q Consensus 79 hlP~i~Dp~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeFgGiL~~LrmeiDDl~Gl 158 (224)
|||+|+||||++|||||||+||+|||++||++||+||||||||+||||||+||||||||||||||+|++|||||||||||
T Consensus 77 hlP~i~Dp~i~~afKdLmAasW~elp~svv~~akkalSk~tdD~AGqeaL~nvfRAAeAvEeFgG~L~tLrm~idDl~Gl 156 (239)
T PF14290_consen 77 HLPAISDPEIEKAFKDLMAASWDELPDSVVNEAKKALSKNTDDKAGQEALKNVFRAAEAVEEFGGILVTLRMEIDDLCGL 156 (239)
T ss_pred cCCCCCCHHHHHHHHHHHhcchhhCCHHHHHHHHHHHhccCccchhHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhcCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred h-----------------HHHHHHHHHhhcCCChhHHHHHHHHhhhhhhhhhhhhhcCCCCCccceEEeeccCCCccchh
Q 027365 159 S-----------------VYQRYATYLDAFGPDESYLRKKVETELGSKMIFLKMRCAGLGSEWGKVTVLGTSGLAGSYVE 221 (224)
Q Consensus 159 s-----------------ay~rY~~YLdsFgpdE~yLrKKVE~ELGtkmI~LKmRcsGlgseWGKVtlLGTSGLsGSYvE 221 (224)
| +|+||++|||||||||+|||||||+|||+|||||||||||||||||||||||||||||||||
T Consensus 157 sGEnv~PLP~~~~~Al~t~y~rY~~YL~sFgp~E~yLrKKVE~ELGtkmi~lKmRcsGlg~eWgkvtllGTSGlsGSYvE 236 (239)
T PF14290_consen 157 SGENVKPLPDYIENALRTAYKRYMTYLDSFGPDEHYLRKKVEMELGTKMIHLKMRCSGLGSEWGKVTLLGTSGLSGSYVE 236 (239)
T ss_pred CCCCCCCCcHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHhhhhHHHHhhhhcCCCcccceeeEeecCcCccchhh
Confidence 9 99999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcC
Q 027365 222 QRA 224 (224)
Q Consensus 222 qRa 224 (224)
|||
T Consensus 237 qRA 239 (239)
T PF14290_consen 237 QRA 239 (239)
T ss_pred hcC
Confidence 997
No 2
>PLN02749 Uncharacterized protein At1g47420
Probab=100.00 E-value=8e-101 Score=639.90 Aligned_cols=156 Identities=74% Similarity=1.181 Sum_probs=154.8
Q ss_pred ccccccccCCCCCCCCCHHHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027365 69 CNRSFSEDVAHMPVIRDPEIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEFIGIIMNI 148 (224)
Q Consensus 69 ~~R~fS~d~~hlP~i~Dp~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeFgGiL~~L 148 (224)
++|+||+|++|||+|+||+|++|||||||+||+|||++|+++||+|||||||||||||||+||||||||||||||+|++|
T Consensus 1 ~~R~fs~d~~~lP~i~Dp~i~~afkdLma~sW~elp~sv~~~~kkalsk~tddkagqeaL~nvfrAAeAveeFgG~L~sL 80 (173)
T PLN02749 1 LRRRFSEDVSHLPEISDPEILKAFKDLMAASWDELPDSVVNDAKKALSKNTDDKAGQEALKNVFRAAEAVEEFGGTLVSL 80 (173)
T ss_pred CccccccccccCCCCCCHHHHHHHHHHHhcchhhCChHHHHHHHHHHhcCCcchhhHHHHHHHHHHHHHHHHHhhHHHHH
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhccchh-----------------HHHHHHHHHhhcCCChhHHHHHHHHhhhhhhhhhhhhhcCCCCCccceEEee
Q 027365 149 KMEFDDEIGLS-----------------VYQRYATYLDAFGPDESYLRKKVETELGSKMIFLKMRCAGLGSEWGKVTVLG 211 (224)
Q Consensus 149 rmeiDDl~Gls-----------------ay~rY~~YLdsFgpdE~yLrKKVE~ELGtkmI~LKmRcsGlgseWGKVtlLG 211 (224)
|||||||||+| +||||++|||||||||+|||||||+|||+|||||||||||||||||||||||
T Consensus 81 rmeidDl~GlsGEnv~PLPd~~~~Al~tay~rY~~YLdsFgp~E~yLrKKVE~ELG~kmi~lKmRcsGl~~eWgkvtllG 160 (173)
T PLN02749 81 RMEIDDLIGLSGENVKPLPDYIENALETAYQRYAAYLDSFGPEENYLKKKVEMELGTKMIHLKMRCSGLGSEWGKVTLLG 160 (173)
T ss_pred HHHHHHhcCCCCCCCCCCcHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhHHHHHHHhhhcCCCcccceeeEee
Confidence 99999999999 9999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCccchhhcC
Q 027365 212 TSGLAGSYVEQRA 224 (224)
Q Consensus 212 TSGLsGSYvEqRa 224 (224)
||||||||||||+
T Consensus 161 TSGlsGSYvEqRa 173 (173)
T PLN02749 161 TSGLSGSYVEQRA 173 (173)
T ss_pred cCcccchhhhhcC
Confidence 9999999999997
No 3
>PRK08230 tartrate dehydratase subunit alpha; Validated
Probab=74.94 E-value=6.9 Score=36.17 Aligned_cols=53 Identities=11% Similarity=0.152 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHH
Q 027365 87 EIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEE 140 (224)
Q Consensus 87 ~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEe 140 (224)
+|.++.++|+-..=..||+.|++..++|..+-+ +..++.+|++.+.-++..++
T Consensus 9 ~i~~~v~~l~~~a~~~lp~Dv~~al~~a~~~E~-s~~ak~~L~~ileN~~iA~~ 61 (299)
T PRK08230 9 KLTDIMAKFTAYISKRLPDDVTAKLKELKDAET-SPLAKIIYDTMFENQQLAID 61 (299)
T ss_pred HHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhhC-CHHHHHHHHHHHHHHHHHhc
Confidence 488999999999999999999999999999954 45579999999999888775
No 4
>PF00268 Ribonuc_red_sm: Ribonucleotide reductase, small chain; InterPro: IPR000358 Ribonucleotide reductase (1.17.4.1 from EC) [, ] catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides: 2'-deoxyribonucleoside diphosphate + oxidized thioredoxin + H2O = ribonucleoside diphosphate + reduced thioredoxin It provides the precursors necessary for DNA synthesis. RNRs divide into three classes on the basis of their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, bacteriophage and viruses, use a diiron-tyrosyl radical, Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in anaerobic bacteria and bacteriophage, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. Ribonucleotide reductase is an oligomeric enzyme composed of a large subunit (700 to 1000 residues) and a small subunit (300 to 400 residues) - class II RNRs are less complex, using the small molecule B12 in place of the small chain []. The small chain binds two iron atoms [] (three Glu, one Asp, and two His are involved in metal binding) and contains an active site tyrosine radical. The regions of the sequence that contain the metal-binding residues and the active site tyrosine are conserved in ribonucleotide reductase small chain from prokaryotes, eukaryotes and viruses. We have selected one of these regions as a signature pattern. It contains the active site residue as well as a glutamate and a histidine involved in the binding of iron.; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0009186 deoxyribonucleoside diphosphate metabolic process, 0055114 oxidation-reduction process; PDB: 1JK0_B 1SMS_B 2VUX_B 4DJN_B 3HF1_B 2RCC_B 2BQ1_I 1R2F_A 2R2F_A 2O1Z_A ....
Probab=72.09 E-value=63 Score=27.70 Aligned_cols=94 Identities=18% Similarity=0.252 Sum_probs=52.0
Q ss_pred CCCCCCHHHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHHHH--HHHHHhhhhhhc--
Q 027365 80 MPVIRDPEIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEFIG--IIMNIKMEFDDE-- 155 (224)
Q Consensus 80 lP~i~Dp~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeFgG--iL~~LrmeiDDl-- 155 (224)
.=+|++|...+..|.+.+.-|..=.=++-+|.+.--+ =++.-|++++.++..--+.+..-+ ++..+...+.+-
T Consensus 11 ~~pi~y~~~~~ly~k~~~~fW~peEi~~~~D~~~~~~---Ls~~e~~~~~~~l~~~~~~D~~v~~~l~~~i~~~~~~~E~ 87 (281)
T PF00268_consen 11 WNPIKYPWFWDLYKKAESNFWTPEEIDMSKDIKDWKK---LSEEEREAYKRILAFFAQLDSLVSENLLPNIMPEITSPEI 87 (281)
T ss_dssp TTS-SSHHHHHHHHHHHHT---GGGS-GGGHHHHHHH---S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSHHH
T ss_pred CCCCCCHHHHHHHHHHHhCCCCchhcChhhhHHHHHh---CCHHHHHHHHHHHHHHHHHHhHHHhhHHHHHHHHcCHHHH
Confidence 3459999999999999999998655556666554433 234558888888765443333222 112333333321
Q ss_pred -cchh-------HHH-HHHHHHhhcCCChh
Q 027365 156 -IGLS-------VYQ-RYATYLDAFGPDES 176 (224)
Q Consensus 156 -~Gls-------ay~-rY~~YLdsFgpdE~ 176 (224)
+-++ .|+ =|..+|+++++++.
T Consensus 88 ~~~l~~q~~~E~iH~~sYs~il~~l~~~~~ 117 (281)
T PF00268_consen 88 RAFLTFQAFMEAIHAESYSYILDSLGNDPK 117 (281)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHSSSHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCChH
Confidence 1111 333 37888999996663
No 5
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=71.88 E-value=67 Score=27.92 Aligned_cols=39 Identities=18% Similarity=0.202 Sum_probs=26.9
Q ss_pred ccccCCCCCCCCCHHHHHHHHHHHHcccC--CCchhHHHHH
Q 027365 73 FSEDVAHMPVIRDPEIQRAFKDLMAADWG--ELPASVIHDA 111 (224)
Q Consensus 73 fS~d~~hlP~i~Dp~i~~afKdLmA~sW~--elp~svv~~a 111 (224)
|....=++|.....++...+++-+...+. .+++.++..+
T Consensus 197 ~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i 237 (394)
T PRK00411 197 FRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLI 237 (394)
T ss_pred CCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHH
Confidence 33344589999999999999988765443 4666665544
No 6
>PF04328 DUF466: Protein of unknown function (DUF466); InterPro: IPR007423 This is a small bacterial protein of unknown function.
Probab=67.98 E-value=6.1 Score=28.84 Aligned_cols=42 Identities=21% Similarity=0.449 Sum_probs=31.6
Q ss_pred HHHhhhhhhccchhHHHHHHHHHhhcCCCh------hHHHHHHHHhhh
Q 027365 146 MNIKMEFDDEIGLSVYQRYATYLDAFGPDE------SYLRKKVETELG 187 (224)
Q Consensus 146 ~~LrmeiDDl~Glsay~rY~~YLdsFgpdE------~yLrKKVE~ELG 187 (224)
..++--+..++|...|+||.+....--||+ .|-|...|..-|
T Consensus 10 ~~~~~~~r~l~G~~~Ye~Yv~H~~~~HP~~p~ms~~eF~r~r~~~r~~ 57 (65)
T PF04328_consen 10 RRVRWYARLLVGEPDYERYVEHMRRHHPDEPPMSEREFFRERQDARYG 57 (65)
T ss_pred HHHHHHHHHhcCcHHHHHHHHHHHHHCcCCCCCCHHHHHHHHHHHHhc
Confidence 345556778999999999999999999975 466666554433
No 7
>PRK10702 endonuclease III; Provisional
Probab=66.51 E-value=7.5 Score=33.15 Aligned_cols=74 Identities=12% Similarity=0.125 Sum_probs=48.3
Q ss_pred CCCHHHHHHHHHHHHc--ccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHH-HHHHHHHHHHhhhhhhccchh
Q 027365 83 IRDPEIQRAFKDLMAA--DWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAV-EEFIGIIMNIKMEFDDEIGLS 159 (224)
Q Consensus 83 i~Dp~i~~afKdLmA~--sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAv-EeFgGiL~~LrmeiDDl~Gls 159 (224)
-+|+.+.+++..|+.. +|..|-..=.++.+.+++..+=- ..--+++.++|+.+ |+|||.+-..+.+|-.|=|+.
T Consensus 42 t~~~~v~~~~~~L~~~~pt~e~l~~a~~~~l~~~i~~~G~y---~~kA~~l~~~a~~i~~~~~~~~p~~~~~Ll~lpGVG 118 (211)
T PRK10702 42 ATDVSVNKATAKLYPVANTPAAMLELGVEGVKTYIKTIGLY---NSKAENVIKTCRILLEQHNGEVPEDRAALEALPGVG 118 (211)
T ss_pred cCHHHHHHHHHHHHHHcCCHHHHHCCCHHHHHHHHHHcCCH---HHHHHHHHHHHHHHHHHcCCCCCchHHHHhcCCccc
Confidence 3678888899888864 33333333355566665542210 12235667777776 788998888899999888887
No 8
>PRK06246 fumarate hydratase; Provisional
Probab=62.98 E-value=18 Score=33.01 Aligned_cols=59 Identities=27% Similarity=0.342 Sum_probs=48.7
Q ss_pred CCCCCHHHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHH
Q 027365 81 PVIRDPEIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEE 140 (224)
Q Consensus 81 P~i~Dp~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEe 140 (224)
..|+-.+|.++..+++...=..||+.+++..++|+.+ -++..++.+|+....-++..++
T Consensus 2 ~~i~~~~i~~~v~~~~~~a~~~lp~Dv~~~l~~a~~~-E~s~~ak~~l~~ileN~~iA~~ 60 (280)
T PRK06246 2 REIHVEDIIEAVAELCIEANYYLPDDVKEALKKAYEK-EESPIGKEILKAILENAEIAKE 60 (280)
T ss_pred ccccHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh-ccChhHHHHHHHHHHHHHHHhc
Confidence 3455556999999999888899999999999999986 5555678899988888887776
No 9
>COG1951 TtdA Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]
Probab=62.64 E-value=21 Score=33.21 Aligned_cols=55 Identities=16% Similarity=0.282 Sum_probs=47.8
Q ss_pred HHHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHH
Q 027365 86 PEIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEF 141 (224)
Q Consensus 86 p~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeF 141 (224)
-++....+|+...-=+.||+.|++..++|+.+ .++++++.+|+...+-+|-+++-
T Consensus 8 e~l~~~v~~a~~~as~~lp~Dv~~al~~a~~~-Ees~~ak~~l~~il~N~~ia~~~ 62 (297)
T COG1951 8 EDLTESVADAFQEASTYLPPDVVQALAKALER-EESEIAKYVLLQILENSRIAAKE 62 (297)
T ss_pred HHHHHHHHHHHHHHHccCCHHHHHHHHHHHhh-hcCHHHHHHHHHHHHHHHHHHhc
Confidence 45666777777777789999999999999999 88999999999999999988763
No 10
>PF06798 PrkA: PrkA serine protein kinase C-terminal domain; InterPro: IPR010650 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This entry is found at the C terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length. PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.
Probab=60.90 E-value=20 Score=31.70 Aligned_cols=50 Identities=22% Similarity=0.665 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHhhhhhhccchh---------------HHHHHHHHHhhc---------------CCChhHHHHHHHHhhh
Q 027365 138 VEEFIGIIMNIKMEFDDEIGLS---------------VYQRYATYLDAF---------------GPDESYLRKKVETELG 187 (224)
Q Consensus 138 vEeFgGiL~~LrmeiDDl~Gls---------------ay~rY~~YLdsF---------------gpdE~yLrKKVE~ELG 187 (224)
.++|=.-|.++|.+.++.++=- -+++|+.+.++| .|||.||| .+|..+|
T Consensus 83 ~~~y~~~l~~v~~~Y~~~v~~EV~~A~~~~~ee~~~~l~~nYl~~v~a~~~~~~~~d~~TGe~~~pdE~~mr-sIEe~ig 161 (254)
T PF06798_consen 83 RERYLEFLKSVRKEYDERVEKEVQEAFYYSYEEQIQNLFENYLDHVEAWINDEKVKDPFTGEELEPDERFMR-SIEERIG 161 (254)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHhcCCeeeCCCCcccCCccHHHHH-HHHHhcC
Confidence 4444455666666666655432 678898888765 38888887 5887776
Q ss_pred h
Q 027365 188 S 188 (224)
Q Consensus 188 t 188 (224)
.
T Consensus 162 i 162 (254)
T PF06798_consen 162 I 162 (254)
T ss_pred C
Confidence 3
No 11
>PF02436 PYC_OADA: Conserved carboxylase domain; InterPro: IPR003379 This domain represents a conserved region in pyruvate carboxylase (PYC) (6.4.1.1 from EC), oxaloacetate decarboxylase alpha chain (OADA) (4.1.1.3 from EC), and transcarboxylase 5s subunit (2.1.3.1 from EC). The domain is found adjacent to the HMGL-like domain (IPR000891 from INTERPRO) and often close to the biotin_lipoyl domain (IPR000089 from INTERPRO) of biotin requiring enzymes.; PDB: 2NX9_B 3HBL_A 3HB9_C 3HO8_A 3BG5_C 1S3H_A 1RQE_A 1U5J_A 1RQB_A 2QF7_B ....
Probab=56.11 E-value=13 Score=31.94 Aligned_cols=89 Identities=16% Similarity=0.322 Sum_probs=57.7
Q ss_pred CHHHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHHHH------HHHHHhhhhhhccch
Q 027365 85 DPEIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEFIG------IIMNIKMEFDDEIGL 158 (224)
Q Consensus 85 Dp~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeFgG------iL~~LrmeiDDl~Gl 158 (224)
|-++.++..+|....|..+|++|++-++.-+-+ +-..-..|..+.|...-++++.--| -+..+|.++.+..|-
T Consensus 56 ~qA~~nV~~~~~g~r~~~~p~~v~~~~~G~~G~-pp~~~~~~l~~~vl~~~~~i~~RP~~~l~p~d~~~~r~~l~~~~g~ 134 (196)
T PF02436_consen 56 DQAVFNVLNGLLGERYKDFPDSVVDYLLGKYGK-PPGGFPEELRKKVLKGEEPITGRPGDLLPPADLDKLRKELEEKAGR 134 (196)
T ss_dssp HHHHHHHHTT-HHTTTSS-BHHHHHHHTTTT----TTSS-HHHHHHHHTTS---SSSGGGCS----HHHHHHHHHHHCTS
T ss_pred HHHHHHHHhhhcCccccchhHHHHHHhCcccCC-CCCCCCHHHHHHHhcCCCCCCCCccccCChhhHHHHHHHHHHHcCC
Confidence 456666666666778999999999999888876 4445556777777766555444334 467888888887774
Q ss_pred h--------------HHHHHHHHHhhcCCC
Q 027365 159 S--------------VYQRYATYLDAFGPD 174 (224)
Q Consensus 159 s--------------ay~rY~~YLdsFgpd 174 (224)
. .|..|.++-..||+-
T Consensus 135 ~~~dedvlsyal~P~v~~~f~~~~~~~g~~ 164 (196)
T PF02436_consen 135 EPTDEDVLSYALFPKVAEDFLKFRAKYGDV 164 (196)
T ss_dssp TSCHHHHHHHHHCHHHHHHHHHHHHHHS-G
T ss_pred CCCHHHHHHHhcCchhHHHHHHHHHhcCCC
Confidence 3 788888888888853
No 12
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=55.74 E-value=15 Score=34.22 Aligned_cols=47 Identities=19% Similarity=0.275 Sum_probs=27.2
Q ss_pred ccccccCC-CCCCC-CCHHHHHHHHHHHH----------cccCCCchhHHHHHHhhhcc
Q 027365 71 RSFSEDVA-HMPVI-RDPEIQRAFKDLMA----------ADWGELPASVIHDAKSALSR 117 (224)
Q Consensus 71 R~fS~d~~-hlP~i-~Dp~i~~afKdLmA----------~sW~elp~svv~~ak~alSk 117 (224)
|..+|-.- +-|.- .|||+++...++=. ....|+++-+...-.|+-..
T Consensus 41 R~L~Ecel~~~p~Y~nDpEmK~iid~~n~eaikkyqqT~~~f~e~~e~~~k~~~K~k~~ 99 (295)
T TIGR01478 41 RLLAEIQRPKNPHYHNDPELKEIIDKLNEEAIKKYQETHDPYEQLQELVEKNRTKSTGG 99 (295)
T ss_pred eehhhhccccCCCCCCcHHHHHHHHHHhHHHhhhhhhhcchHHHHHHHHHhcCCccccc
Confidence 44444443 55543 59999998887654 23455665555555555444
No 13
>PF05681 Fumerase: Fumarate hydratase (Fumerase); InterPro: IPR004646 This entry represents various Fe-S type hydro-lyases, including the alpha subunit from both L-tartrate dehydratase (TtdA; 4.2.1.32 from EC) and class 1 fumarate hydratases (4.2.1.2 from EC), which includes both aerobic (FumA) and anaerobic (FumB) types []. A number of Fe-S cluster-containing hydro-lyases share a conserved motif, including argininosuccinate lyase, adenylosuccinate lyase, aspartase, class I fumarate hydratase (fumarase), and tartrate dehydratase (see IPR000362 from INTERPRO). Proteins in this group represent a subset of closely related proteins or modules, including the Escherichia coli tartrate dehydratase alpha chain and the N-terminal region of the class I fumarase (where the C-terminal region is homologous to the tartrate dehydratase beta chain). The activity of archaeal proteins in this group is unknown. Fumarate hydratase (also known as fumarase) is a component of the citric acid cycle. In facultative anaerobes such as E. coli, fumarase also engages in the reductive pathway from oxaloacetate to succinate during anaerobic growth. Three fumarases, FumA, FumB, and FumC, have been reported in E. coli. fumA and fumB genes are homologous and encode products of identical sizes which form thermolabile dimers of Mr 120,000. FumA and FumB are class I enzymes and are members of the iron-dependent hydrolases, which include aconitase and malate hydratase. The active FumA contains a 4Fe-4S centre, and it can be inactivated upon oxidation to give a 3Fe-4S centre [].; GO: 0016829 lyase activity
Probab=54.46 E-value=24 Score=31.85 Aligned_cols=51 Identities=24% Similarity=0.317 Sum_probs=41.1
Q ss_pred HHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHH
Q 027365 89 QRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEE 140 (224)
Q Consensus 89 ~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEe 140 (224)
.++..+|+-.-=..||+.+++..++|+.+.+.+. ++.+|+...+-++..++
T Consensus 2 ~~~v~~~~~~a~~~lp~Dv~~al~~a~~~E~~~~-ak~vl~~ileN~~iA~~ 52 (271)
T PF05681_consen 2 TEAVAELIIKASTYLPDDVLEALKKAYERETSPL-AKWVLEQILENAEIAAK 52 (271)
T ss_pred HHHHHHHHHHHHhhCCHHHHHHHHHHHHccCCHH-HHHHHHHHHHHHHHHhh
Confidence 3455666666668899999999999999966555 99999999888887765
No 14
>PF00101 RuBisCO_small: Ribulose bisphosphate carboxylase, small chain; InterPro: IPR000894 RuBisCO (ribulose-1,5-bisphosphate carboxylase/oxygenase) is a bifunctional enzyme that catalyses both the carboxylation and oxygenation of ribulose-1,5-bisphosphate (RuBP) [], thus fixing carbon dioxide as the first step of the Calvin cycle. RuBisCO is the major protein in the stroma of chloroplasts, and in higher plants exists as a complex of 8 large and 8 small subunits. The function of the small subunit is unknown []. While the large subunit is coded for by a single gene, the small subunit is coded for by several different genes, which are distributed in a tissue specific manner. They are transcriptionally regulated by light receptor phytochrome [], which results in RuBisCO being more abundant during the day when it is required. The RuBisCo small subunit consists of a central four-stranded beta-sheet, with two helices packed against it [].; PDB: 1BWV_W 1IWA_P 3AXM_X 1WDD_S 3AXK_T 1IR2_K 1RBL_N 1UZH_J 1RSC_P 1UW9_C ....
Probab=51.67 E-value=12 Score=29.29 Aligned_cols=26 Identities=27% Similarity=0.640 Sum_probs=19.5
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHHccc
Q 027365 75 EDVAHMPVIRDPEIQRAFKDLMAADW 100 (224)
Q Consensus 75 ~d~~hlP~i~Dp~i~~afKdLmA~sW 100 (224)
|+.+.||+++|.+|.+-+..|++--|
T Consensus 3 et~S~lP~l~~~~i~~Qv~~ll~qG~ 28 (99)
T PF00101_consen 3 ETFSYLPPLTDEEIAKQVRYLLSQGW 28 (99)
T ss_dssp STTTTSS---HHHHHHHHHHHHHTT-
T ss_pred cccccCCCCCHHHHHHHHHhhhhcCc
Confidence 56789999999999999999998543
No 15
>COG4423 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.25 E-value=36 Score=26.55 Aligned_cols=48 Identities=27% Similarity=0.319 Sum_probs=34.9
Q ss_pred CCCCHHHHHHHHHHHHcccCCCchhHHHHHHhhhcc-cCCchhHHHHHH
Q 027365 82 VIRDPEIQRAFKDLMAADWGELPASVIHDAKSALSR-NNDDKAGQEVLK 129 (224)
Q Consensus 82 ~i~Dp~i~~afKdLmA~sW~elp~svv~~ak~alSk-~tdDkaGqeaL~ 129 (224)
.||||++-..-+.|-+.-=.-+-++|+..++..|.+ ...-+.=.|+|+
T Consensus 4 nIKDp~~d~lar~LA~rtg~S~t~AV~~Al~~~lar~r~r~~pL~~~l~ 52 (81)
T COG4423 4 NIKDPEVDRLARELAARTGESKTDAVRDALKERLARLRAREIPLRERLA 52 (81)
T ss_pred ccCChHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhhhhHHHHHH
Confidence 599999998888887766667788888888888888 333333334443
No 16
>PRK10880 adenine DNA glycosylase; Provisional
Probab=49.42 E-value=28 Score=32.31 Aligned_cols=72 Identities=15% Similarity=0.097 Sum_probs=49.2
Q ss_pred CCHHHHHHHHHHHHc--ccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHH-HHHHHHHHHHhhhhhhccchh
Q 027365 84 RDPEIQRAFKDLMAA--DWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAV-EEFIGIIMNIKMEFDDEIGLS 159 (224)
Q Consensus 84 ~Dp~i~~afKdLmA~--sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAv-EeFgGiL~~LrmeiDDl~Gls 159 (224)
+|..+..++..||.. +|..|-++-.+++.+++..-+=- . --+|..++|+.+ +++||.+-..+.+|-.|=|+.
T Consensus 44 ~v~~v~~~~~rl~~~fPt~~~La~a~~eel~~~~~glGyy---~-RAr~L~~~A~~i~~~~~g~~p~~~~~L~~LpGIG 118 (350)
T PRK10880 44 QVATVIPYFERFMARFPTVTDLANAPLDEVLHLWTGLGYY---A-RARNLHKAAQQVATLHGGEFPETFEEVAALPGVG 118 (350)
T ss_pred cHHHHHHHHHHHHHHCcCHHHHHCcCHHHHHHHHHcCChH---H-HHHHHHHHHHHHHHHhCCCchhhHHHHhcCCCcc
Confidence 567777888888874 23333333345555555543322 1 256888999988 889998888888888888887
No 17
>cd03527 RuBisCO_small Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits.
Probab=48.21 E-value=20 Score=28.35 Aligned_cols=26 Identities=19% Similarity=0.579 Sum_probs=23.4
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHHccc
Q 027365 75 EDVAHMPVIRDPEIQRAFKDLMAADW 100 (224)
Q Consensus 75 ~d~~hlP~i~Dp~i~~afKdLmA~sW 100 (224)
|..+-||+++|.+|.+.+..|++--|
T Consensus 4 ~t~sylp~lt~~~i~~QI~yll~qG~ 29 (99)
T cd03527 4 ETFSYLPPLTDEQIAKQIDYIISNGW 29 (99)
T ss_pred cccccCCCCCHHHHHHHHHHHHhCCC
Confidence 57889999999999999999998765
No 18
>PTZ00370 STEVOR; Provisional
Probab=44.83 E-value=28 Score=32.53 Aligned_cols=54 Identities=17% Similarity=0.307 Sum_probs=36.4
Q ss_pred ccccccccCCCCCCC-CCHHHHHHHHHHHH----------cccCCCchhHHHHHHhhhcccCCch
Q 027365 69 CNRSFSEDVAHMPVI-RDPEIQRAFKDLMA----------ADWGELPASVIHDAKSALSRNNDDK 122 (224)
Q Consensus 69 ~~R~fS~d~~hlP~i-~Dp~i~~afKdLmA----------~sW~elp~svv~~ak~alSk~tdDk 122 (224)
..|..+|-.-+-|.- .|||+++...++-. ....|+++-+...-.|+-..+..++
T Consensus 39 ~sR~L~Ecel~~p~YdNDpemK~i~d~~n~eaikkyqqT~~~f~e~~e~~~k~~~K~k~~~d~e~ 103 (296)
T PTZ00370 39 KSRLLAQTQNHNPHYHNDPELKEIIDKMNEEAIKKYQQTHDPYEQLKEVVEKNGTKYTGGNDAEP 103 (296)
T ss_pred ceeehhhhhcCCCCCCCcHHHHHHHHHHhHHHhhhhhhhcchHHHHHHHHHhcCCccccccCcch
Confidence 458888888888854 49999998887654 3456666666666666655544433
No 19
>PF11841 DUF3361: Domain of unknown function (DUF3361)
Probab=44.77 E-value=76 Score=27.01 Aligned_cols=57 Identities=23% Similarity=0.268 Sum_probs=44.8
Q ss_pred HHHHHHHHHH---cccCCCchhHHHHHHhhhcccC-CchhHHHHHHHHHHHHHHHHHHHHH
Q 027365 88 IQRAFKDLMA---ADWGELPASVIHDAKSALSRNN-DDKAGQEVLKNVFSAAEAVEEFIGI 144 (224)
Q Consensus 88 i~~afKdLmA---~sW~elp~svv~~ak~alSk~t-dDkaGqeaL~nvfrAAeAvEeFgGi 144 (224)
.+.||-.||. .+|+-++++.++.+-.-++++. |...-|-+|...-.....-...++.
T Consensus 37 ~L~af~eLMeHg~vsWd~l~~~FI~Kia~~Vn~~~~d~~i~q~sLaILEs~Vl~S~~ly~~ 97 (160)
T PF11841_consen 37 ALTAFVELMEHGIVSWDTLSDSFIKKIASYVNSSAMDASILQRSLAILESIVLNSPKLYQL 97 (160)
T ss_pred HHHHHHHHHhcCcCchhhccHHHHHHHHHHHccccccchHHHHHHHHHHHHHhCCHHHHHH
Confidence 5789999998 4999999999998888888777 7777887777776666655555553
No 20
>PRK15389 fumarate hydratase; Provisional
Probab=43.52 E-value=47 Score=33.11 Aligned_cols=59 Identities=7% Similarity=0.029 Sum_probs=50.3
Q ss_pred CCCCHHHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHH
Q 027365 82 VIRDPEIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEE 140 (224)
Q Consensus 82 ~i~Dp~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEe 140 (224)
.|.-.+|.++.++|+-..=..||+.|+...++|+.+.-+...++.+|...+.-++..++
T Consensus 40 ~v~~~~i~~~v~~l~~~a~~~lp~Dv~~aL~~a~~~~E~s~~ak~vl~~ileN~~iA~~ 98 (536)
T PRK15389 40 KVEPEALTLLAEEAFHDISHLLRPAHLQQLAKILDDPEASDNDKFVALDLLKNANIAAG 98 (536)
T ss_pred EECHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHhc
Confidence 35556699999999998889999999999999986656778899999999988887765
No 21
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=42.31 E-value=45 Score=34.48 Aligned_cols=89 Identities=20% Similarity=0.163 Sum_probs=57.6
Q ss_pred cccCCCchhHH--HHHHhhhcccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccc-hhHHH---HHHHHHhhc
Q 027365 98 ADWGELPASVI--HDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEFIGIIMNIKMEFDDEIG-LSVYQ---RYATYLDAF 171 (224)
Q Consensus 98 ~sW~elp~svv--~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeFgGiL~~LrmeiDDl~G-lsay~---rY~~YLdsF 171 (224)
+-|.+.+.+-. ...+-+.++- -..|.|+.. +.|=.-|-|.=..+.=|-=|+|+.| +.-.+ +-+..|.
T Consensus 506 A~~gD~a~ape~~~Ylela~~~g----yd~e~L~~i-a~avd~EaFylrf~~gr~ii~dIL~~~gd~~rH~~Lv~~L~-- 578 (715)
T COG1107 506 AGVGDRAKAPEAEQYLELAAERG----YDREDLEKI-ALAVDYEAFYLRFMDGRGIIADILGTTGDADRHRELVDHLY-- 578 (715)
T ss_pred eeecccccChhHHHHHHHHHhcC----CCHHHHHHH-HHHHhHHHHHhhhcccchHHHHHhhcccchhHHHHHHHHHH--
Confidence 35888776622 2222222221 224556543 4455668898888888888999999 44444 4444443
Q ss_pred CCChhHHHHHHHHhhhhhhhhhh-hhh
Q 027365 172 GPDESYLRKKVETELGSKMIFLK-MRC 197 (224)
Q Consensus 172 gpdE~yLrKKVE~ELGtkmI~LK-mRc 197 (224)
.+-+++||++|-+.+-|+| +|.
T Consensus 579 ----~q~~~~ve~qL~aa~~~vk~~~l 601 (715)
T COG1107 579 ----EQAKEAVEEQLRAALPHVKSERL 601 (715)
T ss_pred ----HHHHHHHHHHHHHhhhccceeec
Confidence 3679999999999999999 765
No 22
>TIGR00722 ttdA_fumA_fumB hydro-lyases, Fe-S type, tartrate/fumarate subfamily, alpha region. A number of Fe-S cluster-containing hydro-lyases share a conserved motif, including argininosuccinate lyase, adenylosuccinate lyase, aspartase, class I fumarate hydratase (fumarase), and tartrate dehydratase. This model represents a subset of closely related proteins or modules, including the E. coli tartrate dehydratase alpha chain and the N-terminal region of the class I fumarase (where the C-terminal region is homologous to the tartrate dehydratase beta chain). The activity of archaeal proteins in this subfamily has not been established.
Probab=42.28 E-value=48 Score=30.19 Aligned_cols=51 Identities=22% Similarity=0.352 Sum_probs=40.6
Q ss_pred HHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHH
Q 027365 89 QRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEE 140 (224)
Q Consensus 89 ~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEe 140 (224)
.++..+|+-..=..||+.|.+..++|..+ -+...++.+|+....-++..++
T Consensus 2 ~~~v~~~~~~a~~~lp~Dv~~al~~a~~~-E~s~~ak~~l~~ileN~~iA~~ 52 (273)
T TIGR00722 2 TEAVKEAIKEAVTRLPEDVVDAIKEAYDR-EESEIAKINLEAILDNIEIAEK 52 (273)
T ss_pred HHHHHHHHHHHHhhCCHHHHHHHHHHHhh-cCCHHHHHHHHHHHHHHHHHhc
Confidence 45666777666788999999999999977 4555689999999888887765
No 23
>PF02861 Clp_N: Clp amino terminal domain; InterPro: IPR004176 This short domain is found in one or two copies at the amino terminus of ClpA and ClpB proteins from bacteria and eukaryotes. The function of these domains is uncertain but they may form a protein binding site []. The proteins are thought to be subunits of ATP-dependent proteases which act as chaperones to target the proteases to substrates.; GO: 0019538 protein metabolic process; PDB: 3FH2_A 3ZRJ_A 3ZRI_A 1QVR_C 3FES_C 2Y1R_F 3PXG_D 2Y1Q_A 3PXI_C 2K77_A ....
Probab=42.06 E-value=26 Score=22.14 Aligned_cols=23 Identities=35% Similarity=0.546 Sum_probs=14.9
Q ss_pred HHHHhhcCCChhHHHHHHHHhhh
Q 027365 165 ATYLDAFGPDESYLRKKVETELG 187 (224)
Q Consensus 165 ~~YLdsFgpdE~yLrKKVE~ELG 187 (224)
...|..+|-+..-|++.+|..||
T Consensus 31 ~~il~~~~id~~~l~~~i~~~lg 53 (53)
T PF02861_consen 31 ARILKKLGIDPEQLKAAIEKALG 53 (53)
T ss_dssp HHHHHHTTCHHHHHHHHHHHHHC
T ss_pred HHHHHHcCCCHHHHHHHHHHHhC
Confidence 44566666666666666666665
No 24
>cd07119 ALDH_BADH-GbsA Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like. Included in this CD is the NAD+-dependent, betaine aldehyde dehydrogenase (BADH, GbsA, EC=1.2.1.8) of Bacillus subtilis involved in the synthesis of the osmoprotectant glycine betaine from choline or glycine betaine aldehyde.
Probab=39.77 E-value=49 Score=30.42 Aligned_cols=50 Identities=22% Similarity=0.407 Sum_probs=37.7
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHHc----ccCCCc----hhHHHHHHhhhcccCCchhH
Q 027365 75 EDVAHMPVIRDPEIQRAFKDLMAA----DWGELP----ASVIHDAKSALSRNNDDKAG 124 (224)
Q Consensus 75 ~d~~hlP~i~Dp~i~~afKdLmA~----sW~elp----~svv~~ak~alSk~tdDkaG 124 (224)
+.+..+|....-++..+++..-++ .|..+| -.++..+...|.++.|+.+-
T Consensus 24 ~~i~~~~~~~~~~v~~av~~A~~a~~~~~w~~~~~~~R~~~L~~~a~~l~~~~~~la~ 81 (482)
T cd07119 24 EVIATVPEGTAEDAKRAIAAARRAFDSGEWPHLPAQERAALLFRIADKIREDAEELAR 81 (482)
T ss_pred CEEEEEeCCCHHHHHHHHHHHHHHcCCCchhhCCHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 345667888888999999988776 499999 45677777777777766653
No 25
>TIGR01083 nth endonuclease III. This equivalog model identifes nth members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY.
Probab=39.75 E-value=62 Score=26.56 Aligned_cols=75 Identities=15% Similarity=0.167 Sum_probs=42.8
Q ss_pred CCCCHHHHHHHHHHHHc--ccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHH-HHHHHHHHHHhhhhhhccch
Q 027365 82 VIRDPEIQRAFKDLMAA--DWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAV-EEFIGIIMNIKMEFDDEIGL 158 (224)
Q Consensus 82 ~i~Dp~i~~afKdLmA~--sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAv-EeFgGiL~~LrmeiDDl~Gl 158 (224)
..++..+.+++..|... +|..|-..-.++.+.+++..+=- .---+++...|+++ ++|+|.+...+.+|-.+=|+
T Consensus 38 qt~~~~~~~~~~~l~~~~pt~~~l~~~~~~~L~~~ir~~G~~---~~Ka~~i~~~a~~i~~~~~~~~~~~~~~L~~l~GI 114 (191)
T TIGR01083 38 QATDKSVNKATKKLFEVYPTPQALAQAGLEELEEYIKSIGLY---RNKAKNIIALCRILVERYGGEVPEDREELVKLPGV 114 (191)
T ss_pred hCcHHHHHHHHHHHHHHCCCHHHHHcCCHHHHHHHHHhcCCh---HHHHHHHHHHHHHHHHHcCCCCchHHHHHHhCCCC
Confidence 34677778888877753 22222121222333333332211 12235666777775 67888777788888888888
Q ss_pred h
Q 027365 159 S 159 (224)
Q Consensus 159 s 159 (224)
.
T Consensus 115 G 115 (191)
T TIGR01083 115 G 115 (191)
T ss_pred c
Confidence 7
No 26
>TIGR01084 mutY A/G-specific adenine glycosylase. This equivalog model identifies mutY members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY.
Probab=38.48 E-value=52 Score=29.33 Aligned_cols=71 Identities=14% Similarity=0.126 Sum_probs=43.7
Q ss_pred CCCHHHHHHHHHHHHcccCCCchhH----HHHHHhhhcccCCchhHHHHHHHHHHHHHHH-HHHHHHHHHHhhhhhhccc
Q 027365 83 IRDPEIQRAFKDLMAADWGELPASV----IHDAKSALSRNNDDKAGQEVLKNVFSAAEAV-EEFIGIIMNIKMEFDDEIG 157 (224)
Q Consensus 83 i~Dp~i~~afKdLmA~sW~elp~sv----v~~ak~alSk~tdDkaGqeaL~nvfrAAeAv-EeFgGiL~~LrmeiDDl~G 157 (224)
.++..+..++..|++. |-. |+++ ..++.+++...+=- . --+|+.++|+.+ ++|||.+-..+.+|-.|=|
T Consensus 39 T~v~~v~~~~~rl~~~-fpt-~~~La~a~~eeL~~~~~~lG~y--~--RAr~L~~~A~~i~~~~~g~~p~~~~~L~~LpG 112 (275)
T TIGR01084 39 TQVATVIPYFERFLER-FPT-VQALANAPQDEVLKLWEGLGYY--A--RARNLHKAAQEVVEEFGGEFPQDFEDLAALPG 112 (275)
T ss_pred ccHHHHHHHHHHHHHh-CCC-HHHHHCcCHHHHHHHHHHCCcH--H--HHHHHHHHHHHHHHHcCCCCcHHHHHHHhCCC
Confidence 3677788888888864 321 2222 23333333332221 1 146888899887 5688888877777777777
Q ss_pred hh
Q 027365 158 LS 159 (224)
Q Consensus 158 ls 159 (224)
+.
T Consensus 113 IG 114 (275)
T TIGR01084 113 VG 114 (275)
T ss_pred CC
Confidence 77
No 27
>TIGR03688 pupylate_PafA2 proteasome accessory factor PafA2. This protein family is paralogous to (and distinct from) the PafA (proteasome accessory factor) first described in Mycobacterium tuberculosis (see TIGR03686). Members of both this family and TIGR03686 itself tend to cluster with each other, with the ubiquitin analog Pup (TIGR03687) associated with targeting to the proteasome, and with proteasome subunits themselves.
Probab=37.75 E-value=7.2 Score=38.23 Aligned_cols=72 Identities=26% Similarity=0.350 Sum_probs=49.9
Q ss_pred cccccccccCCCCCCCCCHHHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHH-HH-HHH
Q 027365 68 GCNRSFSEDVAHMPVIRDPEIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEE-FI-GII 145 (224)
Q Consensus 68 ~~~R~fS~d~~hlP~i~Dp~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEe-Fg-GiL 145 (224)
|--|.|- | ..-|+.+-||..+.+.-+ .-|+||-.++. +|++++.+ -| |-|
T Consensus 87 NGaRlYv-D-haHPEYstpEc~~~~d~v-----------------------~~D~AGe~i~~---~A~~~l~~~~g~~~v 138 (485)
T TIGR03688 87 NGARFYV-D-HAHPEYSSPEVTNPRDAV-----------------------LYDKAGDRIMA---AAAEHAASVPGAPPL 138 (485)
T ss_pred CCceEec-c-CCCccccCcccCCHHHHH-----------------------HHHHhHHHHHH---HHHHHHHhCCCCCce
Confidence 5568888 5 457999999988766433 23789988887 55555555 33 356
Q ss_pred HHHhhhhhhccchhHHHHHHHHHhhcCCChhHHH
Q 027365 146 MNIKMEFDDEIGLSVYQRYATYLDAFGPDESYLR 179 (224)
Q Consensus 146 ~~LrmeiDDl~Glsay~rY~~YLdsFgpdE~yLr 179 (224)
.-.|.-.| .-| .|||-+||||=
T Consensus 139 ~l~KNN~D-~kG-----------~SyG~HENYLv 160 (485)
T TIGR03688 139 KLYKNNVD-GKG-----------ASYGSHENYLM 160 (485)
T ss_pred EEEecCcC-CCC-----------cccccccceec
Confidence 66666666 344 58999999974
No 28
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=37.67 E-value=2.5e+02 Score=23.61 Aligned_cols=58 Identities=14% Similarity=0.094 Sum_probs=39.4
Q ss_pred CCCCCCCCCHHHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHH
Q 027365 77 VAHMPVIRDPEIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAE 136 (224)
Q Consensus 77 ~~hlP~i~Dp~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAe 136 (224)
.-+++...+.++...++......--.+++.++...-+. +...--.+ +..+..++..|.
T Consensus 153 ~~~l~~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~-~~G~pR~~-~~ll~~~~~~a~ 210 (305)
T TIGR00635 153 ILRLEFYTVEELAEIVSRSAGLLNVEIEPEAALEIARR-SRGTPRIA-NRLLRRVRDFAQ 210 (305)
T ss_pred EEEeCCCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHH-hCCCcchH-HHHHHHHHHHHH
Confidence 44788889999999999988877777888777544332 22222233 777777776654
No 29
>TIGR03686 pupylate_PafA proteasome accessory factor PafA. Members of this family are PafA (proteasome accessory factor A), a protein shown to regulate steady-state levels of certain proteasome targets in Mycobacterium tuberculosis. Iyer, et al (2008) suggest that PafA is the ligase for Pup, a ubiquitin analog attached to an epsilon-amino group of a Lys side-chain to direct the target to the proteasome.
Probab=36.74 E-value=8.9 Score=37.38 Aligned_cols=76 Identities=26% Similarity=0.383 Sum_probs=49.9
Q ss_pred cccccccccCCCCCCCCCHHHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHH-HHHH--HHH
Q 027365 68 GCNRSFSEDVAHMPVIRDPEIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEA-VEEF--IGI 144 (224)
Q Consensus 68 ~~~R~fS~d~~hlP~i~Dp~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeA-vEeF--gGi 144 (224)
|--|.|- |+..-|+.+-||..+.+.-+ .-|+||-.++...-+.|+. ..+- ||-
T Consensus 48 NGaRlYv-D~gaHPEYstpEc~~~~d~v-----------------------~~D~AGe~i~~~~a~~a~~~l~~~g~~~~ 103 (453)
T TIGR03686 48 NGSRLYL-DVGSHPEYATAECDSLRQLI-----------------------AHDRAGELILNELADEAEQRLAEEGIGGT 103 (453)
T ss_pred CCceEEe-cCCCCCCcCCcccCCHHHHH-----------------------HHHHhHHHHHHHHHHHHHHHHHhcCCCCc
Confidence 4457777 88767999999988766433 2378998888877666642 2222 334
Q ss_pred HHHHhhhhhhccchhHHHHHHHHHhhcCCChhHHH
Q 027365 145 IMNIKMEFDDEIGLSVYQRYATYLDAFGPDESYLR 179 (224)
Q Consensus 145 L~~LrmeiDDl~Glsay~rY~~YLdsFgpdE~yLr 179 (224)
|.-+|.-.|- -| .|||-+||||=
T Consensus 104 v~l~KNN~D~-~G-----------~SyG~HENYLv 126 (453)
T TIGR03686 104 VYLFKNNTDS-AG-----------NSYGCHENYLV 126 (453)
T ss_pred eEEEecccCC-CC-----------cccccccceec
Confidence 4444544443 34 68999999973
No 30
>PRK06310 DNA polymerase III subunit epsilon; Validated
Probab=34.20 E-value=61 Score=27.90 Aligned_cols=89 Identities=12% Similarity=0.228 Sum_probs=45.0
Q ss_pred ccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccchh---------HH--------
Q 027365 99 DWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEFIGIIMNIKMEFDDEIGLS---------VY-------- 161 (224)
Q Consensus 99 sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeFgGiL~~LrmeiDDl~Gls---------ay-------- 161 (224)
.|.+.|.--...+-+.+....++ -+.|+.|+.-.|+-...+=. .++ .+++++-++ .|
T Consensus 130 ~~~~~~~~~L~~l~~~~g~~~~~--aH~Al~Da~at~~vl~~l~~---~~~-~~~~l~~~~~~~~~~~~~~fGK~kG~~~ 203 (250)
T PRK06310 130 EYGDSPNNSLEALAVHFNVPYDG--NHRAMKDVEINIKVFKHLCK---RFR-TLEQLKQILSKPIKMKYMPLGKHKGRLF 203 (250)
T ss_pred hcccCCCCCHHHHHHHCCCCCCC--CcChHHHHHHHHHHHHHHHH---hcc-cHHHHHHHhhcCcccccccCcccCCCCc
Confidence 35555543344444444443332 38888888777665444321 111 223333333 11
Q ss_pred ----HHHHHHHhhcCCChhHHHHHHHHhhhhhhhhhhhhhcCCC
Q 027365 162 ----QRYATYLDAFGPDESYLRKKVETELGSKMIFLKMRCAGLG 201 (224)
Q Consensus 162 ----~rY~~YLdsFgpdE~yLrKKVE~ELGtkmI~LKmRcsGlg 201 (224)
..|..++-.=|= ..||||++++ +||.||-|-+
T Consensus 204 ~~~~~~y~~w~~~~~~-~~~~~~~~~~-------~l~~~~~~~~ 239 (250)
T PRK06310 204 SEIPLEYLQWASKMDF-DQDLLFSIRS-------EIKHRKKGTG 239 (250)
T ss_pred ccCCHHHHHHHHhCCC-CcchHHHHHH-------HHHHhhccCc
Confidence 134444422121 2478888888 5789998854
No 31
>KOG4548 consensus Mitochondrial ribosomal protein L17 [Translation, ribosomal structure and biogenesis]
Probab=34.03 E-value=76 Score=29.42 Aligned_cols=109 Identities=29% Similarity=0.376 Sum_probs=69.7
Q ss_pred CCCCCCCCCH--HHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 027365 77 VAHMPVIRDP--EIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEFIGIIMNIKMEFDD 154 (224)
Q Consensus 77 ~~hlP~i~Dp--~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeFgGiL~~LrmeiDD 154 (224)
++.+|.++-| ++++-|.+|+..-|.| +-+..+-+-++=||.-+-.|++.. ...+-+.|+
T Consensus 34 l~R~Pvv~~~~se~EK~~~~ll~e~e~e----------~sl~~dhel~~~qe~~~~~~q~~~---------~~e~~~eDe 94 (263)
T KOG4548|consen 34 LSRLPVVAPPLSELEKRFYSLLMELEQE----------KSLKPDHELKAFQEEKEKAWQAQL---------RKEVDEEDE 94 (263)
T ss_pred hhhcccccCCCCHHHHHHHHHHHHHHHH----------hccCCcHHHHHHHHHHHHHHHHHH---------HHhhcccch
Confidence 3456666654 8999999999988872 222222333334442233333322 266788899
Q ss_pred ccchhHHHHHHH----HHh-----hcCC-ChhHHHHHHHHhhhhhhhhhhhhhcCCCCCc
Q 027365 155 EIGLSVYQRYAT----YLD-----AFGP-DESYLRKKVETELGSKMIFLKMRCAGLGSEW 204 (224)
Q Consensus 155 l~Glsay~rY~~----YLd-----sFgp-dE~yLrKKVE~ELGtkmI~LKmRcsGlgseW 204 (224)
-+|+++-.|=-. |++ .|+| |+.==+|-+|.+|..++..|=.||-|=-+-|
T Consensus 95 ~~~i~~~~~kd~~~~~~~~~~~~~RiTEaD~kNd~kSl~R~Ldr~LyLLV~~k~g~~s~w 154 (263)
T KOG4548|consen 95 FIGITANDRKDMWKKDLLDFDLPFRITEADPKNDRKSLERELDRKLYLLVKRKFGKSSVW 154 (263)
T ss_pred hhHHHHHHHHHHHHHHhhcccccccccCCCcccchhHHHHHhcceEEEEEeeccCcccee
Confidence 999995444333 333 3333 5666789999999999998888997766655
No 32
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=33.24 E-value=47 Score=24.05 Aligned_cols=22 Identities=45% Similarity=0.754 Sum_probs=17.2
Q ss_pred hhhhccchhHHH--HHHHHHhhcC
Q 027365 151 EFDDEIGLSVYQ--RYATYLDAFG 172 (224)
Q Consensus 151 eiDDl~Glsay~--rY~~YLdsFg 172 (224)
||-|.||+|.|+ +|..+|+.-|
T Consensus 20 eiA~~~gls~~~aR~yL~~Le~eG 43 (62)
T PF04703_consen 20 EIADALGLSIYQARYYLEKLEKEG 43 (62)
T ss_dssp HHHHHHTS-HHHHHHHHHHHHHCT
T ss_pred HHHHHhCCCHHHHHHHHHHHHHCC
Confidence 788999999765 7888888766
No 33
>PLN02466 aldehyde dehydrogenase family 2 member
Probab=32.43 E-value=2.6e+02 Score=26.87 Aligned_cols=49 Identities=24% Similarity=0.342 Sum_probs=33.6
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHHc----ccCCCchhH----HHHHHhhhcccCCchh
Q 027365 75 EDVAHMPVIRDPEIQRAFKDLMAA----DWGELPASV----IHDAKSALSRNNDDKA 123 (224)
Q Consensus 75 ~d~~hlP~i~Dp~i~~afKdLmA~----sW~elp~sv----v~~ak~alSk~tdDka 123 (224)
+-+.++|.....|+.+|++..-++ .|..+|..- +..+...|.++.|+.+
T Consensus 84 ~~i~~v~~~~~~dv~~Av~aA~~a~~~~~w~~~~~~~R~~~L~~~a~~l~~~~~ela 140 (538)
T PLN02466 84 EVIAHVAEGDAEDVNRAVAAARKAFDEGPWPKMTAYERSRILLRFADLLEKHNDELA 140 (538)
T ss_pred CEEEEEeCCCHHHHHHHHHHHHHHcCcCccccCCHHHHHHHHHHHHHHHHHhHHHHH
Confidence 456678888889999999877666 499888653 4445555555555544
No 34
>COG3215 PilZ Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=31.86 E-value=28 Score=28.89 Aligned_cols=20 Identities=35% Similarity=0.564 Sum_probs=17.5
Q ss_pred hcCCChh--HHHHHHHHhhhhh
Q 027365 170 AFGPDES--YLRKKVETELGSK 189 (224)
Q Consensus 170 sFgpdE~--yLrKKVE~ELGtk 189 (224)
.|+.+|+ -+|.++|++||..
T Consensus 86 ~f~d~e~g~~vr~~IE~~Lg~~ 107 (117)
T COG3215 86 QFTDGENGLKVRNQIETLLGGT 107 (117)
T ss_pred eccCCCchhhHHHHHHHHHHhh
Confidence 5888998 8899999999975
No 35
>PLN02289 ribulose-bisphosphate carboxylase small chain
Probab=31.53 E-value=39 Score=29.65 Aligned_cols=31 Identities=23% Similarity=0.573 Sum_probs=28.0
Q ss_pred cccccccCCCCCCCCCHHHHHHHHHHHHcccC
Q 027365 70 NRSFSEDVAHMPVIRDPEIQRAFKDLMAADWG 101 (224)
Q Consensus 70 ~R~fS~d~~hlP~i~Dp~i~~afKdLmA~sW~ 101 (224)
.|.| |+.+-||+++|.+|.+-..=|+.-.|.
T Consensus 64 ~kkf-ETfSYLPpLtdeqI~kQVeYli~~GW~ 94 (176)
T PLN02289 64 KKKF-ETLSYLPDLTDEELAKEVDYLLRNKWV 94 (176)
T ss_pred ccce-eeeecCCCCCHHHHHHHHHHHHhCCCe
Confidence 4555 799999999999999999999999996
No 36
>PRK07539 NADH dehydrogenase subunit E; Validated
Probab=30.29 E-value=2.9e+02 Score=22.25 Aligned_cols=48 Identities=6% Similarity=0.054 Sum_probs=35.7
Q ss_pred HHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccchh
Q 027365 107 VIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEFIGIIMNIKMEFDDEIGLS 159 (224)
Q Consensus 107 vv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeFgGiL~~LrmeiDDl~Gls 159 (224)
...+++..+.+.. ..+++|-.+.+.+| ++||=+=...-.+|-+.+|++
T Consensus 6 ~~~~~~~i~~~~~---~~~~~ll~~L~~vQ--~~~g~ip~~~~~~iA~~l~v~ 53 (154)
T PRK07539 6 ELAAIEREIAKYP---RPRSAVIPALKIVQ--EQRGWVPDEAIEAVADYLGMP 53 (154)
T ss_pred HHHHHHHHHHHCC---CCHHHHHHHHHHHH--HHhCCCCHHHHHHHHHHhCcC
Confidence 3445566666653 35778999999888 667777778888899999998
No 37
>TIGR01408 Ube1 ubiquitin-activating enzyme E1. This model represents the full length, over a thousand amino acids, of a multicopy family of eukaryotic proteins, many of which are designated ubiquitin-activating enzyme E1. Members have two copies of the ThiF family domain (pfam00899), a repeat found in ubiquitin-activating proteins (pfam02134), and other regions.
Probab=29.56 E-value=84 Score=33.13 Aligned_cols=16 Identities=6% Similarity=0.231 Sum_probs=9.7
Q ss_pred cceEEeeccCCCccch
Q 027365 205 GKVTVLGTSGLAGSYV 220 (224)
Q Consensus 205 GKVtlLGTSGLsGSYv 220 (224)
.+|.|+|..||++..+
T Consensus 420 ~kVlvvGaGGlG~e~l 435 (1008)
T TIGR01408 420 LNIFLVGCGAIGCEML 435 (1008)
T ss_pred CcEEEECCChHHHHHH
Confidence 3567777776665443
No 38
>PF10152 DUF2360: Predicted coiled-coil domain-containing protein (DUF2360); InterPro: IPR019309 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53.
Probab=29.51 E-value=32 Score=28.00 Aligned_cols=31 Identities=26% Similarity=0.444 Sum_probs=20.1
Q ss_pred HHHHHHHHHhhcCCChhHHHHHHHHhhhhhhhhhhhhhcCCCCCc
Q 027365 160 VYQRYATYLDAFGPDESYLRKKVETELGSKMIFLKMRCAGLGSEW 204 (224)
Q Consensus 160 ay~rY~~YLdsFgpdE~yLrKKVE~ELGtkmI~LKmRcsGlgseW 204 (224)
.|.||-+.| .+|=-.. -|..||+--|+++.|
T Consensus 115 ~y~kYfKMl-~~GvP~~-------------aVk~KM~~eGlDp~~ 145 (148)
T PF10152_consen 115 RYAKYFKML-KMGVPRE-------------AVKQKMQAEGLDPSL 145 (148)
T ss_pred cHHHHHHHH-HcCCCHH-------------HHHHHHHHcCCCHHH
Confidence 566666666 4563332 356778888888876
No 39
>COG3562 KpsS Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]
Probab=29.34 E-value=23 Score=34.38 Aligned_cols=32 Identities=34% Similarity=0.564 Sum_probs=24.1
Q ss_pred HHHHHHhhhhhhhhh---------hhhhcCCCCCccceEEeeccCCCc
Q 027365 179 RKKVETELGSKMIFL---------KMRCAGLGSEWGKVTVLGTSGLAG 217 (224)
Q Consensus 179 rKKVE~ELGtkmI~L---------KmRcsGlgseWGKVtlLGTSGLsG 217 (224)
|++++-|+++..+++ .|=| |-|||=+|||||+
T Consensus 293 ~~~~q~~v~~RvlYvhd~~lpvllr~a~-------GmVTvNsTsGlsa 333 (403)
T COG3562 293 RRFVQYEVKGRVLYVHDVPLPVLLRHAL-------GMVTVNSTSGLSA 333 (403)
T ss_pred HHHHHhccCceEEEecCCCchHHHHhcc-------ceEEEccccchHH
Confidence 566777888877765 3322 6799999999986
No 40
>PRK06041 flagellar assembly protein J; Reviewed
Probab=28.58 E-value=1.1e+02 Score=29.82 Aligned_cols=27 Identities=22% Similarity=0.384 Sum_probs=23.4
Q ss_pred HHHHHHHHHhhcCCChhHHHHHHHHhh
Q 027365 160 VYQRYATYLDAFGPDESYLRKKVETEL 186 (224)
Q Consensus 160 ay~rY~~YLdsFgpdE~yLrKKVE~EL 186 (224)
.++||..=++|=|+.+.||++|.|+-+
T Consensus 146 fl~~l~~~i~sG~~l~~fL~~e~~~~~ 172 (553)
T PRK06041 146 FLDRLAYSIDSGEPLKEFLKQEQDTVM 172 (553)
T ss_pred HHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence 788999999998999999999887643
No 41
>PF07849 DUF1641: Protein of unknown function (DUF1641); InterPro: IPR012440 Archaeal and bacterial hypothetical proteins are found in this family, with the region in question being approximately 40 residues long.
Probab=28.32 E-value=49 Score=22.10 Aligned_cols=16 Identities=44% Similarity=0.816 Sum_probs=12.8
Q ss_pred CCCCHHHHHHHHHHHH
Q 027365 82 VIRDPEIQRAFKDLMA 97 (224)
Q Consensus 82 ~i~Dp~i~~afKdLmA 97 (224)
.++||||+.++-=+++
T Consensus 19 ~l~DpdvqrgL~~ll~ 34 (42)
T PF07849_consen 19 ALRDPDVQRGLGFLLA 34 (42)
T ss_pred HHcCHHHHHHHHHHHH
Confidence 4689999999877664
No 42
>PF02074 Peptidase_M32: Carboxypeptidase Taq (M32) metallopeptidase; InterPro: IPR001333 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M32 (carboxypeptidase Taq family, clan MA(E)). The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. Carboxypeptidase Taq is a zinc-containing thermostable metallopeptidase. It was originally discovered and purified from Thermus aquaticus; optimal enzymatic activity occurs at 80 celcius. Although very little is known about this enzyme, it is thought either to be associated with a membrane or to be particle bound.; GO: 0004181 metallocarboxypeptidase activity, 0006508 proteolysis; PDB: 1K9X_A 1KA4_A 1KA2_A 3DWC_A 1WGZ_A 3HQ2_A 3HOA_B.
Probab=28.29 E-value=1.5e+02 Score=28.89 Aligned_cols=64 Identities=17% Similarity=0.422 Sum_probs=40.3
Q ss_pred CCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHHHH------HHHHHhhhhhhccchhHHHHHHHHHhhcCCCh
Q 027365 102 ELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEFIG------IIMNIKMEFDDEIGLSVYQRYATYLDAFGPDE 175 (224)
Q Consensus 102 elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeFgG------iL~~LrmeiDDl~Glsay~rY~~YLdsFgpdE 175 (224)
.||..++.+.-++-++ -.++|+.|+.-.-|.. .++.|+.|+-+..|-. -+.|-.-||.|.|+-
T Consensus 97 ~iP~elv~~~~~~~s~----------a~~~W~~AR~~nDf~~F~P~Le~iv~l~re~a~~~~~~-~~~YDaLLd~yEpg~ 165 (494)
T PF02074_consen 97 KIPEELVEELARLTSE----------AEQAWEEARENNDFSAFAPYLEKIVELQREIAEYLGYE-LSPYDALLDDYEPGM 165 (494)
T ss_dssp CS-HHHHHHHHHHHHH----------HHHHHHHHHHCT-HHHHHHHHHHHHHHHHHHHHHCTST-TSHHHHHHHHHSTT-
T ss_pred CCCHHHHHHHHHHHHH----------HHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHhcCC-CCcHHHHHhhhCCCC
Confidence 3555555554444444 3578888887666665 3567778888888732 345999999999874
Q ss_pred h
Q 027365 176 S 176 (224)
Q Consensus 176 ~ 176 (224)
.
T Consensus 166 t 166 (494)
T PF02074_consen 166 T 166 (494)
T ss_dssp -
T ss_pred C
Confidence 3
No 43
>PF15062 ARL6IP6: Haemopoietic lineage transmembrane helix
Probab=27.80 E-value=13 Score=29.27 Aligned_cols=30 Identities=20% Similarity=0.333 Sum_probs=22.1
Q ss_pred HHHHHHHHHhhhhhhccchh--HHHHHHHHHhhcCCCh
Q 027365 140 EFIGIIMNIKMEFDDEIGLS--VYQRYATYLDAFGPDE 175 (224)
Q Consensus 140 eFgGiL~~LrmeiDDl~Gls--ay~rY~~YLdsFgpdE 175 (224)
.|++.+.++ ++|+. .|.=++.|||||.|.=
T Consensus 22 ~~~~~~~~l------l~Gllv~~Ft~~ivYlDS~~PGv 53 (85)
T PF15062_consen 22 QVGSLLSSL------LCGLLVCSFTWTIVYLDSSEPGV 53 (85)
T ss_pred hhhHHHHHH------HHHHHHHHhhheeEEecccCCCC
Confidence 345555444 67877 8899999999998753
No 44
>PRK15338 type III secretion system regulator InvE; Provisional
Probab=26.21 E-value=2.3e+02 Score=27.30 Aligned_cols=93 Identities=13% Similarity=0.237 Sum_probs=58.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHHHHHH----HHHhhhhh
Q 027365 78 AHMPVIRDPEIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEFIGII----MNIKMEFD 153 (224)
Q Consensus 78 ~hlP~i~Dp~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeFgGiL----~~LrmeiD 153 (224)
..+| .+.|..-|+++|+- =.+|++.+...++.++.. -.-..|.-+++-=.-.|.....||+.+ ..||.---
T Consensus 117 q~Fp--D~SDl~~aLreLl~--r~kL~~~~~~~le~al~~-Le~e~~~K~ikAGINvAL~Ak~Fs~~~~lsa~~LR~lYR 191 (372)
T PRK15338 117 KLFP--DPSDLVLVLRELLR--RKQLEEIVRKKLESLLKH-VEEETDPKTLKAGINCALKARLFGKALSLKPGLLRASYR 191 (372)
T ss_pred HhCC--CHHHHHHHHHHHHh--CccCCHHHHHHHHHHHHH-HHhhcCcHHHHhcCcHHHHHHHHHhhcCCCHHHHHHHHH
Confidence 3445 35688999999887 568999665555555543 111222323343355677778899864 44666555
Q ss_pred hccchh--HHHHHHHHHhhcCCCh
Q 027365 154 DEIGLS--VYQRYATYLDAFGPDE 175 (224)
Q Consensus 154 Dl~Gls--ay~rY~~YLdsFgpdE 175 (224)
|-+-.- +..=|..+++.||-++
T Consensus 192 ~Fl~~d~~~~~iY~~Wieeyg~~~ 215 (372)
T PRK15338 192 QFLQSESHEVEIYSDWIASYGYQR 215 (372)
T ss_pred HHHhccCcHHHHHHHHHHHhCccH
Confidence 544433 6677888999998875
No 45
>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]
Probab=25.61 E-value=86 Score=30.64 Aligned_cols=37 Identities=19% Similarity=0.495 Sum_probs=33.2
Q ss_pred HcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHHHHH
Q 027365 97 AADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEFIGI 144 (224)
Q Consensus 97 A~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeFgGi 144 (224)
..+|+.|||.+....-++|.| |+..+++--|..|+|+
T Consensus 95 gv~~~slpDEill~IFs~L~k-----------k~LL~~~~VC~Rfyr~ 131 (419)
T KOG2120|consen 95 GVSWDSLPDEILLGIFSCLCK-----------KELLKVSGVCKRFYRL 131 (419)
T ss_pred CCCcccCCHHHHHHHHHhccH-----------HHHHHHHHHHHHHhhc
Confidence 457999999999999999987 6778899999999995
No 46
>cd00056 ENDO3c endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases
Probab=25.45 E-value=1.8e+02 Score=22.36 Aligned_cols=98 Identities=19% Similarity=0.259 Sum_probs=52.1
Q ss_pred CCCHHHHHHHHHHHHc---ccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHH-HHHHH---HHHhhhhhhc
Q 027365 83 IRDPEIQRAFKDLMAA---DWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEE-FIGII---MNIKMEFDDE 155 (224)
Q Consensus 83 i~Dp~i~~afKdLmA~---sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEe-FgGiL---~~LrmeiDDl 155 (224)
+++..+.+++..|.+. +|..|-..-..+.+.++...+ -..--+.+..+|+++.+ ++|.. ..++.+|-.+
T Consensus 13 ~s~~~a~~~~~~l~~~~gpt~~~l~~~~~~~l~~~~~~~G----~~~kA~~i~~~a~~~~~~~~~~~~~~~~~~~~L~~l 88 (158)
T cd00056 13 TTDKAVNKAYERLFERYGPTPEALAAADEEELRELIRSLG----YRRKAKYLKELARAIVEGFGGLVLDDPDAREELLAL 88 (158)
T ss_pred ccHHHHHHHHHHHHHHhCCCHHHHHCCCHHHHHHHHHhcC----hHHHHHHHHHHHHHHHHHcCCccCCCcccHHHHHcC
Confidence 3455566666666554 222222222233444444433 12344566677777655 55555 7888888889
Q ss_pred cchhHHHHHHHHHhhcCCC----hhHHHHHHHH
Q 027365 156 IGLSVYQRYATYLDAFGPD----ESYLRKKVET 184 (224)
Q Consensus 156 ~Glsay~rY~~YLdsFgpd----E~yLrKKVE~ 184 (224)
-|+.-+.-=+--+..||++ ..++++-+..
T Consensus 89 ~GIG~~tA~~~l~~~~~~~~~pvD~~v~r~~~~ 121 (158)
T cd00056 89 PGVGRKTANVVLLFALGPDAFPVDTHVRRVLKR 121 (158)
T ss_pred CCCCHHHHHHHHHHHCCCCCCccchhHHHHHHH
Confidence 9988444434444455533 4555554443
No 47
>PRK09847 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional
Probab=25.13 E-value=2.1e+02 Score=26.91 Aligned_cols=49 Identities=16% Similarity=0.307 Sum_probs=36.0
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHHc----ccCCCchh----HHHHHHhhhcccCCchh
Q 027365 75 EDVAHMPVIRDPEIQRAFKDLMAA----DWGELPAS----VIHDAKSALSRNNDDKA 123 (224)
Q Consensus 75 ~d~~hlP~i~Dp~i~~afKdLmA~----sW~elp~s----vv~~ak~alSk~tdDka 123 (224)
+-+..+|..+..++..|++..-++ .|..+|.. ++..+...|.++.|+.+
T Consensus 46 ~~i~~v~~~~~~dv~~av~aA~~a~~~~~W~~~~~~~R~~~L~~~a~~l~~~~~ela 102 (494)
T PRK09847 46 APLAKIARGKSVDIDRAVSAARGVFERGDWSLSSPAKRKAVLNKLADLMEAHAEELA 102 (494)
T ss_pred CEEEEEeCCCHHHHHHHHHHHHHhcCCCccccCCHHHHHHHHHHHHHHHHHhHHHHH
Confidence 456778889999999999988776 59999954 45556666666655543
No 48
>PRK11241 gabD succinate-semialdehyde dehydrogenase I; Provisional
Probab=24.43 E-value=1.1e+02 Score=28.85 Aligned_cols=49 Identities=20% Similarity=0.354 Sum_probs=35.9
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHHc--ccCCCch----hHHHHHHhhhcccCCchh
Q 027365 75 EDVAHMPVIRDPEIQRAFKDLMAA--DWGELPA----SVIHDAKSALSRNNDDKA 123 (224)
Q Consensus 75 ~d~~hlP~i~Dp~i~~afKdLmA~--sW~elp~----svv~~ak~alSk~tdDka 123 (224)
+-+..+|..+..|+..|++..-++ .|..+|. .++..+...|.++.|+.+
T Consensus 37 ~~v~~~~~~~~~~v~~av~~A~~a~~~W~~~~~~~R~~~L~~~a~~l~~~~~ela 91 (482)
T PRK11241 37 DKLGSVPKMGADETRAAIDAANRALPAWRALTAKERANILRRWFNLMMEHQDDLA 91 (482)
T ss_pred CEEEEEeCCCHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhHHHHH
Confidence 456778888888999999888765 6999984 456666777766655544
No 49
>PF01579 DUF19: Domain of unknown function (DUF19); InterPro: IPR002542 This presumed domain has no known function. It is found in one or two copies in several Caenorhabditis elegans proteins. The domain is roughly 130 amino acids long and contains 12 conserved cysteines, which suggests that it is an extracellular domain and that these cysteines form six intra-domain disulphide bridges.
Probab=24.10 E-value=50 Score=24.56 Aligned_cols=40 Identities=23% Similarity=0.390 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhccchhHHHHHHHHHh
Q 027365 130 NVFSAAEAVEEFIGIIMNIKMEFDDEIGLSVYQRYATYLD 169 (224)
Q Consensus 130 nvfrAAeAvEeFgGiL~~LrmeiDDl~Glsay~rY~~YLd 169 (224)
..+..-++|+.|-|...=++.+|-+.||-..+++|..++.
T Consensus 107 ~~~~~~~~C~~~~~~~~C~~~~i~~~Cg~~~~~~f~~~~~ 146 (160)
T PF01579_consen 107 KSFDSKESCENFFGEKNCMKKEIKETCGDESWEKFRKHLL 146 (160)
T ss_pred hcccccccchhhcchhhHHHHHHHHHcCHHHHHHHHHHHH
Confidence 3344567888899999999999999999999999998886
No 50
>PTZ00226 fumarate hydratase; Provisional
Probab=23.51 E-value=1.8e+02 Score=29.42 Aligned_cols=65 Identities=8% Similarity=-0.015 Sum_probs=51.0
Q ss_pred cCCCCCCCCCHHHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHH
Q 027365 76 DVAHMPVIRDPEIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEE 140 (224)
Q Consensus 76 d~~hlP~i~Dp~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEe 140 (224)
+-..|..|.-.+|..+.++++..-=..||+.+.+..++++........++.+|.+..+-|+..++
T Consensus 64 ~~~~m~~v~~e~l~~~~~~a~~~a~~~Lp~D~~~aL~~a~~d~E~s~~~k~vl~~iL~Na~iA~~ 128 (570)
T PTZ00226 64 GGKEILKVPPEALTKLTSYAFSDIQHFLRKSHLAQLRRILDDPEASDNDRFVAMTLLKNACIAAG 128 (570)
T ss_pred CCceeeeecHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHhCccCCHHHHHHHHHHHHHHHHHhc
Confidence 34556666534488899999988889999999999999998656666688888888887776654
No 51
>TIGR01600 phage_tail_L lambda-like phage minor tail protein L. This model detects members of the family of phage lambda minor tail protein L.
Probab=23.43 E-value=22 Score=32.03 Aligned_cols=31 Identities=23% Similarity=0.515 Sum_probs=27.4
Q ss_pred HHHHHHHHHhhhhhhccchh--HHHHHHHHHhh
Q 027365 140 EFIGIIMNIKMEFDDEIGLS--VYQRYATYLDA 170 (224)
Q Consensus 140 eFgGiL~~LrmeiDDl~Gls--ay~rY~~YLds 170 (224)
-+.|++.+|-..+||++|-. .++=|+.|||+
T Consensus 73 Nl~G~Ital~~~~~dlvgAkV~r~~t~a~yLDa 105 (225)
T TIGR01600 73 NLFGLVSAMAEDLDSLVGATVVRRRTLARFLDA 105 (225)
T ss_pred ccccHHHHHHHHhCcccCcEEEEEEehhhhCcc
Confidence 37899999999999999977 67778999998
No 52
>PF10191 COG7: Golgi complex component 7 (COG7); InterPro: IPR019335 The conserved oligomeric Golgi (COG) complex is an eight-subunit (Cog1-8) peripheral Golgi protein involved in membrane trafficking and glycoconjugate synthesis []. COG7 is required for normal Golgi morphology and trafficking. Mutation in COG7 causes a congenital disorder of glycosylation [].
Probab=23.41 E-value=1.8e+02 Score=29.40 Aligned_cols=81 Identities=19% Similarity=0.306 Sum_probs=55.2
Q ss_pred HHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh---hhccch-----hHHH
Q 027365 91 AFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEFIGIIMNIKMEF---DDEIGL-----SVYQ 162 (224)
Q Consensus 91 afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeFgGiL~~Lrmei---DDl~Gl-----say~ 162 (224)
.+-.|++..+..|.+++......++..+. +...|.......++.+.|+.-|..+-.+. .|+.-+ ..|.
T Consensus 279 ~~~~ll~~~L~~L~PS~~~~l~~al~~~~----~~~~L~~L~~l~~~t~~Fa~~l~~~l~~~~~~~~l~~~~~l~~al~~ 354 (766)
T PF10191_consen 279 VLPKLLAETLSALQPSFPSRLSSALKRAG----PETKLETLIELYQATEHFARNLEHLLSSLPGESNLSKVEELLQALFE 354 (766)
T ss_pred HHHHHHHHHHHhcCccHHHHHHHHHhhcC----chhhHHHHHHHHHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHH
Confidence 45566666778899998877777775432 22236666667778888998777766553 233222 2799
Q ss_pred HHHHHHhhcCCCh
Q 027365 163 RYATYLDAFGPDE 175 (224)
Q Consensus 163 rY~~YLdsFgpdE 175 (224)
=|..|...||.-|
T Consensus 355 PF~~~q~~Yg~lE 367 (766)
T PF10191_consen 355 PFKPYQQRYGELE 367 (766)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999998755
No 53
>PF03789 ELK: ELK domain ; InterPro: IPR005539 This domain is required for the nuclear localisation of these proteins []. All of these proteins are members of the Tale/Knox homeodomain family, a subfamily, containing homeobox IPR001356 from INTERPRO.; GO: 0003677 DNA binding, 0005634 nucleus
Probab=23.23 E-value=61 Score=19.91 Aligned_cols=15 Identities=27% Similarity=0.693 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHhhhh
Q 027365 138 VEEFIGIIMNIKMEF 152 (224)
Q Consensus 138 vEeFgGiL~~Lrmei 152 (224)
...++|-|.+||.||
T Consensus 7 lrkY~g~i~~Lr~Ef 21 (22)
T PF03789_consen 7 LRKYSGYISSLRQEF 21 (22)
T ss_pred HHHHhHhHHHHHHHh
Confidence 357899999999987
No 54
>COG2766 PrkA Putative Ser protein kinase [Signal transduction mechanisms]
Probab=22.98 E-value=1.3e+02 Score=31.02 Aligned_cols=27 Identities=41% Similarity=0.836 Sum_probs=20.9
Q ss_pred HHHHHHHHHhhc---------------CCC--hhHHHHHHHHhhh
Q 027365 160 VYQRYATYLDAF---------------GPD--ESYLRKKVETELG 187 (224)
Q Consensus 160 ay~rY~~YLdsF---------------gpd--E~yLrKKVE~ELG 187 (224)
.+.||++|.++| .|| |..||+ +|..+|
T Consensus 505 l~d~Yvdnv~Awi~d~~~~D~~TGee~~pd~le~~L~~-iEe~~G 548 (649)
T COG2766 505 LFDRYVDNVDAWINDQTVRDPATGEELNPDALEKELRS-IEEQAG 548 (649)
T ss_pred HHHHHHHHHHHHhccCcccCcccccccCccHHHHHHHH-HHHhcC
Confidence 789999999875 577 888874 676665
No 55
>PF12767 SAGA-Tad1: Transcriptional regulator of RNA polII, SAGA, subunit; InterPro: IPR024738 The yeast Spt-Ada-Gcn5-Acetyl (SAGA) transferase complex is a multifunctional coactivator involved in multiple cellular processes [], including regulation of transcription by RNA polymerase II [, ]. It is formed of five major modular subunits and shows a high degree of structural conservation to human TFTC and STAGA []. This entry represents Ada1 (known as Tada1 in higher eukaryotes), one of the subunits that constitute the SAGA core. It also functions as a component of the SALSA and SLIK complexes. ; GO: 0070461 SAGA-type complex
Probab=22.54 E-value=73 Score=27.41 Aligned_cols=49 Identities=18% Similarity=0.375 Sum_probs=33.0
Q ss_pred HHHHhhhhhhccchhHHHHHHHHHhhcCCC---hhHHHHHHHHhhhhhhhhh
Q 027365 145 IMNIKMEFDDEIGLSVYQRYATYLDAFGPD---ESYLRKKVETELGSKMIFL 193 (224)
Q Consensus 145 L~~LrmeiDDl~Glsay~rY~~YLdsFgpd---E~yLrKKVE~ELGtkmI~L 193 (224)
|..||.+|.+.+|-...++|-.+|..|=-. -.=+-+.+..-||..-|||
T Consensus 11 l~~lk~~l~~~LG~~~~~~Y~~~l~~fl~~klsk~Efd~~~~~~L~~~~~~L 62 (252)
T PF12767_consen 11 LEELKSQLQKRLGPDRWKKYFQSLKRFLSGKLSKEEFDKECRRILGRENVHL 62 (252)
T ss_pred HHHHHHHHHHHHChHHHHHHHHHHHHHHHhccCHHHHHHHHHHHhChhHHHH
Confidence 678999999999999999999999876110 0001123344466666665
No 56
>PF03810 IBN_N: Importin-beta N-terminal domain; InterPro: IPR001494 Karyopherins are a group of proteins involved in transporting molecules through the pores of the nuclear envelope. Karyopherins, which may act as importins or exportins, are part of the Importin-beta super-family, which all share a similar three-dimensional structure. Members of the importin-beta (karyopherin-beta) family can bind and transport cargo by themselves, or can form heterodimers with importin-alpha. As part of a heterodimer, importin-beta mediates interactions with the pore complex, while importin-alpha acts as an adaptor protein to bind the nuclear localisation signal (NLS) on the cargo through the classical NLS import of proteins. Importin-beta is a helicoidal molecule constructed from 19 HEAT repeats. Many nuclear pore proteins contain FG sequence repeats that can bind to HEAT repeats within importins [, ], which is important for importin-beta mediated transport. Ran GTPase helps to control the unidirectional transfer of cargo. The cytoplasm contains primarily RanGDP and the nucleus RanGTP through the actions of RanGAP and RanGEF, respectively. In the nucleus, RanGTP binds to importin-beta within the importin/cargo complex, causing a conformational change in importin-beta that releases it from importin-alpha-bound cargo. As a result, the N-terminal auto-inhibitory region on importin-alpha is free to loop back and bind to the major NLS-binding site, causing the cargo to be released []. There are additional release factors as well. This entry represents the N-terminal domain of karyopherins that is important for the binding of the Ran protein []. More information about these proteins can be found at Protein of the Month: Importins [].; GO: 0008565 protein transporter activity, 0006886 intracellular protein transport; PDB: 3NC1_A 3NBY_D 3NBZ_D 3NC0_A 3GJX_D 1IBR_D 1QGR_A 3LWW_A 1F59_A 2Q5D_A ....
Probab=22.51 E-value=94 Score=20.77 Aligned_cols=25 Identities=32% Similarity=0.639 Sum_probs=21.5
Q ss_pred HHHHHHHcccC--------CCchhHHHHHHhhh
Q 027365 91 AFKDLMAADWG--------ELPASVIHDAKSAL 115 (224)
Q Consensus 91 afKdLmA~sW~--------elp~svv~~ak~al 115 (224)
.||.....+|+ .+|+..-..+|..|
T Consensus 39 ~LKn~I~~~W~~~~~~~~~~~~~~~k~~Ik~~l 71 (77)
T PF03810_consen 39 LLKNLIKKNWSPSKQKGWSQLPEEEKEQIKSQL 71 (77)
T ss_dssp HHHHHHHHSGGHHHHHHHHGSSHHHHHHHHHHH
T ss_pred HHHHHHHHcCchhhccCCCCCCHHHHHHHHHHH
Confidence 58999999999 89999888888765
No 57
>KOG0034 consensus Ca2+/calmodulin-dependent protein phosphatase (calcineurin subunit B), EF-Hand superfamily protein [Signal transduction mechanisms]
Probab=22.40 E-value=81 Score=26.91 Aligned_cols=48 Identities=8% Similarity=0.169 Sum_probs=41.5
Q ss_pred CCCHHHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHH
Q 027365 83 IRDPEIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKN 130 (224)
Q Consensus 83 i~Dp~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~n 130 (224)
|+-.|++..++.+...+|++..+.+...+.+.+.+..-|+-|+=-+..
T Consensus 121 I~reel~~iv~~~~~~~~~~~~e~~~~i~d~t~~e~D~d~DG~IsfeE 168 (187)
T KOG0034|consen 121 ISREELKQILRMMVGENDDMSDEQLEDIVDKTFEEADTDGDGKISFEE 168 (187)
T ss_pred CcHHHHHHHHHHHHccCCcchHHHHHHHHHHHHHHhCCCCCCcCcHHH
Confidence 888999999999999999997888889999999998888888654443
No 58
>PF07528 DZF: DZF domain; InterPro: IPR006561 This domain is found in proteins containing the double-stranded RNA-binding motif, DSRM (IPR001159 from INTERPRO), or the zinc finger domain C2H2 (IPR007087 from INTERPRO). This domain is found exclusively in the metazoa.
Probab=22.25 E-value=1.3e+02 Score=26.80 Aligned_cols=67 Identities=15% Similarity=0.267 Sum_probs=50.3
Q ss_pred ccccccccccCCCCCCCCCHHHHHHHHHHHH--cccCCCch-hHHHHHHhhhcccC--CchhHHHHHHHHHHHH
Q 027365 67 IGCNRSFSEDVAHMPVIRDPEIQRAFKDLMA--ADWGELPA-SVIHDAKSALSRNN--DDKAGQEVLKNVFSAA 135 (224)
Q Consensus 67 ~~~~R~fS~d~~hlP~i~Dp~i~~afKdLmA--~sW~elp~-svv~~ak~alSk~t--dDkaGqeaL~nvfrAA 135 (224)
+--.|.|.++..++|.| --+-..||||-. -.|..|++ .+.--+.++++.|+ .--.=-+|+..||.+-
T Consensus 114 lRhakWFq~~a~~l~s~--~~viRIlrDl~~R~p~w~~L~~W~leLL~~~~i~~~~~~~~l~~g~a~RRvle~l 185 (248)
T PF07528_consen 114 LRHAKWFQARANGLQSC--VIVIRILRDLRQRVPTWQPLSSWALELLVEKAISNNSSRQPLSPGDAFRRVLECL 185 (248)
T ss_pred HHHhHHHHHHhccCCCc--ceehhhHHHHHHhCCCCCCCChhHHHHHHHHHeeeCCCCCCCChHHHHHHHHHHH
Confidence 44457799999999988 467889999965 46999999 56668999999443 3333348888888764
No 59
>TIGR00270 conserved hypothetical protein TIGR00270.
Probab=22.23 E-value=1.9e+02 Score=23.98 Aligned_cols=55 Identities=20% Similarity=0.242 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHHhhh-------hhhccchh--HHHHHHHHHhhcCCChhHHHHHHHHhhhhhhhhh
Q 027365 136 EAVEEFIGIIMNIKME-------FDDEIGLS--VYQRYATYLDAFGPDESYLRKKVETELGSKMIFL 193 (224)
Q Consensus 136 eAvEeFgGiL~~Lrme-------iDDl~Gls--ay~rY~~YLdsFgpdE~yLrKKVE~ELGtkmI~L 193 (224)
+.++.||-.|..+|.+ +-+.+|++ .++||-. ...-|....+ +|++..||..+..|
T Consensus 65 ~l~~~~g~~Ir~~Re~~glSqeeLA~~lgvs~s~IsriE~--G~~~Ps~~~l-~kLa~~Lgvsl~el 128 (154)
T TIGR00270 65 ELVEDYGIIIRREREKRGWSQEQLAKKIQEKESLIKKIEN--AEIEPEPKVV-EKLEKLLKIKLREQ 128 (154)
T ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHC--CCCCCCHHHH-HHHHHHhCCCHHHH
Confidence 6777888888888764 45556665 4444432 2355776655 78999999999886
No 60
>PF13863 DUF4200: Domain of unknown function (DUF4200)
Probab=22.05 E-value=3.2e+02 Score=20.44 Aligned_cols=80 Identities=19% Similarity=0.231 Sum_probs=45.8
Q ss_pred HHHHHHcccCCCchhHHH------HHHhhhcccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccc--------
Q 027365 92 FKDLMAADWGELPASVIH------DAKSALSRNNDDKAGQEVLKNVFSAAEAVEEFIGIIMNIKMEFDDEIG-------- 157 (224)
Q Consensus 92 fKdLmA~sW~elp~svv~------~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeFgGiL~~LrmeiDDl~G-------- 157 (224)
....+...|.+|-..-.. ...+.|.. +|. .=..|++.+=.......+-..-|..|+.+|+.|--
T Consensus 26 ~~~~~~~~e~~L~~~e~~l~~~~~~f~~flke-n~~-k~~rA~k~a~~e~k~~~~k~~ei~~l~~~l~~l~~~~~k~e~~ 103 (126)
T PF13863_consen 26 REEQLKQREEELEKKEQELEEDVIKFDKFLKE-NEA-KRERAEKRAEEEKKKKEEKEAEIKKLKAELEELKSEISKLEEK 103 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334555666666544332 22333333 222 22456666666666666666666666666665532
Q ss_pred hhHHHHHHHHHhhcCC
Q 027365 158 LSVYQRYATYLDAFGP 173 (224)
Q Consensus 158 lsay~rY~~YLdsFgp 173 (224)
+.-|+.|-.||+.+=|
T Consensus 104 l~~~~~Y~~fL~~v~~ 119 (126)
T PF13863_consen 104 LEEYKKYEEFLEKVVP 119 (126)
T ss_pred HHHHHHHHHHHHHhcc
Confidence 2288999999988755
No 61
>PF03136 Pup_ligase: Pup-ligase protein; InterPro: IPR004347 Pupylation is a novel protein modification system found in some bacteria []. This entry represents two related groups of proteins involved in this system. Pup ligases, such as PafA, conjugate the prokaryotic ubiquitin-like protein Pup to lysine residues in target proteins, marking them for degradation []. Pup deamidases, such as PafD, catalyse the deamidation of the Pup C-terminal glutamine to glutamate, thereby rendering the protein competent for conjugation []. It has been suggested that proteins in this entry are related to gamma-glutamyl-cysteine synthetases []. ; GO: 0010498 proteasomal protein catabolic process, 0019941 modification-dependent protein catabolic process
Probab=22.03 E-value=32 Score=33.37 Aligned_cols=76 Identities=28% Similarity=0.359 Sum_probs=50.7
Q ss_pred ccccccccccCCCCCCCCCHHHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHH-HHHH
Q 027365 67 IGCNRSFSEDVAHMPVIRDPEIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEF-IGII 145 (224)
Q Consensus 67 ~~~~R~fS~d~~hlP~i~Dp~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeF-gGiL 145 (224)
-|--|.|- |-+| |+.+-||..+.+.- ++ -|+||..++...-+.|+....- ||.+
T Consensus 70 ~NGaRlYv-D~aH-PEYsTPEc~~~~d~-v~----------------------~DrAGe~i~~~aa~~a~~~~~~~~~~v 124 (444)
T PF03136_consen 70 PNGARLYV-DHAH-PEYSTPECDSPRDL-VA----------------------YDRAGERIMQDAAREAEQRLGEEGGEV 124 (444)
T ss_pred cCcceEee-cCCC-cCccCcccCCHHHH-HH----------------------HHHHHHHHHHHHHHHHHHhhhccCcce
Confidence 44568887 5555 99999998776532 22 3799999998776666554332 2455
Q ss_pred HHHhhhhhhccchhHHHHHHHHHhhcCCChhHHH
Q 027365 146 MNIKMEFDDEIGLSVYQRYATYLDAFGPDESYLR 179 (224)
Q Consensus 146 ~~LrmeiDDl~Glsay~rY~~YLdsFgpdE~yLr 179 (224)
.=+|.-.|- -| .|||-+||||=
T Consensus 125 ~l~KNN~D~-~G-----------~SyG~HENYLv 146 (444)
T PF03136_consen 125 HLYKNNVDS-KG-----------NSYGCHENYLV 146 (444)
T ss_pred EEeeccccc-cc-----------cccccccceEE
Confidence 555555543 34 57999999984
No 62
>PF01077 NIR_SIR: Nitrite and sulphite reductase 4Fe-4S domain; InterPro: IPR006067 Sulphite reductases (SiRs) and related nitrite reductases (NiRs) catalyse the six-electron reduction reactions of sulphite to sulphide, and nitrite to ammonia, respectively. The Escherichia coli SiR enzyme is a complex composed of two proteins, a flavoprotein alpha-component (SiR-FP) and a hemoprotein beta-component (SiR-HP) (IPR005117 from INTERPRO), and has an alpha(8)beta(4) quaternary structure []. SiR-FP contains both FAD and FMN, while SiR-HP contains a Fe(4)S(4) cluster coupled to a siroheme through a cysteine bridge. Electrons are transferred from NADPH to FAD, and on to FMN in SiR-FP, from which they are transferred to the metal centre of SiR-HP, where they reduce the siroheme-bound sulphite. SiR-HP has a two-fold symmetry, which generates a distinctive three-domain alpha/beta fold that controls assembly and reactivity []. In the E. coli SiR-HP enzyme (1.8.1.2 from EC), the iron is bound to cysteine residues at positions 433, 439, 478 and 482, the latter also forming the siroheme ligand.; GO: 0016491 oxidoreductase activity, 0020037 heme binding, 0051536 iron-sulfur cluster binding, 0055114 oxidation-reduction process; PDB: 1ZJ8_B 1ZJ9_A 2AKJ_A 3VKT_A 3VKR_A 3VKS_A 3B0M_A 3B0N_A 3VKP_A 3B0J_A ....
Probab=21.95 E-value=35 Score=26.49 Aligned_cols=27 Identities=30% Similarity=0.717 Sum_probs=19.6
Q ss_pred HHHHHHHhhcCCChhHHHHHHHHhhhhhh
Q 027365 162 QRYATYLDAFGPDESYLRKKVETELGSKM 190 (224)
Q Consensus 162 ~rY~~YLdsFgpdE~yLrKKVE~ELGtkm 190 (224)
.|+..|++..|++ .+|+.||.+||-|+
T Consensus 131 er~~~~i~r~G~e--~~~~~v~~~~~~~~ 157 (157)
T PF01077_consen 131 ERFKDFIERLGFE--KFREEVEERLGHKF 157 (157)
T ss_dssp -SHHHHHHHHHHH--HHHHHHHHTSCGG-
T ss_pred CCHHHHHHHHCHH--HHHHHHHHHhCcCC
Confidence 4777788888765 47888898888664
No 63
>PF05480 Staph_haemo: Staphylococcus haemolytic protein; InterPro: IPR008846 This family consists of several different short Staphylococcal proteins, it contains SLUSH A, B and C proteins as well as haemolysin and gonococcal growth inhibitor. Some strains of the coagulase-negative Staphylococcus lugdunensis produce a synergistic hemolytic activity (SLUSH), phenotypically similar to the delta-hemolysin of S. aureus []. Gonococcal growth inhibitor from Staphylococcus acts on the cytoplasmic membrane of the gonococcal cell causing cytoplasmic leakage and, eventually, death [].; GO: 0009405 pathogenesis
Probab=21.94 E-value=66 Score=22.63 Aligned_cols=29 Identities=17% Similarity=0.402 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHcccCCCchhHHHHHHhhh
Q 027365 87 EIQRAFKDLMAADWGELPASVIHDAKSAL 115 (224)
Q Consensus 87 ~i~~afKdLmA~sW~elp~svv~~ak~al 115 (224)
.|.++.+.=...+|.+|--|.++.+.+.+
T Consensus 7 AI~n~V~Ag~~~Dwa~lgtsIv~iv~ngv 35 (43)
T PF05480_consen 7 AIKNTVQAGQNQDWAKLGTSIVDIVENGV 35 (43)
T ss_pred HHHHHHHHHHhccHHHHHHHHHHHHHHHH
Confidence 56777788888999999999999988754
No 64
>cd07149 ALDH_y4uC Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1. Uncharacterized aldehyde dehydrogenase (ORF name y4uC) with sequence similarity to the moss Tortula ruralis aldehyde dehydrogenase ALDH21A1 (RNP123) believed to play an important role in the detoxification of aldehydes generated in response to desiccation- and salinity-stress, and similar sequences are included in this CD.
Probab=21.90 E-value=1.5e+02 Score=26.68 Aligned_cols=45 Identities=18% Similarity=0.440 Sum_probs=26.3
Q ss_pred CCCCCCCCCHHHHHHHHHHHHc--ccCCCchh----HHHHHHhhhcccCCc
Q 027365 77 VAHMPVIRDPEIQRAFKDLMAA--DWGELPAS----VIHDAKSALSRNNDD 121 (224)
Q Consensus 77 ~~hlP~i~Dp~i~~afKdLmA~--sW~elp~s----vv~~ak~alSk~tdD 121 (224)
+.++|...-.++..+++..-++ .|..+|.. ++..+...|.++.|+
T Consensus 12 ~~~~~~~~~~~v~~av~~A~~A~~~w~~~~~~~R~~~L~~~a~~l~~~~~~ 62 (453)
T cd07149 12 IGRVPVASEEDVEKAIAAAKEGAKEMKSLPAYERAEILERAAQLLEERREE 62 (453)
T ss_pred EEEEeCCCHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhHHH
Confidence 3456666666777766665533 68888876 344445555544433
No 65
>PF05960 DUF885: Bacterial protein of unknown function (DUF885); InterPro: IPR010281 This family consists of hypothetical bacterial proteins.; PDB: 3O0Y_B 3U24_A 3IUK_A.
Probab=21.55 E-value=5.4e+02 Score=23.79 Aligned_cols=82 Identities=22% Similarity=0.370 Sum_probs=49.3
Q ss_pred hhHHHHHHHHHHHHH-----HHHHHHHHHHHHhhhhhhccchh-------HHHHHHHHHhh--cCCChhHHHHHHHHhh-
Q 027365 122 KAGQEVLKNVFSAAE-----AVEEFIGIIMNIKMEFDDEIGLS-------VYQRYATYLDA--FGPDESYLRKKVETEL- 186 (224)
Q Consensus 122 kaGqeaL~nvfrAAe-----AvEeFgGiL~~LrmeiDDl~Gls-------ay~rY~~YLds--FgpdE~yLrKKVE~EL- 186 (224)
...++..+.+-.|.+ |.++|-..|.++..--.+..|++ .|++...+--. .-|+|. .+.-+.|+
T Consensus 177 ~~~~~l~~~~~~ai~~~v~pA~~~~~~~L~~~~~~~~~~~G~~~~~~G~~~Y~~~l~~~t~~~~s~~ei--~~~g~~e~~ 254 (549)
T PF05960_consen 177 EQKEALIAQAREAIEEYVIPAYERLRDFLESEYLPAANSSGLSDLPNGKEYYERLLRYYTTTDMSPEEI--HELGLAEVA 254 (549)
T ss_dssp HHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHTCCCCSHHSGCGSTTHHHHHHHHHHHHHSSSS-HHHH--HHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCCcccCCCcHHHHHHHHHHhcCCCCCHHHH--HHHHHHHHH
Confidence 344455556666666 88888888888777654444444 77777666554 456664 45555555
Q ss_pred --hhhhhhhhhhhcCCCCCccc
Q 027365 187 --GSKMIFLKMRCAGLGSEWGK 206 (224)
Q Consensus 187 --GtkmI~LKmRcsGlgseWGK 206 (224)
-..|..|. |=.|.+..|+.
T Consensus 255 ~~~~em~~~~-~~~g~~~~~~~ 275 (549)
T PF05960_consen 255 RIRAEMQALA-REIGFDGDWQE 275 (549)
T ss_dssp HHHHHHHHHH-HHHCTTCHHHH
T ss_pred HHHHHHHHHH-HhcCCCCCHHH
Confidence 66777774 33365545544
No 66
>PTZ00171 acyl carrier protein; Provisional
Probab=21.52 E-value=3.7e+02 Score=22.21 Aligned_cols=29 Identities=10% Similarity=0.098 Sum_probs=22.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHcccCCCchhH
Q 027365 78 AHMPVIRDPEIQRAFKDLMAADWGELPASV 107 (224)
Q Consensus 78 ~hlP~i~Dp~i~~afKdLmA~sW~elp~sv 107 (224)
+.-+.++..++.+.++++++..+ +++++-
T Consensus 61 ~~~~~~~~~~v~~~l~eiiae~l-~vd~~~ 89 (148)
T PTZ00171 61 SKQYLLSKEDVLTRVKKVVKNFE-KVDASK 89 (148)
T ss_pred ccccccCHHHHHHHHHHHHHHHh-CCCHhh
Confidence 44566678899999999999888 666543
No 67
>TIGR01237 D1pyr5carbox2 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative. This enzyme is the second of two in the degradation of proline to glutamate. This model represents one of several related branches of delta-1-pyrroline-5-carboxylate dehydrogenase. Members of this branch may be associated with proline dehydrogenase (the other enzyme of the pathway from proline to glutamate) but have not been demonstrated experimentally. The branches are not as closely related to each other as some distinct aldehyde dehydrogenases are to some; separate models were built to let each model describe a set of equivalogs.
Probab=21.45 E-value=1.4e+02 Score=28.03 Aligned_cols=48 Identities=15% Similarity=0.270 Sum_probs=35.3
Q ss_pred cCCCCCCCCCHHHHHHHHHHHHc--ccCCCchh----HHHHHHhhhcccCCchh
Q 027365 76 DVAHMPVIRDPEIQRAFKDLMAA--DWGELPAS----VIHDAKSALSRNNDDKA 123 (224)
Q Consensus 76 d~~hlP~i~Dp~i~~afKdLmA~--sW~elp~s----vv~~ak~alSk~tdDka 123 (224)
-+.++|..+..++..|++.--++ +|..+|.. ++..+...|.++.|+.+
T Consensus 59 ~i~~~~~~~~~~v~~av~~A~~A~~~W~~~~~~~R~~~L~~~a~~l~~~~~~la 112 (511)
T TIGR01237 59 VVGKVGKASVEQAEHALQIAKKAFEAWKKTPVRERAGILRKAAAIMERRRHELN 112 (511)
T ss_pred EEEEEeCCCHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHCHHHHH
Confidence 45568888888998888877664 79999976 45667777777666554
No 68
>PF03087 DUF241: Arabidopsis protein of unknown function; InterPro: IPR004320 This family represents plant proteins of unknown function.
Probab=21.38 E-value=5.4e+02 Score=22.23 Aligned_cols=91 Identities=23% Similarity=0.378 Sum_probs=68.0
Q ss_pred HHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcc-------chh
Q 027365 87 EIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEFIGIIMNIKMEFDDEI-------GLS 159 (224)
Q Consensus 87 ~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeFgGiL~~LrmeiDDl~-------Gls 159 (224)
|+++.+.+|+- +|. +..+|+... .+...|.|..-.+-+.+|-.|--.|..+|..+-||= +.+
T Consensus 8 ~Ly~~~~ell~-----lp~-----tq~al~~~~-~k~ve~lLd~sL~LLD~c~~~rd~ll~lKe~v~eLqsalRRr~~~~ 76 (231)
T PF03087_consen 8 DLYECLEELLQ-----LPS-----TQQALSHHQ-EKWVEELLDGSLRLLDACGTFRDALLQLKEHVQELQSALRRRDDGS 76 (231)
T ss_pred HHHHHHHHHHc-----CCH-----HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchh
Confidence 45666666663 554 566777777 889999999999999999999999999999988874 122
Q ss_pred HHHHHHHHHhhcCCChhHHHHHHHHhhhhhhhhhhhh
Q 027365 160 VYQRYATYLDAFGPDESYLRKKVETELGSKMIFLKMR 196 (224)
Q Consensus 160 ay~rY~~YLdsFgpdE~yLrKKVE~ELGtkmI~LKmR 196 (224)
.-.+-.+|+.+ |||+..|+-..+--||.-
T Consensus 77 ~~~~i~sy~~~--------rKk~kK~i~K~~~~lk~~ 105 (231)
T PF03087_consen 77 IESEIASYIRS--------RKKAKKEIAKLLRSLKRM 105 (231)
T ss_pred HHHHHHHHHHH--------HHHHHHHHHHHHHHHHhh
Confidence 34455566554 999999987766666643
No 69
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=21.22 E-value=2.7e+02 Score=23.90 Aligned_cols=100 Identities=15% Similarity=0.138 Sum_probs=71.1
Q ss_pred HHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccchh----HHHHHHHH
Q 027365 92 FKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEFIGIIMNIKMEFDDEIGLS----VYQRYATY 167 (224)
Q Consensus 92 fKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeFgGiL~~LrmeiDDl~Gls----ay~rY~~Y 167 (224)
+.+.+|.-|- -+.++-|++..+-.-||- ...+..-+++....|++|=-+..|+--|+-|+-+- .+....++
T Consensus 40 ~REg~A~Glm---~~f~~l~e~v~~l~idd~--~~~f~~~~~tl~~LE~~GFnV~~l~~RL~kLL~lk~~~~~~~e~~k~ 114 (190)
T PF05266_consen 40 LREGMAVGLM---VTFANLAEKVKKLQIDDS--RSSFESLMKTLSELEEHGFNVKFLRSRLNKLLSLKDDQEKLLEERKK 114 (190)
T ss_pred hhhHHHHHHH---HHHHHHHHHHHHcccCCc--HHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 4455555543 245556666666666663 67788888899999999988888888888887665 66777788
Q ss_pred HhhcCCChhHHHHHHHHh---hhhhhhhhhhh
Q 027365 168 LDAFGPDESYLRKKVETE---LGSKMIFLKMR 196 (224)
Q Consensus 168 LdsFgpdE~yLrKKVE~E---LGtkmI~LKmR 196 (224)
++.--+++..++++.|.+ |-.|+..||..
T Consensus 115 le~~~~~~~~~~~~~e~~i~~Le~ki~el~~~ 146 (190)
T PF05266_consen 115 LEKKIEEKEAELKELESEIKELEMKILELQRQ 146 (190)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHH
Confidence 888777777777777764 44566666654
No 70
>cd01049 RNRR2 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain. Ribonucleotide Reductase, R2/beta subunit (RNRR2) is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in all eukaryotes, many prokaryotes, several viruses, and few archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites. The beta subunit (R2) contains a diiron cluster that, in its reduced state, reacts with dioxygen to form a stable tyrosyl radical and a diiron(III) cluster. This essential tyrosyl radical is proposed to generate a thiyl radical, located on a cysteine residue in the R1 active site that initiates ribonucleotide reduction. The beta subunit is composed of 10-13 helices, the 8 longest helices form an alpha-
Probab=21.19 E-value=5.1e+02 Score=21.94 Aligned_cols=57 Identities=19% Similarity=0.205 Sum_probs=42.1
Q ss_pred CCCCHHHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHH
Q 027365 82 VIRDPEIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEF 141 (224)
Q Consensus 82 ~i~Dp~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeF 141 (224)
+|++|...+..|...+.-|..-.=++-+|++.--+. +..-|++++.++..=-+.+..
T Consensus 5 ~~~y~~~~~ly~~~~~~~W~p~ei~~~~D~~~~~~l---~~~er~~~~~~la~~~~~d~~ 61 (288)
T cd01049 5 PIKYPWAWELYKKAEANFWTPEEIDLSKDLKDWEKL---TEAERHFIKRVLAFLAALDSI 61 (288)
T ss_pred ccccHHHHHHHHHHHHcCCChhhcchhhhHHHHhHC---CHHHHHHHHHHHHHHHHHHHH
Confidence 579999999999999999986666677776654322 455688999888765444444
No 71
>PRK09614 nrdF ribonucleotide-diphosphate reductase subunit beta; Reviewed
Probab=20.82 E-value=5.9e+02 Score=22.50 Aligned_cols=96 Identities=18% Similarity=0.212 Sum_probs=62.3
Q ss_pred CCCCCCCCCHHHHHHHHHHHHcccCCCchhHHHHHHhhhcccCCchhHHHHHHHHHHHHHHHHHHHH--HHHHHhhhhhh
Q 027365 77 VAHMPVIRDPEIQRAFKDLMAADWGELPASVIHDAKSALSRNNDDKAGQEVLKNVFSAAEAVEEFIG--IIMNIKMEFDD 154 (224)
Q Consensus 77 ~~hlP~i~Dp~i~~afKdLmA~sW~elp~svv~~ak~alSk~tdDkaGqeaL~nvfrAAeAvEeFgG--iL~~LrmeiDD 154 (224)
.-.+=.|++|...+..|...+.-|..-.=.+-+|++.- ++ =++.-|+++++++..--+.+..-+ ++..+...+.+
T Consensus 11 ~~~~~~~~y~~~~~~y~~~~~~fW~peEi~~s~D~~dw-~~--Lt~~Er~~~~~~l~~~~~~D~~v~~~~~~~~~~~~~~ 87 (324)
T PRK09614 11 AINWNKIEDPWDYEAWKRLTANFWLPEEVPLSNDLKDW-KK--LSDEEKNLYTRVFGGLTLLDTLQNNNGMPNLMPDITT 87 (324)
T ss_pred cccCCCcccHHHHHHHHHHHhCCCCCccccccchHHHH-Hh--CCHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHCCc
Confidence 44556799999999999999999986666677777665 33 233557888888776544444444 23344445544
Q ss_pred c---cchh-------HH-HHHHHHHhhcCCCh
Q 027365 155 E---IGLS-------VY-QRYATYLDAFGPDE 175 (224)
Q Consensus 155 l---~Gls-------ay-~rY~~YLdsFgpdE 175 (224)
. +-++ .| +=|...|+++++++
T Consensus 88 ~E~~~~~~~q~~~E~iH~~sYs~il~tl~~~~ 119 (324)
T PRK09614 88 PEEEAVLANIAFMEAVHAKSYSYIFSTLCSPE 119 (324)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCh
Confidence 3 2222 22 34777889998754
No 72
>cd07141 ALDH_F1AB_F2_RALDH1 NAD+-dependent retinal dehydrogenase 1, ALDH families 1A, 1B, and 2-like. NAD+-dependent retinal dehydrogenase 1 (RALDH 1, ALDH1, EC=1.2.1.36) also known as aldehyde dehydrogenase family 1 member A1 (ALDH1A1) in humans, is a homotetrameric, cytosolic enzyme that catalyzes the oxidation of retinaldehyde to retinoic acid. Human ALDH1B1 and ALDH2 are also in this cluster; both are mitochrondrial homotetramers which play important roles in acetaldehyde oxidation; ALDH1B1 in response to UV light exposure and ALDH2 during ethanol metabolism.
Probab=20.59 E-value=3e+02 Score=25.56 Aligned_cols=49 Identities=20% Similarity=0.347 Sum_probs=33.5
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHHc-----ccCCCchh----HHHHHHhhhcccCCchh
Q 027365 75 EDVAHMPVIRDPEIQRAFKDLMAA-----DWGELPAS----VIHDAKSALSRNNDDKA 123 (224)
Q Consensus 75 ~d~~hlP~i~Dp~i~~afKdLmA~-----sW~elp~s----vv~~ak~alSk~tdDka 123 (224)
+-+..+|.....++..+++..-++ .|..+|.. ++..+.+.|.++.|+.+
T Consensus 33 ~~i~~~~~~~~~~v~~av~~A~~A~~~~~~W~~~~~~~R~~~L~~~a~~l~~~~~~la 90 (481)
T cd07141 33 EKICEVQEGDKADVDKAVKAARAAFKLGSPWRTMDASERGRLLNKLADLIERDRAYLA 90 (481)
T ss_pred CEEEEEeCCCHHHHHHHHHHHHHHhhccCccccCCHHHHHHHHHHHHHHHHHhHHHHH
Confidence 345567777788888888887765 59999876 44555666666555443
No 73
>PRK05472 redox-sensing transcriptional repressor Rex; Provisional
Probab=20.45 E-value=1.5e+02 Score=24.51 Aligned_cols=54 Identities=22% Similarity=0.517 Sum_probs=34.7
Q ss_pred hhhccchh--HHHHHHHHHhhcCC-----ChhHHHHHHHHhhhhhhhhhhhhhcCCCCCccceEEeeccCCCcc
Q 027365 152 FDDEIGLS--VYQRYATYLDAFGP-----DESYLRKKVETELGSKMIFLKMRCAGLGSEWGKVTVLGTSGLAGS 218 (224)
Q Consensus 152 iDDl~Gls--ay~rY~~YLdsFgp-----dE~yLrKKVE~ELGtkmI~LKmRcsGlgseWGKVtlLGTSGLsGS 218 (224)
|-+..|+| .-.|+..+|+.||. +=.+|.+.++.-||. ...| +|.|+|+..++-.
T Consensus 38 L~~~~~v~~~tirrDl~~l~~~G~~~~gy~v~~l~~~~~~~l~~------------~~~~-rV~IIGaG~iG~~ 98 (213)
T PRK05472 38 LAEALGVDSAQIRKDLSYFGEFGKRGVGYNVEELLEFIEKILGL------------DRTW-NVALVGAGNLGRA 98 (213)
T ss_pred HHHHhCcCHHHHHHHHHHHHhcCCCCCCeeHHHHHHHHHHHhCC------------CCCc-EEEEECCCHHHHH
Confidence 33444554 45788888888875 335677777777643 3444 5888888766543
No 74
>PRK07942 DNA polymerase III subunit epsilon; Provisional
Probab=20.40 E-value=1.9e+02 Score=24.54 Aligned_cols=51 Identities=16% Similarity=0.216 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-hhhhhhccchh--HH----HHHHHHHhhcCCC
Q 027365 124 GQEVLKNVFSAAEAVEEFIGIIMNI-KMEFDDEIGLS--VY----QRYATYLDAFGPD 174 (224)
Q Consensus 124 GqeaL~nvfrAAeAvEeFgGiL~~L-rmeiDDl~Gls--ay----~rY~~YLdsFgpd 174 (224)
-|.|+.|+.-.|+-...+-...-.| +|.+++|..+. .+ ..+.+||.+-|.+
T Consensus 159 aH~Al~Da~ata~l~~~l~~~~~~l~~~~~~~l~~~q~~~~~~~~~~~~~~~~~~~~~ 216 (232)
T PRK07942 159 AHEATADALAAARVAWALARRFPELAALSPAELHELQAVWYAEQAASFQAYLRRKGRP 216 (232)
T ss_pred CCChHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 4889999988888888777766666 78888888877 22 2456677776643
No 75
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=20.22 E-value=44 Score=31.81 Aligned_cols=15 Identities=40% Similarity=0.554 Sum_probs=9.4
Q ss_pred hHHHHHHHHhhhhhh
Q 027365 176 SYLRKKVETELGSKM 190 (224)
Q Consensus 176 ~yLrKKVE~ELGtkm 190 (224)
--||.|+|.||.-++
T Consensus 100 IILKDKiEKeL~ekf 114 (353)
T TIGR01477 100 IILKDKLEKELTEKF 114 (353)
T ss_pred HHHHHHHHHHHHHhh
Confidence 357778888774333
Done!