Query 038706
Match_columns 127
No_of_seqs 121 out of 164
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 02:32:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038706.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038706hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1311 DHHC-type Zn-finger pr 99.8 4.1E-19 8.8E-24 142.7 3.7 124 2-127 9-151 (299)
2 PF01529 zf-DHHC: DHHC palmito 99.3 3.7E-13 8E-18 99.3 1.9 68 59-127 2-86 (174)
3 KOG1312 DHHC-type Zn-finger pr 99.2 7E-12 1.5E-16 101.6 4.9 94 28-127 85-186 (341)
4 COG5273 Uncharacterized protei 99.2 3.5E-11 7.6E-16 98.3 5.6 68 56-127 68-147 (309)
5 KOG1315 Predicted DHHC-type Zn 99.0 5.9E-11 1.3E-15 97.0 1.9 116 7-127 13-147 (307)
6 KOG0509 Ankyrin repeat and DHH 98.7 2E-08 4.4E-13 87.9 6.9 36 91-127 417-458 (600)
7 KOG1313 DHHC-type Zn-finger pr 98.1 4.3E-06 9.2E-11 67.8 5.2 33 94-127 102-140 (309)
8 KOG1314 DHHC-type Zn-finger pr 98.0 6.6E-06 1.4E-10 68.7 4.1 65 54-127 58-129 (414)
9 PF09125 COX2-transmemb: Cytoc 62.7 11 0.00024 21.8 2.7 17 18-34 15-31 (38)
10 PHA03029 hypothetical protein; 52.2 12 0.00026 25.2 1.9 32 2-36 47-78 (92)
11 PF03839 Sec62: Translocation 51.6 23 0.0005 28.1 3.8 28 12-39 105-133 (224)
12 COG2839 Uncharacterized protei 48.3 43 0.00094 25.3 4.6 28 15-42 2-30 (160)
13 PF05814 DUF843: Baculovirus p 45.9 56 0.0012 22.1 4.4 52 20-72 3-55 (83)
14 PF12955 DUF3844: Domain of un 45.7 26 0.00056 24.6 2.9 22 13-34 67-88 (103)
15 PF14798 Ca_hom_mod: Calcium h 43.5 25 0.00054 28.2 2.9 19 14-32 178-196 (251)
16 PF10939 DUF2631: Protein of u 41.5 22 0.00048 23.0 1.9 26 6-31 23-49 (65)
17 PF11085 YqhR: Conserved membr 38.9 58 0.0012 25.0 4.1 24 15-38 70-93 (173)
18 PRK14584 hmsS hemin storage sy 37.2 1.3E+02 0.0029 22.5 5.7 21 14-34 21-41 (153)
19 PF07301 DUF1453: Protein of u 35.9 95 0.0021 23.1 4.8 70 7-81 25-94 (148)
20 smart00451 ZnF_U1 U1-like zinc 35.0 17 0.00038 19.3 0.6 12 94-105 3-14 (35)
21 PF08552 Kei1: Inositolphospho 34.4 1.4E+02 0.003 23.0 5.6 28 10-38 39-66 (189)
22 PF10831 DUF2556: Protein of u 33.1 64 0.0014 19.8 2.8 7 1-7 1-7 (53)
23 PF06220 zf-U1: U1 zinc finger 32.6 20 0.00044 20.4 0.6 11 95-105 4-14 (38)
24 COG2832 Uncharacterized protei 32.5 1E+02 0.0022 22.3 4.2 25 14-41 6-30 (119)
25 PF12874 zf-met: Zinc-finger o 30.9 18 0.00039 17.8 0.1 11 96-106 2-12 (25)
26 PHA02565 49 recombination endo 30.0 38 0.00081 25.6 1.8 26 91-119 17-43 (157)
27 PF12270 Cyt_c_ox_IV: Cytochro 29.8 2E+02 0.0043 21.2 5.5 56 18-73 10-70 (137)
28 PF11947 DUF3464: Protein of u 29.5 44 0.00095 25.0 2.1 31 46-76 102-132 (153)
29 PF07010 Endomucin: Endomucin; 29.0 68 0.0015 25.9 3.1 32 46-77 196-227 (259)
30 PF12666 PrgI: PrgI family pro 28.8 1.7E+02 0.0037 19.1 6.5 30 10-39 16-45 (93)
31 PF11289 DUF3092: Protein of u 28.5 1.4E+02 0.0031 23.9 4.8 43 33-75 102-146 (273)
32 COG1585 Membrane protein impli 26.8 2.2E+02 0.0047 20.7 5.4 31 32-63 40-70 (140)
33 PF12171 zf-C2H2_jaz: Zinc-fin 26.8 41 0.00088 17.1 1.1 12 95-106 2-13 (27)
34 PF11241 DUF3043: Protein of u 26.7 2.2E+02 0.0048 21.7 5.5 18 16-33 77-94 (170)
35 TIGR00383 corA magnesium Mg(2+ 26.2 1.5E+02 0.0032 23.6 4.7 32 23-54 271-302 (318)
36 COG0577 SalY ABC-type antimicr 25.8 1.4E+02 0.003 23.1 4.5 15 58-72 401-415 (419)
37 PF04341 DUF485: Protein of un 25.3 15 0.00032 24.7 -1.0 7 67-73 81-87 (91)
38 PF13240 zinc_ribbon_2: zinc-r 25.1 45 0.00097 16.9 1.0 16 96-111 1-16 (23)
39 PRK13476 cytochrome b6-f compl 24.8 91 0.002 23.5 3.1 10 65-74 61-70 (160)
40 TIGR00869 sec62 protein transl 24.7 1.8E+02 0.0038 23.3 4.8 27 14-40 115-142 (232)
41 TIGR01156 cytb6/f_IV cytochrom 24.6 1E+02 0.0022 23.2 3.3 12 64-75 60-71 (159)
42 PF13126 DUF3975: Protein of u 24.4 2.2E+02 0.0048 18.9 5.2 14 13-26 6-19 (85)
43 PF14143 YrhC: YrhC-like prote 23.4 2.2E+02 0.0049 18.6 4.8 20 18-37 14-33 (72)
44 PF04772 Flu_B_M2: Influenza B 23.3 1.3E+02 0.0028 20.7 3.3 19 11-29 2-20 (109)
45 PRK10845 colicin V production 22.6 2.2E+02 0.0048 20.9 4.8 24 15-38 30-53 (162)
46 PRK11715 inner membrane protei 22.4 1.3E+02 0.0029 26.1 4.0 51 8-62 326-376 (436)
47 PRK09546 zntB zinc transporter 22.1 1.4E+02 0.0031 24.0 4.0 16 24-39 278-293 (324)
48 PF06123 CreD: Inner membrane 21.7 1.5E+02 0.0032 25.8 4.1 50 9-62 321-370 (430)
49 KOG2927 Membrane component of 21.7 46 0.001 28.3 1.0 24 17-40 189-213 (372)
50 PF07535 zf-DBF: DBF zinc fing 21.5 20 0.00044 21.8 -0.8 17 94-110 5-21 (49)
51 PRK10527 hypothetical protein; 21.5 1.8E+02 0.004 20.8 4.0 19 23-41 12-30 (125)
52 KOG2612 Predicted integral mem 20.5 57 0.0012 22.6 1.1 48 59-106 37-86 (103)
53 PF04120 Iron_permease: Low af 20.2 2.6E+02 0.0057 20.3 4.7 29 25-53 23-52 (132)
No 1
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.75 E-value=4.1e-19 Score=142.70 Aligned_cols=124 Identities=24% Similarity=0.317 Sum_probs=80.0
Q ss_pred CcccCCCCCCChhHHHHHHHHHHHHHHH--HhhhhcccChhhHHHHHHHHHHHHHHHHHhhheeeeeecC-CCCCCccCC
Q 038706 2 ARRHGWQLPAHTFQVVAITVFFLLSVAY--YAFFAPFLGTELYEYVAIGVYSVLAFCVFILYVRCTGIDP-ADPGILIEP 78 (127)
Q Consensus 2 ~R~nGw~~Plh~~Qv~~W~~~~~l~~~~--f~~~iP~l~~~~~~~~~~~v~~~l~~~~~~~~~~~t~iDP-aD~~v~~~~ 78 (127)
.|+.||.....+..+..++.+++..... +++..+.++. .+....+.+.++++....++....+...+ +||++..+.
T Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~if~~~~~~~~~~~~~~~~sdpg~~p~~ 87 (299)
T KOG1311|consen 9 IPRRGGRILDPPVALPVLVTYVLLVGSETFFVFLPPLLPR-GGVSPAVLVLGAIFFLLNILNLMLACFRMLSDPGIVPRA 87 (299)
T ss_pred ccCCCceeeccccchhHHHHHHHHhhheEEEEEEeeecCC-cccchHHHHHHHHHHHHHHHHHHHHHhcccCCCceecCc
Confidence 4677888888888888888877777666 5555566664 12222233333333332222222222222 666655432
Q ss_pred -Cc---------cccccccCCCCCCCCccccccccccCCCCcc------cCCCCCCCceeccCCC
Q 038706 79 -DK---------ISAYKLQNDTDLPGKYSDNSQIRVLSAESGR------IHRFDGIKHTWLLNVI 127 (127)
Q Consensus 79 -~~---------~~~drsk~~hvi~n~~C~lC~i~V~~~tKHC------v~~FDh~hc~WlnNci 127 (127)
+. ...+..+++++++..||+.|+..+-+||||| |.|||| ||+|+||||
T Consensus 88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~rPpRs~HCsvC~~CV~rfDH-HC~WvnnCV 151 (299)
T KOG1311|consen 88 DDEQIEDPERAPLYKNVDVNGIQVEWKYCDTCQLYRPPRSSHCSVCNNCVLRFDH-HCPWLNNCI 151 (299)
T ss_pred ccCCCCCccccccCCCcccCCcccceEEcCcCcccCCCCcccchhhcccccccCC-CCCCccceE
Confidence 11 1233445777888899999999999999997 899999 899999998
No 2
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=99.33 E-value=3.7e-13 Score=99.28 Aligned_cols=68 Identities=24% Similarity=0.196 Sum_probs=49.2
Q ss_pred hhheeeeeecCCCCCCccC-C------C----ccccccccCCCCCCCCccccccccccCCCCcc------cCCCCCCCce
Q 038706 59 ILYVRCTGIDPADPGILIE-P------D----KISAYKLQNDTDLPGKYSDNSQIRVLSAESGR------IHRFDGIKHT 121 (127)
Q Consensus 59 ~~~~~~t~iDPaD~~v~~~-~------~----~~~~drsk~~hvi~n~~C~lC~i~V~~~tKHC------v~~FDh~hc~ 121 (127)
++++++..+||........ . . ....+....+...+..+|..|++.--.||||| |.+||| ||-
T Consensus 2 ~~~~~~~~~dPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~kp~Rs~HC~~C~~CV~~~DH-HC~ 80 (174)
T PF01529_consen 2 WSYFLTIFIDPGYVPRSNPDEDQRQEEKEEEQNQSIDSPEDDENGELKYCSTCKIIKPPRSHHCRVCNRCVLRFDH-HCP 80 (174)
T ss_pred EEehhhheECCcccCCccccccccccccccccchhhhhhccccCCCCEECcccCCcCCCcceeccccccccccccc-cch
Confidence 4577888999988776610 0 0 00122223344455678999999989999998 799999 899
Q ss_pred eccCCC
Q 038706 122 WLLNVI 127 (127)
Q Consensus 122 WlnNci 127 (127)
|+||||
T Consensus 81 w~~~cI 86 (174)
T PF01529_consen 81 WLGNCI 86 (174)
T ss_pred hhcccc
Confidence 999998
No 3
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.25 E-value=7e-12 Score=101.56 Aligned_cols=94 Identities=19% Similarity=0.183 Sum_probs=55.5
Q ss_pred HHHhhhhcccChhhHHHHHHHHHHHHHHHHHhhheeeeeecCCCCCCccCCCccccccccCCCCC--CCCcccccccccc
Q 038706 28 AYYAFFAPFLGTELYEYVAIGVYSVLAFCVFILYVRCTGIDPADPGILIEPDKISAYKLQNDTDL--PGKYSDNSQIRVL 105 (127)
Q Consensus 28 ~~f~~~iP~l~~~~~~~~~~~v~~~l~~~~~~~~~~~t~iDPaD~~v~~~~~~~~~drsk~~hvi--~n~~C~lC~i~V~ 105 (127)
..+.+..|.++.+.... +.++.. +++-.++...+...||+..+-..+.... .+-.-|.+| +|..|.-|+++=-
T Consensus 85 ~esfiy~~~l~lsl~~~--il~~l~-vivp~i~f~ltc~snpg~i~k~n~s~~~--~~ypYDy~if~k~~kCSTCki~KP 159 (341)
T KOG1312|consen 85 WESFIYCQELELSLHYL--ILPYLL-VIVPLIFFTLTCGSNPGIITKANESLFL--HVYPYDYVIFPKNVKCSTCKIRKP 159 (341)
T ss_pred heeeEeccchhhhHHHH--HHHHHH-HHHHHHHHhhhhcCCCCccchhhhccce--eccCccceeecCCCccccccCCCc
Confidence 44556667665532222 222222 2222333444556777766533222111 111233333 4668999999888
Q ss_pred CCCCcc------cCCCCCCCceeccCCC
Q 038706 106 SAESGR------IHRFDGIKHTWLLNVI 127 (127)
Q Consensus 106 ~~tKHC------v~~FDh~hc~WlnNci 127 (127)
+||||| |.|||| ||.|.||||
T Consensus 160 ARSKHCsiCNrCV~rfDH-HCiWiNNCI 186 (341)
T KOG1312|consen 160 ARSKHCSICNRCVHRFDH-HCIWINNCI 186 (341)
T ss_pred cccccchHHHHHHHHhcc-ceEeeeccc
Confidence 999998 799999 899999998
No 4
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=99.17 E-value=3.5e-11 Score=98.30 Aligned_cols=68 Identities=15% Similarity=0.153 Sum_probs=47.6
Q ss_pred HHHhhheeeeeecCCCCC--CccCCC----ccccccccCCCCCCCCccccccccccCCCCcc------cCCCCCCCceec
Q 038706 56 CVFILYVRCTGIDPADPG--ILIEPD----KISAYKLQNDTDLPGKYSDNSQIRVLSAESGR------IHRFDGIKHTWL 123 (127)
Q Consensus 56 ~~~~~~~~~t~iDPaD~~--v~~~~~----~~~~drsk~~hvi~n~~C~lC~i~V~~~tKHC------v~~FDh~hc~Wl 123 (127)
....+++.....||.-+. .-..+. ++..+ .++..+..+|.-|+..--+||||| |.+||| ||-|+
T Consensus 68 ~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~C~~C~~~KP~RS~HC~~Cn~CV~k~DH-HC~Wi 143 (309)
T COG5273 68 LASFSYLLLLVSDPGYLGENITLSGYRETISRLLD---DGKFGTENFCSTCNIYKPPRSHHCSICNRCVLKFDH-HCPWI 143 (309)
T ss_pred hHHHhhHHHhhcCCCccCccccccchhhhhhhhhh---cCccccceeccccccccCCCCccchhhcchhhccCc-cCccc
Confidence 455677777777887664 111111 11222 233444569999999999999998 799999 89999
Q ss_pred cCCC
Q 038706 124 LNVI 127 (127)
Q Consensus 124 nNci 127 (127)
||||
T Consensus 144 ~nCV 147 (309)
T COG5273 144 NNCV 147 (309)
T ss_pred cccc
Confidence 9998
No 5
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=99.05 E-value=5.9e-11 Score=97.02 Aligned_cols=116 Identities=16% Similarity=0.236 Sum_probs=83.5
Q ss_pred CCCCCChhHHHHHHHHHHHHHHHHhhhhcccChhhHHHHHHHHHHHHHHHHHhhheeeeeecCCCCCCccCCCccccccc
Q 038706 7 WQLPAHTFQVVAITVFFLLSVAYYAFFAPFLGTELYEYVAIGVYSVLAFCVFILYVRCTGIDPADPGILIEPDKISAYKL 86 (127)
Q Consensus 7 w~~Plh~~Qv~~W~~~~~l~~~~f~~~iP~l~~~~~~~~~~~v~~~l~~~~~~~~~~~t~iDPaD~~v~~~~~~~~~drs 86 (127)
|..|+...++++|.++++.+. +.++.+..+.+..+...+++.++++..+.+.++..+||.-+......+.+..++.
T Consensus 13 ~~~~~~i~~~~~~~yy~~v~~----~c~~~i~~~~~~~~~ll~~~~ll~m~~~sy~~~vf~~pg~vp~~~~~~~~~~~~~ 88 (307)
T KOG1315|consen 13 WIPVLIILLVIGWTYYVYVAV----LCILSISLTIPSVLLLLLFHLLLIMFLWSYFRTVFTDPGRVPDSYRPSVEDEDSL 88 (307)
T ss_pred chhheeeeeeEEEEEEEeehh----hhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHheeEecCCCCccccCCCcCccccc
Confidence 778888888888888765442 2334444333455556677777788889999999999998877765544433332
Q ss_pred cCCCC-------------CCCCccccccccccCCCCcc------cCCCCCCCceeccCCC
Q 038706 87 QNDTD-------------LPGKYSDNSQIRVLSAESGR------IHRFDGIKHTWLLNVI 127 (127)
Q Consensus 87 k~~hv-------------i~n~~C~lC~i~V~~~tKHC------v~~FDh~hc~WlnNci 127 (127)
++..+ -+-.+|+-|+.-.-+||-|| |-++|| ||-|.|||+
T Consensus 89 ~~~~~~~~~~~~~~~~~~g~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDH-HCpWi~nCV 147 (307)
T KOG1315|consen 89 ENGSDNERDLPGYTRTSDGAVRYCDKCKCIKPDRAHHCSVCNRCVLKMDH-HCPWINNCV 147 (307)
T ss_pred cccCcccccceeeEecCCCCceeecccccccCCccccchhhhhhhhcccc-CCcceecee
Confidence 22222 24468999999888999998 688999 899999996
No 6
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=98.75 E-value=2e-08 Score=87.86 Aligned_cols=36 Identities=25% Similarity=0.431 Sum_probs=32.4
Q ss_pred CCCCCccccccccccCCCCcc------cCCCCCCCceeccCCC
Q 038706 91 DLPGKYSDNSQIRVLSAESGR------IHRFDGIKHTWLLNVI 127 (127)
Q Consensus 91 vi~n~~C~lC~i~V~~~tKHC------v~~FDh~hc~WlnNci 127 (127)
+.||.||.-|-++.-.+|||| |+|||| ||=|.+|||
T Consensus 417 ~~en~FC~~clirKp~rSkhc~vcnrcVarfDH-hCPwi~ncV 458 (600)
T KOG0509|consen 417 DLENRFCLTCLIRKPLRSKHCSVCNRCVARFDH-HCPWIGNCV 458 (600)
T ss_pred cccccceeeeeeecCCccchhhhhHHHHhcccc-CCCcccccc
Confidence 345579999999999999998 799999 899999997
No 7
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=98.12 E-value=4.3e-06 Score=67.81 Aligned_cols=33 Identities=9% Similarity=0.292 Sum_probs=30.3
Q ss_pred CCccccccccccCCCCcc------cCCCCCCCceeccCCC
Q 038706 94 GKYSDNSQIRVLSAESGR------IHRFDGIKHTWLLNVI 127 (127)
Q Consensus 94 n~~C~lC~i~V~~~tKHC------v~~FDh~hc~WlnNci 127 (127)
+++|.-|.-.=+++|-|| |-+-|| ||-|+|||.
T Consensus 102 ~SfC~KC~~pK~prTHHCsiC~kCVL~MDH-HCPwinnCV 140 (309)
T KOG1313|consen 102 DSFCNKCNYPKSPRTHHCSICNKCVLKMDH-HCPWINNCV 140 (309)
T ss_pred ccHHhhcCCCCCCCcchhhHHhhHhhcccc-CCchhhccc
Confidence 579999999999999998 788999 899999995
No 8
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=97.99 E-value=6.6e-06 Score=68.69 Aligned_cols=65 Identities=12% Similarity=0.186 Sum_probs=49.2
Q ss_pred HHHHHhhheeeeeecCCCCCCccCCCccccccccCCCC-CCCCccccccccccCCCCcc------cCCCCCCCceeccCC
Q 038706 54 AFCVFILYVRCTGIDPADPGILIEPDKISAYKLQNDTD-LPGKYSDNSQIRVLSAESGR------IHRFDGIKHTWLLNV 126 (127)
Q Consensus 54 ~~~~~~~~~~~t~iDPaD~~v~~~~~~~~~drsk~~hv-i~n~~C~lC~i~V~~~tKHC------v~~FDh~hc~WlnNc 126 (127)
..++.+-++.|+...|.-+-.-.++.. ..| +.-+||.-||-.=-++|-|| |-.-|| ||-|.|||
T Consensus 58 ~~m~~~ny~~A~~~gPG~vp~~wkPe~--------~~D~~~lqfCk~CqgYKapRSHHCrkCnrCvmkMDH-HCPWinnC 128 (414)
T KOG1314|consen 58 TSMILYNYFNAIFTGPGFVPLGWKPEN--------PKDEMFLQFCKKCQGYKAPRSHHCRKCNRCVMKMDH-HCPWINNC 128 (414)
T ss_pred HHHHHHHHHHHHhcCCCCCCCCCCCCC--------ChhHHHHHHHhhccCcCCCccccchHHHHHHHhhcc-CCcchhhc
Confidence 344667889999999987765443322 222 33469999999888999998 677999 89999999
Q ss_pred C
Q 038706 127 I 127 (127)
Q Consensus 127 i 127 (127)
.
T Consensus 129 V 129 (414)
T KOG1314|consen 129 V 129 (414)
T ss_pred c
Confidence 5
No 9
>PF09125 COX2-transmemb: Cytochrome C oxidase subunit II, transmembrane; InterPro: IPR015209 This N-terminal domain forms the transmembrane region in subunit II of cytochrome c oxidase from Thermus thermophilus. This domain adopts a tertiary structure consisting of two antiparallel transmembrane helices, in a transmembrane helix hairpin fold []. ; PDB: 1EHK_B 2QPE_B 3S8F_B 4EV3_B 3BVD_B 3S8G_B 3EH3_B 3S3C_B 3S39_B 3QJQ_B ....
Probab=62.69 E-value=11 Score=21.82 Aligned_cols=17 Identities=12% Similarity=0.165 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHhhhh
Q 038706 18 AITVFFLLSVAYYAFFA 34 (127)
Q Consensus 18 ~W~~~~~l~~~~f~~~i 34 (127)
+|++|.+..+..|+.++
T Consensus 15 ~Wi~F~l~mi~vFi~li 31 (38)
T PF09125_consen 15 GWIAFALAMILVFIALI 31 (38)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 68888877777666654
No 10
>PHA03029 hypothetical protein; Provisional
Probab=52.18 E-value=12 Score=25.21 Aligned_cols=32 Identities=28% Similarity=0.357 Sum_probs=24.3
Q ss_pred CcccCCCCCCChhHHHHHHHHHHHHHHHHhhhhcc
Q 038706 2 ARRHGWQLPAHTFQVVAITVFFLLSVAYYAFFAPF 36 (127)
Q Consensus 2 ~R~nGw~~Plh~~Qv~~W~~~~~l~~~~f~~~iP~ 36 (127)
+||.||-|=+ ..+-|++=+.++.++|.|-+=+
T Consensus 47 srrkg~ywfl---nf~fwllp~al~a~fyffsiw~ 78 (92)
T PHA03029 47 SRRKGLYWFL---NFLFWLLPFALAAAFYFFSIWF 78 (92)
T ss_pred HHhhhHHHHH---HHHHHHHHHHHHHHHHHHHhhh
Confidence 4888888754 4567888888888888876643
No 11
>PF03839 Sec62: Translocation protein Sec62; InterPro: IPR004728 Members of the NSCC2 family have been sequenced from various yeast, fungal and animals species including Saccharomyces cerevisiae, Drosophila melanogaster and Homo sapiens. These proteins are the Sec62 proteins, believed to be associated with the Sec61 and Sec63 constituents of the general protein secretary systems of yeast microsomes. They are also the non-selective cation (NS) channels of the mammalian cytoplasmic membrane. The yeast Sec62 protein has been shown to be essential for cell growth. The mammalian NS channel proteins have been implicated in platelet derived growth factor(PGDF) dependent single channel current in fibroblasts. These channels are essentially closed in serum deprived tissue-culture cells and are specifically opened by exposure to PDGF. These channels are reported to exhibit equal selectivity for Na+, K+ and Cs+ with low permeability to Ca2+, and no permeability to anions.; GO: 0008565 protein transporter activity, 0015031 protein transport, 0016021 integral to membrane
Probab=51.61 E-value=23 Score=28.05 Aligned_cols=28 Identities=11% Similarity=0.093 Sum_probs=18.1
Q ss_pred ChhHHHHHHH-HHHHHHHHHhhhhcccCh
Q 038706 12 HTFQVVAITV-FFLLSVAYYAFFAPFLGT 39 (127)
Q Consensus 12 h~~Qv~~W~~-~~~l~~~~f~~~iP~l~~ 39 (127)
.|-|...|+. +++++.+.-+.+.|+-|.
T Consensus 105 e~~~~~~~l~~~~~~~~v~a~~lFPlWP~ 133 (224)
T PF03839_consen 105 EPSPLMQYLIGALLLVGVIAICLFPLWPR 133 (224)
T ss_pred cCCcHHHHHHHHHHHHHHHHHHhhhcChH
Confidence 4556666766 444455556777898886
No 12
>COG2839 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.27 E-value=43 Score=25.26 Aligned_cols=28 Identities=14% Similarity=0.301 Sum_probs=22.2
Q ss_pred HHHHHHHH-HHHHHHHHhhhhcccChhhH
Q 038706 15 QVVAITVF-FLLSVAYYAFFAPFLGTELY 42 (127)
Q Consensus 15 Qv~~W~~~-~~l~~~~f~~~iP~l~~~~~ 42 (127)
|++-|+++ .++.+.+-+.+.|.+|....
T Consensus 2 ~~l~wlli~al~lvg~vGlv~PaiPs~ll 30 (160)
T COG2839 2 TILLWLLILALFLVGFVGLVYPAIPSTLL 30 (160)
T ss_pred ccHHHHHHHHHHHHHHHhhhhcccchHHH
Confidence 67889988 66778888899999997443
No 13
>PF05814 DUF843: Baculovirus protein of unknown function (DUF843); InterPro: IPR008561 This family consists of several unidentified baculovirus proteins of around 85 residues long with no known function.
Probab=45.92 E-value=56 Score=22.12 Aligned_cols=52 Identities=21% Similarity=0.271 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHhhhhcccChhhHHHHHHH-HHHHHHHHHHhhheeeeeecCCCC
Q 038706 20 TVFFLLSVAYYAFFAPFLGTELYEYVAIG-VYSVLAFCVFILYVRCTGIDPADP 72 (127)
Q Consensus 20 ~~~~~l~~~~f~~~iP~l~~~~~~~~~~~-v~~~l~~~~~~~~~~~t~iDPaD~ 72 (127)
+.+.+++.+.++|+.-=-.. .-+.+.+. +..+++++++-.++.=+..+|+|-
T Consensus 3 i~~~~~~Li~~~fi~~k~~~-~s~li~~~LilfviF~~~L~~yy~kteS~~~dL 55 (83)
T PF05814_consen 3 IYSLFLALIVLGFIFDKNEG-FSELIITLLILFVIFFCVLQVYYIKTESTPQDL 55 (83)
T ss_pred HHHHHHHHHHHHHHHccccc-hHHHHHHHHHHHHHHHHHHHHHHcCCCCcHHHH
Confidence 34445555566665543321 12233332 233444445544555566666663
No 14
>PF12955 DUF3844: Domain of unknown function (DUF3844); InterPro: IPR024382 This presumed domain is found in fungal species. It contains 8 largely conserved cysteine residues. This domain is found in proteins thought to be located in the endoplasmic reticulum.
Probab=45.67 E-value=26 Score=24.63 Aligned_cols=22 Identities=18% Similarity=-0.025 Sum_probs=17.2
Q ss_pred hhHHHHHHHHHHHHHHHHhhhh
Q 038706 13 TFQVVAITVFFLLSVAYYAFFA 34 (127)
Q Consensus 13 ~~Qv~~W~~~~~l~~~~f~~~i 34 (127)
||++++|+..++++++.+++-.
T Consensus 67 ~F~L~~~~ti~lv~~~~~~I~l 88 (103)
T PF12955_consen 67 PFWLFAGFTIALVVLVAGAIGL 88 (103)
T ss_pred hhhHHHHHHHHHHHHHHHHHHH
Confidence 7889999998888777776543
No 15
>PF14798 Ca_hom_mod: Calcium homeostasis modulator
Probab=43.47 E-value=25 Score=28.23 Aligned_cols=19 Identities=16% Similarity=0.202 Sum_probs=13.9
Q ss_pred hHHHHHHHHHHHHHHHHhh
Q 038706 14 FQVVAITVFFLLSVAYYAF 32 (127)
Q Consensus 14 ~Qv~~W~~~~~l~~~~f~~ 32 (127)
-|+++|++.++.+++.++.
T Consensus 178 SQ~lGW~LI~~~~i~a~l~ 196 (251)
T PF14798_consen 178 SQVLGWILIALVIILAFLV 196 (251)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3899999888776666553
No 16
>PF10939 DUF2631: Protein of unknown function (DUF2631) ; InterPro: IPR024341 This entry represents a bacterial protein of unknown function.
Probab=41.52 E-value=22 Score=23.00 Aligned_cols=26 Identities=15% Similarity=0.404 Sum_probs=19.4
Q ss_pred CCC-CCCChhHHHHHHHHHHHHHHHHh
Q 038706 6 GWQ-LPAHTFQVVAITVFFLLSVAYYA 31 (127)
Q Consensus 6 Gw~-~Plh~~Qv~~W~~~~~l~~~~f~ 31 (127)
||+ -+....|+.+|+..++|..+.++
T Consensus 23 GWhg~~~r~~~i~g~~~~~~Ll~ml~G 49 (65)
T PF10939_consen 23 GWHGENPRAFRIAGWISALFLLAMLIG 49 (65)
T ss_pred cccCCCCceeeehHHHHHHHHHHHHhc
Confidence 555 46778999999998877766554
No 17
>PF11085 YqhR: Conserved membrane protein YqhR; InterPro: IPR024563 This family of proteins is conserved in the Bacillaceae family of the Firmicutes. Their function is not known.
Probab=38.94 E-value=58 Score=24.96 Aligned_cols=24 Identities=13% Similarity=0.275 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHhhhhcccC
Q 038706 15 QVVAITVFFLLSVAYYAFFAPFLG 38 (127)
Q Consensus 15 Qv~~W~~~~~l~~~~f~~~iP~l~ 38 (127)
|+++|+++.+++++.-.+.--++.
T Consensus 70 ~~igi~~~gv~Si~aAllY~~~l~ 93 (173)
T PF11085_consen 70 NLIGIVFIGVFSIVAALLYYALLK 93 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 778888888877665555444443
No 18
>PRK14584 hmsS hemin storage system protein; Provisional
Probab=37.19 E-value=1.3e+02 Score=22.52 Aligned_cols=21 Identities=19% Similarity=0.104 Sum_probs=14.4
Q ss_pred hHHHHHHHHHHHHHHHHhhhh
Q 038706 14 FQVVAITVFFLLSVAYYAFFA 34 (127)
Q Consensus 14 ~Qv~~W~~~~~l~~~~f~~~i 34 (127)
+-+++|+.|+++.+.++.-.+
T Consensus 21 lT~~aW~gfi~l~~~~~~~~~ 41 (153)
T PRK14584 21 LTALAWFGFLFLLVRGLLEMI 41 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 346899998887766665433
No 19
>PF07301 DUF1453: Protein of unknown function (DUF1453); InterPro: IPR009916 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown. Members of this family seem to be found exclusively in the Order Bacillales.
Probab=35.90 E-value=95 Score=23.11 Aligned_cols=70 Identities=16% Similarity=0.266 Sum_probs=41.2
Q ss_pred CCCCCChhHHHHHHHHHHHHHHHHhhhhcccChhhHHHHHHHHHHHHHHHHHhhheeeeeecCCCCCCccCCCcc
Q 038706 7 WQLPAHTFQVVAITVFFLLSVAYYAFFAPFLGTELYEYVAIGVYSVLAFCVFILYVRCTGIDPADPGILIEPDKI 81 (127)
Q Consensus 7 w~~Plh~~Qv~~W~~~~~l~~~~f~~~iP~l~~~~~~~~~~~v~~~l~~~~~~~~~~~t~iDPaD~~v~~~~~~~ 81 (127)
.+.|.++.-++-=.+ +++.+...+..|.....+++.+...+.|.+ ++.......--.++ |..+..|+++.
T Consensus 25 ~~rP~~~kkIIlPpl--fmstG~lmf~~P~~~~~~~~~l~A~~~G~l-Fs~~Li~ts~fEvr--d~~Iy~krSka 94 (148)
T PF07301_consen 25 SKRPVNGKKIILPPL--FMSTGFLMFVFPFFRPPWLEVLEAFLVGAL-FSYPLIKTSKFEVR--DGQIYLKRSKA 94 (148)
T ss_pred ccCCCCcchHHHhHH--HHHHHHHHHhCccccchHHHHHHHHHHHHH-HHHHHHHhceEEEE--CCeEEEecccc
Confidence 456665555433332 266777778899977766777666666665 44433333333344 77777665543
No 20
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=35.05 E-value=17 Score=19.28 Aligned_cols=12 Identities=17% Similarity=0.312 Sum_probs=10.0
Q ss_pred CCcccccccccc
Q 038706 94 GKYSDNSQIRVL 105 (127)
Q Consensus 94 n~~C~lC~i~V~ 105 (127)
+.+|.+|+..+.
T Consensus 3 ~~~C~~C~~~~~ 14 (35)
T smart00451 3 GFYCKLCNVTFT 14 (35)
T ss_pred CeEccccCCccC
Confidence 468999999776
No 21
>PF08552 Kei1: Inositolphosphorylceramide synthase subunit Kei1; InterPro: IPR013862 This entry indicates Golgi proteins of unknown function.
Probab=34.44 E-value=1.4e+02 Score=22.99 Aligned_cols=28 Identities=18% Similarity=0.393 Sum_probs=18.7
Q ss_pred CCChhHHHHHHHHHHHHHHHHhhhhcccC
Q 038706 10 PAHTFQVVAITVFFLLSVAYYAFFAPFLG 38 (127)
Q Consensus 10 Plh~~Qv~~W~~~~~l~~~~f~~~iP~l~ 38 (127)
|+++.|+..-+ +.++++..|+...|-+.
T Consensus 39 ~ls~~Q~s~Yl-ySi~~L~~~~~~l~~Ir 66 (189)
T PF08552_consen 39 PLSFLQLSMYL-YSILALVLFAWGLPHIR 66 (189)
T ss_pred CCCHHHHHHHH-HHHHHHHHHHHHhHHhc
Confidence 78899976544 34466667777776553
No 22
>PF10831 DUF2556: Protein of unknown function (DUF2556); InterPro: IPR022540 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=33.09 E-value=64 Score=19.78 Aligned_cols=7 Identities=43% Similarity=0.899 Sum_probs=3.5
Q ss_pred CCcccCC
Q 038706 1 MARRHGW 7 (127)
Q Consensus 1 ~~R~nGw 7 (127)
|.||-||
T Consensus 1 mirky~w 7 (53)
T PF10831_consen 1 MIRKYWW 7 (53)
T ss_pred Ccceehh
Confidence 4455554
No 23
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=32.55 E-value=20 Score=20.42 Aligned_cols=11 Identities=18% Similarity=0.223 Sum_probs=5.2
Q ss_pred Ccccccccccc
Q 038706 95 KYSDNSQIRVL 105 (127)
Q Consensus 95 ~~C~lC~i~V~ 105 (127)
.||+.|++.+.
T Consensus 4 yyCdyC~~~~~ 14 (38)
T PF06220_consen 4 YYCDYCKKYLT 14 (38)
T ss_dssp -B-TTT--B-S
T ss_pred eecccccceec
Confidence 58999999984
No 24
>COG2832 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.53 E-value=1e+02 Score=22.29 Aligned_cols=25 Identities=20% Similarity=0.422 Sum_probs=18.2
Q ss_pred hHHHHHHHHHHHHHHHHhhhhcccChhh
Q 038706 14 FQVVAITVFFLLSVAYYAFFAPFLGTEL 41 (127)
Q Consensus 14 ~Qv~~W~~~~~l~~~~f~~~iP~l~~~~ 41 (127)
+++++|+ .++.+.-|++.|.||..+
T Consensus 6 ~i~iGfl---~l~LGIiGifLPlLPTTP 30 (119)
T COG2832 6 YIILGFL---SLALGIIGIFLPLLPTTP 30 (119)
T ss_pred HHHHHHH---HHHHHHHHhcCcccCCcH
Confidence 4555554 467788899999999854
No 25
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=30.87 E-value=18 Score=17.83 Aligned_cols=11 Identities=27% Similarity=0.259 Sum_probs=8.6
Q ss_pred ccccccccccC
Q 038706 96 YSDNSQIRVLS 106 (127)
Q Consensus 96 ~C~lC~i~V~~ 106 (127)
+|.+|+....+
T Consensus 2 ~C~~C~~~f~s 12 (25)
T PF12874_consen 2 YCDICNKSFSS 12 (25)
T ss_dssp EETTTTEEESS
T ss_pred CCCCCCCCcCC
Confidence 69999987654
No 26
>PHA02565 49 recombination endonuclease VII; Provisional
Probab=29.97 E-value=38 Score=25.58 Aligned_cols=26 Identities=4% Similarity=-0.023 Sum_probs=17.3
Q ss_pred CCCCCccccccccccCC-CCcccCCCCCCC
Q 038706 91 DLPGKYSDNSQIRVLSA-ESGRIHRFDGIK 119 (127)
Q Consensus 91 vi~n~~C~lC~i~V~~~-tKHCv~~FDh~h 119 (127)
+.|++.|.+|+....+. .+-++ ||.|
T Consensus 17 e~Q~G~CaiC~~~l~~~~~~~~v---DHDH 43 (157)
T PHA02565 17 EAQNGICPLCKRELDGDVSKNHL---DHDH 43 (157)
T ss_pred HHhCCcCCCCCCccCCCcccccc---CCCC
Confidence 35788999999876643 33333 7754
No 27
>PF12270 Cyt_c_ox_IV: Cytochrome c oxidase subunit IV; InterPro: IPR021050 This family of proteins is found in bacteria. Proteins in this family are approximately 140 amino acids in length. This family is the fourth subunit of the cytochrome c oxidase complex. This subunit does not have a catalytic capacity but instead, is required for assembly and/or stability of the complex []. ; GO: 0004129 cytochrome-c oxidase activity, 0055114 oxidation-reduction process, 0016021 integral to membrane
Probab=29.81 E-value=2e+02 Score=21.19 Aligned_cols=56 Identities=29% Similarity=0.494 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHhhhhcccChh--hHHHHHHHHHHHHHHHH-Hhhheeee--eecCCCCC
Q 038706 18 AITVFFLLSVAYYAFFAPFLGTE--LYEYVAIGVYSVLAFCV-FILYVRCT--GIDPADPG 73 (127)
Q Consensus 18 ~W~~~~~l~~~~f~~~iP~l~~~--~~~~~~~~v~~~l~~~~-~~~~~~~t--~iDPaD~~ 73 (127)
.-.+|++.+.+.|++..-....+ +...++..+.+.+.+++ .++.+++- ...|+|..
T Consensus 10 ~l~~Ff~~~~~vY~~~t~~~~~~~E~~Gt~aL~ls~~l~~mig~yl~~~~rr~~~rPED~~ 70 (137)
T PF12270_consen 10 GLAVFFLVVAVVYGFWTKWSGDGGEWVGTVALVLSGGLALMIGFYLRFTARRIGPRPEDRE 70 (137)
T ss_pred HHHHHHHHHHHHHHHHHhccCCCCCcchHHHHHHHHHHHHHHHHHHHHHHhhCCCCCcccc
Confidence 34567777788888888766111 13344444555555443 34444443 45566654
No 28
>PF11947 DUF3464: Protein of unknown function (DUF3464); InterPro: IPR021855 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 137 to 196 amino acids in length.
Probab=29.51 E-value=44 Score=25.03 Aligned_cols=31 Identities=19% Similarity=0.179 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHhhheeeeeecCCCCCCcc
Q 038706 46 AIGVYSVLAFCVFILYVRCTGIDPADPGILI 76 (127)
Q Consensus 46 ~~~v~~~l~~~~~~~~~~~t~iDPaD~~v~~ 76 (127)
...++.++.++=+.+.+-.++=||+.++...
T Consensus 102 ~S~~~Fg~gllGisYGilSaSWD~~r~GSll 132 (153)
T PF11947_consen 102 VSLVFFGLGLLGISYGILSASWDPEREGSLL 132 (153)
T ss_pred HHHHHHHHHHHhhhhhhcccccCCCCCCCcc
Confidence 3334434444456677788889999887654
No 29
>PF07010 Endomucin: Endomucin; InterPro: IPR010740 This family consists of several mammalian endomucin proteins. Endomucin is an early endothelial-specific antigen that is also expressed on putative hematopoietic progenitor cells.
Probab=28.97 E-value=68 Score=25.90 Aligned_cols=32 Identities=28% Similarity=0.371 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHhhheeeeeecCCCCCCccC
Q 038706 46 AIGVYSVLAFCVFILYVRCTGIDPADPGILIE 77 (127)
Q Consensus 46 ~~~v~~~l~~~~~~~~~~~t~iDPaD~~v~~~ 77 (127)
+.++..++++..+.+|-.|-..||.+|..-.+
T Consensus 196 aliVitl~vf~LvgLyr~C~k~dPg~p~~g~~ 227 (259)
T PF07010_consen 196 ALIVITLSVFTLVGLYRMCWKTDPGTPENGPD 227 (259)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCCcccCCC
Confidence 34455667777788899999999999876543
No 30
>PF12666 PrgI: PrgI family protein; InterPro: IPR024414 This family of bacterial proteins is functionally uncharacterised. Proteins in this family are typically between 116 and 146 amino acids in length. PrgI is found encoded on plasmids of Enterococcus faecalis, its function is not known.
Probab=28.78 E-value=1.7e+02 Score=19.08 Aligned_cols=30 Identities=23% Similarity=0.328 Sum_probs=25.4
Q ss_pred CCChhHHHHHHHHHHHHHHHHhhhhcccCh
Q 038706 10 PAHTFQVVAITVFFLLSVAYYAFFAPFLGT 39 (127)
Q Consensus 10 Plh~~Qv~~W~~~~~l~~~~f~~~iP~l~~ 39 (127)
++..-|++.-+..++.++..|.++-++++.
T Consensus 16 GlT~RQl~~l~~~~~~~~~~~~~~~~~l~~ 45 (93)
T PF12666_consen 16 GLTLRQLICLAIGALVGVGVYLLLWFFLGP 45 (93)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHhccH
Confidence 566789999999998999999888888875
No 31
>PF11289 DUF3092: Protein of unknown function (DUF3092); InterPro: IPR024407 This family of SARS coronavirus proteins includes Orf3/3a, which form homotetrameric potassium sensitive ion channels (viroporin) and may modulate virus release. They have also been shown to up-regulate expression of fibrinogen subunits FGA, FGB and FGG in host lung epithelial cells [, , ].
Probab=28.48 E-value=1.4e+02 Score=23.94 Aligned_cols=43 Identities=23% Similarity=0.211 Sum_probs=25.9
Q ss_pred hhcccChhhHHHHHHHHHHHHHHHHHhhheeeeeecC--CCCCCc
Q 038706 33 FAPFLGTELYEYVAIGVYSVLAFCVFILYVRCTGIDP--ADPGIL 75 (127)
Q Consensus 33 ~iP~l~~~~~~~~~~~v~~~l~~~~~~~~~~~t~iDP--aD~~v~ 75 (127)
-.|+|-....-+++..++..-+++-.++.++|-+-+| +|++-+
T Consensus 102 E~~fLyl~aliy~lq~~~~~r~~~RcwLcwkC~SknPLlyD~NyF 146 (273)
T PF11289_consen 102 EAPFLYLYALIYFLQCVSFCRIIMRCWLCWKCKSKNPLLYDANYF 146 (273)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCceeecCceE
Confidence 3455544333444444554555556789999999998 455543
No 32
>COG1585 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=26.82 E-value=2.2e+02 Score=20.69 Aligned_cols=31 Identities=23% Similarity=0.181 Sum_probs=16.4
Q ss_pred hhhcccChhhHHHHHHHHHHHHHHHHHhhhee
Q 038706 32 FFAPFLGTELYEYVAIGVYSVLAFCVFILYVR 63 (127)
Q Consensus 32 ~~iP~l~~~~~~~~~~~v~~~l~~~~~~~~~~ 63 (127)
...|..+. .+|.+++++++++......-.++
T Consensus 40 ~~l~~~~~-~~q~v~f~~lsv~~~~l~rr~~~ 70 (140)
T COG1585 40 ALLLLLSW-WLQLVLFAILSVLLALLGRRFVR 70 (140)
T ss_pred HHHccchH-HHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455544 35676776666555544433333
No 33
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=26.79 E-value=41 Score=17.09 Aligned_cols=12 Identities=25% Similarity=0.177 Sum_probs=9.1
Q ss_pred CccccccccccC
Q 038706 95 KYSDNSQIRVLS 106 (127)
Q Consensus 95 ~~C~lC~i~V~~ 106 (127)
.||.+|+....+
T Consensus 2 ~~C~~C~k~f~~ 13 (27)
T PF12171_consen 2 FYCDACDKYFSS 13 (27)
T ss_dssp CBBTTTTBBBSS
T ss_pred CCcccCCCCcCC
Confidence 479999986653
No 34
>PF11241 DUF3043: Protein of unknown function (DUF3043); InterPro: IPR021403 Some members in this family of proteins with unknown function are annotated as membrane proteins. This cannot be confirmed.
Probab=26.70 E-value=2.2e+02 Score=21.66 Aligned_cols=18 Identities=11% Similarity=0.113 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHhhh
Q 038706 16 VVAITVFFLLSVAYYAFF 33 (127)
Q Consensus 16 v~~W~~~~~l~~~~f~~~ 33 (127)
+..|++.+.++++...++
T Consensus 77 i~e~fmP~alv~lv~~~v 94 (170)
T PF11241_consen 77 IGEFFMPVALVLLVLSFV 94 (170)
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 445666655555555555
No 35
>TIGR00383 corA magnesium Mg(2+) and cobalt Co(2+) transport protein (corA). The article in Microb Comp Genomics 1998;3(3):151-69 (Medline:98448512) discusses this family and suggests that some members may have functions other than Mg2+ transport.
Probab=26.16 E-value=1.5e+02 Score=23.60 Aligned_cols=32 Identities=19% Similarity=0.238 Sum_probs=16.0
Q ss_pred HHHHHHHHhhhhcccChhhHHHHHHHHHHHHH
Q 038706 23 FLLSVAYYAFFAPFLGTELYEYVAIGVYSVLA 54 (127)
Q Consensus 23 ~~l~~~~f~~~iP~l~~~~~~~~~~~v~~~l~ 54 (127)
+.++.+.||-=++.+|..-|.+.-.++.++++
T Consensus 271 ~t~IaGiyGMNf~~mP~l~~~~gy~~~l~~m~ 302 (318)
T TIGR00383 271 LTFIAGIYGMNFKFMPELNWKYGYPAVLIVMA 302 (318)
T ss_pred HHHHHHHHhCCcccCccccchhHHHHHHHHHH
Confidence 34456678876555554334443333433333
No 36
>COG0577 SalY ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]
Probab=25.84 E-value=1.4e+02 Score=23.06 Aligned_cols=15 Identities=13% Similarity=0.408 Sum_probs=11.8
Q ss_pred HhhheeeeeecCCCC
Q 038706 58 FILYVRCTGIDPADP 72 (127)
Q Consensus 58 ~~~~~~~t~iDPaD~ 72 (127)
++...++..+||.|.
T Consensus 401 ~~pa~~~~~~~~~~~ 415 (419)
T COG0577 401 LLPARKAAKLDPIEA 415 (419)
T ss_pred HHHHHHHhhcCHHHH
Confidence 567788888998875
No 37
>PF04341 DUF485: Protein of unknown function, DUF485; InterPro: IPR007436 This family includes several putative integral membrane proteins.
Probab=25.29 E-value=15 Score=24.72 Aligned_cols=7 Identities=29% Similarity=0.544 Sum_probs=3.5
Q ss_pred ecCCCCC
Q 038706 67 IDPADPG 73 (127)
Q Consensus 67 iDPaD~~ 73 (127)
.||--..
T Consensus 81 ~D~l~~~ 87 (91)
T PF04341_consen 81 FDPLARA 87 (91)
T ss_pred cCHHHHH
Confidence 6664433
No 38
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=25.08 E-value=45 Score=16.90 Aligned_cols=16 Identities=13% Similarity=0.063 Sum_probs=8.2
Q ss_pred ccccccccccCCCCcc
Q 038706 96 YSDNSQIRVLSAESGR 111 (127)
Q Consensus 96 ~C~lC~i~V~~~tKHC 111 (127)
||.-|+..+.+.+|-|
T Consensus 1 ~Cp~CG~~~~~~~~fC 16 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFC 16 (23)
T ss_pred CCcccCCCCCCcCcch
Confidence 3555555555555544
No 39
>PRK13476 cytochrome b6-f complex subunit IV; Provisional
Probab=24.77 E-value=91 Score=23.51 Aligned_cols=10 Identities=40% Similarity=0.318 Sum_probs=6.4
Q ss_pred eeecCCCCCC
Q 038706 65 TGIDPADPGI 74 (127)
Q Consensus 65 t~iDPaD~~v 74 (127)
..-|||||..
T Consensus 61 ~LgdpAnPl~ 70 (160)
T PRK13476 61 MLGEPADPFA 70 (160)
T ss_pred hhCCCCCccc
Confidence 3457888854
No 40
>TIGR00869 sec62 protein translocation protein, Sec62 family. protein secretary systems of yeast microsomes. They are also the non-selective cation (NS) channels of the mammalian cytoplasmic membrane. The yeast Sec62 protein has been shown to be essential for cell growth. The mammalian NS channel proteins has been implicated in platelet derived growth factor(PGDF) dependent single channel current in fibroblasts. These channels are essentially closed in serum deprived tissue-culture cells and are specifically opened by exposure to PDGF. These channels are reported to exhibit equal selectivity for Na+, K+ and Cs+ with low permeability to Ca2+, and no permeability to anions.
Probab=24.66 E-value=1.8e+02 Score=23.29 Aligned_cols=27 Identities=7% Similarity=0.073 Sum_probs=15.3
Q ss_pred hHHHHHHHHHHHH-HHHHhhhhcccChh
Q 038706 14 FQVVAITVFFLLS-VAYYAFFAPFLGTE 40 (127)
Q Consensus 14 ~Qv~~W~~~~~l~-~~~f~~~iP~l~~~ 40 (127)
-|...|+..++++ .+..+.+.|+-|..
T Consensus 115 ~~~~~~l~~~~~~~~ila~~lFPlWP~~ 142 (232)
T TIGR00869 115 RPYMDYLIVILVVSIILALVLFPLWPRF 142 (232)
T ss_pred CcHHHHHHHHHHHHHHHHHhhcccChHH
Confidence 3445555444443 44556677888863
No 41
>TIGR01156 cytb6/f_IV cytochrome b6/f complex subunit IV. This model describes the subunit IV of the cytochrome b6/f complex. The cyt b6/f complex is central to the functions of the oxygenic phosynthetic electron transport in cyanobacteria and its equivalents in algae and higher plants. Energetically, on the redox scale the cytb6/f complex is placed below the other components - Q(A); Q(B) of the photosystem II in the Z-scheme, along the pathway of the electron transport. The complex is made of the following subunits: cytochrome f; cytochrome b6; Rieske 2Fe-2S; and subunits IV; V; VI; VII. Subunit IV is one of the principal subunits for the binding of the redox prosthetic groups. Each monomer of the complex contains a molecule of chlorophyll a and beta-carotene.
Probab=24.61 E-value=1e+02 Score=23.23 Aligned_cols=12 Identities=25% Similarity=0.171 Sum_probs=7.6
Q ss_pred eeeecCCCCCCc
Q 038706 64 CTGIDPADPGIL 75 (127)
Q Consensus 64 ~t~iDPaD~~v~ 75 (127)
...-|||||..-
T Consensus 60 ~~Lg~pAnP~~T 71 (159)
T TIGR01156 60 AMIGEPANPFAT 71 (159)
T ss_pred HhhCCCCCcccC
Confidence 445678888543
No 42
>PF13126 DUF3975: Protein of unknown function (DUF3975)
Probab=24.43 E-value=2.2e+02 Score=18.89 Aligned_cols=14 Identities=14% Similarity=0.069 Sum_probs=10.2
Q ss_pred hhHHHHHHHHHHHH
Q 038706 13 TFQVVAITVFFLLS 26 (127)
Q Consensus 13 ~~Qv~~W~~~~~l~ 26 (127)
..|+++|+......
T Consensus 6 gkq~lawitlgivi 19 (85)
T PF13126_consen 6 GKQILAWITLGIVI 19 (85)
T ss_pred hhHHHHHHHHHHHH
Confidence 46999998765443
No 43
>PF14143 YrhC: YrhC-like protein
Probab=23.44 E-value=2.2e+02 Score=18.62 Aligned_cols=20 Identities=15% Similarity=0.233 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHhhhhccc
Q 038706 18 AITVFFLLSVAYYAFFAPFL 37 (127)
Q Consensus 18 ~W~~~~~l~~~~f~~~iP~l 37 (127)
+.+++.+-++.+.|.++|.-
T Consensus 14 ~~vLLAvs~FlYiG~viP~~ 33 (72)
T PF14143_consen 14 AFVLLAVSTFLYIGTVIPIG 33 (72)
T ss_pred HHHHHHHHHHHHHHhhCCcc
Confidence 44555555566666677733
No 44
>PF04772 Flu_B_M2: Influenza B matrix protein 2 (BM2); InterPro: IPR006859 BM2 is synthesised in the late phase of infection and incorporated into the virion. It may be phosphorylated in vivo. The function of BM2 is unknown [].; PDB: 2LJB_D 2LJC_A 2KIX_B 2KJ1_C.
Probab=23.28 E-value=1.3e+02 Score=20.71 Aligned_cols=19 Identities=26% Similarity=0.607 Sum_probs=12.5
Q ss_pred CChhHHHHHHHHHHHHHHH
Q 038706 11 AHTFQVVAITVFFLLSVAY 29 (127)
Q Consensus 11 lh~~Qv~~W~~~~~l~~~~ 29 (127)
|.|+|+++.-.|++-++-|
T Consensus 2 lep~qilsicsfilsalhf 20 (109)
T PF04772_consen 2 LEPFQILSICSFILSALHF 20 (109)
T ss_dssp -STTHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHH
Confidence 5688998887776554433
No 45
>PRK10845 colicin V production protein; Provisional
Probab=22.57 E-value=2.2e+02 Score=20.93 Aligned_cols=24 Identities=17% Similarity=0.528 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHhhhhcccC
Q 038706 15 QVVAITVFFLLSVAYYAFFAPFLG 38 (127)
Q Consensus 15 Qv~~W~~~~~l~~~~f~~~iP~l~ 38 (127)
=+++|++-++.+.-+|-.+.|.++
T Consensus 30 sl~g~i~a~~~A~~~~~~la~~l~ 53 (162)
T PRK10845 30 SLVTWGCAFFVASHYYTYLSVWFT 53 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357788888888888888888765
No 46
>PRK11715 inner membrane protein; Provisional
Probab=22.37 E-value=1.3e+02 Score=26.10 Aligned_cols=51 Identities=14% Similarity=0.217 Sum_probs=24.7
Q ss_pred CCCCChhHHHHHHHHHHHHHHHHhhhhcccChhhHHHHHHHHHHHHHHHHHhhhe
Q 038706 8 QLPAHTFQVVAITVFFLLSVAYYAFFAPFLGTELYEYVAIGVYSVLAFCVFILYV 62 (127)
Q Consensus 8 ~~Plh~~Qv~~W~~~~~l~~~~f~~~iP~l~~~~~~~~~~~v~~~l~~~~~~~~~ 62 (127)
++|+||.|=+-... -.+.||..++-+-+ +.--..+|.+.+...+..+.+|+
T Consensus 326 ~~~iHpiQYlLVGl---Al~lFYLLLLSlSE-HigF~~AYliAa~a~v~li~~Y~ 376 (436)
T PRK11715 326 KLRIHPVQYLLVGL---ALVLFYLLLLSLSE-HIGFTLAYLIAALACVLLIGFYL 376 (436)
T ss_pred CceecHHHHHHHHH---HHHHHHHHHHHHHh-hhchHHHHHHHHHHHHHHHHHHH
Confidence 46889999653332 12445555554444 33334455554443333333333
No 47
>PRK09546 zntB zinc transporter; Reviewed
Probab=22.06 E-value=1.4e+02 Score=24.00 Aligned_cols=16 Identities=0% Similarity=-0.126 Sum_probs=9.7
Q ss_pred HHHHHHHhhhhcccCh
Q 038706 24 LLSVAYYAFFAPFLGT 39 (127)
Q Consensus 24 ~l~~~~f~~~iP~l~~ 39 (127)
.++.+.||-=++-+|.
T Consensus 278 T~IaGiyGMNf~~mPe 293 (324)
T PRK09546 278 TFLTGLFGVNLGGIPG 293 (324)
T ss_pred HHHHhhhccccCCCCC
Confidence 4556678876554444
No 48
>PF06123 CreD: Inner membrane protein CreD; InterPro: IPR010364 This family consists of several bacterial CreD or Cet inner membrane proteins. Dominant mutations of the cet gene of Escherichia coli result in tolerance to colicin E2 and increased amounts of an inner membrane protein with a Mr of 42,000. The cet gene is shown to be in the same operon as the phoM gene, which is required in a phoR background for expression of the structural gene for alkaline phosphatase, phoA. Although the Cet protein is not required for phoA expression, it has been suggested that the Cet protein has an enhancing effect on the transcription of phoA [].
Probab=21.68 E-value=1.5e+02 Score=25.75 Aligned_cols=50 Identities=16% Similarity=0.248 Sum_probs=25.7
Q ss_pred CCCChhHHHHHHHHHHHHHHHHhhhhcccChhhHHHHHHHHHHHHHHHHHhhhe
Q 038706 9 LPAHTFQVVAITVFFLLSVAYYAFFAPFLGTELYEYVAIGVYSVLAFCVFILYV 62 (127)
Q Consensus 9 ~Plh~~Qv~~W~~~~~l~~~~f~~~iP~l~~~~~~~~~~~v~~~l~~~~~~~~~ 62 (127)
++.||.|=+-.... .++||..++-+-+ +.--..+|.+.+...+..+.+|.
T Consensus 321 ~~iHpiQY~LVGlA---l~lFYlLLLSlSE-hi~F~~AYliAa~a~i~Li~~Y~ 370 (430)
T PF06123_consen 321 LRIHPIQYLLVGLA---LVLFYLLLLSLSE-HIGFNLAYLIAALACIGLISLYL 370 (430)
T ss_pred CcccHHHHHHHHHH---HHHHHHHHHHHHh-hhchHHHHHHHHHHHHHHHHHHH
Confidence 68899996543332 2445555555544 33344455555444444444443
No 49
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.65 E-value=46 Score=28.34 Aligned_cols=24 Identities=13% Similarity=0.087 Sum_probs=12.5
Q ss_pred HHHHHHHHHH-HHHHhhhhcccChh
Q 038706 17 VAITVFFLLS-VAYYAFFAPFLGTE 40 (127)
Q Consensus 17 ~~W~~~~~l~-~~~f~~~iP~l~~~ 40 (127)
+.|++-++++ ++.-+.+.|+-|..
T Consensus 189 ~~~vl~~~fvl~tlaivLFPLWP~~ 213 (372)
T KOG2927|consen 189 MWQVLGVLFVLVTLAIVLFPLWPRR 213 (372)
T ss_pred hHHHHHHHHHHHHHHHHhcccCcHH
Confidence 3444433334 34445567888764
No 50
>PF07535 zf-DBF: DBF zinc finger; InterPro: IPR006572 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. In eukaryotes, initiation of DNA replication requires the assembly of pre-replication complexes (pre-RCs) on chromatin during the G1 phase. In the S phase, pre-RCs are activated by two protein kinases, Cdk2 and Cdc7, which results in the loading of replication factors and the unwinding of replication origins by the MCM helicase complex []. Cdc7 is a serine/threonine kinase that is conserved from yeast to human. It is regulated by its association with a regulatory subunit, the Dbf4 protein. This complex is often referred to as DDK (Dbf4-dependent kinase) []. DBF4 contains an N-terminal BRCT domain and a C-terminal conserved region that could potentially coordinate one zinc atom, the DBF4-type zinc finger. This entry represents the zinc finger, which is important for the interaction with Cdc7 [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding
Probab=21.50 E-value=20 Score=21.76 Aligned_cols=17 Identities=18% Similarity=0.309 Sum_probs=13.2
Q ss_pred CCccccccccccCCCCc
Q 038706 94 GKYSDNSQIRVLSAESG 110 (127)
Q Consensus 94 n~~C~lC~i~V~~~tKH 110 (127)
.+||+.|...-.+-.+|
T Consensus 5 ~GYCE~C~~ky~~l~~H 21 (49)
T PF07535_consen 5 PGYCENCRVKYDDLEEH 21 (49)
T ss_pred CccCccccchhhhHHHH
Confidence 47999999887765555
No 51
>PRK10527 hypothetical protein; Provisional
Probab=21.48 E-value=1.8e+02 Score=20.83 Aligned_cols=19 Identities=16% Similarity=0.240 Sum_probs=14.8
Q ss_pred HHHHHHHHhhhhcccChhh
Q 038706 23 FLLSVAYYAFFAPFLGTEL 41 (127)
Q Consensus 23 ~~l~~~~f~~~iP~l~~~~ 41 (127)
+.++++.-|+++|.||..+
T Consensus 12 ~~~~LG~iGi~LPlLPTTP 30 (125)
T PRK10527 12 LAVVLGTLGVVLPLLPTTP 30 (125)
T ss_pred HHHHHHHHHHhccCCCCcH
Confidence 3466778899999999854
No 52
>KOG2612 consensus Predicted integral membrane protein [Function unknown]
Probab=20.47 E-value=57 Score=22.58 Aligned_cols=48 Identities=8% Similarity=-0.123 Sum_probs=32.6
Q ss_pred hhheeeeeecCCCCCCccCCCcc--ccccccCCCCCCCCccccccccccC
Q 038706 59 ILYVRCTGIDPADPGILIEPDKI--SAYKLQNDTDLPGKYSDNSQIRVLS 106 (127)
Q Consensus 59 ~~~~~~t~iDPaD~~v~~~~~~~--~~drsk~~hvi~n~~C~lC~i~V~~ 106 (127)
...+++.--.|.|+.-|....+. .|.-+|.+.--++..|.-|+..|..
T Consensus 37 l~k~~~~D~rpedssY~f~~~gnLDI~Giqkqaek~~~~hCeNC~RdVaA 86 (103)
T KOG2612|consen 37 LGKLAALDGRPEDSSYRFCEMGNLDIFGIQKQAEKPMDCHCENCDRDVAA 86 (103)
T ss_pred HhccccCCCCccccceeecCCCCcchhhhhhhccCCccccCCCCccHHHH
Confidence 34566666779998887755443 4555555555566789999988863
No 53
>PF04120 Iron_permease: Low affinity iron permease ; InterPro: IPR007251 Although originally identified as a low-affinity iron(II) permease [, ], Fet4 has since been shown to import several other transition metal ions, including copper [, ] and zinc []. Copper, cobalt, and cadmium inhibit Fet4 [, ]. Fet4 is an integral protein of the plasma membrane [, ]. FET4 is not essential, not even in fet3 fet4 double mutants []. Over expression of FET4 improves growth under alkaline conditions []. Transcription of FET4 is induced by Aft1 in response to low levels of iron [, , ] or by Zap1 in response to low zinc [, ], but not in response to low copper []. When the high-affinity iron permease component Fet3 is deleted, FET4 is induced by the addition of copper, zinc, cobalt, or manganese []. It is also induced under anaerobic conditions [, , ] and repressed by Rox1 in aerobic conditions [, ]. Rox1 attenuates the activation of FET4 by Aft1 or Zap1 []. ; GO: 0055085 transmembrane transport
Probab=20.17 E-value=2.6e+02 Score=20.28 Aligned_cols=29 Identities=14% Similarity=0.344 Sum_probs=17.5
Q ss_pred HHHHHHhhhhcccCh-hhHHHHHHHHHHHH
Q 038706 25 LSVAYYAFFAPFLGT-ELYEYVAIGVYSVL 53 (127)
Q Consensus 25 l~~~~f~~~iP~l~~-~~~~~~~~~v~~~l 53 (127)
.+++..++..|++.- ..||.+.....+++
T Consensus 23 ~~Ii~W~i~Gp~~~~sdtWQLviNt~ttIi 52 (132)
T PF04120_consen 23 AVIIVWAISGPVFGFSDTWQLVINTATTII 52 (132)
T ss_pred HHHHHHHHHhccccCcchHHHHHccHHHHH
Confidence 345555666677654 34888776555554
Done!