Query 029365
Match_columns 194
No_of_seqs 89 out of 91
Neff 3.5
Searched_HMMs 46136
Date Fri Mar 29 11:45:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029365.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029365hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00061 photosystem II protei 100.0 3.9E-64 8.5E-69 409.6 13.4 148 42-191 3-150 (150)
2 PLN00064 photosystem II protei 100.0 9.3E-45 2E-49 299.7 13.7 132 26-194 31-162 (166)
3 PF13326 PSII_Pbs27: Photosyst 100.0 6.3E-45 1.4E-49 294.2 9.1 145 30-194 1-145 (145)
4 TIGR03044 PS_II_psb27 photosys 100.0 3.8E-44 8.2E-49 288.6 11.9 103 90-194 30-132 (135)
5 PF10518 TAT_signal: TAT (twin 85.3 0.83 1.8E-05 27.6 2.2 19 29-47 2-20 (26)
6 PF07240 Turandot: Stress-indu 85.3 2 4.3E-05 33.0 4.8 34 156-189 9-42 (85)
7 TIGR02811 formate_TAT formate 79.3 2.5 5.4E-05 30.6 3.2 16 26-41 6-21 (66)
8 COG1698 Uncharacterized protei 74.3 21 0.00046 28.0 7.3 86 90-191 4-89 (93)
9 TIGR01409 TAT_signal_seq Tat ( 72.0 3.2 7E-05 25.2 1.9 12 30-41 2-13 (29)
10 cd00040 CSF2 Granulocyte Macro 67.2 12 0.00025 30.6 4.6 25 150-174 68-92 (121)
11 PF12732 YtxH: YtxH-like prote 63.7 31 0.00067 24.5 5.8 18 121-138 56-73 (74)
12 PF15519 RBM39linker: linker b 57.0 4.5 9.6E-05 29.7 0.5 15 77-91 59-73 (73)
13 COG2822 Predicted periplasmic 52.6 50 0.0011 31.3 6.7 65 96-166 294-366 (376)
14 smart00040 CSF2 Granulocyte-ma 52.5 13 0.00028 30.3 2.5 26 150-175 68-93 (121)
15 PF09037 Sulphotransf: Stf0 su 50.8 13 0.00028 32.4 2.4 47 96-142 197-244 (245)
16 PF10399 UCR_Fe-S_N: Ubiquitin 47.1 9.3 0.0002 25.5 0.8 13 26-38 6-18 (41)
17 cd01018 ZntC Metal binding pro 46.9 45 0.00099 28.6 5.2 98 88-189 112-215 (266)
18 PRK10866 outer membrane biogen 46.6 1.8E+02 0.0039 25.0 8.8 80 103-184 50-168 (243)
19 cd08054 gp6 Head-Tail Connecto 45.7 1E+02 0.0022 21.5 6.3 76 106-181 3-85 (91)
20 PF09236 AHSP: Alpha-haemoglob 45.4 29 0.00062 27.1 3.3 17 154-170 32-48 (89)
21 PRK15219 carbonic anhydrase; P 43.3 9.7 0.00021 33.7 0.5 73 27-100 7-80 (245)
22 PRK09269 chorismate mutase; Pr 43.1 1.2E+02 0.0025 26.2 7.0 64 100-163 67-136 (193)
23 PRK13874 conjugal transfer pro 42.3 92 0.002 27.4 6.4 19 95-113 33-51 (230)
24 TIGR01560 put_DNA_pack unchara 39.7 1.3E+02 0.0027 22.1 5.9 58 107-168 4-62 (91)
25 PF02899 Phage_int_SAM_1: Phag 38.5 1.2E+02 0.0027 20.4 7.6 59 95-167 20-78 (84)
26 TIGR03175 AllD ureidoglycolate 38.3 43 0.00092 31.1 3.9 81 73-175 260-347 (349)
27 PF13551 HTH_29: Winged helix- 37.8 99 0.0021 22.0 5.1 56 120-189 16-72 (112)
28 PRK15102 trimethylamine N-oxid 37.5 24 0.00052 35.3 2.4 31 30-60 2-32 (825)
29 TIGR01405 polC_Gram_pos DNA po 36.7 1.5E+02 0.0032 32.1 8.0 91 93-191 540-632 (1213)
30 PF08374 Protocadherin: Protoc 36.6 6 0.00013 35.1 -1.7 30 131-170 133-162 (221)
31 PF08542 Rep_fac_C: Replicatio 35.5 1.6E+02 0.0034 20.7 7.6 36 155-194 37-72 (89)
32 PF04740 LXG: LXG domain of WX 34.4 1.9E+02 0.0041 23.5 6.8 66 126-192 44-113 (204)
33 KOG0416 Ubiquitin-protein liga 34.2 1.2E+02 0.0026 26.6 5.7 70 74-143 66-149 (189)
34 TIGR02166 dmsA_ynfE anaerobic 33.9 38 0.00083 33.4 3.1 24 30-53 2-25 (797)
35 PF13333 rve_2: Integrase core 33.8 53 0.0011 21.8 2.9 24 125-149 19-42 (52)
36 PRK10882 hydrogenase 2 protein 33.6 26 0.00056 32.2 1.8 12 30-41 2-13 (328)
37 PF08463 EcoEI_R_C: EcoEI R pr 33.5 42 0.00091 26.6 2.7 64 96-173 60-124 (164)
38 PRK00035 hemH ferrochelatase; 33.1 1.3E+02 0.0029 26.6 6.1 58 131-188 20-88 (333)
39 PRK07474 sulfur oxidation prot 32.6 24 0.00053 29.5 1.3 14 28-41 7-20 (154)
40 PF10163 EnY2: Transcription f 31.3 1.7E+02 0.0037 21.6 5.5 51 126-189 33-83 (86)
41 PF12918 TcdB_N: TcdB toxin N- 30.9 1.9E+02 0.0041 20.8 5.5 45 102-146 4-49 (66)
42 smart00167 VPS9 Domain present 30.6 59 0.0013 25.6 3.1 35 131-165 66-102 (117)
43 PRK03620 5-dehydro-4-deoxygluc 29.1 1.1E+02 0.0024 27.0 4.9 42 152-194 258-301 (303)
44 PF09684 Tail_P2_I: Phage tail 29.0 2.7E+02 0.0058 21.7 6.5 66 116-186 2-67 (139)
45 TIGR03743 SXT_TraD conjugative 28.7 2.6E+02 0.0057 27.9 7.8 87 78-171 235-330 (634)
46 cd01019 ZnuA Zinc binding prot 28.6 51 0.0011 28.8 2.6 96 90-189 123-226 (286)
47 PF06761 IcmF-related: Intrace 28.2 3.7E+02 0.008 23.6 8.0 47 123-175 249-299 (312)
48 cd01493 APPBP1_RUB Ubiquitin a 28.0 3.3E+02 0.0072 25.9 8.1 82 92-179 222-313 (425)
49 PF01109 GM_CSF: Granulocyte-m 27.8 33 0.00071 28.1 1.2 37 132-178 58-94 (122)
50 PF07240 Turandot: Stress-indu 27.7 33 0.00071 26.4 1.1 22 130-151 33-55 (85)
51 PF12889 DUF3829: Protein of u 27.6 99 0.0021 26.0 4.2 49 121-169 219-275 (276)
52 cd01145 TroA_c Periplasmic bin 27.5 59 0.0013 26.8 2.7 49 90-141 110-158 (203)
53 TIGR02659 TTQ_MADH_Lt methylam 27.1 65 0.0014 28.1 3.0 26 25-50 18-43 (186)
54 PF10428 SOG2: RAM signalling 26.9 1.4E+02 0.0031 28.5 5.5 70 96-184 352-424 (445)
55 PF04011 LemA: LemA family; I 26.8 1.1E+02 0.0024 25.1 4.2 64 99-162 65-130 (186)
56 cd03411 Ferrochelatase_N Ferro 26.7 2.5E+02 0.0055 22.4 6.2 57 131-189 15-83 (159)
57 PRK09545 znuA high-affinity zi 26.4 1.4E+02 0.0031 26.6 5.1 96 90-189 147-250 (311)
58 COG0339 Dcp Zn-dependent oligo 25.8 63 0.0014 33.1 3.0 28 155-185 514-541 (683)
59 PF14461 Prok-E2_B: Prokaryoti 25.1 1.4E+02 0.0031 23.3 4.4 37 102-146 94-130 (133)
60 PF07030 DUF1320: Protein of u 24.6 3.4E+02 0.0074 21.2 7.4 63 117-185 28-93 (130)
61 cd01020 TroA_b Metal binding p 24.6 2E+02 0.0043 24.7 5.5 96 90-189 97-204 (264)
62 smart00288 VHS Domain present 24.6 3.5E+02 0.0075 21.2 6.5 51 102-162 79-129 (133)
63 cd01137 PsaA Metal binding pro 24.3 2.3E+02 0.0049 24.9 5.9 98 88-189 117-224 (287)
64 PF05823 Gp-FAR-1: Nematode fa 23.3 1.6E+02 0.0034 24.2 4.5 58 126-189 75-135 (154)
65 PRK15326 type III secretion sy 22.7 2.2E+02 0.0047 21.7 4.8 49 72-137 7-55 (80)
66 cd01017 AdcA Metal binding pro 22.6 75 0.0016 27.4 2.6 96 90-189 115-218 (282)
67 PRK14990 anaerobic dimethyl su 22.4 65 0.0014 32.1 2.4 21 123-143 141-161 (814)
68 PRK10911 oligopeptidase A; Pro 22.2 1E+02 0.0022 30.9 3.7 28 155-185 511-538 (680)
69 cd03568 VHS_STAM VHS domain fa 21.8 4.3E+02 0.0093 21.3 6.8 40 124-169 96-135 (144)
70 PRK11032 hypothetical protein; 21.8 4.8E+02 0.01 22.0 7.1 13 102-114 9-21 (160)
71 PF09373 PMBR: Pseudomurein-bi 21.8 1.6E+02 0.0034 18.3 3.2 24 147-170 2-25 (33)
72 KOG4131 Ngg1-interacting facto 21.8 50 0.0011 30.3 1.3 51 84-140 75-125 (272)
73 PF11546 CompInhib_SCIN: Staph 21.7 3.4E+02 0.0074 22.1 5.9 77 80-168 23-107 (114)
74 PTZ00484 GTP cyclohydrolase I; 21.1 3.1E+02 0.0067 24.9 6.2 59 85-144 60-119 (259)
75 PF12108 SF3a60_bindingd: Spli 20.9 1.3E+02 0.0029 18.7 2.7 26 146-172 3-28 (28)
76 PRK10280 dipeptidyl carboxypep 20.7 83 0.0018 31.6 2.7 33 150-185 506-538 (681)
77 PF12318 FAD-SLDH: Membrane bo 20.3 74 0.0016 26.5 2.0 7 29-35 2-8 (168)
No 1
>PLN00061 photosystem II protein Psb27; Provisional
Probab=100.00 E-value=3.9e-64 Score=409.62 Aligned_cols=148 Identities=78% Similarity=1.098 Sum_probs=143.5
Q ss_pred HHHHHHhhcccCCcchhhhcccCCCcccccccccccccccCCCccccCCCCCchHHHHHHHHHHHHHHHHhcCCCCCchH
Q 029365 42 LVAILTFNCGLAPLPVQAEDMSNGQDEKEEGVVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIAN 121 (194)
Q Consensus 42 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~g~~~slfdp~~~~ksg~~LPkdY~~dT~~VV~tLReaL~ldp~D~~~ 121 (194)
++++++++|...|.++||++++ +.++++||+|+|+|||||||+||||+.||++|++||++||++||++|+++|+|+++
T Consensus 3 ~~~~~~~~~~~~~~~~~a~~e~--~~~~~~~~~~~~~~~fdp~e~tksg~~Lpg~Y~kdtr~VV~tLresl~l~p~D~~~ 80 (150)
T PLN00061 3 FAASLTLNGQMTPLQARAEEEA--KVEEGEGVVGAIKSLFDPNEKTKSGKKLPKAYLKSAREVVKTLRESLKEDPKDEAK 80 (150)
T ss_pred HHHHHHHhcCCCCCcchHHHHh--cccccccHHHHHHHhcCccccccccccCchHHHHHHHHHHHHHHHHHccCCcchHH
Confidence 4678999999999999999996 57888899999999999999999999999999999999999999999999999999
Q ss_pred HHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHHHhhhhhcCCCCCCChHHHHHHHHHHHHHH
Q 029365 122 FRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAE 191 (194)
Q Consensus 122 ~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsLAGhYss~Gp~rPLPeklK~RLlqEL~~AE 191 (194)
|++++++||++|||||++||+++.|+|++||+||+||||+|||||++|||||||||++|+||++||++||
T Consensus 81 ~~~aa~~Ake~IndYisryR~~~~V~gl~SfttMqtALnsLAghYssyGpnrPLPe~lK~Rll~EL~~AE 150 (150)
T PLN00061 81 FRRTADAAKESIREYLGNWRGQKTVAEEESYVELEKAIRSLASFYSKAGPSAPLPEDVKSEILDDLNKAE 150 (150)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCccccccchHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHhccC
Confidence 9999999999999999999999999999999999999999999999999999999999999999999997
No 2
>PLN00064 photosystem II protein Psb27; Provisional
Probab=100.00 E-value=9.3e-45 Score=299.66 Aligned_cols=132 Identities=27% Similarity=0.468 Sum_probs=117.1
Q ss_pred hhhhhhhHHHhhhhhhHHHHHHhhcccCCcchhhhcccCCCcccccccccccccccCCCccccCCCCCchHHHHHHHHHH
Q 029365 26 KAASSRRHVISCSSTALVAILTFNCGLAPLPVQAEDMSNGQDEKEEGVVGAIKSLFDPNEKTKSGKVLPKAYLKSARELV 105 (194)
Q Consensus 26 ~a~~srr~~l~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~g~~~slfdp~~~~ksg~~LPkdY~~dT~~VV 105 (194)
+...+|||||+..+++ +.....+.+.|++|... ++|.+||.+||
T Consensus 31 ~~~~~rr~~~~~~~~~----~~~~~~~~~~~a~a~~~--------------------------------g~Y~~DT~aVi 74 (166)
T PLN00064 31 RNHLLRREFLSLATTI----LTSAALLPVAPAFAASD--------------------------------EEYVKETKDVI 74 (166)
T ss_pred hhhhHHHHHHHHHHHH----HHHHHhccCcchhhccC--------------------------------CChHHHHHHHH
Confidence 4456999999876543 33344445566666333 48999999999
Q ss_pred HHHHHHhcCCCCCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHHHhhhhhcCCCCCCChHHHHHHHH
Q 029365 106 KTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILN 185 (194)
Q Consensus 106 ~tLReaL~ldp~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsLAGhYss~Gp~rPLPeklK~RLlq 185 (194)
++||++|+| |+|+++++++++++|++|||||+||||+++|+|++||+|||||||+|||||++||||||||+|+|+||+|
T Consensus 75 ~~lr~tI~L-~~ddp~~a~a~aeaR~~iNdyvSrYRr~~~v~Gl~SFttMyTALNaLAGHY~SfgpnrPlPeKlK~RL~q 153 (166)
T PLN00064 75 GKVRSTINM-DKTDPNVADAVAELRETSNSWVAKYRREKALLGRPSFRDMYSALNAVSGHYISFGPTAPIPAKRKARILE 153 (166)
T ss_pred HHHHHHHcC-CCCCccHHHHHHHHHHHHHHHHHHhcCCCcccCcccHHHHHHHHHHHHHHhhccCCCCCCcHHHHHHHHH
Confidence 999999999 9999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcC
Q 029365 186 DLDTAEKFL 194 (194)
Q Consensus 186 EL~~AE~aL 194 (194)
||++||++|
T Consensus 154 E~~~AEkal 162 (166)
T PLN00064 154 EMDTAEKAL 162 (166)
T ss_pred HHHHHHHHH
Confidence 999999986
No 3
>PF13326 PSII_Pbs27: Photosystem II Pbs27; PDB: 2KND_A 2KMF_A 2Y6X_A.
Probab=100.00 E-value=6.3e-45 Score=294.24 Aligned_cols=145 Identities=41% Similarity=0.562 Sum_probs=93.2
Q ss_pred hhhHHHhhhhhhHHHHHHhhcccCCcchhhhcccCCCcccccccccccccccCCCccccCCCCCchHHHHHHHHHHHHHH
Q 029365 30 SRRHVISCSSTALVAILTFNCGLAPLPVQAEDMSNGQDEKEEGVVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLR 109 (194)
Q Consensus 30 srr~~l~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~g~~~slfdp~~~~ksg~~LPkdY~~dT~~VV~tLR 109 (194)
||||+|..++.+++++ ++.+...++.+++..+..+ +++. +||+ .|+++|++||++||++||
T Consensus 1 ~rr~~l~~~~~~~~al-~l~~~~~~l~~~~l~~c~~-----------~~s~-~~~~------~l~~~Y~~dt~~vv~~lr 61 (145)
T PF13326_consen 1 SRRRLLLAASSALLAL-TLSARGAALAVIALTACRA-----------AKSG-DPNA------GLTGDYVKDTRAVVKTLR 61 (145)
T ss_dssp ---------------------------------S------------------S--S------S--S-CHHHHHHHHHHHH
T ss_pred CcchhhhHHHHHHHHH-HHhhhhHHHHhhcchhhhh-----------cccC-Cccc------cccchHHHHHHHHHHHHH
Confidence 6999998877764443 4433344555555444221 4554 6665 455779999999999999
Q ss_pred HHhcCCCCCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHHHhhhhhcCCCCCCChHHHHHHHHHHHH
Q 029365 110 ESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDT 189 (194)
Q Consensus 110 eaL~ldp~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsLAGhYss~Gp~rPLPeklK~RLlqEL~~ 189 (194)
++|++ |+|++++++++++||++|||||++|||++.|+|++||++||+|||+|||||++|||++|||+|+|+||++||++
T Consensus 62 ~~l~l-~~d~~~~~~~~~~ar~~in~~vs~YRr~~~v~g~~Sf~~m~tAln~LaghY~s~g~raPlP~k~k~rll~el~~ 140 (145)
T PF13326_consen 62 EALEL-DKDDPNRAEAAAEARELINDYVSRYRRGPSVSGLPSFTTMYTALNALAGHYSSYGNRAPLPEKLKERLLKELDQ 140 (145)
T ss_dssp HHHCS--TT-TTHHHHHHHHHHHHHHHHCCCCCCHHCCTSHHHHHHHHHHHHHHHHCHHHTTS-S--HHHHHHHHHHHHH
T ss_pred HHHcC-CCCCccHHHHHHHHHHHHHHHHHHhCCCCCcCCcchHHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHH
Confidence 99998 79999999999999999999999999999999999999999999999999999998889999999999999999
Q ss_pred HHhcC
Q 029365 190 AEKFL 194 (194)
Q Consensus 190 AE~aL 194 (194)
||++|
T Consensus 141 Ae~aL 145 (145)
T PF13326_consen 141 AEKAL 145 (145)
T ss_dssp HHHHH
T ss_pred HHhcC
Confidence 99986
No 4
>TIGR03044 PS_II_psb27 photosystem II protein Psb27. Members of this family are the Psb27 protein of the cyanobacterial photosynthetic supracomplex, photosystem II. Although most protein components of both cyanobacterial and chloroplast versions of photosystem II are closely related and described together by single model families, this family is strictly bacterial. Some uncharacterized proteins with highly divergent sequences, from Arabidopsis, score between trusted and noise cutoffs for this model but are not at this time assigned as functionally equivalent photosystem II proteins.
Probab=100.00 E-value=3.8e-44 Score=288.63 Aligned_cols=103 Identities=31% Similarity=0.522 Sum_probs=99.8
Q ss_pred CCCCchHHHHHHHHHHHHHHHHhcCCCCCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHHHhhhhhc
Q 029365 90 GKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKA 169 (194)
Q Consensus 90 g~~LPkdY~~dT~~VV~tLReaL~ldp~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsLAGhYss~ 169 (194)
.+.|+++|.+||++||++||++|++ |+|+|++++++++||++|||||++|||+++|+|++||+|||||||+|||||++|
T Consensus 30 ~~~Ltg~Y~~DT~~Vi~tlr~~i~l-pkd~p~~~~a~~~ar~~indyvsrYRr~~~v~g~~SFttm~TALNsLAGHY~sy 108 (135)
T TIGR03044 30 KTRLTGDYVEDTLAVIQTLREAIDL-PDDDPNKSEAQAEARQLINDYISRYRRRPRVNGLSSFTTMQTALNSLAGHYKSY 108 (135)
T ss_pred cccccchHHHHHHHHHHHHHHHHcC-CCCCccHHHHHHHHHHHHHHHHHHhcCCCCcCCcccHHHHHHHHHHHHHHhccC
Confidence 3568899999999999999999999 999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCChHHHHHHHHHHHHHHhcC
Q 029365 170 GPSAPLPGEVKSEILNDLDTAEKFL 194 (194)
Q Consensus 170 Gp~rPLPeklK~RLlqEL~~AE~aL 194 (194)
| |||||||+|+||+|||++||++|
T Consensus 109 ~-~rPlPeklk~Rl~~El~~AE~al 132 (135)
T TIGR03044 109 A-NRPLPEKLKERLEKELKKAEKAL 132 (135)
T ss_pred C-CCCCCHHHHHHHHHHHHHHHHHH
Confidence 5 99999999999999999999986
No 5
>PF10518 TAT_signal: TAT (twin-arginine translocation) pathway signal sequence; InterPro: IPR019546 The twin-arginine translocation (Tat) pathway serves the role of transporting folded proteins across energy-transducing membranes []. Homologues of the genes that encode the transport apparatus occur in archaea, bacteria, chloroplasts, and plant mitochondria []. In bacteria, the Tat pathway catalyses the export of proteins from the cytoplasm across the inner/cytoplasmic membrane. In chloroplasts, the Tat components are found in the thylakoid membrane and direct the import of proteins from the stroma. The Tat pathway acts separately from the general secretory (Sec) pathway, which transports proteins in an unfolded state []. It is generally accepted that the primary role of the Tat system is to translocate fully folded proteins across membranes. An example of proteins that need to be exported in their 3D conformation are redox proteins that have acquired complex multi-atom cofactors in the bacterial cytoplasm (or the chloroplast stroma or mitochondrial matrix). They include hydrogenases, formate dehydrogenases, nitrate reductases, trimethylamine N-oxide (TMAO) reductases and dimethyl sulphoxide (DMSO) reductases [, ]. The Tat system can also export whole heteroligomeric complexes in which some proteins have no Tat signal. This is the case of the DMSO reductase or formate dehydrogenase complexes. But there are also other cases where the physiological rationale for targeting a protein to the Tat signal is less obvious. Indeed, there are examples of homologous proteins that are in some cases targeted to the Tat pathway and in other cases to the Sec apparatus. Some examples are: copper nitrite reductases, flavin domains of flavocytochrome c and N-acetylmuramoyl-L-alanine amidases []. In halophilic archaea such as Halobacterium almost all secreted proteins appear to be Tat targeted. It has been proposed to be a response to the difficulties these organisms would otherwise face in successfully folding proteins extracellularly at high ionic strength []. The Tat signal peptide consists of three motifs: the positively charged N-terminal motif, the hydrophobic region and the C-terminal region that generally ends with a consensus short motif (A-x-A) specifying cleavage by signal peptidase. Sequence analysis revealed that signal peptides capable of targeting the Tat protein contain the consensus sequence [ST]-R-R-x-F-L-K. The nearly invariant twin-arginine gave rise to the pathway's name. In addition the h-region of Tat signal peptides is typically less hydrophobic than that of Sec-specific signal peptides [, ].
Probab=85.33 E-value=0.83 Score=27.57 Aligned_cols=19 Identities=26% Similarity=0.251 Sum_probs=12.9
Q ss_pred hhhhHHHhhhhhhHHHHHH
Q 029365 29 SSRRHVISCSSTALVAILT 47 (194)
Q Consensus 29 ~srr~~l~~~~~~~~~~~~ 47 (194)
-|||+||..++++..+.++
T Consensus 2 ~sRR~fLk~~~a~~a~~~~ 20 (26)
T PF10518_consen 2 LSRRQFLKGGAAAAAAAAL 20 (26)
T ss_pred CcHHHHHHHHHHHHHHHHh
Confidence 4899999877765344433
No 6
>PF07240 Turandot: Stress-inducible humoral factor Turandot; InterPro: IPR010825 This family consists of several Drosophila species specific Turandot proteins. The Turandot A (TotA) gene encodes a humoral factor, which is secreted from the fat body and accumulates in the body fluids. TotA is strongly induced upon bacterial challenge, as well as by other types of stress such as high temperature, mechanical pressure, dehydration, UV irradiation, and oxidative agents. It is also upregulated during metamorphosis and at high age. Flies that overexpress TotA show prolonged survival and retain normal activity at otherwise lethal temperatures. Although TotA is only induced by severe stress, it responds to a much wider range of stimuli than heat shock genes such as hsp70 or immune genes such as Cecropin A1 [].
Probab=85.33 E-value=2 Score=32.97 Aligned_cols=34 Identities=26% Similarity=0.419 Sum_probs=29.4
Q ss_pred HHHHHHHHhhhhhcCCCCCCChHHHHHHHHHHHH
Q 029365 156 EKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDT 189 (194)
Q Consensus 156 ~TALNsLAGhYss~Gp~rPLPeklK~RLlqEL~~ 189 (194)
..=+.+|-+||..|.|.-||++..|+++...+++
T Consensus 9 ~rni~eLi~fY~ky~~~~~L~~~~r~~~d~~i~~ 42 (85)
T PF07240_consen 9 IRNIQELIAFYEKYSPRLPLTPQDRQRIDRFIRR 42 (85)
T ss_pred HhhHHHHHHHHHHcCccCCCCHHHHHHHHHHHHH
Confidence 3447789999999999999999999999887765
No 7
>TIGR02811 formate_TAT formate dehydrogenase region TAT target. Members of this uncharacterized protein family are all small, extending 70 or fewer residues from their respective likely start codons. All have the twin-arginine-dependent tranport (TAT) signal sequence at the N-terminus and a conserved 20-residue C-terminal region that includes the motif Y-[HRK]-X-[TS]-X-H-[IV]-X-X-[YF]-Y. The TAT signal sequence suggests a bound cofactor. All members are encoded near genes for subunits of formate dehydrogenase, and may themselves be a subunit or accessory protein.
Probab=79.29 E-value=2.5 Score=30.61 Aligned_cols=16 Identities=31% Similarity=0.401 Sum_probs=11.5
Q ss_pred hhhhhhhHHHhhhhhh
Q 029365 26 KAASSRRHVISCSSTA 41 (194)
Q Consensus 26 ~a~~srr~~l~~~~~~ 41 (194)
+...+||.||..++++
T Consensus 6 ~~~~sRR~Flk~lg~~ 21 (66)
T TIGR02811 6 KADPSRRDLLKGLGVG 21 (66)
T ss_pred cCCccHHHHHHHHHHH
Confidence 4466999999765554
No 8
>COG1698 Uncharacterized protein conserved in archaea [Function unknown]
Probab=74.25 E-value=21 Score=27.99 Aligned_cols=86 Identities=28% Similarity=0.400 Sum_probs=62.5
Q ss_pred CCCCchHHHHHHHHHHHHHHHHhcCCCCCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHHHhhhhhc
Q 029365 90 GKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKA 169 (194)
Q Consensus 90 g~~LPkdY~~dT~~VV~tLReaL~ldp~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsLAGhYss~ 169 (194)
|-.++.++.+.-..++..|++.+. |..=+.+.|+++.+|++..++ .|++.+.--.+||.-|=.--+
T Consensus 4 ~~~~~~d~~e~i~q~~~lL~~Ii~-DttVPRNIRraA~~a~e~L~~-----------e~e~p~vRaAtaIsiLeeisn-- 69 (93)
T COG1698 4 GQGLMNDSEEKINQVMQLLDEIIQ-DTTVPRNIRRAAEEAKEALNN-----------EGESPAVRAATAISILEEISN-- 69 (93)
T ss_pred hhcchhhhHHHHHHHHHHHHHHHc-cccccHHHHHHHHHHHHHHhC-----------CCCCchhHHHHHHHHHHHHhc--
Confidence 445677888888999999999555 666778899999999998864 467777777888888876533
Q ss_pred CCCCCCChHHHHHHHHHHHHHH
Q 029365 170 GPSAPLPGEVKSEILNDLDTAE 191 (194)
Q Consensus 170 Gp~rPLPeklK~RLlqEL~~AE 191 (194)
-||-|+ -.|..|.+=+.+-|
T Consensus 70 DPNmP~--h~RT~iw~vis~LE 89 (93)
T COG1698 70 DPNMPL--HARTLIWNVISQLE 89 (93)
T ss_pred CCCCch--HHHHHHHHHHHHHH
Confidence 488654 56666665544433
No 9
>TIGR01409 TAT_signal_seq Tat (twin-arginine translocation) pathway signal sequence. Members with small amino acid side chains at the -1 and -3 positions from the C-terminus of the model should be predicted to be cleaved as are Sec pathway signal sequences. Members are almost exclusively bacterial, although archaeal sequences are also found. A large fraction of the members of this family may have bound redox-active cofactors.
Probab=72.01 E-value=3.2 Score=25.22 Aligned_cols=12 Identities=33% Similarity=0.506 Sum_probs=9.6
Q ss_pred hhhHHHhhhhhh
Q 029365 30 SRRHVISCSSTA 41 (194)
Q Consensus 30 srr~~l~~~~~~ 41 (194)
+||+||..++.+
T Consensus 2 sRR~Flk~~~~~ 13 (29)
T TIGR01409 2 SRRDFLKGAAAA 13 (29)
T ss_pred chhhhHHHHHHH
Confidence 799999877654
No 10
>cd00040 CSF2 Granulocyte Macrophage Colony Stimulating Factor (GM-CSF) is a member of the large family of polypeptide growth factors called cytokines. It stimulates a wide variety of hematopoietic and nonhematopoietic cell types via binding to members of the cytokine receptor family, mainly the GM-CSF receptor.
Probab=67.15 E-value=12 Score=30.61 Aligned_cols=25 Identities=28% Similarity=0.511 Sum_probs=22.3
Q ss_pred chHHHHHHHHHHHHhhhhhcCCCCC
Q 029365 150 ESYVELEKAIRSLASFYSKAGPSAP 174 (194)
Q Consensus 150 ~SFttM~TALNsLAGhYss~Gp~rP 174 (194)
-|++-+..+|+-+|.||..+-|..|
T Consensus 68 GsltkLkg~LtmmAshYkqhCppTp 92 (121)
T cd00040 68 GSLTKLKGPLTMMASHYKQHCPPTP 92 (121)
T ss_pred ccHHHhccHHHHHHHHHHhcCCCCC
Confidence 3899999999999999999877665
No 11
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=63.68 E-value=31 Score=24.52 Aligned_cols=18 Identities=28% Similarity=0.361 Sum_probs=11.6
Q ss_pred HHHhhHHHHHHHHHHHHH
Q 029365 121 NFRRNADSAKESIRDYLS 138 (194)
Q Consensus 121 ~~~~aa~~AKe~Indyvs 138 (194)
.+.+..+.+++.+++++.
T Consensus 56 ~~~~~~~~~~e~~~e~~d 73 (74)
T PF12732_consen 56 KAEETADEAKEKAKELKD 73 (74)
T ss_pred HHHHHHHHHHHHHHHhhh
Confidence 344466777777777653
No 12
>PF15519 RBM39linker: linker between RRM2 and RRM3 domains in RBM39 protein; PDB: 3S6E_A 2LQ5_A.
Probab=56.99 E-value=4.5 Score=29.70 Aligned_cols=15 Identities=40% Similarity=0.760 Sum_probs=12.4
Q ss_pred cccccCCCccccCCC
Q 029365 77 IKSLFDPNEKTKSGK 91 (194)
Q Consensus 77 ~~slfdp~~~~ksg~ 91 (194)
++-.|||.++|..+|
T Consensus 59 LkNMFDP~~Ete~~W 73 (73)
T PF15519_consen 59 LKNMFDPAEETEPDW 73 (73)
T ss_dssp EESSS-TTCGGSTTH
T ss_pred eecCCCcccccCCCC
Confidence 678999999999887
No 13
>COG2822 Predicted periplasmic lipoprotein involved in iron transport [Inorganic ion transport and metabolism]
Probab=52.59 E-value=50 Score=31.32 Aligned_cols=65 Identities=26% Similarity=0.426 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHH--------HHHHHHHhhh
Q 029365 96 AYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELE--------KAIRSLASFY 166 (194)
Q Consensus 96 dY~~dT~~VV~tLReaL~ldp~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~--------TALNsLAGhY 166 (194)
.-++-+..|++.+|-.|+- +|. ...+-.+..=..+|+-+++||... |-.||..+- ..||+||+--
T Consensus 294 ANVeGsqki~dl~rp~Lek--~dk-~L~~kid~nF~kv~~~LakYkt~d---g~esydklt~~dr~al~~~itaLaE~l 366 (376)
T COG2822 294 ANVEGSQKIVDLFRPALEK--KDK-DLLDKIDANFKKVNTILAKYRTKD---GFESYDKLTKADRKALKDPITALAEDL 366 (376)
T ss_pred ccchhHHHHHHHHHHHHhh--ccH-HHHHHHHHHHHHHHHHHHHhccCC---cceeHHHhhHHHHHHHhhHHHHHHHHH
Confidence 3466788999999999995 333 445567778889999999999866 888998754 4556665543
No 14
>smart00040 CSF2 Granulocyte-macrophage colony-simulating factor (GM-CSF). GM-CSF stimulates the development of and the cytotoxic activity of white blood cells.
Probab=52.48 E-value=13 Score=30.32 Aligned_cols=26 Identities=27% Similarity=0.456 Sum_probs=22.7
Q ss_pred chHHHHHHHHHHHHhhhhhcCCCCCC
Q 029365 150 ESYVELEKAIRSLASFYSKAGPSAPL 175 (194)
Q Consensus 150 ~SFttM~TALNsLAGhYss~Gp~rPL 175 (194)
-||+-+..+|+-+|.||..+-|..|=
T Consensus 68 Gslt~Lkg~LtmmA~hYkq~CppTpE 93 (121)
T smart00040 68 GSLTKLKGPLTMMASHYKQHCPPTPE 93 (121)
T ss_pred ccHHHhhcHHHHHHHHHHhcCCCCCC
Confidence 38999999999999999999776653
No 15
>PF09037 Sulphotransf: Stf0 sulphotransferase; InterPro: IPR024628 Members of this family are essential for the biosynthesis of sulpholipid-1 in prokaryotes. They adopt a structure that belongs to the sulphotransferase superfamily, consisting of a single domain with a core four-stranded parallel beta-sheet flanked by alpha-helices []. ; PDB: 1TEX_B.
Probab=50.76 E-value=13 Score=32.38 Aligned_cols=47 Identities=15% Similarity=0.196 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCchH-HHhhHHHHHHHHHHHHHhccC
Q 029365 96 AYLKSARELVKTLRESLKEDPKDIAN-FRRNADSAKESIRDYLSNWRG 142 (194)
Q Consensus 96 dY~~dT~~VV~tLReaL~ldp~D~~~-~~~aa~~AKe~IndyvsrYRr 142 (194)
+..+|-..+++.+-+.|..+|...+. .......+-+.+.||+.|||.
T Consensus 197 dL~~dp~~~~~~Vl~fLgv~~~~~~~~~~~~~kqsd~~s~eW~~ry~~ 244 (245)
T PF09037_consen 197 DLLADPQKTVARVLDFLGVDPPLAPIVKPPLKKQSDERSEEWVERYRA 244 (245)
T ss_dssp HHHHHHHHHHHHHHHHTTS-GGGS----------------HHHHHHHH
T ss_pred HHHhCHHHHHHHHHHHhCCCCcccccCCCCceecCCCChHHHHHHHhc
Confidence 34455566778888888886655431 233444555678999999985
No 16
>PF10399 UCR_Fe-S_N: Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; InterPro: IPR019470 This entry represents the TAT-signal region found in the iron-sulphur subunit of Ubiquinol-cytochrome C reductase (also known as the cytochrome bc1 complex). This enzymex is an oligomeric membrane protein complex that is a component of respiratory and photosynthetic electron transfer chains. It couples the transfer of electrons from ubiquinol to cytochrome c with the generation of a protein gradient across the membrane []. This entry is associated with IPR017941 from INTERPRO, IPR004192 from INTERPRO and IPR015248 from INTERPRO. ; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0055114 oxidation-reduction process; PDB: 1ZRT_R 2QJY_R 2FYN_L 2QJK_O 2QJP_I 2YIU_F.
Probab=47.06 E-value=9.3 Score=25.52 Aligned_cols=13 Identities=15% Similarity=0.394 Sum_probs=6.7
Q ss_pred hhhhhhhHHHhhh
Q 029365 26 KAASSRRHVISCS 38 (194)
Q Consensus 26 ~a~~srr~~l~~~ 38 (194)
....+||.||..+
T Consensus 6 ~~~~~RRdFL~~a 18 (41)
T PF10399_consen 6 PVDPTRRDFLTIA 18 (41)
T ss_dssp ----HHHHHHHHH
T ss_pred CCCchHHHHHHHH
Confidence 4567899999433
No 17
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=46.89 E-value=45 Score=28.60 Aligned_cols=98 Identities=13% Similarity=0.140 Sum_probs=54.8
Q ss_pred cCCCCCchHHHHHHHHHHHHHHHHhcC-CCCCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHHHhhh
Q 029365 88 KSGKVLPKAYLKSARELVKTLRESLKE-DPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFY 166 (194)
Q Consensus 88 ksg~~LPkdY~~dT~~VV~tLReaL~l-dp~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsLAGhY 166 (194)
|--|-=|.++ ..+++++.+.|.. ||.+...+++..+...+.+.+.-..|+..-.-.....|-+.-.|++=|+..|
T Consensus 112 PH~Wldp~~~----~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H~af~Y~~~~y 187 (266)
T cd01018 112 PHIWLSPANA----KIMAENIYEALAELDPQNATYYQANLDALLAELDALDSEIRTILSKLKQRAFMVYHPAWGYFARDY 187 (266)
T ss_pred CccCcCHHHH----HHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCeEEEECchhHHHHHHc
Confidence 3467778888 4555555555553 7888888888888777777777776663211111112222223444444433
Q ss_pred hhc-----CCCCCCChHHHHHHHHHHHH
Q 029365 167 SKA-----GPSAPLPGEVKSEILNDLDT 189 (194)
Q Consensus 167 ss~-----Gp~rPLPeklK~RLlqEL~~ 189 (194)
.=- ++....+.+.-.+|.+.+++
T Consensus 188 gl~~~~~~~~~~eps~~~l~~l~~~ik~ 215 (266)
T cd01018 188 GLTQIPIEEEGKEPSPADLKRLIDLAKE 215 (266)
T ss_pred CCEEEecCCCCCCCCHHHHHHHHHHHHH
Confidence 211 24455556666666666654
No 18
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=46.64 E-value=1.8e+02 Score=24.98 Aligned_cols=80 Identities=10% Similarity=0.163 Sum_probs=57.5
Q ss_pred HHHHHHHHHhcCCCCCchHHHhh-------------HHHHHHHHHHHHHhccCCCCCC------Ccc----------hH-
Q 029365 103 ELVKTLRESLKEDPKDIANFRRN-------------ADSAKESIRDYLSNWRGQKTVA------GEE----------SY- 152 (194)
Q Consensus 103 ~VV~tLReaL~ldp~D~~~~~~a-------------a~~AKe~IndyvsrYRr~~~V~------G~~----------SF- 152 (194)
+.++.++..++..|... -...+ -+.|....+.|+..|-+++.+. |.. .|
T Consensus 50 ~Ai~~f~~l~~~yP~s~-~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~~~~~~~~~~ 128 (243)
T PRK10866 50 QAITQLEALDNRYPFGP-YSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMALDDSALQGFF 128 (243)
T ss_pred HHHHHHHHHHHhCCCCh-HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhhcchhhhhhcc
Confidence 44566777777756443 32222 3678889999999998888876 221 11
Q ss_pred ---------HHHHHHHHHHHhhhhhcCCCCCCChHHHHHHH
Q 029365 153 ---------VELEKAIRSLASFYSKAGPSAPLPGEVKSEIL 184 (194)
Q Consensus 153 ---------ttM~TALNsLAGhYss~Gp~rPLPeklK~RLl 184 (194)
+..+.|++.+..+=..| |+.+--++.+.||.
T Consensus 129 ~~~~~~rD~~~~~~A~~~~~~li~~y-P~S~ya~~A~~rl~ 168 (243)
T PRK10866 129 GVDRSDRDPQHARAAFRDFSKLVRGY-PNSQYTTDATKRLV 168 (243)
T ss_pred CCCccccCHHHHHHHHHHHHHHHHHC-cCChhHHHHHHHHH
Confidence 33578999999999997 99999999988764
No 19
>cd08054 gp6 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins. The bacteriophage HK97 gp6 protein is critical in the assembly of the connector, a specialized structure that serves as an interface for head and tail attachment, as well as a point at which DNA exits the head during infection by the bacteriophage. It forms a dodecameric ring structure that comprises the middle ring of the connector, located between the portal protein (attached to the head) and the gp7 ring (attached to the tail). It is a component of the mature phage and the absence of HK97 gp6 results in defective head-tail joining and the absence of mature phage particles. Although the crystal structure of HK97 gp6 shows an unexpected 13-mer ring, the biological form present in the mature phage is believed to be a dodecamer.
Probab=45.72 E-value=1e+02 Score=21.51 Aligned_cols=76 Identities=24% Similarity=0.225 Sum_probs=48.6
Q ss_pred HHHHHHhcCCC-CCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHHHhhhhhc-C-----CCCCCChH
Q 029365 106 KTLRESLKEDP-KDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKA-G-----PSAPLPGE 178 (194)
Q Consensus 106 ~tLReaL~ldp-~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsLAGhYss~-G-----p~rPLPek 178 (194)
+.+++-|..|. .|+.-.....+.|++.|..|+.+--......+..-...+..|+..|++|+=.+ + ...++|.-
T Consensus 3 ~~~K~~Lrid~d~dD~~i~~li~aA~~~i~~~~g~~~~~~~~~~~~~~~~~~~Ail~l~~~~Y~nR~~~~~~~~~~~~~~ 82 (91)
T cd08054 3 EEAKAHLRIDHDDDDALIELLIDAAEEYIENYTGRDLDEQTADAEEVPALIKLAVLLLVAHLYENREAVTDVTASELPFG 82 (91)
T ss_pred HHHHhHcCCCCCCCHHHHHHHHHHHHHHHHHHhCCchhhcCCccccCCHHHHHHHHHHHHHHHhCccchhhcccccCCHH
Confidence 34555555533 34566777788888888888877654433456667778888998888876432 1 13566655
Q ss_pred HHH
Q 029365 179 VKS 181 (194)
Q Consensus 179 lK~ 181 (194)
++.
T Consensus 83 v~~ 85 (91)
T cd08054 83 VES 85 (91)
T ss_pred HHH
Confidence 543
No 20
>PF09236 AHSP: Alpha-haemoglobin stabilising protein; InterPro: IPR015317 Alpha-haemoglobin stabilising protein (AHSP) acts a molecular chaperone for free alpha-haemoglobin, preventing the harmful aggregation of alpha-haemoglobin during normal erythroid cell development: it specifically protects free alpha-haemoglobin from precipitation. AHSP adopts a helical secondary structure consisting of an elongated antiparallel three alpha-helix bundle []. ; GO: 0030492 hemoglobin binding, 0006457 protein folding, 0020027 hemoglobin metabolic process, 0030097 hemopoiesis, 0050821 protein stabilization; PDB: 1Y01_A 1XZY_A 3OVU_A 1W0A_A 3IA3_C 1Z8U_A 1W0B_A 1W09_A.
Probab=45.40 E-value=29 Score=27.11 Aligned_cols=17 Identities=12% Similarity=0.255 Sum_probs=7.6
Q ss_pred HHHHHHHHHHhhhhhcC
Q 029365 154 ELEKAIRSLASFYSKAG 170 (194)
Q Consensus 154 tM~TALNsLAGhYss~G 170 (194)
.|.|.+|-.-.||.+|+
T Consensus 32 ~MvtvV~DwvnfYINYy 48 (89)
T PF09236_consen 32 AMVTVVNDWVNFYINYY 48 (89)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444444444444443
No 21
>PRK15219 carbonic anhydrase; Provisional
Probab=43.28 E-value=9.7 Score=33.67 Aligned_cols=73 Identities=22% Similarity=0.180 Sum_probs=39.6
Q ss_pred hhhhhhHHHhhhhhhHHHHHHhhc-ccCCcchhhhcccCCCcccccccccccccccCCCccccCCCCCchHHHHH
Q 029365 27 AASSRRHVISCSSTALVAILTFNC-GLAPLPVQAEDMSNGQDEKEEGVVGAIKSLFDPNEKTKSGKVLPKAYLKS 100 (194)
Q Consensus 27 a~~srr~~l~~~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~~~~~g~~~slfdp~~~~ksg~~LPkdY~~d 100 (194)
...+||++|...++.+.+.++... ...+.++.+..-.... ...-.--.+++.|++=|.+|..|...+.+|...
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~p~~al~~L~~GN~rF~~~~~~~~~~~~~ 80 (245)
T PRK15219 7 NQPSRRAVLKAALAMTAASVIGLAGLGVPQISYAASLTKEE-RDKMTPDQIIESLKQGNKRFRSGKPAQHDYLAQ 80 (245)
T ss_pred cchHHHHHHHHHHHHHHHhhhhccccccchhhhhhcccccc-cCCCCHHHHHHHHHHHHHHHHhcCcCCchhhHH
Confidence 456899999766554333322111 1233333332111100 111123345889999999999998777777654
No 22
>PRK09269 chorismate mutase; Provisional
Probab=43.13 E-value=1.2e+02 Score=26.17 Aligned_cols=64 Identities=14% Similarity=0.261 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHhc---CCCCCc-hHHHhhHHHHHHHHHHHHHhccCCCCCCC--cchHHHHHHHHHHHH
Q 029365 100 SARELVKTLRESLK---EDPKDI-ANFRRNADSAKESIRDYLSNWRGQKTVAG--EESYVELEKAIRSLA 163 (194)
Q Consensus 100 dT~~VV~tLReaL~---ldp~D~-~~~~~aa~~AKe~IndyvsrYRr~~~V~G--~~SFttM~TALNsLA 163 (194)
.=.+|++.++.--+ +||... .=|+...+.+|..-+.|+++|+.++.... -+.-.+++..|..|.
T Consensus 67 RE~~VL~~v~~~A~~~gLdp~~v~~iF~~~I~aSk~iQ~~~~a~W~~~~~~~~~~~~dL~~~Rp~l~~L~ 136 (193)
T PRK09269 67 REAQVLANVEAQAPAHGVDPDYVRRFFRDQIEANKLVQYALLARWRLAGAAPPGPRPDLASIRPRLDRLQ 136 (193)
T ss_pred HHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHH
Confidence 33567777776665 333222 33888899999999999999997755332 355557776666654
No 23
>PRK13874 conjugal transfer protein TrbJ; Provisional
Probab=42.30 E-value=92 Score=27.39 Aligned_cols=19 Identities=11% Similarity=0.212 Sum_probs=13.6
Q ss_pred hHHHHHHHHHHHHHHHHhc
Q 029365 95 KAYLKSARELVKTLRESLK 113 (194)
Q Consensus 95 kdY~~dT~~VV~tLReaL~ 113 (194)
-+|.+.+...++.|.....
T Consensus 33 ~N~~qn~ltaa~~l~Qi~n 51 (230)
T PRK13874 33 TNYAQNVLTAARALQQINN 51 (230)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 4888888877777766543
No 24
>TIGR01560 put_DNA_pack uncharacterized phage protein (possible DNA packaging). This model describes a small (~ 100 amino acids) protein found in phage and in putative prophage regions of a number of bacterial genomes. Members have been annotated in some cases as a possible DNA packaging protein, but the source of this annotation was not traced during construction of this model.
Probab=39.67 E-value=1.3e+02 Score=22.07 Aligned_cols=58 Identities=17% Similarity=0.129 Sum_probs=38.5
Q ss_pred HHHHHhcCCC-CCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHHHhhhhh
Q 029365 107 TLRESLKEDP-KDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSK 168 (194)
Q Consensus 107 tLReaL~ldp-~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsLAGhYss 168 (194)
.++.-|..|. .|+.-.....+.|++.|..++.+.-.. .......+..|+..|.+|+=.
T Consensus 4 ~vK~~LrId~d~dD~li~~~i~aA~~~i~~~ig~~~~~----~~~~~~~~~~Avl~lv~~~Ye 62 (91)
T TIGR01560 4 EVKLSLRIDHDDDDELIKLMIAAAQDYIQSAIGTGVKD----SFDSKPLFKLACIKLVAHYYE 62 (91)
T ss_pred HHHhHhcCCCCccHHHHHHHHHHHHHHHHHHhCCCccc----ccccCHHHHHHHHHHHHHHHH
Confidence 3455555533 355566677888999999988765332 333445678899999998744
No 25
>PF02899 Phage_int_SAM_1: Phage integrase, N-terminal SAM-like domain; InterPro: IPR004107 Proteins containing this domain cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment [, ]. The phage integrase N-terminal SAM-like domain is almost always found with the signature that defines the phage integrase family (see IPR002104 from INTERPRO).; GO: 0003677 DNA binding, 0015074 DNA integration; PDB: 1Z1G_B 1Z19_A 1Z1B_A 2OXO_A 1P7D_B 3NRW_A 1A0P_A.
Probab=38.47 E-value=1.2e+02 Score=20.39 Aligned_cols=59 Identities=22% Similarity=0.432 Sum_probs=37.4
Q ss_pred hHHHHHHHHHHHHHHHHhcCCCCCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHHHhhhh
Q 029365 95 KAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYS 167 (194)
Q Consensus 95 kdY~~dT~~VV~tLReaL~ldp~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsLAGhYs 167 (194)
+.|..+-...++-+.+ . ...+.. +--...|.+|+....... -|-+|+...+++|-.||.
T Consensus 20 ~~Y~~~l~~f~~~~~~--~-~~~~~~------~i~~~~v~~f~~~~~~~~-----~s~~T~~~~~~alr~f~~ 78 (84)
T PF02899_consen 20 RSYRRDLRRFIRWLEE--H-GIIDWE------DITEEDVRDFLEYLAKEG-----LSPSTINRRLSALRAFFR 78 (84)
T ss_dssp HHHHHHHHHHHHHHHH--T-TS-CGG------G--HHHHHHHHHHHHCTT-------HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhhh--h-hhhhhh------hhhhHHHHHHHHHHHccC-----CCHHHHHHHHHHHHHHHH
Confidence 4576666666666655 1 112221 224467889999887755 888999999999999985
No 26
>TIGR03175 AllD ureidoglycolate dehydrogenase. This enzyme converts ureidoglycolate to oxalureate in the non-urea-forming catabolism of allantoin (GenProp0687). The pathway has been characterized in E. coli and is observed in the genomes of Entercoccus faecalis and Bacillus licheniformis.
Probab=38.28 E-value=43 Score=31.11 Aligned_cols=81 Identities=15% Similarity=0.252 Sum_probs=51.3
Q ss_pred cccccccccCCCccccCCCCCchHHHHHHHHHHHHHHHHhcCC-------CCCchHHHhhHHHHHHHHHHHHHhccCCCC
Q 029365 73 VVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKED-------PKDIANFRRNADSAKESIRDYLSNWRGQKT 145 (194)
Q Consensus 73 ~~g~~~slfdp~~~~ksg~~LPkdY~~dT~~VV~tLReaL~ld-------p~D~~~~~~aa~~AKe~IndyvsrYRr~~~ 145 (194)
-+|.+--..||+--.. ..+|.+...++++.||.+--.+ |.|.+...+ .+..
T Consensus 260 ~~G~~~iaIDP~~F~~-----~~~f~~~~~~~~~~~r~~~~a~g~~~V~~PGe~e~~~~-----------------~~~~ 317 (349)
T TIGR03175 260 NLGQLHLVINPAFFTD-----CELFKKHISQMMQELNSVPPAEGFKQVYYPGEDGDLKQ-----------------KKAD 317 (349)
T ss_pred CcceEEEEEChHHcCC-----HHHHHHHHHHHHHHHhcCCCCCCCCceECCCcHHHHHH-----------------HHHH
Confidence 3556666778854311 3579999999999999873221 444433111 1113
Q ss_pred CCCcchHHHHHHHHHHHHhhhhhcCCCCCC
Q 029365 146 VAGEESYVELEKAIRSLASFYSKAGPSAPL 175 (194)
Q Consensus 146 V~G~~SFttM~TALNsLAGhYss~Gp~rPL 175 (194)
-.|-+==..+...|+.|+-||++|-.+-|.
T Consensus 318 ~~GI~l~~~~~~~L~~la~~~~~~~~~~~~ 347 (349)
T TIGR03175 318 MEGIEIVDDIYQYLVSDAVHYKSYEGKNPF 347 (349)
T ss_pred ccCCccCHHHHHHHHHHHHHHHhccCCCcC
Confidence 345555567778889999999999666654
No 27
>PF13551 HTH_29: Winged helix-turn helix
Probab=37.76 E-value=99 Score=22.01 Aligned_cols=56 Identities=18% Similarity=0.300 Sum_probs=32.2
Q ss_pred hHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHHHh-hhhhcCCCCCCChHHHHHHHHHHHH
Q 029365 120 ANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLAS-FYSKAGPSAPLPGEVKSEILNDLDT 189 (194)
Q Consensus 120 ~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsLAG-hYss~Gp~rPLPeklK~RLlqEL~~ 189 (194)
.+.++.-.-.+..|..|+.+|+... +..|-. .+..-.|..+|+++.++.|.+.+.+
T Consensus 16 ~~ia~~lg~s~~Tv~r~~~~~~~~G--------------~~~l~~~~~~~g~~~~~l~~~~~~~l~~~~~~ 72 (112)
T PF13551_consen 16 AEIARRLGISRRTVYRWLKRYREGG--------------IEGLLPRKPRGGRPRKRLSEEQRAQLIELLRE 72 (112)
T ss_pred HHHHHHHCcCHHHHHHHHHHHHccc--------------HHHHHhccccCCCCCCCCCHHHHHHHHHHHHH
Confidence 3444455556889999999998644 111222 2222122333778887777766653
No 28
>PRK15102 trimethylamine N-oxide reductase I catalytic subunit; Provisional
Probab=37.54 E-value=24 Score=35.31 Aligned_cols=31 Identities=23% Similarity=0.083 Sum_probs=16.6
Q ss_pred hhhHHHhhhhhhHHHHHHhhcccCCcchhhh
Q 029365 30 SRRHVISCSSTALVAILTFNCGLAPLPVQAE 60 (194)
Q Consensus 30 srr~~l~~~~~~~~~~~~~~~~~~~~~~~a~ 60 (194)
|||.||.++++++.+.+...+.+.+..+.|.
T Consensus 2 sRR~flk~~~~~~~~~~~g~~~~~~~~~~~~ 32 (825)
T PRK15102 2 SRRRFLKGLGGLSAAGMLGPSLLTPRSALAA 32 (825)
T ss_pred CHHHHHHHHHHHHHHHhhcccccchhhhhhc
Confidence 7999997666543222222334444444444
No 29
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type. The N-terminal region of about 200 amino acids is rich in low-complexity sequence, poorly alignable, and not included n this model.
Probab=36.66 E-value=1.5e+02 Score=32.13 Aligned_cols=91 Identities=18% Similarity=0.206 Sum_probs=49.4
Q ss_pred CchHHHHHHHHHHHHHHHHhcCCCCCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHH--HhhhhhcC
Q 029365 93 LPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSL--ASFYSKAG 170 (194)
Q Consensus 93 LPkdY~~dT~~VV~tLReaL~ldp~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsL--AGhYss~G 170 (194)
.|..|++.|.++.+.... + |.+.+. +.+=.--..|.|-+..-...+.---.|.|.+-..-|+.| .|....||
T Consensus 540 ~~~~y~~t~~EM~~~F~~---l-~~~~a~--e~~i~Nt~~IA~~c~~~~~~~~~~~~P~~~~~~~~L~~l~~~~~~~~yg 613 (1213)
T TIGR01405 540 VPELHFRTTNEMLDEFSF---L-GEEKAY--EIVVENTNKIADQIEEIQPIKDKLYTPKIEGADEKIRDLTYENAKKIYG 613 (1213)
T ss_pred CcccccCCHHHHHHHHhh---c-chhhhh--HHHHHHHHHHHHHhhcccccCCCCCCCCCCCHHHHHHHHHHHHHHHHcC
Confidence 677899999998887654 2 222211 111111222333332212221222334443344445544 45666776
Q ss_pred CCCCCChHHHHHHHHHHHHHH
Q 029365 171 PSAPLPGEVKSEILNDLDTAE 191 (194)
Q Consensus 171 p~rPLPeklK~RLlqEL~~AE 191 (194)
. |+|+.+++||.+||+-..
T Consensus 614 ~--~l~~~v~~RLe~EL~~I~ 632 (1213)
T TIGR01405 614 D--PLPEIVEQRIEKELKSII 632 (1213)
T ss_pred C--CCcHHHHHHHHHHHHHHH
Confidence 3 699999999999998764
No 30
>PF08374 Protocadherin: Protocadherin; InterPro: IPR013585 The structure of protocadherins is similar to that of classic cadherins (IPR002126 from INTERPRO), but they also have some unique features associated with the cytoplasmic domains. They are expressed in a variety of organisms and are found in high concentrations in the brain where they seem to be localised mainly at cell-cell contact sites. Their expression seems to be developmentally regulated [].
Probab=36.60 E-value=6 Score=35.14 Aligned_cols=30 Identities=20% Similarity=0.224 Sum_probs=21.0
Q ss_pred HHHHHHHHhccCCCCCCCcchHHHHHHHHHHHHhhhhhcC
Q 029365 131 ESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAG 170 (194)
Q Consensus 131 e~IndyvsrYRr~~~V~G~~SFttM~TALNsLAGhYss~G 170 (194)
++.++=+++|.+-.---|.+. ||-||++.+
T Consensus 133 ~~~~~~~~~~~pt~~~P~sPD----------LarHYkS~S 162 (221)
T PF08374_consen 133 ELEEDSMGKYLPTTFKPDSPD----------LARHYKSAS 162 (221)
T ss_pred ccCCCCcccccCCCCCCCCcc----------hhhhcccCC
Confidence 667778888865444444443 999999854
No 31
>PF08542 Rep_fac_C: Replication factor C C-terminal domain; InterPro: IPR013748 Replication factor C (RFC) is a multimeric AAA+ protein complex that loads the DNA polymerase processivity clamp PCNA (Proliferating Cell Nuclear Antigen) onto DNA using ATP to drive the reaction []. PCNA functions at multiple levels in directing DNA metabolic pathways []. When bound to DNA, PCNA organises various proteins involved in DNA replication, DNA repair, DNA modification, and chromatin modelling. Replication factor C consists of five subunits in a spiral arrangement: Rfc1, Rfc2, Rfc3, Rfc4, and Rfc5 subunits. Rfc1 and Rfc2 load the PCNA sliding clamp onto DNA, while Rfc3 binds ATP and also acts as a checkpoint sensor. The RFC complex contains four ATP sites (sites A, B, C, and D) located at subunit interfaces. In each ATP site, an arginine residue from one subunit is located near the gamma-phosphate of ATP bound in the adjacent subunit. These arginine residues act as "arginine fingers" that can potentially perform two functions: sensing that ATP is bound and catalyzing ATP hydrolysis []. This entry represents the core domain found in Rfc1-5.; GO: 0003689 DNA clamp loader activity, 0005524 ATP binding, 0006260 DNA replication, 0005663 DNA replication factor C complex; PDB: 1SXJ_B 2CHG_B 2CHV_F 2CHQ_C 1IQP_A.
Probab=35.46 E-value=1.6e+02 Score=20.72 Aligned_cols=36 Identities=25% Similarity=0.332 Sum_probs=27.5
Q ss_pred HHHHHHHHHhhhhhcCCCCCCChHHHHHHHHHHHHHHhcC
Q 029365 155 LEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL 194 (194)
Q Consensus 155 M~TALNsLAGhYss~Gp~rPLPeklK~RLlqEL~~AE~aL 194 (194)
...-|+.|......+ .+|+..|.+|++.+.++|..|
T Consensus 37 ~~~Il~~l~~~l~~~----~~~~~~k~~i~~~la~~e~rl 72 (89)
T PF08542_consen 37 ASDILKQLHEVLVES----DIPDSQKAEILKILAEIEYRL 72 (89)
T ss_dssp HHHHHHHHHHHHHTS----TSSHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHh----hccHHHHHHHHHHHHHHhHHH
Confidence 345566666666663 789999999999999998653
No 32
>PF04740 LXG: LXG domain of WXG superfamily; InterPro: IPR006829 This group of putative transposases is found in Gram-positive bacteria, mostly Bacillus members and is thought to be a Cytosolic protein. However, we have also found a Bacillus subtilis bacteriophage SPbetac2 homologue (O64023 from SWISSPROT), possibly arising as a result of horizontal transfer. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=34.44 E-value=1.9e+02 Score=23.48 Aligned_cols=66 Identities=20% Similarity=0.288 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHhccCCCCCCCcchH-HHHHHHHHHHHhhhhhcC--CCCCCChHHHH-HHHHHHHHHHh
Q 029365 126 ADSAKESIRDYLSNWRGQKTVAGEESY-VELEKAIRSLASFYSKAG--PSAPLPGEVKS-EILNDLDTAEK 192 (194)
Q Consensus 126 a~~AKe~IndyvsrYRr~~~V~G~~SF-ttM~TALNsLAGhYss~G--p~rPLPeklK~-RLlqEL~~AE~ 192 (194)
.-.|-+.|+.|++.... |-+.|...| ..+..+++.+-.|+..+. ++.-|.++.-+ .|.+.++++..
T Consensus 44 kGka~dsiK~y~~~vh~-pll~~~~~~~~~~~~~l~~~~~~~~~vd~~~~a~i~e~~L~~el~~~l~~~~~ 113 (204)
T PF04740_consen 44 KGKAYDSIKNYFSEVHI-PLLQGLILLLEEYQEALKFIKDFQSEVDSSSNAIIDEDFLESELKKKLNQLKE 113 (204)
T ss_pred hhHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhHHHHHHHHcccccccccHHHHHHHHHHHHHHHHH
Confidence 45566777777777544 556666666 556688888999998887 35668887666 77777766543
No 33
>KOG0416 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.20 E-value=1.2e+02 Score=26.58 Aligned_cols=70 Identities=20% Similarity=0.394 Sum_probs=45.5
Q ss_pred ccccccccCCCccccCCCCCchHHHH------HHHHHHHHHHHHh-cC-CCCCchHHHhh------HHHHHHHHHHHHHh
Q 029365 74 VGAIKSLFDPNEKTKSGKVLPKAYLK------SARELVKTLRESL-KE-DPKDIANFRRN------ADSAKESIRDYLSN 139 (194)
Q Consensus 74 ~g~~~slfdp~~~~ksg~~LPkdY~~------dT~~VV~tLReaL-~l-dp~D~~~~~~a------a~~AKe~Indyvsr 139 (194)
+|-+..+|-||-..-||.+|=+---| |-..+++++-=-| .- +|.|+-+-+.| ...=++.|++|+.+
T Consensus 66 IGFvnKIfHPNIDe~SGsVCLDViNQtWSp~yDL~NIfetfLPQLL~YPNp~DPLN~eAAal~l~~~~~Y~~~v~eY~~k 145 (189)
T KOG0416|consen 66 IGFVNKIFHPNIDEASGSVCLDVINQTWSPLYDLVNIFETFLPQLLRYPNPSDPLNGEAAALYLRDPEEYEEKVKEYIKK 145 (189)
T ss_pred ccceeeccCCCchhccCccHHHHHhhhhhHHHHHHHHHHHHhHHHhcCCCCCCCcccHHHHHHhcCHHHHHHHHHHHHHH
Confidence 68889999999999999998543322 3334444433222 22 56666443222 35668899999999
Q ss_pred ccCC
Q 029365 140 WRGQ 143 (194)
Q Consensus 140 YRr~ 143 (194)
|--.
T Consensus 146 YA~~ 149 (189)
T KOG0416|consen 146 YATP 149 (189)
T ss_pred hcCh
Confidence 9643
No 34
>TIGR02166 dmsA_ynfE anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family. Members of this family include known and probable dimethyl sulfoxide reductase (DMSO reductase) A chains. In E. coli, dmsA encodes the canonical anaerobic DMSO reductase A chain. The paralog ynfE, as part of ynfFGH expressed from a multicopy plasmid, could complement a dmsABC deletion, suggesting a similar function and some overlap in specificity, although YnfE could not substitute for DmsA in a mixed complex.
Probab=33.93 E-value=38 Score=33.42 Aligned_cols=24 Identities=21% Similarity=0.043 Sum_probs=14.3
Q ss_pred hhhHHHhhhhhhHHHHHHhhcccC
Q 029365 30 SRRHVISCSSTALVAILTFNCGLA 53 (194)
Q Consensus 30 srr~~l~~~~~~~~~~~~~~~~~~ 53 (194)
+||+||.++++++.+++...|+..
T Consensus 2 ~RR~Flk~~~~~~~~~~~~~~~~~ 25 (797)
T TIGR02166 2 SRRHFLKTSAALGGLAAASGALSL 25 (797)
T ss_pred CHHHHHHHHHHHHHHHHHhhcccc
Confidence 799999766544334333455543
No 35
>PF13333 rve_2: Integrase core domain
Probab=33.78 E-value=53 Score=21.79 Aligned_cols=24 Identities=17% Similarity=0.488 Sum_probs=18.7
Q ss_pred hHHHHHHHHHHHHHhccCCCCCCCc
Q 029365 125 NADSAKESIRDYLSNWRGQKTVAGE 149 (194)
Q Consensus 125 aa~~AKe~IndyvsrYRr~~~V~G~ 149 (194)
..+++++.|.+||-.| +..+..|+
T Consensus 19 t~eel~~~I~~YI~~y-N~~Rl~~l 42 (52)
T PF13333_consen 19 TREELKQAIDEYIDYY-NNERLKGL 42 (52)
T ss_pred hHHHHHHHHHHHHHHh-ccCCCCCc
Confidence 5789999999999999 55555443
No 36
>PRK10882 hydrogenase 2 protein HybA; Provisional
Probab=33.64 E-value=26 Score=32.22 Aligned_cols=12 Identities=25% Similarity=0.540 Sum_probs=9.3
Q ss_pred hhhHHHhhhhhh
Q 029365 30 SRRHVISCSSTA 41 (194)
Q Consensus 30 srr~~l~~~~~~ 41 (194)
+||+||.+++++
T Consensus 2 ~RR~fl~~~~~~ 13 (328)
T PRK10882 2 NRRNFLKAASAG 13 (328)
T ss_pred CHHHHHHHHHHH
Confidence 699999876554
No 37
>PF08463 EcoEI_R_C: EcoEI R protein C-terminal; InterPro: IPR013670 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type I restriction endonucleases are components of prokaryotic DNA restriction-modification mechanisms that protects the organism against invading foreign DNA. Type I enzymes have three different subunits subunits - M (modification), S (specificity) and R (restriction) - that form multifunctional enzymes with restriction (3.1.21.3 from EC), methylase (2.1.1.72 from EC) and ATPase activities [, ]. The S subunit is required for both restriction and modification and is responsible for recognition of the DNA sequence specific for the system. The M subunit is necessary for modification, and the R subunit is required for restriction. These enzymes use S-Adenosyl-L-methionine (AdoMet) as the methyl group donor in the methylation reaction, and have a requirement for ATP. They recognise asymmetric DNA sequences split into two domains of specific sequence, one 3-4 bp long and another 4-5 bp long, separated by a nonspecific spacer 6-8 bp in length. Cleavage occurs a considerable distance from the recognition sites, rarely less than 400 bp away and up to 7000 bp away. Adenosyl residues are methylated, one on each strand of the recognition sequence. These enzymes are widespread in eubacteria and archaea. In enteric bacteria they have been subdivide into four families: types IA, IB, IC and ID. Type III restriction endonucleases (3.1.21.5 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. Type III enzymes are hetero-oligomeric, multifunctional proteins composed of two subunits, Res and Mod. The Mod subunit recognises the DNA sequence specific for the system and is a modification methyltransferase; as such it is functionally equivalent to the M and S subunits of type I restriction endonuclease. Res is required for restriction, although it has no enzymatic activity on its own. Type III enzymes recognise short 5-6 bp long asymmetric DNA sequences and cleave 25-27 bp downstream to leave short, single-stranded 5' protrusions. They require the presence of two inversely oriented unmethylated recognition sites for restriction to occur. These enzymes methylate only one strand of the DNA, at the N-6 position of adenosyl residues, so newly replicated DNA will have only one strand methylated, which is sufficient to protect against restriction. Type III enzymes belong to the beta-subfamily of N6 adenine methyltransferases, containing the nine motifs that characterise this family, including motif I, the AdoMet binding pocket (FXGXG), and motif IV, the catalytic region (S/D/N (PP) Y/F) [, ]. This entry represents the C-terminal domain found in both the R subunit of type I enzymes and the Res subunit of type III enzymes. The type I enzyme represented is EcoEI, which recognises 5'-GAGN(7)ATGC-3; the R protein (HsdR) is required for both nuclease and ATPase activity [, ]. ; GO: 0003677 DNA binding, 0003824 catalytic activity, 0006304 DNA modification
Probab=33.50 E-value=42 Score=26.56 Aligned_cols=64 Identities=14% Similarity=0.303 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHH-HHHHHHHhhhhhcCCCC
Q 029365 96 AYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELE-KAIRSLASFYSKAGPSA 173 (194)
Q Consensus 96 dY~~dT~~VV~tLReaL~ldp~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~-TALNsLAGhYss~Gp~r 173 (194)
.|.....+++.-||..+.+|.+=. .+ .+.+.+..++|+..+. |+..| .-|+.|-.||..+|--.
T Consensus 60 ~~~~~~~dl~~~ir~i~g~d~~l~-tr---~erv~~~~~~~l~~~~----------~~~~Q~~~L~~i~~~~~~~G~~~ 124 (164)
T PF08463_consen 60 TYEAIDADLFDFIRHILGLDTPLL-TR---RERVEEAFSKFLNQHQ----------FNAEQREFLERILDYYAQNGIIE 124 (164)
T ss_pred hcccccCCHHHHHHHHHhcCCCCC-CH---HHHHHHHHHHHHHhcC----------CCHHHHHHHHHHHHHHHHhCccc
Confidence 555556678888999988841111 22 2333335588886663 66666 77899999999988443
No 38
>PRK00035 hemH ferrochelatase; Reviewed
Probab=33.07 E-value=1.3e+02 Score=26.62 Aligned_cols=58 Identities=19% Similarity=0.322 Sum_probs=37.7
Q ss_pred HHHHHHHHhccCCCCCCCcchHHHH--------HHHHHHHHhhhhhcCCCCCCCh---HHHHHHHHHHH
Q 029365 131 ESIRDYLSNWRGQKTVAGEESYVEL--------EKAIRSLASFYSKAGPSAPLPG---EVKSEILNDLD 188 (194)
Q Consensus 131 e~IndyvsrYRr~~~V~G~~SFttM--------~TALNsLAGhYss~Gp~rPLPe---klK~RLlqEL~ 188 (194)
+.|..|+.++..++.|-+.+.+.-- ..=+..++.+|...|-..||+. +.-+.|.+.|+
T Consensus 20 ~~v~~fl~~~~~d~~v~~~~~~~~~~~l~~~i~~~r~~~~~~~Y~~ig~gSPl~~~t~~q~~~L~~~l~ 88 (333)
T PRK00035 20 EDVRPFLKNFLSDRRVIDLPRPLWQPLLAGIILPERLPKVAKHYASIGGGSPLNVITRRQAEALQAELA 88 (333)
T ss_pred HHHHHHHHHHcCCCCcccCCHHHHHHHHHHHhhhhhHHHHHHHHHHcCCCChhHHHHHHHHHHHHHHHh
Confidence 5677888888888888877764321 2233467788988887778874 33344444443
No 39
>PRK07474 sulfur oxidation protein SoxY; Provisional
Probab=32.58 E-value=24 Score=29.45 Aligned_cols=14 Identities=36% Similarity=0.423 Sum_probs=10.6
Q ss_pred hhhhhHHHhhhhhh
Q 029365 28 ASSRRHVISCSSTA 41 (194)
Q Consensus 28 ~~srr~~l~~~~~~ 41 (194)
..+||++|...+++
T Consensus 7 ~~~rr~~l~~~~~~ 20 (154)
T PRK07474 7 ALSRRQALALGGGA 20 (154)
T ss_pred CcCHHHHHHHHHHH
Confidence 46899999876654
No 40
>PF10163 EnY2: Transcription factor e(y)2; InterPro: IPR018783 Enhancer of yellow 2 (EnY2) is a small transcription factor which is combined in a complex with the TAFII40 protein []. This protein is conserved from protozoa to humans.; PDB: 4DHX_C 3FWC_P 3M99_C 3KIK_A 3KJL_C 3FWB_C 3MHS_B 3MHH_B.
Probab=31.31 E-value=1.7e+02 Score=21.62 Aligned_cols=51 Identities=27% Similarity=0.469 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHHHhhhhhcCCCCCCChHHHHHHHHHHHH
Q 029365 126 ADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDT 189 (194)
Q Consensus 126 a~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsLAGhYss~Gp~rPLPeklK~RLlqEL~~ 189 (194)
.+..|+.+++.+.. ++.. ..+|.++...|---| ..-+|+.+|+.|++...+
T Consensus 33 ~d~vr~~~re~i~~-~g~~----~~~~~~l~~~i~P~A--------r~~VP~~vk~ell~~Ir~ 83 (86)
T PF10163_consen 33 RDEVRQLCREIIRE-RGID----NLTFEDLLEEITPKA--------RAMVPDEVKKELLQRIRA 83 (86)
T ss_dssp HHHHHHHHHHHHHH-H-TT----TSBHHHHHHHHHHHH--------HHCS-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHh-hCCC----CCCHHHHHHHHHHHH--------HHHCCHHHHHHHHHHHHH
Confidence 34455555555555 4433 456777766665433 567999999999988765
No 41
>PF12918 TcdB_N: TcdB toxin N-terminal helical domain; InterPro: IPR024772 Toxins A (TcdA) and B (TcdB) of Clostridium difficile belong to the family of clostridial glucosylating toxins. These toxins glucosylate small GTPases of Rho and Ras families, inhibiting the signalling and regulatory functions of these switch proteins. After receptor-binding, the toxins are endocytosed to reach acidic endosomal compartments from where the toxins are translocated into the cytosol []. TcdB has been shown to consist of a N-terminal glucosyltransferase domain (GTD), responsible for the biological effects of the toxin, a cysteine protease domain (CPD), responsible for autocatalytic cleavage, a hydrophobic region (HR), which has been suggested to be involved in toxin translocation, and a C-terminal repetitive domain involved in receptor binding. The pore-forming region of toxin B has been described to be in a region in the middle of the protein, within amino acid residues 830 and 990 []. This entry represents a short helical bundle domain found associated with the catalytic domain of TcdA and TcdB []. It is also found in some other toxins. The function of this domain is unknown, but it may be involved in substrate recognition.; PDB: 2VKH_C 2VL8_A 2VKD_A 2BVL_A 2BVM_A 3SS1_A 3SRZ_A 2VK9_A.
Probab=30.94 E-value=1.9e+02 Score=20.83 Aligned_cols=45 Identities=16% Similarity=0.211 Sum_probs=35.0
Q ss_pred HHHHHHHHHHh-cCCCCCchHHHhhHHHHHHHHHHHHHhccCCCCC
Q 029365 102 RELVKTLRESL-KEDPKDIANFRRNADSAKESIRDYLSNWRGQKTV 146 (194)
Q Consensus 102 ~~VV~tLReaL-~ldp~D~~~~~~aa~~AKe~IndyvsrYRr~~~V 146 (194)
..+++++-+-| .+++.-.+.....-..++++|..|...|-.+..-
T Consensus 4 dl~~~ni~~~l~~l~~~~~~~~~~~l~~lk~~I~~Y~~l~~~~kns 49 (66)
T PF12918_consen 4 DLTIDNIEEKLFKLTEEQSPKCYELLKKLKKAIDNYNNLYENEKNS 49 (66)
T ss_dssp HHHHHHHHHHHHTTTTS-HHHHHHHHHHHHHHHHHHHHHTTT-TTH
T ss_pred HhHHHHHHHHhhccCccccHHHHHHHHHHHHHHHHHHHHhhhccCc
Confidence 56788888888 7766677777788999999999999998765543
No 42
>smart00167 VPS9 Domain present in VPS9. Domain present in yeast vacuolar sorting protein 9 and other proteins.
Probab=30.62 E-value=59 Score=25.59 Aligned_cols=35 Identities=17% Similarity=0.350 Sum_probs=27.4
Q ss_pred HHHHHHHHhccCCCCCCCcchH--HHHHHHHHHHHhh
Q 029365 131 ESIRDYLSNWRGQKTVAGEESY--VELEKAIRSLASF 165 (194)
Q Consensus 131 e~IndyvsrYRr~~~V~G~~SF--ttM~TALNsLAGh 165 (194)
.+--.||.+||......|+..| |+++.|+.-+-.+
T Consensus 66 ~sn~~yI~~f~~~~~l~gE~gY~lT~l~aAv~fi~~l 102 (117)
T smart00167 66 LLNAEYMEEFLEPSLLTGEGGYYLTSLSAALALIKGL 102 (117)
T ss_pred HHHHHHHHHHCCccccccHHHHHHHHHHHHHHHHHHC
Confidence 3446899999988888999875 8889998766544
No 43
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=29.12 E-value=1.1e+02 Score=27.04 Aligned_cols=42 Identities=14% Similarity=0.109 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHhhhhhc--CCCCCCChHHHHHHHHHHHHHHhcC
Q 029365 152 YVELEKAIRSLASFYSKA--GPSAPLPGEVKSEILNDLDTAEKFL 194 (194)
Q Consensus 152 FttM~TALNsLAGhYss~--Gp~rPLPeklK~RLlqEL~~AE~aL 194 (194)
+..+..|++. -|+...+ -|-.||+++.|++|.+.|....+.|
T Consensus 258 ~~~~K~al~~-~G~~~g~~R~Pl~~l~~~~~~~i~~~l~~~~~~~ 301 (303)
T PRK03620 258 VSIVKAGARL-VGLDAGPVRAPLTDLTPEELAELAALIAKGGAQL 301 (303)
T ss_pred cHHHHHHHHH-cCCCCCCCCCCCCCCCHHHHHHHHHHHHHhhhhh
Confidence 4668888874 4665432 1344589999999999998876643
No 44
>PF09684 Tail_P2_I: Phage tail protein (Tail_P2_I); InterPro: IPR006521 These sequences represent a family of phage tail proteins from phage P2 protein and related temperates phage of Gram-negative bacteria.
Probab=29.01 E-value=2.7e+02 Score=21.66 Aligned_cols=66 Identities=12% Similarity=0.102 Sum_probs=37.9
Q ss_pred CCCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHHHhhhhhcCCCCCCChHHHHHHHHH
Q 029365 116 PKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILND 186 (194)
Q Consensus 116 p~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsLAGhYss~Gp~rPLPeklK~RLlqE 186 (194)
|.+...+.++.+..-+.|.+.+...+........+. ..|.-||..|.=-+=.--+|++.|.++.++
T Consensus 2 P~nat~le~al~~~~~~~~~~~~~i~~~~~~~~~~~-----~~L~~LA~~~~v~~~~~~~~~~~kR~li~~ 67 (139)
T PF09684_consen 2 PPNATPLERALAALLARLQEDIDSIRTLWDPDTCPE-----ALLPWLAWELGVDEWDPAWPEEQKRRLIKN 67 (139)
T ss_pred ccCccHHHHHHHHHHhHHHhhhHHHHHhcCcccCCH-----HHHHHHHHHhCcCccCCCCCHHHHHHHHHH
Confidence 556666666666666666555554444333332222 567778887776111233788777777665
No 45
>TIGR03743 SXT_TraD conjugative coupling factor TraD, SXT/TOL subfamily. Members of this protein family are the putative conjugative coupling factor, TraD (or TraG), rather distantly related to the well-characterized TraD of the F plasmid. Members are associated with conjugative-transposon-like mobile genetic elements of the class that includes SXT, an antibiotic resistance transfer element in some Vibrio cholerae strains.
Probab=28.71 E-value=2.6e+02 Score=27.93 Aligned_cols=87 Identities=17% Similarity=0.166 Sum_probs=56.7
Q ss_pred ccccCCCccccCCCCCchHHHHHHHHHHHHHHHHhcCCCCCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHH
Q 029365 78 KSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEK 157 (194)
Q Consensus 78 ~slfdp~~~~ksg~~LPkdY~~dT~~VV~tLReaL~ldp~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~T 157 (194)
--.|||...+.|..--|=.|+.+..+|+..+-..+.. ..+.+.|++.+..+-..|-.-+-.++.. +||.++..
T Consensus 235 ~~~f~~~~p~~S~~~NPl~~~~~~~eva~~i~~ll~~-~g~~~~f~~~a~~~l~~~~~alv~~~~~------~s~~~i~~ 307 (634)
T TIGR03743 235 FYYFHPAFPEISVRYNPLGNFSRISEVASRIAQLLPG-EGESAAFKEFAWRFVNIVARGLVYIGQR------PSYKLILR 307 (634)
T ss_pred EEEEecCCCCcCcCcChhhhcCChHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHHHHHHHHhccC------CCHHHHHH
Confidence 4568988877777777888888888999998888875 3355566555554444444444344322 57777776
Q ss_pred HHH---------HHHhhhhhcCC
Q 029365 158 AIR---------SLASFYSKAGP 171 (194)
Q Consensus 158 ALN---------sLAGhYss~Gp 171 (194)
=++ .+..+|..++|
T Consensus 308 ~i~~~i~~L~~~~~~~~~~~~~~ 330 (634)
T TIGR03743 308 YVESGIEPLLEKYLEKFFTQHYP 330 (634)
T ss_pred HHhccHHHHHHHHHHHHHHhhCc
Confidence 444 25667777654
No 46
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=28.65 E-value=51 Score=28.83 Aligned_cols=96 Identities=13% Similarity=0.136 Sum_probs=51.5
Q ss_pred CCCCchHHHHHHHHHHHHHHHHhc-CCCCCchHHHhhHHHHHHHHHHHHHhccC-------CCCCCCcchHHHHHHHHHH
Q 029365 90 GKVLPKAYLKSARELVKTLRESLK-EDPKDIANFRRNADSAKESIRDYLSNWRG-------QKTVAGEESYVELEKAIRS 161 (194)
Q Consensus 90 g~~LPkdY~~dT~~VV~tLReaL~-ldp~D~~~~~~aa~~AKe~IndyvsrYRr-------~~~V~G~~SFttM~TALNs 161 (194)
=|-=|.++.+- ++++.+.|. +||.+...+++..+...+.+++..++|+. ..-+..-++|.=+-..++-
T Consensus 123 iWldp~n~~~~----a~~I~~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H~af~Yl~~~~gl 198 (286)
T cd01019 123 LWLSPENAAEV----AQAVAEKLSALDPDNAATYAANLEAFNARLAELDATIKERLAPVKTKPFFVFHDAYGYFEKRYGL 198 (286)
T ss_pred cCCCHHHHHHH----HHHHHHHHHHHCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCeEEEecccHHHHHHHcCC
Confidence 47778888554 455555543 47888888887777777777776666663 2233444444444333211
Q ss_pred HHhhhhhcCCCCCCChHHHHHHHHHHHH
Q 029365 162 LASFYSKAGPSAPLPGEVKSEILNDLDT 189 (194)
Q Consensus 162 LAGhYss~Gp~rPLPeklK~RLlqEL~~ 189 (194)
=--.+..-.+......+.-.+|.+.+++
T Consensus 199 ~~~~~~~~~~~~eps~~~l~~l~~~ik~ 226 (286)
T cd01019 199 TQAGVFTIDPEIDPGAKRLAKIRKEIKE 226 (286)
T ss_pred ceeeeecCCCCCCCCHHHHHHHHHHHHH
Confidence 0000111123445555555566665543
No 47
>PF06761 IcmF-related: Intracellular multiplication and human macrophage-killing; InterPro: IPR009612 This entry represents a conserved region within several bacterial proteins that resemble ImcF, which has been proposed [] to be involved in Vibrio cholerae cell surface reorganisation, resulting in increased adherence to epithelial cells and increased conjugation frequency. Note that many entry members are hypothetical proteins.
Probab=28.21 E-value=3.7e+02 Score=23.61 Aligned_cols=47 Identities=19% Similarity=0.432 Sum_probs=27.1
Q ss_pred HhhHHHHHH-HHHHHHHhccC---CCCCCCcchHHHHHHHHHHHHhhhhhcCCCCCC
Q 029365 123 RRNADSAKE-SIRDYLSNWRG---QKTVAGEESYVELEKAIRSLASFYSKAGPSAPL 175 (194)
Q Consensus 123 ~~aa~~AKe-~IndyvsrYRr---~~~V~G~~SFttM~TALNsLAGhYss~Gp~rPL 175 (194)
.+..+..++ =.+||+..|+. +=++..-.+..+....++.|+ +|+.||
T Consensus 249 ~~L~~~v~~~Y~~DY~~~W~~~L~~i~v~~~~~l~~a~~~l~~Ls------~~~SPl 299 (312)
T PF06761_consen 249 EQLRQDVRKLYFQDYIAAWDDFLNDIRVQPFADLSQAVDQLRLLS------SPDSPL 299 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCcccCCCCHHHHHHHHHHHc------CCCCHH
Confidence 334444443 36899999994 455555555555555555554 355565
No 48
>cd01493 APPBP1_RUB Ubiquitin activating enzyme (E1) subunit APPBP1. APPBP1 is part of the heterodimeric activating enzyme (E1), specific for the Rub family of ubiquitin-like proteins (Ubls). E1 enzymes are part of a conjugation cascade to attach Ub or Ubls, covalently to substrate proteins consisting of activating (E1), conjugating (E2), and/or ligating (E3) enzymes. E1 activates ubiquitin(-like) by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and Ubls C-terminus. E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. Post-translational modification by Rub family of ubiquitin-like proteins (Ublps) activates SCF ubiquitin ligases and is involved in cell cycle control, signaling and embryogenesis. ABPP1 contains part of the adenylation domain.
Probab=27.97 E-value=3.3e+02 Score=25.89 Aligned_cols=82 Identities=23% Similarity=0.445 Sum_probs=45.4
Q ss_pred CCchHHHHHHHHHHHHHHHHhcCCCCCchHHHhhHHHHHHHHH---------HHHHhccCCCCCCCcchHHHHHHHHHHH
Q 029365 92 VLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIR---------DYLSNWRGQKTVAGEESYVELEKAIRSL 162 (194)
Q Consensus 92 ~LPkdY~~dT~~VV~tLReaL~ldp~D~~~~~~aa~~AKe~In---------dyvsrYRr~~~V~G~~SFttM~TALNsL 162 (194)
.+|..|.+ .+..+.+-........|.++|.+|.+.+....+ +-+..-+-..-....+.|-.|-.| |
T Consensus 222 ~~p~~~~e--k~~f~~~i~~~~~~~~~eeNf~EA~~~~~~~~~~~~i~~~v~~~~~~~~~~~~~~~~~~fwi~~~a---l 296 (425)
T cd01493 222 QLPSTYKE--KKEFRDLVRSLMRSNEDEENFEEAIKAVNKALNRTKIPSSVEEIFNDDRCENLTSQSSSFWIMARA---L 296 (425)
T ss_pred CCCCCHHH--HHHHHHHHHHhcccCCCccchHHHHHHHHHhhCCCCCcHHHHHHHhchhcccCCCCCchHHHHHHH---H
Confidence 37777654 222333222233213577889888877765443 333333322223345668888665 5
Q ss_pred Hhhhhh-cCCCCCCChHH
Q 029365 163 ASFYSK-AGPSAPLPGEV 179 (194)
Q Consensus 163 AGhYss-~Gp~rPLPekl 179 (194)
-.||.. +| .-|||..+
T Consensus 297 k~F~~~~~g-~lPl~G~l 313 (425)
T cd01493 297 KEFVAEENG-LLPLPGTL 313 (425)
T ss_pred HHHHHhcCC-CCCCCCCC
Confidence 568877 66 67887643
No 49
>PF01109 GM_CSF: Granulocyte-macrophage colony-stimulating factor; InterPro: IPR000773 Granulocyte-macrophage colony-stimulating factor (GMCSF) is a cytokine that acts in hematopoiesis to stimulate growth and differentiation of hematopoietic precursor cells from various lineages including granulocytes, macrophages, eosinophils and erythrocytes [, ]. GMCSF is a glycoprotein of ~120 residues that contains 4 conserved cysteines that participate in disulphide bond formation. The crystal structure of recombinant human GMCSF has been determined []. There are two molecules in the asymmetric unit, which are related by an approximate non-crystallographic 2-fold axis. The overall structure, which is highly compact and globular with a predominantly hydrophobic core, is characterised by a 4-alpha-helix bundle. The helices are arranged in a left-handed anti-parallel fashion, with two overhand connections. Within the connections is a two-stranded anti-parallel beta-sheet. The tertiary structure has a topology similar to that of Sus scrofa (pig) growth factor and interferon-beta. Most of the proposed critical regions for receptor binding are located on a continuous surface at one end of the molecule that includes the C terminus [].; GO: 0005129 granulocyte macrophage colony-stimulating factor receptor binding, 0008083 growth factor activity, 0006955 immune response, 0005576 extracellular region; PDB: 3CXE_B 1CSG_A 2GMF_B.
Probab=27.81 E-value=33 Score=28.14 Aligned_cols=37 Identities=24% Similarity=0.472 Sum_probs=23.8
Q ss_pred HHHHHHHhccCCCCCCCcchHHHHHHHHHHHHhhhhhcCCCCCCChH
Q 029365 132 SIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGE 178 (194)
Q Consensus 132 ~IndyvsrYRr~~~V~G~~SFttM~TALNsLAGhYss~Gp~rPLPek 178 (194)
-++=|+..-|+ |++.+..+|+-+|.||.++- -|.||.
T Consensus 58 rLkly~qGLrg--------nlT~L~g~L~~mAshy~~~C--PptpEt 94 (122)
T PF01109_consen 58 RLKLYKQGLRG--------NLTRLKGPLTMMASHYKQHC--PPTPET 94 (122)
T ss_dssp HHHHHHHT--G--------GGGGGHHHHHHHHHHHHHCS-------S
T ss_pred HHHHHHHHccc--------cchhhhhhHHHHHHHhccCC--CCCCCc
Confidence 34556666665 78999999999999999964 455553
No 50
>PF07240 Turandot: Stress-inducible humoral factor Turandot; InterPro: IPR010825 This family consists of several Drosophila species specific Turandot proteins. The Turandot A (TotA) gene encodes a humoral factor, which is secreted from the fat body and accumulates in the body fluids. TotA is strongly induced upon bacterial challenge, as well as by other types of stress such as high temperature, mechanical pressure, dehydration, UV irradiation, and oxidative agents. It is also upregulated during metamorphosis and at high age. Flies that overexpress TotA show prolonged survival and retain normal activity at otherwise lethal temperatures. Although TotA is only induced by severe stress, it responds to a much wider range of stimuli than heat shock genes such as hsp70 or immune genes such as Cecropin A1 [].
Probab=27.69 E-value=33 Score=26.39 Aligned_cols=22 Identities=14% Similarity=0.474 Sum_probs=19.1
Q ss_pred HHHHHHHHHhccCCC-CCCCcch
Q 029365 130 KESIRDYLSNWRGQK-TVAGEES 151 (194)
Q Consensus 130 Ke~IndyvsrYRr~~-~V~G~~S 151 (194)
|+.|++||.+|++.. .|.|.|+
T Consensus 33 r~~~d~~i~~y~~~~~lVDGvPa 55 (85)
T PF07240_consen 33 RQRIDRFIRRYKEENNLVDGVPA 55 (85)
T ss_pred HHHHHHHHHHHHHHhhcccCcCC
Confidence 577999999999888 8888876
No 51
>PF12889 DUF3829: Protein of unknown function (DUF3829); InterPro: IPR024291 This is a small family of proteins from several bacterial species, whose function is not known. It may, however, be related to the GvpL_GvpF family of proteins (PF06386 from PFAM).; PDB: 3RH3_B 3IEE_A.
Probab=27.62 E-value=99 Score=26.01 Aligned_cols=49 Identities=29% Similarity=0.310 Sum_probs=33.3
Q ss_pred HHHhhHHHHHHHHHHHHHhccC--------CCCCCCcchHHHHHHHHHHHHhhhhhc
Q 029365 121 NFRRNADSAKESIRDYLSNWRG--------QKTVAGEESYVELEKAIRSLASFYSKA 169 (194)
Q Consensus 121 ~~~~aa~~AKe~IndyvsrYRr--------~~~V~G~~SFttM~TALNsLAGhYss~ 169 (194)
.+......-+..+++||.+.|. ...-....|+..|....|.|-.-|++.
T Consensus 219 ~~~~~~~~~~~~~~~~i~~vr~~~~~~~~~~~~~~~~~~~~~l~~~yn~lI~~yN~~ 275 (276)
T PF12889_consen 219 SFMSSADSFKSSAKSFIRRVRDLQQSESNWMSGEPTEGSPEKLLKSYNDLISDYNRL 275 (276)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH-------------HCTTSS--HHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcchhhhhhcccCCCCCHHHHHHHHHHHHHHhccC
Confidence 5666788888888899999988 333445667888888888888888763
No 52
>cd01145 TroA_c Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind their ligands in the cleft between these domains.
Probab=27.46 E-value=59 Score=26.83 Aligned_cols=49 Identities=20% Similarity=0.321 Sum_probs=33.4
Q ss_pred CCCCchHHHHHHHHHHHHHHHHhcCCCCCchHHHhhHHHHHHHHHHHHHhcc
Q 029365 90 GKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWR 141 (194)
Q Consensus 90 g~~LPkdY~~dT~~VV~tLReaL~ldp~D~~~~~~aa~~AKe~IndyvsrYR 141 (194)
-|-=|.++..-+..+.+.|.+ +||.+...+++..+...+.+++--..|+
T Consensus 110 ~Wldp~~~~~~a~~I~~~L~~---~dP~~~~~y~~N~~~~~~~l~~l~~~~~ 158 (203)
T cd01145 110 VWLDPNNAPALAKALADALIE---LDPSEQEEYKENLRVFLAKLNKLLREWE 158 (203)
T ss_pred eecCHHHHHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 388888885555554444432 3788888888877777777777766665
No 53
>TIGR02659 TTQ_MADH_Lt methylamine dehydrogenase light chain. This family consists of the light chain of methylamine dehydrogenase light chain, a periplasmic enzyme. This subunit contains a tryptophan tryptophylquinone (TTQ) prothetic group derived from Trp-114 and Trp-165 of the precursor, numbered according to the sequence from Paracoccus denitrificans. The enzyme forms a complex with the type I blue copper protein amicyanin and cytochrome. Electron transfer procedes from TQQ to the copper and then to the heme group of the cytochrome.
Probab=27.12 E-value=65 Score=28.14 Aligned_cols=26 Identities=27% Similarity=0.216 Sum_probs=18.2
Q ss_pred hhhhhhhhHHHhhhhhhHHHHHHhhc
Q 029365 25 LKAASSRRHVISCSSTALVAILTFNC 50 (194)
Q Consensus 25 ~~a~~srr~~l~~~~~~~~~~~~~~~ 50 (194)
....+|||.+|+-.+.++|....+.+
T Consensus 18 ~A~~tsRRs~l~~lG~~l~g~a~~Pl 43 (186)
T TIGR02659 18 VAGKTSRRGFIGRLGTALAGSALVPL 43 (186)
T ss_pred HhhccchHHHHHHHHHHHhhhhhccc
Confidence 34568999999988887655544433
No 54
>PF10428 SOG2: RAM signalling pathway protein; InterPro: IPR019487 The RAM signalling pathway regulates Ace2p transcription factor activity and cellular morphogenesis in Saccharomyces cerevisiae (Baker's yeast), and is thought to be conserved amongst eukaryotes []. This entry is found in one of the components of this pathway, the leucine-rich repeat-containing protein SOG2.
Probab=26.90 E-value=1.4e+02 Score=28.48 Aligned_cols=70 Identities=20% Similarity=0.271 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHHHhcCCC---CCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHHHhhhhhcCCC
Q 029365 96 AYLKSARELVKTLRESLKEDP---KDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPS 172 (194)
Q Consensus 96 dY~~dT~~VV~tLReaL~ldp---~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsLAGhYss~Gp~ 172 (194)
+--..+.++.+.|++-|..-. +|+-.--+.+.+-.+.+|.||.-| =+|++-++..+..
T Consensus 352 ~~C~~~~~~T~~L~~rLs~ik~~~~ep~~~~~~~~~fwe~~~~Fiks~-------------------i~l~~~iK~~~~~ 412 (445)
T PF10428_consen 352 SKCNSAIDQTERLKSRLSTIKNQLKEPGGGIREQKEFWEDCNSFIKSW-------------------ISLLAKIKEIMKD 412 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhccCCCCCccccHHHHHHHHHHHHHH-------------------HHHHHHHHHHhcc
Confidence 455567777777777665411 122011123555667888888743 3355556666778
Q ss_pred CCCChHHHHHHH
Q 029365 173 APLPGEVKSEIL 184 (194)
Q Consensus 173 rPLPeklK~RLl 184 (194)
.|||.++|.++-
T Consensus 413 ~~l~~dvr~~L~ 424 (445)
T PF10428_consen 413 LPLPPDVRARLR 424 (445)
T ss_pred CCCCHHHHHHHH
Confidence 999999998763
No 55
>PF04011 LemA: LemA family; InterPro: IPR007156 The members of this family are related to the LemA protein P71452 from SWISSPROT. The exact molecular function of this protein is uncertain. It is predicted to be a transmembrane protein with an extracellular N terminus [].; PDB: 2ETD_A.
Probab=26.76 E-value=1.1e+02 Score=25.06 Aligned_cols=64 Identities=16% Similarity=0.253 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHhc-C-CCCCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHH
Q 029365 99 KSARELVKTLRESLK-E-DPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSL 162 (194)
Q Consensus 99 ~dT~~VV~tLReaL~-l-dp~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsL 162 (194)
+++..-|-.+|.... + ++.+..++.++....-+.++..+.--...|.......|.+|++.|..+
T Consensus 65 ~~~l~~v~~~R~~~~~~~~~~~~~~~~~~~~~l~~al~~l~~~~e~yP~Lka~~~~~~l~~~l~~~ 130 (186)
T PF04011_consen 65 KETLTKVTKARSQANNLSDSADIQEFQQAEAELSQALSRLLAVVENYPELKADENFQQLMAQLEET 130 (186)
T ss_dssp HHHHHHHHHHHHHHH---H--SHHHHHHHHHHHHHHHHHHHHHHTT-HHHHH-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhhhcccccchHHHHHHHHHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHH
Confidence 344555555565555 2 345666777778888888887776666668898999999988877544
No 56
>cd03411 Ferrochelatase_N Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=26.67 E-value=2.5e+02 Score=22.42 Aligned_cols=57 Identities=23% Similarity=0.373 Sum_probs=33.2
Q ss_pred HHHHHHHHhccCCCCCCCcchHHHHHHHH---------HHHHhhhhhcCCCCCC---ChHHHHHHHHHHHH
Q 029365 131 ESIRDYLSNWRGQKTVAGEESYVELEKAI---------RSLASFYSKAGPSAPL---PGEVKSEILNDLDT 189 (194)
Q Consensus 131 e~IndyvsrYRr~~~V~G~~SFttM~TAL---------NsLAGhYss~Gp~rPL---PeklK~RLlqEL~~ 189 (194)
+.|..|+.+-..++.|-..+.+. +.-| ..++.+|.+.|-..|| .++..+.|.+.|++
T Consensus 15 ~~v~~yL~~~~~d~~vi~~p~~~--~~~l~~~I~~~r~~k~~~~Y~~ig~~SPL~~~t~~q~~~l~~~L~~ 83 (159)
T cd03411 15 EDVRPFLKNFLSDRRVIELPRPL--RPILAGIILPRRPPKVAKNYKKIGGGSPLNEITRAQAEALEKALDE 83 (159)
T ss_pred HHHHHHHHHHcCCCCcccCCHHH--HHHHHHHhcccccHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhc
Confidence 44555666655555555555442 2222 4567888888766676 45555666666653
No 57
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=26.37 E-value=1.4e+02 Score=26.56 Aligned_cols=96 Identities=15% Similarity=0.126 Sum_probs=52.5
Q ss_pred CCCCchHHHHHHHHHHHHHHHHhc-CCCCCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHHHhhh--
Q 029365 90 GKVLPKAYLKSARELVKTLRESLK-EDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFY-- 166 (194)
Q Consensus 90 g~~LPkdY~~dT~~VV~tLReaL~-ldp~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsLAGhY-- 166 (194)
=|-=|.+. ..+++++.+.|. +||.+...+++..+...+.+++--.+|+..-.-.....|-+.-.|++=++.-|
T Consensus 147 iWldp~~~----~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~l~~~~~~~~i~~H~af~Yf~~~ygl 222 (311)
T PRK09545 147 IWLSPEIA----RATAVAIHDKLVELMPQSKAKLDANLKDFEAQLAQTDKQIGNQLAPVKGKGYFVFHDAYGYFEKHYGL 222 (311)
T ss_pred ccCCHHHH----HHHHHHHHHHHHHhChhhHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcEEEECchHHHHHHhCCC
Confidence 35556666 445555555554 48888888888888777777776666663211111122323333444444333
Q ss_pred -----hhcCCCCCCChHHHHHHHHHHHH
Q 029365 167 -----SKAGPSAPLPGEVKSEILNDLDT 189 (194)
Q Consensus 167 -----ss~Gp~rPLPeklK~RLlqEL~~ 189 (194)
..-+|....+.+.-.+|.+.+++
T Consensus 223 ~~~~~~~~~~~~eps~~~l~~l~~~ik~ 250 (311)
T PRK09545 223 TPLGHFTVNPEIQPGAQRLHEIRTQLVE 250 (311)
T ss_pred ceeeeeccCCCCCCCHHHHHHHHHHHHH
Confidence 11234555666666666666553
No 58
>COG0339 Dcp Zn-dependent oligopeptidases [Amino acid transport and metabolism]
Probab=25.75 E-value=63 Score=33.09 Aligned_cols=28 Identities=29% Similarity=0.553 Sum_probs=23.6
Q ss_pred HHHHHHHHHhhhhhcCCCCCCChHHHHHHHH
Q 029365 155 LEKAIRSLASFYSKAGPSAPLPGEVKSEILN 185 (194)
Q Consensus 155 M~TALNsLAGhYss~Gp~rPLPeklK~RLlq 185 (194)
-..+|..+|+||.+ | -|||+++-+++++
T Consensus 514 ~p~vL~~~a~Hy~T-G--e~lP~~ll~k~la 541 (683)
T COG0339 514 EPEVLAKYARHYQT-G--EPLPKELLDKMLA 541 (683)
T ss_pred CHHHHHHHHHhhcc-C--CcCHHHHHHHHHH
Confidence 34789999999998 5 8999998888875
No 59
>PF14461 Prok-E2_B: Prokaryotic E2 family B
Probab=25.13 E-value=1.4e+02 Score=23.33 Aligned_cols=37 Identities=14% Similarity=0.209 Sum_probs=23.0
Q ss_pred HHHHHHHHHHhcCCCCCchHHHhhHHHHHHHHHHHHHhccCCCCC
Q 029365 102 RELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTV 146 (194)
Q Consensus 102 ~~VV~tLReaL~ldp~D~~~~~~aa~~AKe~IndyvsrYRr~~~V 146 (194)
+++++.....|+..+.+.. -++.+.||.+.|.+...+
T Consensus 94 ~~~l~~a~~lL~~~~~~~~--------~~d~~~Ef~sYW~~~~~~ 130 (133)
T PF14461_consen 94 ADCLERAIRLLEDGLSGDN--------EDDFADEFQSYWNRQCDV 130 (133)
T ss_pred HHHHHHHHHHHHHhhcCCc--------hHHHHHHHHHHHhhcccc
Confidence 4455555555553233332 567889999999886654
No 60
>PF07030 DUF1320: Protein of unknown function (DUF1320); InterPro: IPR009752 This entry is represented by the Bacteriophage Mu, Gp36. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=24.60 E-value=3.4e+02 Score=21.17 Aligned_cols=63 Identities=16% Similarity=0.154 Sum_probs=42.9
Q ss_pred CCchHHHhhHHHHHHHHHHHH-HhccCCCCCCCcchHHHHHHHHHHHHhhhhhcCCCCCC--ChHHHHHHHH
Q 029365 117 KDIANFRRNADSAKESIRDYL-SNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPL--PGEVKSEILN 185 (194)
Q Consensus 117 ~D~~~~~~aa~~AKe~Indyv-srYRr~~~V~G~~SFttM~TALNsLAGhYss~Gp~rPL--PeklK~RLlq 185 (194)
.|.....++.+.|-..|+.|+ .||. -|. ...=..+....--+|-||-.- +++. |+.+++|-.+
T Consensus 28 ~d~~~v~~Al~dA~~~Id~yL~~RY~-lPl---~~~p~~L~~~~~dIA~y~L~~--~~~~~~~e~~~~rY~~ 93 (130)
T PF07030_consen 28 IDPAVVEAALADASAEIDGYLRGRYD-LPL---APVPALLKRIACDIARYRLYD--RRPSQETEPVRERYKD 93 (130)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHhcC-CCc---ccccHHHHHHHHHHHHHHHHh--cCCccCcHHHHHHHHH
Confidence 467789999999999999999 6775 232 122234667777788888752 4444 7776665443
No 61
>cd01020 TroA_b Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=24.59 E-value=2e+02 Score=24.70 Aligned_cols=96 Identities=16% Similarity=0.198 Sum_probs=50.3
Q ss_pred CCCCchHHHHHHHHHHHHHHHHhcC-CCCCchHHHhhHHHHHHHHHHHHHhc-------cCCCCCCCcchHHHHHHHHH-
Q 029365 90 GKVLPKAYLKSARELVKTLRESLKE-DPKDIANFRRNADSAKESIRDYLSNW-------RGQKTVAGEESYVELEKAIR- 160 (194)
Q Consensus 90 g~~LPkdY~~dT~~VV~tLReaL~l-dp~D~~~~~~aa~~AKe~IndyvsrY-------Rr~~~V~G~~SFttM~TALN- 160 (194)
=|-=|.++ ..+++.+.++|.. ||.+...+++..+...+.+.+--..| .+.+-+..-+.|.-+...+.
T Consensus 97 ~Wldp~n~----~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~l~~l~~~~~~~~~~~~~~~~v~~H~af~Y~~~~yGl 172 (264)
T cd01020 97 LWYDPETM----SKVANALADALVKADPDNKKYYQANAKKFVASLKPLAAKIAELSAKYKGAPVAATEPVFDYLLDALGM 172 (264)
T ss_pred eecCHhHH----HHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeEEEeCchHHHHHHHCCC
Confidence 37788888 5666666666664 78887666666666555555444444 33334444444444333221
Q ss_pred -HHH-hhhhh-cCCCCCCChHHHHHHHHHHHH
Q 029365 161 -SLA-SFYSK-AGPSAPLPGEVKSEILNDLDT 189 (194)
Q Consensus 161 -sLA-GhYss-~Gp~rPLPeklK~RLlqEL~~ 189 (194)
.++ .+|.. ..+-...+.+.-.+|.+.+++
T Consensus 173 ~~~~~~~~~~~~~~~~~ps~~~l~~l~~~ik~ 204 (264)
T cd01020 173 KERTPKGYTATTESETEPSPADIAAFQNAIKN 204 (264)
T ss_pred cccCHHHHHhhhcCCCCCCHHHHHHHHHHHHh
Confidence 010 01111 113555566666666666554
No 62
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=24.57 E-value=3.5e+02 Score=21.19 Aligned_cols=51 Identities=12% Similarity=0.225 Sum_probs=31.0
Q ss_pred HHHHHHHHHHhcCCCCCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHH
Q 029365 102 RELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSL 162 (194)
Q Consensus 102 ~~VV~tLReaL~ldp~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsL 162 (194)
.+.++.|...+.- +.+.+. ..+.+.+.|.+|-..+++ .++|..|+.+.+.|
T Consensus 79 ~~fl~~L~~l~~~-~~~~~~---Vk~kil~li~~W~~~f~~------~~~~~~i~~~y~~L 129 (133)
T smart00288 79 KEFLNELVKLIKP-KYPLPL---VKKRILELIQEWADAFKN------DPDLSQIVDVYDLL 129 (133)
T ss_pred HHHHHHHHHHHcC-CCCcHH---HHHHHHHHHHHHHHHHcC------CCCchHHHHHHHHH
Confidence 4455566655552 444443 677888888888888866 44455555554444
No 63
>cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=24.34 E-value=2.3e+02 Score=24.85 Aligned_cols=98 Identities=15% Similarity=0.234 Sum_probs=56.4
Q ss_pred cCCCCCchHHHHHHHHHHHHHHHHhc-CCCCCchHHHhhHHHHHHHHHHHHHhccCC---------CCCCCcchHHHHHH
Q 029365 88 KSGKVLPKAYLKSARELVKTLRESLK-EDPKDIANFRRNADSAKESIRDYLSNWRGQ---------KTVAGEESYVELEK 157 (194)
Q Consensus 88 ksg~~LPkdY~~dT~~VV~tLReaL~-ldp~D~~~~~~aa~~AKe~IndyvsrYRr~---------~~V~G~~SFttM~T 157 (194)
|--|-=|.++.. +++.+.+.|. +||.+...+++..+...+.+++.-..|+.. +-+..-++|.=+-.
T Consensus 117 PH~Wldp~~~~~----~a~~Ia~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~l~~~~~~~~~~v~~H~af~Y~~~ 192 (287)
T cd01137 117 PHAWMSPKNAII----YVKNIAKALSEADPANAETYQKNAAAYKAKLKALDEWAKAKFATIPAEKRKLVTSEGAFSYFAK 192 (287)
T ss_pred CCcCcCHHHHHH----HHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccCEEEEecccHHHHHH
Confidence 345878888854 4555555553 489888888888888777777777766632 22334445544433
Q ss_pred HHHHHHhhhhhcCCCCCCChHHHHHHHHHHHH
Q 029365 158 AIRSLASFYSKAGPSAPLPGEVKSEILNDLDT 189 (194)
Q Consensus 158 ALNsLAGhYss~Gp~rPLPeklK~RLlqEL~~ 189 (194)
.++-=--.....+|..+.+.+.-.+|.+.+++
T Consensus 193 ~yGl~~~~~~~~~~~~eps~~~l~~l~~~ik~ 224 (287)
T cd01137 193 AYGLKEAYLWPINTEEEGTPKQVATLIEQVKK 224 (287)
T ss_pred HcCCeEeecccCCCCCCCCHHHHHHHHHHHHH
Confidence 32111001123345566666666677666654
No 64
>PF05823 Gp-FAR-1: Nematode fatty acid retinoid binding protein (Gp-FAR-1); InterPro: IPR008632 Parasitic nematodes produce at least two structurally novel classes of small helix-rich retinol- and fatty-acid-binding proteins that have no counterparts in their plant or animal hosts and thus represent potential targets for new nematicides. Gp-FAR-1 is a member of the nematode-specific fatty-acid- and retinol-binding (FAR) family of proteins but localises to the surface of the organism, placing it in a strategic position for interaction with the host. Gp-FAR-1 functions as a broad-spectrum retinol- and fatty-acid-binding protein, and it is thought that it is involved in the evasion of primary host plant defence systems [].; GO: 0008289 lipid binding; PDB: 2W9Y_A.
Probab=23.27 E-value=1.6e+02 Score=24.15 Aligned_cols=58 Identities=19% Similarity=0.318 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHhcc--CCCCCCC-cchHHHHHHHHHHHHhhhhhcCCCCCCChHHHHHHHHHHHH
Q 029365 126 ADSAKESIRDYLSNWR--GQKTVAG-EESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDT 189 (194)
Q Consensus 126 a~~AKe~IndyvsrYR--r~~~V~G-~~SFttM~TALNsLAGhYss~Gp~rPLPeklK~RLlqEL~~ 189 (194)
..++|+-+++++...| ....++| .++...|....+.+...|.. ||++.|+.|.+.|=.
T Consensus 75 ~peak~Fv~~li~~~~~l~~~~~~G~~~~~~~lk~~~k~~~~~yka------Ls~~ak~dL~k~FP~ 135 (154)
T PF05823_consen 75 SPEAKAFVKELIAKARSLYAQYSAGEKPDLEELKQLAKKVIDSYKA------LSPEAKDDLKKNFPI 135 (154)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHT----THHHHHHH----HHHHT------S-HHHHHHHHHH-TT
T ss_pred CHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhhhHHHHHc------CCHHHHHHHHHHCcc
Confidence 3444455555554443 1111122 33455555555555566655 899999999988744
No 65
>PRK15326 type III secretion system needle complex protein PrgI; Provisional
Probab=22.68 E-value=2.2e+02 Score=21.74 Aligned_cols=49 Identities=16% Similarity=0.291 Sum_probs=31.2
Q ss_pred ccccccccccCCCccccCCCCCchHHHHHHHHHHHHHHHHhcCCCCCchHHHhhHHHHHHHHHHHH
Q 029365 72 GVVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYL 137 (194)
Q Consensus 72 ~~~g~~~slfdp~~~~ksg~~LPkdY~~dT~~VV~tLReaL~ldp~D~~~~~~aa~~AKe~Indyv 137 (194)
|.+..+...| ++=+++.-+-+++-...++.+|.|+...++. -..+++|-
T Consensus 7 g~l~~v~~~~-------------~~~a~~~~~~l~~Al~~l~~~pdnP~~LA~~----Qa~l~eyn 55 (80)
T PRK15326 7 GYLDDVSAKF-------------DTGVDNLQTQVTEALDKLAAKPSDPALLAAY----QSKLSEYN 55 (80)
T ss_pred chHHHHHHHH-------------HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHH----HHHHHHHH
Confidence 6777777777 4556666666666666677788887664443 34555554
No 66
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=22.57 E-value=75 Score=27.45 Aligned_cols=96 Identities=13% Similarity=0.167 Sum_probs=50.3
Q ss_pred CCCCchHHHHHHHHHHHHHHHHhc-CCCCCchHHHhhHHHHHHHHHHHHHhccC-------CCCCCCcchHHHHHHHHHH
Q 029365 90 GKVLPKAYLKSARELVKTLRESLK-EDPKDIANFRRNADSAKESIRDYLSNWRG-------QKTVAGEESYVELEKAIRS 161 (194)
Q Consensus 90 g~~LPkdY~~dT~~VV~tLReaL~-ldp~D~~~~~~aa~~AKe~IndyvsrYRr-------~~~V~G~~SFttM~TALNs 161 (194)
=|-=|..+ ..+++.+.+.|. +||.+...+++..+...+.+++.-..|+. .+-+..-++|.=+....+-
T Consensus 115 ~Wldp~~~----~~~a~~Ia~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H~af~Y~~~~~gl 190 (282)
T cd01017 115 VWLSPVLA----IQQVENIKDALIKLDPDNKEYYEKNAAAYAKKLEALDQEYRAKLAKAKGKTFVTQHAAFGYLARRYGL 190 (282)
T ss_pred cccCHHHH----HHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeEEEecccHHHHHHHCCC
Confidence 36667777 445555555554 47888877777777777776666666653 3334444444433322210
Q ss_pred HHhhhhhcCCCCCCChHHHHHHHHHHHH
Q 029365 162 LASFYSKAGPSAPLPGEVKSEILNDLDT 189 (194)
Q Consensus 162 LAGhYss~Gp~rPLPeklK~RLlqEL~~ 189 (194)
=--......|....+.+.-.+|.+.+++
T Consensus 191 ~~~~~~~~~~~~eps~~~l~~l~~~ik~ 218 (282)
T cd01017 191 KQIAIVGVSPEVEPSPKQLAELVEFVKK 218 (282)
T ss_pred eEEecccCCCCCCCCHHHHHHHHHHHHH
Confidence 0000011124455555555555555543
No 67
>PRK14990 anaerobic dimethyl sulfoxide reductase subunit A; Provisional
Probab=22.38 E-value=65 Score=32.13 Aligned_cols=21 Identities=5% Similarity=0.216 Sum_probs=14.5
Q ss_pred HhhHHHHHHHHHHHHHhccCC
Q 029365 123 RRNADSAKESIRDYLSNWRGQ 143 (194)
Q Consensus 123 ~~aa~~AKe~IndyvsrYRr~ 143 (194)
.+|-+...+.|++.+.+|.++
T Consensus 141 dEAl~~Ia~kl~~i~~~~G~~ 161 (814)
T PRK14990 141 EEAYDIIATNMQRLIKEYGNE 161 (814)
T ss_pred HHHHHHHHHHHHHHHHhhCcc
Confidence 356677777777777777554
No 68
>PRK10911 oligopeptidase A; Provisional
Probab=22.20 E-value=1e+02 Score=30.89 Aligned_cols=28 Identities=25% Similarity=0.497 Sum_probs=23.6
Q ss_pred HHHHHHHHHhhhhhcCCCCCCChHHHHHHHH
Q 029365 155 LEKAIRSLASFYSKAGPSAPLPGEVKSEILN 185 (194)
Q Consensus 155 M~TALNsLAGhYss~Gp~rPLPeklK~RLlq 185 (194)
-...|..+|.||.+ ..|||+++.+++++
T Consensus 511 ~~~vL~~~a~H~~t---geplp~~l~~~l~~ 538 (680)
T PRK10911 511 EPEALAFISGHYET---GEPLPKELLDKMLA 538 (680)
T ss_pred CHHHHHHHHHHhcC---CCCCCHHHHHHHHH
Confidence 34678889999997 46999999999887
No 69
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=21.83 E-value=4.3e+02 Score=21.29 Aligned_cols=40 Identities=8% Similarity=0.179 Sum_probs=26.9
Q ss_pred hhHHHHHHHHHHHHHhccCCCCCCCcchHHHHHHHHHHHHhhhhhc
Q 029365 124 RNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKA 169 (194)
Q Consensus 124 ~aa~~AKe~IndyvsrYRr~~~V~G~~SFttM~TALNsLAGhYss~ 169 (194)
...+.+.+.|..|-..++++ +++.-|+.+.+.|-..+-.|
T Consensus 96 ~Vk~kil~li~~W~~~f~~~------~~l~~i~~~y~~L~~~G~~f 135 (144)
T cd03568 96 TVKEKLREVVKQWADEFKND------PSLSLMSDLYKKLKNEGPDL 135 (144)
T ss_pred HHHHHHHHHHHHHHHHhCCC------cccHHHHHHHHHHHHcCCCC
Confidence 46788899999999888754 45555556666665544444
No 70
>PRK11032 hypothetical protein; Provisional
Probab=21.82 E-value=4.8e+02 Score=21.99 Aligned_cols=13 Identities=54% Similarity=0.810 Sum_probs=9.5
Q ss_pred HHHHHHHHHHhcC
Q 029365 102 RELVKTLRESLKE 114 (194)
Q Consensus 102 ~~VV~tLReaL~l 114 (194)
.+++..|++.|+.
T Consensus 9 ~~ll~~v~~~l~~ 21 (160)
T PRK11032 9 RELVASLTERLRN 21 (160)
T ss_pred HHHHHHHHHHHHh
Confidence 6777777777775
No 71
>PF09373 PMBR: Pseudomurein-binding repeat; InterPro: IPR018975 Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) is a methanogenic Gram-positive microorganism with a cell wall consisting of pseudomurein. This repeat specifically binds to pseudomurein. This repeat is found at the N terminus of PeiW and PeiP which are pseudomurein binding phage proteins.
Probab=21.81 E-value=1.6e+02 Score=18.30 Aligned_cols=24 Identities=25% Similarity=0.367 Sum_probs=18.4
Q ss_pred CCcchHHHHHHHHHHHHhhhhhcC
Q 029365 147 AGEESYVELEKAIRSLASFYSKAG 170 (194)
Q Consensus 147 ~G~~SFttM~TALNsLAGhYss~G 170 (194)
+|.-++.++..+..-.-.||.++|
T Consensus 2 ~~~i~~~~~~d~a~rv~~f~~~ng 25 (33)
T PF09373_consen 2 SGTISKEEYLDMASRVNNFYESNG 25 (33)
T ss_pred CceecHHHHHHHHHHHHHHHHHcC
Confidence 356677888888888888888876
No 72
>KOG4131 consensus Ngg1-interacting factor 3 protein NIF3L1 [General function prediction only]
Probab=21.80 E-value=50 Score=30.29 Aligned_cols=51 Identities=20% Similarity=0.269 Sum_probs=39.1
Q ss_pred CccccCCCCCchHHHHHHHHHHHHHHHHhcCCCCCchHHHhhHHHHHHHHHHHHHhc
Q 029365 84 NEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNW 140 (194)
Q Consensus 84 ~~~~ksg~~LPkdY~~dT~~VV~tLReaL~ldp~D~~~~~~aa~~AKe~IndyvsrY 140 (194)
+..|+..+.+++.|-++ +.|++.+.+-|.. =. ...+.|+|...+|+|+++=
T Consensus 75 P~IFr~~krIt~~~~~e-~~vi~~~~ngiav---yS--PHtA~Daa~~gVNdwls~g 125 (272)
T KOG4131|consen 75 PPIFRPLKRITKSYPQE-RKVIKAIANGIAV---YS--PHTAVDAAGGGVNDWLSKG 125 (272)
T ss_pred CccccchhhhcccchHH-HHHHHHHhcCcee---ec--chhhhcccccchhHHHHHh
Confidence 34578888888888777 6788888887775 12 2257999999999999863
No 73
>PF11546 CompInhib_SCIN: Staphylococcal complement inhibitor SCIN ; InterPro: IPR021612 SCIN is released by Staphylococcus aureus to counteract the host immune defense. The protein binds to and inhibits C3 convertases on the bacterial surface, reducing phagocytosis and blocking downstream effector functions by C3b deposition on its surface []. An 18 residue stretch 31-48 is crucial for SCIN activity []. ; PDB: 3L3O_P 3OHX_P 3NMS_M 3L5N_M 3T49_C 3T4A_H 2WIN_P 2QFF_A 3T48_B 3T47_B ....
Probab=21.65 E-value=3.4e+02 Score=22.10 Aligned_cols=77 Identities=16% Similarity=0.184 Sum_probs=39.6
Q ss_pred ccCCCccccCCCCCchHHHHHHHHHHHHHHHHhcC--------CCCCchHHHhhHHHHHHHHHHHHHhccCCCCCCCcch
Q 029365 80 LFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKE--------DPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEES 151 (194)
Q Consensus 80 lfdp~~~~ksg~~LPkdY~~dT~~VV~tLReaL~l--------dp~D~~~~~~aa~~AKe~IndyvsrYRr~~~V~G~~S 151 (194)
+||-|+.+-+- ..+..|.=.=.++++.|++-|+. ...|.=.+|. =.|+.|.+++- -...-
T Consensus 23 ~~~~n~a~Ast-~~~t~~Ey~~q~la~eLk~Ll~~s~vn~LA~~sl~~yyKr~------i~~~~y~AK~a-----lks~n 90 (114)
T PF11546_consen 23 VLSGNEAEAST-KYITASEYQDQKLADELKSLLDNSNVNALAAGSLNAYYKRT------IMMAEYRAKAA-----LKSKN 90 (114)
T ss_dssp ----------------HHHHHHHHHHHHHHHHHHTHHHHHHHGGCS-HHHHHH------HHHHHHHHHHH-----HHHT-
T ss_pred hhccchhhhcc-ccchHHHHHHHHHHHHHHHHHHHhhHHHHHhccccHHHHHH------HHHHHHHHHHH-----Hhhcc
Confidence 44555544444 33444444446777999988874 1122222222 35677777763 34457
Q ss_pred HHHHHHHHHHHHhhhhh
Q 029365 152 YVELEKAIRSLASFYSK 168 (194)
Q Consensus 152 FttM~TALNsLAGhYss 168 (194)
|..|.+|.+.|-.-|+.
T Consensus 91 ~~qM~~Ak~~Le~IY~e 107 (114)
T PF11546_consen 91 FDQMAEAKVRLENIYNE 107 (114)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 99999999999999876
No 74
>PTZ00484 GTP cyclohydrolase I; Provisional
Probab=21.07 E-value=3.1e+02 Score=24.86 Aligned_cols=59 Identities=12% Similarity=0.188 Sum_probs=42.1
Q ss_pred ccccCCCCCchHHHHHHHHHHHHHHHHh-cCCCCCchHHHhhHHHHHHHHHHHHHhccCCC
Q 029365 85 EKTKSGKVLPKAYLKSARELVKTLRESL-KEDPKDIANFRRNADSAKESIRDYLSNWRGQK 144 (194)
Q Consensus 85 ~~~ksg~~LPkdY~~dT~~VV~tLReaL-~ldp~D~~~~~~aa~~AKe~IndyvsrYRr~~ 144 (194)
++.+....+-+.=.+...+.|+.|-++| .+||.+ +...+.-...-+...++.+.|+-++
T Consensus 60 ~~~~~~~~~~~~~~~~ie~avr~iL~al~GeDp~R-egL~~TP~RVak~~~e~~~Gy~~~~ 119 (259)
T PTZ00484 60 ESSPTCATLMEEKKGAIESARRKILKSLEGEDPDR-DGLKKTPKRVAKALEFLTKGYHMSV 119 (259)
T ss_pred cCCccccccchhhHHHHHHHHHHHHHHhcCCCCCC-cchhhhHHHHHHHHHHHHhcccCCH
Confidence 4445566677777788888999999999 876655 3656666666666678888887544
No 75
>PF12108 SF3a60_bindingd: Splicing factor SF3a60 binding domain; InterPro: IPR021966 This domain is found in eukaryotes. This domain is about 30 amino acids in length. This domain has a single completely conserved residue Y that may be functionally important. SF3a60 makes up the SF3a complex with SF3a66 and SF3a120. This domain is the binding site of SF3a60 for SF3a120. The SF3a complex is part of the spliceosome, a protein complex involved in splicing mRNA after transcription. ; PDB: 2DT7_A.
Probab=20.94 E-value=1.3e+02 Score=18.70 Aligned_cols=26 Identities=12% Similarity=0.523 Sum_probs=15.8
Q ss_pred CCCcchHHHHHHHHHHHHhhhhhcCCC
Q 029365 146 VAGEESYVELEKAIRSLASFYSKAGPS 172 (194)
Q Consensus 146 V~G~~SFttM~TALNsLAGhYss~Gp~ 172 (194)
++|-.-|..-|.=|+.+=.|+..| ||
T Consensus 3 is~~d~f~eFY~rlk~Ike~Hrr~-Pn 28 (28)
T PF12108_consen 3 ISGGDPFSEFYERLKEIKEYHRRY-PN 28 (28)
T ss_dssp --S--HHHHHHHHHHHHHHHHHS---S
T ss_pred CCCCChHHHHHHHHHHHHHHHHhC-CC
Confidence 455666777888888888888885 64
No 76
>PRK10280 dipeptidyl carboxypeptidase II; Provisional
Probab=20.69 E-value=83 Score=31.62 Aligned_cols=33 Identities=21% Similarity=0.478 Sum_probs=27.2
Q ss_pred chHHHHHHHHHHHHhhhhhcCCCCCCChHHHHHHHH
Q 029365 150 ESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILN 185 (194)
Q Consensus 150 ~SFttM~TALNsLAGhYss~Gp~rPLPeklK~RLlq 185 (194)
+.|..-...|..+|.||.+ | -|||+++-+++.+
T Consensus 506 E~w~~~~~vL~~~a~Hy~T-g--epiP~~l~~~l~~ 538 (681)
T PRK10280 506 EHWASHPQVFARYARHYQS-G--EAMPDELQEKMRN 538 (681)
T ss_pred HHHhcCHHHHHHHhhccCC-C--CCCCHHHHHHHHH
Confidence 4466667899999999998 5 5999999988864
No 77
>PF12318 FAD-SLDH: Membrane bound FAD containing D-sorbitol dehydrogenase ; InterPro: IPR024651 There are two types of membrane-bound D-sorbitol dehydrogenase: PQQ-SLDH (pyrroloquinoline quinone sorbitol dehydrogenase) and FAD-SLDH (FAD-containing sorbitol dehydrogenase). FAD-SLDH is involved in oxidation of D-sorbitol to L-sorbose and consists of a large, small and cytochrome c subunits []. This entry represents the small subunit of the FAD-containing D-sorbitol dehydrogenase. This family of proteins is found in bacteria and contains a conserved ALM sequence motif. The role of the small subunit is unknown. Gluconate dehydrogenases and fructose dehydrogenases are also included in this entry.
Probab=20.29 E-value=74 Score=26.45 Aligned_cols=7 Identities=43% Similarity=0.700 Sum_probs=6.1
Q ss_pred hhhhHHH
Q 029365 29 SSRRHVI 35 (194)
Q Consensus 29 ~srr~~l 35 (194)
.|||++|
T Consensus 2 ~sRR~~L 8 (168)
T PF12318_consen 2 LSRRRLL 8 (168)
T ss_pred CcHHHHH
Confidence 4899999
Done!