Query 006855
Match_columns 628
No_of_seqs 124 out of 139
Neff 3.4
Searched_HMMs 46136
Date Thu Mar 28 15:27:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006855.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006855hhsearch_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 1.1E-49 2.4E-54 366.4 13.0 128 494-625 2-134 (134)
2 PF02151 UVR: UvrB/uvrC motif; 97.4 0.00031 6.6E-09 52.3 4.5 35 110-144 1-35 (36)
3 COG3880 Modulator of heat shoc 94.8 0.035 7.6E-07 54.8 4.3 38 109-146 134-171 (176)
4 PF02151 UVR: UvrB/uvrC motif; 93.7 0.058 1.3E-06 40.2 2.6 26 148-173 4-29 (36)
5 PRK14668 uvrC excinuclease ABC 91.5 0.47 1E-05 54.2 7.3 49 96-144 179-232 (577)
6 PRK14671 uvrC excinuclease ABC 91.4 0.45 9.9E-06 54.7 7.1 50 95-144 194-248 (621)
7 TIGR00194 uvrC excinuclease AB 90.7 0.66 1.4E-05 53.0 7.5 49 96-144 174-227 (574)
8 PRK14666 uvrC excinuclease ABC 90.1 0.8 1.7E-05 53.5 7.5 51 94-144 179-234 (694)
9 COG0322 UvrC Nuclease subunit 89.9 0.75 1.6E-05 52.7 7.1 50 95-144 181-235 (581)
10 PRK14670 uvrC excinuclease ABC 89.8 0.89 1.9E-05 52.1 7.6 50 95-144 156-210 (574)
11 TIGR00631 uvrb excinuclease AB 88.9 0.5 1.1E-05 54.5 4.9 37 106-142 618-654 (655)
12 PRK07883 hypothetical protein; 88.8 0.53 1.1E-05 53.3 4.8 49 96-144 386-439 (557)
13 PRK05298 excinuclease ABC subu 88.4 0.62 1.3E-05 53.5 5.1 37 108-144 610-646 (652)
14 PRK14672 uvrC excinuclease ABC 88.3 1.2 2.6E-05 52.0 7.4 50 95-144 184-238 (691)
15 PRK12306 uvrC excinuclease ABC 87.6 0.7 1.5E-05 52.3 4.8 49 96-144 172-225 (519)
16 PRK00558 uvrC excinuclease ABC 87.0 0.77 1.7E-05 52.5 4.8 50 95-144 181-235 (598)
17 PRK14667 uvrC excinuclease ABC 86.2 0.93 2E-05 51.8 4.9 50 95-144 178-232 (567)
18 COG0556 UvrB Helicase subunit 85.7 1.1 2.5E-05 51.3 5.1 40 106-145 619-658 (663)
19 PRK14669 uvrC excinuclease ABC 84.3 1.3 2.8E-05 51.3 4.9 49 96-144 183-236 (624)
20 KOG4825 Component of synaptic 82.7 2.7 5.8E-05 47.6 6.3 62 109-173 169-234 (666)
21 PRK07883 hypothetical protein; 73.8 2.5 5.3E-05 48.1 2.9 49 123-173 383-433 (557)
22 PRK14666 uvrC excinuclease ABC 73.6 2.6 5.6E-05 49.5 3.0 50 124-173 179-228 (694)
23 PRK12306 uvrC excinuclease ABC 72.7 2.8 6.2E-05 47.5 3.0 49 123-173 169-219 (519)
24 PRK14667 uvrC excinuclease ABC 72.6 2.7 5.8E-05 48.2 2.8 50 124-175 177-228 (567)
25 PRK14669 uvrC excinuclease ABC 72.1 2.8 6.1E-05 48.6 2.9 51 123-173 180-230 (624)
26 PRK00558 uvrC excinuclease ABC 71.9 2.8 6E-05 48.2 2.7 48 124-173 180-229 (598)
27 PRK14670 uvrC excinuclease ABC 71.4 2.9 6.3E-05 48.0 2.8 50 124-173 155-204 (574)
28 PRK14671 uvrC excinuclease ABC 70.1 3.5 7.6E-05 47.7 3.1 50 124-173 193-242 (621)
29 TIGR00194 uvrC excinuclease AB 69.6 3.4 7.4E-05 47.4 2.8 48 124-173 172-221 (574)
30 KOG1538 Uncharacterized conser 68.3 3.4 7.4E-05 48.6 2.5 71 97-169 787-858 (1081)
31 PRK14668 uvrC excinuclease ABC 67.1 4.2 9.2E-05 46.7 2.9 48 124-173 177-226 (577)
32 PRK14672 uvrC excinuclease ABC 66.6 4.3 9.2E-05 47.8 2.8 50 124-173 183-232 (691)
33 COG3880 Modulator of heat shoc 64.7 5.3 0.00011 40.0 2.6 24 150-173 140-163 (176)
34 KOG1832 HIV-1 Vpr-binding prot 64.4 3.2 7E-05 50.1 1.3 19 101-119 1181-1199(1516)
35 COG0322 UvrC Nuclease subunit 53.7 9.1 0.0002 44.3 2.5 49 123-173 179-229 (581)
36 PF04931 DNA_pol_phi: DNA poly 53.6 9.7 0.00021 44.8 2.8 11 302-312 623-633 (784)
37 COG2602 Beta-lactamase class D 51.2 11 0.00024 39.6 2.5 51 149-200 173-228 (254)
38 PF09059 TyeA: TyeA; InterPro 49.0 16 0.00036 32.8 2.9 28 101-128 58-85 (87)
39 KOG1832 HIV-1 Vpr-binding prot 48.7 8.7 0.00019 46.7 1.4 21 205-227 1344-1364(1516)
40 PF07743 HSCB_C: HSCB C-termin 47.6 68 0.0015 26.9 6.2 51 115-170 12-62 (78)
41 PRK05298 excinuclease ABC subu 44.5 48 0.001 38.6 6.4 31 143-173 610-640 (652)
42 KOG3483 Uncharacterized conser 40.3 13 0.00028 33.3 0.9 13 2-14 59-71 (94)
43 cd01766 Ufm1 Urm1-like ubiquit 35.3 16 0.00035 32.5 0.7 13 2-14 48-60 (82)
44 PF09026 CENP-B_dimeris: Centr 35.0 13 0.00028 34.4 0.0 20 470-489 69-88 (101)
45 PF14559 TPR_19: Tetratricopep 34.8 1.3E+02 0.0029 23.2 5.7 50 123-173 1-50 (68)
46 KOG0316 Conserved WD40 repeat- 31.5 28 0.00061 37.1 1.8 24 512-535 45-68 (307)
47 PF10446 DUF2457: Protein of u 30.4 25 0.00055 39.7 1.3 7 567-573 354-360 (458)
48 PF13838 Clathrin_H_link: Clat 29.2 64 0.0014 27.8 3.2 24 114-137 7-30 (66)
49 PF15469 Sec5: Exocyst complex 27.8 2.2E+02 0.0048 27.4 7.1 46 126-171 64-109 (182)
50 TIGR00631 uvrb excinuclease AB 27.3 35 0.00075 40.0 1.8 29 145-173 622-650 (655)
51 PF07304 SRA1: Steroid recepto 26.8 64 0.0014 31.4 3.2 45 118-163 95-139 (157)
52 PRK01773 hscB co-chaperone Hsc 25.5 1.8E+02 0.0039 28.8 6.1 18 57-74 57-75 (173)
53 PF03671 Ufm1: Ubiquitin fold 25.3 32 0.0007 30.5 0.8 12 2-13 48-59 (76)
54 PF08336 P4Ha_N: Prolyl 4-Hydr 24.9 63 0.0014 29.9 2.7 49 93-142 70-118 (134)
55 COG0556 UvrB Helicase subunit 23.4 65 0.0014 37.8 3.0 27 147-173 625-651 (663)
56 PF07064 RIC1: RIC1; InterPro 22.4 2.3E+02 0.005 29.7 6.5 73 93-172 166-244 (258)
57 KOG0553 TPR repeat-containing 22.1 2.3E+02 0.0049 31.0 6.4 64 108-172 76-139 (304)
58 PF09363 XFP_C: XFP C-terminal 22.1 55 0.0012 33.6 1.9 29 297-326 44-72 (203)
59 KOG2387 CTP synthase (UTP-ammo 22.0 47 0.001 38.1 1.5 53 511-571 39-93 (585)
60 COG5406 Nucleosome binding fac 22.0 51 0.0011 39.3 1.8 12 302-313 875-886 (1001)
61 TIGR00714 hscB Fe-S protein as 20.4 3.1E+02 0.0067 26.6 6.5 17 58-74 45-62 (157)
62 KOG0526 Nucleosome-binding fac 20.3 65 0.0014 37.6 2.1 18 306-327 418-435 (615)
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=1.1e-49 Score=366.43 Aligned_cols=128 Identities=44% Similarity=0.769 Sum_probs=115.0
Q ss_pred ccccceeee-eeecCCCCCCCCCceEeeccCCCCcEEEEEEEecCCCCCCCC--CCCccccceEEEEEEEcCCCCccCce
Q 006855 494 RLSEYTTFS-RINTSEGDLDPFDGLYVGAFGPYGTEVVQLRRKYGQWSGEGE--KSSDMEFFEYVEAVKLTGDLNVPAGE 570 (628)
Q Consensus 494 ~L~~~ttf~-RI~tPts~~kP~~GLwVGdYG~HG~EfL~L~~~~g~~~~~d~--~~sd~~~~~~LEAVKLTGDpNVPRGe 570 (628)
.+++|++++ ++||||+ .|||+|||||+||+||||||+|+|++++|.+++. +.++.+|+++||||||||||||||||
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 355666666 6779999 8999999999999999999999999999987776 35788999999999999999999999
Q ss_pred EEEEEE-cCCCCCCCCCCCCCCCCCceeE-EeeceeecCCCCCCCccccceEEEecC
Q 006855 571 VTFRAK-IGKGSRLPNRGKFPDELGVVAS-YSGQGRIADFGFRNPKWVDGELLQLNG 625 (628)
Q Consensus 571 VTF~A~-ig~~g~lp~~g~~peel~~gaR-vkgqG~VA~~GF~np~wIdgqLilIsg 625 (628)
|||+|+ ||+.++| +++.+++|.|+| ||||||||++||+|++||+|||||||+
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 9999999 555566666777 999999999999999999999999996
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=97.35 E-value=0.00031 Score=52.29 Aligned_cols=35 Identities=37% Similarity=0.548 Sum_probs=30.6
Q ss_pred hHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006855 110 ESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (628)
Q Consensus 110 e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~ 144 (628)
+..+..|+.+|+.||+.+||+.||+||+.|..+..
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=94.77 E-value=0.035 Score=54.76 Aligned_cols=38 Identities=39% Similarity=0.517 Sum_probs=33.3
Q ss_pred HhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhcCC
Q 006855 109 AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAASKD 146 (628)
Q Consensus 109 ~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~~D 146 (628)
..+=+..|+..|+++|++||||+||-+|+.|.++..++
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 34556789999999999999999999999999998653
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=93.69 E-value=0.058 Score=40.23 Aligned_cols=26 Identities=23% Similarity=0.512 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 148 VAEIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 148 V~~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
+..+...|+.|+++++|+.||+|||.
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=91.50 E-value=0.47 Score=54.16 Aligned_cols=49 Identities=22% Similarity=0.382 Sum_probs=39.4
Q ss_pred hHHHHhhhhHHHH-----HhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006855 96 WNRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (628)
Q Consensus 96 W~rW~rhF~~ve~-----~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~ 144 (628)
=+.|+.....+-. ...++..|+.+|+.|.++.+||.||++|+.|.++..
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 3456655565555 356889999999999999999999999999988653
No 6
>PRK14671 uvrC excinuclease ABC subunit C; Provisional
Probab=91.38 E-value=0.45 Score=54.68 Aligned_cols=50 Identities=24% Similarity=0.290 Sum_probs=40.1
Q ss_pred ChHHHHhhhhHHHH-----HhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006855 95 DWNRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (628)
Q Consensus 95 dW~rW~rhF~~ve~-----~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~ 144 (628)
+=+.|......+.. -..++..|+.+|+.|.++.+||.||++|+.|.++..
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 34567765555552 356789999999999999999999999999988753
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=90.71 E-value=0.66 Score=53.00 Aligned_cols=49 Identities=27% Similarity=0.350 Sum_probs=38.6
Q ss_pred hHHHHhhhhHHHHH-----hHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006855 96 WNRWTRHFSEIEQA-----ESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (628)
Q Consensus 96 W~rW~rhF~~ve~~-----e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~ 144 (628)
=+.|+....++-+. ..++..|+.+|+.|.++.+||.||++|+.|.++..
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 35566554544443 56778999999999999999999999999988754
No 8
>PRK14666 uvrC excinuclease ABC subunit C; Provisional
Probab=90.08 E-value=0.8 Score=53.53 Aligned_cols=51 Identities=22% Similarity=0.303 Sum_probs=40.8
Q ss_pred CChHHHHhhhhHHHH-----HhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006855 94 WDWNRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (628)
Q Consensus 94 ~dW~rW~rhF~~ve~-----~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~ 144 (628)
-+-+.|+..+..+.. ...++..|+.+|+.|+++.+||.||++|+.|.++..
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 445677766665553 246778999999999999999999999999988754
No 9
>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]
Probab=89.93 E-value=0.75 Score=52.75 Aligned_cols=50 Identities=24% Similarity=0.328 Sum_probs=37.7
Q ss_pred ChHHHHhhhhHHHHH-----hHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006855 95 DWNRWTRHFSEIEQA-----ESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (628)
Q Consensus 95 dW~rW~rhF~~ve~~-----e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~ 144 (628)
+++.+++...++-+. ..++..|+.+|+.|.+..|||.||+||+.|.++..
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 445555444444331 35568999999999999999999999999998764
No 10
>PRK14670 uvrC excinuclease ABC subunit C; Provisional
Probab=89.85 E-value=0.89 Score=52.05 Aligned_cols=50 Identities=22% Similarity=0.381 Sum_probs=40.2
Q ss_pred ChHHHHhhhhHHHH-----HhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006855 95 DWNRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (628)
Q Consensus 95 dW~rW~rhF~~ve~-----~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~ 144 (628)
+=+.|+..+..+.. -..++..|+.+|+.|.++.+||.||++|+.|.++..
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 34667766555543 246778999999999999999999999999988764
No 11
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=88.92 E-value=0.5 Score=54.52 Aligned_cols=37 Identities=27% Similarity=0.386 Sum_probs=33.2
Q ss_pred HHHHhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHH
Q 006855 106 IEQAESYASLLKFQLEDAIEREDFEEAANLKNAIAEA 142 (628)
Q Consensus 106 ve~~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~ 142 (628)
-++.+.++..|+.+|..|++..+||+||++|+.|.++
T Consensus 618 ~~~~~~~i~~l~~~M~~aa~~l~FE~Aa~~RD~i~~L 654 (655)
T TIGR00631 618 KKELKKLIKQLEKEMKQAARNLEFEEAARLRDEILEL 654 (655)
T ss_pred HHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence 3677889999999999999999999999999999876
No 12
>PRK07883 hypothetical protein; Validated
Probab=88.80 E-value=0.53 Score=53.29 Aligned_cols=49 Identities=18% Similarity=0.307 Sum_probs=38.3
Q ss_pred hHHHHhhhhHHHH-----HhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006855 96 WNRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (628)
Q Consensus 96 W~rW~rhF~~ve~-----~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~ 144 (628)
=+.++++...+.. -..++..|+.+|+.|.++.+||.||++|+.|.++..
T Consensus 386 ~~~Y~~~v~~~~~fL~G~~~~~~~~l~~~M~~aa~~l~FE~Aa~~Rd~i~~l~~ 439 (557)
T PRK07883 386 AAEYAEAVARARAALTGDDDAVLAALRARIDRLAAAERFEEAARLRDRLAALLR 439 (557)
T ss_pred HHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence 3456655555443 245779999999999999999999999999987753
No 13
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=88.40 E-value=0.62 Score=53.48 Aligned_cols=37 Identities=32% Similarity=0.443 Sum_probs=32.7
Q ss_pred HHhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006855 108 QAESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (628)
Q Consensus 108 ~~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~ 144 (628)
..+.++..|+.+|..|++..+||+||++|+.|.++..
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 4457889999999999999999999999999998874
No 14
>PRK14672 uvrC excinuclease ABC subunit C; Provisional
Probab=88.35 E-value=1.2 Score=52.03 Aligned_cols=50 Identities=20% Similarity=0.352 Sum_probs=39.5
Q ss_pred ChHHHHhhhhHHHHH-----hHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006855 95 DWNRWTRHFSEIEQA-----ESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (628)
Q Consensus 95 dW~rW~rhF~~ve~~-----e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~ 144 (628)
+=+.|+.....+... ..++..|+.+|+.|.++.+||.||++|+.|.+++.
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 445677555555442 35778999999999999999999999999988753
No 15
>PRK12306 uvrC excinuclease ABC subunit C; Reviewed
Probab=87.56 E-value=0.7 Score=52.26 Aligned_cols=49 Identities=12% Similarity=0.287 Sum_probs=37.9
Q ss_pred hHHHHhhhhHHHH-----HhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006855 96 WNRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (628)
Q Consensus 96 W~rW~rhF~~ve~-----~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~ 144 (628)
=+.++.....+.. -..++..|+.+|+.|.++.+||.||++|+.|.++..
T Consensus 172 ~e~Y~~~v~~~~~fL~G~~~~~~~~L~~~M~~aa~~l~FE~Aa~~RD~l~~l~~ 225 (519)
T PRK12306 172 SDEYLEQVKKAEEVLKGKIDELIEKLEEEMAEKAKNQQFERALVIRDEINAIEN 225 (519)
T ss_pred HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence 3556644444433 245778999999999999999999999999988764
No 16
>PRK00558 uvrC excinuclease ABC subunit C; Validated
Probab=87.04 E-value=0.77 Score=52.54 Aligned_cols=50 Identities=20% Similarity=0.281 Sum_probs=37.8
Q ss_pred ChHHHHhhhhHHHH-----HhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006855 95 DWNRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (628)
Q Consensus 95 dW~rW~rhF~~ve~-----~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~ 144 (628)
+-+.++.....+-+ ...++..|+.+|+.|+++.+||.||++|+.|.++..
T Consensus 181 ~~e~Y~~~v~~~~~fL~G~~~~~i~~L~~~M~~aa~~l~FE~Aa~~RD~i~aL~~ 235 (598)
T PRK00558 181 SKEEYAELVDEAKLFLSGKTDEVLKELEEKMEEASENLEFERAARYRDQIQALRR 235 (598)
T ss_pred CHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHH
Confidence 44556644443332 245678999999999999999999999999988754
No 17
>PRK14667 uvrC excinuclease ABC subunit C; Provisional
Probab=86.19 E-value=0.93 Score=51.81 Aligned_cols=50 Identities=14% Similarity=0.159 Sum_probs=39.2
Q ss_pred ChHHHHhhhhHHHH-----HhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006855 95 DWNRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (628)
Q Consensus 95 dW~rW~rhF~~ve~-----~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~ 144 (628)
+=+.|......+-. ...++..|+.+|+.|.++.+||.||++|+.|.+++.
T Consensus 178 s~e~Y~~~v~~~~~fL~G~~~~l~~~L~~~M~~aa~~l~FE~Aa~~RD~i~~l~~ 232 (567)
T PRK14667 178 SKEDYELSVKSAKAFLSGNVKEVLPELYDKIEEYSQKLMFEKAAVIRDQILALEN 232 (567)
T ss_pred CHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence 33556655555443 346789999999999999999999999999988754
No 18
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=85.70 E-value=1.1 Score=51.34 Aligned_cols=40 Identities=28% Similarity=0.410 Sum_probs=35.6
Q ss_pred HHHHhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhcC
Q 006855 106 IEQAESYASLLKFQLEDAIEREDFEEAANLKNAIAEAASK 145 (628)
Q Consensus 106 ve~~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~~ 145 (628)
-.+.+.++..|+.||.+|++.-+|+.||+||+.|.+++..
T Consensus 619 ~~e~~~~I~~Le~~M~~aA~~l~FE~Aa~lRD~i~~L~~~ 658 (663)
T COG0556 619 KKELEKLIKKLEKEMKEAAKNLEFEEAARLRDEIKELKEE 658 (663)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHH
Confidence 3567788899999999999999999999999999988753
No 19
>PRK14669 uvrC excinuclease ABC subunit C; Provisional
Probab=84.25 E-value=1.3 Score=51.26 Aligned_cols=49 Identities=18% Similarity=0.246 Sum_probs=39.0
Q ss_pred hHHHHhhhhHHHH-----HhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhc
Q 006855 96 WNRWTRHFSEIEQ-----AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAAS 144 (628)
Q Consensus 96 W~rW~rhF~~ve~-----~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~ 144 (628)
=+.+++.+..+.. ...++..|+.+|+.|.++.+||.||++|+.|.++..
T Consensus 183 ~e~Y~~~v~~v~~fL~G~~~~l~~~L~~~M~~aa~~l~FE~Aa~~RD~i~~l~~ 236 (624)
T PRK14669 183 DEAYAEAVRDVRLFLEGRHSDLARSLRARMEAAALEMQFELAAKYRDLITTVEE 236 (624)
T ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence 3556655555543 256778999999999999999999999999988653
No 20
>KOG4825 consensus Component of synaptic membrane glycine-, glutamate- and thienylcyclohexylpiperidine-binding glycoprotein (43kDa) [Signal transduction mechanisms]
Probab=82.74 E-value=2.7 Score=47.58 Aligned_cols=62 Identities=24% Similarity=0.303 Sum_probs=50.9
Q ss_pred HhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHH----Hhhhhhhhhhhhhhhc
Q 006855 109 AESYASLLKFQLEDAIEREDFEEAANLKNAIAEAASKDTVAEIMAQLKN----AIDEERYHDASRLCRY 173 (628)
Q Consensus 109 ~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~~D~V~~v~~~Lk~----AI~EERY~DAA~LRD~ 173 (628)
++.+.-.|...-++||.+|||.-|-++|.||+.+.. +++-|..|++ |++.|.|+-|-.+.|+
T Consensus 169 laaiIgaidenKqeAVakEdfdlAKkaklAiaDLkK---sgeeleelEndKgcAVadEDfdlAkdkkde 234 (666)
T KOG4825|consen 169 LAAIIGAIDENKQEAVAKEDFDLAKKAKLAIADLKK---SGEELEELENDKGCAVADEDFDLAKDKKDE 234 (666)
T ss_pred HHHHHHHHHhhHHHHHhhhhhhHHHHHHHHHHHHHH---HHHHHHHHhhcccccccchhhhHHHHHHHH
Confidence 444555667777899999999999999999999986 6666777765 9999999999877765
No 21
>PRK07883 hypothetical protein; Validated
Probab=73.82 E-value=2.5 Score=48.09 Aligned_cols=49 Identities=18% Similarity=0.293 Sum_probs=38.6
Q ss_pred HHhhhcHHHHHHHHHHHHHHhc--CChHHHHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 123 AIEREDFEEAANLKNAIAEAAS--KDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 123 AV~~EDy~eAArLK~ai~~~~~--~D~V~~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
.+..|+|. ..++.++.-+.+ ++.+..+..+|+.|-++.+|+.||+|||.
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 45667885 455566666644 45788899999999999999999999996
No 22
>PRK14666 uvrC excinuclease ABC subunit C; Provisional
Probab=73.63 E-value=2.6 Score=49.53 Aligned_cols=50 Identities=14% Similarity=0.225 Sum_probs=40.4
Q ss_pred HhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 124 IEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 124 V~~EDy~eAArLK~ai~~~~~~D~V~~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
+..|+|.+..+--.++-+-..++.+..+..+|++|-++.+|+.||+|||.
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 56688877665555554445567899999999999999999999999996
No 23
>PRK12306 uvrC excinuclease ABC subunit C; Reviewed
Probab=72.68 E-value=2.8 Score=47.54 Aligned_cols=49 Identities=10% Similarity=0.237 Sum_probs=38.7
Q ss_pred HHhhhcHHHHHHHHHHHHHHhc--CChHHHHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 123 AIEREDFEEAANLKNAIAEAAS--KDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 123 AV~~EDy~eAArLK~ai~~~~~--~D~V~~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
.+..|+|.+ +++.++.-+++ ++.+..+..+|+.|-++.+|+.||+|||.
T Consensus 169 ~~s~e~Y~~--~v~~~~~fL~G~~~~~~~~L~~~M~~aa~~l~FE~Aa~~RD~ 219 (519)
T PRK12306 169 NISSDEYLE--QVKKAEEVLKGKIDELIEKLEEEMAEKAKNQQFERALVIRDE 219 (519)
T ss_pred CCCHHHHHH--HHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 345688864 45555555554 57888999999999999999999999996
No 24
>PRK14667 uvrC excinuclease ABC subunit C; Provisional
Probab=72.63 E-value=2.7 Score=48.19 Aligned_cols=50 Identities=20% Similarity=0.282 Sum_probs=38.7
Q ss_pred HhhhcHHHHHHHHHHHHHHhc--CChHHHHHHHHHHHhhhhhhhhhhhhhhccC
Q 006855 124 IEREDFEEAANLKNAIAEAAS--KDTVAEIMAQLKNAIDEERYHDASRLCRYTG 175 (628)
Q Consensus 124 V~~EDy~eAArLK~ai~~~~~--~D~V~~v~~~Lk~AI~EERY~DAA~LRD~ag 175 (628)
+..|+|.+ +++.++.-+++ ++.+..+...|++|-++.+|+.||+|||.--
T Consensus 177 ~s~e~Y~~--~v~~~~~fL~G~~~~l~~~L~~~M~~aa~~l~FE~Aa~~RD~i~ 228 (567)
T PRK14667 177 ISKEDYEL--SVKSAKAFLSGNVKEVLPELYDKIEEYSQKLMFEKAAVIRDQIL 228 (567)
T ss_pred CCHHHHHH--HHHHHHHHHcCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence 45677855 44555555544 5678899999999999999999999999743
No 25
>PRK14669 uvrC excinuclease ABC subunit C; Provisional
Probab=72.08 E-value=2.8 Score=48.55 Aligned_cols=51 Identities=18% Similarity=0.178 Sum_probs=40.3
Q ss_pred HHhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 123 AIEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 123 AV~~EDy~eAArLK~ai~~~~~~D~V~~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
.+..|+|.+..+--..+-.-..++.+..+...|++|-++.+|+.||+|||.
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 355688877665444444445567888999999999999999999999996
No 26
>PRK00558 uvrC excinuclease ABC subunit C; Validated
Probab=71.94 E-value=2.8 Score=48.19 Aligned_cols=48 Identities=17% Similarity=0.307 Sum_probs=38.8
Q ss_pred HhhhcHHHHHHHHHHHHHHhc--CChHHHHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 124 IEREDFEEAANLKNAIAEAAS--KDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 124 V~~EDy~eAArLK~ai~~~~~--~D~V~~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
+..|+|.+ +++.++.-+.+ .+.+..+..+|+.|.++.+|+.||+|||.
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 56688865 55566666654 56788999999999999999999999996
No 27
>PRK14670 uvrC excinuclease ABC subunit C; Provisional
Probab=71.44 E-value=2.9 Score=48.00 Aligned_cols=50 Identities=16% Similarity=0.264 Sum_probs=39.0
Q ss_pred HhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 124 IEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 124 V~~EDy~eAArLK~ai~~~~~~D~V~~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
+..|+|.+..+--..+-.-...+.+..+...|+.|-++.+|+.||+|||.
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 45688876554444444444567899999999999999999999999996
No 28
>PRK14671 uvrC excinuclease ABC subunit C; Provisional
Probab=70.09 E-value=3.5 Score=47.68 Aligned_cols=50 Identities=14% Similarity=0.234 Sum_probs=39.1
Q ss_pred HhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 124 IEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 124 V~~EDy~eAArLK~ai~~~~~~D~V~~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
+..|+|.+..+--..+-+-..++.+..+..+|+.|-++.+|+.||+|||.
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 45678866554444444445567899999999999999999999999996
No 29
>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=69.57 E-value=3.4 Score=47.38 Aligned_cols=48 Identities=13% Similarity=0.304 Sum_probs=37.6
Q ss_pred HhhhcHHHHHHHHHHHHHHhc--CChHHHHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 124 IEREDFEEAANLKNAIAEAAS--KDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 124 V~~EDy~eAArLK~ai~~~~~--~D~V~~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
+..|+|.+ +++.++.-+.+ .+.+..+...|++|-++.+|+.||+|||.
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 45677854 44555555554 56888999999999999999999999996
No 30
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=68.34 E-value=3.4 Score=48.59 Aligned_cols=71 Identities=23% Similarity=0.392 Sum_probs=47.2
Q ss_pred HHHHhhhhHHHHHhHHHHHHHHHHHH-HHhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhh
Q 006855 97 NRWTRHFSEIEQAESYASLLKFQLED-AIEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASR 169 (628)
Q Consensus 97 ~rW~rhF~~ve~~e~~~~~Lk~QLe~-AV~~EDy~eAArLK~ai~~~~~~D~V~~v~~~Lk~AI~EERY~DAA~ 169 (628)
-+|..-|+-.|..-.++.....|-.. -+++..|+||.+ .-+++=+..+.+..+..+-++||.|+||.||++
T Consensus 787 ~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqk--AfhkAGr~~EA~~vLeQLtnnav~E~Rf~DA~y 858 (1081)
T KOG1538|consen 787 QRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQK--AFHKAGRQREAVQVLEQLTNNAVAESRFNDAAY 858 (1081)
T ss_pred ccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHH--HHHHhcchHHHHHHHHHhhhhhhhhhhhccchh
Confidence 36788898888877777655444322 347788999975 233444444444444444467999999999997
No 31
>PRK14668 uvrC excinuclease ABC subunit C; Provisional
Probab=67.07 E-value=4.2 Score=46.69 Aligned_cols=48 Identities=15% Similarity=0.193 Sum_probs=36.3
Q ss_pred HhhhcHHHHHHHHHHHHHHhc--CChHHHHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 124 IEREDFEEAANLKNAIAEAAS--KDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 124 V~~EDy~eAArLK~ai~~~~~--~D~V~~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
+..|+|.+.. +.++.-+.+ .+.+..+...|++|-++.+|+.||+|||.
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 4557776544 444444554 45677899999999999999999999996
No 32
>PRK14672 uvrC excinuclease ABC subunit C; Provisional
Probab=66.64 E-value=4.3 Score=47.76 Aligned_cols=50 Identities=18% Similarity=0.314 Sum_probs=38.3
Q ss_pred HhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 124 IEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 124 V~~EDy~eAArLK~ai~~~~~~D~V~~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
+..|+|.+..+--..+-+-..++.+..+...|++|-++.+|+.||+|||.
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 45577776554434444444567788999999999999999999999996
No 33
>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]
Probab=64.73 E-value=5.3 Score=39.96 Aligned_cols=24 Identities=17% Similarity=0.378 Sum_probs=21.6
Q ss_pred HHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 150 EIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 150 ~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
++...|+.+|..|.|+.||-+||.
T Consensus 140 ~L~e~Lq~~i~~EefEeAA~iRDq 163 (176)
T COG3880 140 ALKEALQDLIEREEFEEAAVIRDQ 163 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456789999999999999999996
No 34
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=64.43 E-value=3.2 Score=50.15 Aligned_cols=19 Identities=26% Similarity=0.508 Sum_probs=9.1
Q ss_pred hhhhHHHHHhHHHHHHHHH
Q 006855 101 RHFSEIEQAESYASLLKFQ 119 (628)
Q Consensus 101 rhF~~ve~~e~~~~~Lk~Q 119 (628)
+|=..=|....|...+++.
T Consensus 1181 ~Hsf~ed~~vkFsn~~q~r 1199 (1516)
T KOG1832|consen 1181 RHSFDEDKAVKFSNSLQFR 1199 (1516)
T ss_pred cccccccceeehhhhHHHH
Confidence 3433335555555555443
No 35
>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]
Probab=53.70 E-value=9.1 Score=44.25 Aligned_cols=49 Identities=18% Similarity=0.293 Sum_probs=34.5
Q ss_pred HHhhhcHHHHHHHHHHHHHHhcC--ChHHHHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 123 AIEREDFEEAANLKNAIAEAASK--DTVAEIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 123 AV~~EDy~eAArLK~ai~~~~~~--D~V~~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
.|..|+|+++.. .+..-+.++ ..+..+...|+.|-.+.+|+.||+|||.
T Consensus 179 ~is~e~Y~e~v~--~~~~fL~G~~~~v~~~L~~~M~~As~~l~FE~Aa~~RD~ 229 (581)
T COG0322 179 LISEEEYREIVE--EVKGFLKGKDDAVLQELEEKMEEASENLDFERAARLRDQ 229 (581)
T ss_pred cCCHHHHHHHHH--HHHHHHcCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHH
Confidence 455666666543 223333343 4566788889999999999999999994
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=53.56 E-value=9.7 Score=44.85 Aligned_cols=11 Identities=18% Similarity=0.619 Sum_probs=5.4
Q ss_pred hhhhHHHhhhh
Q 006855 302 EGIKSVINFLK 312 (628)
Q Consensus 302 EGi~~v~nflk 312 (628)
+|+..+++.|.
T Consensus 623 ~~l~~ll~vl~ 633 (784)
T PF04931_consen 623 SGLQLLLDVLD 633 (784)
T ss_pred HHHHHHHHHhc
Confidence 45555555544
No 37
>COG2602 Beta-lactamase class D [Defense mechanisms]
Probab=51.18 E-value=11 Score=39.65 Aligned_cols=51 Identities=25% Similarity=0.458 Sum_probs=37.7
Q ss_pred HHHHHHHHHHhhhhhhhhhhhhhhccCCcce-----eeeeeccCCCCCCcceeEEee
Q 006855 149 AEIMAQLKNAIDEERYHDASRLCRYTGSGLV-----GWWVGYSKDSDDPFGRLIQIK 200 (628)
Q Consensus 149 ~~v~~~Lk~AI~EERY~DAA~LRD~ag~GLv-----GWW~G~s~~~~dp~G~Iiris 200 (628)
.++|...++-+--||=+- =.|+-.||+|.+ |||||+-+..+++|.--.+|.
T Consensus 173 ~~a~~~v~~~m~~~~~~~-~~l~GKTG~~~~~~~~~GWfVG~v~~~~~~y~FA~nld 228 (254)
T COG2602 173 AKAQDLVKAIMILERGPN-WELHGKTGTGIVNTKNLGWFVGWVETNENKYVFATNLD 228 (254)
T ss_pred HHHHHHHHHHHhhhcCCC-eEEEecccccccCCCCceeEEEEEEeCCcEEEEEEeec
Confidence 356677777776676666 778899999985 899999888888775444443
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=49.02 E-value=16 Score=32.76 Aligned_cols=28 Identities=32% Similarity=0.462 Sum_probs=25.3
Q ss_pred hhhhHHHHHhHHHHHHHHHHHHHHhhhc
Q 006855 101 RHFSEIEQAESYASLLKFQLEDAIERED 128 (628)
Q Consensus 101 rhF~~ve~~e~~~~~Lk~QLe~AV~~ED 128 (628)
..|++.|+.++++...|.-|..||++||
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=48.70 E-value=8.7 Score=46.75 Aligned_cols=21 Identities=29% Similarity=0.384 Sum_probs=9.3
Q ss_pred eeeeeccChhhhcccCCCCceEE
Q 006855 205 RFVARNYSPRQLVTASPGTPLFE 227 (628)
Q Consensus 205 R~va~sYspRqLa~a~~G~PlFE 227 (628)
-|=|+-||+ |+|-..--|||-
T Consensus 1344 Tf~a~dYs~--iaTi~v~R~~~D 1364 (1516)
T KOG1832|consen 1344 TFDAIDYSD--IATIPVDRCLLD 1364 (1516)
T ss_pred ccccccccc--ceeeecccchhh
Confidence 344444443 444444444443
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=47.58 E-value=68 Score=26.92 Aligned_cols=51 Identities=29% Similarity=0.438 Sum_probs=34.0
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhh
Q 006855 115 LLKFQLEDAIEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRL 170 (628)
Q Consensus 115 ~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~~D~V~~v~~~Lk~AI~EERY~DAA~L 170 (628)
.++.+|++|...++..+...|+..+..... .....|..+++...|..|+.+
T Consensus 12 E~rE~le~~~~~~~~~~L~~l~~~~~~~~~-----~~~~~l~~~f~~~d~~~A~~~ 62 (78)
T PF07743_consen 12 ELREELEEAQNSDDEAELEELKKEIEERIK-----ELIKELAEAFDAKDWEEAKEA 62 (78)
T ss_dssp HHHHHHHHHCCCTSHHHHHHHHHHHHHHHH-----HHHHHHHHHHHTT-HHHHHHH
T ss_pred HHHHHHHHhhcCCCHHHHHHHHHHHHHHHH-----HHHHHHHHHHccCcHHHHHHH
Confidence 355566666555555666666666665544 778888888888888888764
No 41
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=44.53 E-value=48 Score=38.59 Aligned_cols=31 Identities=23% Similarity=0.328 Sum_probs=27.0
Q ss_pred hcCChHHHHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 143 ASKDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 143 ~~~D~V~~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
..+..+..+..+|+.|.++.+|+.||++||.
T Consensus 610 ~~~~~~~~l~~~M~~aa~~l~fE~Aa~~Rd~ 640 (652)
T PRK05298 610 ELEKLIKELEKQMKEAAKNLEFEEAARLRDE 640 (652)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 4445677889999999999999999999996
No 42
>KOG3483 consensus Uncharacterized conserved protein [Function unknown]
Probab=40.32 E-value=13 Score=33.31 Aligned_cols=13 Identities=69% Similarity=1.086 Sum_probs=11.9
Q ss_pred eeecCCccccccc
Q 006855 2 IITNNGWGITPAT 14 (628)
Q Consensus 2 ~~~~~~~~~~~~~ 14 (628)
||||.|.||.|+.
T Consensus 59 iitndgiginpaq 71 (94)
T KOG3483|consen 59 IITNDGIGINPAQ 71 (94)
T ss_pred EEecCccccCccc
Confidence 8999999999974
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=35.34 E-value=16 Score=32.50 Aligned_cols=13 Identities=69% Similarity=1.086 Sum_probs=11.8
Q ss_pred eeecCCccccccc
Q 006855 2 IITNNGWGITPAT 14 (628)
Q Consensus 2 ~~~~~~~~~~~~~ 14 (628)
||||.|.||.|+.
T Consensus 48 iiTndGvGINP~q 60 (82)
T cd01766 48 IITNDGIGINPAQ 60 (82)
T ss_pred EEecCccccChhh
Confidence 8999999999973
No 44
>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=34.98 E-value=13 Score=34.44 Aligned_cols=20 Identities=5% Similarity=0.114 Sum_probs=9.8
Q ss_pred cchhhhHHHHHHHHHHHHHH
Q 006855 470 ASSKVSRDVREVLKLAVSQA 489 (628)
Q Consensus 470 ~~~kvsk~~~eli~l~~sqa 489 (628)
+.+.++.-.+.|+...+.+.
T Consensus 69 v~shi~h~e~~~vhv~rk~h 88 (101)
T PF09026_consen 69 VQSHILHLEHDLVHVTRKNH 88 (101)
T ss_dssp HHHHHHHHHHHHHHHHHH--
T ss_pred hhhhhhccccceEEeeeecc
Confidence 34445555556666655444
No 45
>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=34.77 E-value=1.3e+02 Score=23.22 Aligned_cols=50 Identities=16% Similarity=0.298 Sum_probs=35.6
Q ss_pred HHhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 123 AIEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 123 AV~~EDy~eAArLK~ai~~~~~~D~V~~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
+++.++|++|.++=..+-....+++-..+ ..-+-.+...+|.+|..+-..
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 46788999999887777777666665554 444557888899998876553
No 46
>KOG0316 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=31.53 E-value=28 Score=37.14 Aligned_cols=24 Identities=21% Similarity=0.463 Sum_probs=20.6
Q ss_pred CCCCceEeeccCCCCcEEEEEEEe
Q 006855 512 DPFDGLYVGAFGPYGTEVVQLRRK 535 (628)
Q Consensus 512 kP~~GLwVGdYG~HG~EfL~L~~~ 535 (628)
+|++|.-+-+|++||-|+|-+.-.
T Consensus 45 Np~rg~liktYsghG~EVlD~~~s 68 (307)
T KOG0316|consen 45 NPLRGALIKTYSGHGHEVLDAALS 68 (307)
T ss_pred cccccceeeeecCCCceeeecccc
Confidence 489999999999999999975443
No 47
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=30.36 E-value=25 Score=39.73 Aligned_cols=7 Identities=29% Similarity=0.491 Sum_probs=2.6
Q ss_pred cCceEEE
Q 006855 567 PAGEVTF 573 (628)
Q Consensus 567 PRGeVTF 573 (628)
||+-..|
T Consensus 354 PR~p~~f 360 (458)
T PF10446_consen 354 PRTPNPF 360 (458)
T ss_pred CCCCCcc
Confidence 3333333
No 48
>PF13838 Clathrin_H_link: Clathrin-H-link; PDB: 2XZG_A 3GD1_I 1BPO_C 1C9I_B 1C9L_A.
Probab=29.20 E-value=64 Score=27.83 Aligned_cols=24 Identities=25% Similarity=0.405 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHH
Q 006855 114 SLLKFQLEDAIEREDFEEAANLKN 137 (628)
Q Consensus 114 ~~Lk~QLe~AV~~EDy~eAArLK~ 137 (628)
+++..|.+.-+...+|++||++-.
T Consensus 7 ~l~~~~F~~l~~~g~y~eAA~~AA 30 (66)
T PF13838_consen 7 DLYVQQFNELFSQGQYEEAAKVAA 30 (66)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHH
Confidence 467788899999999999998743
No 49
>PF15469 Sec5: Exocyst complex component Sec5
Probab=27.83 E-value=2.2e+02 Score=27.37 Aligned_cols=46 Identities=22% Similarity=0.255 Sum_probs=38.7
Q ss_pred hhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhhh
Q 006855 126 REDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRLC 171 (628)
Q Consensus 126 ~EDy~eAArLK~ai~~~~~~D~V~~v~~~Lk~AI~EERY~DAA~LR 171 (628)
.+.-+.|.+|+.++.-++..-.+..+=+.|+++|...+|..|.+.-
T Consensus 64 l~~~~k~~~l~~~l~~l~r~~flF~LP~~L~~~i~~~dy~~~i~dY 109 (182)
T PF15469_consen 64 LERREKADKLRNALEFLQRNRFLFNLPSNLRECIKKGDYDQAINDY 109 (182)
T ss_pred HccHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHcCcHHHHHHHH
Confidence 4667788899999999999999999999999999999998886543
No 50
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=27.33 E-value=35 Score=39.96 Aligned_cols=29 Identities=21% Similarity=0.353 Sum_probs=25.2
Q ss_pred CChHHHHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 145 KDTVAEIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 145 ~D~V~~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
++.+..+..+|++|.++.+|+.||.|||.
T Consensus 622 ~~~i~~l~~~M~~aa~~l~FE~Aa~~RD~ 650 (655)
T TIGR00631 622 KKLIKQLEKEMKQAARNLEFEEAARLRDE 650 (655)
T ss_pred HHHHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence 34566788899999999999999999996
No 51
>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=26.83 E-value=64 Score=31.35 Aligned_cols=45 Identities=22% Similarity=0.361 Sum_probs=28.8
Q ss_pred HHHHHHHhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhh
Q 006855 118 FQLEDAIEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEER 163 (628)
Q Consensus 118 ~QLe~AV~~EDy~eAArLK~ai~~~~~~D~V~~v~~~Lk~AI~EER 163 (628)
.+|-.|++..||+.|..|-..|.. ..-|-++.-|..+|+-|.+=|
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 355667777777777777777764 444556666777777666544
No 52
>PRK01773 hscB co-chaperone HscB; Provisional
Probab=25.51 E-value=1.8e+02 Score=28.83 Aligned_cols=18 Identities=11% Similarity=0.143 Sum_probs=11.6
Q ss_pred cccccccCCC-CCCceeec
Q 006855 57 SKYKKVKHPL-PQPLCCLC 74 (628)
Q Consensus 57 ~~~~~~~~~~-~~~~~~~c 74 (628)
.-|+-.|.|. |..+-|..
T Consensus 57 ~AY~tLkdPl~RA~YLL~L 75 (173)
T PRK01773 57 DALQILKDPILRAEAIIAL 75 (173)
T ss_pred HHHHHHCChHHHHHHHHHh
Confidence 4588888886 44455544
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=25.32 E-value=32 Score=30.48 Aligned_cols=12 Identities=67% Similarity=1.082 Sum_probs=9.4
Q ss_pred eeecCCcccccc
Q 006855 2 IITNNGWGITPA 13 (628)
Q Consensus 2 ~~~~~~~~~~~~ 13 (628)
||||.|-||.|.
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
>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=24.90 E-value=63 Score=29.94 Aligned_cols=49 Identities=18% Similarity=0.241 Sum_probs=31.9
Q ss_pred CCChHHHHhhhhHHHHHhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHH
Q 006855 93 DWDWNRWTRHFSEIEQAESYASLLKFQLEDAIEREDFEEAANLKNAIAEA 142 (628)
Q Consensus 93 ~~dW~rW~rhF~~ve~~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~ 142 (628)
-.||..|.++....-.. .++..++.-....=..||++.||+==..|..+
T Consensus 70 ~~dW~~~~~~~~~~~~~-~~~~~~~~~~~~~Pt~~Dl~gA~~~l~RLQ~~ 118 (134)
T PF08336_consen 70 HQDWPKWEKLMEQPVGQ-EQLQNLQELRSKLPTEEDLEGAAEGLLRLQDT 118 (134)
T ss_pred HHhhhhHHHHHHHhhhH-HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHH
Confidence 47899998776655333 36666665555566789999998744444433
No 55
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=23.45 E-value=65 Score=37.81 Aligned_cols=27 Identities=19% Similarity=0.340 Sum_probs=23.7
Q ss_pred hHHHHHHHHHHHhhhhhhhhhhhhhhc
Q 006855 147 TVAEIMAQLKNAIDEERYHDASRLCRY 173 (628)
Q Consensus 147 ~V~~v~~~Lk~AI~EERY~DAA~LRD~ 173 (628)
.+-.+..+|++|-.+-+|+.||+|||+
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
>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=22.38 E-value=2.3e+02 Score=29.73 Aligned_cols=73 Identities=14% Similarity=0.188 Sum_probs=57.3
Q ss_pred CCChHHHHhhhhHHHHHhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhcCCh------HHHHHHHHHHHhhhhhhhh
Q 006855 93 DWDWNRWTRHFSEIEQAESYASLLKFQLEDAIEREDFEEAANLKNAIAEAASKDT------VAEIMAQLKNAIDEERYHD 166 (628)
Q Consensus 93 ~~dW~rW~rhF~~ve~~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~~D~------V~~v~~~Lk~AI~EERY~D 166 (628)
+-+=.+|..-|+.+-.-. .=++.+++..+++.||.+=.-+......+. -..+.+.|+.|+++++|+=
T Consensus 166 KtE~~~W~~LF~~lg~P~-------dLf~~cl~~~~l~tAa~yLlVl~~~e~~~~~~~~~~~~~al~LL~~a~~~~~w~L 238 (258)
T PF07064_consen 166 KTEVRYWPYLFDYLGSPR-------DLFEECLENGNLKTAASYLLVLQNLEGSSVVKDEESRQCALRLLVMALESGDWDL 238 (258)
T ss_pred hhHHHHHHHHHHhcCCHH-------HHHHHHHHcCcHHHHHHHHHHHHhcCCcchhhhHHHHHHHHHHHHHHHhcccHHH
Confidence 455677888887764332 225678899999999999999988887775 6678899999999999998
Q ss_pred hhhhhh
Q 006855 167 ASRLCR 172 (628)
Q Consensus 167 AA~LRD 172 (628)
|..|.+
T Consensus 239 c~eL~R 244 (258)
T PF07064_consen 239 CFELVR 244 (258)
T ss_pred HHHHHH
Confidence 877654
No 57
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=22.12 E-value=2.3e+02 Score=31.04 Aligned_cols=64 Identities=19% Similarity=0.221 Sum_probs=47.8
Q ss_pred HHhHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhhhhhhhhhhhh
Q 006855 108 QAESYASLLKFQLEDAIEREDFEEAANLKNAIAEAASKDTVAEIMAQLKNAIDEERYHDASRLCR 172 (628)
Q Consensus 108 ~~e~~~~~Lk~QLe~AV~~EDy~eAArLK~ai~~~~~~D~V~~v~~~Lk~AI~EERY~DAA~LRD 172 (628)
+.-.++.-||.|=+.+.+.+||++|.-+-.+.-++.-+|+|.--+|.= .-..=..|.+|.+=|.
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 466788999999999999999999999999999999999996543321 1122235666666554
No 58
>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=22.12 E-value=55 Score=33.64 Aligned_cols=29 Identities=31% Similarity=0.494 Sum_probs=19.4
Q ss_pred ccchhhhhhHHHhhhhccCCCceeEEEEec
Q 006855 297 EGVTEEGIKSVINFLKEKIPGLKVKVMNID 326 (628)
Q Consensus 297 ~~~~~EGi~~v~nflkd~iP~~KvKVlkV~ 326 (628)
+..|.|-|+ -...|+..+|++||+|+||.
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 345667774 45799999999999999998
No 59
>KOG2387 consensus CTP synthase (UTP-ammonia lyase) [Nucleotide transport and metabolism]
Probab=22.02 E-value=47 Score=38.11 Aligned_cols=53 Identities=30% Similarity=0.533 Sum_probs=38.1
Q ss_pred CCCCCceEeeccCC--CCcEEEEEEEecCCCCCCCCCCCccccceEEEEEEEcCCCCccCceE
Q 006855 511 LDPFDGLYVGAFGP--YGTEVVQLRRKYGQWSGEGEKSSDMEFFEYVEAVKLTGDLNVPAGEV 571 (628)
Q Consensus 511 ~kP~~GLwVGdYG~--HG~EfL~L~~~~g~~~~~d~~~sd~~~~~~LEAVKLTGDpNVPRGeV 571 (628)
-|||=-+=-|+++| ||==|++ . +| .+-+-|.--++|.-.|+||+|.|++-|.+
T Consensus 39 IDPYlN~DAGTmSPyEHGEVfVL-D--DG-----gEvDLDLGNYERfldi~Lt~dNNITtGKi 93 (585)
T KOG2387|consen 39 IDPYLNIDAGTMSPYEHGEVFVL-D--DG-----GEVDLDLGNYERFLDITLTRDNNITTGKI 93 (585)
T ss_pred eccceeccCcccCccccceEEEe-c--CC-----ceecccccchhhhccceeeccCCcccchH
Confidence 47888888899998 8854443 2 12 11123455577888999999999999987
No 60
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=21.99 E-value=51 Score=39.27 Aligned_cols=12 Identities=17% Similarity=0.454 Sum_probs=6.3
Q ss_pred hhhhHHHhhhhc
Q 006855 302 EGIKSVINFLKE 313 (628)
Q Consensus 302 EGi~~v~nflkd 313 (628)
|-|..++.+|-+
T Consensus 875 esld~lKewLds 886 (1001)
T COG5406 875 ESLDKLKEWLDS 886 (1001)
T ss_pred HHHHHHHHHhhh
Confidence 445555555544
No 61
>TIGR00714 hscB Fe-S protein assembly co-chaperone HscB. This model describes the small subunit, Hsc20 (20K heat shock cognate protein) of a pair of proteins Hsc66-Hsc20, related to the DnaK-DnaJ heat shock proteins, which also serve as molecular chaperones. Hsc20, unlike DnaJ, appears not to have chaperone activity on its own, but to act solely as a regulatory subunit for Hsc66 (i.e., to be a co-chaperone). The gene for Hsc20 in E. coli, hscB, is not induced by heat shock.
Probab=20.40 E-value=3.1e+02 Score=26.62 Aligned_cols=17 Identities=24% Similarity=0.362 Sum_probs=8.7
Q ss_pred ccccccCCC-CCCceeec
Q 006855 58 KYKKVKHPL-PQPLCCLC 74 (628)
Q Consensus 58 ~~~~~~~~~-~~~~~~~c 74 (628)
-|+-.+.+. |...-|..
T Consensus 45 AY~~L~~p~~Ra~ylL~l 62 (157)
T TIGR00714 45 AYQTLKDPLMRAEYMLSL 62 (157)
T ss_pred HHHHhCChhhhHHHHHHh
Confidence 355666664 44444443
No 62
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=20.28 E-value=65 Score=37.57 Aligned_cols=18 Identities=28% Similarity=0.453 Sum_probs=9.2
Q ss_pred HHHhhhhccCCCceeEEEEecC
Q 006855 306 SVINFLKEKIPGLKVKVMNIDI 327 (628)
Q Consensus 306 ~v~nflkd~iP~~KvKVlkV~~ 327 (628)
.+-.||+.+ ++||+|-.-
T Consensus 418 ~L~~fl~sK----~lki~N~~~ 435 (615)
T KOG0526|consen 418 KLFDFLNSK----GLKIRNEGR 435 (615)
T ss_pred HHHHHHhhc----CceeecCCc
Confidence 345555443 556666544
Done!