Query 011061
Match_columns 494
No_of_seqs 242 out of 585
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 07:40:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011061.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011061hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0909 Peptide:N-glycanase [P 100.0 1E-106 3E-111 830.6 18.1 391 15-484 81-500 (500)
2 PF03835 Rad4: Rad4 transgluta 99.9 5.7E-22 1.2E-26 179.5 7.7 102 153-265 33-145 (145)
3 TIGR00605 rad4 DNA repair prot 99.8 1.4E-19 3.1E-24 199.3 8.1 137 123-268 256-477 (713)
4 PF01841 Transglut_core: Trans 99.5 1.9E-14 4.1E-19 121.0 6.2 80 94-174 17-113 (113)
5 COG1305 Transglutaminase-like 99.4 6.1E-13 1.3E-17 127.6 10.3 100 48-190 158-275 (319)
6 smart00460 TGc Transglutaminas 99.4 2.8E-13 6E-18 105.5 6.0 53 121-175 1-67 (68)
7 KOG2179 Nucleotide excision re 99.1 5.4E-11 1.2E-15 130.2 4.4 114 126-240 263-413 (669)
8 COG5535 RAD4 DNA repair protei 98.1 1.9E-07 4.1E-12 101.4 -3.6 123 121-243 242-399 (650)
9 PF04473 DUF553: Transglutamin 97.3 0.00081 1.8E-08 63.0 8.2 67 111-179 60-131 (153)
10 COG5279 CYK3 Uncharacterized p 95.2 0.042 9.2E-07 60.1 7.0 64 110-175 189-268 (521)
11 PF13369 Transglut_core2: Tran 93.4 0.25 5.5E-06 45.4 6.9 58 115-176 53-110 (152)
12 PF14402 7TM_transglut: 7 tran 91.9 0.14 3.1E-06 53.1 3.6 48 135-184 2-58 (313)
13 PF14381 EDR1: Ethylene-respon 91.5 0.29 6.3E-06 48.1 5.0 54 121-175 137-196 (204)
14 PF13471 Transglut_core3: Tran 88.2 0.76 1.7E-05 40.3 4.5 37 125-161 54-97 (117)
15 COG1571 Predicted DNA-binding 87.4 0.34 7.3E-06 52.4 2.1 36 66-116 348-383 (421)
16 PF12760 Zn_Tnp_IS1595: Transp 84.3 0.86 1.9E-05 34.4 2.4 34 62-108 12-45 (46)
17 TIGR03655 anti_R_Lar restricti 76.5 4.3 9.2E-05 31.5 4.0 36 70-112 3-38 (53)
18 PF06035 Peptidase_C93: Bacter 73.8 1.8 3.8E-05 41.8 1.5 25 123-147 74-98 (170)
19 PRK00464 nrdR transcriptional 70.1 3.4 7.4E-05 39.1 2.5 35 70-108 2-36 (154)
20 COG2816 NPY1 NTP pyrophosphohy 69.1 6.5 0.00014 40.7 4.4 56 50-127 99-154 (279)
21 PF13453 zf-TFIIB: Transcripti 67.2 4.3 9.3E-05 29.9 2.0 27 70-108 1-27 (41)
22 PRK09710 lar restriction allev 66.8 5 0.00011 33.2 2.5 33 68-111 6-38 (64)
23 PF08274 PhnA_Zn_Ribbon: PhnA 66.2 2.3 4.9E-05 30.3 0.3 27 68-109 2-28 (30)
24 PRK06556 vitamin B12-dependent 65.9 3.5 7.7E-05 48.9 2.0 31 64-110 920-950 (953)
25 PRK15047 N-hydroxyarylamine O- 64.5 20 0.00044 36.8 6.9 66 119-186 58-137 (281)
26 PF00797 Acetyltransf_2: N-ace 64.5 6.5 0.00014 38.0 3.2 83 119-203 38-138 (240)
27 PRK10941 hypothetical protein; 62.4 24 0.00053 36.1 7.0 60 118-179 87-146 (269)
28 PF14354 Lar_restr_allev: Rest 61.1 9.9 0.00021 29.6 3.2 33 69-108 4-37 (61)
29 PF14353 CpXC: CpXC protein 60.7 5.1 0.00011 35.7 1.7 42 69-111 2-49 (128)
30 TIGR00686 phnA alkylphosphonat 60.3 5.8 0.00013 35.9 1.9 27 68-109 2-28 (109)
31 PRK10220 hypothetical protein; 57.7 7.3 0.00016 35.4 2.1 28 67-109 2-29 (111)
32 PF09862 DUF2089: Protein of u 55.0 11 0.00023 34.4 2.7 16 96-111 8-23 (113)
33 PHA02998 RNA polymerase subuni 54.6 10 0.00022 37.3 2.6 45 69-118 144-189 (195)
34 PRK00241 nudC NADH pyrophospha 52.7 19 0.00042 36.3 4.4 47 52-119 89-135 (256)
35 PF06397 Desulfoferrod_N: Desu 48.6 10 0.00022 28.1 1.3 15 97-111 3-17 (36)
36 PRK02935 hypothetical protein; 45.8 14 0.00031 33.5 2.0 30 68-113 70-99 (110)
37 PF03811 Zn_Tnp_IS1: InsA N-te 45.8 20 0.00042 26.4 2.4 31 69-107 6-36 (36)
38 COG1997 RPL43A Ribosomal prote 45.8 17 0.00037 31.9 2.4 55 37-111 10-64 (89)
39 COG2888 Predicted Zn-ribbon RN 44.8 13 0.00028 30.6 1.4 35 68-107 9-45 (61)
40 PF14803 Nudix_N_2: Nudix N-te 43.7 15 0.00033 26.7 1.5 29 71-109 3-31 (34)
41 COG3672 Predicted transglutami 43.4 54 0.0012 32.5 5.7 23 124-146 105-127 (191)
42 COG2912 Uncharacterized conser 42.3 45 0.00098 34.5 5.2 64 112-178 82-145 (269)
43 smart00440 ZnF_C2C2 C2C2 Zinc 41.3 26 0.00056 26.0 2.4 35 70-109 2-37 (40)
44 PF11023 DUF2614: Protein of u 39.3 14 0.0003 33.8 0.9 45 54-114 53-99 (114)
45 PF01096 TFIIS_C: Transcriptio 39.3 20 0.00043 26.4 1.6 35 70-109 2-37 (39)
46 PHA00626 hypothetical protein 39.0 18 0.0004 29.5 1.5 29 70-108 2-31 (59)
47 COG2162 NhoA Arylamine N-acety 38.9 64 0.0014 33.6 5.7 66 119-186 59-139 (275)
48 PF14169 YdjO: Cold-inducible 38.7 15 0.00034 30.0 1.0 23 57-79 28-50 (59)
49 cd00886 MogA_MoaB MogA_MoaB fa 38.4 41 0.00089 30.9 3.9 50 383-432 91-150 (152)
50 PF04216 FdhE: Protein involve 37.2 15 0.00033 37.2 1.0 44 64-116 169-213 (290)
51 PF04981 NMD3: NMD3 family ; 37.1 1.1E+02 0.0024 30.4 6.9 111 95-224 30-143 (236)
52 COG1594 RPB9 DNA-directed RNA 37.0 30 0.00064 31.2 2.6 41 68-112 72-112 (113)
53 TIGR01385 TFSII transcription 36.9 26 0.00056 36.5 2.6 44 64-112 254-298 (299)
54 TIGR00244 transcriptional regu 36.8 16 0.00034 34.8 0.9 41 70-116 2-42 (147)
55 PF13005 zf-IS66: zinc-finger 36.5 26 0.00056 26.0 1.8 38 69-107 3-47 (47)
56 TIGR02667 moaB_proteo molybden 36.4 26 0.00056 32.9 2.3 72 365-437 72-159 (163)
57 COG4332 Uncharacterized protei 36.0 23 0.0005 35.0 1.9 43 71-115 20-64 (203)
58 PRK03564 formate dehydrogenase 35.3 86 0.0019 33.1 6.1 50 65-131 184-234 (309)
59 TIGR02159 PA_CoA_Oxy4 phenylac 35.2 18 0.00039 33.9 1.0 34 68-109 105-139 (146)
60 PF06044 DRP: Dam-replacing fa 33.5 20 0.00043 36.8 1.1 54 197-254 154-213 (254)
61 PF04721 DUF750: Domain of unk 33.5 0.64 1.4E-05 38.0 -7.7 54 317-372 3-56 (62)
62 TIGR00319 desulf_FeS4 desulfof 33.1 24 0.00053 24.9 1.2 14 97-110 4-17 (34)
63 TIGR00340 zpr1_rel ZPR1-relate 32.8 34 0.00073 32.8 2.4 34 71-108 1-36 (163)
64 PF12386 Peptidase_C71: Pseudo 30.6 49 0.0011 31.0 3.0 29 122-150 50-78 (142)
65 TIGR01562 FdhE formate dehydro 30.2 44 0.00094 35.1 2.9 49 66-131 182-232 (305)
66 PF09297 zf-NADH-PPase: NADH p 30.0 35 0.00076 23.8 1.5 14 68-81 3-16 (32)
67 PF04216 FdhE: Protein involve 29.7 39 0.00084 34.4 2.4 43 63-111 205-249 (290)
68 COG1327 Predicted transcriptio 29.7 27 0.00059 33.5 1.2 25 221-245 75-99 (156)
69 PF11781 RRN7: RNA polymerase 28.8 42 0.00091 24.6 1.8 31 65-110 3-35 (36)
70 cd01675 RNR_III Class III ribo 28.6 66 0.0014 36.1 4.2 42 50-109 495-541 (555)
71 TIGR03696 Rhs_assc_core RHS re 28.3 59 0.0013 26.8 2.9 39 156-195 32-70 (76)
72 cd00974 DSRD Desulforedoxin (D 27.6 32 0.0007 24.3 1.0 14 98-111 2-15 (34)
73 cd04476 RPA1_DBD_C RPA1_DBD_C: 27.5 31 0.00067 31.9 1.2 63 64-172 31-96 (166)
74 TIGR01384 TFS_arch transcripti 27.3 58 0.0013 28.0 2.8 37 69-110 63-100 (104)
75 PF14690 zf-ISL3: zinc-finger 27.2 44 0.00096 24.5 1.8 11 69-79 3-13 (47)
76 COG1656 Uncharacterized conser 26.8 85 0.0019 30.5 4.0 53 51-109 79-139 (165)
77 TIGR00310 ZPR1_znf ZPR1 zinc f 25.5 46 0.00099 32.7 2.0 34 70-108 2-38 (192)
78 COG3809 Uncharacterized protei 25.0 39 0.00085 29.4 1.2 27 70-108 3-29 (88)
79 COG3877 Uncharacterized protei 24.9 62 0.0013 29.7 2.6 27 67-111 5-31 (122)
80 PF11672 DUF3268: Protein of u 24.7 77 0.0017 28.4 3.1 44 69-118 3-50 (102)
81 TIGR00311 aIF-2beta translatio 23.9 57 0.0012 30.3 2.2 42 51-109 85-127 (133)
82 COG1998 RPS31 Ribosomal protei 23.7 51 0.0011 26.4 1.5 29 67-109 18-46 (51)
83 smart00709 Zpr1 Duplicated dom 23.3 55 0.0012 31.2 2.0 34 70-108 2-37 (160)
84 COG1571 Predicted DNA-binding 23.1 58 0.0013 35.8 2.4 62 358-419 48-111 (421)
85 PF12390 Se-cys_synth_N: Selen 23.0 49 0.0011 24.3 1.3 36 383-434 4-39 (40)
86 PRK00398 rpoP DNA-directed RNA 22.9 54 0.0012 24.5 1.5 11 100-110 21-31 (46)
87 PF01921 tRNA-synt_1f: tRNA sy 22.9 23 0.00049 38.0 -0.7 54 51-113 153-212 (360)
88 PF01780 Ribosomal_L37ae: Ribo 22.5 49 0.0011 29.2 1.4 28 70-111 37-64 (90)
89 KOG4477 RING1 interactor RYBP 22.4 33 0.00072 34.1 0.4 35 83-117 15-59 (228)
90 COG3677 Transposase and inacti 21.8 53 0.0011 30.2 1.6 31 69-109 31-62 (129)
91 TIGR03830 CxxCG_CxxCG_HTH puta 21.8 52 0.0011 28.6 1.5 39 71-110 1-41 (127)
92 COG1326 Uncharacterized archae 21.3 54 0.0012 32.7 1.6 12 99-110 29-40 (201)
93 PRK03564 formate dehydrogenase 21.2 70 0.0015 33.7 2.5 43 63-111 220-263 (309)
94 PLN02678 seryl-tRNA synthetase 21.2 1.7E+02 0.0036 32.4 5.4 47 134-180 310-364 (448)
95 PF13240 zinc_ribbon_2: zinc-r 21.0 56 0.0012 21.7 1.2 7 71-77 2-8 (23)
96 COG2051 RPS27A Ribosomal prote 20.8 61 0.0013 27.3 1.5 33 69-114 20-52 (67)
97 PRK00432 30S ribosomal protein 20.6 55 0.0012 25.6 1.2 40 55-109 5-46 (50)
98 PRK03954 ribonuclease P protei 20.6 51 0.0011 30.3 1.2 18 97-115 91-108 (121)
99 smart00661 RPOL9 RNA polymeras 20.6 74 0.0016 23.8 1.9 14 99-112 19-32 (52)
No 1
>KOG0909 consensus Peptide:N-glycanase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.4e-106 Score=830.56 Aligned_cols=391 Identities=41% Similarity=0.724 Sum_probs=358.6
Q ss_pred HhhcCcccccccccchhhHHhh-------------------------c-CCCCCCCCccHHHHHHHHHHHhhcc-CEeec
Q 011061 15 AVGENSGQFEETVHPYISKVLM-------------------------E-GNFKPSKTEQDHAFLLQLLFWFKQT-FRWVN 67 (494)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~~vl~-------------------------~-g~~~p~~~e~~~~~l~~LL~wFK~~-F~wv~ 67 (494)
++.....+|.+.|++|+++|+| + -++.+++.+.|..+..+||+|||++ |+|||
T Consensus 81 ~a~~~~~~Fle~l~~~sqhvlvYEDP~lq~~Als~iPvdEL~~kA~ekla~~eg~ki~kdy~i~leLL~WFKq~FF~WvN 160 (500)
T KOG0909|consen 81 SALRATNAFLEVLRSYSQHVLVYEDPVLQAKALSTIPVDELKEKASEKLAKAEGEKIYKDYLIKLELLNWFKQDFFKWVN 160 (500)
T ss_pred hhhhcchHHHHHHHHhccCceeecCHHHHHHHHhcCCHHHHHHHHHHhhcccchhhhhcchHHHHHHHHHHHHhhheecC
Confidence 3334556799999999999998 1 2236788888887778999999998 79999
Q ss_pred CCCCCCCCCCc-cccCCCCCChhhhhcCCceEEEeeeCCCCcccccCCCCCHHHHHHhCCccchhHHHHHHHHHHHcCCC
Q 011061 68 APPCDGCSNET-VGQGMGTPLPSEIQYGAARVELFRCKVCSKITRFPRYNDPLKLVETKRGRCGEWANCFTLYCRAFGYE 146 (494)
Q Consensus 68 ~P~C~~Cg~~t-~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~RFPRyn~p~~LL~tR~GrCgE~A~lF~~~~RAlGlp 146 (494)
+|||+.||++| ...|.++|+-+|.++||++||+|+|+.||+.+||||||||.+||+||+|||||||||||++|||+|++
T Consensus 161 ~PpC~~CG~et~~~l~~~~p~eeE~~~Ga~rVEiy~C~~C~~~~RFPRYNdp~kLLeTRkGRCGEWANCFTllcralg~d 240 (500)
T KOG0909|consen 161 NPPCNKCGGETSSGLGNQPPNEEEKKFGAGRVEIYKCNRCGTETRFPRYNDPIKLLETRKGRCGEWANCFTLLCRALGLD 240 (500)
T ss_pred CCCcccccccccccccCCCCchhHhhcCCceEEEEEecCCCCcccCcccCCHHHHHhhccCccchHHHHHHHHHHHcCCc
Confidence 99999999999 56788889999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEeCCCceEEEEeeCCCCCeEEeccCCCcCCCCeeeecCccCccceEEeecCCcceechhhhccChHHhhhhccccc
Q 011061 147 SRLILDFTDHVWTECFSQSLGRWMHLDPCEGIYDRPLLYEKGWNKKLNYVIAISKDGVFDVTKRYTRKWHEVLSRRNIAT 226 (494)
Q Consensus 147 AR~V~~~~dHvW~EVy~~~~~rWV~vDP~e~~iD~PllYE~gWgKklSYVIAFs~DGv~DVTrRYt~~~~~~~~RR~rv~ 226 (494)
||||||.+||||+|||++.++|||||||||+++|+|+||+.||||+|+|||||++|||+||||||+.+|.+++.+|+.|.
T Consensus 241 aR~i~d~tDHVWtEvYS~~qqRW~HvDpcE~v~D~PllYe~GW~KklsY~iafgkD~VvDVT~RYi~~h~e~~~~R~~~~ 320 (500)
T KOG0909|consen 241 ARYIWDRTDHVWTEVYSNAQQRWVHVDPCENVFDKPLLYEIGWGKKLSYCIAFGKDGVVDVTWRYILDHKENLLPRDLCK 320 (500)
T ss_pred ceEEeecCcchhHHhhhhhhheeEeecccccccccceeeecccCcccceEEEeccCceEeeehhhhccchhhccchhhcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHccCCHHHhhhhhhhcHHHHHHHhhhhcCCCCCCCCCCCCccccHHHHHhhcCCCCCCCCCcCCC
Q 011061 227 EQTVSAVLAKMTRECRRSFASETLSTLEDRDKCEREAMERDLYSTDDAPVSLPGRQSGDKEWRISRSEIGSDDNCSLSCS 306 (494)
Q Consensus 227 E~wl~~~L~~l~~~~R~~ls~ee~~~Le~Rd~~E~~EL~~~~~~~~~~~~~l~GRqSGS~eWr~aRGE~G~~~~~s~~~s 306 (494)
|+.++.+|..||+++|.++++++++.|+.||++|+.||.+...+..++..+||||||||++||.+|||+|.
T Consensus 321 E~~l~~~l~~in~~rr~~lt~~r~~~L~~rd~~e~~El~~~~~~~~~~~~~L~GR~SGs~eWr~~RGE~G~--------- 391 (500)
T KOG0909|consen 321 ESVLQQTLQFINKRRRYSLTDDRKKELAQRDEREQIELIRGKTPETPTKSSLPGRQSGSVEWRAQRGEDGK--------- 391 (500)
T ss_pred hHHHHHHHHHHHHHHHhhcChHHHHHHHhhhHHHHHHHHhccccCCCCCCCCCCcccccHHHHHhhccccc---------
Confidence 99999999999999999999999999999999999999999988888899999999999999999999998
Q ss_pred CCCceeccccceeeEeecchhhhhccccCCCchhhHHHHHHHHHHHHhhccCCCcccccccccCCCCchhHHHHhh-hcc
Q 011061 307 SCPVRVCIDEHVTTIYNAFSSVLSHFVENNVPKSGAIELLKILKGILGDLKKSPYKTRRVSLNSVPNNGQKIVHQL-LPS 385 (494)
Q Consensus 307 ~cp~r~c~dehv~~iY~a~~~~ls~~~~~~~~~~~a~~~~~~~r~~~~dlk~~~fk~R~~~~~~~~~~~~~~~~~~-lps 385 (494)
|++ ||+.+- + |.+++|++..|||++|.||||+ |++|.+--+-..++ +.+ +-+
T Consensus 392 ----------h~~-i~D~~~-------~---~~~~~~e~~~i~r~ve~Dw~mt-ylaR~~~~s~~~is-----w~fd~~~ 444 (500)
T KOG0909|consen 392 ----------HNT-IYDSYT-------E---WSAQAFELENIFRKVETDWKMT-YLARLEGDSPGNIS-----WHFDFKL 444 (500)
T ss_pred ----------cce-ehhhhh-------h---HHHHHHHHHHHHHHHHhhHHHH-HHHHhcCCCCcccc-----chhhhhh
Confidence 888 888766 1 8999999999999999999999 99999865555544 444 348
Q ss_pred HHHHHHhhccccccCCCCCeEEEecCCccccccchhHhHHHHHHHHHhcccccCCCCCcccccccccccccccceeeccc
Q 011061 386 IGHLLRVLSLKSELNTDGRVDIVLAGDPVKTSLSLPVVFKALDDMIHDLNNCDNFGKGSFCLPLLKLNRIHSGSVLASGE 465 (494)
Q Consensus 386 ~~~ll~~lslk~~~~~~g~~~~~~~~~p~~tsl~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~g~~~a~~e 465 (494)
.+.++.++||+.++.|.|+= ++||.+||.+.. .++++-.++.
T Consensus 445 ~~~~~~~~~l~~~~qtf~~g-------------~~~v~~D~s~~s-ad~~~a~~l~------------------------ 486 (500)
T KOG0909|consen 445 KGLKVKSESLMAEIQTFGKG-------------CMRVTIDASALS-ADPSNATILK------------------------ 486 (500)
T ss_pred cccHHHHHHHHhhhhhcCCC-------------ceEeeechhccc-CCcccCceee------------------------
Confidence 89999999999999999874 889999999887 7777744432
Q ss_pred ccccceeeccccCCCcccc
Q 011061 466 EFPFGIVTSAFDGIRPSKW 484 (494)
Q Consensus 466 ~~p~g~~~~afdg~~~~kw 484 (494)
|+|.+|+|+.-.||
T Consensus 487 -----i~t~~~~g~~~~~w 500 (500)
T KOG0909|consen 487 -----IRTELFSGKGDVKW 500 (500)
T ss_pred -----eehhhcCCccccCC
Confidence 99999999999999
No 2
>PF03835 Rad4: Rad4 transglutaminase-like domain; InterPro: IPR018325 RAD4/Xp-C proteins contain an ancient transglutaminase fold that is also found in peptide-N-glycanases (PNGases), which remove glycans from glycoproteins during their degradation. The PNGases retain the catalytic triad that is typical of this fold and are predicted to have a reaction mechanism similar to that involved in transglutamination. In contrast, the RAD4/Xp-C proteins are predicted to be inactive and are likely to only possess the interaction function in DNA repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0005634 nucleus; PDB: 2QSG_A 2QSF_A 2QSH_A 1X3W_A 1X3Z_A 3ESW_A.
Probab=99.86 E-value=5.7e-22 Score=179.45 Aligned_cols=102 Identities=35% Similarity=0.530 Sum_probs=74.3
Q ss_pred CCCceEEEEeeCCCCCeEEeccCCC-----cCCCCeeeecCccCccceEEeecCC-cceechhhhccChHHhhhhccccc
Q 011061 153 FTDHVWTECFSQSLGRWMHLDPCEG-----IYDRPLLYEKGWNKKLNYVIAISKD-GVFDVTKRYTRKWHEVLSRRNIAT 226 (494)
Q Consensus 153 ~~dHvW~EVy~~~~~rWV~vDP~e~-----~iD~PllYE~gWgKklSYVIAFs~D-Gv~DVTrRYt~~~~~~~~RR~rv~ 226 (494)
..+|+|+|||++.+++||||||+.+ .++.|+ ..+|+++|+|||||+.| +++|||+||+.++.....+|.|+.
T Consensus 33 ~~~~~W~EV~~~~~~rWI~VDp~~~~~~~~~~~ep~--~~~~~~~~~YViA~d~~~~~kDVT~RY~~~~~~~~~~r~R~~ 110 (145)
T PF03835_consen 33 PYPNFWVEVYSPEEKRWIHVDPVVGKIIKVSCDEPL--EENANNPMSYVIAFDNDGYAKDVTRRYASNYWNSKTRRLRVD 110 (145)
T ss_dssp TTTCEEEEEEETTTTEEEEEETTTS-EESTBTTSTC--CCCCS--B-EEEEE-CTTEEEE-HHHH-T-TCCCCCGGGSGG
T ss_pred CCCeEEEEEEecCCCeEEEeeeeccccccccccCch--hhccCCceEEEEEEeCCCCEEEchHhhcccccccccccccCC
Confidence 4689999999999999999999996 778888 77899999999999655 579999999998334446888888
Q ss_pred -----HHHHHHHHHHHHHHHHccCCHHHhhhhhhhcHHHHHHHh
Q 011061 227 -----EQTVSAVLAKMTRECRRSFASETLSTLEDRDKCEREAME 265 (494)
Q Consensus 227 -----E~wl~~~L~~l~~~~R~~ls~ee~~~Le~Rd~~E~~EL~ 265 (494)
++||..+|+.++...+... .||+.|+.||.
T Consensus 111 ~~~~~~~W~~~~l~~~~~~~~~~~---------~~d~~Ed~el~ 145 (145)
T PF03835_consen 111 RSYEEEDWWEKVLRPYNRPRRDRT---------IRDKKEDEELH 145 (145)
T ss_dssp GSHHHHHHHHHHHHHH--S---H-----------HHHHHHHHH-
T ss_pred ccccHHHHHHHHHHHHhccccccc---------chHHHHHhhcC
Confidence 9999999998885433221 57888888873
No 3
>TIGR00605 rad4 DNA repair protein rad4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.78 E-value=1.4e-19 Score=199.34 Aligned_cols=137 Identities=18% Similarity=0.280 Sum_probs=108.6
Q ss_pred HhCCccchhHHHHHHHHHHHcCCCEEEEEe--------------C-----------------------------------
Q 011061 123 ETKRGRCGEWANCFTLYCRAFGYESRLILD--------------F----------------------------------- 153 (494)
Q Consensus 123 ~tR~GrCgE~A~lF~~~~RAlGlpAR~V~~--------------~----------------------------------- 153 (494)
.++.|+.+=-|++|++++|++|++||+|.+ .
T Consensus 256 ~~~~gsrd~~aql~~allr~~~~~~rlv~slqpl~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~s~~S~~~tsR~~l~~ 335 (713)
T TIGR00605 256 NRKLGGRKYRTLKRGSILENLNVPTRLVFSDFLLSVSKGHNDPEISSEGFVPKLSACNANQRLIMSCESADRTSRFRMKK 335 (713)
T ss_pred hccccccchhhhHHHHHHhhhcccccccccccccCcccCCCCcccccccccccccccccccccccccCCCCccccccccc
Confidence 356688888999999999999999999931 0
Q ss_pred ---------------------------------CCceEEEEeeCCCCCeEEeccCC-CcCCCCeeeecCccCccceEEee
Q 011061 154 ---------------------------------TDHVWTECFSQSLGRWMHLDPCE-GIYDRPLLYEKGWNKKLNYVIAI 199 (494)
Q Consensus 154 ---------------------------------~dHvW~EVy~~~~~rWV~vDP~e-~~iD~PllYE~gWgKklSYVIAF 199 (494)
.+++|+|||++..++||||||++ +++|+|+.|..+|+++|+|||||
T Consensus 336 ~l~~P~fs~~~~~~k~~~~~~~~~~~~~~~~~~~p~~W~Ev~~~~~~rWI~VD~~~~~~~~~~~~~~e~~~~~m~YVvAf 415 (713)
T TIGR00605 336 DPSLPGFSAYSDMDKSPIFTCEEGDKFIDRWITYVDFWVEVFIEQEEKWVCVDAVHSGVVPKGVTCFEPATLMMTYVFAY 415 (713)
T ss_pred cCCCCCccccccCCCCCccchhcccccccccCCCCeeEEEEeecccceeEEeccccccccCCchhhccCCCCceEEEEEE
Confidence 03889999999999999999999 99999999999999999999999
Q ss_pred cCC-cceechhhhccChHHhhhhcccccHHHHHHH-HHHHHHHHHccCCHHHhhhhhhhcHHHHHHHhhhh
Q 011061 200 SKD-GVFDVTKRYTRKWHEVLSRRNIATEQTVSAV-LAKMTRECRRSFASETLSTLEDRDKCEREAMERDL 268 (494)
Q Consensus 200 s~D-Gv~DVTrRYt~~~~~~~~RR~rv~E~wl~~~-L~~l~~~~R~~ls~ee~~~Le~Rd~~E~~EL~~~~ 268 (494)
+.| +++|||+||+.+|+.. .|+.||+..||.++ ++.+-..+.. + ... +|..|+.||....
T Consensus 416 ~~d~~~kDVT~RY~~~~~~k-~r~~Rv~~~w~~~~w~~~~~~~~~~------r-~~~-~d~~Ed~el~~~~ 477 (713)
T TIGR00605 416 DRDGYVKDVTRRYCDQWSTK-VRKRRVEKADFGETWFRPIFGALHK------R-KRT-IDDIEDQEFLRRH 477 (713)
T ss_pred cCCCceeechhhHhhhhhhh-hheeeecccchHHHHHHHHhhhhcc------C-ccc-hhhhhhhHhhhhh
Confidence 998 5899999999999764 58888887777666 5554432211 1 111 5567777776543
No 4
>PF01841 Transglut_core: Transglutaminase-like superfamily; InterPro: IPR002931 This domain is found in many proteins known to have transglutaminase activity, i.e. which cross-link proteins through an acyl-transfer reaction between the gamma-carboxamide group of peptide-bound glutamine and the epsilon-amino group of peptide-bound lysine, resulting in a epsilon-(gamma-glutamyl)lysine isopeptide bond. Tranglutaminases have been found in a diverse range of species, from bacteria through to mammals. The enzymes require calcium binding and their activity leads to post-translational modification of proteins through acyl-transfer reactions, involving peptidyl glutamine residues as acyl donors and a variety of primary amines as acyl acceptors, with the generation of proteinase resistant isopeptide bonds []. Sequence conservation in this superfamily primarily involves three motifs that centre around conserved cysteine, histidine, and aspartate residues that form the catalytic triad in the structurally characterised transglutaminase, the human blood clotting factor XIIIa' []. On the basis of the experimentally demonstrated activity of the Methanobacterium phage psiM2 pseudomurein endoisopeptidase [], it is proposed that many, if not all, microbial homologs of the transglutaminases are proteases and that the eukaryotic transglutaminases have evolved from an ancestral protease []. A subunit of plasma Factor XIII revealed that each Factor XIIIA subunit is composed of four domains (termed N-terminal beta-sandwich, core domain (containing the catalytic and the regulatory sites), and C-terminal beta-barrels 1 and 2) and that two monomers assemble into the native dimer through the surfaces in domains 1 and 2, in opposite orientation. This organisation in four domains is highly conserved during evolution among transglutaminase isoforms [].; PDB: 2F4M_A 2F4O_A 1GGY_B 1FIE_B 1GGU_B 1GGT_B 1F13_A 1QRK_B 1EVU_A 1EX0_B ....
Probab=99.51 E-value=1.9e-14 Score=120.99 Aligned_cols=80 Identities=25% Similarity=0.483 Sum_probs=63.2
Q ss_pred CCceEEEeeeCCCCcc--cccCCCCCHHHHHHhCCccchhHHHHHHHHHHHcCCCEEEEEe----C-----------CCc
Q 011061 94 GAARVELFRCKVCSKI--TRFPRYNDPLKLVETKRGRCGEWANCFTLYCRAFGYESRLILD----F-----------TDH 156 (494)
Q Consensus 94 ga~~VE~Y~C~~C~~~--~RFPRyn~p~~LL~tR~GrCgE~A~lF~~~~RAlGlpAR~V~~----~-----------~dH 156 (494)
.+..+-.|..+++... ...+...+|..+|.+++|.|.++|.+|+++||++|||||+|+. . ..|
T Consensus 17 ~~~~i~~~v~~~~~y~~~~~~~~~~~~~~~l~~~~G~C~~~a~l~~allr~~Gipar~v~g~~~~~~~~~~~~~~~~~~H 96 (113)
T PF01841_consen 17 KAKAIYDWVRSNIRYDDPNYSPGPRDASEVLRSGRGDCEDYASLFVALLRALGIPARVVSGYVKGPDPDGDYSVDGNDNH 96 (113)
T ss_dssp CCCCCCCCCCCCCCEC-TCCCCCCTTHHHHHHCEEESHHHHHHHHHHHHHHHT--EEEEEEEEEECSSTTCTSTSSEEEE
T ss_pred HHHHHHHHHHhCcEEeCCCCCCCCCCHHHHHHcCCCccHHHHHHHHHHHhhCCCceEEEEEEcCCccccccccCCCCCCE
Confidence 3455555555555544 5677888899999999999999999999999999999999952 1 139
Q ss_pred eEEEEeeCCCCCeEEecc
Q 011061 157 VWTECFSQSLGRWMHLDP 174 (494)
Q Consensus 157 vW~EVy~~~~~rWV~vDP 174 (494)
+|+|||+++ ++|+++||
T Consensus 97 ~w~ev~~~~-~~W~~~Dp 113 (113)
T PF01841_consen 97 AWVEVYLPG-GGWIPLDP 113 (113)
T ss_dssp EEEEEEETT-TEEEEEET
T ss_pred EEEEEEEcC-CcEEEcCC
Confidence 999999965 57999998
No 5
>COG1305 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]
Probab=99.42 E-value=6.1e-13 Score=127.59 Aligned_cols=100 Identities=20% Similarity=0.399 Sum_probs=77.2
Q ss_pred HHHHHHHHHHHhhccCEeecCCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcccccCCCCCHHHHHHhCCc
Q 011061 48 DHAFLLQLLFWFKQTFRWVNAPPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKITRFPRYNDPLKLVETKRG 127 (494)
Q Consensus 48 ~~~~l~~LL~wFK~~F~wv~~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~RFPRyn~p~~LL~tR~G 127 (494)
....+..+..|++..|.|...+.+ -..++..+|++++|
T Consensus 158 ~~~~~~~~~~~~~~~~~y~~~~~~------------------------------------------~~~~~~~~l~~~~G 195 (319)
T COG1305 158 PREKAAALFDYVNSKIRYSPGPTP------------------------------------------VTGSASDALRLGRG 195 (319)
T ss_pred HHHHHHHHHHHHhhcceeecCCCC------------------------------------------CCCCHHHHHHhCCc
Confidence 445778889999866888665533 12345888999999
Q ss_pred cchhHHHHHHHHHHHcCCCEEEEEe-----------------CCCceEEEEeeCCCCCeEEeccCCCcCCCCee-eecCc
Q 011061 128 RCGEWANCFTLYCRAFGYESRLILD-----------------FTDHVWTECFSQSLGRWMHLDPCEGIYDRPLL-YEKGW 189 (494)
Q Consensus 128 rCgE~A~lF~~~~RAlGlpAR~V~~-----------------~~dHvW~EVy~~~~~rWV~vDP~e~~iD~Pll-YE~gW 189 (494)
.|.|+|++|+++||++|||||||.+ ...|+|+|+|.++. +|+++||+.+..-.... +..+|
T Consensus 196 ~C~d~a~l~val~Ra~GIpAR~V~Gy~~~~~~~~~~~~~~~~~~~Haw~ev~~~~~-gW~~~Dpt~~~~~~~~~~~~~~~ 274 (319)
T COG1305 196 VCRDFAHLLVALLRAAGIPARYVSGYLGAEVEPLSGRPLVRNDDAHAWAEVYLPGR-GWVPLDPTNGLLAGGRYSILAAW 274 (319)
T ss_pred ccccHHHHHHHHHHHcCCcceeeeccccCCCCcccccccccCcccceeeeeecCCC-ccEeecCCCCCccCccccccccc
Confidence 9999999999999999999999942 23599999999986 89999999775543333 33445
Q ss_pred c
Q 011061 190 N 190 (494)
Q Consensus 190 g 190 (494)
+
T Consensus 275 ~ 275 (319)
T COG1305 275 G 275 (319)
T ss_pred c
Confidence 4
No 6
>smart00460 TGc Transglutaminase/protease-like homologues. Transglutaminases are enzymes that establish covalent links between proteins. A subset of transglutaminase homologues appear to catalyse the reverse reaction, the hydrolysis of peptide bonds. Proteins with this domain are both extracellular and intracellular, and it is likely that the eukaryotic intracellular proteins are involved in signalling events.
Probab=99.42 E-value=2.8e-13 Score=105.46 Aligned_cols=53 Identities=36% Similarity=0.853 Sum_probs=47.9
Q ss_pred HHHhCCccchhHHHHHHHHHHHcCCCEEEEEe--------------CCCceEEEEeeCCCCCeEEeccC
Q 011061 121 LVETKRGRCGEWANCFTLYCRAFGYESRLILD--------------FTDHVWTECFSQSLGRWMHLDPC 175 (494)
Q Consensus 121 LL~tR~GrCgE~A~lF~~~~RAlGlpAR~V~~--------------~~dHvW~EVy~~~~~rWV~vDP~ 175 (494)
+|++|.|.|.++|++|+++||++|||||+|.. ...|+|+|||.+ ++|+.+||+
T Consensus 1 ~~~~~~G~C~~~a~l~~~llr~~GIpar~v~g~~~~~~~~~~~~~~~~~H~W~ev~~~--~~W~~~D~~ 67 (68)
T smart00460 1 LLKTKYGTCGEFAALFVALLRSLGIPARVVSGYLKAPDTIGGLRSIWEAHAWAEVYLE--GGWVPVDPT 67 (68)
T ss_pred CCcccceeeHHHHHHHHHHHHHCCCCeEEEeeeecCCCCCcccccCCCcEEEEEEEEC--CCeEEEeCC
Confidence 47899999999999999999999999999942 467999999998 589999997
No 7
>KOG2179 consensus Nucleotide excision repair complex XPC-HR23B, subunit XPC/DPB11 [Replication, recombination and repair]
Probab=99.09 E-value=5.4e-11 Score=130.17 Aligned_cols=114 Identities=25% Similarity=0.403 Sum_probs=91.4
Q ss_pred CccchhHHHHHHHHHHHcCCCEEEEE-------e----------------------CCCceEEEEeeCCCCCeEEecc--
Q 011061 126 RGRCGEWANCFTLYCRAFGYESRLIL-------D----------------------FTDHVWTECFSQSLGRWMHLDP-- 174 (494)
Q Consensus 126 ~GrCgE~A~lF~~~~RAlGlpAR~V~-------~----------------------~~dHvW~EVy~~~~~rWV~vDP-- 174 (494)
+|+-.--+..|.+++|..+ ++|... + ..+..|+|||...++.||+|||
T Consensus 263 ~g~~d~~~q~~~~l~~~~n-~~r~~~~l~p~~~~~~~~~~~s~~~~~~~s~~~~~~~~p~~W~ev~~~~e~kwV~vd~~~ 341 (669)
T KOG2179|consen 263 KGDADVSSQIIHALLRTPN-NARLAPSLQPPVFSNLSVKDLSDTSLYGNSLENIDGAGPVFWLEVLDKFEKKWVCVDPPS 341 (669)
T ss_pred CCCcchHHHHHHHHhhccc-hhhcccccCCcchhhccccccccccccccchhhcCCcccchhHHHHHhhcceEEEecchh
Confidence 7887788999999999998 555441 0 1247899999999999999995
Q ss_pred CCCcCCCCeeeecC---ccCccceEEeecCCc-ceechhhhccChHHhhhhc--ccccHHHHHHHHHHHHHH
Q 011061 175 CEGIYDRPLLYEKG---WNKKLNYVIAISKDG-VFDVTKRYTRKWHEVLSRR--NIATEQTVSAVLAKMTRE 240 (494)
Q Consensus 175 ~e~~iD~PllYE~g---WgKklSYVIAFs~DG-v~DVTrRYt~~~~~~~~RR--~rv~E~wl~~~L~~l~~~ 240 (494)
..+.++.++..... -+..|.|||||+.|| ++|||+||+..|+.....| .+++..||..+++.+...
T Consensus 342 v~~~~~~~~~~~~~a~~~~~~~~yVva~da~~~~kDVT~RY~~~~~s~~~~~~k~~~~~~w~~~~l~~~~~~ 413 (669)
T KOG2179|consen 342 VIGKYHLFQPIGAVAEINGRHLAYVVAYDADGYVKDVTRRYCESWSSILRKRSKVRFSKKWFDKVLAPLGKL 413 (669)
T ss_pred hcceeccccccchhhhhccccceEEEEecCCCccchhHHHHhhhhhhhhhccccccHHHHHhhhhHhhhccc
Confidence 45666666665543 355999999999998 8999999999998775433 567999999999999865
No 8
>COG5535 RAD4 DNA repair protein RAD4 [DNA replication, recombination, and repair]
Probab=98.11 E-value=1.9e-07 Score=101.44 Aligned_cols=123 Identities=21% Similarity=0.250 Sum_probs=91.7
Q ss_pred HHHhCCccchhHHHHHHHHHHHcCCCEEEEEe--------------------------CCCceEEEEeeCCCCCeEEecc
Q 011061 121 LVETKRGRCGEWANCFTLYCRAFGYESRLILD--------------------------FTDHVWTECFSQSLGRWMHLDP 174 (494)
Q Consensus 121 LL~tR~GrCgE~A~lF~~~~RAlGlpAR~V~~--------------------------~~dHvW~EVy~~~~~rWV~vDP 174 (494)
-+-...|+-.--+.+|++++|++.++||++.+ ..+-.|+|||....+.||.+||
T Consensus 242 ~~~~~~~~~D~~vrgf~a~~r~~~v~~Rli~~l~~P~Fs~~~~~~~~~e~~~~~iD~l~~p~fw~ev~~~~~~kwv~vdp 321 (650)
T COG5535 242 PLKSADGRRDADVRGFEAEHRILNVFARLIASLIQPVFSNNSDLDVLSEGLLEYIDSLEYPGFWGEVVDKFEKKWVFVDP 321 (650)
T ss_pred hHhhccCCCcchhHHHHHHHHHhccchhhhccccCcccccccccccCccccceeccchhcchHHHHHHHHHHhceEeccc
Confidence 34566777777888999999999999999832 1246799999999999999999
Q ss_pred CC--CcCCC-Ceeeec---CccCccceEEeecCCc-ceechhhhccChHHhhhh--cccccHHHHHHHHHHHHHHHHc
Q 011061 175 CE--GIYDR-PLLYEK---GWNKKLNYVIAISKDG-VFDVTKRYTRKWHEVLSR--RNIATEQTVSAVLAKMTRECRR 243 (494)
Q Consensus 175 ~e--~~iD~-PllYE~---gWgKklSYVIAFs~DG-v~DVTrRYt~~~~~~~~R--R~rv~E~wl~~~L~~l~~~~R~ 243 (494)
.. .++.. ---+|. --.+.|.||+|++.++ ++|||+||+......+.| +...++.|+...+.-+++..+.
T Consensus 322 ~~l~~v~~~l~~kfepa~~~~~n~~~~V~ayd~~~y~~DVt~RY~d~~~s~~kritk~~fs~qy~~r~~~~l~~~k~~ 399 (650)
T COG5535 322 VRLYIVYSELKCKFEPAASIHLNIMEYVGAYDACVYVKDVTLRYRDQSYSFLKRITKHLFSVQYFVRQFPGLGKCKEA 399 (650)
T ss_pred chhhhhhhhhhheechhHHHHHHHHHHhhhhccCccchhHHHHHHHHHhhhhhhhhccchHHHHHHHHhcccCccccc
Confidence 84 22231 011221 1356899999999775 699999999987655432 3346899999999999876653
No 9
>PF04473 DUF553: Transglutaminase-like domain; InterPro: IPR007562 This entry represents a transglutaminase-like domain found in a family of uncharacterised archaeal proteins that had previously been called DUF553 and UPF0252.
Probab=97.34 E-value=0.00081 Score=63.04 Aligned_cols=67 Identities=21% Similarity=0.328 Sum_probs=56.9
Q ss_pred ccCCCCCHHHHHHhCCccchhHHHHHHHHHHHcCCCEEEEE--eCC---CceEEEEeeCCCCCeEEeccCCCcC
Q 011061 111 RFPRYNDPLKLVETKRGRCGEWANCFTLYCRAFGYESRLIL--DFT---DHVWTECFSQSLGRWMHLDPCEGIY 179 (494)
Q Consensus 111 RFPRyn~p~~LL~tR~GrCgE~A~lF~~~~RAlGlpAR~V~--~~~---dHvW~EVy~~~~~rWV~vDP~e~~i 179 (494)
..+++++|..++..|+|.|+|||.+..++|-.+|+..=||+ +.. .|+|+-|-..+ .|-.+|..--.+
T Consensus 60 ~~~~i~tp~etl~~k~GiC~DYA~Lta~lLl~~g~~~~yi~~~~~~~~~~Haa~aV~ing--~~yvlDq~~p~~ 131 (153)
T PF04473_consen 60 NSTYIQTPYETLKYKKGICGDYAILTAALLLNMGYSPVYILHIEFDNDPGHAAVAVKING--KYYVLDQHLPPI 131 (153)
T ss_pred ccccccCHHHHHHcCCeeeHHHHHHHHHHHHHCCCCceEEEEEecCCCCCeEEEEEEECC--EEEEEeCCCCCc
Confidence 45677899999999999999999999999999999887774 333 59999999986 599999875443
No 10
>COG5279 CYK3 Uncharacterized protein involved in cytokinesis, contains TGc (transglutaminase/protease-like) domain [Cell division and chromosome partitioning]
Probab=95.25 E-value=0.042 Score=60.12 Aligned_cols=64 Identities=23% Similarity=0.512 Sum_probs=53.7
Q ss_pred cccCCCCCHH----HHHHhCCccchhHHHHHHHHHHHcCCCEEEEEeC------------CCceEEEEeeCCCCCeEEec
Q 011061 110 TRFPRYNDPL----KLVETKRGRCGEWANCFTLYCRAFGYESRLILDF------------TDHVWTECFSQSLGRWMHLD 173 (494)
Q Consensus 110 ~RFPRyn~p~----~LL~tR~GrCgE~A~lF~~~~RAlGlpAR~V~~~------------~dHvW~EVy~~~~~rWV~vD 173 (494)
++-|||.... ..+-..++.|.-||.+|-+||.++||||=+|-++ -+|+|.-|-.++ .|--||
T Consensus 189 i~d~~ytt~l~~~r~~~I~heavCtgYa~lfK~lcn~lgIp~~iIegf~k~~~~~~~~~~iNHaWN~VkiD~--~yy~VD 266 (521)
T COG5279 189 IQDPRYTTVLAQMRSVLINHEAVCTGYAELFKELCNALGIPCEIIEGFLKSPIYYTRDININHAWNIVKIDN--EYYLVD 266 (521)
T ss_pred CCcchhhhhhhhhhhhhhhcccccchHHHHHHHHHHhcCCceEEEeecccccccccCCccccceeeEEEECC--eEEEEe
Confidence 3457777554 2466789999999999999999999999999653 469999999997 599999
Q ss_pred cC
Q 011061 174 PC 175 (494)
Q Consensus 174 P~ 175 (494)
.+
T Consensus 267 tT 268 (521)
T COG5279 267 TT 268 (521)
T ss_pred ee
Confidence 98
No 11
>PF13369 Transglut_core2: Transglutaminase-like superfamily
Probab=93.37 E-value=0.25 Score=45.40 Aligned_cols=58 Identities=21% Similarity=0.210 Sum_probs=48.1
Q ss_pred CCCHHHHHHhCCccchhHHHHHHHHHHHcCCCEEEEEeCCCceEEEEeeCCCCCeEEeccCC
Q 011061 115 YNDPLKLVETKRGRCGEWANCFTLYCRAFGYESRLILDFTDHVWTECFSQSLGRWMHLDPCE 176 (494)
Q Consensus 115 yn~p~~LL~tR~GrCgE~A~lF~~~~RAlGlpAR~V~~~~dHvW~EVy~~~~~rWV~vDP~e 176 (494)
.....++|++|+|-|.-.|.+|..+||.+|+++.-|- +..|+.+-+-. + +.+=|||.+
T Consensus 53 n~~l~~vL~~r~G~Pi~L~ily~~va~rlGl~~~~v~-~Pgh~l~r~~~-~--~~~~iDpf~ 110 (152)
T PF13369_consen 53 NSFLHKVLERRRGIPISLAILYLEVARRLGLPAEPVN-FPGHFLVRVRS-D--GEFYIDPFN 110 (152)
T ss_pred hhhHHHHHhcCCCCcHHHHHHHHHHHHHcCCeEEEEe-cCCEEEEEEec-C--CcEEEccCC
Confidence 4567899999999999999999999999999998764 67788777764 3 236788886
No 12
>PF14402 7TM_transglut: 7 transmembrane helices usually fused to an inactive transglutaminase
Probab=91.95 E-value=0.14 Score=53.13 Aligned_cols=48 Identities=19% Similarity=0.362 Sum_probs=39.7
Q ss_pred HHHHHHHHcCCCEEEEEe---------CCCceEEEEeeCCCCCeEEeccCCCcCCCCee
Q 011061 135 CFTLYCRAFGYESRLILD---------FTDHVWTECFSQSLGRWMHLDPCEGIYDRPLL 184 (494)
Q Consensus 135 lF~~~~RAlGlpAR~V~~---------~~dHvW~EVy~~~~~rWV~vDP~e~~iD~Pll 184 (494)
++..+++..|+|||.|.. ...+-|.|||+.+ +|+-+||..+....|.-
T Consensus 2 ~~~~lL~~a~Ipar~v~gl~Led~rr~q~l~~~lev~~~~--~W~~f~p~tg~~g~p~n 58 (313)
T PF14402_consen 2 LIVKLLAMAGIPARVVHGLKLEDGRRRQSLEPWLEVFNGG--KWVLFNPRTGEQGLPEN 58 (313)
T ss_pred HHHHHHHhCCCCccEeeeEEecCCccccCcHhHHheeeCC--eEEEECCCCCCcCCCCC
Confidence 577899999999999942 3458899999974 69999999988877743
No 13
>PF14381 EDR1: Ethylene-responsive protein kinase Le-CTR1
Probab=91.50 E-value=0.29 Score=48.12 Aligned_cols=54 Identities=19% Similarity=0.201 Sum_probs=43.4
Q ss_pred HHHhCCccchhHHHHHHHHHHHcCCCEEEEE----e-C-CCceEEEEeeCCCCCeEEeccC
Q 011061 121 LVETKRGRCGEWANCFTLYCRAFGYESRLIL----D-F-TDHVWTECFSQSLGRWMHLDPC 175 (494)
Q Consensus 121 LL~tR~GrCgE~A~lF~~~~RAlGlpAR~V~----~-~-~dHvW~EVy~~~~~rWV~vDP~ 175 (494)
|=.-+.|.|.|=|.||-.+|-++|+|+|+|- . + .+|+|+.|-..+...+ =||-+
T Consensus 137 lG~l~~G~~rhRALLFKvLAD~iglpCrLvrG~~y~g~~~~~a~~~V~~~~~~ey-iVDLm 196 (204)
T PF14381_consen 137 LGSLRIGLCRHRALLFKVLADRIGLPCRLVRGCYYCGWDDDDASNLVKFDDGREY-IVDLM 196 (204)
T ss_pred EeeecccchHHHHHHHHHHHHhcCCCceEEeeccCCccCCCCceEEEEcCCCcEE-EEEcC
Confidence 4456899999999999999999999999993 2 4 6899999998764444 35544
No 14
>PF13471 Transglut_core3: Transglutaminase-like superfamily
Probab=88.16 E-value=0.76 Score=40.27 Aligned_cols=37 Identities=30% Similarity=0.608 Sum_probs=32.5
Q ss_pred CCccchhHHHHHHHHHHHcCCCEEEEEe-------CCCceEEEE
Q 011061 125 KRGRCGEWANCFTLYCRAFGYESRLILD-------FTDHVWTEC 161 (494)
Q Consensus 125 R~GrCgE~A~lF~~~~RAlGlpAR~V~~-------~~dHvW~EV 161 (494)
.+..|-..|.....+||..|+++.+|+. +..|+|+|+
T Consensus 54 ~~~~CL~~ala~~~~L~~~gi~~~l~iGv~~~~~~~~aHAWve~ 97 (117)
T PF13471_consen 54 WRSKCLPRALALQRLLRRRGIPATLVIGVRKDDDPFAAHAWVEC 97 (117)
T ss_pred CCCChHHHHHHHHHHHHhcCCCcEEEEEEeeCCCCceEEEEEEE
Confidence 4669999999999999999999999963 467999993
No 15
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=87.36 E-value=0.34 Score=52.37 Aligned_cols=36 Identities=28% Similarity=0.516 Sum_probs=28.8
Q ss_pred ecCCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcccccCCCC
Q 011061 66 VNAPPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKITRFPRYN 116 (494)
Q Consensus 66 v~~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~RFPRyn 116 (494)
..+|.|+.||..|.+.|. + -|+|++||...+-.++-
T Consensus 348 ~~~p~Cp~Cg~~m~S~G~------------~---g~rC~kCg~~~~~~~~~ 383 (421)
T COG1571 348 RVNPVCPRCGGRMKSAGR------------N---GFRCKKCGTRARETLIK 383 (421)
T ss_pred EcCCCCCccCCchhhcCC------------C---CcccccccccCCccccc
Confidence 356999999999988874 1 49999999987766655
No 16
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=84.34 E-value=0.86 Score=34.39 Aligned_cols=34 Identities=26% Similarity=0.598 Sum_probs=24.8
Q ss_pred cCEeecCCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCc
Q 011061 62 TFRWVNAPPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSK 108 (494)
Q Consensus 62 ~F~wv~~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~ 108 (494)
+++|-+.+.|+.||+.....-. ..-.|+|..|+.
T Consensus 12 ~~RW~~g~~CP~Cg~~~~~~~~-------------~~~~~~C~~C~~ 45 (46)
T PF12760_consen 12 EIRWPDGFVCPHCGSTKHYRLK-------------TRGRYRCKACRK 45 (46)
T ss_pred HhcCCCCCCCCCCCCeeeEEeC-------------CCCeEECCCCCC
Confidence 3579999999999997332211 145799999985
No 17
>TIGR03655 anti_R_Lar restriction alleviation protein, Lar family. Restriction alleviation proteins provide a countermeasure to host cell restriction enzyme defense against foreign DNA such as phage or plasmids. This family consists of homologs to the phage antirestriction protein Lar, and most members belong to phage genomes or prophage regions of bacterial genomes.
Probab=76.51 E-value=4.3 Score=31.51 Aligned_cols=36 Identities=22% Similarity=0.400 Sum_probs=22.7
Q ss_pred CCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCccccc
Q 011061 70 PCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKITRF 112 (494)
Q Consensus 70 ~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~RF 112 (494)
||+.||+....+..+. ..-+....|.|..|+....+
T Consensus 3 PCPfCGg~~~~~~~~~-------~~~~~~~~~~C~~Cga~~~~ 38 (53)
T TIGR03655 3 PCPFCGGADVYLRRGF-------DPLDLSHYFECSTCGASGPV 38 (53)
T ss_pred CCCCCCCcceeeEecc-------CCCCCEEEEECCCCCCCccc
Confidence 6999999766332110 01233445699999998776
No 18
>PF06035 Peptidase_C93: Bacterial transglutaminase-like cysteine proteinase BTLCP; InterPro: IPR010319 Structural analysis predicts that this family of proteins are bacterial transglutaminase-like cysteine peptidases (BTLCPs) with an invariant Cys-His-Asp catalytic triad and an N-terminal signal sequence. They are predicted to possess the papain-like cysteine proteinase fold and catalyse post-translational protein modification through transamidase, acetylase or hydrolase activity. Inspection of neighbouring genes suggests a link between this predicted activity and a type-I secretion system resembling ATP-binding cassette exporters of toxins and proteases involved in bacterial pathogenicity [].; PDB: 4FGQ_B 4FGP_B 4FGO_A.
Probab=73.83 E-value=1.8 Score=41.81 Aligned_cols=25 Identities=16% Similarity=0.301 Sum_probs=20.2
Q ss_pred HhCCccchhHHHHHHHHHHHcCCCE
Q 011061 123 ETKRGRCGEWANCFTLYCRAFGYES 147 (494)
Q Consensus 123 ~tR~GrCgE~A~lF~~~~RAlGlpA 147 (494)
..+.|-|.|||.+=-..|+++|+|.
T Consensus 74 ~~g~GDCEDyai~K~~~L~~~G~p~ 98 (170)
T PF06035_consen 74 ARGAGDCEDYAIAKRFALIELGVPA 98 (170)
T ss_dssp HHTEE-HHHHHHHHHHHHHHHT--G
T ss_pred CCCcCCcHhHHHHHHHHHHHcCCCH
Confidence 4799999999999999999999983
No 19
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=70.08 E-value=3.4 Score=39.14 Aligned_cols=35 Identities=23% Similarity=0.355 Sum_probs=20.3
Q ss_pred CCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCc
Q 011061 70 PCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSK 108 (494)
Q Consensus 70 ~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~ 108 (494)
.||.||++.+.+-...+. ..|-..-..|+|+.||.
T Consensus 2 ~cp~c~~~~~~~~~s~~~----~~~~~~~~~~~c~~c~~ 36 (154)
T PRK00464 2 RCPFCGHPDTRVIDSRPA----EDGNAIRRRRECLACGK 36 (154)
T ss_pred cCCCCCCCCCEeEecccc----CCCCceeeeeeccccCC
Confidence 599999976433211111 11322334699999986
No 20
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=69.07 E-value=6.5 Score=40.72 Aligned_cols=56 Identities=32% Similarity=0.618 Sum_probs=38.4
Q ss_pred HHHHHHHHHhhccCEeecCCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcccccCCCCCHHHHHHhCCc
Q 011061 50 AFLLQLLFWFKQTFRWVNAPPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKITRFPRYNDPLKLVETKRG 127 (494)
Q Consensus 50 ~~l~~LL~wFK~~F~wv~~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~RFPRyn~p~~LL~tR~G 127 (494)
..-.+|++|.++. .-|..||++|.....+ -...|++||+ .-|||.- |.-+..+++|
T Consensus 99 ~~a~~l~~w~~~~------RFCg~CG~~~~~~~~g--------------~~~~C~~cg~-~~fPR~d-P~vIv~v~~~ 154 (279)
T COG2816 99 ARAVQLLEWYRSH------RFCGRCGTKTYPREGG--------------WARVCPKCGH-EHFPRID-PCVIVAVIRG 154 (279)
T ss_pred HHHHHHHHHHhhC------cCCCCCCCcCccccCc--------------eeeeCCCCCC-ccCCCCC-CeEEEEEecC
Confidence 3456899999764 2399999988755211 1468999987 3599975 5555555555
No 21
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=67.25 E-value=4.3 Score=29.89 Aligned_cols=27 Identities=26% Similarity=0.506 Sum_probs=19.3
Q ss_pred CCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCc
Q 011061 70 PCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSK 108 (494)
Q Consensus 70 ~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~ 108 (494)
.||.|+.+..... .+.++++.|.+|+-
T Consensus 1 ~CP~C~~~l~~~~------------~~~~~id~C~~C~G 27 (41)
T PF13453_consen 1 KCPRCGTELEPVR------------LGDVEIDVCPSCGG 27 (41)
T ss_pred CcCCCCcccceEE------------ECCEEEEECCCCCe
Confidence 4888988544331 14599999999985
No 22
>PRK09710 lar restriction alleviation and modification protein; Reviewed
Probab=66.83 E-value=5 Score=33.23 Aligned_cols=33 Identities=21% Similarity=0.369 Sum_probs=24.3
Q ss_pred CCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcccc
Q 011061 68 APPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKITR 111 (494)
Q Consensus 68 ~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~R 111 (494)
--|||.||.+...+.. .+..+...|..|+...-
T Consensus 6 lKPCPFCG~~~~~v~~-----------~~g~~~v~C~~CgA~~~ 38 (64)
T PRK09710 6 VKPCPFCGCPSVTVKA-----------ISGYYRAKCNGCESRTG 38 (64)
T ss_pred ccCCCCCCCceeEEEe-----------cCceEEEEcCCCCcCcc
Confidence 3579999998776652 14466788999998654
No 23
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=66.17 E-value=2.3 Score=30.26 Aligned_cols=27 Identities=30% Similarity=0.586 Sum_probs=13.3
Q ss_pred CCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcc
Q 011061 68 APPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKI 109 (494)
Q Consensus 68 ~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~ 109 (494)
-|+|+.|+++...... ++|-|+.|++.
T Consensus 2 ~p~Cp~C~se~~y~D~---------------~~~vCp~C~~e 28 (30)
T PF08274_consen 2 LPKCPLCGSEYTYEDG---------------ELLVCPECGHE 28 (30)
T ss_dssp S---TTT-----EE-S---------------SSEEETTTTEE
T ss_pred CCCCCCCCCcceeccC---------------CEEeCCccccc
Confidence 3899999998665421 36899999875
No 24
>PRK06556 vitamin B12-dependent ribonucleotide reductase; Validated
Probab=65.86 E-value=3.5 Score=48.89 Aligned_cols=31 Identities=26% Similarity=0.664 Sum_probs=25.5
Q ss_pred EeecCCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCccc
Q 011061 64 RWVNAPPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKIT 110 (494)
Q Consensus 64 ~wv~~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~ 110 (494)
.-++.|+|+.||+.+...|. -|.|..||..+
T Consensus 920 ~~~~~~~c~~c~~~~~~~g~----------------c~~c~~cg~t~ 950 (953)
T PRK06556 920 EAADAPLCPTCGTKMVRNGS----------------CYVCEGCGSTS 950 (953)
T ss_pred ccccCCcCCCccCeeeECCc----------------eEeccCCCCCC
Confidence 45799999999987777775 49999999864
No 25
>PRK15047 N-hydroxyarylamine O-acetyltransferase; Provisional
Probab=64.52 E-value=20 Score=36.79 Aligned_cols=66 Identities=24% Similarity=0.309 Sum_probs=48.7
Q ss_pred HHHH-HhCCccchhHHHHHHHHHHHcCCCEEEE-----Ee------CCCceEEEEeeCCCCCeEEeccCCC--cCCCCee
Q 011061 119 LKLV-ETKRGRCGEWANCFTLYCRAFGYESRLI-----LD------FTDHVWTECFSQSLGRWMHLDPCEG--IYDRPLL 184 (494)
Q Consensus 119 ~~LL-~tR~GrCgE~A~lF~~~~RAlGlpAR~V-----~~------~~dHvW~EVy~~~~~rWV~vDP~e~--~iD~Pll 184 (494)
.|++ +.|-|.|-|...+|..++|++|+.++.+ ++ ...|.=.=|..+++ .| =+|+--| ..-.|+.
T Consensus 58 ~KlV~~~RGGyCfE~N~Lf~~~L~~LGF~v~~~~arV~~~~~~~~~~~tH~~l~V~i~~~-~y-LvDVGFG~~~~~~Pl~ 135 (281)
T PRK15047 58 EKLVIARRGGYCFEQNGLFERVLRELGFNVRSLLGRVVLSNPPALPPRTHRLLLVELEGE-KW-IADVGFGGQTLTAPIR 135 (281)
T ss_pred HHHhcCCCCEEcHhHHHHHHHHHHHcCCcEEEEEEEEEecCCCCCCCcCcEEEEEEECCe-eE-EEEecCCCCCCCccEE
Confidence 4555 4677899999999999999999997766 22 12588788888764 68 5788765 3567776
Q ss_pred ee
Q 011061 185 YE 186 (494)
Q Consensus 185 YE 186 (494)
.+
T Consensus 136 L~ 137 (281)
T PRK15047 136 LV 137 (281)
T ss_pred CC
Confidence 54
No 26
>PF00797 Acetyltransf_2: N-acetyltransferase; InterPro: IPR001447 Arylamine N-acetyltransferase (NAT) is a cytosolic enzyme of approximately 30 kDa. It facilitates the transfer of an acetyl group from acetyl coenzyme A on to a wide range of arylamine, N-hydroxyarylamines and hydrazines. Acetylation of these compounds generally results in inactivation. NAT is found in many species from Mycobacteria (Mycobacterium tuberculosis, Mycobacterium smegmatis etc) to Homo sapiens (Human). It was the first enzyme to be observed to have polymorphic activity amongst human individuals. NAT is responsible for the inactivation of Isoniazid (a drug used to treat tuberculosis) in humans. The NAT protein has also been shown to be involved in the breakdown of folic acid. NAT catalyses the reaction: Acetyl-coA + arylamine = coA + N-acetylarylamine NAT is the target of a common genetic polymorphism of clinical relevance in humans. The N-acetylation polymorphism is determined by low or high NAT activity in liver. NAT has been implicated in the action and toxicity of amine-containing drugs, and in the susceptibility to cancer and systematic lupus erythematosus. Two highly similar human genes for NAT, termed NAT1 and NAT2, encode genetically invariant and variant NAT proteins, respectively. ; GO: 0016407 acetyltransferase activity, 0008152 metabolic process; PDB: 1W6F_A 1W5R_A 1GX3_D 2PQT_A 2IJA_A 1W4T_A 2BSZ_B 3D9W_B 3LTW_A 3LNB_A ....
Probab=64.48 E-value=6.5 Score=38.02 Aligned_cols=83 Identities=23% Similarity=0.280 Sum_probs=50.4
Q ss_pred HHHH-HhCCccchhHHHHHHHHHHHcCCCEEEEEe------------CCCceEEEEeeCCCCCeEEeccCCCc--CCCCe
Q 011061 119 LKLV-ETKRGRCGEWANCFTLYCRAFGYESRLILD------------FTDHVWTECFSQSLGRWMHLDPCEGI--YDRPL 183 (494)
Q Consensus 119 ~~LL-~tR~GrCgE~A~lF~~~~RAlGlpAR~V~~------------~~dHvW~EVy~~~~~rWV~vDP~e~~--iD~Pl 183 (494)
.+++ +.|-|.|-|...+|..+++++|++++++.. ..+|.=.=|-.++. +| =||+.-|. .-.|+
T Consensus 38 ~kiv~~~rGG~C~elN~lf~~lL~~lGf~v~~~~arv~~~~~~~~~~~~~H~~liV~~~~~-~y-lvDvGfG~~~~~~Pl 115 (240)
T PF00797_consen 38 DKIVRRGRGGYCFELNGLFYWLLRELGFDVTLVSARVYSPGGPDYWPPRTHLVLIVTLDGE-RY-LVDVGFGGPSPREPL 115 (240)
T ss_dssp HHHTTTT--B-HHHHHHHHHHHHHHCT-EEEEEEEEEETTTTTCCSSSEEEEEEEEEETTE-EE-EE-SSSTTC--SS-E
T ss_pred HHHHhcCCCeEhHHHHHHHHHHHHHCCCeEEEEEEEEEeCCCCCCCCCCceEEEEEEECCE-EE-EEeccCCCcCcccce
Confidence 4554 567789999999999999999999998831 12477677777764 67 68888655 45666
Q ss_pred eeecCcc---CccceEEeecCCc
Q 011061 184 LYEKGWN---KKLNYVIAISKDG 203 (494)
Q Consensus 184 lYE~gWg---KklSYVIAFs~DG 203 (494)
....+.. ..-.|-+.-..++
T Consensus 116 ~l~~~~~~~~~~~~~rl~~~~~~ 138 (240)
T PF00797_consen 116 PLEDGEEQVSPGGTFRLVREDDG 138 (240)
T ss_dssp ESSSTCEEEESSCEEEEEEETTT
T ss_pred EccCCccEeccCceEEEeEecCc
Confidence 6654421 1124555444444
No 27
>PRK10941 hypothetical protein; Provisional
Probab=62.42 E-value=24 Score=36.06 Aligned_cols=60 Identities=12% Similarity=0.135 Sum_probs=46.0
Q ss_pred HHHHHHhCCccchhHHHHHHHHHHHcCCCEEEEEeCCCceEEEEeeCCCCCeEEeccCCCcC
Q 011061 118 PLKLVETKRGRCGEWANCFTLYCRAFGYESRLILDFTDHVWTECFSQSLGRWMHLDPCEGIY 179 (494)
Q Consensus 118 p~~LL~tR~GrCgE~A~lF~~~~RAlGlpAR~V~~~~dHvW~EVy~~~~~rWV~vDP~e~~i 179 (494)
..++|++|+|--.-.|.+|+.++|.+|+|+.=| ++..|+=.-+=.++.+.| =+||.+|-+
T Consensus 87 L~~VL~~R~G~PisL~il~l~iA~~lglp~~gV-~fPghfllr~~~~d~~~~-~IDPf~G~~ 146 (269)
T PRK10941 87 LDKVLKTRQGSAVSLGAILLWIANRLDLPLMPV-IFPTQLILRADWLDGEMW-LINPFNGET 146 (269)
T ss_pred HHHHHHccCCCcHHHHHHHHHHHHHcCCCeeee-ecCchheeeeecCCCceE-EEeCCCCCC
Confidence 578899999999999999999999999998765 556666555533333345 589987653
No 28
>PF14354 Lar_restr_allev: Restriction alleviation protein Lar
Probab=61.09 E-value=9.9 Score=29.62 Aligned_cols=33 Identities=27% Similarity=0.480 Sum_probs=18.2
Q ss_pred CCCCCCCCCccccCCCCCChhhhhcCC-ceEEEeeeCCCCc
Q 011061 69 PPCDGCSNETVGQGMGTPLPSEIQYGA-ARVELFRCKVCSK 108 (494)
Q Consensus 69 P~C~~Cg~~t~~~g~~~p~~~E~~~ga-~~VE~Y~C~~C~~ 108 (494)
.||+.||.+............ +. ..|. |..||.
T Consensus 4 kPCPFCG~~~~~~~~~~~~~~----~~~~~V~---C~~Cga 37 (61)
T PF14354_consen 4 KPCPFCGSADVLIRQDEGFDY----GMYYYVE---CTDCGA 37 (61)
T ss_pred cCCCCCCCcceEeecccCCCC----CCEEEEE---cCCCCC
Confidence 479999887665432111100 01 3333 999998
No 29
>PF14353 CpXC: CpXC protein
Probab=60.69 E-value=5.1 Score=35.69 Aligned_cols=42 Identities=21% Similarity=0.293 Sum_probs=25.5
Q ss_pred CCCCCCCCCccc-----c-CCCCCChhhhhcCCceEEEeeeCCCCcccc
Q 011061 69 PPCDGCSNETVG-----Q-GMGTPLPSEIQYGAARVELFRCKVCSKITR 111 (494)
Q Consensus 69 P~C~~Cg~~t~~-----~-g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~R 111 (494)
-.|+.||.+... + ....|..-|.-- .+..=.|.|++||+..+
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il-~g~l~~~~CP~Cg~~~~ 49 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKIL-DGSLFSFTCPSCGHKFR 49 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHH-cCCcCEEECCCCCCcee
Confidence 369999986321 1 222233233222 56777899999998654
No 30
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=60.26 E-value=5.8 Score=35.94 Aligned_cols=27 Identities=26% Similarity=0.555 Sum_probs=20.5
Q ss_pred CCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcc
Q 011061 68 APPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKI 109 (494)
Q Consensus 68 ~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~ 109 (494)
-|+|+.|+++-..... ++|-|+.|++.
T Consensus 2 lp~CP~C~seytY~dg---------------~~~iCpeC~~E 28 (109)
T TIGR00686 2 LPPCPKCNSEYTYHDG---------------TQLICPSCLYE 28 (109)
T ss_pred CCcCCcCCCcceEecC---------------CeeECcccccc
Confidence 5999999997655421 36999999873
No 31
>PRK10220 hypothetical protein; Provisional
Probab=57.72 E-value=7.3 Score=35.40 Aligned_cols=28 Identities=21% Similarity=0.604 Sum_probs=21.2
Q ss_pred cCCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcc
Q 011061 67 NAPPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKI 109 (494)
Q Consensus 67 ~~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~ 109 (494)
+-|+|+.|+++-.+... ++|-|+.|++.
T Consensus 2 ~lP~CP~C~seytY~d~---------------~~~vCpeC~hE 29 (111)
T PRK10220 2 SLPHCPKCNSEYTYEDN---------------GMYICPECAHE 29 (111)
T ss_pred CCCcCCCCCCcceEcCC---------------CeEECCcccCc
Confidence 56999999997655421 27999999985
No 32
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=55.05 E-value=11 Score=34.40 Aligned_cols=16 Identities=19% Similarity=0.451 Sum_probs=12.3
Q ss_pred ceEEEeeeCCCCcccc
Q 011061 96 ARVELFRCKVCSKITR 111 (494)
Q Consensus 96 ~~VE~Y~C~~C~~~~R 111 (494)
-.|..++|++|++.++
T Consensus 8 l~vt~l~C~~C~t~i~ 23 (113)
T PF09862_consen 8 LVVTRLKCPSCGTEIE 23 (113)
T ss_pred eEEEEEEcCCCCCEEE
Confidence 3456689999998765
No 33
>PHA02998 RNA polymerase subunit; Provisional
Probab=54.59 E-value=10 Score=37.32 Aligned_cols=45 Identities=22% Similarity=0.520 Sum_probs=29.7
Q ss_pred CCCCCCCCCcc-ccCCCCCChhhhhcCCceEEEeeeCCCCcccccCCCCCH
Q 011061 69 PPCDGCSNETV-GQGMGTPLPSEIQYGAARVELFRCKVCSKITRFPRYNDP 118 (494)
Q Consensus 69 P~C~~Cg~~t~-~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~RFPRyn~p 118 (494)
-+|+.|++... ..-...=++|| ...--|+|..||...+=||+-+.
T Consensus 144 v~CPkCg~~~A~f~qlQTRSADE-----PmT~FYkC~~CG~~wkppkf~~~ 189 (195)
T PHA02998 144 TPCPNCKSKNTTPMMIQTRAADE-----PPLVRHACRDCKKHFKPPKFRDK 189 (195)
T ss_pred CCCCCCCCCceEEEEEeeccCCC-----CceEEEEcCCCCCccCCcccccc
Confidence 56999998632 22111122333 34457999999999999998764
No 34
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=52.74 E-value=19 Score=36.31 Aligned_cols=47 Identities=17% Similarity=0.393 Sum_probs=31.3
Q ss_pred HHHHHHHhhccCEeecCCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcccccCCCCCHH
Q 011061 52 LLQLLFWFKQTFRWVNAPPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKITRFPRYNDPL 119 (494)
Q Consensus 52 l~~LL~wFK~~F~wv~~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~RFPRyn~p~ 119 (494)
..+|++|-++. --|+.||+++.... +.. .-.|..|+. +-|||.....
T Consensus 89 a~~l~~w~~~~------~fC~~CG~~~~~~~-------------~~~-~~~C~~c~~-~~yp~~~paV 135 (256)
T PRK00241 89 AVQLAEFYRSH------RFCGYCGHPMHPSK-------------TEW-AMLCPHCRE-RYYPRIAPCI 135 (256)
T ss_pred HHHHHHHhhcC------ccccccCCCCeecC-------------Cce-eEECCCCCC-EECCCCCCEE
Confidence 46888887653 22999999876431 112 246999984 6699977553
No 35
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=48.59 E-value=10 Score=28.12 Aligned_cols=15 Identities=27% Similarity=0.902 Sum_probs=9.3
Q ss_pred eEEEeeeCCCCcccc
Q 011061 97 RVELFRCKVCSKITR 111 (494)
Q Consensus 97 ~VE~Y~C~~C~~~~R 111 (494)
.-|+|+|..||..+.
T Consensus 3 ~~~~YkC~~CGniVe 17 (36)
T PF06397_consen 3 KGEFYKCEHCGNIVE 17 (36)
T ss_dssp TTEEEE-TTT--EEE
T ss_pred cccEEEccCCCCEEE
Confidence 358999999998753
No 36
>PRK02935 hypothetical protein; Provisional
Probab=45.84 E-value=14 Score=33.50 Aligned_cols=30 Identities=20% Similarity=0.391 Sum_probs=23.8
Q ss_pred CCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcccccC
Q 011061 68 APPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKITRFP 113 (494)
Q Consensus 68 ~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~RFP 113 (494)
+-.||.|+.+|...|. +..|-.|+++.+-+
T Consensus 70 qV~CP~C~K~TKmLGr----------------vD~CM~C~~PLTLd 99 (110)
T PRK02935 70 QVICPSCEKPTKMLGR----------------VDACMHCNQPLTLD 99 (110)
T ss_pred eeECCCCCchhhhccc----------------eeecCcCCCcCCcC
Confidence 3569999999999973 34899999987643
No 37
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=45.84 E-value=20 Score=26.44 Aligned_cols=31 Identities=23% Similarity=0.502 Sum_probs=20.5
Q ss_pred CCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCC
Q 011061 69 PPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCS 107 (494)
Q Consensus 69 P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~ 107 (494)
..|+.|++.......| .+...-..|+|..|.
T Consensus 6 v~CP~C~s~~~v~k~G--------~~~~G~qryrC~~C~ 36 (36)
T PF03811_consen 6 VHCPRCQSTEGVKKNG--------KSPSGHQRYRCKDCR 36 (36)
T ss_pred eeCCCCCCCCcceeCC--------CCCCCCEeEecCcCC
Confidence 5699999976332221 134567789999994
No 38
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=45.83 E-value=17 Score=31.92 Aligned_cols=55 Identities=16% Similarity=0.303 Sum_probs=33.4
Q ss_pred cCCCCCCCCccHHHHHHHHHHHhhccCEeecCCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcccc
Q 011061 37 EGNFKPSKTEQDHAFLLQLLFWFKQTFRWVNAPPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKITR 111 (494)
Q Consensus 37 ~g~~~p~~~e~~~~~l~~LL~wFK~~F~wv~~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~R 111 (494)
.|.|-|...--....++++..=- -+.+.|+.|+.+++.- ..+-+++|.+||...-
T Consensus 10 aGrfGpRYG~~~Rrrv~~ie~~~------~~~~~Cp~C~~~~VkR--------------~a~GIW~C~kCg~~fA 64 (89)
T COG1997 10 AGRFGPRYGSKLRRRVKEIEAQQ------RAKHVCPFCGRTTVKR--------------IATGIWKCRKCGAKFA 64 (89)
T ss_pred CcccccccchHHHHHHHHHHHHH------hcCCcCCCCCCcceee--------------eccCeEEcCCCCCeec
Confidence 46666666544333344443321 2668899999985521 1123799999998654
No 39
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=44.80 E-value=13 Score=30.59 Aligned_cols=35 Identities=34% Similarity=0.879 Sum_probs=17.4
Q ss_pred CCCCCCCCCCcc-ccCC-CCCChhhhhcCCceEEEeeeCCCC
Q 011061 68 APPCDGCSNETV-GQGM-GTPLPSEIQYGAARVELFRCKVCS 107 (494)
Q Consensus 68 ~P~C~~Cg~~t~-~~g~-~~p~~~E~~~ga~~VE~Y~C~~C~ 107 (494)
.|.|.+||..-. ..+. .-|=| .++-+++|+|..|.
T Consensus 9 ~~~CtSCg~~i~p~e~~v~F~CP-----nCGe~~I~Rc~~CR 45 (61)
T COG2888 9 PPVCTSCGREIAPGETAVKFPCP-----NCGEVEIYRCAKCR 45 (61)
T ss_pred CceeccCCCEeccCCceeEeeCC-----CCCceeeehhhhHH
Confidence 577888887431 1111 11222 24556666666664
No 40
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=43.72 E-value=15 Score=26.73 Aligned_cols=29 Identities=24% Similarity=0.515 Sum_probs=14.2
Q ss_pred CCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcc
Q 011061 71 CDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKI 109 (494)
Q Consensus 71 C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~ 109 (494)
|+.||++.... -|..| .-|.+.|+.||.+
T Consensus 3 C~~CG~~l~~~---ip~gd-------~r~R~vC~~Cg~I 31 (34)
T PF14803_consen 3 CPQCGGPLERR---IPEGD-------DRERLVCPACGFI 31 (34)
T ss_dssp -TTT--B-EEE-----TT--------SS-EEEETTTTEE
T ss_pred cccccChhhhh---cCCCC-------CccceECCCCCCE
Confidence 89999975432 12222 2367899999864
No 41
>COG3672 Predicted transglutaminase-like cysteine proteinase [General function prediction only]
Probab=43.42 E-value=54 Score=32.49 Aligned_cols=23 Identities=22% Similarity=0.200 Sum_probs=22.0
Q ss_pred hCCccchhHHHHHHHHHHHcCCC
Q 011061 124 TKRGRCGEWANCFTLYCRAFGYE 146 (494)
Q Consensus 124 tR~GrCgE~A~lF~~~~RAlGlp 146 (494)
+..|.|.|||..=-.-+..+|++
T Consensus 105 ~~~GDCEDyal~KRr~L~~~G~s 127 (191)
T COG3672 105 TGAGDCEDYALEKRRRLMEAGVS 127 (191)
T ss_pred CCcccHHHHHHHHHHHHHHcCCC
Confidence 89999999999999999999998
No 42
>COG2912 Uncharacterized conserved protein [Function unknown]
Probab=42.26 E-value=45 Score=34.52 Aligned_cols=64 Identities=14% Similarity=0.126 Sum_probs=52.9
Q ss_pred cCCCCCHHHHHHhCCccchhHHHHHHHHHHHcCCCEEEEEeCCCceEEEEeeCCCCCeEEeccCCCc
Q 011061 112 FPRYNDPLKLVETKRGRCGEWANCFTLYCRAFGYESRLILDFTDHVWTECFSQSLGRWMHLDPCEGI 178 (494)
Q Consensus 112 FPRyn~p~~LL~tR~GrCgE~A~lF~~~~RAlGlpAR~V~~~~dHvW~EVy~~~~~rWV~vDP~e~~ 178 (494)
-||--....++++|+|.--..|..++-+++++|+|- |=.|+.+|.=.-+..++ +-| -+||+++-
T Consensus 82 ~~~n~~l~~Vl~~R~G~pvsLa~vll~ia~~l~lpl-~gV~FP~~flLR~~~~~-~~~-~idP~ng~ 145 (269)
T COG2912 82 DPRNLYLNQVLQRRQGIPVSLAVVLLEIARRLDLPL-YGVNFPTQLLLRAEVED-EPL-LIDPFNGG 145 (269)
T ss_pred CchhhhHHHHHHHcCCCcchHHHHHHHHHHHcCCCC-CccCCccceeEeeccCC-Cce-eeCCCCCC
Confidence 345555688999999999999999999999999997 33578899988888887 445 89999763
No 43
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=41.29 E-value=26 Score=26.03 Aligned_cols=35 Identities=23% Similarity=0.497 Sum_probs=20.9
Q ss_pred CCCCCCCCcc-ccCCCCCChhhhhcCCceEEEeeeCCCCcc
Q 011061 70 PCDGCSNETV-GQGMGTPLPSEIQYGAARVELFRCKVCSKI 109 (494)
Q Consensus 70 ~C~~Cg~~t~-~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~ 109 (494)
+|+.||+... ..-...=++|| ...=.|.|..|++.
T Consensus 2 ~Cp~C~~~~a~~~q~Q~RsaDE-----~mT~fy~C~~C~~~ 37 (40)
T smart00440 2 PCPKCGNREATFFQLQTRSADE-----PMTVFYVCTKCGHR 37 (40)
T ss_pred cCCCCCCCeEEEEEEcccCCCC-----CCeEEEEeCCCCCE
Confidence 6999998643 22111112332 34457999999974
No 44
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=39.29 E-value=14 Score=33.79 Aligned_cols=45 Identities=18% Similarity=0.279 Sum_probs=29.4
Q ss_pred HHHHHhhccC--EeecCCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcccccCC
Q 011061 54 QLLFWFKQTF--RWVNAPPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKITRFPR 114 (494)
Q Consensus 54 ~LL~wFK~~F--~wv~~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~RFPR 114 (494)
...-||-=.+ +-.-.-.||.|+..|...|. + ..|-+|+++....|
T Consensus 53 S~~VYfwIGmlStkav~V~CP~C~K~TKmLGr--------------~--D~CM~C~~pLTLd~ 99 (114)
T PF11023_consen 53 STAVYFWIGMLSTKAVQVECPNCGKQTKMLGR--------------V--DACMHCKEPLTLDP 99 (114)
T ss_pred HHHHHHHhhhhcccceeeECCCCCChHhhhch--------------h--hccCcCCCcCccCc
Confidence 3345664332 22334569999999999873 2 48999999776443
No 45
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=39.27 E-value=20 Score=26.43 Aligned_cols=35 Identities=17% Similarity=0.356 Sum_probs=18.4
Q ss_pred CCCCCCCCcc-ccCCCCCChhhhhcCCceEEEeeeCCCCcc
Q 011061 70 PCDGCSNETV-GQGMGTPLPSEIQYGAARVELFRCKVCSKI 109 (494)
Q Consensus 70 ~C~~Cg~~t~-~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~ 109 (494)
+|+.||++.. ..-...=.+|| ...=.|.|..||+.
T Consensus 2 ~Cp~Cg~~~a~~~~~Q~rsaDE-----~~T~fy~C~~C~~~ 37 (39)
T PF01096_consen 2 KCPKCGHNEAVFFQIQTRSADE-----PMTLFYVCCNCGHR 37 (39)
T ss_dssp --SSS-SSEEEEEEESSSSSSS-----SSEEEEEESSSTEE
T ss_pred CCcCCCCCeEEEEEeeccCCCC-----CCeEEEEeCCCCCe
Confidence 6999999643 22111112232 34567999999975
No 46
>PHA00626 hypothetical protein
Probab=39.00 E-value=18 Score=29.51 Aligned_cols=29 Identities=14% Similarity=0.433 Sum_probs=18.4
Q ss_pred CCCCCCCCcccc-CCCCCChhhhhcCCceEEEeeeCCCCc
Q 011061 70 PCDGCSNETVGQ-GMGTPLPSEIQYGAARVELFRCKVCSK 108 (494)
Q Consensus 70 ~C~~Cg~~t~~~-g~~~p~~~E~~~ga~~VE~Y~C~~C~~ 108 (494)
.||.||+.++.- |... ...-.|+|+.||.
T Consensus 2 ~CP~CGS~~Ivrcg~cr----------~~snrYkCkdCGY 31 (59)
T PHA00626 2 SCPKCGSGNIAKEKTMR----------GWSDDYVCCDCGY 31 (59)
T ss_pred CCCCCCCceeeeeceec----------ccCcceEcCCCCC
Confidence 599999965432 3211 1124699999995
No 47
>COG2162 NhoA Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=38.95 E-value=64 Score=33.62 Aligned_cols=66 Identities=24% Similarity=0.371 Sum_probs=45.3
Q ss_pred HHHH-HhCCccchhHHHHHHHHHHHcCCCEE-----EEEeC-------CCceEEEEeeCCCCCeEEeccCCC--cCCCCe
Q 011061 119 LKLV-ETKRGRCGEWANCFTLYCRAFGYESR-----LILDF-------TDHVWTECFSQSLGRWMHLDPCEG--IYDRPL 183 (494)
Q Consensus 119 ~~LL-~tR~GrCgE~A~lF~~~~RAlGlpAR-----~V~~~-------~dHvW~EVy~~~~~rWV~vDP~e~--~iD~Pl 183 (494)
.||+ ..|-|.|-|.--+|..+++++|+..| .+|.. ..|.=.-|..++. -|+ +|.--+ ..-.|+
T Consensus 59 ~KLv~~rRGGyCfElNglf~~vL~~lGF~v~~l~arV~~g~~~~a~~~~tH~~L~v~~~~~-~~l-~DvGFGg~~l~APl 136 (275)
T COG2162 59 DKLVLARRGGYCFELNGLFGRVLRELGFNVRLLLARVVWGLAPDALPPRTHRLLLVELEGE-TWL-ADVGFGGQTLTAPI 136 (275)
T ss_pred HHHHhccccceehhhhhHHHHHHHHcCCcceeeEEEEEecCCCCCCCcccceEEEEEecCc-eeE-EecCCCCCCcCCCc
Confidence 3443 45678999999999999999998855 55642 3588777777774 584 566544 333355
Q ss_pred eee
Q 011061 184 LYE 186 (494)
Q Consensus 184 lYE 186 (494)
-.+
T Consensus 137 rL~ 139 (275)
T COG2162 137 RLE 139 (275)
T ss_pred ccC
Confidence 544
No 48
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=38.69 E-value=15 Score=29.96 Aligned_cols=23 Identities=26% Similarity=0.741 Sum_probs=19.8
Q ss_pred HHhhccCEeecCCCCCCCCCCcc
Q 011061 57 FWFKQTFRWVNAPPCDGCSNETV 79 (494)
Q Consensus 57 ~wFK~~F~wv~~P~C~~Cg~~t~ 79 (494)
-|-+.+|+.-..|.|+-|++++.
T Consensus 28 gWmR~nFs~~~~p~CPlC~s~M~ 50 (59)
T PF14169_consen 28 GWMRDNFSFEEEPVCPLCKSPMV 50 (59)
T ss_pred cccccccccCCCccCCCcCCccc
Confidence 47777799999999999999875
No 49
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=38.36 E-value=41 Score=30.91 Aligned_cols=50 Identities=28% Similarity=0.489 Sum_probs=38.3
Q ss_pred hccHHHHHHhhccccccCC----------CCCeEEEecCCccccccchhHhHHHHHHHHH
Q 011061 383 LPSIGHLLRVLSLKSELNT----------DGRVDIVLAGDPVKTSLSLPVVFKALDDMIH 432 (494)
Q Consensus 383 lps~~~ll~~lslk~~~~~----------~g~~~~~~~~~p~~tsl~l~~~~~~~~~~~~ 432 (494)
||-++..+..+++|.--.. +|+..++|-|+|+.+..++=+++++|+.++.
T Consensus 91 l~g~~~~~~~~~~~pg~~~~~~~~~~g~~~~~~v~~LPG~P~aa~~~~~~v~P~l~~~~~ 150 (152)
T cd00886 91 LPGFGEAFRALSLEETGTAMLSRAVAGIRGGTLIFNLPGSPKAVREALEVILPELPHLLD 150 (152)
T ss_pred CccHHHHHHHhhcccCCcEEEechhheEECCEEEEECCCCHHHHHHHHHHHHHHHHHHHH
Confidence 4556778888888864322 6889999999999887777668888877765
No 50
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=37.17 E-value=15 Score=37.25 Aligned_cols=44 Identities=23% Similarity=0.497 Sum_probs=19.3
Q ss_pred EeecCCCCCCCCCCccccCCCCCChhhhhcCC-ceEEEeeeCCCCcccccCCCC
Q 011061 64 RWVNAPPCDGCSNETVGQGMGTPLPSEIQYGA-ARVELFRCKVCSKITRFPRYN 116 (494)
Q Consensus 64 ~wv~~P~C~~Cg~~t~~~g~~~p~~~E~~~ga-~~VE~Y~C~~C~~~~RFPRyn 116 (494)
.| +..-|+.||+.-...- +..+. ..---..|..|++.-+|+|..
T Consensus 169 ~w-~~g~CPvCGs~P~~s~--------l~~~~~~G~R~L~Cs~C~t~W~~~R~~ 213 (290)
T PF04216_consen 169 GW-QRGYCPVCGSPPVLSV--------LRGGEREGKRYLHCSLCGTEWRFVRIK 213 (290)
T ss_dssp -T-T-SS-TTT---EEEEE--------EE------EEEEEETTT--EEE--TTS
T ss_pred Cc-cCCcCCCCCCcCceEE--------EecCCCCccEEEEcCCCCCeeeecCCC
Confidence 45 4578999999643210 11111 123667999999999999954
No 51
>PF04981 NMD3: NMD3 family ; InterPro: IPR007064 The NMD3 protein is involved in nonsense mediated mRNA decay. This N-terminal region contains four conserved CXXC motifs that could be metal binding. NMD3 is involved in export of the 60S ribosomal subunit is mediated by the adapter protein Nmd3p in a Crm1p-dependent pathway [].
Probab=37.15 E-value=1.1e+02 Score=30.37 Aligned_cols=111 Identities=16% Similarity=0.240 Sum_probs=56.2
Q ss_pred CceEEEeeeCCCCcccccCCCCCHHHHHHhCCccchhHHHHHHHHHHHcCCCEEEEEeCCCceEEEEeeCCCCCeEEecc
Q 011061 95 AARVELFRCKVCSKITRFPRYNDPLKLVETKRGRCGEWANCFTLYCRAFGYESRLILDFTDHVWTECFSQSLGRWMHLDP 174 (494)
Q Consensus 95 a~~VE~Y~C~~C~~~~RFPRyn~p~~LL~tR~GrCgE~A~lF~~~~RAlGlpAR~V~~~~dHvW~EVy~~~~~rWV~vDP 174 (494)
...+++..|+.||....=.++.++ +.=..-+.|+-.+-+.+.-. ..+......+|+|..+. .-.+.|..
T Consensus 30 ~~~i~v~~C~~Cg~~~~~~~W~~~--------~~~el~~~~lk~v~~~l~~~-~~~~~d~~~v~~e~~~~--r~~v~v~v 98 (236)
T PF04981_consen 30 PDRIEVTICPKCGRYRIGGRWVDP--------ESRELEELCLKKVERGLKKN-IKVHVDAEFVWTEPHSK--RIKVKVTV 98 (236)
T ss_pred CCccCceECCCCCCEECCCEeeec--------CcccHHHHHHHHHHHHHHHh-hcccccccEEEEEeeCC--EEEEEEEE
Confidence 356899999999985443566655 01011122222221222111 11222344577888332 23555555
Q ss_pred CCCcCC-CCeeeecCccCccceEEeec--CCcceechhhhccChHHhhhhccc
Q 011061 175 CEGIYD-RPLLYEKGWNKKLNYVIAIS--KDGVFDVTKRYTRKWHEVLSRRNI 224 (494)
Q Consensus 175 ~e~~iD-~PllYE~gWgKklSYVIAFs--~DGv~DVTrRYt~~~~~~~~RR~r 224 (494)
...+.+ .|+ ..+|.+-|. ..-+-|=+++....|..+++-|..
T Consensus 99 ~~~v~~~~~~--------~~~~~v~~~v~~~~C~~C~r~~~~~~eaiVQvR~~ 143 (236)
T PF04981_consen 99 QGEVHGGTPV--------EQEYEVEVRVKRQQCPDCSRIAGGYYEAIVQVRQR 143 (236)
T ss_pred EEEEcccceE--------EEEEEEEEEEEcCCChhHHhhhCCCccEEEEEEec
Confidence 433333 333 234555555 333467777776677777777755
No 52
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=36.96 E-value=30 Score=31.20 Aligned_cols=41 Identities=15% Similarity=0.271 Sum_probs=25.8
Q ss_pred CCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCccccc
Q 011061 68 APPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKITRF 112 (494)
Q Consensus 68 ~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~RF 112 (494)
...|+.||+.....-. ...+..+-.-+.-|+|..||..-||
T Consensus 72 ~~~CpkCg~~ea~y~~----~QtRsaDEp~T~Fy~C~~Cg~~wre 112 (113)
T COG1594 72 KEKCPKCGNKEAYYWQ----LQTRSADEPETRFYKCTRCGYRWRE 112 (113)
T ss_pred cccCCCCCCceeEEEe----eehhccCCCceEEEEecccCCEeec
Confidence 4669999997542210 0111122356778999999997765
No 53
>TIGR01385 TFSII transcription elongation factor S-II. This model represents eukaryotic transcription elongation factor S-II. This protein allows stalled RNA transcription complexes to perform a cleavage of the nascent RNA and restart at the newly generated 3-prime end.
Probab=36.94 E-value=26 Score=36.55 Aligned_cols=44 Identities=16% Similarity=0.337 Sum_probs=27.8
Q ss_pred EeecCCCCCCCCCC-ccccCCCCCChhhhhcCCceEEEeeeCCCCccccc
Q 011061 64 RWVNAPPCDGCSNE-TVGQGMGTPLPSEIQYGAARVELFRCKVCSKITRF 112 (494)
Q Consensus 64 ~wv~~P~C~~Cg~~-t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~RF 112 (494)
+=++.-+|+.||+. +.+.-...=++|| ...=.|.|..||+.-+|
T Consensus 254 ~~t~~~~C~~C~~~~~~~~q~QtrsaDE-----pmT~f~~C~~Cg~~w~f 298 (299)
T TIGR01385 254 AVTDLFTCGKCKQKKCTYYQLQTRSADE-----PMTTFVTCEECGNRWKF 298 (299)
T ss_pred CCcccccCCCCCCccceEEEecccCCCC-----CCeEEEEcCCCCCeeee
Confidence 44667899999985 3322221122332 33447899999998777
No 54
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=36.76 E-value=16 Score=34.82 Aligned_cols=41 Identities=17% Similarity=0.361 Sum_probs=24.0
Q ss_pred CCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcccccCCCC
Q 011061 70 PCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKITRFPRYN 116 (494)
Q Consensus 70 ~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~RFPRyn 116 (494)
.||.||++...+=...|+.| |...=-.=.|..||. ||.-|.
T Consensus 2 ~CP~C~~~dtkViDSR~~~d----g~~IRRRReC~~C~~--RFTTyE 42 (147)
T TIGR00244 2 HCPFCQHHNTRVLDSRLVED----GQSIRRRRECLECHE--RFTTFE 42 (147)
T ss_pred CCCCCCCCCCEeeeccccCC----CCeeeecccCCccCC--ccceee
Confidence 59999996543322233322 444445567999996 444444
No 55
>PF13005 zf-IS66: zinc-finger binding domain of transposase IS66 ; InterPro: IPR024474 This entry represents a predicted helix-turn-helix domain from insertion element IS66 transposases [].
Probab=36.49 E-value=26 Score=25.98 Aligned_cols=38 Identities=16% Similarity=0.407 Sum_probs=22.1
Q ss_pred CCCCCCCCCccccCCCCCChhhhhc-------CCceEEEeeeCCCC
Q 011061 69 PPCDGCSNETVGQGMGTPLPSEIQY-------GAARVELFRCKVCS 107 (494)
Q Consensus 69 P~C~~Cg~~t~~~g~~~p~~~E~~~-------ga~~VE~Y~C~~C~ 107 (494)
.-|+.||+....+|.. ...++... --.+...|.|..|+
T Consensus 3 ~~C~~Cg~~l~~ig~~-~~~q~l~~~p~~~~V~e~~~~~y~C~~C~ 47 (47)
T PF13005_consen 3 RACPDCGGELKEIGEE-KVRQVLDLPPAKPEVTEHVRHKYACPCCG 47 (47)
T ss_pred CcCCCCCceeeECCce-eeEEEEeecccceEEEEEEeceEECCCCC
Confidence 4699999987655542 01222211 12455678899886
No 56
>TIGR02667 moaB_proteo molybdenum cofactor biosynthesis protein B, proteobacterial. This model represents the MoaB protein molybdopterin biosynthesis regions in Proteobacteria. This crystallized but incompletely characterized protein is thought to be involved in, though not required for, early steps in molybdopterin biosynthesis. It may bind a molybdopterin precursor. A distinctive conserved motif PCN near the C-terminus helps distinguish this clade from other homologs, including sets of proteins designated MogA.
Probab=36.42 E-value=26 Score=32.92 Aligned_cols=72 Identities=17% Similarity=0.228 Sum_probs=50.8
Q ss_pred cccccCCCCchhHHHHhh----hccHHHHHHhhcccc-c---------cC-CCCCeEEEecCCccccccch-hHhHHHHH
Q 011061 365 RVSLNSVPNNGQKIVHQL----LPSIGHLLRVLSLKS-E---------LN-TDGRVDIVLAGDPVKTSLSL-PVVFKALD 428 (494)
Q Consensus 365 ~~~~~~~~~~~~~~~~~~----lps~~~ll~~lslk~-~---------~~-~~g~~~~~~~~~p~~tsl~l-~~~~~~~~ 428 (494)
-++....+-+ .+++.++ ||-++.++..+++|. - ++ .+|..-++|-|+|+....++ -.+..+|+
T Consensus 72 Gtg~g~~D~t-~eal~~l~~~~l~G~~~~~~~i~~~p~G~~~~lsr~~~g~~~~~~v~~LPG~P~aa~~~~~~~v~P~l~ 150 (163)
T TIGR02667 72 GTGFTGRDVT-PEALEPLFDKTVEGFGELFRQLSYEEIGTSTIQSRALAGLANGTFVFCLPGSTGACRTAWDKIIAAQLD 150 (163)
T ss_pred CcCCCCCCCc-HHHHHHHHCCcCCcHHHHHHHHhhcccCHHHHHhhhhheeeCCeEEEECCCCHHHHHHHHHHHHHHHHH
Confidence 3444444444 2344444 777889999999986 2 22 25779999999999998888 56888888
Q ss_pred HHHHhcccc
Q 011061 429 DMIHDLNNC 437 (494)
Q Consensus 429 ~~~~~~~~~ 437 (494)
.+++..++-
T Consensus 151 ~~~~~~~~~ 159 (163)
T TIGR02667 151 ARHRPCNFV 159 (163)
T ss_pred HHhcccccc
Confidence 887777663
No 57
>COG4332 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.98 E-value=23 Score=35.00 Aligned_cols=43 Identities=12% Similarity=0.238 Sum_probs=26.6
Q ss_pred CCCCCCCcccc--CCCCCChhhhhcCCceEEEeeeCCCCcccccCCC
Q 011061 71 CDGCSNETVGQ--GMGTPLPSEIQYGAARVELFRCKVCSKITRFPRY 115 (494)
Q Consensus 71 C~~Cg~~t~~~--g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~RFPRy 115 (494)
|..||..+.+. |+-.-|+.- .--+.=-+|+|.+|+..--||-|
T Consensus 20 C~~Cg~kr~f~cSg~fRvNAq~--K~LDvWlIYkC~~Cd~tWN~~If 64 (203)
T COG4332 20 CNSCGVKRAFTCSGKFRVNAQG--KVLDVWLIYKCTHCDYTWNISIF 64 (203)
T ss_pred CcccCCcceeeecCcEEEcCCC--cEEEEEEEEEeeccCCccchhhh
Confidence 99999976543 443333321 11245568999999987664443
No 58
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=35.33 E-value=86 Score=33.06 Aligned_cols=50 Identities=16% Similarity=0.269 Sum_probs=33.6
Q ss_pred eecCCCCCCCCCCcc-ccCCCCCChhhhhcCCceEEEeeeCCCCcccccCCCCCHHHHHHhCCccchh
Q 011061 65 WVNAPPCDGCSNETV-GQGMGTPLPSEIQYGAARVELFRCKVCSKITRFPRYNDPLKLVETKRGRCGE 131 (494)
Q Consensus 65 wv~~P~C~~Cg~~t~-~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~RFPRyn~p~~LL~tR~GrCgE 131 (494)
|-+..-|+.||+.-. .+-. ..+....--..|.-|++.-+|+|. +.-.||+
T Consensus 184 ~~~~~~CPvCGs~P~~s~v~--------~~~~~G~RyL~CslC~teW~~~R~---------~C~~Cg~ 234 (309)
T PRK03564 184 GEQRQFCPVCGSMPVSSVVQ--------IGTTQGLRYLHCNLCESEWHVVRV---------KCSNCEQ 234 (309)
T ss_pred ccCCCCCCCCCCcchhheee--------ccCCCCceEEEcCCCCCcccccCc---------cCCCCCC
Confidence 456788999999643 2100 011234466789999999999984 4667775
No 59
>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=35.17 E-value=18 Score=33.93 Aligned_cols=34 Identities=24% Similarity=0.613 Sum_probs=21.3
Q ss_pred CCCCCCCCCC-ccccCCCCCChhhhhcCCceEEEeeeCCCCcc
Q 011061 68 APPCDGCSNE-TVGQGMGTPLPSEIQYGAARVELFRCKVCSKI 109 (494)
Q Consensus 68 ~P~C~~Cg~~-t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~ 109 (494)
...|++||+. |.....-.+|+=- -+|+|..|...
T Consensus 105 ~~~cp~c~s~~t~~~s~fg~t~ck--------a~~~c~~c~ep 139 (146)
T TIGR02159 105 SVQCPRCGSADTTITSIFGPTACK--------ALYRCRACKEP 139 (146)
T ss_pred CCcCCCCCCCCcEeecCCCChhhH--------HHhhhhhhCCc
Confidence 4789999995 4433222234322 27999999764
No 60
>PF06044 DRP: Dam-replacing family; InterPro: IPR010324 Dam-replacing protein (DRP) is a restriction endonuclease that is flanked by pseudo-transposable small repeat elements. The replacement of Dam-methylase by DRP allows phase variation through slippage-like mechanisms in several pathogenic isolates of Neisseria meningitidis [].; PDB: 4ESJ_A.
Probab=33.49 E-value=20 Score=36.76 Aligned_cols=54 Identities=17% Similarity=0.334 Sum_probs=30.2
Q ss_pred EeecCCcc----eechhhhccChHHhhhhccc--ccHHHHHHHHHHHHHHHHccCCHHHhhhhh
Q 011061 197 IAISKDGV----FDVTKRYTRKWHEVLSRRNI--ATEQTVSAVLAKMTRECRRSFASETLSTLE 254 (494)
Q Consensus 197 IAFs~DGv----~DVTrRYt~~~~~~~~RR~r--v~E~wl~~~L~~l~~~~R~~ls~ee~~~Le 254 (494)
|-+=+||. ..|+.. |.+.+..|+. -+-.|+..+|.-+.+.-...++-+++...+
T Consensus 154 I~lv~~~~~~~~~~V~~~----~~~tlfLr~~~~~~rGWlldi~~cid~i~~~~FtL~diY~Fe 213 (254)
T PF06044_consen 154 IFLVKNGQIIPPEEVLEQ----WQKTLFLRTQNIESRGWLLDIMKCIDKIPKNEFTLDDIYAFE 213 (254)
T ss_dssp EEEEETTEE--HHHHHHH----HHHGGGGGGS-HHHHHHHHHHHHHHHHS-SSEEEHHHHHTTH
T ss_pred EEEEeCCeEcCHHHHHHH----HHHHHHHHhccccccchHHHHHHHHHhcCccceeHHHHHHHH
Confidence 34445663 345544 4444444433 245899999998875443555656555443
No 61
>PF04721 DUF750: Domain of unknown function (DUF750) ; InterPro: IPR006588 The PAW domain (present in PNGases and other worm proteins) is found as a single copy at the C terminus of metazoan peptide:N-glycanase (PNGase) and in multiple copies in hypothetical Caenorhabditis elegans proteins peptide:N-glycanases (PNGases) []. The C-terminal PAW domain of PNGase binds to the mannose moieties of N-linked oligosaccharide chains []. The PAW domain is a slightly elongated molecule and displays a beta-sandwich architecture, which is composed of two layers, containing nine and eight antiparallel beta-strands, respectively, and three additional short helices []. Some proteins known to contain a PAW domain are listed below: Animal peptide:N-glycanase (PNGase) 3.5.1.52 from EC, catalyses the deglycosylation of several misfolded N-linked glycoproteins by cleaving the bulky glycan chain before the proteins are degraded by the proteasome. Caenorhabditis elegans putative uncharacterised protein C17B7.5. ; GO: 0006516 glycoprotein catabolic process, 0005737 cytoplasm; PDB: 2G9F_A 2I74_B 2G9G_A.
Probab=33.47 E-value=0.64 Score=38.02 Aligned_cols=54 Identities=19% Similarity=0.155 Sum_probs=35.6
Q ss_pred ceeeEeecchhhhhccccCCCchhhHHHHHHHHHHHHhhccCCCcccccccccCCC
Q 011061 317 HVTTIYNAFSSVLSHFVENNVPKSGAIELLKILKGILGDLKKSPYKTRRVSLNSVP 372 (494)
Q Consensus 317 hv~~iY~a~~~~ls~~~~~~~~~~~a~~~~~~~r~~~~dlk~~~fk~R~~~~~~~~ 372 (494)
+|..-|+-..-.-|+-.++ .|...++.+..|.|+++.||+|+ |.+|+...+...
T Consensus 3 y~~FtYdii~d~YS~~~~d-Gs~~~~~~~~nI~R~ve~d~~~v-YL~r~~~~~~g~ 56 (62)
T PF04721_consen 3 YVKFTYDIISDTYSHTNED-GSPIQPWKVENIERKVERDWNMV-YLHRKEGSEEGN 56 (62)
T ss_dssp ----EEETTTTEEEECCGT-TEEEE-SSEESEEEEEETTTTEE-EEEE-TT-SEEE
T ss_pred ccceeEEeccCEEEeeCCC-CeEEeeEEeeeEEEEEeCCCcEE-EEEEcCCCccce
Confidence 4566677776555554333 46677888899999999999999 999988765544
No 62
>TIGR00319 desulf_FeS4 desulfoferrodoxin FeS4 iron-binding domain. Neelaredoxin, a monomeric blue non-heme iron protein, lacks this domain.
Probab=33.06 E-value=24 Score=24.90 Aligned_cols=14 Identities=29% Similarity=0.980 Sum_probs=11.7
Q ss_pred eEEEeeeCCCCccc
Q 011061 97 RVELFRCKVCSKIT 110 (494)
Q Consensus 97 ~VE~Y~C~~C~~~~ 110 (494)
+.++|+|..||..+
T Consensus 4 ~~~~ykC~~Cgniv 17 (34)
T TIGR00319 4 EGQVYKCEVCGNIV 17 (34)
T ss_pred cCcEEEcCCCCcEE
Confidence 46799999999865
No 63
>TIGR00340 zpr1_rel ZPR1-related zinc finger protein. A model ZPR1_znf (TIGR00310) has been created to describe the domain shared by this protein and ZPR1.
Probab=32.76 E-value=34 Score=32.81 Aligned_cols=34 Identities=21% Similarity=0.582 Sum_probs=22.2
Q ss_pred CCCCCCCcccc-CCCCCChhhhh-cCCceEEEeeeCCCCc
Q 011061 71 CDGCSNETVGQ-GMGTPLPSEIQ-YGAARVELFRCKVCSK 108 (494)
Q Consensus 71 C~~Cg~~t~~~-g~~~p~~~E~~-~ga~~VE~Y~C~~C~~ 108 (494)
|+.||+++... .. ..++. ++--.+--+.|++||.
T Consensus 1 CP~Cg~~~~~~~~~----~~~IP~F~evii~sf~C~~CGy 36 (163)
T TIGR00340 1 CPVCGSRTLKAVTY----DYDIPYFGKIMLSTYICEKCGY 36 (163)
T ss_pred CCCCCCcceEeeeE----eccCCCcceEEEEEEECCCCCC
Confidence 89999874322 11 11222 3567788999999997
No 64
>PF12386 Peptidase_C71: Pseudomurein endo-isopeptidase Pei; InterPro: IPR022119 This peptidase has the catalytic triad C-H-D at the C-terminal end, a triad similar to that in thiol proteases and animal transglutaminases. It catalyses the in vitro lysis of M. marburgensis cells under reducing conditions and exhibits characteristics of metal-activated peptidases.
Probab=30.57 E-value=49 Score=31.03 Aligned_cols=29 Identities=17% Similarity=0.343 Sum_probs=24.8
Q ss_pred HHhCCccchhHHHHHHHHHHHcCCCEEEE
Q 011061 122 VETKRGRCGEWANCFTLYCRAFGYESRLI 150 (494)
Q Consensus 122 L~tR~GrCgE~A~lF~~~~RAlGlpAR~V 150 (494)
+.+.---|-|++++|.-++.+||+.+|++
T Consensus 50 ~~~~GiNCtD~~Qlf~~v~~~lGY~Vq~~ 78 (142)
T PF12386_consen 50 MRTSGINCTDACQLFYRVIESLGYDVQFE 78 (142)
T ss_pred HHhcCCCchhHHHHHHHHHHhcCceEEEE
Confidence 34444469999999999999999999999
No 65
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=30.23 E-value=44 Score=35.10 Aligned_cols=49 Identities=20% Similarity=0.497 Sum_probs=33.1
Q ss_pred ecCCCCCCCCCCccccCCCCCChhhhhc--CCceEEEeeeCCCCcccccCCCCCHHHHHHhCCccchh
Q 011061 66 VNAPPCDGCSNETVGQGMGTPLPSEIQY--GAARVELFRCKVCSKITRFPRYNDPLKLVETKRGRCGE 131 (494)
Q Consensus 66 v~~P~C~~Cg~~t~~~g~~~p~~~E~~~--ga~~VE~Y~C~~C~~~~RFPRyn~p~~LL~tR~GrCgE 131 (494)
-+..-|+.||+.-+ ...+.. +..+.-...|.-|++.-+|+|. +.-.||+
T Consensus 182 ~~~~~CPvCGs~P~--------~s~~~~~~~~~G~RyL~CslC~teW~~~R~---------~C~~Cg~ 232 (305)
T TIGR01562 182 ESRTLCPACGSPPV--------ASMVRQGGKETGLRYLSCSLCATEWHYVRV---------KCSHCEE 232 (305)
T ss_pred CCCCcCCCCCChhh--------hhhhcccCCCCCceEEEcCCCCCcccccCc---------cCCCCCC
Confidence 45678999999532 111111 1345667799999999999984 4667775
No 66
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=30.02 E-value=35 Score=23.84 Aligned_cols=14 Identities=21% Similarity=0.363 Sum_probs=7.5
Q ss_pred CCCCCCCCCCcccc
Q 011061 68 APPCDGCSNETVGQ 81 (494)
Q Consensus 68 ~P~C~~Cg~~t~~~ 81 (494)
..-|+.||++|...
T Consensus 3 ~rfC~~CG~~t~~~ 16 (32)
T PF09297_consen 3 HRFCGRCGAPTKPA 16 (32)
T ss_dssp TSB-TTT--BEEE-
T ss_pred CcccCcCCccccCC
Confidence 34599999998765
No 67
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=29.69 E-value=39 Score=34.39 Aligned_cols=43 Identities=19% Similarity=0.329 Sum_probs=21.0
Q ss_pred CEe-ecCCCCCCCCCCcc-ccCCCCCChhhhhcCCceEEEeeeCCCCcccc
Q 011061 63 FRW-VNAPPCDGCSNETV-GQGMGTPLPSEIQYGAARVELFRCKVCSKITR 111 (494)
Q Consensus 63 F~w-v~~P~C~~Cg~~t~-~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~R 111 (494)
+.| +..-.|+.||+... ....-. ..+...+.++.|..|+..+.
T Consensus 205 t~W~~~R~~Cp~Cg~~~~~~l~~~~------~e~~~~~rve~C~~C~~YlK 249 (290)
T PF04216_consen 205 TEWRFVRIKCPYCGNTDHEKLEYFT------VEGEPAYRVEVCESCGSYLK 249 (290)
T ss_dssp -EEE--TTS-TTT---SS-EEE--------------SEEEEEETTTTEEEE
T ss_pred CeeeecCCCCcCCCCCCCcceeeEe------cCCCCcEEEEECCcccchHH
Confidence 478 66778999999643 222110 12334677779999998766
No 68
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=29.68 E-value=27 Score=33.50 Aligned_cols=25 Identities=12% Similarity=0.268 Sum_probs=21.0
Q ss_pred hcccccHHHHHHHHHHHHHHHHccC
Q 011061 221 RRNIATEQTVSAVLAKMTRECRRSF 245 (494)
Q Consensus 221 RR~rv~E~wl~~~L~~l~~~~R~~l 245 (494)
++..|+.+.++.++..+..++|..-
T Consensus 75 ~KRpVs~e~ie~~v~~ie~~Lr~~g 99 (156)
T COG1327 75 EKRPVSSEQIEEAVSHIERQLRSSG 99 (156)
T ss_pred hcCCCCHHHHHHHHHHHHHHHHhcC
Confidence 5567899999999999999988653
No 69
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=28.82 E-value=42 Score=24.60 Aligned_cols=31 Identities=19% Similarity=0.651 Sum_probs=19.4
Q ss_pred eecCCC--CCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCccc
Q 011061 65 WVNAPP--CDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKIT 110 (494)
Q Consensus 65 wv~~P~--C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~ 110 (494)
|+-.|. |+.|++....... =.|-|..||+.+
T Consensus 3 ~~~~~~~~C~~C~~~~~~~~d---------------G~~yC~~cG~~~ 35 (36)
T PF11781_consen 3 WMRGPNEPCPVCGSRWFYSDD---------------GFYYCDRCGHQS 35 (36)
T ss_pred ccccCCCcCCCCCCeEeEccC---------------CEEEhhhCceEc
Confidence 444454 9999996222211 158899998764
No 70
>cd01675 RNR_III Class III ribonucleotide reductase. Ribonucleotide reductase (RNR) catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides. It provides the precursors necessary for DNA synthesis. RNRs are separated into three classes based on their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, and bacteriophage, use a diiron-tyrosyl radical. Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in strict or facultative anaerobic bacteria, bacteriophage, and archaea, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. All three RNRs have a ten-stranded alpha-beta barrel domain that is structurally similar to the domain of PFL (pyruvate formate lyase). The class III enzyme from phage T4 consists of two subunits, this model covers the larger subunit w
Probab=28.56 E-value=66 Score=36.08 Aligned_cols=42 Identities=26% Similarity=0.415 Sum_probs=27.7
Q ss_pred HHHHHHHHH-hhcc--CEeecCCC--CCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcc
Q 011061 50 AFLLQLLFW-FKQT--FRWVNAPP--CDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKI 109 (494)
Q Consensus 50 ~~l~~LL~w-FK~~--F~wv~~P~--C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~ 109 (494)
.-+++|++. |++. +-|++.|. |..||.... -+.+.|+.||..
T Consensus 495 ~al~~lv~~a~~~~~~y~~~~~p~~~C~~CG~~~~------------------~~~~~CP~CGs~ 541 (555)
T cd01675 495 EALEALVKKAAKRGVIYFGINTPIDICNDCGYIGE------------------GEGFKCPKCGSE 541 (555)
T ss_pred HHHHHHHHHHHHcCCceEEEecCCccCCCCCCCCc------------------CCCCCCcCCCCc
Confidence 356677776 6663 56777775 888886222 234899999953
No 71
>TIGR03696 Rhs_assc_core RHS repeat-associated core domain. This model represents a conserved unique core sequence shared by large numbers of proteins. It is occasional in the Archaea Methanosarcina barkeri) but common in bacteria and eukaryotes. Most fall into two large classes. One class consists of long proteins in which two classes of repeats are abundant: an FG-GAP repeat (pfam01839) class, and an RHS repeat (pfam05593) or YD repeat (TIGR01643). This class includes secreted bacterial insecticidal toxins and intercellular signalling proteins such as the teneurins in animals. The other class consists of uncharacterized proteins shorter than 400 amino acids, where this core domain of about 75 amino acids tends to occur in the N-terminal half. Over twenty such proteins are found in Pseudomonas putida alone; little sequence similarity or repeat structure is found among these proteins outside the region modeled by this domain.
Probab=28.29 E-value=59 Score=26.79 Aligned_cols=39 Identities=23% Similarity=0.309 Sum_probs=25.6
Q ss_pred ceEEEEeeCCCCCeEEeccCCCcCCCCeeeecCccCccce
Q 011061 156 HVWTECFSQSLGRWMHLDPCEGIYDRPLLYEKGWNKKLNY 195 (494)
Q Consensus 156 HvW~EVy~~~~~rWV~vDP~e~~iD~PllYE~gWgKklSY 195 (494)
+...-.|.+..+||+..||.. ..+....|.=..+.+++|
T Consensus 32 ~~~~R~Ydp~~Grf~~~DP~~-~~~~~n~Y~Y~~nnP~~~ 70 (76)
T TIGR03696 32 YNGARYYDPELGRFLSPDPIG-LGGGLNLYAYVGNNPVNW 70 (76)
T ss_pred eeCCEeEeCCCCceeccCccc-cCCCceeeeeeCCCCCcc
Confidence 455667999999999999964 334334444445566554
No 72
>cd00974 DSRD Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small, single-domain homodimeric protein; each subunit contains an iron atom bound to four cysteinyl sulfur atoms, Fe(S-Cys)4, in a distorted tetrahedral coordination. Its metal center is similar to that found in rubredoxin type proteins. Desulforedoxin is regarded as a potential redox partner for rubredoxin. Desulfoferrodoxin forms a homodimeric protein, with each protomer comprised of two domains, the N-terminal DSRD domain and C-terminal superoxide reductase-like (SORL) domain. Each domain has a distinct iron center: the DSRD iron center I, Fe(S-Cys)4; and the SORL iron center II, Fe[His4Cys(Glu)].
Probab=27.56 E-value=32 Score=24.33 Aligned_cols=14 Identities=29% Similarity=1.139 Sum_probs=11.1
Q ss_pred EEEeeeCCCCcccc
Q 011061 98 VELFRCKVCSKITR 111 (494)
Q Consensus 98 VE~Y~C~~C~~~~R 111 (494)
.+.|+|..||..+-
T Consensus 2 ~~~ykC~~CGniv~ 15 (34)
T cd00974 2 LEVYKCEICGNIVE 15 (34)
T ss_pred CcEEEcCCCCcEEE
Confidence 46899999998653
No 73
>cd04476 RPA1_DBD_C RPA1_DBD_C: A subfamily of OB folds corresponding to the C-terminal OB fold, the ssDNA-binding domain (DBD)-C, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-C, RPA1 contains three other OB folds: DBD-A, DBD-B, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in DNA binding and trimerization. It contains two structural insertions not found to date in other OB-folds: a zinc ribbon and a three-helix bundle. RPA1 DBD-C also contains a Cys4-type zinc-binding motif, which plays a role in the ssDNA binding fun
Probab=27.46 E-value=31 Score=31.89 Aligned_cols=63 Identities=29% Similarity=0.603 Sum_probs=39.3
Q ss_pred EeecCCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcccc--cCCCCCHHHHHHhCCccchhHHHHHHHHHH
Q 011061 64 RWVNAPPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKITR--FPRYNDPLKLVETKRGRCGEWANCFTLYCR 141 (494)
Q Consensus 64 ~wv~~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~R--FPRyn~p~~LL~tR~GrCgE~A~lF~~~~R 141 (494)
.|+. +-|+.|+.+....+. ..|.|..|+...- -|||-
T Consensus 31 ~~~Y-~aC~~C~kkv~~~~~---------------~~~~C~~C~~~~~~~~~ry~------------------------- 69 (166)
T cd04476 31 NWWY-PACPGCNKKVVEEGN---------------GTYRCEKCNKSVPNPEYRYI------------------------- 69 (166)
T ss_pred CeEE-ccccccCcccEeCCC---------------CcEECCCCCCcCCCccEEEE-------------------------
Confidence 4544 679999886443321 5799999998642 33332
Q ss_pred HcCCCEEEE-EeCCCceEEEEeeCCCCCeEEe
Q 011061 142 AFGYESRLI-LDFTDHVWTECFSQSLGRWMHL 172 (494)
Q Consensus 142 AlGlpAR~V-~~~~dHvW~EVy~~~~~rWV~v 172 (494)
.++. -|.++.+|+-+|.+....=++.
T Consensus 70 -----l~~~i~D~Tg~~~~~~F~~~ae~l~G~ 96 (166)
T cd04476 70 -----LSLNVADHTGEAWLTLFDEVAEQIFGK 96 (166)
T ss_pred -----EEEEEEeCCCCEEEEEehHHHHHHhCC
Confidence 1111 3688899999998654445554
No 74
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=27.34 E-value=58 Score=28.00 Aligned_cols=37 Identities=16% Similarity=0.419 Sum_probs=23.2
Q ss_pred CCCCCCCCCcc-ccCCCCCChhhhhcCCceEEEeeeCCCCccc
Q 011061 69 PPCDGCSNETV-GQGMGTPLPSEIQYGAARVELFRCKVCSKIT 110 (494)
Q Consensus 69 P~C~~Cg~~t~-~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~ 110 (494)
-+|+.||++.. ..-...-++|| ...=.|.|..|++.-
T Consensus 63 ~~Cp~Cg~~~a~f~~~Q~RsadE-----~~T~fy~C~~C~~~w 100 (104)
T TIGR01384 63 VECPKCGHKEAYYWLLQTRRADE-----PETRFYKCTKCGYVW 100 (104)
T ss_pred CCCCCCCCCeeEEEEeccCCCCC-----CcEEEEEeCCCCCee
Confidence 57999998643 22222223443 445679999999743
No 75
>PF14690 zf-ISL3: zinc-finger of transposase IS204/IS1001/IS1096/IS1165
Probab=27.19 E-value=44 Score=24.51 Aligned_cols=11 Identities=36% Similarity=1.008 Sum_probs=8.9
Q ss_pred CCCCCCCCCcc
Q 011061 69 PPCDGCSNETV 79 (494)
Q Consensus 69 P~C~~Cg~~t~ 79 (494)
+.|+.||+.+.
T Consensus 3 ~~Cp~Cg~~~~ 13 (47)
T PF14690_consen 3 PRCPHCGSPSV 13 (47)
T ss_pred ccCCCcCCCce
Confidence 56999999874
No 76
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=26.80 E-value=85 Score=30.49 Aligned_cols=53 Identities=23% Similarity=0.340 Sum_probs=29.0
Q ss_pred HHHHHHHHhhccCEeec--CCCCCCCCCCccccCCCCCChhhhh------cCCceEEEeeeCCCCcc
Q 011061 51 FLLQLLFWFKQTFRWVN--APPCDGCSNETVGQGMGTPLPSEIQ------YGAARVELFRCKVCSKI 109 (494)
Q Consensus 51 ~l~~LL~wFK~~F~wv~--~P~C~~Cg~~t~~~g~~~p~~~E~~------~ga~~VE~Y~C~~C~~~ 109 (494)
-+.+++.-|...+ |+. .--|+.|+++-..+ +.+|.. .--.--|.|+|+.||+.
T Consensus 79 Ql~e~~~~~~l~~-~~~~e~~RCp~CN~~L~~v-----s~eev~~~Vp~~~~~~~~~f~~C~~Cgki 139 (165)
T COG1656 79 QLAEFLARLGLKP-RLFPEFSRCPECNGELEKV-----SREEVKEKVPEKVYRNYEEFYRCPKCGKI 139 (165)
T ss_pred HHHHHHHHhccch-hcccccccCcccCCEeccC-----cHHHHhhccchhhhhcccceeECCCCccc
Confidence 3445555454443 432 24699999864332 112211 11244578999999984
No 77
>TIGR00310 ZPR1_znf ZPR1 zinc finger domain.
Probab=25.46 E-value=46 Score=32.69 Aligned_cols=34 Identities=21% Similarity=0.477 Sum_probs=22.1
Q ss_pred CCCCCCCCcc--ccCCCCCChhhhh-cCCceEEEeeeCCCCc
Q 011061 70 PCDGCSNETV--GQGMGTPLPSEIQ-YGAARVELFRCKVCSK 108 (494)
Q Consensus 70 ~C~~Cg~~t~--~~g~~~p~~~E~~-~ga~~VE~Y~C~~C~~ 108 (494)
+|+.||.+.. ..-.. + +. ++--.+--+.|++||.
T Consensus 2 ~Cp~C~~~~~~~~~~~~----~-IP~F~evii~sf~C~~CGy 38 (192)
T TIGR00310 2 DCPSCGGECETVMKTVN----D-IPYFGEVLETSTICEHCGY 38 (192)
T ss_pred cCCCCCCCCEEEEEEEc----C-CCCcceEEEEEEECCCCCC
Confidence 6999997522 22111 0 22 3567788999999996
No 78
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.98 E-value=39 Score=29.44 Aligned_cols=27 Identities=30% Similarity=0.432 Sum_probs=21.2
Q ss_pred CCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCc
Q 011061 70 PCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSK 108 (494)
Q Consensus 70 ~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~ 108 (494)
.|+.|+.+..+.. -+.||+=.|+.|+.
T Consensus 3 lCP~C~v~l~~~~------------rs~vEiD~CPrCrG 29 (88)
T COG3809 3 LCPICGVELVMSV------------RSGVEIDYCPRCRG 29 (88)
T ss_pred ccCcCCceeeeee------------ecCceeeeCCcccc
Confidence 4999998766542 37799999999975
No 79
>COG3877 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.94 E-value=62 Score=29.68 Aligned_cols=27 Identities=19% Similarity=0.516 Sum_probs=19.8
Q ss_pred cCCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcccc
Q 011061 67 NAPPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKITR 111 (494)
Q Consensus 67 ~~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~R 111 (494)
--|+|+.||.+... ---+|+.|+..+|
T Consensus 5 ~~~~cPvcg~~~iV------------------TeL~c~~~etTVr 31 (122)
T COG3877 5 VINRCPVCGRKLIV------------------TELKCSNCETTVR 31 (122)
T ss_pred CCCCCCccccccee------------------EEEecCCCCceEe
Confidence 35789999985433 3358999998887
No 80
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=24.67 E-value=77 Score=28.44 Aligned_cols=44 Identities=27% Similarity=0.439 Sum_probs=27.0
Q ss_pred CCCCCCCCCccccCCCCCChhhhhcCC---ceEEEeeeCCCCcccc-cCCCCCH
Q 011061 69 PPCDGCSNETVGQGMGTPLPSEIQYGA---ARVELFRCKVCSKITR-FPRYNDP 118 (494)
Q Consensus 69 P~C~~Cg~~t~~~g~~~p~~~E~~~ga---~~VE~Y~C~~C~~~~R-FPRyn~p 118 (494)
..|+.||.+...+.. +++ ++- ..=-+|.|..|++.+- +|.=+-|
T Consensus 3 ~~CpYCg~~~~l~~~-----~~i-Yg~~~~~~~~~y~C~~C~AyVG~H~~t~~P 50 (102)
T PF11672_consen 3 IICPYCGGPAELVDG-----SEI-YGHRYDDGPYLYVCTPCDAYVGCHPGTDIP 50 (102)
T ss_pred cccCCCCCeeEEccc-----chh-cCccCCCCceeEECCCCCceeeeeCCCCCc
Confidence 359999998765431 222 221 1123599999998877 6754433
No 81
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=23.87 E-value=57 Score=30.32 Aligned_cols=42 Identities=21% Similarity=0.503 Sum_probs=27.9
Q ss_pred HHHHHHHHhhccCEeecCCCCCCCCCCcc-ccCCCCCChhhhhcCCceEEEeeeCCCCcc
Q 011061 51 FLLQLLFWFKQTFRWVNAPPCDGCSNETV-GQGMGTPLPSEIQYGAARVELFRCKVCSKI 109 (494)
Q Consensus 51 ~l~~LL~wFK~~F~wv~~P~C~~Cg~~t~-~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~ 109 (494)
.+.++|+=|=. .||. |+.|+++.+ ..- -+++-.-+|..||+.
T Consensus 85 ~i~~~L~~yI~--~yVl---C~~C~sPdT~l~k------------~~r~~~l~C~ACGa~ 127 (133)
T TIGR00311 85 LLNERIEDYVR--KYVI---CRECNRPDTRIIK------------EGRVSLLKCEACGAK 127 (133)
T ss_pred HHHHHHHHHHh--heEE---CCCCCCCCcEEEE------------eCCeEEEecccCCCC
Confidence 56777765533 3555 888999644 332 156767799999974
No 82
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=23.68 E-value=51 Score=26.37 Aligned_cols=29 Identities=14% Similarity=0.376 Sum_probs=20.2
Q ss_pred cCCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcc
Q 011061 67 NAPPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKI 109 (494)
Q Consensus 67 ~~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~ 109 (494)
.++.|++||..+.... --+.|.|-.||-.
T Consensus 18 k~~~CPrCG~gvfmA~--------------H~dR~~CGkCgyT 46 (51)
T COG1998 18 KNRFCPRCGPGVFMAD--------------HKDRWACGKCGYT 46 (51)
T ss_pred ccccCCCCCCcchhhh--------------cCceeEeccccce
Confidence 4678999997555432 2237899999853
No 83
>smart00709 Zpr1 Duplicated domain in the epidermal growth factor- and elongation factor-1alpha-binding protein Zpr1. Also present in archaeal proteins.
Probab=23.34 E-value=55 Score=31.21 Aligned_cols=34 Identities=18% Similarity=0.477 Sum_probs=22.0
Q ss_pred CCCCCCCCcc--ccCCCCCChhhhhcCCceEEEeeeCCCCc
Q 011061 70 PCDGCSNETV--GQGMGTPLPSEIQYGAARVELFRCKVCSK 108 (494)
Q Consensus 70 ~C~~Cg~~t~--~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~ 108 (494)
.|+.||.+.. ..-..-|- ++--.+--+.|++||.
T Consensus 2 ~Cp~C~~~~~~~~~~~~IP~-----F~evii~sf~C~~CGy 37 (160)
T smart00709 2 DCPSCGGNGTTRMLLTSIPY-----FREVIIMSFECEHCGY 37 (160)
T ss_pred cCCCCCCCCEEEEEEecCCC-----cceEEEEEEECCCCCC
Confidence 5999997532 22211122 3557778999999996
No 84
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=23.10 E-value=58 Score=35.76 Aligned_cols=62 Identities=19% Similarity=0.142 Sum_probs=40.8
Q ss_pred CCCccccccc-ccCCCCchhHHHHhhhccHHHHHHhhccccccCCCCCeEEEec-CCccccccc
Q 011061 358 KSPYKTRRVS-LNSVPNNGQKIVHQLLPSIGHLLRVLSLKSELNTDGRVDIVLA-GDPVKTSLS 419 (494)
Q Consensus 358 ~~~fk~R~~~-~~~~~~~~~~~~~~~lps~~~ll~~lslk~~~~~~g~~~~~~~-~~p~~tsl~ 419 (494)
+.|||+|... +.-.......-...++--.-.+...++++...+|+|.+.|+.. ++++.+|++
T Consensus 48 ~ipyKTRGN~av~l~~~~~~~d~~~~~~~~~~~ve~~~~~~~~~t~PG~vv~~~~~~ev~~~~~ 111 (421)
T COG1571 48 NIPYKTRGNAAVLLLVARRRGDANDIFYLAREGVEKLALKDSENTNPGEVVAVGELPEVLRSFY 111 (421)
T ss_pred CCceeccCCceeEEEeecCccchHHHHHHHHHHHHHhhccccccCCCcEEEEecCCcHHHHHHH
Confidence 5799999988 2111111000001223334678889999999999999999999 777766554
No 85
>PF12390 Se-cys_synth_N: Selenocysteine synthase N terminal
Probab=23.01 E-value=49 Score=24.35 Aligned_cols=36 Identities=31% Similarity=0.634 Sum_probs=27.1
Q ss_pred hccHHHHHHhhccccccCCCCCeEEEecCCccccccchhHhHHHHHHHHHhc
Q 011061 383 LPSIGHLLRVLSLKSELNTDGRVDIVLAGDPVKTSLSLPVVFKALDDMIHDL 434 (494)
Q Consensus 383 lps~~~ll~~lslk~~~~~~g~~~~~~~~~p~~tsl~l~~~~~~~~~~~~~~ 434 (494)
|||.+.+|....++.-+..-|+ +++.+++.+++..+
T Consensus 4 LPsVD~lL~~~~~~~l~~~~~r----------------~~v~~~vR~~ld~~ 39 (40)
T PF12390_consen 4 LPSVDELLQEPEIQDLIERYGR----------------PLVVDAVREVLDEL 39 (40)
T ss_pred CchHHHHHhChhhHHHHHHcCH----------------HHHHHHHHHHHHHh
Confidence 8999999999888877665554 56777777776553
No 86
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=22.92 E-value=54 Score=24.55 Aligned_cols=11 Identities=27% Similarity=0.516 Sum_probs=8.1
Q ss_pred EeeeCCCCccc
Q 011061 100 LFRCKVCSKIT 110 (494)
Q Consensus 100 ~Y~C~~C~~~~ 110 (494)
..+|+.||...
T Consensus 21 ~~~Cp~CG~~~ 31 (46)
T PRK00398 21 GVRCPYCGYRI 31 (46)
T ss_pred ceECCCCCCeE
Confidence 56888888744
No 87
>PF01921 tRNA-synt_1f: tRNA synthetases class I (K); InterPro: IPR002904 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Lysyl-tRNA synthetase (6.1.1.6 from EC) is an alpha 2 homodimer that belong to both class I and class II. In eubacteria and eukaryota lysyl-tRNA synthetases belong to class II in the same family as aspartyl tRNA synthetase. The class Ic lysyl-tRNA synthetase family is present in archaea and in a number of bacterial groups that include the alphaproteobacteria and spirochaetes[]. A refined crystal structures shows that the active site of LysU is shaped to position the substrates for the nucleophilic attack of the lysine carboxylate on the ATP alpha-phosphate. No residues are directly involved in catalysis, but a number of highly conserved amino acids and three metal ions coordinate the substrates and stabilise the pentavalent transition state. A loop close to the catalytic pocket, disordered in the lysine-bound structure, becomes ordered upon adenine binding [].; GO: 0000166 nucleotide binding, 0004824 lysine-tRNA ligase activity, 0005524 ATP binding, 0006430 lysyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IRX_A.
Probab=22.92 E-value=23 Score=38.02 Aligned_cols=54 Identities=17% Similarity=0.363 Sum_probs=27.1
Q ss_pred HHHHHHHHh-hcc-C-Ee-ecCCCCCCCCC-Ccc-ccCCCCCChhhhhcCCceEEEeeeCCCCcccccC
Q 011061 51 FLLQLLFWF-KQT-F-RW-VNAPPCDGCSN-ETV-GQGMGTPLPSEIQYGAARVELFRCKVCSKITRFP 113 (494)
Q Consensus 51 ~l~~LL~wF-K~~-F-~w-v~~P~C~~Cg~-~t~-~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~RFP 113 (494)
.|+++|.=+ .+. - +| --.|-|+.||. .|+ .... ..+...|+ |+|..||+....+
T Consensus 153 ~I~~Il~~~~~~~~~~~y~Pf~piC~~cGri~tt~v~~~--------d~~~~~v~-Y~c~~cG~~g~~~ 212 (360)
T PF01921_consen 153 EIREILNEYRGRERPETYSPFLPICEKCGRIDTTEVTEY--------DPEGGTVT-YRCEECGHEGEVD 212 (360)
T ss_dssp HHHHHHHHHHHHT--TT--SEEEEETTTEE--EEEEEEE----------SSSEEE-EE--TTS---EEE
T ss_pred HHHHHHHHhcCcCCCCCeeeeeeeccccCCcccceeeEe--------ecCCCEEE-EEecCCCCEEEEe
Confidence 445555544 333 2 45 34688999998 443 3322 11356676 9999999976654
No 88
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=22.55 E-value=49 Score=29.18 Aligned_cols=28 Identities=25% Similarity=0.650 Sum_probs=18.1
Q ss_pred CCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcccc
Q 011061 70 PCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKITR 111 (494)
Q Consensus 70 ~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~R 111 (494)
.|+.||...+.- ..+=+++|.+|+...-
T Consensus 37 ~Cp~Cgk~~vkR--------------~a~GIW~C~~C~~~~A 64 (90)
T PF01780_consen 37 TCPFCGKTSVKR--------------VATGIWKCKKCGKKFA 64 (90)
T ss_dssp EESSSSSSEEEE--------------EETTEEEETTTTEEEE
T ss_pred cCCCCCCceeEE--------------eeeEEeecCCCCCEEe
Confidence 489999865311 1112699999997543
No 89
>KOG4477 consensus RING1 interactor RYBP and related Zn-finger-containing proteins [Transcription]
Probab=22.43 E-value=33 Score=34.06 Aligned_cols=35 Identities=34% Similarity=0.594 Sum_probs=25.2
Q ss_pred CCCCChhhhhcCCc------eEEEeeeCCCC----cccccCCCCC
Q 011061 83 MGTPLPSEIQYGAA------RVELFRCKVCS----KITRFPRYND 117 (494)
Q Consensus 83 ~~~p~~~E~~~ga~------~VE~Y~C~~C~----~~~RFPRyn~ 117 (494)
.+-|+.||-.+.|+ +.|-|+|..|+ ..+|-||.|+
T Consensus 15 ~akp~~Deg~WdCsvCTFrNsAeAfkC~vCdvRKGTSTRkpr~ns 59 (228)
T KOG4477|consen 15 DAKPNDDEGKWDCSVCTFRNSAEAFKCFVCDVRKGTSTRKPRCNS 59 (228)
T ss_pred cCCCccccCceeeeeeeecchhhhhheeeecccccccccCCcchH
Confidence 34577777777664 57899999997 4567777774
No 90
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=21.82 E-value=53 Score=30.21 Aligned_cols=31 Identities=23% Similarity=0.512 Sum_probs=20.8
Q ss_pred CCCCCCCCCc-cccCCCCCChhhhhcCCceEEEeeeCCCCcc
Q 011061 69 PPCDGCSNET-VGQGMGTPLPSEIQYGAARVELFRCKVCSKI 109 (494)
Q Consensus 69 P~C~~Cg~~t-~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~ 109 (494)
+.|+.|++.. ...|.. -...-.|+|+.|+..
T Consensus 31 ~~cP~C~s~~~~k~g~~----------~~~~qRyrC~~C~~t 62 (129)
T COG3677 31 VNCPRCKSSNVVKIGGI----------RRGHQRYKCKSCGST 62 (129)
T ss_pred CcCCCCCccceeeECCc----------cccccccccCCcCcc
Confidence 7799999876 233321 112667999999974
No 91
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=21.77 E-value=52 Score=28.58 Aligned_cols=39 Identities=13% Similarity=0.259 Sum_probs=20.2
Q ss_pred CCCCCCCccccCCCCCChhhhhcCC--ceEEEeeeCCCCccc
Q 011061 71 CDGCSNETVGQGMGTPLPSEIQYGA--ARVELFRCKVCSKIT 110 (494)
Q Consensus 71 C~~Cg~~t~~~g~~~p~~~E~~~ga--~~VE~Y~C~~C~~~~ 110 (494)
|+.|++.+...+...-+-+ ..+.. -.+..+.|+.||...
T Consensus 1 C~~C~~~~~~~~~~~~~~~-~~G~~~~v~~~~~~C~~CGe~~ 41 (127)
T TIGR03830 1 CPICGSGELVRDVKDEPYT-YKGESITIGVPGWYCPACGEEL 41 (127)
T ss_pred CCCCCCccceeeeecceEE-EcCEEEEEeeeeeECCCCCCEE
Confidence 8899864332222111111 11111 256778999999753
No 92
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=21.28 E-value=54 Score=32.73 Aligned_cols=12 Identities=33% Similarity=0.941 Sum_probs=10.1
Q ss_pred EEeeeCCCCccc
Q 011061 99 ELFRCKVCSKIT 110 (494)
Q Consensus 99 E~Y~C~~C~~~~ 110 (494)
=+++|..||+..
T Consensus 29 ~lvrC~eCG~V~ 40 (201)
T COG1326 29 PLVRCEECGTVH 40 (201)
T ss_pred eEEEccCCCcEe
Confidence 578999999865
No 93
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=21.22 E-value=70 Score=33.71 Aligned_cols=43 Identities=19% Similarity=0.304 Sum_probs=26.8
Q ss_pred CEe-ecCCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcccc
Q 011061 63 FRW-VNAPPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKITR 111 (494)
Q Consensus 63 F~w-v~~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~R 111 (494)
..| +..-.|+.||+. ...++ -+.++ +...+.++.|..|+....
T Consensus 220 teW~~~R~~C~~Cg~~-~~l~y--~~~~~---~~~~~r~e~C~~C~~YlK 263 (309)
T PRK03564 220 SEWHVVRVKCSNCEQS-GKLHY--WSLDS---EQAAVKAESCGDCGTYLK 263 (309)
T ss_pred CcccccCccCCCCCCC-Cceee--eeecC---CCcceEeeecccccccce
Confidence 467 667889999973 22222 11121 113477789999998765
No 94
>PLN02678 seryl-tRNA synthetase
Probab=21.22 E-value=1.7e+02 Score=32.37 Aligned_cols=47 Identities=11% Similarity=0.136 Sum_probs=35.4
Q ss_pred HHHHHHHHHcCCCEEEEE----e--C--CCceEEEEeeCCCCCeEEeccCCCcCC
Q 011061 134 NCFTLYCRAFGYESRLIL----D--F--TDHVWTECFSQSLGRWMHLDPCEGIYD 180 (494)
Q Consensus 134 ~lF~~~~RAlGlpAR~V~----~--~--~dHvW~EVy~~~~~rWV~vDP~e~~iD 180 (494)
..-..++..||+|.|.|. | . .-.+=.|||.|++++|.-|-.|.+.-|
T Consensus 310 ~~~~~i~~~L~lpyrvv~~~sgdlg~~a~~~yDiE~W~P~~~~y~EvsS~Snc~D 364 (448)
T PLN02678 310 KNSEDFYQSLGIPYQVVSIVSGALNDAAAKKYDLEAWFPASKTYRELVSCSNCTD 364 (448)
T ss_pred HHHHHHHHHcCCCeEEEeecccccCCchhhceeeEeeccccCCceEEeeeccccc
Confidence 344556788999999984 2 1 112348999999999999999987666
No 95
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=21.02 E-value=56 Score=21.70 Aligned_cols=7 Identities=43% Similarity=1.255 Sum_probs=5.3
Q ss_pred CCCCCCC
Q 011061 71 CDGCSNE 77 (494)
Q Consensus 71 C~~Cg~~ 77 (494)
|+.||.+
T Consensus 2 Cp~CG~~ 8 (23)
T PF13240_consen 2 CPNCGAE 8 (23)
T ss_pred CcccCCC
Confidence 7888874
No 96
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=20.76 E-value=61 Score=27.27 Aligned_cols=33 Identities=24% Similarity=0.506 Sum_probs=23.1
Q ss_pred CCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcccccCC
Q 011061 69 PPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKITRFPR 114 (494)
Q Consensus 69 P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~~RFPR 114 (494)
-.|+.|++++...+.. +.. -+|..||...--|.
T Consensus 20 VkCpdC~N~q~vFsha----------st~---V~C~~CG~~l~~PT 52 (67)
T COG2051 20 VKCPDCGNEQVVFSHA----------STV---VTCLICGTTLAEPT 52 (67)
T ss_pred EECCCCCCEEEEeccC----------ceE---EEecccccEEEecC
Confidence 4699999988766531 233 36999998776664
No 97
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=20.60 E-value=55 Score=25.57 Aligned_cols=40 Identities=10% Similarity=0.253 Sum_probs=23.9
Q ss_pred HHHHhhcc-CEe-ecCCCCCCCCCCccccCCCCCChhhhhcCCceEEEeeeCCCCcc
Q 011061 55 LLFWFKQT-FRW-VNAPPCDGCSNETVGQGMGTPLPSEIQYGAARVELFRCKVCSKI 109 (494)
Q Consensus 55 LL~wFK~~-F~w-v~~P~C~~Cg~~t~~~g~~~p~~~E~~~ga~~VE~Y~C~~C~~~ 109 (494)
.|.||+=+ .+= .+..-||.||+. ..... -..+.|..||-.
T Consensus 5 ~~~~y~v~~~~v~~~~~fCP~Cg~~-~m~~~--------------~~r~~C~~Cgyt 46 (50)
T PRK00432 5 KREYYEVDGGKVKRKNKFCPRCGSG-FMAEH--------------LDRWHCGKCGYT 46 (50)
T ss_pred eeeeEEECCCEEEEccCcCcCCCcc-hhecc--------------CCcEECCCcCCE
Confidence 45566643 220 245689999986 32211 147889999864
No 98
>PRK03954 ribonuclease P protein component 4; Validated
Probab=20.56 E-value=51 Score=30.35 Aligned_cols=18 Identities=33% Similarity=0.844 Sum_probs=15.3
Q ss_pred eEEEeeeCCCCcccccCCC
Q 011061 97 RVELFRCKVCSKITRFPRY 115 (494)
Q Consensus 97 ~VE~Y~C~~C~~~~RFPRy 115 (494)
.| ++.|..||...|||=-
T Consensus 91 ~v-vitCl~CG~~kR~P~~ 108 (121)
T PRK03954 91 HV-VITCLECGHIMRYPYL 108 (121)
T ss_pred eE-EEECccCCCEEeeccc
Confidence 45 8899999999999843
No 99
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=20.55 E-value=74 Score=23.76 Aligned_cols=14 Identities=21% Similarity=0.543 Sum_probs=10.7
Q ss_pred EEeeeCCCCccccc
Q 011061 99 ELFRCKVCSKITRF 112 (494)
Q Consensus 99 E~Y~C~~C~~~~RF 112 (494)
..|.|+.||...+-
T Consensus 19 ~~~vC~~Cg~~~~~ 32 (52)
T smart00661 19 RRFVCRKCGYEEPI 32 (52)
T ss_pred CEEECCcCCCeEEC
Confidence 37899999976553
Done!