Query 044394
Match_columns 140
No_of_seqs 216 out of 1482
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 02:54:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044394.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044394hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462 C2H2-type Zn-finger pr 99.3 2.6E-12 5.7E-17 100.7 2.6 64 16-83 190-253 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.0 1.7E-10 3.6E-15 90.6 3.3 100 5-111 149-254 (279)
3 KOG3623 Homeobox transcription 98.7 2E-09 4.3E-14 93.8 0.7 59 18-80 899-957 (1007)
4 PF13465 zf-H2C2_2: Zinc-finge 98.6 2.3E-08 5E-13 52.1 2.1 26 28-57 1-26 (26)
5 KOG3576 Ovo and related transc 98.5 5.2E-08 1.1E-12 74.2 1.2 42 20-65 152-193 (267)
6 KOG1074 Transcriptional repres 98.3 2.6E-07 5.6E-12 81.7 1.2 59 15-77 881-939 (958)
7 KOG3576 Ovo and related transc 98.3 2.5E-07 5.3E-12 70.5 0.6 63 17-83 121-183 (267)
8 KOG1074 Transcriptional repres 98.2 4.8E-07 1E-11 80.1 1.7 59 12-74 604-662 (958)
9 KOG3623 Homeobox transcription 98.2 3.6E-07 7.9E-12 80.0 0.7 48 16-67 925-972 (1007)
10 PHA00616 hypothetical protein 98.0 1.1E-06 2.5E-11 51.2 0.1 31 45-75 1-31 (44)
11 PHA02768 hypothetical protein; 97.7 1.5E-05 3.2E-10 48.7 0.8 24 46-69 6-29 (55)
12 PHA02768 hypothetical protein; 97.6 4.8E-05 1E-09 46.4 1.9 42 15-62 7-48 (55)
13 PF00096 zf-C2H2: Zinc finger, 97.4 5.2E-05 1.1E-09 37.7 0.4 23 46-68 1-23 (23)
14 KOG3608 Zn finger proteins [Ge 97.2 0.00037 8.1E-09 57.2 3.5 80 7-90 167-256 (467)
15 PF13912 zf-C2H2_6: C2H2-type 97.0 0.00027 5.9E-09 36.4 1.0 26 45-70 1-26 (27)
16 PHA00733 hypothetical protein 96.7 0.0015 3.2E-08 46.5 2.9 26 43-68 71-96 (128)
17 KOG3608 Zn finger proteins [Ge 96.6 0.00096 2.1E-08 54.8 1.5 62 20-86 270-334 (467)
18 PF13894 zf-C2H2_4: C2H2-type 96.6 0.00081 1.8E-08 33.0 0.6 23 46-68 1-23 (24)
19 PHA00733 hypothetical protein 96.4 0.00095 2.1E-08 47.4 0.6 45 17-67 77-121 (128)
20 smart00355 ZnF_C2H2 zinc finge 96.3 0.0018 3.9E-08 32.0 1.0 24 46-69 1-24 (26)
21 PF09237 GAGA: GAGA factor; I 96.2 0.0028 6.2E-08 38.0 1.4 31 43-73 22-52 (54)
22 PHA00732 hypothetical protein 95.8 0.0095 2.1E-07 38.9 2.9 43 16-68 4-47 (79)
23 PLN03086 PRLI-interacting fact 95.6 0.0056 1.2E-07 53.3 1.4 56 19-83 459-514 (567)
24 COG5189 SFP1 Putative transcri 95.1 0.014 2.9E-07 47.6 2.2 60 7-66 345-419 (423)
25 PHA00732 hypothetical protein 95.0 0.014 3E-07 38.1 1.6 26 45-70 1-27 (79)
26 PLN03086 PRLI-interacting fact 95.0 0.016 3.5E-07 50.5 2.4 65 9-82 476-550 (567)
27 PF12874 zf-met: Zinc-finger o 94.3 0.017 3.7E-07 28.9 0.6 23 46-68 1-23 (25)
28 PF12171 zf-C2H2_jaz: Zinc-fin 93.6 0.042 9.2E-07 28.2 1.3 22 46-67 2-23 (27)
29 KOG3993 Transcription factor ( 93.1 0.024 5.2E-07 47.6 -0.2 51 15-69 269-319 (500)
30 PHA00616 hypothetical protein 92.5 0.044 9.5E-07 31.9 0.4 29 18-50 6-34 (44)
31 PRK04860 hypothetical protein; 91.7 0.15 3.2E-06 37.7 2.5 30 25-58 127-156 (160)
32 PF13913 zf-C2HC_2: zinc-finge 90.4 0.14 3E-06 26.1 0.9 21 46-67 3-23 (25)
33 smart00451 ZnF_U1 U1-like zinc 90.4 0.15 3.2E-06 27.3 1.1 22 45-66 3-24 (35)
34 PF13909 zf-H2C2_5: C2H2-type 90.4 0.097 2.1E-06 25.9 0.3 22 46-68 1-22 (24)
35 COG5048 FOG: Zn-finger [Genera 90.1 0.14 3E-06 41.0 1.1 57 17-77 293-355 (467)
36 PF05605 zf-Di19: Drought indu 89.5 0.5 1.1E-05 28.2 3.0 46 17-67 5-51 (54)
37 PRK04860 hypothetical protein; 86.2 0.14 3.1E-06 37.7 -1.0 33 44-80 118-150 (160)
38 PF12756 zf-C2H2_2: C2H2 type 81.1 0.76 1.6E-05 29.7 0.9 24 45-68 50-73 (100)
39 COG4049 Uncharacterized protei 77.7 0.77 1.7E-05 28.2 0.1 24 43-66 15-38 (65)
40 PF05443 ROS_MUCR: ROS/MUCR tr 75.2 1.3 2.8E-05 31.7 0.7 32 45-79 72-103 (132)
41 KOG3993 Transcription factor ( 73.9 0.84 1.8E-05 38.7 -0.6 27 44-70 355-381 (500)
42 COG4957 Predicted transcriptio 65.1 3.7 8E-05 29.6 1.2 31 46-79 77-107 (148)
43 KOG1146 Homeobox protein [Gene 58.1 5.5 0.00012 38.2 1.4 55 13-67 465-540 (1406)
44 KOG2893 Zn finger protein [Gen 51.5 6.3 0.00014 31.2 0.6 45 16-68 13-58 (341)
45 KOG2186 Cell growth-regulating 51.0 9.6 0.00021 30.3 1.5 47 16-69 6-52 (276)
46 smart00734 ZnF_Rad18 Rad18-lik 44.7 13 0.00028 18.8 1.0 20 46-66 2-21 (26)
47 COG5189 SFP1 Putative transcri 44.4 10 0.00023 31.3 0.8 24 43-66 347-372 (423)
48 KOG4167 Predicted DNA-binding 42.6 4.2 9E-05 36.9 -1.8 26 45-70 792-817 (907)
49 smart00614 ZnF_BED BED zinc fi 40.8 16 0.00034 21.2 1.1 24 46-69 19-48 (50)
50 PF04959 ARS2: Arsenite-resist 40.3 12 0.00027 28.8 0.7 25 43-67 75-99 (214)
51 PF07754 DUF1610: Domain of un 39.9 13 0.00028 18.7 0.5 10 44-53 15-24 (24)
52 smart00834 CxxC_CXXC_SSSS Puta 38.2 14 0.00029 20.1 0.5 15 45-59 5-19 (41)
53 COG5048 FOG: Zn-finger [Genera 38.1 27 0.00058 27.7 2.3 48 21-72 41-90 (467)
54 PF01927 Mut7-C: Mut7-C RNAse 34.9 20 0.00042 25.7 1.0 21 43-63 122-142 (147)
55 PF10571 UPF0547: Uncharacteri 33.5 22 0.00047 18.1 0.7 11 46-56 15-25 (26)
56 PF09723 Zn-ribbon_8: Zinc rib 33.3 17 0.00038 20.4 0.4 18 45-62 5-22 (42)
57 smart00154 ZnF_AN1 AN1-like Zi 31.0 23 0.00051 19.6 0.7 16 45-60 12-27 (39)
58 PF09845 DUF2072: Zn-ribbon co 30.8 25 0.00054 25.2 0.9 15 45-59 1-15 (131)
59 PF02892 zf-BED: BED zinc fing 30.4 28 0.00061 19.3 1.0 23 43-65 14-40 (45)
60 PF13719 zinc_ribbon_5: zinc-r 30.1 22 0.00048 19.4 0.5 33 19-56 4-36 (37)
61 PF01428 zf-AN1: AN1-like Zinc 29.5 19 0.0004 20.3 0.1 18 44-61 12-29 (43)
62 PF13451 zf-trcl: Probable zin 29.1 51 0.0011 19.5 1.9 21 43-63 2-22 (49)
63 cd00924 Cyt_c_Oxidase_Vb Cytoc 28.9 27 0.00059 23.6 0.8 25 28-57 67-91 (97)
64 TIGR02605 CxxC_CxxC_SSSS putat 28.9 23 0.0005 20.4 0.4 15 45-59 5-19 (52)
65 PLN02294 cytochrome c oxidase 28.5 29 0.00062 26.0 0.9 26 27-57 128-153 (174)
66 PF08790 zf-LYAR: LYAR-type C2 27.4 26 0.00056 18.3 0.4 20 46-66 1-20 (28)
67 PF09986 DUF2225: Uncharacteri 26.3 22 0.00048 27.1 0.0 24 43-66 3-26 (214)
68 PF12013 DUF3505: Protein of u 26.1 33 0.00073 23.0 0.9 24 45-68 80-107 (109)
69 PF04423 Rad50_zn_hook: Rad50 25.7 25 0.00054 20.7 0.2 13 47-59 22-34 (54)
70 KOG2071 mRNA cleavage and poly 25.6 32 0.0007 30.4 0.9 29 43-71 416-444 (579)
71 PHA00626 hypothetical protein 25.5 33 0.00072 21.0 0.7 16 44-59 22-37 (59)
72 KOG3408 U1-like Zn-finger-cont 24.9 32 0.00069 24.4 0.6 25 43-67 55-79 (129)
73 PF15269 zf-C2H2_7: Zinc-finge 24.8 34 0.00073 20.1 0.6 22 46-67 21-42 (54)
74 PF10013 DUF2256: Uncharacteri 24.5 37 0.0008 19.5 0.7 16 47-62 10-25 (42)
75 PF07975 C1_4: TFIIH C1-like d 24.3 33 0.00071 20.4 0.5 26 44-69 20-45 (51)
76 PF13717 zinc_ribbon_4: zinc-r 23.4 34 0.00074 18.6 0.4 12 44-55 24-35 (36)
77 PRK00464 nrdR transcriptional 22.9 32 0.0007 25.1 0.3 19 45-63 28-46 (154)
78 PF14353 CpXC: CpXC protein 21.6 27 0.00059 24.1 -0.3 21 45-65 38-58 (128)
79 KOG2482 Predicted C2H2-type Zn 20.3 46 0.00099 27.8 0.7 23 45-67 195-217 (423)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.25 E-value=2.6e-12 Score=100.71 Aligned_cols=64 Identities=20% Similarity=0.304 Sum_probs=56.4
Q ss_pred CCCCCCcCCCCchHHHHhhhhcCCCCCCccccccccCcccCCchhHhhhcccccCCCChHHHHHHHHH
Q 044394 16 NNVQNPNRKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGTSQAFAAHMRSHYKYETSAERKRRLSA 83 (140)
Q Consensus 16 ~~~~~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~r~Ht~ekp~~~~~~~~~~ 83 (140)
+.||.+.|.+..-|+-|+|+||| ||||.|+.|+|+|..+++|..|+++|.+.|+|+|..+...+
T Consensus 190 C~iCGKaFSRPWLLQGHiRTHTG----EKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsF 253 (279)
T KOG2462|consen 190 CGICGKAFSRPWLLQGHIRTHTG----EKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSF 253 (279)
T ss_pred cccccccccchHHhhcccccccC----CCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHH
Confidence 46778889888899999999999 99999999999999999999999999999999876554333
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.02 E-value=1.7e-10 Score=90.62 Aligned_cols=100 Identities=16% Similarity=0.187 Sum_probs=69.6
Q ss_pred cccCCCCCCCCC----CCCCCcCCCCchHHHHhhhhcCCCCCCccccccccCcccCCchhHhhhcccccCCCChHHHH--
Q 044394 5 HVQDKNPGKNPN----NVQNPNRKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGTSQAFAAHMRSHYKYETSAERK-- 78 (140)
Q Consensus 5 ~~~~~~~~~~~~----~~~~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~r~Ht~ekp~~~~~-- 78 (140)
|-|-|-+...++ ..|.+.|..--.|+.|+|+|+- |++|..|||.|.+.=.|+-|+|+|||||||.|.-
T Consensus 149 HkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~l------~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~ 222 (279)
T KOG2462|consen 149 HKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHTL------PCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCG 222 (279)
T ss_pred hhcccccccccccccCCCCCceeeehHHHhhHhhccCC------CcccccccccccchHHhhcccccccCCCCccCCccc
Confidence 345555554443 5667778888899999999976 8999999999999999999999999999998754
Q ss_pred HHHHHHHhhhhccccccCCCceecCCCCchHHH
Q 044394 79 RRLSARLKKRNLRLVHSTEGLTMMPQPSNEQMR 111 (140)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~g~~~~p~~~~~~~~ 111 (140)
+.|..+-..|.+..-++.. ..+......-.|+
T Consensus 223 kAFADRSNLRAHmQTHS~~-K~~qC~~C~KsFs 254 (279)
T KOG2462|consen 223 KAFADRSNLRAHMQTHSDV-KKHQCPRCGKSFA 254 (279)
T ss_pred chhcchHHHHHHHHhhcCC-ccccCcchhhHHH
Confidence 4455554455543333222 2444444344443
No 3
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=98.75 E-value=2e-09 Score=93.76 Aligned_cols=59 Identities=20% Similarity=0.253 Sum_probs=54.1
Q ss_pred CCCCcCCCCchHHHHhhhhcCCCCCCccccccccCcccCCchhHhhhcccccCCCChHHHHHH
Q 044394 18 VQNPNRKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGTSQAFAAHMRSHYKYETSAERKRR 80 (140)
Q Consensus 18 ~~~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~r~Ht~ekp~~~~~~~ 80 (140)
.|-+.|.|.++|.+|.-.|+| .+||+|..|.|+|..+.+|..|.|+|.|+|||.|.+|-
T Consensus 899 qCDK~FqKqSSLaRHKYEHsG----qRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKCl 957 (1007)
T KOG3623|consen 899 QCDKAFQKQSSLARHKYEHSG----QRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCL 957 (1007)
T ss_pred HHHHHHHhhHHHHHhhhhhcC----CCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhh
Confidence 345789999999999999999 99999999999999999999999999999999986543
No 4
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.61 E-value=2.3e-08 Score=52.09 Aligned_cols=26 Identities=35% Similarity=0.786 Sum_probs=24.0
Q ss_pred hHHHHhhhhcCCCCCCccccccccCcccCC
Q 044394 28 DVEYDGRIHSHPCKKYGPYKCPKCNGAFGT 57 (140)
Q Consensus 28 ~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~ 57 (140)
+|.+|+++|++ ++||.|+.|++.|.+
T Consensus 1 ~l~~H~~~H~~----~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTG----EKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSS----SSSEEESSSSEEESS
T ss_pred CHHHHhhhcCC----CCCCCCCCCcCeeCc
Confidence 58999999999 999999999999964
No 5
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=98.46 E-value=5.2e-08 Score=74.17 Aligned_cols=42 Identities=26% Similarity=0.557 Sum_probs=23.4
Q ss_pred CCcCCCCchHHHHhhhhcCCCCCCccccccccCcccCCchhHhhhc
Q 044394 20 NPNRKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGTSQAFAAHM 65 (140)
Q Consensus 20 ~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~ 65 (140)
...|-..++|++|+|+|+| .+||+|..|+++|.++..|..|.
T Consensus 152 gkgfndtfdlkrh~rthtg----vrpykc~~c~kaftqrcsleshl 193 (267)
T KOG3576|consen 152 GKGFNDTFDLKRHTRTHTG----VRPYKCSLCEKAFTQRCSLESHL 193 (267)
T ss_pred cCcccchhhhhhhhccccC----ccccchhhhhHHHHhhccHHHHH
Confidence 4445555555555555555 55555555555555555555554
No 6
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=98.27 E-value=2.6e-07 Score=81.74 Aligned_cols=59 Identities=25% Similarity=0.376 Sum_probs=54.1
Q ss_pred CCCCCCCcCCCCchHHHHhhhhcCCCCCCccccccccCcccCCchhHhhhcccccCCCChHHH
Q 044394 15 PNNVQNPNRKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGTSQAFAAHMRSHYKYETSAER 77 (140)
Q Consensus 15 ~~~~~~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~r~Ht~ekp~~~~ 77 (140)
.++||...|-.++.|.+|+|+|++ +|||.|..|++.|..+.+|+.|+..|.+..|...|
T Consensus 881 ~C~vCgk~FsSSsALqiH~rTHtg----~KPF~C~fC~~aFttrgnLKvHMgtH~w~q~~srr 939 (958)
T KOG1074|consen 881 VCNVCGKQFSSSAALEIHMRTHTG----PKPFFCHFCEEAFTTRGNLKVHMGTHMWVQPPSRR 939 (958)
T ss_pred hhccchhcccchHHHHHhhhcCCC----CCCccchhhhhhhhhhhhhhhhhccccccCCCccC
Confidence 557888999999999999999999 99999999999999999999999999998876644
No 7
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=98.25 E-value=2.5e-07 Score=70.54 Aligned_cols=63 Identities=14% Similarity=0.116 Sum_probs=54.2
Q ss_pred CCCCCcCCCCchHHHHhhhhcCCCCCCccccccccCcccCCchhHhhhcccccCCCChHHHHHHHHH
Q 044394 17 NVQNPNRKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGTSQAFAAHMRSHYKYETSAERKRRLSA 83 (140)
Q Consensus 17 ~~~~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~r~Ht~ekp~~~~~~~~~~ 83 (140)
.||...|.-.-.|.+|+..|+. .+-|.|..||+.|...-.|++|.++|+|.+||.|..+...+
T Consensus 121 rvCgK~F~lQRmlnrh~kch~~----vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaf 183 (267)
T KOG3576|consen 121 RVCGKKFGLQRMLNRHLKCHSD----VKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAF 183 (267)
T ss_pred ehhhhhhhHHHHHHHHhhhccH----HHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHH
Confidence 5666777766778889999999 99999999999999999999999999999999886655444
No 8
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=98.22 E-value=4.8e-07 Score=80.09 Aligned_cols=59 Identities=24% Similarity=0.304 Sum_probs=48.0
Q ss_pred CCCCCCCCCCcCCCCchHHHHhhhhcCCCCCCccccccccCcccCCchhHhhhcccccCCCCh
Q 044394 12 GKNPNNVQNPNRKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGTSQAFAAHMRSHYKYETS 74 (140)
Q Consensus 12 ~~~~~~~~~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~r~Ht~ekp~ 74 (140)
.-|.+.||-.--.-.+.|+.|.|+|+| |+||+|..||++|..+.+|+.|+-+|...-|.
T Consensus 604 dPNqCiiC~rVlSC~saLqmHyrtHtG----ERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~ 662 (958)
T KOG1074|consen 604 DPNQCIICLRVLSCPSALQMHYRTHTG----ERPFKCKICGRAFTTKGNLKAHMSVHKAKPPA 662 (958)
T ss_pred CccceeeeeecccchhhhhhhhhcccC----cCccccccccchhccccchhhcccccccCccc
Confidence 345666664444445679999999999 99999999999999999999999999765544
No 9
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=98.20 E-value=3.6e-07 Score=80.00 Aligned_cols=48 Identities=25% Similarity=0.476 Sum_probs=44.3
Q ss_pred CCCCCCcCCCCchHHHHhhhhcCCCCCCccccccccCcccCCchhHhhhccc
Q 044394 16 NNVQNPNRKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGTSQAFAAHMRS 67 (140)
Q Consensus 16 ~~~~~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~r~ 67 (140)
+-||.++||.+.+|..|.|.|+| +|||+|+.|+|+|+.+..+..|+..
T Consensus 925 C~iCkKAFKHKHHLtEHkRLHSG----EKPfQCdKClKRFSHSGSYSQHMNH 972 (1007)
T KOG3623|consen 925 CIICKKAFKHKHHLTEHKRLHSG----EKPFQCDKCLKRFSHSGSYSQHMNH 972 (1007)
T ss_pred cchhhHhhhhhhhhhhhhhhccC----CCcchhhhhhhhcccccchHhhhcc
Confidence 45778999999999999999999 9999999999999999999999853
No 10
>PHA00616 hypothetical protein
Probab=98.02 E-value=1.1e-06 Score=51.19 Aligned_cols=31 Identities=26% Similarity=0.529 Sum_probs=28.8
Q ss_pred cccccccCcccCCchhHhhhcccccCCCChH
Q 044394 45 PYKCPKCNGAFGTSQAFAAHMRSHYKYETSA 75 (140)
Q Consensus 45 P~~C~~Cgk~F~~~~~L~~H~r~Ht~ekp~~ 75 (140)
||+|+.||+.|...+.|..|++.|++++++.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~ 31 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLT 31 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccc
Confidence 7999999999999999999999999998764
No 11
>PHA02768 hypothetical protein; Provisional
Probab=97.67 E-value=1.5e-05 Score=48.66 Aligned_cols=24 Identities=29% Similarity=0.819 Sum_probs=14.0
Q ss_pred ccccccCcccCCchhHhhhccccc
Q 044394 46 YKCPKCNGAFGTSQAFAAHMRSHY 69 (140)
Q Consensus 46 ~~C~~Cgk~F~~~~~L~~H~r~Ht 69 (140)
|.|+.||+.|.+.++|..|+++|+
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~ 29 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN 29 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC
Confidence 455555555555555555555555
No 12
>PHA02768 hypothetical protein; Provisional
Probab=97.55 E-value=4.8e-05 Score=46.43 Aligned_cols=42 Identities=10% Similarity=0.046 Sum_probs=35.6
Q ss_pred CCCCCCCcCCCCchHHHHhhhhcCCCCCCccccccccCcccCCchhHh
Q 044394 15 PNNVQNPNRKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGTSQAFA 62 (140)
Q Consensus 15 ~~~~~~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~~~~L~ 62 (140)
.+-.|...|..+++|..|+++|+ +||.|..|++.|.+.+.|.
T Consensus 7 ~C~~CGK~Fs~~~~L~~H~r~H~------k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 7 ECPICGEIYIKRKSMITHLRKHN------TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred CcchhCCeeccHHHHHHHHHhcC------CcccCCcccceecccceeE
Confidence 34567889999999999999987 4889999999999887664
No 13
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.37 E-value=5.2e-05 Score=37.67 Aligned_cols=23 Identities=43% Similarity=1.022 Sum_probs=20.9
Q ss_pred ccccccCcccCCchhHhhhcccc
Q 044394 46 YKCPKCNGAFGTSQAFAAHMRSH 68 (140)
Q Consensus 46 ~~C~~Cgk~F~~~~~L~~H~r~H 68 (140)
|.|+.|++.|.....|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 68999999999999999998764
No 14
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=97.17 E-value=0.00037 Score=57.18 Aligned_cols=80 Identities=19% Similarity=0.250 Sum_probs=63.2
Q ss_pred cCCCCCCC-CCCCCCCc-----CCCCchHHHHhhhhcCCCCCCccccccccCcccCCchhHhhhccccc--CCCChHH--
Q 044394 7 QDKNPGKN-PNNVQNPN-----RKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGTSQAFAAHMRSHY--KYETSAE-- 76 (140)
Q Consensus 7 ~~~~~~~~-~~~~~~~~-----~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~r~Ht--~ekp~~~-- 76 (140)
|..+|+++ |..+|||+ +..++.|..|.++|++ +|-..|+.||..|.....|-.|.+..+ ...+|.|
T Consensus 167 ~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~----eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~ 242 (467)
T KOG3608|consen 167 IQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSN----EKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQ 242 (467)
T ss_pred hhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCC----CeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHH
Confidence 45678888 88889876 4477899999999999 999999999999999999999986543 3456654
Q ss_pred HHHHHHHHHhhhhc
Q 044394 77 RKRRLSARLKKRNL 90 (140)
Q Consensus 77 ~~~~~~~~~~~~~~ 90 (140)
+.++|....-.+.+
T Consensus 243 C~KrFaTeklL~~H 256 (467)
T KOG3608|consen 243 CFKRFATEKLLKSH 256 (467)
T ss_pred HHHHHhHHHHHHHH
Confidence 66777765555544
No 15
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.04 E-value=0.00027 Score=36.38 Aligned_cols=26 Identities=35% Similarity=0.836 Sum_probs=23.4
Q ss_pred cccccccCcccCCchhHhhhcccccC
Q 044394 45 PYKCPKCNGAFGTSQAFAAHMRSHYK 70 (140)
Q Consensus 45 P~~C~~Cgk~F~~~~~L~~H~r~Ht~ 70 (140)
||.|..|++.|.....|..|++.|.+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 68999999999999999999987743
No 16
>PHA00733 hypothetical protein
Probab=96.71 E-value=0.0015 Score=46.47 Aligned_cols=26 Identities=35% Similarity=0.749 Sum_probs=21.4
Q ss_pred CccccccccCcccCCchhHhhhcccc
Q 044394 43 YGPYKCPKCNGAFGTSQAFAAHMRSH 68 (140)
Q Consensus 43 ekP~~C~~Cgk~F~~~~~L~~H~r~H 68 (140)
.+||.|+.|++.|.....|..|++.|
T Consensus 71 ~kPy~C~~Cgk~Fss~s~L~~H~r~h 96 (128)
T PHA00733 71 VSPYVCPLCLMPFSSSVSLKQHIRYT 96 (128)
T ss_pred CCCccCCCCCCcCCCHHHHHHHHhcC
Confidence 67888888888888888888888765
No 17
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=96.59 E-value=0.00096 Score=54.82 Aligned_cols=62 Identities=19% Similarity=0.276 Sum_probs=47.1
Q ss_pred CCcCCCCchHHHHhhh-hcCCCCCCccccccccCcccCCchhHhhhcccccCCCChHHHH--HHHHHHHh
Q 044394 20 NPNRKENQDVEYDGRI-HSHPCKKYGPYKCPKCNGAFGTSQAFAAHMRSHYKYETSAERK--RRLSARLK 86 (140)
Q Consensus 20 ~~~~~k~s~L~~H~r~-Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~r~Ht~ekp~~~~~--~~~~~~~~ 86 (140)
.-.+-..++|.+|++. |+. .+||+|+.|.+.|...+.|.+|...|+ +--|.|.. +.++.+..
T Consensus 270 dmtc~~~ssL~~H~r~rHs~----dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~ 334 (467)
T KOG3608|consen 270 DMTCSSASSLTTHIRYRHSK----DKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTY 334 (467)
T ss_pred ccCCCChHHHHHHHHhhhcc----CCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHH
Confidence 4445577899999986 777 999999999999999999999999988 34444433 44444433
No 18
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=96.57 E-value=0.00081 Score=32.98 Aligned_cols=23 Identities=35% Similarity=0.970 Sum_probs=18.8
Q ss_pred ccccccCcccCCchhHhhhcccc
Q 044394 46 YKCPKCNGAFGTSQAFAAHMRSH 68 (140)
Q Consensus 46 ~~C~~Cgk~F~~~~~L~~H~r~H 68 (140)
|.|+.|++.|.....|..|+..|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 68999999999999999998764
No 19
>PHA00733 hypothetical protein
Probab=96.45 E-value=0.00095 Score=47.43 Aligned_cols=45 Identities=13% Similarity=0.191 Sum_probs=37.6
Q ss_pred CCCCCcCCCCchHHHHhhhhcCCCCCCccccccccCcccCCchhHhhhccc
Q 044394 17 NVQNPNRKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGTSQAFAAHMRS 67 (140)
Q Consensus 17 ~~~~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~r~ 67 (140)
..|...|.....|..|+++|+ .+|.|..|+++|.....|..|+..
T Consensus 77 ~~Cgk~Fss~s~L~~H~r~h~------~~~~C~~CgK~F~~~~sL~~H~~~ 121 (128)
T PHA00733 77 PLCLMPFSSSVSLKQHIRYTE------HSKVCPVCGKEFRNTDSTLDHVCK 121 (128)
T ss_pred CCCCCcCCCHHHHHHHHhcCC------cCccCCCCCCccCCHHHHHHHHHH
Confidence 345677888899999998763 479999999999999999999754
No 20
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.31 E-value=0.0018 Score=32.02 Aligned_cols=24 Identities=42% Similarity=1.054 Sum_probs=21.3
Q ss_pred ccccccCcccCCchhHhhhccccc
Q 044394 46 YKCPKCNGAFGTSQAFAAHMRSHY 69 (140)
Q Consensus 46 ~~C~~Cgk~F~~~~~L~~H~r~Ht 69 (140)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 579999999999999999988664
No 21
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.16 E-value=0.0028 Score=38.03 Aligned_cols=31 Identities=19% Similarity=0.401 Sum_probs=22.8
Q ss_pred CccccccccCcccCCchhHhhhcccccCCCC
Q 044394 43 YGPYKCPKCNGAFGTSQAFAAHMRSHYKYET 73 (140)
Q Consensus 43 ekP~~C~~Cgk~F~~~~~L~~H~r~Ht~ekp 73 (140)
+.|..|+.|+..+.+..+|.+|+.++.+.||
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 7899999999999999999999988777664
No 22
>PHA00732 hypothetical protein
Probab=95.81 E-value=0.0095 Score=38.92 Aligned_cols=43 Identities=21% Similarity=0.354 Sum_probs=31.8
Q ss_pred CCCCCCcCCCCchHHHHhhh-hcCCCCCCccccccccCcccCCchhHhhhcccc
Q 044394 16 NNVQNPNRKENQDVEYDGRI-HSHPCKKYGPYKCPKCNGAFGTSQAFAAHMRSH 68 (140)
Q Consensus 16 ~~~~~~~~~k~s~L~~H~r~-Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~r~H 68 (140)
+..|...|....+|..|++. |++ +.|+.|++.|. .+..|...+
T Consensus 4 C~~Cgk~F~s~s~Lk~H~r~~H~~-------~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 4 CPICGFTTVTLFALKQHARRNHTL-------TKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CCCCCCccCCHHHHHHHhhcccCC-------CccCCCCCEeC---Chhhhhccc
Confidence 35567888888999999874 543 47999999997 466776543
No 23
>PLN03086 PRLI-interacting factor K; Provisional
Probab=95.58 E-value=0.0056 Score=53.28 Aligned_cols=56 Identities=14% Similarity=0.228 Sum_probs=39.1
Q ss_pred CCCcCCCCchHHHHhhhhcCCCCCCccccccccCcccCCchhHhhhcccccCCCChHHHHHHHHH
Q 044394 19 QNPNRKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGTSQAFAAHMRSHYKYETSAERKRRLSA 83 (140)
Q Consensus 19 ~~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~r~Ht~ekp~~~~~~~~~~ 83 (140)
|+..| ....|..|+.+|. +|+.|+ ||..| .+..|..|+..|.+.+++.|..|.+..
T Consensus 459 Cgk~f-~~s~LekH~~~~H------kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v 514 (567)
T PLN03086 459 CGQAF-QQGEMEKHMKVFH------EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMV 514 (567)
T ss_pred CCCcc-chHHHHHHHHhcC------CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCcc
Confidence 34444 3566888877752 578888 88654 557888888888888888877665544
No 24
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=95.13 E-value=0.014 Score=47.60 Aligned_cols=60 Identities=23% Similarity=0.435 Sum_probs=47.0
Q ss_pred cCCCCCCCCCCCCCCcCCCCchHHHHhhh-hcCC--------------CCCCccccccccCcccCCchhHhhhcc
Q 044394 7 QDKNPGKNPNNVQNPNRKENQDVEYDGRI-HSHP--------------CKKYGPYKCPKCNGAFGTSQAFAAHMR 66 (140)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~k~s~L~~H~r~-Htg~--------------h~~ekP~~C~~Cgk~F~~~~~L~~H~r 66 (140)
-|-.|-+||-.=|+++++....|+.|+.- |... .+..|||.|..|+|.+.....|+-|+.
T Consensus 345 ~d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 345 KDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred ecCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 34578899998899999999999999753 2110 233589999999999999888887754
No 25
>PHA00732 hypothetical protein
Probab=95.01 E-value=0.014 Score=38.13 Aligned_cols=26 Identities=35% Similarity=0.503 Sum_probs=23.4
Q ss_pred cccccccCcccCCchhHhhhcc-cccC
Q 044394 45 PYKCPKCNGAFGTSQAFAAHMR-SHYK 70 (140)
Q Consensus 45 P~~C~~Cgk~F~~~~~L~~H~r-~Ht~ 70 (140)
||.|..|++.|.+...|..|++ .|.+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~ 27 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL 27 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC
Confidence 6899999999999999999998 4765
No 26
>PLN03086 PRLI-interacting factor K; Provisional
Probab=95.01 E-value=0.016 Score=50.48 Aligned_cols=65 Identities=12% Similarity=0.089 Sum_probs=48.8
Q ss_pred CCCCCCCCCCCCCcCCCCchHHHHhhhhcCCCCCCccccccccCcccCC----------chhHhhhcccccCCCChHHHH
Q 044394 9 KNPGKNPNNVQNPNRKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGT----------SQAFAAHMRSHYKYETSAERK 78 (140)
Q Consensus 9 ~~~~~~~~~~~~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~----------~~~L~~H~r~Ht~ekp~~~~~ 78 (140)
|.|-.|+ |. .+..+..|..|+.+|.. .+|+.|..|++.|.. ...|..|...+ |.+++.|..
T Consensus 476 Hkpv~Cp---Cg-~~~~R~~L~~H~~thCp----~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~ 546 (567)
T PLN03086 476 HEPLQCP---CG-VVLEKEQMVQHQASTCP----LRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDS 546 (567)
T ss_pred CCCccCC---CC-CCcchhHHHhhhhccCC----CCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEccc
Confidence 4555665 44 45566889999988888 999999999999852 34788898875 888888866
Q ss_pred HHHH
Q 044394 79 RRLS 82 (140)
Q Consensus 79 ~~~~ 82 (140)
+...
T Consensus 547 Cgk~ 550 (567)
T PLN03086 547 CGRS 550 (567)
T ss_pred cCCe
Confidence 5443
No 27
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=94.33 E-value=0.017 Score=28.87 Aligned_cols=23 Identities=30% Similarity=0.803 Sum_probs=20.3
Q ss_pred ccccccCcccCCchhHhhhcccc
Q 044394 46 YKCPKCNGAFGTSQAFAAHMRSH 68 (140)
Q Consensus 46 ~~C~~Cgk~F~~~~~L~~H~r~H 68 (140)
|.|..|++.|.....|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 67999999999999999998753
No 28
>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=93.58 E-value=0.042 Score=28.16 Aligned_cols=22 Identities=27% Similarity=0.757 Sum_probs=20.0
Q ss_pred ccccccCcccCCchhHhhhccc
Q 044394 46 YKCPKCNGAFGTSQAFAAHMRS 67 (140)
Q Consensus 46 ~~C~~Cgk~F~~~~~L~~H~r~ 67 (140)
|-|..|++.|.....|..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 6799999999999999999864
No 29
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=93.10 E-value=0.024 Score=47.64 Aligned_cols=51 Identities=18% Similarity=0.306 Sum_probs=42.2
Q ss_pred CCCCCCCcCCCCchHHHHhhhhcCCCCCCccccccccCcccCCchhHhhhccccc
Q 044394 15 PNNVQNPNRKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGTSQAFAAHMRSHY 69 (140)
Q Consensus 15 ~~~~~~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~r~Ht 69 (140)
-+.+|...|.+.+.|..|.-.-.- .--|.|+.|+|.|+=..+|..|.|.|-
T Consensus 269 iCqLCK~kYeD~F~LAQHrC~RIV----~vEYrCPEC~KVFsCPANLASHRRWHK 319 (500)
T KOG3993|consen 269 ICQLCKEKYEDAFALAQHRCPRIV----HVEYRCPECDKVFSCPANLASHRRWHK 319 (500)
T ss_pred HHHHHHHhhhhHHHHhhccCCeeE----EeeecCCcccccccCchhhhhhhcccC
Confidence 345677889999999999754443 445999999999999999999999984
No 30
>PHA00616 hypothetical protein
Probab=92.49 E-value=0.044 Score=31.91 Aligned_cols=29 Identities=3% Similarity=-0.229 Sum_probs=25.7
Q ss_pred CCCCcCCCCchHHHHhhhhcCCCCCCccccccc
Q 044394 18 VQNPNRKENQDVEYDGRIHSHPCKKYGPYKCPK 50 (140)
Q Consensus 18 ~~~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~ 50 (140)
-|+..|.+.++|..|++.|++ ++|+.|+.
T Consensus 6 ~CG~~F~~~s~l~~H~r~~hg----~~~~~~~~ 34 (44)
T PHA00616 6 RCGGIFRKKKEVIEHLLSVHK----QNKLTLEY 34 (44)
T ss_pred hhhHHHhhHHHHHHHHHHhcC----CCccceeE
Confidence 357889999999999999999 99999865
No 31
>PRK04860 hypothetical protein; Provisional
Probab=91.73 E-value=0.15 Score=37.66 Aligned_cols=30 Identities=17% Similarity=0.386 Sum_probs=21.7
Q ss_pred CCchHHHHhhhhcCCCCCCccccccccCcccCCc
Q 044394 25 ENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGTS 58 (140)
Q Consensus 25 k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~~ 58 (140)
....+.+|.++|++ +++|.|..|+..|...
T Consensus 127 ~~~~~rrH~ri~~g----~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 127 HQLTVRRHNRVVRG----EAVYRCRRCGETLVFK 156 (160)
T ss_pred eeCHHHHHHHHhcC----CccEECCCCCceeEEe
Confidence 55667777777777 7788887787776543
No 32
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=90.44 E-value=0.14 Score=26.06 Aligned_cols=21 Identities=24% Similarity=0.643 Sum_probs=16.4
Q ss_pred ccccccCcccCCchhHhhhccc
Q 044394 46 YKCPKCNGAFGTSQAFAAHMRS 67 (140)
Q Consensus 46 ~~C~~Cgk~F~~~~~L~~H~r~ 67 (140)
..|+.||+.| ....|..|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4699999999 56778888653
No 33
>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=90.42 E-value=0.15 Score=27.33 Aligned_cols=22 Identities=27% Similarity=0.638 Sum_probs=19.7
Q ss_pred cccccccCcccCCchhHhhhcc
Q 044394 45 PYKCPKCNGAFGTSQAFAAHMR 66 (140)
Q Consensus 45 P~~C~~Cgk~F~~~~~L~~H~r 66 (140)
+|.|..|+..|.....+..|..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 6889999999999999988875
No 34
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=90.42 E-value=0.097 Score=25.86 Aligned_cols=22 Identities=32% Similarity=0.859 Sum_probs=15.8
Q ss_pred ccccccCcccCCchhHhhhcccc
Q 044394 46 YKCPKCNGAFGTSQAFAAHMRSH 68 (140)
Q Consensus 46 ~~C~~Cgk~F~~~~~L~~H~r~H 68 (140)
|.|+.|..... ...|..|++.|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhh
Confidence 67899987777 77888888764
No 35
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=90.12 E-value=0.14 Score=41.03 Aligned_cols=57 Identities=23% Similarity=0.377 Sum_probs=48.7
Q ss_pred CCCCCcCCCCchHHHHhh--hhcCCCCCC--cccccc--ccCcccCCchhHhhhcccccCCCChHHH
Q 044394 17 NVQNPNRKENQDVEYDGR--IHSHPCKKY--GPYKCP--KCNGAFGTSQAFAAHMRSHYKYETSAER 77 (140)
Q Consensus 17 ~~~~~~~~k~s~L~~H~r--~Htg~h~~e--kP~~C~--~Cgk~F~~~~~L~~H~r~Ht~ekp~~~~ 77 (140)
..++..+...+.|..|.+ .|++ + +|+.|+ .|++.|.+...+..|..+|++..+..+.
T Consensus 293 ~~~~~~~s~~~~l~~~~~~~~h~~----~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 (467)
T COG5048 293 KQCNISFSRSSPLTRHLRSVNHSG----ESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEK 355 (467)
T ss_pred ccccCCcccccccccccccccccc----ccCCceeeeccCCCccccccccccCCcccccCCCccccc
Confidence 344677888899999999 7888 8 999999 7999999999999999999988765543
No 36
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=89.54 E-value=0.5 Score=28.18 Aligned_cols=46 Identities=13% Similarity=0.166 Sum_probs=29.5
Q ss_pred CCCCCcCCCCchHHHHhhh-hcCCCCCCccccccccCcccCCchhHhhhccc
Q 044394 17 NVQNPNRKENQDVEYDGRI-HSHPCKKYGPYKCPKCNGAFGTSQAFAAHMRS 67 (140)
Q Consensus 17 ~~~~~~~~k~s~L~~H~r~-Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~r~ 67 (140)
+|.+........|..|... |.. ..+.+.|+.|...+. .+|..|+..
T Consensus 5 CP~C~~~~~~~~L~~H~~~~H~~---~~~~v~CPiC~~~~~--~~l~~Hl~~ 51 (54)
T PF05605_consen 5 CPYCGKGFSESSLVEHCEDEHRS---ESKNVVCPICSSRVT--DNLIRHLNS 51 (54)
T ss_pred CCCCCCccCHHHHHHHHHhHCcC---CCCCccCCCchhhhh--hHHHHHHHH
Confidence 4443335566788888654 555 135688999987654 377777754
No 37
>PRK04860 hypothetical protein; Provisional
Probab=86.16 E-value=0.14 Score=37.72 Aligned_cols=33 Identities=21% Similarity=0.321 Sum_probs=27.7
Q ss_pred ccccccccCcccCCchhHhhhcccccCCCChHHHHHH
Q 044394 44 GPYKCPKCNGAFGTSQAFAAHMRSHYKYETSAERKRR 80 (140)
Q Consensus 44 kP~~C~~Cgk~F~~~~~L~~H~r~Ht~ekp~~~~~~~ 80 (140)
-+|.|. |+. ....+.+|.++|+++++|.|..+.
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~ 150 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCG 150 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCC
Confidence 479998 987 777889999999999999876653
No 38
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=81.07 E-value=0.76 Score=29.73 Aligned_cols=24 Identities=42% Similarity=0.985 Sum_probs=20.9
Q ss_pred cccccccCcccCCchhHhhhcccc
Q 044394 45 PYKCPKCNGAFGTSQAFAAHMRSH 68 (140)
Q Consensus 45 P~~C~~Cgk~F~~~~~L~~H~r~H 68 (140)
.+.|..|++.|.....|..|++.+
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCc
Confidence 689999999999999999999754
No 39
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=77.68 E-value=0.77 Score=28.16 Aligned_cols=24 Identities=21% Similarity=0.613 Sum_probs=22.0
Q ss_pred CccccccccCcccCCchhHhhhcc
Q 044394 43 YGPYKCPKCNGAFGTSQAFAAHMR 66 (140)
Q Consensus 43 ekP~~C~~Cgk~F~~~~~L~~H~r 66 (140)
|.-+.|+.|+..|.......+|..
T Consensus 15 E~~lrCPRC~~~FR~~K~Y~RHVN 38 (65)
T COG4049 15 EEFLRCPRCGMVFRRRKDYIRHVN 38 (65)
T ss_pred ceeeeCCchhHHHHHhHHHHHHhh
Confidence 788999999999999999999974
No 40
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=75.23 E-value=1.3 Score=31.74 Aligned_cols=32 Identities=25% Similarity=0.485 Sum_probs=20.6
Q ss_pred cccccccCcccCCchhHhhhcccccCCCChHHHHH
Q 044394 45 PYKCPKCNGAFGTSQAFAAHMRSHYKYETSAERKR 79 (140)
Q Consensus 45 P~~C~~Cgk~F~~~~~L~~H~r~Ht~ekp~~~~~~ 79 (140)
-..|..||+.|.. |.+|.+.|.|-.|.+++.+
T Consensus 72 ~i~clecGk~~k~---LkrHL~~~~gltp~eYR~k 103 (132)
T PF05443_consen 72 YIICLECGKKFKT---LKRHLRTHHGLTPEEYRAK 103 (132)
T ss_dssp -EE-TBT--EESB---HHHHHHHTT-S-HHHHHHH
T ss_pred eeEEccCCcccch---HHHHHHHccCCCHHHHHHH
Confidence 4679999998876 4899999988888776653
No 41
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=73.87 E-value=0.84 Score=38.68 Aligned_cols=27 Identities=22% Similarity=0.568 Sum_probs=23.4
Q ss_pred ccccccccCcccCCchhHhhhcccccC
Q 044394 44 GPYKCPKCNGAFGTSQAFAAHMRSHYK 70 (140)
Q Consensus 44 kP~~C~~Cgk~F~~~~~L~~H~r~Ht~ 70 (140)
.-|.|..|++.|.+...|..|+..|..
T Consensus 355 gi~~C~~C~KkFrRqAYLrKHqlthq~ 381 (500)
T KOG3993|consen 355 GIFSCHTCGKKFRRQAYLRKHQLTHQR 381 (500)
T ss_pred ceeecHHhhhhhHHHHHHHHhHHhhhc
Confidence 358999999999999999999877643
No 42
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=65.09 E-value=3.7 Score=29.61 Aligned_cols=31 Identities=19% Similarity=0.419 Sum_probs=25.0
Q ss_pred ccccccCcccCCchhHhhhcccccCCCChHHHHH
Q 044394 46 YKCPKCNGAFGTSQAFAAHMRSHYKYETSAERKR 79 (140)
Q Consensus 46 ~~C~~Cgk~F~~~~~L~~H~r~Ht~ekp~~~~~~ 79 (140)
..|..||+.|. .|++|..+|.+--|.++|.+
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gmTPd~YR~K 107 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGLTPDEYRAK 107 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCCCHHHHHHh
Confidence 45999999885 58999999999888776653
No 43
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=58.05 E-value=5.5 Score=38.24 Aligned_cols=55 Identities=22% Similarity=0.181 Sum_probs=43.2
Q ss_pred CCCCCCCCCcCCCCchHHHHhhhhcCC---------------------CCCCccccccccCcccCCchhHhhhccc
Q 044394 13 KNPNNVQNPNRKENQDVEYDGRIHSHP---------------------CKKYGPYKCPKCNGAFGTSQAFAAHMRS 67 (140)
Q Consensus 13 ~~~~~~~~~~~~k~s~L~~H~r~Htg~---------------------h~~ekP~~C~~Cgk~F~~~~~L~~H~r~ 67 (140)
.+.+..|+|.|+....|..|+|...-+ ..+.+||.|..|..+|....+|..|+..
T Consensus 465 t~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 465 TLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred cccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHHH
Confidence 455677899999999999999981111 1234789999999999999999999853
No 44
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=51.51 E-value=6.3 Score=31.25 Aligned_cols=45 Identities=13% Similarity=0.219 Sum_probs=33.0
Q ss_pred CCCCCCcCCCCchHHHHhhhhcCCCCCCccccccccCcccCCchhHhhhc-ccc
Q 044394 16 NNVQNPNRKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGTSQAFAAHM-RSH 68 (140)
Q Consensus 16 ~~~~~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~-r~H 68 (140)
+--||..|....-|..|+. .+-|+|-.|-+.+.+...|.-|. ++|
T Consensus 13 cwycnrefddekiliqhqk--------akhfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQK--------AKHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred eeecccccchhhhhhhhhh--------hccceeeeehhhhccCCCceeehhhhh
Confidence 4456888888777777765 68899999987777666677664 444
No 45
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=51.04 E-value=9.6 Score=30.30 Aligned_cols=47 Identities=21% Similarity=0.316 Sum_probs=35.1
Q ss_pred CCCCCCcCCCCchHHHHhhhhcCCCCCCccccccccCcccCCchhHhhhccccc
Q 044394 16 NNVQNPNRKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFGTSQAFAAHMRSHY 69 (140)
Q Consensus 16 ~~~~~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~~~~L~~H~r~Ht 69 (140)
+++|+.+.++.. |-+|+-.-.+ .-|.|-.|++.|.+ .....|...-+
T Consensus 6 CnvCgEsvKKp~-vekH~srCrn-----~~fSCIDC~k~F~~-~sYknH~kCIT 52 (276)
T KOG2186|consen 6 CNVCGESVKKPQ-VEKHMSRCRN-----AYFSCIDCGKTFER-VSYKNHTKCIT 52 (276)
T ss_pred hhhhhhhccccc-hHHHHHhccC-----CeeEEeeccccccc-chhhhhhhhcc
Confidence 577888887775 7778865554 56899999999999 66777766433
No 46
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=44.69 E-value=13 Score=18.82 Aligned_cols=20 Identities=20% Similarity=0.591 Sum_probs=14.2
Q ss_pred ccccccCcccCCchhHhhhcc
Q 044394 46 YKCPKCNGAFGTSQAFAAHMR 66 (140)
Q Consensus 46 ~~C~~Cgk~F~~~~~L~~H~r 66 (140)
..|+.|++.+ ....+..|.-
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3689999888 5566777753
No 47
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=44.39 E-value=10 Score=31.25 Aligned_cols=24 Identities=38% Similarity=0.807 Sum_probs=21.1
Q ss_pred Cccccccc--cCcccCCchhHhhhcc
Q 044394 43 YGPYKCPK--CNGAFGTSQAFAAHMR 66 (140)
Q Consensus 43 ekP~~C~~--Cgk~F~~~~~L~~H~r 66 (140)
+|||+|+. |.|.+...-.|+-|+.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~l 372 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHML 372 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhh
Confidence 59999976 9999999999988874
No 48
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=42.60 E-value=4.2 Score=36.88 Aligned_cols=26 Identities=27% Similarity=0.595 Sum_probs=23.4
Q ss_pred cccccccCcccCCchhHhhhcccccC
Q 044394 45 PYKCPKCNGAFGTSQAFAAHMRSHYK 70 (140)
Q Consensus 45 P~~C~~Cgk~F~~~~~L~~H~r~Ht~ 70 (140)
-|.|..|+|.|.....++.|++.|.-
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 48899999999999999999998854
No 49
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=40.82 E-value=16 Score=21.16 Aligned_cols=24 Identities=29% Similarity=0.581 Sum_probs=17.2
Q ss_pred ccccccCcccCCc-----hhHhhhcc-ccc
Q 044394 46 YKCPKCNGAFGTS-----QAFAAHMR-SHY 69 (140)
Q Consensus 46 ~~C~~Cgk~F~~~-----~~L~~H~r-~Ht 69 (140)
-.|..|++.+... ++|.+|+. .|.
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 4588899888655 58888876 443
No 50
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=40.33 E-value=12 Score=28.85 Aligned_cols=25 Identities=20% Similarity=0.535 Sum_probs=20.0
Q ss_pred CccccccccCcccCCchhHhhhccc
Q 044394 43 YGPYKCPKCNGAFGTSQAFAAHMRS 67 (140)
Q Consensus 43 ekP~~C~~Cgk~F~~~~~L~~H~r~ 67 (140)
+.-|.|..|+|.|.-......|+..
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~n 99 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFN 99 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHH
T ss_pred CCEECCCCCCcccCChHHHHHHHhh
Confidence 4459999999999999999999865
No 51
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=39.93 E-value=13 Score=18.71 Aligned_cols=10 Identities=40% Similarity=1.178 Sum_probs=8.2
Q ss_pred ccccccccCc
Q 044394 44 GPYKCPKCNG 53 (140)
Q Consensus 44 kP~~C~~Cgk 53 (140)
-+|.|+.||.
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 4799999984
No 52
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=38.20 E-value=14 Score=20.10 Aligned_cols=15 Identities=33% Similarity=0.875 Sum_probs=11.6
Q ss_pred cccccccCcccCCch
Q 044394 45 PYKCPKCNGAFGTSQ 59 (140)
Q Consensus 45 P~~C~~Cgk~F~~~~ 59 (140)
-|.|..||..|....
T Consensus 5 ~y~C~~Cg~~fe~~~ 19 (41)
T smart00834 5 EYRCEDCGHTFEVLQ 19 (41)
T ss_pred EEEcCCCCCEEEEEE
Confidence 478999999886544
No 53
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=38.13 E-value=27 Score=27.74 Aligned_cols=48 Identities=19% Similarity=0.380 Sum_probs=33.5
Q ss_pred CcCCCCchHHHHhhhhcCCCCCCccccccc--cCcccCCchhHhhhcccccCCC
Q 044394 21 PNRKENQDVEYDGRIHSHPCKKYGPYKCPK--CNGAFGTSQAFAAHMRSHYKYE 72 (140)
Q Consensus 21 ~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~--Cgk~F~~~~~L~~H~r~Ht~ek 72 (140)
..+.......+|.+.|++ ++++.|.. |...|.....+..|.+.+....
T Consensus 41 ~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (467)
T COG5048 41 DSFSRLEHLTRHIRSHTG----EKPSQCSYSGCDKSFSRPLELSRHLRTHHNNP 90 (467)
T ss_pred ccccccchhhhhcccccc----cCCccccccccccccCCcchhhhhcccccccc
Confidence 444444555555555555 99999966 6788888888888888776544
No 54
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=34.93 E-value=20 Score=25.67 Aligned_cols=21 Identities=14% Similarity=0.487 Sum_probs=17.0
Q ss_pred CccccccccCcccCCchhHhh
Q 044394 43 YGPYKCPKCNGAFGTSQAFAA 63 (140)
Q Consensus 43 ekP~~C~~Cgk~F~~~~~L~~ 63 (140)
+.-+.|+.|++.|+..+++.+
T Consensus 122 ~~f~~C~~C~kiyW~GsH~~~ 142 (147)
T PF01927_consen 122 DEFWRCPGCGKIYWEGSHWRR 142 (147)
T ss_pred CeEEECCCCCCEecccccHHH
Confidence 346789999999999887764
No 55
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=33.51 E-value=22 Score=18.10 Aligned_cols=11 Identities=36% Similarity=0.851 Sum_probs=8.6
Q ss_pred ccccccCcccC
Q 044394 46 YKCPKCNGAFG 56 (140)
Q Consensus 46 ~~C~~Cgk~F~ 56 (140)
-.|+.||..|.
T Consensus 15 ~~Cp~CG~~F~ 25 (26)
T PF10571_consen 15 KFCPHCGYDFE 25 (26)
T ss_pred CcCCCCCCCCc
Confidence 46888998885
No 56
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=33.32 E-value=17 Score=20.36 Aligned_cols=18 Identities=28% Similarity=0.791 Sum_probs=13.6
Q ss_pred cccccccCcccCCchhHh
Q 044394 45 PYKCPKCNGAFGTSQAFA 62 (140)
Q Consensus 45 P~~C~~Cgk~F~~~~~L~ 62 (140)
-|.|..||..|.....+.
T Consensus 5 ey~C~~Cg~~fe~~~~~~ 22 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSIS 22 (42)
T ss_pred EEEeCCCCCEEEEEEEcC
Confidence 488999998887665444
No 57
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=30.99 E-value=23 Score=19.64 Aligned_cols=16 Identities=25% Similarity=0.702 Sum_probs=13.4
Q ss_pred cccccccCcccCCchh
Q 044394 45 PYKCPKCNGAFGTSQA 60 (140)
Q Consensus 45 P~~C~~Cgk~F~~~~~ 60 (140)
||.|..|++.|-....
T Consensus 12 ~f~C~~C~~~FC~~HR 27 (39)
T smart00154 12 GFKCRHCGNLFCGEHR 27 (39)
T ss_pred CeECCccCCccccccC
Confidence 8999999999987553
No 58
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=30.83 E-value=25 Score=25.16 Aligned_cols=15 Identities=33% Similarity=0.877 Sum_probs=13.0
Q ss_pred cccccccCcccCCch
Q 044394 45 PYKCPKCNGAFGTSQ 59 (140)
Q Consensus 45 P~~C~~Cgk~F~~~~ 59 (140)
|++|..||+.|...+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 688999999998766
No 59
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 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 predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=30.38 E-value=28 Score=19.28 Aligned_cols=23 Identities=22% Similarity=0.390 Sum_probs=14.3
Q ss_pred CccccccccCcccCCc----hhHhhhc
Q 044394 43 YGPYKCPKCNGAFGTS----QAFAAHM 65 (140)
Q Consensus 43 ekP~~C~~Cgk~F~~~----~~L~~H~ 65 (140)
..-..|..|++.+... +.|..|+
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL 40 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHL 40 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHH
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhh
Confidence 4556799999888764 6777877
No 60
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=30.12 E-value=22 Score=19.39 Aligned_cols=33 Identities=27% Similarity=0.402 Sum_probs=18.5
Q ss_pred CCCcCCCCchHHHHhhhhcCCCCCCccccccccCcccC
Q 044394 19 QNPNRKENQDVEYDGRIHSHPCKKYGPYKCPKCNGAFG 56 (140)
Q Consensus 19 ~~~~~~k~s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~ 56 (140)
.++.+...+.+...+.. .+ .+...|+.|+..|.
T Consensus 4 ~CP~C~~~f~v~~~~l~-~~----~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLP-AG----GRKVRCPKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHHHcc-cC----CcEEECCCCCcEee
Confidence 34555555554444322 22 45677888887764
No 61
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 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 AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=29.54 E-value=19 Score=20.29 Aligned_cols=18 Identities=28% Similarity=0.765 Sum_probs=11.6
Q ss_pred ccccccccCcccCCchhH
Q 044394 44 GPYKCPKCNGAFGTSQAF 61 (140)
Q Consensus 44 kP~~C~~Cgk~F~~~~~L 61 (140)
-|+.|..|++.|-....+
T Consensus 12 ~~~~C~~C~~~FC~~Hr~ 29 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLKHRL 29 (43)
T ss_dssp SHEE-TTTS-EE-TTTHS
T ss_pred CCeECCCCCcccCccccC
Confidence 589999999999875533
No 62
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=29.07 E-value=51 Score=19.48 Aligned_cols=21 Identities=14% Similarity=0.301 Sum_probs=16.1
Q ss_pred CccccccccCcccCCchhHhh
Q 044394 43 YGPYKCPKCNGAFGTSQAFAA 63 (140)
Q Consensus 43 ekP~~C~~Cgk~F~~~~~L~~ 63 (140)
.+.+.|..||..|.....=+.
T Consensus 2 Dk~l~C~dCg~~FvfTa~EQ~ 22 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTAGEQK 22 (49)
T ss_pred CeeEEcccCCCeEEEehhHHH
Confidence 577899999999987664443
No 63
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=28.89 E-value=27 Score=23.56 Aligned_cols=25 Identities=20% Similarity=0.389 Sum_probs=17.1
Q ss_pred hHHHHhhhhcCCCCCCccccccccCcccCC
Q 044394 28 DVEYDGRIHSHPCKKYGPYKCPKCNGAFGT 57 (140)
Q Consensus 28 ~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~ 57 (140)
+....+..+.+ +|+.|..||..|.-
T Consensus 67 h~v~W~~l~~g-----~~~rC~eCG~~fkL 91 (97)
T cd00924 67 HDVIWMWLEKG-----KPKRCPECGHVFKL 91 (97)
T ss_pred ceEEEEEEeCC-----CceeCCCCCcEEEE
Confidence 34444455554 69999999988853
No 64
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=28.85 E-value=23 Score=20.39 Aligned_cols=15 Identities=33% Similarity=0.842 Sum_probs=11.6
Q ss_pred cccccccCcccCCch
Q 044394 45 PYKCPKCNGAFGTSQ 59 (140)
Q Consensus 45 P~~C~~Cgk~F~~~~ 59 (140)
-|.|..||..|....
T Consensus 5 ey~C~~Cg~~fe~~~ 19 (52)
T TIGR02605 5 EYRCTACGHRFEVLQ 19 (52)
T ss_pred EEEeCCCCCEeEEEE
Confidence 378999999887543
No 65
>PLN02294 cytochrome c oxidase subunit Vb
Probab=28.52 E-value=29 Score=26.00 Aligned_cols=26 Identities=15% Similarity=0.294 Sum_probs=17.5
Q ss_pred chHHHHhhhhcCCCCCCccccccccCcccCC
Q 044394 27 QDVEYDGRIHSHPCKKYGPYKCPKCNGAFGT 57 (140)
Q Consensus 27 s~L~~H~r~Htg~h~~ekP~~C~~Cgk~F~~ 57 (140)
++...++..+.+ +|+.|+.||..|.-
T Consensus 128 sh~v~Wf~L~kG-----kp~RCpeCG~~fkL 153 (174)
T PLN02294 128 EHDVVWFWLEKG-----KSFECPVCTQYFEL 153 (174)
T ss_pred CceeEEEEecCC-----CceeCCCCCCEEEE
Confidence 334444455554 79999999988853
No 66
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 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 C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=27.43 E-value=26 Score=18.30 Aligned_cols=20 Identities=20% Similarity=0.767 Sum_probs=12.3
Q ss_pred ccccccCcccCCchhHhhhcc
Q 044394 46 YKCPKCNGAFGTSQAFAAHMR 66 (140)
Q Consensus 46 ~~C~~Cgk~F~~~~~L~~H~r 66 (140)
|.|-.|++.| .......|..
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht~ 20 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHTS 20 (28)
T ss_dssp EEETTTTEEE-EGGGTTT---
T ss_pred CeeecCCCCc-CcCCcCCCCc
Confidence 4688899999 4455666644
No 67
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=26.27 E-value=22 Score=27.14 Aligned_cols=24 Identities=25% Similarity=0.548 Sum_probs=18.4
Q ss_pred CccccccccCcccCCchhHhhhcc
Q 044394 43 YGPYKCPKCNGAFGTSQAFAAHMR 66 (140)
Q Consensus 43 ekP~~C~~Cgk~F~~~~~L~~H~r 66 (140)
++.+.|+.|++.|....-.....+
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r 26 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIR 26 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCce
Confidence 467899999999988765555554
No 68
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=26.12 E-value=33 Score=23.00 Aligned_cols=24 Identities=25% Similarity=0.653 Sum_probs=20.7
Q ss_pred cccc----cccCcccCCchhHhhhcccc
Q 044394 45 PYKC----PKCNGAFGTSQAFAAHMRSH 68 (140)
Q Consensus 45 P~~C----~~Cgk~F~~~~~L~~H~r~H 68 (140)
.|.| ..|+..+.+...+..|.+.+
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~ 107 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKE 107 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHh
Confidence 3789 99999999999999998754
No 69
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=25.67 E-value=25 Score=20.65 Aligned_cols=13 Identities=23% Similarity=0.739 Sum_probs=7.0
Q ss_pred cccccCcccCCch
Q 044394 47 KCPKCNGAFGTSQ 59 (140)
Q Consensus 47 ~C~~Cgk~F~~~~ 59 (140)
.|+.|++.|....
T Consensus 22 ~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 22 CCPLCGRPLDEEH 34 (54)
T ss_dssp E-TTT--EE-HHH
T ss_pred cCCCCCCCCCHHH
Confidence 8999999987543
No 70
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=25.60 E-value=32 Score=30.42 Aligned_cols=29 Identities=28% Similarity=0.549 Sum_probs=25.2
Q ss_pred CccccccccCcccCCchhHhhhcccccCC
Q 044394 43 YGPYKCPKCNGAFGTSQAFAAHMRSHYKY 71 (140)
Q Consensus 43 ekP~~C~~Cgk~F~~~~~L~~H~r~Ht~e 71 (140)
..|-+|..||.+|........|+-+|...
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~dw 444 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHDDW 444 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhhhh
Confidence 46789999999999999999999888763
No 71
>PHA00626 hypothetical protein
Probab=25.46 E-value=33 Score=20.99 Aligned_cols=16 Identities=19% Similarity=0.382 Sum_probs=13.0
Q ss_pred ccccccccCcccCCch
Q 044394 44 GPYKCPKCNGAFGTSQ 59 (140)
Q Consensus 44 kP~~C~~Cgk~F~~~~ 59 (140)
..|.|..||..|+...
T Consensus 22 nrYkCkdCGY~ft~~~ 37 (59)
T PHA00626 22 DDYVCCDCGYNDSKDA 37 (59)
T ss_pred cceEcCCCCCeechhh
Confidence 4799999999887644
No 72
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=24.91 E-value=32 Score=24.38 Aligned_cols=25 Identities=24% Similarity=0.600 Sum_probs=21.6
Q ss_pred CccccccccCcccCCchhHhhhccc
Q 044394 43 YGPYKCPKCNGAFGTSQAFAAHMRS 67 (140)
Q Consensus 43 ekP~~C~~Cgk~F~~~~~L~~H~r~ 67 (140)
-..|-|-.|.+-|.....|..|.+.
T Consensus 55 ~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 55 GGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CceeehhhhhhhhcchHHHHHHHhc
Confidence 4458899999999999999998764
No 73
>PF15269 zf-C2H2_7: Zinc-finger
Probab=24.80 E-value=34 Score=20.08 Aligned_cols=22 Identities=27% Similarity=0.541 Sum_probs=17.4
Q ss_pred ccccccCcccCCchhHhhhccc
Q 044394 46 YKCPKCNGAFGTSQAFAAHMRS 67 (140)
Q Consensus 46 ~~C~~Cgk~F~~~~~L~~H~r~ 67 (140)
|+|.+|.....-.++|-.|++.
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 5688888777788888888764
No 74
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=24.48 E-value=37 Score=19.45 Aligned_cols=16 Identities=31% Similarity=0.746 Sum_probs=13.3
Q ss_pred cccccCcccCCchhHh
Q 044394 47 KCPKCNGAFGTSQAFA 62 (140)
Q Consensus 47 ~C~~Cgk~F~~~~~L~ 62 (140)
.|..|++.|.......
T Consensus 10 ~C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKWA 25 (42)
T ss_pred cCcccCCcchHHHHHH
Confidence 5999999999877654
No 75
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=24.32 E-value=33 Score=20.44 Aligned_cols=26 Identities=31% Similarity=0.638 Sum_probs=16.1
Q ss_pred ccccccccCcccCCchhHhhhccccc
Q 044394 44 GPYKCPKCNGAFGTSQAFAAHMRSHY 69 (140)
Q Consensus 44 kP~~C~~Cgk~F~~~~~L~~H~r~Ht 69 (140)
..|.|+.|...|---..+-.|..+|.
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiHE~LH~ 45 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIHETLHN 45 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTTTTS-S
T ss_pred CeEECCCCCCccccCcChhhhccccC
Confidence 46999999999988888877877764
No 76
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=23.39 E-value=34 Score=18.57 Aligned_cols=12 Identities=33% Similarity=0.908 Sum_probs=8.4
Q ss_pred ccccccccCccc
Q 044394 44 GPYKCPKCNGAF 55 (140)
Q Consensus 44 kP~~C~~Cgk~F 55 (140)
.-.+|+.|+..|
T Consensus 24 ~~v~C~~C~~~f 35 (36)
T PF13717_consen 24 RKVRCSKCGHVF 35 (36)
T ss_pred cEEECCCCCCEe
Confidence 456788887766
No 77
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=22.95 E-value=32 Score=25.15 Aligned_cols=19 Identities=21% Similarity=0.406 Sum_probs=15.0
Q ss_pred cccccccCcccCCchhHhh
Q 044394 45 PYKCPKCNGAFGTSQAFAA 63 (140)
Q Consensus 45 P~~C~~Cgk~F~~~~~L~~ 63 (140)
-++|+.||++|.....+..
T Consensus 28 ~~~c~~c~~~f~~~e~~~~ 46 (154)
T PRK00464 28 RRECLACGKRFTTFERVEL 46 (154)
T ss_pred eeeccccCCcceEeEeccC
Confidence 4899999999987665543
No 78
>PF14353 CpXC: CpXC protein
Probab=21.64 E-value=27 Score=24.10 Aligned_cols=21 Identities=24% Similarity=0.635 Sum_probs=16.1
Q ss_pred cccccccCcccCCchhHhhhc
Q 044394 45 PYKCPKCNGAFGTSQAFAAHM 65 (140)
Q Consensus 45 P~~C~~Cgk~F~~~~~L~~H~ 65 (140)
-|.|+.||..|.-...+.-|-
T Consensus 38 ~~~CP~Cg~~~~~~~p~lY~D 58 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEYPLLYHD 58 (128)
T ss_pred EEECCCCCCceecCCCEEEEc
Confidence 588999999998766665443
No 79
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=20.34 E-value=46 Score=27.82 Aligned_cols=23 Identities=26% Similarity=0.631 Sum_probs=20.6
Q ss_pred cccccccCcccCCchhHhhhccc
Q 044394 45 PYKCPKCNGAFGTSQAFAAHMRS 67 (140)
Q Consensus 45 P~~C~~Cgk~F~~~~~L~~H~r~ 67 (140)
.+.|..|.+.|..+..|..||+-
T Consensus 195 r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHh
Confidence 47899999999999999999963
Done!