Query 006135
Match_columns 659
No_of_seqs 126 out of 141
Neff 3.4
Searched_HMMs 46136
Date Thu Mar 28 18:52:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006135.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006135hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12014 DUF3506: Domain of un 100.0 3.5E-48 7.6E-53 358.4 13.3 128 494-625 2-134 (134)
2 PF02151 UVR: UvrB/uvrC motif; 97.4 0.0002 4.3E-09 53.6 4.4 35 110-144 1-35 (36)
3 COG3880 Modulator of heat shoc 95.4 0.019 4E-07 56.9 4.3 38 109-146 134-171 (176)
4 PF02151 UVR: UvrB/uvrC motif; 93.3 0.066 1.4E-06 40.2 2.4 26 148-173 4-29 (36)
5 PRK14668 uvrC excinuclease ABC 92.3 0.33 7.2E-06 55.7 7.3 49 96-144 179-232 (577)
6 PRK14671 uvrC excinuclease ABC 92.2 0.31 6.7E-06 56.4 6.9 50 95-144 194-248 (621)
7 TIGR00194 uvrC excinuclease AB 91.3 0.54 1.2E-05 54.0 7.5 49 96-144 174-227 (574)
8 COG0322 UvrC Nuclease subunit 91.1 0.5 1.1E-05 54.4 7.0 47 98-144 181-235 (581)
9 PRK14666 uvrC excinuclease ABC 90.7 0.54 1.2E-05 55.2 7.0 51 94-144 179-234 (694)
10 PRK14670 uvrC excinuclease ABC 90.7 0.6 1.3E-05 53.7 7.2 50 95-144 156-210 (574)
11 PRK07883 hypothetical protein; 90.4 0.35 7.6E-06 55.1 4.9 48 97-144 387-439 (557)
12 TIGR00631 uvrb excinuclease AB 89.8 0.39 8.4E-06 55.8 4.8 36 107-142 619-654 (655)
13 PRK05298 excinuclease ABC subu 89.6 0.47 1E-05 54.8 5.3 37 108-144 610-646 (652)
14 PRK12306 uvrC excinuclease ABC 89.2 0.49 1.1E-05 53.8 4.9 48 97-144 173-225 (519)
15 PRK00558 uvrC excinuclease ABC 88.6 0.56 1.2E-05 54.0 4.9 35 110-144 201-235 (598)
16 PRK14667 uvrC excinuclease ABC 88.2 0.59 1.3E-05 53.6 4.8 49 96-144 179-232 (567)
17 COG0556 UvrB Helicase subunit 87.9 0.71 1.5E-05 53.2 5.1 39 107-145 620-658 (663)
18 PRK14672 uvrC excinuclease ABC 87.1 0.78 1.7E-05 53.9 5.0 50 95-144 184-238 (691)
19 PRK14669 uvrC excinuclease ABC 86.6 0.86 1.9E-05 52.9 4.9 48 97-144 184-236 (624)
20 KOG4825 Component of synaptic 83.1 2.4 5.1E-05 48.2 6.1 62 109-173 169-234 (666)
21 KOG1538 Uncharacterized conser 72.2 2.5 5.4E-05 49.9 2.5 72 97-170 787-859 (1081)
22 PRK14666 uvrC excinuclease ABC 72.0 2.8 6.1E-05 49.5 2.8 50 124-173 179-228 (694)
23 PRK07883 hypothetical protein; 71.1 3 6.5E-05 47.7 2.8 49 123-173 383-433 (557)
24 PRK12306 uvrC excinuclease ABC 70.5 3.2 7E-05 47.4 2.8 49 123-173 169-219 (519)
25 PRK14669 uvrC excinuclease ABC 70.2 3.1 6.8E-05 48.5 2.7 51 123-173 180-230 (624)
26 PRK14667 uvrC excinuclease ABC 69.9 3.3 7.1E-05 47.8 2.8 49 124-174 177-227 (567)
27 PRK14670 uvrC excinuclease ABC 69.7 3.2 6.9E-05 48.0 2.6 50 124-173 155-204 (574)
28 PRK00558 uvrC excinuclease ABC 69.1 3.4 7.4E-05 47.8 2.7 48 124-173 180-229 (598)
29 PRK14671 uvrC excinuclease ABC 68.2 3.9 8.4E-05 47.7 2.9 50 124-173 193-242 (621)
30 TIGR00194 uvrC excinuclease AB 68.0 3.7 7.9E-05 47.5 2.6 48 124-173 172-221 (574)
31 PRK14668 uvrC excinuclease ABC 65.3 4.5 9.8E-05 46.7 2.7 48 124-173 177-226 (577)
32 PRK14672 uvrC excinuclease ABC 65.0 4.5 9.8E-05 47.8 2.6 50 124-173 183-232 (691)
33 KOG1832 HIV-1 Vpr-binding prot 64.9 2.9 6.2E-05 50.8 1.1 13 190-202 1274-1286(1516)
34 COG3880 Modulator of heat shoc 60.7 6.5 0.00014 39.6 2.5 24 150-173 140-163 (176)
35 COG2602 Beta-lactamase class D 58.1 8.2 0.00018 40.9 2.8 50 150-200 174-228 (254)
36 PF04931 DNA_pol_phi: DNA poly 53.0 10 0.00022 45.0 2.8 11 302-312 623-633 (784)
37 COG0322 UvrC Nuclease subunit 52.5 9.2 0.0002 44.5 2.3 50 122-173 178-229 (581)
38 PF09059 TyeA: TyeA; InterPro 52.4 14 0.0003 33.4 3.0 28 101-128 58-85 (87)
39 KOG1832 HIV-1 Vpr-binding prot 45.8 9.9 0.00022 46.5 1.3 22 205-228 1344-1365(1516)
40 PF07743 HSCB_C: HSCB C-termin 43.8 68 0.0015 27.1 5.7 50 116-170 13-62 (78)
41 KOG3483 Uncharacterized conser 39.6 14 0.00029 33.4 0.9 13 2-14 59-71 (94)
42 PRK05298 excinuclease ABC subu 36.4 64 0.0014 37.8 5.9 31 143-173 610-640 (652)
43 cd01766 Ufm1 Urm1-like ubiquit 34.7 17 0.00036 32.6 0.7 13 2-14 48-60 (82)
44 PF14559 TPR_19: Tetratricopep 32.9 1.4E+02 0.0029 23.3 5.5 50 123-173 1-50 (68)
45 COG5406 Nucleosome binding fac 31.7 27 0.00058 41.6 1.8 16 192-207 808-823 (1001)
46 PF07304 SRA1: Steroid recepto 31.3 47 0.001 32.5 3.2 45 118-163 95-139 (157)
47 KOG0316 Conserved WD40 repeat- 31.1 29 0.00063 37.2 1.8 24 512-535 45-68 (307)
48 PF09026 CENP-B_dimeris: Centr 30.7 17 0.00036 33.9 0.0 16 470-485 69-84 (101)
49 KOG2387 CTP synthase (UTP-ammo 30.3 30 0.00065 39.8 1.9 53 511-571 39-93 (585)
50 PF13838 Clathrin_H_link: Clat 26.5 75 0.0016 27.6 3.2 23 114-136 7-29 (66)
51 PF08336 P4Ha_N: Prolyl 4-Hydr 26.2 56 0.0012 30.5 2.7 42 93-135 70-111 (134)
52 PF03863 Phage_mat-A: Phage ma 25.7 1.4E+02 0.003 33.9 5.9 83 106-212 142-242 (400)
53 PF03671 Ufm1: Ubiquitin fold 24.8 33 0.00073 30.5 0.8 12 2-13 48-59 (76)
54 TIGR00631 uvrb excinuclease AB 24.3 40 0.00087 39.7 1.6 28 146-173 623-650 (655)
55 COG0556 UvrB Helicase subunit 23.8 59 0.0013 38.3 2.8 27 147-173 625-651 (663)
56 PF15469 Sec5: Exocyst complex 23.8 2.6E+02 0.0057 27.1 6.8 45 126-170 64-108 (182)
57 KOG0553 TPR repeat-containing 22.8 2.1E+02 0.0045 31.5 6.4 64 108-172 76-139 (304)
58 KOG2376 Signal recognition par 22.2 1.4E+02 0.003 35.7 5.2 62 114-176 13-74 (652)
59 PF09363 XFP_C: XFP C-terminal 21.8 57 0.0012 33.8 1.9 29 297-326 44-72 (203)
60 TIGR01843 type_I_hlyD type I s 21.5 8.2E+02 0.018 26.0 10.5 28 190-229 275-304 (423)
61 PF07064 RIC1: RIC1; InterPro 21.2 2.3E+02 0.005 29.9 6.2 73 93-172 166-244 (258)
62 PRK01773 hscB co-chaperone Hsc 20.9 2.1E+02 0.0046 28.6 5.6 18 57-74 57-75 (173)
63 PF14276 DUF4363: Domain of un 20.9 2.1E+02 0.0045 26.1 5.2 52 117-168 32-97 (121)
No 1
>PF12014 DUF3506: Domain of unknown function (DUF3506); InterPro: IPR021894 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 131 to 148 amino acids in length. This domain has a conserved KLTGD sequence motif.
Probab=100.00 E-value=3.5e-48 Score=358.36 Aligned_cols=128 Identities=44% Similarity=0.769 Sum_probs=112.8
Q ss_pred ccCcceeee-eeeCCCCCCCCCCceEeeccCCCCcEEEEEEEecCCCCCCCC--CCCccccceEEEEEEEcCCCCccCee
Q 006135 494 RLSEYTTFS-RINTSEGDLDPFDGLYVGAFGPYGTEVVQLRRKYGQWSGEGE--KSSDMEFFEYVEAVKLTGDLNVPAGE 570 (659)
Q Consensus 494 ~L~~~tt~~-RIytPts~~dP~~GLwVGdYG~HG~EfL~L~~~~g~~~~~d~--~~sd~~~~~~LEAVKLTGDpNVPRGe 570 (659)
.+++|++++ ++||||+ .|||+|||||+||+||||||+|+|++++|++++. +.++.+|+++||||||||||||||||
T Consensus 2 ~~ttfstl~p~lytpt~-~~P~~GiwVGdyg~hG~Efl~l~q~~~~~~~~~~~~~~~~~~~~~~leAiKLTGDpNVPrGe 80 (134)
T PF12014_consen 2 GVTTFSTLDPELYTPTP-EKPFRGIWVGDYGPHGCEFLLLHQPDGQWDEDDGSKEPSDREFRGRLEAIKLTGDPNVPRGE 80 (134)
T ss_pred CceEEEecChhccCCCC-CCCccceEEcccCCCCeEEEEEEccCCCccccccccccccccccceEEEEEecCCCCCcCcc
Confidence 345555555 6679999 9999999999999999999999999999988776 36788999999999999999999999
Q ss_pred EEEEEE-cCCCcCCCCCCCCCCCCCceeE-EEeeeeecCCCCCCCceeeeEEEEEcC
Q 006135 571 VTFRAK-IGKGSRLPNRGKFPDELGVVAS-YSGQGRIADFGFRNPKWVDGELLQLNG 625 (659)
Q Consensus 571 VTF~A~-lg~~~~lp~~G~~peElg~gAR-vkG~G~VA~~GF~nprwI~gqLIlis~ 625 (659)
|||+|+ ||+.++| +++.++++.|+| |||+||||++||+||+||+|||||||+
T Consensus 81 vtF~A~DiG~~~~i---~~a~~~~f~G~r~vk~~G~vA~~GF~~~~~id~eLilis~ 134 (134)
T PF12014_consen 81 VTFRADDIGPGGRI---RVAHEGPFPGARRVKGQGHVAEPGFRNDKWIDGELILISG 134 (134)
T ss_pred EEEEecccCCCccc---ccccCCCCCceEEEecCCeEcCcCcCCCcceeeEEEEecC
Confidence 999999 9999998 444445555666 999999999999999999999999986
No 2
>PF02151 UVR: UvrB/uvrC motif; InterPro: IPR001943 During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products []. UvrB and UvrC share a common domain of around 35 amino acids, the so called UVR domain. This domain in UvrB can interact with the homologous domain in UvrC throughout a putative coiled coil structure. This interaction is important for the incision of the damaged strand [].; GO: 0003677 DNA binding, 0004518 nuclease activity, 0006289 nucleotide-excision repair; PDB: 3PXG_D 3PXI_C 1E52_B 1QOJ_B 2D7D_B 2NMV_B.
Probab=97.44 E-value=0.0002 Score=53.61 Aligned_cols=35 Identities=37% Similarity=0.548 Sum_probs=30.7
Q ss_pred hhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006135 110 ESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (659)
Q Consensus 110 e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~ 144 (659)
+.++..|+.+|+.||+.+||+.||+||+.|..+..
T Consensus 1 ~~~i~~l~~~m~~a~~~~dfE~Aa~~Rd~i~~l~~ 35 (36)
T PF02151_consen 1 EKLIKELEEKMEEAVENEDFEKAARLRDQIKALKK 35 (36)
T ss_dssp HHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHc
Confidence 35788999999999999999999999999998764
No 3
>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]
Probab=95.36 E-value=0.019 Score=56.91 Aligned_cols=38 Identities=39% Similarity=0.517 Sum_probs=33.5
Q ss_pred HhhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhcCC
Q 006135 109 AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAASKD 146 (659)
Q Consensus 109 ~e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~~D 146 (659)
..+=+.+|+.-|+++|++||||+||-+||.|+++..++
T Consensus 134 ~~~~I~~L~e~Lq~~i~~EefEeAA~iRDqIr~Lk~k~ 171 (176)
T COG3880 134 PKRKIIALKEALQDLIEREEFEEAAVIRDQIRALKAKN 171 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 34557889999999999999999999999999998654
No 4
>PF02151 UVR: UvrB/uvrC motif; InterPro: IPR001943 During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products []. UvrB and UvrC share a common domain of around 35 amino acids, the so called UVR domain. This domain in UvrB can interact with the homologous domain in UvrC throughout a putative coiled coil structure. This interaction is important for the incision of the damaged strand [].; GO: 0003677 DNA binding, 0004518 nuclease activity, 0006289 nucleotide-excision repair; PDB: 3PXG_D 3PXI_C 1E52_B 1QOJ_B 2D7D_B 2NMV_B.
Probab=93.33 E-value=0.066 Score=40.18 Aligned_cols=26 Identities=23% Similarity=0.512 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 148 VAEIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 148 V~~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
+..+...+..|+++++|+.|++|||.
T Consensus 4 i~~l~~~m~~a~~~~dfE~Aa~~Rd~ 29 (36)
T PF02151_consen 4 IKELEEKMEEAVENEDFEKAARLRDQ 29 (36)
T ss_dssp HHHHHHHHHHHHHTT-CHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCHHHHHHHHHH
Confidence 45678899999999999999999996
No 5
>PRK14668 uvrC excinuclease ABC subunit C; Provisional
Probab=92.33 E-value=0.33 Score=55.71 Aligned_cols=49 Identities=22% Similarity=0.382 Sum_probs=39.3
Q ss_pred hhHHHhhhhHHHH-----HhhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006135 96 WNRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (659)
Q Consensus 96 W~rW~rhF~~ve~-----~e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~ 144 (659)
=+.|+....++.. ...++..|+.+|+.|.++.+||+||+||+.|.++..
T Consensus 179 ~e~Y~~~v~~~~~fL~G~~~~~~~~l~~~m~~aa~~l~FE~Aa~~Rd~i~~l~~ 232 (577)
T PRK14668 179 EEAYAEDVESAERFFEGETGVLADPLRREMEAAAQAQEFERAANLRDRLEAVEA 232 (577)
T ss_pred HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence 3456655555554 356889999999999999999999999999988653
No 6
>PRK14671 uvrC excinuclease ABC subunit C; Provisional
Probab=92.18 E-value=0.31 Score=56.38 Aligned_cols=50 Identities=24% Similarity=0.290 Sum_probs=39.7
Q ss_pred ChhHHHhhhhHHH-----HHhhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006135 95 DWNRWTRHFSEIE-----QAESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (659)
Q Consensus 95 dW~rW~rhF~~ve-----~~e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~ 144 (659)
+=+.|+....++. .-..++..|+.+|+.|.++.+||.||++|+.|.++..
T Consensus 194 s~e~Y~~~v~~~~~fL~G~~~~l~~~L~~~M~~as~~l~FE~Aa~~RD~i~~l~~ 248 (621)
T PRK14671 194 SEEDYLEMIEEIVRLLKGKTSALIRSLTEEMQRAAAELKFEEAAELKDQIESLKR 248 (621)
T ss_pred CHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHH
Confidence 3455775555555 2356779999999999999999999999999988753
No 7
>TIGR00194 uvrC excinuclease ABC, C subunit. This family consists of the DNA repair enzyme UvrC, an ABC excinuclease subunit which interacts with the UvrA/UvrB complex to excise UV-damaged nucleotide segments.
Probab=91.25 E-value=0.54 Score=54.02 Aligned_cols=49 Identities=27% Similarity=0.350 Sum_probs=37.8
Q ss_pred hhHHHhhhhHHHHH-----hhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006135 96 WNRWTRHFSEIEQA-----ESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (659)
Q Consensus 96 W~rW~rhF~~ve~~-----e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~ 144 (659)
=+.|+....++-+. ..++..|+.+|+.|.++.+||.||++|+.|.++..
T Consensus 174 ~e~Y~~~v~~~~~fL~g~~~~~~~~L~~~M~~aa~~l~FE~Aa~~Rd~i~~l~~ 227 (574)
T TIGR00194 174 EEEYQQIVEKIELFFNGRPQEVIKELEQKMEKASENLEFEEAARIRDQIAAVRE 227 (574)
T ss_pred HHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence 34555444444432 56778999999999999999999999999988753
No 8
>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]
Probab=91.06 E-value=0.5 Score=54.42 Aligned_cols=47 Identities=26% Similarity=0.281 Sum_probs=37.4
Q ss_pred HHHhhhhHHHHHh--------hHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006135 98 RWTRHFSEIEQAE--------SYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (659)
Q Consensus 98 rW~rhF~~ve~~e--------~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~ 144 (659)
.+..|+..|+++. .++..|+.+|+.|.+..|||.||+||+.|.++..
T Consensus 181 s~e~Y~e~v~~~~~fL~G~~~~v~~~L~~~M~~As~~l~FE~Aa~~RD~i~al~~ 235 (581)
T COG0322 181 SEEEYREIVEEVKGFLKGKDDAVLQELEEKMEEASENLDFERAARLRDQIKALEK 235 (581)
T ss_pred CHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHH
Confidence 3444555555554 4568999999999999999999999999998764
No 9
>PRK14666 uvrC excinuclease ABC subunit C; Provisional
Probab=90.74 E-value=0.54 Score=55.17 Aligned_cols=51 Identities=22% Similarity=0.303 Sum_probs=40.0
Q ss_pred CChhHHHhhhhHHHH-----HhhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006135 94 WDWNRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (659)
Q Consensus 94 ~dW~rW~rhF~~ve~-----~e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~ 144 (659)
.+-+.|+....++.. ...++..|+.+|+.|+++.+||+||++|+.|.++..
T Consensus 179 is~e~Y~~~V~~v~~fL~G~~~~l~~~L~~~M~~AAe~l~FE~AA~lRD~i~aL~~ 234 (694)
T PRK14666 179 VPRETYAALVRKVEMLLSGRSGELVDALRTEMEAASEALEFERAAVLRDQIRAVER 234 (694)
T ss_pred CCHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHH
Confidence 344667755555543 246778999999999999999999999999988754
No 10
>PRK14670 uvrC excinuclease ABC subunit C; Provisional
Probab=90.69 E-value=0.6 Score=53.71 Aligned_cols=50 Identities=22% Similarity=0.381 Sum_probs=39.7
Q ss_pred ChhHHHhhhhHHHH-----HhhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006135 95 DWNRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (659)
Q Consensus 95 dW~rW~rhF~~ve~-----~e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~ 144 (659)
+=+.|+..+..+.. -..++..|+.+|+.|.++.+||.||++|+.|.++..
T Consensus 156 ~~e~Y~~~v~~~~~fL~G~~~~~~~~L~~~M~~aa~~l~FE~Aa~~RD~i~al~~ 210 (574)
T PRK14670 156 LEKEYQKEVDKIKHILNGNISKLLSQIEIKMKEAIQKEDFEAAIKLKETKRSLIE 210 (574)
T ss_pred CHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence 34567755555543 346778999999999999999999999999988764
No 11
>PRK07883 hypothetical protein; Validated
Probab=90.35 E-value=0.35 Score=55.06 Aligned_cols=48 Identities=19% Similarity=0.338 Sum_probs=37.4
Q ss_pred hHHHhhhhHHHH-----HhhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006135 97 NRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (659)
Q Consensus 97 ~rW~rhF~~ve~-----~e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~ 144 (659)
+.++++...+.. ...++..|+.+|+.|+++.+||.||++|+.|.++..
T Consensus 387 ~~Y~~~v~~~~~fL~G~~~~~~~~l~~~M~~aa~~l~FE~Aa~~Rd~i~~l~~ 439 (557)
T PRK07883 387 AEYAEAVARARAALTGDDDAVLAALRARIDRLAAAERFEEAARLRDRLAALLR 439 (557)
T ss_pred HHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence 445554444432 245779999999999999999999999999987753
No 12
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=89.80 E-value=0.39 Score=55.79 Aligned_cols=36 Identities=28% Similarity=0.416 Sum_probs=33.0
Q ss_pred HHHhhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHH
Q 006135 107 EQAESYASLLKFQLEDAIEREDFEEAANLKNAIAEA 142 (659)
Q Consensus 107 e~~e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~ 142 (659)
++.+.++..|+.+|..|+++.+||+||+||+.|.++
T Consensus 619 ~~~~~~i~~l~~~M~~aa~~l~FE~Aa~~RD~i~~L 654 (655)
T TIGR00631 619 KELKKLIKQLEKEMKQAARNLEFEEAARLRDEILEL 654 (655)
T ss_pred HHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence 567789999999999999999999999999999876
No 13
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=89.57 E-value=0.47 Score=54.80 Aligned_cols=37 Identities=32% Similarity=0.443 Sum_probs=33.2
Q ss_pred HHhhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006135 108 QAESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (659)
Q Consensus 108 ~~e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~ 144 (659)
..+.++..|+.+|..|+++.+||+||++|+.|.++..
T Consensus 610 ~~~~~~~~l~~~M~~aa~~l~fE~Aa~~Rd~i~~l~~ 646 (652)
T PRK05298 610 ELEKLIKELEKQMKEAAKNLEFEEAARLRDEIKELKE 646 (652)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 4457889999999999999999999999999999875
No 14
>PRK12306 uvrC excinuclease ABC subunit C; Reviewed
Probab=89.18 E-value=0.49 Score=53.81 Aligned_cols=48 Identities=13% Similarity=0.315 Sum_probs=37.0
Q ss_pred hHHHhhhhHHHH-----HhhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006135 97 NRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (659)
Q Consensus 97 ~rW~rhF~~ve~-----~e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~ 144 (659)
+.++.....+.. ...++..|+.+|+.|.++.+||+||++|+.|.++..
T Consensus 173 e~Y~~~v~~~~~fL~G~~~~~~~~L~~~M~~aa~~l~FE~Aa~~RD~l~~l~~ 225 (519)
T PRK12306 173 DEYLEQVKKAEEVLKGKIDELIEKLEEEMAEKAKNQQFERALVIRDEINAIEN 225 (519)
T ss_pred HHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence 455544444432 245678999999999999999999999999988764
No 15
>PRK00558 uvrC excinuclease ABC subunit C; Validated
Probab=88.56 E-value=0.56 Score=53.98 Aligned_cols=35 Identities=26% Similarity=0.352 Sum_probs=31.2
Q ss_pred hhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006135 110 ESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (659)
Q Consensus 110 e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~ 144 (659)
..++..|+.+|+.|+++.+||+||+||+.|.++..
T Consensus 201 ~~~i~~L~~~M~~aa~~l~FE~Aa~~RD~i~aL~~ 235 (598)
T PRK00558 201 DEVLKELEEKMEEASENLEFERAARYRDQIQALRR 235 (598)
T ss_pred HHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHH
Confidence 34668899999999999999999999999988754
No 16
>PRK14667 uvrC excinuclease ABC subunit C; Provisional
Probab=88.16 E-value=0.59 Score=53.65 Aligned_cols=49 Identities=14% Similarity=0.159 Sum_probs=38.3
Q ss_pred hhHHHhhhhHHHH-----HhhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006135 96 WNRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (659)
Q Consensus 96 W~rW~rhF~~ve~-----~e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~ 144 (659)
=+.|+.....+-. ...++..|+.+|+.|+++.+||+||++|+.|.+++.
T Consensus 179 ~e~Y~~~v~~~~~fL~G~~~~l~~~L~~~M~~aa~~l~FE~Aa~~RD~i~~l~~ 232 (567)
T PRK14667 179 KEDYELSVKSAKAFLSGNVKEVLPELYDKIEEYSQKLMFEKAAVIRDQILALEN 232 (567)
T ss_pred HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence 3456655544432 346779999999999999999999999999988754
No 17
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=87.90 E-value=0.71 Score=53.18 Aligned_cols=39 Identities=28% Similarity=0.438 Sum_probs=35.2
Q ss_pred HHHhhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhcC
Q 006135 107 EQAESYASLLKFQLEDAIEREDFEEAANLKNAIAEAASK 145 (659)
Q Consensus 107 e~~e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~~ 145 (659)
.+.+.++..|+.||.+|++.-+||.||+||+.|.+++..
T Consensus 620 ~e~~~~I~~Le~~M~~aA~~l~FE~Aa~lRD~i~~L~~~ 658 (663)
T COG0556 620 KELEKLIKKLEKEMKEAAKNLEFEEAARLRDEIKELKEE 658 (663)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHH
Confidence 566778899999999999999999999999999988753
No 18
>PRK14672 uvrC excinuclease ABC subunit C; Provisional
Probab=87.14 E-value=0.78 Score=53.90 Aligned_cols=50 Identities=20% Similarity=0.355 Sum_probs=39.0
Q ss_pred ChhHHHhhhhHHHH-----HhhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006135 95 DWNRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (659)
Q Consensus 95 dW~rW~rhF~~ve~-----~e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~ 144 (659)
+=+.|+....++.. ...++..|+.+|+.|+++.|||.||++|+.|.+++.
T Consensus 184 s~e~Y~~~V~~v~~fL~G~~~~ll~~L~~~M~~AA~~l~FE~AA~lRD~i~aL~~ 238 (691)
T PRK14672 184 SPRTYQKDIHEITLLLEGNIDATVARLEKRMKRAVRQEAFEAAARIRDDIQAIRC 238 (691)
T ss_pred CHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence 34566755555543 245778999999999999999999999999988753
No 19
>PRK14669 uvrC excinuclease ABC subunit C; Provisional
Probab=86.61 E-value=0.86 Score=52.94 Aligned_cols=48 Identities=19% Similarity=0.287 Sum_probs=38.1
Q ss_pred hHHHhhhhHHHH-----HhhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006135 97 NRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (659)
Q Consensus 97 ~rW~rhF~~ve~-----~e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~ 144 (659)
+.++.....+.. ...++..|+.+|+.|+++.+||+||++|+.|.+++.
T Consensus 184 e~Y~~~v~~v~~fL~G~~~~l~~~L~~~M~~aa~~l~FE~Aa~~RD~i~~l~~ 236 (624)
T PRK14669 184 EAYAEAVRDVRLFLEGRHSDLARSLRARMEAAALEMQFELAAKYRDLITTVEE 236 (624)
T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence 456655555443 356778999999999999999999999999988653
No 20
>KOG4825 consensus Component of synaptic membrane glycine-, glutamate- and thienylcyclohexylpiperidine-binding glycoprotein (43kDa) [Signal transduction mechanisms]
Probab=83.07 E-value=2.4 Score=48.18 Aligned_cols=62 Identities=24% Similarity=0.303 Sum_probs=50.7
Q ss_pred HhhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHH----Hhhhhhhhhhhhhhcc
Q 006135 109 AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAASKDTVAEIMAQLKN----AIDEERYHDASRLCRY 173 (659)
Q Consensus 109 ~e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~~D~V~~~~~~Lk~----AI~EERY~DAA~lRD~ 173 (659)
...+.-.|...-++||.+|||.-|-++|.||+.+.. +++-|..|++ ||+.|.|+-|-.+.|+
T Consensus 169 laaiIgaidenKqeAVakEdfdlAKkaklAiaDLkK---sgeeleelEndKgcAVadEDfdlAkdkkde 234 (666)
T KOG4825|consen 169 LAAIIGAIDENKQEAVAKEDFDLAKKAKLAIADLKK---SGEELEELENDKGCAVADEDFDLAKDKKDE 234 (666)
T ss_pred HHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHH---HHHHHHHHhhcccccccchhhhHHHHHHHH
Confidence 344555667777899999999999999999999986 6666777765 9999999998877765
No 21
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=72.25 E-value=2.5 Score=49.89 Aligned_cols=72 Identities=22% Similarity=0.387 Sum_probs=50.3
Q ss_pred hHHHhhhhHHHHHhhHHHHHHHHHHH-HHhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhh
Q 006135 97 NRWTRHFSEIEQAESYASLLKFQLED-AIEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRL 170 (659)
Q Consensus 97 ~rW~rhF~~ve~~e~~~~~Lk~QLe~-Av~~EDy~eAArLK~ai~~~~~~D~V~~~~~~Lk~AI~EERY~DAA~l 170 (659)
-+|..-|+-.|.--.++.....|-.. -+++..|+||.+ .-+++=+..+.+..+..+-++||.|+||.||+++
T Consensus 787 ~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqk--AfhkAGr~~EA~~vLeQLtnnav~E~Rf~DA~y~ 859 (1081)
T KOG1538|consen 787 QRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQK--AFHKAGRQREAVQVLEQLTNNAVAESRFNDAAYY 859 (1081)
T ss_pred ccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHH--HHHHhcchHHHHHHHHHhhhhhhhhhhhccchhH
Confidence 46888898888777777665554432 357778999975 3445555555555555555679999999999974
No 22
>PRK14666 uvrC excinuclease ABC subunit C; Provisional
Probab=71.96 E-value=2.8 Score=49.50 Aligned_cols=50 Identities=14% Similarity=0.225 Sum_probs=40.0
Q ss_pred HhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 124 IEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 124 v~~EDy~eAArLK~ai~~~~~~D~V~~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
+..|+|.+..+--.++-+-..++.+..+...|++|.++.+|+.||+|||.
T Consensus 179 is~e~Y~~~V~~v~~fL~G~~~~l~~~L~~~M~~AAe~l~FE~AA~lRD~ 228 (694)
T PRK14666 179 VPRETYAALVRKVEMLLSGRSGELVDALRTEMEAASEALEFERAAVLRDQ 228 (694)
T ss_pred CCHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence 56688877655544444445567889999999999999999999999995
No 23
>PRK07883 hypothetical protein; Validated
Probab=71.13 E-value=3 Score=47.70 Aligned_cols=49 Identities=18% Similarity=0.293 Sum_probs=38.9
Q ss_pred HHhhhcHHHHHHHHHHHHHHhc--CChHHHHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 123 AIEREDFEEAANLKNAIAEAAS--KDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 123 Av~~EDy~eAArLK~ai~~~~~--~D~V~~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
.+..|+|. ..++.++.-+++ ++.+..+..+|++|-++.+|+.||+|||.
T Consensus 383 ~~~~~~Y~--~~v~~~~~fL~G~~~~~~~~l~~~M~~aa~~l~FE~Aa~~Rd~ 433 (557)
T PRK07883 383 RESAAEYA--EAVARARAALTGDDDAVLAALRARIDRLAAAERFEEAARLRDR 433 (557)
T ss_pred CCCHHHHH--HHHHHHHHHHCCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 45677885 455666666654 45688899999999999999999999996
No 24
>PRK12306 uvrC excinuclease ABC subunit C; Reviewed
Probab=70.48 E-value=3.2 Score=47.40 Aligned_cols=49 Identities=8% Similarity=0.213 Sum_probs=39.0
Q ss_pred HHhhhcHHHHHHHHHHHHHHhc--CChHHHHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 123 AIEREDFEEAANLKNAIAEAAS--KDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 123 Av~~EDy~eAArLK~ai~~~~~--~D~V~~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
.+..|+|. ++++.++.-+++ ++.+..+...|++|-++.+|+.||+|||.
T Consensus 169 ~~s~e~Y~--~~v~~~~~fL~G~~~~~~~~L~~~M~~aa~~l~FE~Aa~~RD~ 219 (519)
T PRK12306 169 NISSDEYL--EQVKKAEEVLKGKIDELIEKLEEEMAEKAKNQQFERALVIRDE 219 (519)
T ss_pred CCCHHHHH--HHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 34568886 455566666655 57888899999999999999999999996
No 25
>PRK14669 uvrC excinuclease ABC subunit C; Provisional
Probab=70.19 E-value=3.1 Score=48.50 Aligned_cols=51 Identities=18% Similarity=0.178 Sum_probs=39.9
Q ss_pred HHhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 123 AIEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 123 Av~~EDy~eAArLK~ai~~~~~~D~V~~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
.+..|+|.+..+--..+-.-..++.+..+...|++|-++.+|+.||+|||.
T Consensus 180 ~i~~e~Y~~~v~~v~~fL~G~~~~l~~~L~~~M~~aa~~l~FE~Aa~~RD~ 230 (624)
T PRK14669 180 LTTDEAYAEAVRDVRLFLEGRHSDLARSLRARMEAAALEMQFELAAKYRDL 230 (624)
T ss_pred CCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 355688877655444444445567888999999999999999999999996
No 26
>PRK14667 uvrC excinuclease ABC subunit C; Provisional
Probab=69.92 E-value=3.3 Score=47.80 Aligned_cols=49 Identities=20% Similarity=0.317 Sum_probs=38.6
Q ss_pred HhhhcHHHHHHHHHHHHHHhc--CChHHHHHHHHHHHhhhhhhhhhhhhhccc
Q 006135 124 IEREDFEEAANLKNAIAEAAS--KDTVAEIMAQLKNAIDEERYHDASRLCRYT 174 (659)
Q Consensus 124 v~~EDy~eAArLK~ai~~~~~--~D~V~~~~~~Lk~AI~EERY~DAA~lRD~a 174 (659)
+..|+|.+ +++.+++-+++ ++.+..+...|++|-++.+|+.||+|||.-
T Consensus 177 ~s~e~Y~~--~v~~~~~fL~G~~~~l~~~L~~~M~~aa~~l~FE~Aa~~RD~i 227 (567)
T PRK14667 177 ISKEDYEL--SVKSAKAFLSGNVKEVLPELYDKIEEYSQKLMFEKAAVIRDQI 227 (567)
T ss_pred CCHHHHHH--HHHHHHHHHcCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence 45678854 45555555654 567888999999999999999999999973
No 27
>PRK14670 uvrC excinuclease ABC subunit C; Provisional
Probab=69.70 E-value=3.2 Score=48.00 Aligned_cols=50 Identities=16% Similarity=0.264 Sum_probs=38.6
Q ss_pred HhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 124 IEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 124 v~~EDy~eAArLK~ai~~~~~~D~V~~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
+..|+|.+..+--..+-.-...+.+..+...|++|-++.+|+.||+|||.
T Consensus 155 ~~~e~Y~~~v~~~~~fL~G~~~~~~~~L~~~M~~aa~~l~FE~Aa~~RD~ 204 (574)
T PRK14670 155 DLEKEYQKEVDKIKHILNGNISKLLSQIEIKMKEAIQKEDFEAAIKLKET 204 (574)
T ss_pred CCHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 45688876554433333334567899999999999999999999999995
No 28
>PRK00558 uvrC excinuclease ABC subunit C; Validated
Probab=69.10 E-value=3.4 Score=47.81 Aligned_cols=48 Identities=17% Similarity=0.307 Sum_probs=38.0
Q ss_pred HhhhcHHHHHHHHHHHHHHhc--CChHHHHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 124 IEREDFEEAANLKNAIAEAAS--KDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 124 v~~EDy~eAArLK~ai~~~~~--~D~V~~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
+..|+|.+ +++.+++-+.+ .+.+..+...|+.|.++.+|+.||+|||.
T Consensus 180 ~~~e~Y~~--~v~~~~~fL~G~~~~~i~~L~~~M~~aa~~l~FE~Aa~~RD~ 229 (598)
T PRK00558 180 ISKEEYAE--LVDEAKLFLSGKTDEVLKELEEKMEEASENLEFERAARYRDQ 229 (598)
T ss_pred CCHHHHHH--HHHHHHHHhcCChHHHHHHHHHHHHHHHHhhCHHHHHHHHHH
Confidence 45677754 55566666655 46788899999999999999999999996
No 29
>PRK14671 uvrC excinuclease ABC subunit C; Provisional
Probab=68.19 E-value=3.9 Score=47.67 Aligned_cols=50 Identities=14% Similarity=0.234 Sum_probs=38.7
Q ss_pred HhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 124 IEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 124 v~~EDy~eAArLK~ai~~~~~~D~V~~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
+..|+|.+..+--..+-+-..++.+..+..+|++|-++.+|+.||+|||.
T Consensus 193 ~s~e~Y~~~v~~~~~fL~G~~~~l~~~L~~~M~~as~~l~FE~Aa~~RD~ 242 (621)
T PRK14671 193 QSEEDYLEMIEEIVRLLKGKTSALIRSLTEEMQRAAAELKFEEAAELKDQ 242 (621)
T ss_pred CCHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence 45688866554433343444567889999999999999999999999996
No 30
>TIGR00194 uvrC excinuclease ABC, C subunit. This family consists of the DNA repair enzyme UvrC, an ABC excinuclease subunit which interacts with the UvrA/UvrB complex to excise UV-damaged nucleotide segments.
Probab=68.01 E-value=3.7 Score=47.46 Aligned_cols=48 Identities=13% Similarity=0.304 Sum_probs=38.1
Q ss_pred HhhhcHHHHHHHHHHHHHHhc--CChHHHHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 124 IEREDFEEAANLKNAIAEAAS--KDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 124 v~~EDy~eAArLK~ai~~~~~--~D~V~~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
+..|+|.+ +++.++.-+++ ++.+.++...|++|-++.+|+.||+|||.
T Consensus 172 ~s~e~Y~~--~v~~~~~fL~g~~~~~~~~L~~~M~~aa~~l~FE~Aa~~Rd~ 221 (574)
T TIGR00194 172 ITEEEYQQ--IVEKIELFFNGRPQEVIKELEQKMEKASENLEFEEAARIRDQ 221 (574)
T ss_pred CCHHHHHH--HHHHHHHHHCCCcHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 45678854 45555555554 56788899999999999999999999996
No 31
>PRK14668 uvrC excinuclease ABC subunit C; Provisional
Probab=65.35 E-value=4.5 Score=46.75 Aligned_cols=48 Identities=15% Similarity=0.193 Sum_probs=36.8
Q ss_pred HhhhcHHHHHHHHHHHHHHhc--CChHHHHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 124 IEREDFEEAANLKNAIAEAAS--KDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 124 v~~EDy~eAArLK~ai~~~~~--~D~V~~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
+..|+|.+.. +.++.-+++ .+.+..+...+++|-++.+|+.||+|||.
T Consensus 177 ~s~e~Y~~~v--~~~~~fL~G~~~~~~~~l~~~m~~aa~~l~FE~Aa~~Rd~ 226 (577)
T PRK14668 177 IDEEAYAEDV--ESAERFFEGETGVLADPLRREMEAAAQAQEFERAANLRDR 226 (577)
T ss_pred CCHHHHHHHH--HHHHHHHcCCcHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 4567776544 444444555 45677899999999999999999999996
No 32
>PRK14672 uvrC excinuclease ABC subunit C; Provisional
Probab=64.99 E-value=4.5 Score=47.81 Aligned_cols=50 Identities=18% Similarity=0.314 Sum_probs=38.1
Q ss_pred HhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 124 IEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 124 v~~EDy~eAArLK~ai~~~~~~D~V~~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
+..|+|.+..+--..+-+-..++.+..+...|++|-++.+|+.||+|||.
T Consensus 183 is~e~Y~~~V~~v~~fL~G~~~~ll~~L~~~M~~AA~~l~FE~AA~lRD~ 232 (691)
T PRK14672 183 VSPRTYQKDIHEITLLLEGNIDATVARLEKRMKRAVRQEAFEAAARIRDD 232 (691)
T ss_pred CCHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 45677776554333444444567788999999999999999999999996
No 33
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=64.93 E-value=2.9 Score=50.79 Aligned_cols=13 Identities=23% Similarity=0.268 Sum_probs=6.2
Q ss_pred CCCcceEEEeecC
Q 006135 190 DDPFGRLIQIKPG 202 (659)
Q Consensus 190 ~DP~G~IirIsp~ 202 (659)
=+|.|.=|-|-.|
T Consensus 1274 FHP~g~eVIINSE 1286 (1516)
T KOG1832|consen 1274 FHPSGNEVIINSE 1286 (1516)
T ss_pred ccCCCceEEeech
Confidence 3555554444433
No 34
>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]
Probab=60.66 E-value=6.5 Score=39.58 Aligned_cols=24 Identities=17% Similarity=0.378 Sum_probs=21.5
Q ss_pred HHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 150 EIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 150 ~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
++...|+.+|+.|.|+.||-+||.
T Consensus 140 ~L~e~Lq~~i~~EefEeAA~iRDq 163 (176)
T COG3880 140 ALKEALQDLIEREEFEEAAVIRDQ 163 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456789999999999999999996
No 35
>COG2602 Beta-lactamase class D [Defense mechanisms]
Probab=58.10 E-value=8.2 Score=40.85 Aligned_cols=50 Identities=24% Similarity=0.451 Sum_probs=38.1
Q ss_pred HHHHHHHHHhhhhhhhhhhhhhcccCCcce-----eeeeeccCCCCCCcceEEEee
Q 006135 150 EIMAQLKNAIDEERYHDASRLCRYTGSGLV-----GWWVGYSKDSDDPFGRLIQIK 200 (659)
Q Consensus 150 ~~~~~Lk~AI~EERY~DAA~lRD~aGaGLv-----GWW~G~s~d~~DP~G~IirIs 200 (659)
++|...++-+-=||=+- =.|+-.||+|.+ |||||+-+..+++|.--.+|.
T Consensus 174 ~a~~~v~~~m~~~~~~~-~~l~GKTG~~~~~~~~~GWfVG~v~~~~~~y~FA~nld 228 (254)
T COG2602 174 KAQDLVKAIMILERGPN-WELHGKTGTGIVNTKNLGWFVGWVETNENKYVFATNLD 228 (254)
T ss_pred HHHHHHHHHHhhhcCCC-eEEEecccccccCCCCceeEEEEEEeCCcEEEEEEeec
Confidence 56677777777777666 778899999985 899999998888876554444
No 36
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=52.96 E-value=10 Score=44.99 Aligned_cols=11 Identities=18% Similarity=0.619 Sum_probs=5.6
Q ss_pred hhhHHHHHhhh
Q 006135 302 EGIKSVINFLK 312 (659)
Q Consensus 302 EGi~~~~nflk 312 (659)
+|+..+++.|.
T Consensus 623 ~~l~~ll~vl~ 633 (784)
T PF04931_consen 623 SGLQLLLDVLD 633 (784)
T ss_pred HHHHHHHHHhc
Confidence 45555555544
No 37
>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]
Probab=52.52 E-value=9.2 Score=44.50 Aligned_cols=50 Identities=18% Similarity=0.288 Sum_probs=38.0
Q ss_pred HHHhhhcHHHHHHHHHHHHHHhcC--ChHHHHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 122 DAIEREDFEEAANLKNAIAEAASK--DTVAEIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 122 ~Av~~EDy~eAArLK~ai~~~~~~--D~V~~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
..|..|+|+++.. .+..-+.++ ..+..+...++.|-++.+|+.||+|||.
T Consensus 178 ~~is~e~Y~e~v~--~~~~fL~G~~~~v~~~L~~~M~~As~~l~FE~Aa~~RD~ 229 (581)
T COG0322 178 GLISEEEYREIVE--EVKGFLKGKDDAVLQELEEKMEEASENLDFERAARLRDQ 229 (581)
T ss_pred ccCCHHHHHHHHH--HHHHHHcCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHH
Confidence 3577888888754 333444454 4667788899999999999999999994
No 38
>PF09059 TyeA: TyeA; InterPro: IPR015144 This domain is composed of two pairs of parallel alpha-helices, and interacts with the bacterial protein YopN via hydrophobic residues located on the helices. Association of TyeA with the C terminus of YopN is accompanied by conformational changes in both polypeptides that create order out of disorder: the resulting structure then serves as an impediment to type III secretion of YopN []. ; PDB: 1XL3_D.
Probab=52.36 E-value=14 Score=33.39 Aligned_cols=28 Identities=32% Similarity=0.462 Sum_probs=25.3
Q ss_pred hhhhHHHHHhhHHHHHHHHHHHHHhhhc
Q 006135 101 RHFSEIEQAESYASLLKFQLEDAIERED 128 (659)
Q Consensus 101 rhF~~ve~~e~~~~~Lk~QLe~Av~~ED 128 (659)
..|++.|+.++++...+.-|..||++||
T Consensus 58 ~vF~D~EqR~~vL~a~Q~alD~aI~~E~ 85 (87)
T PF09059_consen 58 DVFNDEEQRQNVLDAVQEALDQAIEREE 85 (87)
T ss_dssp GGSS-HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhcCCHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3689999999999999999999999997
No 39
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=45.76 E-value=9.9 Score=46.53 Aligned_cols=22 Identities=27% Similarity=0.409 Sum_probs=12.9
Q ss_pred eeeeecCChhhhcccCCCCceEEE
Q 006135 205 RFVARNYSPRQLVTASPGTPLFEI 228 (659)
Q Consensus 205 RyVaksYspRQLata~~G~PlFEI 228 (659)
-|=|+-||| |+|-..--|||-.
T Consensus 1344 Tf~a~dYs~--iaTi~v~R~~~Dl 1365 (1516)
T KOG1832|consen 1344 TFDAIDYSD--IATIPVDRCLLDL 1365 (1516)
T ss_pred ccccccccc--ceeeecccchhhh
Confidence 455666664 5665555666553
No 40
>PF07743 HSCB_C: HSCB C-terminal oligomerisation domain; InterPro: IPR009073 This entry represents the C-terminal oligomerisation domain found in HscB (heat shock cognate protein B), which is also known as HSC20 (20K heat shock cognate protein). HscB acts as a co-chaperone to regulate the ATPase activity and peptide-binding specificity of the molecular chaperone HscA, also known as HSC66 (HSP70 class). HscB proteins contain two domains, an N-terminal J-domain, which is involved in interactions with HscA, connected by a short loop to the C-terminal oligomerisation domain; the two domains make contact through a hydrophobic interface. The core of the oligomerisation domain is thought to bind and target proteins to HscA and consists of an open, three-helical bundle []. HscB, along with HscA, has been shown to play a role in the biogenesis of iron-sulphur proteins.; GO: 0006457 protein folding; PDB: 1FPO_C 3BVO_B 3HHO_A 3UO2_B 3UO3_B.
Probab=43.76 E-value=68 Score=27.11 Aligned_cols=50 Identities=30% Similarity=0.466 Sum_probs=31.8
Q ss_pred HHHHHHHHHhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhh
Q 006135 116 LKFQLEDAIEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRL 170 (659)
Q Consensus 116 Lk~QLe~Av~~EDy~eAArLK~ai~~~~~~D~V~~~~~~Lk~AI~EERY~DAA~l 170 (659)
++.+|++|...++..+...|+..+..... .+...|..+++...|..|+.+
T Consensus 13 ~rE~le~~~~~~~~~~L~~l~~~~~~~~~-----~~~~~l~~~f~~~d~~~A~~~ 62 (78)
T PF07743_consen 13 LREELEEAQNSDDEAELEELKKEIEERIK-----ELIKELAEAFDAKDWEEAKEA 62 (78)
T ss_dssp HHHHHHHHCCCTSHHHHHHHHHHHHHHHH-----HHHHHHHHHHHTT-HHHHHHH
T ss_pred HHHHHHHhhcCCCHHHHHHHHHHHHHHHH-----HHHHHHHHHHccCcHHHHHHH
Confidence 34455555554555666666666655544 777888888888888888764
No 41
>KOG3483 consensus Uncharacterized conserved protein [Function unknown]
Probab=39.63 E-value=14 Score=33.37 Aligned_cols=13 Identities=69% Similarity=1.086 Sum_probs=11.9
Q ss_pred eeecCCccccccc
Q 006135 2 IITNNGWGITPAT 14 (659)
Q Consensus 2 ~~~~~~~~~~~~~ 14 (659)
||||.|.||.|+.
T Consensus 59 iitndgiginpaq 71 (94)
T KOG3483|consen 59 IITNDGIGINPAQ 71 (94)
T ss_pred EEecCccccCccc
Confidence 8999999999974
No 42
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=36.39 E-value=64 Score=37.82 Aligned_cols=31 Identities=23% Similarity=0.328 Sum_probs=26.7
Q ss_pred hcCChHHHHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 143 ASKDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 143 ~~~D~V~~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
..++.+..+..+|+.|.++.+|+.||+|||.
T Consensus 610 ~~~~~~~~l~~~M~~aa~~l~fE~Aa~~Rd~ 640 (652)
T PRK05298 610 ELEKLIKELEKQMKEAAKNLEFEEAARLRDE 640 (652)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 3445677888999999999999999999996
No 43
>cd01766 Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-fold modifier 1) is a post-translational UBL (ubiquitin-like) modifier with a tertiary structure similar to that of ubiquitin. Ufm1 is initially expressed as a precursor which undergoes C-terminal cleavage to expose a conserved glycine residue that is required for the conjugation reactions involving Ufm1.
Probab=34.68 E-value=17 Score=32.56 Aligned_cols=13 Identities=69% Similarity=1.086 Sum_probs=11.8
Q ss_pred eeecCCccccccc
Q 006135 2 IITNNGWGITPAT 14 (659)
Q Consensus 2 ~~~~~~~~~~~~~ 14 (659)
||||.|.||.|+.
T Consensus 48 iiTndGvGINP~q 60 (82)
T cd01766 48 IITNDGIGINPAQ 60 (82)
T ss_pred EEecCccccChhh
Confidence 8999999999973
No 44
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=32.91 E-value=1.4e+02 Score=23.33 Aligned_cols=50 Identities=16% Similarity=0.298 Sum_probs=35.2
Q ss_pred HHhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 123 AIEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 123 Av~~EDy~eAArLK~ai~~~~~~D~V~~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
+++.++|++|.++=..+-....+++-..+ ..-+-.+...+|.+|..+-..
T Consensus 1 ll~~~~~~~A~~~~~~~l~~~p~~~~~~~-~la~~~~~~g~~~~A~~~l~~ 50 (68)
T PF14559_consen 1 LLKQGDYDEAIELLEKALQRNPDNPEARL-LLAQCYLKQGQYDEAEELLER 50 (68)
T ss_dssp HHHTTHHHHHHHHHHHHHHHTTTSHHHHH-HHHHHHHHTT-HHHHHHHHHC
T ss_pred ChhccCHHHHHHHHHHHHHHCCCCHHHHH-HHHHHHHHcCCHHHHHHHHHH
Confidence 46788999999887777777666665544 444557888888888876553
No 45
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=31.65 E-value=27 Score=41.61 Aligned_cols=16 Identities=38% Similarity=0.634 Sum_probs=7.7
Q ss_pred CcceEEEeecCCceee
Q 006135 192 PFGRLIQIKPGVGRFV 207 (659)
Q Consensus 192 P~G~IirIsp~~GRyV 207 (659)
||--=|-|-|-|--+|
T Consensus 808 PfRs~V~~~pTtdCLV 823 (1001)
T COG5406 808 PFRSSVMIKPTTDCLV 823 (1001)
T ss_pred ccccceeeecchhhee
Confidence 4444444555555444
No 46
>PF07304 SRA1: Steroid receptor RNA activator (SRA1); InterPro: IPR009917 This entry consists of several hypothetical mammalian steroid receptor RNA activator proteins. The SRA-RNAs encode stable proteins that are widely expressed and upregulated in breast cancer cell lines. SRA-RNA is a steroid receptor co-activator which acts as a functional RNA. This domain is also found at the C terminus of Sec31, a component of the coat protein complex II (COPII, which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). COPII has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. ; PDB: 2YRU_A.
Probab=31.29 E-value=47 Score=32.45 Aligned_cols=45 Identities=22% Similarity=0.361 Sum_probs=32.2
Q ss_pred HHHHHHHhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhh
Q 006135 118 FQLEDAIEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEER 163 (659)
Q Consensus 118 ~QLe~Av~~EDy~eAArLK~ai~~~~~~D~V~~~~~~Lk~AI~EER 163 (659)
.+|-.|++..||++|..|-..|.. ..-|-++.-|..+|+-|.+=|
T Consensus 95 ~~L~~aL~~~d~~~A~~Ih~~L~t-~h~~E~~~WmvGVKRLI~~~r 139 (157)
T PF07304_consen 95 HQLAQALQARDYDAADEIHVDLMT-DHVDECGNWMVGVKRLIAMAR 139 (157)
T ss_dssp HHHHHHHHHT-HHHHHHHHHHHHH-SSHHHHTTTHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHh-ccHHHhhhHHHHHHHHHHHHH
Confidence 456678888888888888888874 455666666888888777654
No 47
>KOG0316 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=31.14 E-value=29 Score=37.23 Aligned_cols=24 Identities=21% Similarity=0.463 Sum_probs=20.7
Q ss_pred CCCCceEeeccCCCCcEEEEEEEe
Q 006135 512 DPFDGLYVGAFGPYGTEVVQLRRK 535 (659)
Q Consensus 512 dP~~GLwVGdYG~HG~EfL~L~~~ 535 (659)
+|++|.-+-+|++||-|+|-+.-.
T Consensus 45 Np~rg~liktYsghG~EVlD~~~s 68 (307)
T KOG0316|consen 45 NPLRGALIKTYSGHGHEVLDAALS 68 (307)
T ss_pred cccccceeeeecCCCceeeecccc
Confidence 689999999999999999975433
No 48
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=30.66 E-value=17 Score=33.90 Aligned_cols=16 Identities=6% Similarity=0.183 Sum_probs=8.3
Q ss_pred cchhhhHHHHHHHHHH
Q 006135 470 ASSKVSRDVREVLKLA 485 (659)
Q Consensus 470 ~~~~v~~~~~eli~l~ 485 (659)
+.+.++.-.+.|+...
T Consensus 69 v~shi~h~e~~~vhv~ 84 (101)
T PF09026_consen 69 VQSHILHLEHDLVHVT 84 (101)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred hhhhhhccccceEEee
Confidence 4445555555666443
No 49
>KOG2387 consensus CTP synthase (UTP-ammonia lyase) [Nucleotide transport and metabolism]
Probab=30.28 E-value=30 Score=39.77 Aligned_cols=53 Identities=30% Similarity=0.538 Sum_probs=38.7
Q ss_pred CCCCCceEeeccCC--CCcEEEEEEEecCCCCCCCCCCCccccceEEEEEEEcCCCCccCeeE
Q 006135 511 LDPFDGLYVGAFGP--YGTEVVQLRRKYGQWSGEGEKSSDMEFFEYVEAVKLTGDLNVPAGEV 571 (659)
Q Consensus 511 ~dP~~GLwVGdYG~--HG~EfL~L~~~~g~~~~~d~~~sd~~~~~~LEAVKLTGDpNVPRGeV 571 (659)
-|||=-+=-|+++| ||=-|++ ++| .+-+-|+--++|.-.|+||+|.||+-|.+
T Consensus 39 IDPYlN~DAGTmSPyEHGEVfVL---DDG-----gEvDLDLGNYERfldi~Lt~dNNITtGKi 93 (585)
T KOG2387|consen 39 IDPYLNIDAGTMSPYEHGEVFVL---DDG-----GEVDLDLGNYERFLDITLTRDNNITTGKI 93 (585)
T ss_pred eccceeccCcccCccccceEEEe---cCC-----ceecccccchhhhccceeeccCCcccchH
Confidence 37888888899998 8866654 112 11123455577888999999999999986
No 50
>PF13838 Clathrin_H_link: Clathrin-H-link; PDB: 2XZG_A 3GD1_I 1BPO_C 1C9I_B 1C9L_A.
Probab=26.45 E-value=75 Score=27.57 Aligned_cols=23 Identities=26% Similarity=0.427 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHH
Q 006135 114 SLLKFQLEDAIEREDFEEAANLK 136 (659)
Q Consensus 114 ~~Lk~QLe~Av~~EDy~eAArLK 136 (659)
++...|.+.-+...||++||++-
T Consensus 7 ~l~~~~F~~l~~~g~y~eAA~~A 29 (66)
T PF13838_consen 7 DLYVQQFNELFSQGQYEEAAKVA 29 (66)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHH
Confidence 45678889999999999999874
No 51
>PF08336 P4Ha_N: Prolyl 4-Hydroxylase alpha-subunit, N-terminal region; InterPro: IPR013547 The members found in this entry are eukaryotic proteins, and include all three isoforms of the prolyl 4-hydroxylase alpha subunit. This enzyme (1.14.11.2 from EC) is important in the post-translational modification of collagen, as it catalyses the formation of 4-hydroxyproline. In vertebrates, the complete enzyme is an alpha2-beta2 tetramer; the beta-subunit is identical to protein disulphide isomerase [, , , ]. The function of the N-terminal region featured in this family does not seem to be known. ; GO: 0004656 procollagen-proline 4-dioxygenase activity, 0016702 oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen, 0055114 oxidation-reduction process, 0005783 endoplasmic reticulum
Probab=26.25 E-value=56 Score=30.49 Aligned_cols=42 Identities=24% Similarity=0.306 Sum_probs=29.2
Q ss_pred CCChhHHHhhhhHHHHHhhHHHHHHHHHHHHHhhhcHHHHHHH
Q 006135 93 DWDWNRWTRHFSEIEQAESYASLLKFQLEDAIEREDFEEAANL 135 (659)
Q Consensus 93 ~~dW~rW~rhF~~ve~~e~~~~~Lk~QLe~Av~~EDy~eAArL 135 (659)
-.||..|.++....-..+ ++..++.-....=..||+++||+=
T Consensus 70 ~~dW~~~~~~~~~~~~~~-~~~~~~~~~~~~Pt~~Dl~gA~~~ 111 (134)
T PF08336_consen 70 HQDWPKWEKLMEQPVGQE-QLQNLQELRSKLPTEEDLEGAAEG 111 (134)
T ss_pred HHhhhhHHHHHHHhhhHH-HHHHHHHHHhcCCCHHHHHHHHHH
Confidence 478999987766653333 666666655556678999999863
No 52
>PF03863 Phage_mat-A: Phage maturation protein; InterPro: IPR005563 This entry is represented by Bacteriophage MS2, Orf: MS2g1, the assembly/maturation protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The single-stranded RNA genome of bacteriophage MS2 is 3,569 nt long and contains 4 genes. Their products are necessary for phage maturation, encapsidation, lysis of the host, and phage RNA replication, respectively. The maturation protein is required for the typical attachment of the phage to the side of the bacterial pili. It accompanies the viral DNA into the cell.; GO: 0046718 entry of virus into host cell
Probab=25.73 E-value=1.4e+02 Score=33.92 Aligned_cols=83 Identities=22% Similarity=0.347 Sum_probs=56.3
Q ss_pred HHHHhhHHHHHHHHHHH------HHhhhcHHHHHHHHHHH--HHHhcCCh----------HHHHHHHHHHHhhhhhhhhh
Q 006135 106 IEQAESYASLLKFQLED------AIEREDFEEAANLKNAI--AEAASKDT----------VAEIMAQLKNAIDEERYHDA 167 (659)
Q Consensus 106 ve~~e~~~~~Lk~QLe~------Av~~EDy~eAArLK~ai--~~~~~~D~----------V~~~~~~Lk~AI~EERY~DA 167 (659)
+-|.-+-++.|..|+.. ||++.|++++.|+.+.- .-..+++. ..=+|.+++.|++
T Consensus 142 iaE~ReT~s~L~~~~~~l~kay~AvrrGd~rr~~~~i~~~~~~~~~~~~~a~~WLE~~yG~mPL~~Diq~~~e------- 214 (400)
T PF03863_consen 142 IAEARETASYLALQLRRLVKAYRAVRRGDLRRLRRYIRSFHDRKWKSKSAANLWLEFRYGWMPLFYDIQGAYE------- 214 (400)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHhhcCCccCcccccceeeeeechhHhHHHHHHHHH-------
Confidence 34555666777777665 78888888777766644 22223332 2336777887777
Q ss_pred hhhhcccCCcceeeeeeccCCCCCCcceEEEeecCCceeeeecCC
Q 006135 168 SRLCRYTGSGLVGWWVGYSKDSDDPFGRLIQIKPGVGRFVARNYS 212 (659)
Q Consensus 168 A~lRD~aGaGLvGWW~G~s~d~~DP~G~IirIsp~~GRyVaksYs 212 (659)
| |. ...++...++|++++||--+-.+|.
T Consensus 215 ----d---------~~----r~h~~~~~~~r~s~~~g~~~~~~~~ 242 (400)
T PF03863_consen 215 ----D---------FM----RVHDKIAKPLRFSRGHGKNVKLSYR 242 (400)
T ss_pred ----H---------HH----HhcchhheeEEeecCCCCceeeecc
Confidence 1 22 3578899999999999999988874
No 53
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=24.78 E-value=33 Score=30.55 Aligned_cols=12 Identities=67% Similarity=1.082 Sum_probs=9.4
Q ss_pred eeecCCcccccc
Q 006135 2 IITNNGWGITPA 13 (659)
Q Consensus 2 ~~~~~~~~~~~~ 13 (659)
||||.|-||.|.
T Consensus 48 iItndG~GInP~ 59 (76)
T PF03671_consen 48 IITNDGVGINPQ 59 (76)
T ss_dssp EEESSS-EE-TT
T ss_pred EEecCCcccccc
Confidence 899999999996
No 54
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=24.32 E-value=40 Score=39.72 Aligned_cols=28 Identities=18% Similarity=0.328 Sum_probs=24.7
Q ss_pred ChHHHHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 146 DTVAEIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 146 D~V~~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
+.+..+..+|++|.++.+|+.||.|||.
T Consensus 623 ~~i~~l~~~M~~aa~~l~FE~Aa~~RD~ 650 (655)
T TIGR00631 623 KLIKQLEKEMKQAARNLEFEEAARLRDE 650 (655)
T ss_pred HHHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence 4556788889999999999999999996
No 55
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=23.84 E-value=59 Score=38.34 Aligned_cols=27 Identities=19% Similarity=0.340 Sum_probs=23.6
Q ss_pred hHHHHHHHHHHHhhhhhhhhhhhhhcc
Q 006135 147 TVAEIMAQLKNAIDEERYHDASRLCRY 173 (659)
Q Consensus 147 ~V~~~~~~Lk~AI~EERY~DAA~lRD~ 173 (659)
.+-.+..+|++|-++-+|+.||+|||+
T Consensus 625 ~I~~Le~~M~~aA~~l~FE~Aa~lRD~ 651 (663)
T COG0556 625 LIKKLEKEMKEAAKNLEFEEAARLRDE 651 (663)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence 455677889999999999999999996
No 56
>PF15469 Sec5: Exocyst complex component Sec5
Probab=23.82 E-value=2.6e+02 Score=27.09 Aligned_cols=45 Identities=22% Similarity=0.264 Sum_probs=38.9
Q ss_pred hhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhh
Q 006135 126 REDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRL 170 (659)
Q Consensus 126 ~EDy~eAArLK~ai~~~~~~D~V~~~~~~Lk~AI~EERY~DAA~l 170 (659)
.+.-+.|.+|+.++.-++..-.+..+=+.|+++|...+|..|.+.
T Consensus 64 l~~~~k~~~l~~~l~~l~r~~flF~LP~~L~~~i~~~dy~~~i~d 108 (182)
T PF15469_consen 64 LERREKADKLRNALEFLQRNRFLFNLPSNLRECIKKGDYDQAIND 108 (182)
T ss_pred HccHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHcCcHHHHHHH
Confidence 456678899999999999999999999999999999999888754
No 57
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=22.77 E-value=2.1e+02 Score=31.45 Aligned_cols=64 Identities=19% Similarity=0.221 Sum_probs=47.1
Q ss_pred HHhhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhhhc
Q 006135 108 QAESYASLLKFQLEDAIEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRLCR 172 (659)
Q Consensus 108 ~~e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~~D~V~~~~~~Lk~AI~EERY~DAA~lRD 172 (659)
+.-.++.-||.|=..+.+.+||++|.-+-.+.-++.-+|+|.--++.= .-..=..|.+|.+=|.
T Consensus 76 e~~~~AE~LK~eGN~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAA-Ay~~Lg~~~~AVkDce 139 (304)
T KOG0553|consen 76 EDKALAESLKNEGNKLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAA-AYSKLGEYEDAVKDCE 139 (304)
T ss_pred hHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHH-HHHHhcchHHHHHHHH
Confidence 456788999999999999999999999999999999999996544321 1112234556655444
No 58
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.21 E-value=1.4e+02 Score=35.65 Aligned_cols=62 Identities=24% Similarity=0.334 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhhhcccCC
Q 006135 114 SLLKFQLEDAIEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRLCRYTGS 176 (659)
Q Consensus 114 ~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~~D~V~~~~~~Lk~AI~EERY~DAA~lRD~aGa 176 (659)
..|=.+|..+...++|++|++--..|-..- .|+...+..-+=.-|..++|+||-++-...|+
T Consensus 13 ~~l~t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~ 74 (652)
T KOG2376|consen 13 EALLTDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGA 74 (652)
T ss_pred HHHHHHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch
Confidence 456678888889999999999888777766 68888888889999999999999988776554
No 59
>PF09363 XFP_C: XFP C-terminal domain; InterPro: IPR018969 Phosphoketolases (PK) are key enzymes of the pentose phosphate pathway of heterofermentative and facultative homofermentative lactic acid bacteria and of the D-fructose 6-phosphate shunt of bifidobacteria. PK activity has been sporadically reported in other microorganisms including eukaryotic yeasts. Xylulose-5-phosphate/fructose-6-phosphate phosphoketolase is a thiamine diphosphate (ThdP)-dependent enzyme found in bacteria such as Bifidobacterium sp [, ]. This enzyme has dual-specificity with the following catalytic activities: 4.1.2.9 from EC: xylose 5-P + Pi = acetyl-P + glyeraldehyde-3-P 4.1.2.22 from EC: fructose-6-P + Pi = acetyl-P + erythrose-4-P Phosphoketolases are distantly related to transketolases, e.g. IPR005475 from INTERPRO.; GO: 0016832 aldehyde-lyase activity, 0005975 carbohydrate metabolic process; PDB: 3AI7_B 3AHC_A 3AHJ_A 3AHG_A 3AHE_A 3AHI_A 3AHD_A 3AHF_A 3AHH_A.
Probab=21.81 E-value=57 Score=33.76 Aligned_cols=29 Identities=31% Similarity=0.494 Sum_probs=19.5
Q ss_pred ccchhhhhHHHHHhhhccCCCceeEEEEec
Q 006135 297 EGVTEEGIKSVINFLKEKIPGLKVKVMNID 326 (659)
Q Consensus 297 ~~~~~EGi~~~~nflkd~IP~~KvKVlkV~ 326 (659)
+..|.|-|+ -+..|+..+|++||+|+||.
T Consensus 44 d~pT~E~lA-A~~lLr~~~P~lkiRvVNVv 72 (203)
T PF09363_consen 44 DVPTLEVLA-AASLLREHFPELKIRVVNVV 72 (203)
T ss_dssp HHHHHHHHH-HHHHHHHT--T--EEEEEES
T ss_pred chhhHHHHH-HHHHHHHhccCceEEEEEEe
Confidence 345567774 45799999999999999998
No 60
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.
Probab=21.46 E-value=8.2e+02 Score=25.96 Aligned_cols=28 Identities=39% Similarity=0.682 Sum_probs=16.7
Q ss_pred CCCc-ceEEEeec-CCceeeeecCChhhhcccCCCCceEEEE
Q 006135 190 DDPF-GRLIQIKP-GVGRFVARNYSPRQLVTASPGTPLFEIF 229 (659)
Q Consensus 190 ~DP~-G~IirIsp-~~GRyVaksYspRQLata~~G~PlFEIf 229 (659)
.-|+ |+|..+.. ..|.||. +|.|||.|.
T Consensus 275 ~AP~dG~V~~~~~~~~G~~v~------------~g~~l~~i~ 304 (423)
T TIGR01843 275 RSPVDGTVQSLKVHTVGGVVQ------------PGETLMEIV 304 (423)
T ss_pred ECCCCcEEEEEEEEccCceec------------CCCeeEEEe
Confidence 4453 66666655 4666663 566777664
No 61
>PF07064 RIC1: RIC1; InterPro: IPR009771 This entry represents RIC1 (Ribosomal control protein1) and has been identified in yeast as a Golgi protein involved in retrograde transport to the cis-Golgi network. It forms a heterodimer with Rgp1 and functions as a guanyl-nucleotide exchange factor [] which activates YPT6 by exchanging bound GDP for free GTP. RIC1 is thereby required for efficient fusion of endosome-derived vesicles with the Golgi. The RIC1-RGP1 complex participates in the recycling of SNC1, presumably by mediating fusion of endosomal vesicles with the Golgi compartment and may also be indirectly involved in the transcription of both ribosomal protein genes and ribosomal RNA [, , ].
Probab=21.24 E-value=2.3e+02 Score=29.93 Aligned_cols=73 Identities=14% Similarity=0.211 Sum_probs=57.2
Q ss_pred CCChhHHHhhhhHHHHHhhHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhcCCh------HHHHHHHHHHHhhhhhhhh
Q 006135 93 DWDWNRWTRHFSEIEQAESYASLLKFQLEDAIEREDFEEAANLKNAIAEAASKDT------VAEIMAQLKNAIDEERYHD 166 (659)
Q Consensus 93 ~~dW~rW~rhF~~ve~~e~~~~~Lk~QLe~Av~~EDy~eAArLK~ai~~~~~~D~------V~~~~~~Lk~AI~EERY~D 166 (659)
+-+=.+|..-|+.+-.-.. =++.++++.+++.||.+=.-+......+. ...+.+.|+.|+++++|+=
T Consensus 166 KtE~~~W~~LF~~lg~P~d-------Lf~~cl~~~~l~tAa~yLlVl~~~e~~~~~~~~~~~~~al~LL~~a~~~~~w~L 238 (258)
T PF07064_consen 166 KTEVRYWPYLFDYLGSPRD-------LFEECLENGNLKTAASYLLVLQNLEGSSVVKDEESRQCALRLLVMALESGDWDL 238 (258)
T ss_pred hhHHHHHHHHHHhcCCHHH-------HHHHHHHcCcHHHHHHHHHHHHhcCCcchhhhHHHHHHHHHHHHHHHhcccHHH
Confidence 4566788888887753332 25678899999999999999988887775 6677899999999999987
Q ss_pred hhhhhc
Q 006135 167 ASRLCR 172 (659)
Q Consensus 167 AA~lRD 172 (659)
|..|.+
T Consensus 239 c~eL~R 244 (258)
T PF07064_consen 239 CFELVR 244 (258)
T ss_pred HHHHHH
Confidence 776643
No 62
>PRK01773 hscB co-chaperone HscB; Provisional
Probab=20.93 E-value=2.1e+02 Score=28.56 Aligned_cols=18 Identities=11% Similarity=0.143 Sum_probs=11.6
Q ss_pred cccccccCCC-CCCceeec
Q 006135 57 SKYKKVKHPL-PQPLCCLC 74 (659)
Q Consensus 57 ~~~~~~~~~~-~~~~~~~c 74 (659)
.-|+-.|.|. |..+-|..
T Consensus 57 ~AY~tLkdPl~RA~YLL~L 75 (173)
T PRK01773 57 DALQILKDPILRAEAIIAL 75 (173)
T ss_pred HHHHHHCChHHHHHHHHHh
Confidence 4588888886 44455544
No 63
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=20.85 E-value=2.1e+02 Score=26.11 Aligned_cols=52 Identities=27% Similarity=0.364 Sum_probs=39.1
Q ss_pred HHHHHHHHhhhcHHHHHHHHHHHHHH--------------hcCChHHHHHHHHHHHhhhhhhhhhh
Q 006135 117 KFQLEDAIEREDFEEAANLKNAIAEA--------------ASKDTVAEIMAQLKNAIDEERYHDAS 168 (659)
Q Consensus 117 k~QLe~Av~~EDy~eAArLK~ai~~~--------------~~~D~V~~~~~~Lk~AI~EERY~DAA 168 (659)
=.+++.+|++||+++|.+.-..+... ..-|.+..-+..|+.+|+.+...+|.
T Consensus 32 l~~i~~~i~~~dW~~A~~~~~~l~~~W~k~~~~~~~~~~h~eid~i~~sl~rl~~~i~~~dk~~~l 97 (121)
T PF14276_consen 32 LEQIEEAIENEDWEKAYKETEELEKEWDKNKKRWSILIEHQEIDNIDISLARLKGYIEAKDKSESL 97 (121)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHHHHhhchheeeeecHHHHHHHHHHHHHHHHHHHCCCHHHHH
Confidence 35678899999999999887776654 22355667788899999888766653
Done!