Query psy3219
Match_columns 102
No_of_seqs 117 out of 827
Neff 6.4
Searched_HMMs 46136
Date Fri Aug 16 19:20:47 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3219.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3219hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4286|consensus 99.9 1.1E-24 2.5E-29 181.6 4.2 96 6-101 565-660 (966)
2 cd02334 ZZ_dystrophin Zinc fin 99.8 2.1E-21 4.5E-26 114.1 4.2 49 45-93 1-49 (49)
3 KOG4301|consensus 99.8 2.3E-21 4.9E-26 151.3 -0.5 88 8-95 202-291 (434)
4 cd02338 ZZ_PCMF_like Zinc fing 99.8 5E-19 1.1E-23 103.8 4.8 49 45-93 1-49 (49)
5 cd02345 ZZ_dah Zinc finger, ZZ 99.8 4.9E-19 1.1E-23 103.9 3.9 49 45-93 1-49 (49)
6 cd02344 ZZ_HERC2 Zinc finger, 99.7 1.1E-18 2.5E-23 100.8 3.5 45 45-93 1-45 (45)
7 cd02343 ZZ_EF Zinc finger, ZZ 99.7 1.9E-18 4.1E-23 101.0 3.1 47 45-92 1-47 (48)
8 cd02339 ZZ_Mind_bomb Zinc fing 99.7 3E-18 6.5E-23 99.0 3.6 45 45-93 1-45 (45)
9 cd02341 ZZ_ZZZ3 Zinc finger, Z 99.7 1.1E-17 2.4E-22 97.9 3.9 46 45-93 1-48 (48)
10 cd02335 ZZ_ADA2 Zinc finger, Z 99.7 1.7E-17 3.8E-22 97.1 4.0 49 45-93 1-49 (49)
11 cd02340 ZZ_NBR1_like Zinc fing 99.7 3.4E-17 7.3E-22 93.7 3.2 43 45-93 1-43 (43)
12 PF00569 ZZ: Zinc finger, ZZ t 99.6 3.1E-16 6.7E-21 90.7 2.5 43 43-85 3-45 (46)
13 cd02249 ZZ Zinc finger, ZZ typ 99.6 9.7E-16 2.1E-20 88.5 3.6 46 45-93 1-46 (46)
14 cd02342 ZZ_UBA_plant Zinc fing 99.5 3.1E-15 6.7E-20 85.3 2.3 34 45-78 1-34 (43)
15 smart00291 ZnF_ZZ Zinc-binding 99.5 1.2E-14 2.6E-19 83.3 3.4 42 42-84 2-43 (44)
16 KOG1280|consensus 99.5 3E-14 6.6E-19 111.3 4.4 56 42-97 5-61 (381)
17 KOG4582|consensus 99.4 2E-13 4.3E-18 104.5 4.7 47 45-95 153-199 (278)
18 cd02337 ZZ_CBP Zinc finger, ZZ 99.2 8.4E-12 1.8E-16 70.7 1.6 32 45-78 1-32 (41)
19 KOG0457|consensus 99.0 3.8E-10 8.3E-15 90.4 3.5 53 45-98 15-68 (438)
20 PF09069 EF-hand_3: EF-hand; 98.8 4E-09 8.7E-14 68.9 2.2 31 6-36 60-90 (90)
21 COG5114 Histone acetyltransfer 98.7 6.9E-09 1.5E-13 81.3 2.7 53 45-97 6-58 (432)
22 cd02336 ZZ_RSC8 Zinc finger, Z 98.7 2.2E-08 4.7E-13 57.8 3.5 41 45-86 1-41 (45)
23 PF07649 C1_3: C1-like domain; 96.4 0.0021 4.5E-08 33.5 1.5 27 46-74 2-29 (30)
24 PF03107 C1_2: C1 domain; Int 94.4 0.029 6.4E-07 29.1 1.7 28 45-74 1-29 (30)
25 PF02207 zf-UBR: Putative zinc 87.3 0.57 1.2E-05 28.7 2.3 34 58-96 12-48 (71)
26 PF00643 zf-B_box: B-box zinc 77.7 4.3 9.3E-05 21.8 3.2 38 45-92 4-41 (42)
27 KOG1778|consensus 76.5 1.3 2.8E-05 35.0 1.1 36 41-78 166-201 (319)
28 PF07975 C1_4: TFIIH C1-like d 74.0 2.6 5.6E-05 24.7 1.7 19 58-77 20-38 (51)
29 COG5259 RSC8 RSC chromatin rem 71.3 2.5 5.4E-05 35.3 1.6 40 41-81 221-260 (531)
30 PF13842 Tnp_zf-ribbon_2: DDE_ 69.8 3.5 7.5E-05 21.7 1.4 26 47-73 3-29 (32)
31 PF00130 C1_1: Phorbol esters/ 65.7 5.8 0.00013 22.2 2.0 25 42-67 9-36 (53)
32 KOG2807|consensus 62.0 3.1 6.8E-05 33.3 0.5 31 45-76 331-361 (378)
33 smart00396 ZnF_UBR1 Putative z 60.4 11 0.00024 23.0 2.7 32 59-95 13-47 (71)
34 PF03811 Zn_Tnp_IS1: InsA N-te 55.6 12 0.00027 20.2 2.0 22 44-65 5-35 (36)
35 cd00029 C1 Protein kinase C co 52.3 7.7 0.00017 21.1 0.9 21 44-65 11-34 (50)
36 PF00412 LIM: LIM domain; Int 47.9 3.5 7.7E-05 23.3 -1.0 38 37-77 17-56 (58)
37 TIGR00622 ssl1 transcription f 44.1 14 0.0003 25.1 1.3 30 45-76 56-97 (112)
38 TIGR01053 LSD1 zinc finger dom 42.9 18 0.0004 18.9 1.4 23 45-67 2-27 (31)
39 PF05290 Baculo_IE-1: Baculovi 42.9 8.6 0.00019 27.0 0.1 33 45-77 81-113 (140)
40 smart00109 C1 Protein kinase C 42.8 12 0.00026 20.0 0.7 21 44-65 11-33 (49)
41 PF13717 zinc_ribbon_4: zinc-r 40.0 29 0.00062 18.5 1.9 23 45-67 3-33 (36)
42 PF08209 Sgf11: Sgf11 (transcr 39.9 11 0.00024 20.1 0.3 16 44-60 4-19 (33)
43 PF07754 DUF1610: Domain of un 32.2 36 0.00077 16.9 1.4 9 57-65 14-22 (24)
44 PF13719 zinc_ribbon_5: zinc-r 32.1 40 0.00087 17.9 1.7 23 45-67 3-33 (37)
45 PF12760 Zn_Tnp_IS1595: Transp 31.1 35 0.00075 18.9 1.4 23 44-66 18-44 (46)
46 PF09862 DUF2089: Protein of u 30.4 47 0.001 22.5 2.2 27 47-74 1-32 (113)
47 PF10058 DUF2296: Predicted in 30.0 74 0.0016 18.5 2.7 25 44-68 22-53 (54)
48 PF07191 zinc-ribbons_6: zinc- 28.2 28 0.0006 21.7 0.7 29 46-75 3-37 (70)
49 KOG4317|consensus 27.6 32 0.00069 27.6 1.1 30 45-78 8-38 (383)
50 cd00021 BBOX B-Box-type zinc f 26.9 92 0.002 15.7 2.6 29 46-78 2-30 (39)
51 PRK14890 putative Zn-ribbon RN 26.9 66 0.0014 19.4 2.2 33 45-78 8-46 (59)
52 PF01754 zf-A20: A20-like zinc 23.5 38 0.00082 16.9 0.6 8 68-75 17-24 (25)
53 KOG2813|consensus 22.8 57 0.0012 26.4 1.7 35 45-79 199-245 (406)
54 PF04769 MAT_Alpha1: Mating-ty 22.3 74 0.0016 23.5 2.1 33 1-33 97-132 (201)
55 PF10576 EndIII_4Fe-2S: Iron-s 22.3 36 0.00077 15.4 0.3 11 61-71 7-17 (17)
56 PF14206 Cys_rich_CPCC: Cystei 22.3 42 0.00091 21.2 0.7 11 68-78 20-30 (78)
57 PHA00626 hypothetical protein 22.1 75 0.0016 19.1 1.7 9 58-66 22-30 (59)
58 PF04891 NifQ: NifQ; InterPro 21.3 35 0.00075 24.6 0.2 11 61-71 155-165 (167)
59 PF13909 zf-H2C2_5: C2H2-type 21.1 54 0.0012 15.1 0.8 7 60-66 1-7 (24)
60 smart00054 EFh EF-hand, calciu 20.5 94 0.002 13.2 1.7 16 6-21 13-28 (29)
No 1
>KOG4286|consensus
Probab=99.90 E-value=1.1e-24 Score=181.61 Aligned_cols=96 Identities=64% Similarity=1.199 Sum_probs=92.9
Q ss_pred CCCCcchHHHHHHHhcCCCccchhhhhhhcccccCccCceeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCC
Q psy3219 6 GPYPQQAVHFLSWLQQEPQSIVWLPVLHRLSAAESAKHQAKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHK 85 (102)
Q Consensus 6 ~~~~~~~~~f~~~~~~~p~~~~wlpll~r~~~~~~v~h~~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~ 85 (102)
++-.|++..|++|+-.+|+.++|||++||+...+.++|..+|++|++.||+|+||+|++|.|||+|+.||..|++++.|+
T Consensus 565 ~~pei~~~~f~dw~~~epqsmVwL~vlhRv~~aE~~kH~~kCniCk~~pIvG~RyR~l~~fn~dlCq~CF~sgraak~hk 644 (966)
T KOG4286|consen 565 NKPEIEAALFLDWMRLEPQSMVWLPVLHRVAAAETAKHQAKCNICKECPIIGFRYRSLKHFNYDICQSCFFSGRAAKGHK 644 (966)
T ss_pred CCCcchHHHHHHHhccCcchhhHHHHHHHHHHHHHHHhhhhcchhhhCccceeeeeehhhcChhHHhhHhhhcccccCCC
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCeEEEecCCCCCC
Q psy3219 86 LTHPMQEYCTTELLPN 101 (102)
Q Consensus 86 ~~H~~~~i~~p~s~~~ 101 (102)
+.|||.+|.+|+++|+
T Consensus 645 ~~~pM~Ey~~~tts~~ 660 (966)
T KOG4286|consen 645 MHYPMVEYCTPTTSGE 660 (966)
T ss_pred CCCCceeeeCCCCChh
Confidence 9999999999999986
No 2
>cd02334 ZZ_dystrophin Zinc finger, ZZ type. Zinc finger present in dystrophin and dystrobrevin. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dystrophin attaches actin filaments to an integral membrane glycoprotein complex in muscle cells. The ZZ domain in dystrophin has been shown to be essential for binding to the membrane protein beta-dystroglycan.
Probab=99.84 E-value=2.1e-21 Score=114.07 Aligned_cols=49 Identities=73% Similarity=1.577 Sum_probs=47.0
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCCCCCCeEEE
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEY 93 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~~~H~~~~i 93 (102)
+.||+|++.||.|.||+|++|.|||||+.||+.|.+++.|+++|||+++
T Consensus 1 ~~Cd~C~~~pi~g~RykC~~C~d~DLC~~Cf~~g~~~~~H~~~Hp~~e~ 49 (49)
T cd02334 1 AKCNICKEFPITGFRYRCLKCFNYDLCQSCFFSGRTSKSHKNSHPMKEY 49 (49)
T ss_pred CCCCCCCCCCceeeeEECCCCCCcCchHHHHhCCCcCCCCCCCCCeecC
Confidence 5799999999999999999999999999999999999999999999975
No 3
>KOG4301|consensus
Probab=99.81 E-value=2.3e-21 Score=151.34 Aligned_cols=88 Identities=39% Similarity=0.932 Sum_probs=82.9
Q ss_pred CCcchHHHHHHHhc--CCCccchhhhhhhcccccCccCceeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCC
Q psy3219 8 YPQQAVHFLSWLQQ--EPQSIVWLPVLHRLSAAESAKHQAKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHK 85 (102)
Q Consensus 8 ~~~~~~~f~~~~~~--~p~~~~wlpll~r~~~~~~v~h~~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~ 85 (102)
-+++||+|++-+++ +|++++|+||+||++..++|.|.+.|+.|...+|.|+||+|..|.+|.||+.||+.|+..+.|+
T Consensus 202 rKv~Ln~fldtl~sdp~p~cl~wlpLmhrla~v~nv~hpv~cs~c~srs~~gfry~cq~C~nyqlcq~cfwrG~~g~~hs 281 (434)
T KOG4301|consen 202 RKVELNQFLDTLMSDPPPQCLVWLPLMHRLATVENVFHPVECSYCRSRSMMGFRYRCQQCHNYQLCQQCFWRGHAGGSHS 281 (434)
T ss_pred HHHHHHHHHHHHhcCCCchhHHHHHHHHHHHhhcccCCCccCcceecccccchhhhHhhcCCccccchhhccccCCCCcc
Confidence 46899999999997 4677899999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCeEEEec
Q psy3219 86 LTHPMQEYCT 95 (102)
Q Consensus 86 ~~H~~~~i~~ 95 (102)
.+|.|.+++.
T Consensus 282 nqh~mke~Ss 291 (434)
T KOG4301|consen 282 NQHQMKEYSS 291 (434)
T ss_pred hHHHHHHhhc
Confidence 9999998764
No 4
>cd02338 ZZ_PCMF_like Zinc finger, ZZ type. Zinc finger present in potassium channel modulatory factor (PCMF) 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Human potassium channel modulatory factor 1 or FIGC has been shown to possess intrinsic E3 ubiquitin ligase activity and to promote ubiquitination.
Probab=99.77 E-value=5e-19 Score=103.80 Aligned_cols=49 Identities=35% Similarity=0.935 Sum_probs=46.0
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCCCCCCeEEE
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEY 93 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~~~H~~~~i 93 (102)
+.||+|.+.+|.|.||+|++|+|||||++||+.+.+++.|+++|+|+.+
T Consensus 1 i~C~~C~~~~i~g~R~~C~~C~d~dlC~~Cf~~~~~~~~H~~~H~~~~~ 49 (49)
T cd02338 1 VSCDGCGKSNFTGRRYKCLICYDYDLCADCYDSGVTTERHLFDHPMQCI 49 (49)
T ss_pred CCCCCCcCCCcEEeeEEeCCCCCCccchhHHhCCCcCCCCCCCCCEEEC
Confidence 5799999889999999999999999999999999999999999999763
No 5
>cd02345 ZZ_dah Zinc finger, ZZ type. Zinc finger present in Drosophila dah and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dah (discontinuous actin hexagon) is a membrane associated protein essential for cortical furrow formation in Drosophila.
Probab=99.76 E-value=4.9e-19 Score=103.86 Aligned_cols=49 Identities=31% Similarity=0.822 Sum_probs=46.1
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCCCCCCeEEE
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEY 93 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~~~H~~~~i 93 (102)
..|++|.+.+|.|.||+|++|.|||||+.||+.+.+++.|+++|+|.++
T Consensus 1 ~~C~~C~~~~i~g~R~~C~~C~dydLC~~Cf~~~~~~~~H~~~H~~~~~ 49 (49)
T cd02345 1 LSCSACRKQDISGIRFPCQVCRDYSLCLGCYTKGRETKRHNSLHIMYEL 49 (49)
T ss_pred CcCCCCCCCCceEeeEECCCCCCcCchHHHHhCCCcCCCCCCCCCcccC
Confidence 4799999889999999999999999999999999999999999999864
No 6
>cd02344 ZZ_HERC2 Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=99.74 E-value=1.1e-18 Score=100.77 Aligned_cols=45 Identities=33% Similarity=0.864 Sum_probs=41.8
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCCCCCCeEEE
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEY 93 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~~~H~~~~i 93 (102)
|.||+|.+.||.|.||+|++|.|||||+.||..+ .|+.+|+|.+|
T Consensus 1 V~Cd~C~~~pI~G~RykC~~C~dyDLC~~Cf~~~----~H~~~H~F~ri 45 (45)
T cd02344 1 VTCDGCQMFPINGPRFKCRNCDDFDFCENCFKTR----KHNTRHTFGRI 45 (45)
T ss_pred CCCCCCCCCCCccCeEECCCCCCccchHHhhCCC----CcCCCCceeeC
Confidence 6899999999999999999999999999999985 78999999875
No 7
>cd02343 ZZ_EF Zinc finger, ZZ type. Zinc finger present in proteins with an EF_hand motif. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=99.73 E-value=1.9e-18 Score=100.97 Aligned_cols=47 Identities=40% Similarity=0.894 Sum_probs=44.0
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCCCCCCeEE
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQE 92 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~~~H~~~~ 92 (102)
+.||+|++ .+.|.||||++|+|||||+.||+.|.+++.|+.+|||+-
T Consensus 1 i~CdgC~~-~~~~~RykCl~C~d~DlC~~Cf~~g~~~~~H~~~Hpm~~ 47 (48)
T cd02343 1 ISCDGCDE-IAPWHRYRCLQCTDMDLCKTCFLGGVKPEGHEDDHEMVN 47 (48)
T ss_pred CCCCCCCC-cCCCceEECCCCCCchhHHHHHhCCccCCCCCCCCCccc
Confidence 46999997 688999999999999999999999999999999999963
No 8
>cd02339 ZZ_Mind_bomb Zinc finger, ZZ type. Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has been shown to regulate signaling by the Notch ligand Delta in Drosophila melanogaster.
Probab=99.73 E-value=3e-18 Score=99.01 Aligned_cols=45 Identities=38% Similarity=1.026 Sum_probs=41.5
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCCCCCCeEEE
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEY 93 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~~~H~~~~i 93 (102)
+.||+|++.+|.|.||+|++|.|||||+.||.. +.|+++|+|.+|
T Consensus 1 i~Cd~C~~~~i~G~RykC~~C~dyDLC~~C~~~----~~H~~~H~f~r~ 45 (45)
T cd02339 1 IICDTCRKQGIIGIRWKCAECPNYDLCTTCYHG----DKHDLEHRFYRY 45 (45)
T ss_pred CCCCCCCCCCcccCeEECCCCCCccchHHHhCC----CCCCCCCCEEeC
Confidence 579999988999999999999999999999996 479999999875
No 9
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=99.70 E-value=1.1e-17 Score=97.86 Aligned_cols=46 Identities=39% Similarity=0.883 Sum_probs=42.8
Q ss_pred eeCCCCCCcceeeeeEeeccCC--CCccchhhhhCCccCCCCCCCCCeEEE
Q psy3219 45 AKCNICKECPIIGFRYRCLKCF--NFDMCQTCFFQGKKAKNHKLTHPMQEY 93 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~--dfdLC~~C~~~~~~~~~H~~~H~~~~i 93 (102)
+.||+|.+.||.|.||+|++|+ |||||+.||..+. .|+.+|+|.+|
T Consensus 1 y~Cd~C~~~pI~G~R~~C~~C~~~d~DlC~~C~~~~~---~H~~~H~~~~i 48 (48)
T cd02341 1 FKCDSCGIEPIPGTRYHCSECDDGDFDLCQDCVVKGE---SHQEDHWLVKI 48 (48)
T ss_pred CCCCCCCCCccccceEECCCCCCCCCccCHHHHhCcC---CCCCCCceeeC
Confidence 4799999989999999999999 9999999999985 89999999875
No 10
>cd02335 ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=99.69 E-value=1.7e-17 Score=97.10 Aligned_cols=49 Identities=27% Similarity=0.657 Sum_probs=45.5
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCCCCCCeEEE
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEY 93 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~~~H~~~~i 93 (102)
..||+|.+.++.|.||+|++|.|||||+.||+.|.+++.|+++|+|+.+
T Consensus 1 ~~Cd~C~~~~~~g~r~~C~~C~d~dLC~~Cf~~g~~~~~H~~~H~~~~~ 49 (49)
T cd02335 1 YHCDYCSKDITGTIRIKCAECPDFDLCLECFSAGAEIGKHRNDHNYRVV 49 (49)
T ss_pred CCCCCcCCCCCCCcEEECCCCCCcchhHHhhhCcCCCCCCCCCCCeEeC
Confidence 3699999988888999999999999999999999999999999999764
No 11
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=99.67 E-value=3.4e-17 Score=93.73 Aligned_cols=43 Identities=40% Similarity=1.017 Sum_probs=39.7
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCCCCCCeEEE
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEY 93 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~~~H~~~~i 93 (102)
+.||+|++ +|.|.||+|++|+|||||+.||..+ .| +.|+|.++
T Consensus 1 v~Cd~C~~-~i~G~ry~C~~C~d~dLC~~C~~~~----~H-~~H~f~~~ 43 (43)
T cd02340 1 VICDGCQG-PIVGVRYKCLVCPDYDLCESCEAKG----VH-PEHAMLKI 43 (43)
T ss_pred CCCCCCCC-cCcCCeEECCCCCCccchHHhhCcC----CC-CCCCEEeC
Confidence 57999997 9999999999999999999999986 78 99999864
No 12
>PF00569 ZZ: Zinc finger, ZZ type; InterPro: IPR000433 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 ZZ-type zinc finger domains, named because of their ability to bind two zinc ions []. These domains contain 4-6 Cys residues that participate in zinc binding (plus additional Ser/His residues), including a Cys-X2-Cys motif found in other zinc finger domains. These zinc fingers are thought to be involved in protein-protein interactions. The structure of the ZZ domain shows that it belongs to the family of cross-brace zinc finger motifs that include the PHD, RING, and FYVE domains []. ZZ-type zinc finger domains are found in: Transcription factors P300 and CBP. Plant proteins involved in light responses, such as Hrb1. E3 ubiquitin ligases MEX and MIB2 (6.3.2 from EC). Dystrophin and its homologues. Single copies of the ZZ zinc finger occur in the transcriptional adaptor/coactivator proteins P300, in cAMP response element-binding protein (CREB)-binding protein (CBP) and ADA2. CBP provides several binding sites for transcriptional coactivators. The site of interaction with the tumour suppressor protein p53 and the oncoprotein E1A with CBP/P300 is a Cys-rich region that incorporates two zinc-binding motifs: ZZ-type and TAZ2-type. The ZZ-type zinc finger of CBP contains two twisted anti-parallel beta-sheets and a short alpha-helix, and binds two zinc ions []. One zinc ion is coordinated by four cysteine residues via 2 Cys-X2-Cys motifs, and the third zinc ion via a third Cys-X-Cys motif and a His-X-His motif. The first zinc cluster is strictly conserved, whereas the second zinc cluster displays variability in the position of the two His residues. In Arabidopsis thaliana (Mouse-ear cress), the hypersensitive to red and blue 1 (Hrb1) protein, which regulating both red and blue light responses, contains a ZZ-type zinc finger domain []. ZZ-type zinc finger domains have also been identified in the testis-specific E3 ubiquitin ligase MEX that promotes death receptor-induced apoptosis []. MEX has four putative zinc finger domains: one ZZ-type, one SWIM-type and two RING-type. The region containing the ZZ-type and RING-type zinc fingers is required for interaction with UbcH5a and MEX self-association, whereas the SWIM domain was critical for MEX ubiquitination. In addition, the Cys-rich domains of dystrophin, utrophin and an 87kDa post-synaptic protein contain a ZZ-type zinc finger with high sequence identity to P300/CBP ZZ-type zinc fingers. In dystrophin and utrophin, the ZZ-type zinc finger lies between a WW domain (flanked by and EF hand) and the C-terminal coiled-coil domain. Dystrophin is thought to act as a link between the actin cytoskeleton and the extracellular matrix, and perturbations of the dystrophin-associated complex, for example, between dystrophin and the transmembrane glycoprotein beta-dystroglycan, may lead to muscular dystrophy. Dystrophin and its autosomal homologue utrophin interact with beta-dystroglycan via their C-terminal regions, which are comprised of a WW domain, an EF hand domain and a ZZ-type zinc finger domain []. The WW domain is the primary site of interaction between dystrophin or utrophin and dystroglycan, while the EF hand and ZZ-type zinc finger domains stabilise and strengthen this interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1TOT_A 2DIP_A 2FC7_A 2E5R_A.
Probab=99.61 E-value=3.1e-16 Score=90.68 Aligned_cols=43 Identities=47% Similarity=1.130 Sum_probs=33.0
Q ss_pred CceeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCC
Q psy3219 43 HQAKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHK 85 (102)
Q Consensus 43 h~~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~ 85 (102)
+.+.||+|+..+|.|.||+|++|+|||||+.||..|.+...|+
T Consensus 3 ~~~~C~~C~~~~i~g~Ry~C~~C~d~dLC~~C~~~g~~~~~H~ 45 (46)
T PF00569_consen 3 HGYTCDGCGTDPIIGVRYHCLVCPDYDLCEDCFSKGRHSHNHK 45 (46)
T ss_dssp SSCE-SSS-SSSEESSEEEESSSSS-EEEHHHHHH--H-SSSS
T ss_pred CCeECcCCCCCcCcCCeEECCCCCCCchhhHHHhCcCCCCCcC
Confidence 4699999998899999999999999999999999986555553
No 13
>cd02249 ZZ Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.
Probab=99.59 E-value=9.7e-16 Score=88.45 Aligned_cols=46 Identities=43% Similarity=1.062 Sum_probs=42.2
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCCCCCCeEEE
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEY 93 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~~~H~~~~i 93 (102)
+.||+|.+ +|.|.||+|.+|.|||||..||..+. +.|+.+|+|.++
T Consensus 1 ~~C~~C~~-~i~g~r~~C~~C~d~dLC~~Cf~~~~--~~H~~~H~~~~~ 46 (46)
T cd02249 1 YSCDGCLK-PIVGVRYHCLVCEDFDLCSSCYAKGK--KGHPPDHSFTEI 46 (46)
T ss_pred CCCcCCCC-CCcCCEEECCCCCCCcCHHHHHCcCc--CCCCCCCCEeEC
Confidence 47999998 99999999999999999999999886 789999999864
No 14
>cd02342 ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger present in plant ubiquitin-associated (UBA) proteins. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=99.54 E-value=3.1e-15 Score=85.30 Aligned_cols=34 Identities=32% Similarity=0.734 Sum_probs=32.0
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhhCC
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQG 78 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~ 78 (102)
+.||+|.+.||.|.||||.+|.|||||+.||.+.
T Consensus 1 I~CDgCg~~PI~G~RykC~~C~dyDLC~~C~~~~ 34 (43)
T cd02342 1 IQCDGCGVLPITGPRYKSKVKEDYDLCTICFSRM 34 (43)
T ss_pred CCCCCCCCCcccccceEeCCCCCCccHHHHhhhh
Confidence 5799999999999999999999999999999873
No 15
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=99.51 E-value=1.2e-14 Score=83.26 Aligned_cols=42 Identities=43% Similarity=1.159 Sum_probs=37.5
Q ss_pred cCceeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCC
Q psy3219 42 KHQAKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNH 84 (102)
Q Consensus 42 ~h~~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H 84 (102)
.+.+.|++|++ +|.|.||+|++|+|||||.+||..+.++..|
T Consensus 2 ~~~~~C~~C~~-~i~g~ry~C~~C~d~dlC~~Cf~~~~~~~~h 43 (44)
T smart00291 2 HHSYSCDTCGK-PIVGVRYHCLVCPDYDLCQSCFAKGSAGGEH 43 (44)
T ss_pred CCCcCCCCCCC-CCcCCEEECCCCCCccchHHHHhCcCcCCCC
Confidence 46789999998 9999999999999999999999998665555
No 16
>KOG1280|consensus
Probab=99.48 E-value=3e-14 Score=111.34 Aligned_cols=56 Identities=30% Similarity=0.733 Sum_probs=52.4
Q ss_pred cC-ceeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCCCCCCeEEEecCC
Q psy3219 42 KH-QAKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEYCTTE 97 (102)
Q Consensus 42 ~h-~~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~~~H~~~~i~~p~ 97 (102)
.| +|.||+|.+..+.|.||||+.|.|||||..||.+|..+..|..+|||+.|..+.
T Consensus 5 rHe~v~CdgC~k~~~t~rrYkCL~C~DyDlC~sCyen~~tt~~H~~dHPmqcil~~~ 61 (381)
T KOG1280|consen 5 RHEGVSCDGCGKTAFTFRRYKCLRCSDYDLCFSCYENGATTPIHDEDHPMQCILSRV 61 (381)
T ss_pred CcCCceeccccccceeeeeeEeeeecchhHHHHHhhcCCCCcccCCCCceeEEeecc
Confidence 35 499999999999999999999999999999999999999999999999998764
No 17
>KOG4582|consensus
Probab=99.41 E-value=2e-13 Score=104.49 Aligned_cols=47 Identities=32% Similarity=0.781 Sum_probs=42.7
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCCCCCCeEEEec
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEYCT 95 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~~~H~~~~i~~ 95 (102)
+.||+|...+|+|.||||++|+|||||+.|+..+ .|+..|.|.++.+
T Consensus 153 v~CD~C~~~~IvG~RyKC~~C~dYDLCe~Ce~~~----~~h~~H~~lR~~t 199 (278)
T KOG4582|consen 153 VPCDNCGKPGIVGARYKCTVCPDYDLCERCEAGN----EHHAAHAMLRLHT 199 (278)
T ss_pred ccCCCccCCccccceeeecCCCccchhHHhhcCC----CCCcccceeeccc
Confidence 7999999889999999999999999999999864 5889999999554
No 18
>cd02337 ZZ_CBP Zinc finger, ZZ type. Zinc finger present in CBP/p300 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. CREB-binding protein (CBP) is a large multidomain protein that provides binding sites for transcriptional coactivators, the role of the ZZ domain in CBP/p300 is unclear.
Probab=99.18 E-value=8.4e-12 Score=70.69 Aligned_cols=32 Identities=34% Similarity=0.919 Sum_probs=28.6
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhhCC
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQG 78 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~ 78 (102)
+.||+|.. +.|.||+|.+|+|||||..||.++
T Consensus 1 y~C~~C~~--~~~~r~~C~~C~dfDLC~~C~~~~ 32 (41)
T cd02337 1 YTCNECKH--HVETRWHCTVCEDYDLCITCYNTK 32 (41)
T ss_pred CcCCCCCC--cCCCceECCCCcchhhHHHHhCCC
Confidence 36999985 568999999999999999999885
No 19
>KOG0457|consensus
Probab=98.97 E-value=3.8e-10 Score=90.44 Aligned_cols=53 Identities=32% Similarity=0.777 Sum_probs=47.5
Q ss_pred eeCCCCCCcceee-eeEeeccCCCCccchhhhhCCccCCCCCCCCCeEEEecCCC
Q psy3219 45 AKCNICKECPIIG-FRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEYCTTEL 98 (102)
Q Consensus 45 ~~Cd~C~~~~i~G-~RykC~~C~dfdLC~~C~~~~~~~~~H~~~H~~~~i~~p~s 98 (102)
..|++|+. .|.| .|.||.+|+|||||..||+.|.+.+.|+++|+++.+.+.+.
T Consensus 15 y~C~~C~~-dit~~i~ikCaeCp~fdLCl~CFs~GaE~~~H~~~H~Yrim~~~s~ 68 (438)
T KOG0457|consen 15 YNCDYCSL-DITGLIRIKCAECPDFDLCLQCFSVGAETGKHQNDHPYRIMDTNSF 68 (438)
T ss_pred CCCccHhH-HhccceEEEeecCCCcchhHHHHhcccccCCCCCCCCceeecCCCC
Confidence 78999996 6777 56999999999999999999999999999999988877543
No 20
>PF09069 EF-hand_3: EF-hand; InterPro: IPR015154 Like other EF hand domains, this domain forms a helix-loop-helix motif, though since it does not contain the canonical pattern of calcium binding residues found in many EF hand domains, it does not bind calcium ions. The main function of this domain is the provision of specificity in beta-dystroglycan recognition, though in dystrophin it serves an additional role: stabilisation of the WW domain (IPR001202 from INTERPRO), enhancing dystroglycan binding []. ; PDB: 1EG3_A 1EG4_A.
Probab=98.76 E-value=4e-09 Score=68.95 Aligned_cols=31 Identities=52% Similarity=0.926 Sum_probs=24.3
Q ss_pred CCCCcchHHHHHHHhcCCCccchhhhhhhcc
Q psy3219 6 GPYPQQAVHFLSWLQQEPQSIVWLPVLHRLS 36 (102)
Q Consensus 6 ~~~~~~~~~f~~~~~~~p~~~~wlpll~r~~ 36 (102)
++..|++++|++|++++||+++|||++||++
T Consensus 60 ~~~~I~~~~Fl~wl~~ePq~lVWLP~lhRlA 90 (90)
T PF09069_consen 60 LSPKITENQFLDWLMSEPQSLVWLPTLHRLA 90 (90)
T ss_dssp T-S-B-HHHHHHHHHT--TTTTHHHHHHHHH
T ss_pred CCCccCHHHHHHHHHhCCCeeeHHHHHhhcC
Confidence 5778999999999999999999999999974
No 21
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.71 E-value=6.9e-09 Score=81.32 Aligned_cols=53 Identities=23% Similarity=0.414 Sum_probs=48.2
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCCCCCCeEEEecCC
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEYCTTE 97 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~~~H~~~~i~~p~ 97 (102)
+.||.|..+-..-.+.+|..|++||||..||.+|.+.+.|+++|+++.|.+-+
T Consensus 6 ~hCdvC~~d~T~~~~i~C~eC~~~DLC~pCF~~g~~tg~H~pyH~YRiietns 58 (432)
T COG5114 6 IHCDVCFLDMTDLTFIKCNECPAVDLCLPCFVNGIETGVHSPYHGYRIIETNS 58 (432)
T ss_pred eeehHHHHhhhcceeeeeecccccceehhhhhccccccccCCCCCeeEeeccC
Confidence 78999998655568999999999999999999999999999999999998754
No 22
>cd02336 ZZ_RSC8 Zinc finger, ZZ type. Zinc finger present in RSC8 and related proteins. RSC8 is a component of the RSC complex, which is closely related to the SWI/SNF complex and is involved in remodeling chromatin structure. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=98.69 E-value=2.2e-08 Score=57.76 Aligned_cols=41 Identities=27% Similarity=0.661 Sum_probs=35.6
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCCC
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKL 86 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~~ 86 (102)
+.|+.|+. ..+..||+|+...+||||..||..|+....|..
T Consensus 1 y~C~~Cg~-D~t~vryh~~~~~~~dLC~~CF~~G~f~~~~~s 41 (45)
T cd02336 1 YHCFTCGN-DCTRVRYHNLKAKKYDLCPSCYQEGRFPSNFQS 41 (45)
T ss_pred CcccCCCC-ccCceEEEecCCCccccChHHHhCcCCCCCCcc
Confidence 36999997 667899999999999999999999987777654
No 23
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=96.38 E-value=0.0021 Score=33.46 Aligned_cols=27 Identities=44% Similarity=1.296 Sum_probs=12.7
Q ss_pred eCCCCCCcceee-eeEeeccCCCCccchhh
Q psy3219 46 KCNICKECPIIG-FRYRCLKCFNFDMCQTC 74 (102)
Q Consensus 46 ~Cd~C~~~~i~G-~RykC~~C~dfdLC~~C 74 (102)
.|+.|+. ++.| .-|.|..| ||+|-..|
T Consensus 2 ~C~~C~~-~~~~~~~Y~C~~C-df~lH~~C 29 (30)
T PF07649_consen 2 RCDACGK-PIDGGWFYRCSEC-DFDLHEEC 29 (30)
T ss_dssp --TTTS-----S--EEE-TTT------HHH
T ss_pred cCCcCCC-cCCCCceEECccC-CCccChhc
Confidence 6999996 6776 89999999 89988877
No 24
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=94.42 E-value=0.029 Score=29.15 Aligned_cols=28 Identities=36% Similarity=0.994 Sum_probs=22.7
Q ss_pred eeCCCCCCcceeee-eEeeccCCCCccchhh
Q psy3219 45 AKCNICKECPIIGF-RYRCLKCFNFDMCQTC 74 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~-RykC~~C~dfdLC~~C 74 (102)
..|+.|.+ .+.|. .|+|..|. |+|-..|
T Consensus 1 ~~C~~C~~-~~~~~~~Y~C~~c~-f~lh~~C 29 (30)
T PF03107_consen 1 FWCDVCRR-KIDGFYFYHCSECC-FTLHVRC 29 (30)
T ss_pred CCCCCCCC-CcCCCEeEEeCCCC-CeEcCcc
Confidence 36999986 78888 99999987 8776655
No 25
>PF02207 zf-UBR: Putative zinc finger in N-recognin (UBR box); InterPro: IPR003126 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 N-end rule-based degradation signal, which targets a protein for ubiquitin-dependent proteolysis, comprises a destabilising amino-terminal residue and a specific internal lysine residue. This entry describes a putative zinc finger in N-recognin, a recognition component of the N-end rule pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0004842 ubiquitin-protein ligase activity, 0008270 zinc ion binding; PDB: 3NY1_B 3NIS_F 3NIM_A 3NIK_A 3NII_A 3NIH_A 3NIL_D 3NIN_B 3NIJ_A 3NIT_A ....
Probab=87.30 E-value=0.57 Score=28.70 Aligned_cols=34 Identities=32% Similarity=0.757 Sum_probs=23.4
Q ss_pred eeEeeccCCC---CccchhhhhCCccCCCCCCCCCeEEEecC
Q psy3219 58 FRYRCLKCFN---FDMCQTCFFQGKKAKNHKLTHPMQEYCTT 96 (102)
Q Consensus 58 ~RykC~~C~d---fdLC~~C~~~~~~~~~H~~~H~~~~i~~p 96 (102)
.-|+|.+|.. .-+|.+||..+ -|. .|.+..+...
T Consensus 12 ~~y~C~tC~~~~~~~iC~~CF~~~----~H~-gH~~~~~~~~ 48 (71)
T PF02207_consen 12 IFYRCLTCSLDESSGICEECFANS----CHE-GHRVVYYRSS 48 (71)
T ss_dssp EEEEETTTBSSTT-BBEHHHHCTS----GGG-GSSEEEEE--
T ss_pred EEEECccCCCCCCEEEchhhCCCC----CcC-CCcEEEEEeC
Confidence 4688999865 78899999875 343 7777766654
No 26
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 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 B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=77.75 E-value=4.3 Score=21.76 Aligned_cols=38 Identities=32% Similarity=0.662 Sum_probs=26.6
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccCCCCCCCCCeEE
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQE 92 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~~~H~~~H~~~~ 92 (102)
..|+.+.... ..|-|..|.. -+|..|...+ |+. |.+..
T Consensus 4 ~~C~~H~~~~---~~~~C~~C~~-~~C~~C~~~~-----H~~-H~~~~ 41 (42)
T PF00643_consen 4 PKCPEHPEEP---LSLFCEDCNE-PLCSECTVSG-----HKG-HKIVP 41 (42)
T ss_dssp SB-SSTTTSB---EEEEETTTTE-EEEHHHHHTS-----TTT-SEEEE
T ss_pred ccCccCCccc---eEEEecCCCC-ccCccCCCCC-----CCC-CEEeE
Confidence 5688888633 4789999977 6999999875 333 76654
No 27
>KOG1778|consensus
Probab=76.48 E-value=1.3 Score=34.97 Aligned_cols=36 Identities=25% Similarity=0.579 Sum_probs=30.3
Q ss_pred ccCceeCCCCCCcceeeeeEeeccCCCCccchhhhhCC
Q psy3219 41 AKHQAKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQG 78 (102)
Q Consensus 41 v~h~~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~ 78 (102)
.+-...|..|.. .. ..+|.|.+|+|||.|..|+...
T Consensus 166 ~~~~~~c~~c~~-~~-~~~~~c~~~~d~d~~~~~~~k~ 201 (319)
T KOG1778|consen 166 KWFAYTCPICKL-EV-LTAWHCEVCPDYDRCRACEEKP 201 (319)
T ss_pred CceeeecCcccc-cc-ccccccccCCchhhhhcccCCC
Confidence 344589999996 33 6789999999999999999876
No 28
>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=73.97 E-value=2.6 Score=24.73 Aligned_cols=19 Identities=47% Similarity=0.953 Sum_probs=11.5
Q ss_pred eeEeeccCCCCccchhhhhC
Q psy3219 58 FRYRCLKCFNFDMCQTCFFQ 77 (102)
Q Consensus 58 ~RykC~~C~dfdLC~~C~~~ 77 (102)
.||+|..|... +|.+|-.-
T Consensus 20 ~~y~C~~C~~~-FC~dCD~f 38 (51)
T PF07975_consen 20 SRYRCPKCKNH-FCIDCDVF 38 (51)
T ss_dssp EEE--TTTT---B-HHHHHT
T ss_pred CeEECCCCCCc-cccCcChh
Confidence 69999999875 79999653
No 29
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=71.31 E-value=2.5 Score=35.28 Aligned_cols=40 Identities=28% Similarity=0.670 Sum_probs=32.1
Q ss_pred ccCceeCCCCCCcceeeeeEeeccCCCCccchhhhhCCccC
Q psy3219 41 AKHQAKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKA 81 (102)
Q Consensus 41 v~h~~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~~~~ 81 (102)
-.|...|+-|+...+. .||.=+.=.+|++|..||..|+..
T Consensus 221 ~~~~~~C~~cG~~~~~-t~y~nlra~~~n~C~~C~~qg~f~ 260 (531)
T COG5259 221 EKHPSSCSCCGNKSFN-TRYHNLRAEKYNSCSECYDQGRFP 260 (531)
T ss_pred ccCCceeeccCccccc-hhhhhhhhhhcccchHHHhcCcCC
Confidence 3456899999975554 589988888999999999998753
No 30
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=69.80 E-value=3.5 Score=21.70 Aligned_cols=26 Identities=31% Similarity=0.844 Sum_probs=17.5
Q ss_pred CCCCCCcceee-eeEeeccCCCCccchh
Q psy3219 47 CNICKECPIIG-FRYRCLKCFNFDMCQT 73 (102)
Q Consensus 47 Cd~C~~~~i~G-~RykC~~C~dfdLC~~ 73 (102)
|..|.+..+.- .+|.|..| |-.||.+
T Consensus 3 C~vC~~~k~rk~T~~~C~~C-~v~lC~~ 29 (32)
T PF13842_consen 3 CKVCSKKKRRKDTRYMCSKC-DVPLCVE 29 (32)
T ss_pred CeECCcCCccceeEEEccCC-CCcccCC
Confidence 56666544433 79999999 5667753
No 31
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=65.72 E-value=5.8 Score=22.24 Aligned_cols=25 Identities=28% Similarity=0.535 Sum_probs=17.3
Q ss_pred cCceeCCCCCCcce---eeeeEeeccCCC
Q psy3219 42 KHQAKCNICKECPI---IGFRYRCLKCFN 67 (102)
Q Consensus 42 ~h~~~Cd~C~~~~i---~G~RykC~~C~d 67 (102)
.-...|+.|.+ .| ....|+|..|.-
T Consensus 9 ~~~~~C~~C~~-~i~g~~~~g~~C~~C~~ 36 (53)
T PF00130_consen 9 SKPTYCDVCGK-FIWGLGKQGYRCSWCGL 36 (53)
T ss_dssp SSTEB-TTSSS-BECSSSSCEEEETTTT-
T ss_pred CCCCCCcccCc-ccCCCCCCeEEECCCCC
Confidence 34589999996 66 456888888753
No 32
>KOG2807|consensus
Probab=62.04 E-value=3.1 Score=33.29 Aligned_cols=31 Identities=32% Similarity=0.683 Sum_probs=24.9
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhh
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFF 76 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~ 76 (102)
..|-+|+.....+.||+|..|.++ +|.+|-.
T Consensus 331 ~~Cf~C~~~~~~~~~y~C~~Ck~~-FCldCDv 361 (378)
T KOG2807|consen 331 RFCFACQGELLSSGRYRCESCKNV-FCLDCDV 361 (378)
T ss_pred cceeeeccccCCCCcEEchhccce-eeccchH
Confidence 448888766777889999999986 7888853
No 33
>smart00396 ZnF_UBR1 Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway. Domain is involved in recognition of N-end rule substrates in yeast Ubr1p
Probab=60.44 E-value=11 Score=23.05 Aligned_cols=32 Identities=28% Similarity=0.542 Sum_probs=21.0
Q ss_pred eEeeccCCC---CccchhhhhCCccCCCCCCCCCeEEEec
Q psy3219 59 RYRCLKCFN---FDMCQTCFFQGKKAKNHKLTHPMQEYCT 95 (102)
Q Consensus 59 RykC~~C~d---fdLC~~C~~~~~~~~~H~~~H~~~~i~~ 95 (102)
-|+|..|.- .-+|..||... .| ..|.+..+..
T Consensus 13 ~y~C~tC~~~~~~~iC~~Cf~~~----~H-~gH~~~~~~~ 47 (71)
T smart00396 13 IYRCKTCGLDPTCVLCSDCFRSN----CH-KGHDYSLKTS 47 (71)
T ss_pred EEECcCCCCCCCEeEChHHCCCC----CC-CCCCEEEEEe
Confidence 388888852 45899999854 34 4566554443
No 34
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=55.56 E-value=12 Score=20.18 Aligned_cols=22 Identities=36% Similarity=0.998 Sum_probs=14.7
Q ss_pred ceeCCCCCCcc-e-------ee-eeEeeccC
Q psy3219 44 QAKCNICKECP-I-------IG-FRYRCLKC 65 (102)
Q Consensus 44 ~~~Cd~C~~~~-i-------~G-~RykC~~C 65 (102)
.+.|..|.... + .| .||+|..|
T Consensus 5 ~v~CP~C~s~~~v~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 5 DVHCPRCQSTEGVKKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred eeeCCCCCCCCcceeCCCCCCCCEeEecCcC
Confidence 46777777633 2 23 59999887
No 35
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=52.32 E-value=7.7 Score=21.10 Aligned_cols=21 Identities=33% Similarity=0.904 Sum_probs=15.9
Q ss_pred ceeCCCCCCcceee---eeEeeccC
Q psy3219 44 QAKCNICKECPIIG---FRYRCLKC 65 (102)
Q Consensus 44 ~~~Cd~C~~~~i~G---~RykC~~C 65 (102)
...|+.|.+ .|.| ..|+|..|
T Consensus 11 ~~~C~~C~~-~i~~~~~~~~~C~~C 34 (50)
T cd00029 11 PTFCDVCRK-SIWGLFKQGLRCSWC 34 (50)
T ss_pred CCChhhcch-hhhccccceeEcCCC
Confidence 477999996 6766 67787777
No 36
>PF00412 LIM: LIM domain; InterPro: IPR001781 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 LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=47.86 E-value=3.5 Score=23.26 Aligned_cols=38 Identities=21% Similarity=0.385 Sum_probs=23.6
Q ss_pred cccCccCc--eeCCCCCCcceeeeeEeeccCCCCccchhhhhC
Q psy3219 37 AAESAKHQ--AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQ 77 (102)
Q Consensus 37 ~~~~v~h~--~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~ 77 (102)
+....+|. +.|..|+. ++.+.. ...=.+--+|..||.+
T Consensus 17 ~~~~~~H~~Cf~C~~C~~-~l~~~~--~~~~~~~~~C~~c~~~ 56 (58)
T PF00412_consen 17 AMGKFWHPECFKCSKCGK-PLNDGD--FYEKDGKPYCKDCYQK 56 (58)
T ss_dssp ETTEEEETTTSBETTTTC-BTTTSS--EEEETTEEEEHHHHHH
T ss_pred eCCcEEEccccccCCCCC-ccCCCe--eEeECCEEECHHHHhh
Confidence 44456775 99999996 565543 2222344568888754
No 37
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=44.09 E-value=14 Score=25.07 Aligned_cols=30 Identities=33% Similarity=0.760 Sum_probs=21.6
Q ss_pred eeCCCCCCccee------------eeeEeeccCCCCccchhhhh
Q psy3219 45 AKCNICKECPII------------GFRYRCLKCFNFDMCQTCFF 76 (102)
Q Consensus 45 ~~Cd~C~~~~i~------------G~RykC~~C~dfdLC~~C~~ 76 (102)
..|-+|.. ++. ..||+|.+|... +|.+|-.
T Consensus 56 ~~C~~C~~-~f~~~~~~~~~~~~~~~~y~C~~C~~~-FC~dCD~ 97 (112)
T TIGR00622 56 RFCFGCQG-PFPKPPVSPFDELKDSHRYVCAVCKNV-FCVDCDV 97 (112)
T ss_pred CcccCcCC-CCCCcccccccccccccceeCCCCCCc-cccccch
Confidence 45999986 332 249999999764 7888854
No 38
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=42.93 E-value=18 Score=18.86 Aligned_cols=23 Identities=26% Similarity=0.563 Sum_probs=15.0
Q ss_pred eeCCCCCC---cceeeeeEeeccCCC
Q psy3219 45 AKCNICKE---CPIIGFRYRCLKCFN 67 (102)
Q Consensus 45 ~~Cd~C~~---~~i~G~RykC~~C~d 67 (102)
+.|.+|.. .|..-..++|+.|.-
T Consensus 2 ~~C~~C~t~L~yP~gA~~vrCs~C~~ 27 (31)
T TIGR01053 2 VVCGGCRTLLMYPRGASSVRCALCQT 27 (31)
T ss_pred cCcCCCCcEeecCCCCCeEECCCCCe
Confidence 46777874 344446788888753
No 39
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=42.90 E-value=8.6 Score=27.02 Aligned_cols=33 Identities=27% Similarity=0.713 Sum_probs=25.6
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchhhhhC
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQ 77 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~ 77 (102)
..|+.|+....-..--|=-+|-.|.+|..||+.
T Consensus 81 YeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~ 113 (140)
T PF05290_consen 81 YECNICKETSAEERFLKPNECCGYSICNACYAN 113 (140)
T ss_pred eeccCcccccchhhcCCcccccchHHHHHHHHH
Confidence 899999974443333466689999999999987
No 40
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=42.75 E-value=12 Score=20.02 Aligned_cols=21 Identities=38% Similarity=0.941 Sum_probs=15.0
Q ss_pred ceeCCCCCCcceeee--eEeeccC
Q psy3219 44 QAKCNICKECPIIGF--RYRCLKC 65 (102)
Q Consensus 44 ~~~Cd~C~~~~i~G~--RykC~~C 65 (102)
...|+.|.+ .|.|. .|+|..|
T Consensus 11 ~~~C~~C~~-~i~~~~~~~~C~~C 33 (49)
T smart00109 11 PTKCCVCRK-SIWGSFQGLRCSWC 33 (49)
T ss_pred CCCcccccc-ccCcCCCCcCCCCC
Confidence 478999996 67663 5666665
No 41
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=40.03 E-value=29 Score=18.47 Aligned_cols=23 Identities=35% Similarity=0.749 Sum_probs=14.2
Q ss_pred eeCCCCCC--------cceeeeeEeeccCCC
Q psy3219 45 AKCNICKE--------CPIIGFRYRCLKCFN 67 (102)
Q Consensus 45 ~~Cd~C~~--------~~i~G~RykC~~C~d 67 (102)
+.|..|.. .+-.|...+|..|..
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~ 33 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGH 33 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECCCCCC
Confidence 56777764 334566777777753
No 42
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=39.88 E-value=11 Score=20.07 Aligned_cols=16 Identities=25% Similarity=0.742 Sum_probs=12.0
Q ss_pred ceeCCCCCCcceeeeeE
Q psy3219 44 QAKCNICKECPIIGFRY 60 (102)
Q Consensus 44 ~~~Cd~C~~~~i~G~Ry 60 (102)
.+.|..|.. +|...||
T Consensus 4 ~~~C~nC~R-~v~a~Rf 19 (33)
T PF08209_consen 4 YVECPNCGR-PVAASRF 19 (33)
T ss_dssp EEE-TTTSS-EEEGGGH
T ss_pred eEECCCCcC-Ccchhhh
Confidence 378999997 7887777
No 43
>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=32.25 E-value=36 Score=16.88 Aligned_cols=9 Identities=22% Similarity=0.940 Sum_probs=6.8
Q ss_pred eeeEeeccC
Q psy3219 57 GFRYRCLKC 65 (102)
Q Consensus 57 G~RykC~~C 65 (102)
+.+|.|-+|
T Consensus 14 ~v~f~CPnC 22 (24)
T PF07754_consen 14 AVPFPCPNC 22 (24)
T ss_pred CceEeCCCC
Confidence 567888777
No 44
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=32.10 E-value=40 Score=17.90 Aligned_cols=23 Identities=35% Similarity=0.730 Sum_probs=14.3
Q ss_pred eeCCCCCC--------cceeeeeEeeccCCC
Q psy3219 45 AKCNICKE--------CPIIGFRYRCLKCFN 67 (102)
Q Consensus 45 ~~Cd~C~~--------~~i~G~RykC~~C~d 67 (102)
+.|..|+. -+..|.+-+|..|..
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~ 33 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGH 33 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCc
Confidence 46666764 234566788877753
No 45
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=31.06 E-value=35 Score=18.86 Aligned_cols=23 Identities=30% Similarity=0.602 Sum_probs=15.6
Q ss_pred ceeCCCCCC---cceee-eeEeeccCC
Q psy3219 44 QAKCNICKE---CPIIG-FRYRCLKCF 66 (102)
Q Consensus 44 ~~~Cd~C~~---~~i~G-~RykC~~C~ 66 (102)
++.|..|.. ..+.+ .+|+|..|.
T Consensus 18 g~~CP~Cg~~~~~~~~~~~~~~C~~C~ 44 (46)
T PF12760_consen 18 GFVCPHCGSTKHYRLKTRGRYRCKACR 44 (46)
T ss_pred CCCCCCCCCeeeEEeCCCCeEECCCCC
Confidence 377888885 23444 688988874
No 46
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=30.45 E-value=47 Score=22.46 Aligned_cols=27 Identities=22% Similarity=0.643 Sum_probs=17.8
Q ss_pred CCCCCCcceeeeeEeeccCC-----CCccchhh
Q psy3219 47 CNICKECPIIGFRYRCLKCF-----NFDMCQTC 74 (102)
Q Consensus 47 Cd~C~~~~i~G~RykC~~C~-----dfdLC~~C 74 (102)
|..|.. ++.-.|++|..|. +|.++.-+
T Consensus 1 CPvCg~-~l~vt~l~C~~C~t~i~G~F~l~~~~ 32 (113)
T PF09862_consen 1 CPVCGG-ELVVTRLKCPSCGTEIEGEFELPWFA 32 (113)
T ss_pred CCCCCC-ceEEEEEEcCCCCCEEEeeeccchhh
Confidence 667774 6666788888774 36666444
No 47
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=30.02 E-value=74 Score=18.54 Aligned_cols=25 Identities=24% Similarity=0.525 Sum_probs=16.5
Q ss_pred ceeCCCCCC-------cceeeeeEeeccCCCC
Q psy3219 44 QAKCNICKE-------CPIIGFRYRCLKCFNF 68 (102)
Q Consensus 44 ~~~Cd~C~~-------~~i~G~RykC~~C~df 68 (102)
..+|..|.. ....-.+|+|..|..+
T Consensus 22 aLIC~~C~~hNGla~~~~~~~i~y~C~~Cg~~ 53 (54)
T PF10058_consen 22 ALICSKCFSHNGLAPKEEFEEIQYRCPYCGAL 53 (54)
T ss_pred eEECcccchhhcccccccCCceEEEcCCCCCc
Confidence 478888875 1223358999988654
No 48
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=28.24 E-value=28 Score=21.72 Aligned_cols=29 Identities=28% Similarity=0.865 Sum_probs=12.3
Q ss_pred eCCCCCCcce--eeeeEeeccCC-CCcc---chhhh
Q psy3219 46 KCNICKECPI--IGFRYRCLKCF-NFDM---CQTCF 75 (102)
Q Consensus 46 ~Cd~C~~~~i--~G~RykC~~C~-dfdL---C~~C~ 75 (102)
.|..|.+ ++ .|.+|.|..|. +|.+ |.+|.
T Consensus 3 ~CP~C~~-~L~~~~~~~~C~~C~~~~~~~a~CPdC~ 37 (70)
T PF07191_consen 3 TCPKCQQ-ELEWQGGHYHCEACQKDYKKEAFCPDCG 37 (70)
T ss_dssp B-SSS-S-BEEEETTEEEETTT--EEEEEEE-TTT-
T ss_pred cCCCCCC-ccEEeCCEEECccccccceecccCCCcc
Confidence 4556664 23 23466666664 3433 55553
No 49
>KOG4317|consensus
Probab=27.63 E-value=32 Score=27.64 Aligned_cols=30 Identities=30% Similarity=0.807 Sum_probs=20.9
Q ss_pred eeCCCCCCcceeeeeEeeccCCCCccchh-hhhCC
Q psy3219 45 AKCNICKECPIIGFRYRCLKCFNFDMCQT-CFFQG 78 (102)
Q Consensus 45 ~~Cd~C~~~~i~G~RykC~~C~dfdLC~~-C~~~~ 78 (102)
..|..|...+ .+|+|-.| |+-.|.- ||-++
T Consensus 8 ~~C~ic~vq~---~~YtCPRC-n~~YCsl~CYr~h 38 (383)
T KOG4317|consen 8 LACGICGVQK---REYTCPRC-NLLYCSLKCYRNH 38 (383)
T ss_pred eecccccccc---ccccCCCC-CccceeeeeecCC
Confidence 6777787644 57999998 4445764 88654
No 50
>cd00021 BBOX B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
Probab=26.92 E-value=92 Score=15.70 Aligned_cols=29 Identities=21% Similarity=0.425 Sum_probs=16.7
Q ss_pred eCCCCCCcceeeeeEeeccCCCCccchhhhhCC
Q psy3219 46 KCNICKECPIIGFRYRCLKCFNFDMCQTCFFQG 78 (102)
Q Consensus 46 ~Cd~C~~~~i~G~RykC~~C~dfdLC~~C~~~~ 78 (102)
.|+.+...++ .+-|..|... +|..|...+
T Consensus 2 ~C~~H~~~~~---~~fC~~~~~~-iC~~C~~~~ 30 (39)
T cd00021 2 LCDEHGEEPL---SLFCETDRAL-LCVDCDLSV 30 (39)
T ss_pred CCCccCCcce---EEEeCccChh-hhhhcChhh
Confidence 3555543232 4556666543 788897653
No 51
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=26.89 E-value=66 Score=19.40 Aligned_cols=33 Identities=27% Similarity=0.652 Sum_probs=19.2
Q ss_pred eeCCCCCCccee----eeeEeeccCCCC--ccchhhhhCC
Q psy3219 45 AKCNICKECPII----GFRYRCLKCFNF--DMCQTCFFQG 78 (102)
Q Consensus 45 ~~Cd~C~~~~i~----G~RykC~~C~df--dLC~~C~~~~ 78 (102)
..|..|.. .|. +.+|.|-+|-.. --|..|-..+
T Consensus 8 ~~CtSCg~-~i~~~~~~~~F~CPnCG~~~I~RC~~CRk~~ 46 (59)
T PRK14890 8 PKCTSCGI-EIAPREKAVKFLCPNCGEVIIYRCEKCRKQS 46 (59)
T ss_pred ccccCCCC-cccCCCccCEeeCCCCCCeeEeechhHHhcC
Confidence 46777774 333 467777777543 2377665443
No 52
>PF01754 zf-A20: A20-like zinc finger; InterPro: IPR002653 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 zinc finger domain found in A20. A20 is an inhibitor of cell death that inhibits NF-kappaB activation via the tumour necrosis factor receptor associated factor pathway []. The zinc finger domains appear to mediate self-association in A20. These fingers also mediate IL-1-induced NF-kappa B activation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 2FIF_F 2FID_B 2C7N_C 2C7M_A 2L00_A 2KZY_A 2EQG_A 2EQE_A 3OJ3_J 3OJ4_C ....
Probab=23.53 E-value=38 Score=16.89 Aligned_cols=8 Identities=25% Similarity=1.173 Sum_probs=5.2
Q ss_pred Cccchhhh
Q psy3219 68 FDMCQTCF 75 (102)
Q Consensus 68 fdLC~~C~ 75 (102)
-+||+.||
T Consensus 17 ~~~Cs~C~ 24 (25)
T PF01754_consen 17 NGLCSKCY 24 (25)
T ss_dssp TTS-HHHH
T ss_pred cCcchhhc
Confidence 36788887
No 53
>KOG2813|consensus
Probab=22.78 E-value=57 Score=26.41 Aligned_cols=35 Identities=29% Similarity=0.680 Sum_probs=25.9
Q ss_pred eeCCCCCCcc----eeeeeEeeccCCC--------CccchhhhhCCc
Q psy3219 45 AKCNICKECP----IIGFRYRCLKCFN--------FDMCQTCFFQGK 79 (102)
Q Consensus 45 ~~Cd~C~~~~----i~G~RykC~~C~d--------fdLC~~C~~~~~ 79 (102)
+.|.+|.... -.|.-.+|+.|.. -|+|..|..+|+
T Consensus 199 ~vc~gc~g~G~~~y~~~~~m~c~sc~G~~~~k~gt~~~C~~C~G~G~ 245 (406)
T KOG2813|consen 199 MVCHGCSGSGSNSYGIGTPMHCMSCTGVPPPKIGTHDLCYMCHGRGI 245 (406)
T ss_pred eeccCcCCCCccccccCcceecccccCCCCCCCCccchhhhccCCCc
Confidence 7788887532 1345789999966 689999988875
No 54
>PF04769 MAT_Alpha1: Mating-type protein MAT alpha 1; InterPro: IPR006856 This family includes Saccharomyces cerevisiae (Baker's yeast) mating type protein alpha 1 (P01365 from SWISSPROT). MAT alpha 1 is a transcription activator that activates mating-type alpha-specific genes with the help of the MADS-box containing MCM1 transcription factor, which together bind cooperatively to PQ elements upstream of alpha-specific genes. The MCM1-MATalpha1 complex is required for the proper DNA-bending that is needed for transcriptional activation []. Alpha 1 interacts in vivo with STE12, linking expression of alpha-specific genes to the alpha-pheromone (IPR006742 from INTERPRO) response pathway [].; GO: 0000772 mating pheromone activity, 0003677 DNA binding, 0045895 positive regulation of transcription, mating-type specific, 0005634 nucleus
Probab=22.31 E-value=74 Score=23.47 Aligned_cols=33 Identities=21% Similarity=0.205 Sum_probs=23.6
Q ss_pred CCCCCCCCCcchHHHHHHHhc---CCCccchhhhhh
Q psy3219 1 MRRTLGPYPQQAVHFLSWLQQ---EPQSIVWLPVLH 33 (102)
Q Consensus 1 ~~~~~~~~~~~~~~f~~~~~~---~p~~~~wlpll~ 33 (102)
+|..+|+..++++.||.+.+- -+++-.||..+.
T Consensus 97 iRd~~gk~~~~L~~Fl~~~~p~~gi~~p~~YL~~~G 132 (201)
T PF04769_consen 97 IRDQLGKDKAPLDQFLAFACPLIGIIPPEDYLEQLG 132 (201)
T ss_pred hccccccccCCHHHHHHHhhhhcCCCCHHHHHHHcC
Confidence 467789999999999999964 244445555544
No 55
>PF10576 EndIII_4Fe-2S: Iron-sulfur binding domain of endonuclease III; InterPro: IPR003651 Endonuclease III (4.2.99.18 from EC) is a DNA repair enzyme which removes a number of damaged pyrimidines from DNA via its glycosylase activity and also cleaves the phosphodiester backbone at apurinic / apyrimidinic sites via a beta-elimination mechanism [, ]. The structurally related DNA glycosylase MutY recognises and excises the mutational intermediate 8-oxoguanine-adenine mispair []. The 3-D structures of Escherichia coli endonuclease III [] and catalytic domain of MutY [] have been determined. The structures contain two all-alpha domains: a sequence-continuous, six-helix domain (residues 22-132) and a Greek-key, four-helix domain formed by one N-terminal and three C-terminal helices (residues 1-21 and 133-211) together with the [Fe4S4] cluster. The cluster is bound entirely within the C-terminal loop by four cysteine residues with a ligation pattern Cys-(Xaa)6-Cys-(Xaa)2-Cys-(Xaa)5-Cys which is distinct from all other known Fe4S4 proteins. This structural motif is referred to as a [Fe4S4] cluster loop (FCL) []. Two DNA-binding motifs have been proposed, one at either end of the interdomain groove: the helix-hairpin-helix (HhH) and FCL motifs. The primary role of the iron-sulphur cluster appears to involve positioning conserved basic residues for interaction with the DNA phosphate backbone by forming the loop of the FCL motif [, ]. The iron-sulphur cluster loop (FCL) is also found in DNA-(apurinic or apyrimidinic site) lyase, a subfamily of endonuclease III. The enzyme has both apurinic and apyrimidinic endonuclease activity and a DNA N-glycosylase activity. It cuts damaged DNA at cytosines, thymines and guanines, and acts on the damaged strand 5' of the damaged site. The enzyme binds a 4Fe-4S cluster which is not important for the catalytic activity, but is probably involved in the alignment of the enzyme along the DNA strand.; GO: 0004519 endonuclease activity, 0051539 4 iron, 4 sulfur cluster binding; PDB: 1VRL_A 1RRQ_A 3G0Q_A 3FSQ_A 1RRS_A 3FSP_A 2ABK_A 1KG7_A 1KG2_A 1MUN_A ....
Probab=22.29 E-value=36 Score=15.42 Aligned_cols=11 Identities=36% Similarity=0.939 Sum_probs=4.8
Q ss_pred eeccCCCCccc
Q psy3219 61 RCLKCFNFDMC 71 (102)
Q Consensus 61 kC~~C~dfdLC 71 (102)
+|..|+-.|+|
T Consensus 7 ~C~~Cpl~~~C 17 (17)
T PF10576_consen 7 KCEECPLADYC 17 (17)
T ss_dssp -GGG-TTGGG-
T ss_pred ccccCCCcccC
Confidence 56666655554
No 56
>PF14206 Cys_rich_CPCC: Cysteine-rich CPCC
Probab=22.25 E-value=42 Score=21.22 Aligned_cols=11 Identities=36% Similarity=1.437 Sum_probs=10.2
Q ss_pred CccchhhhhCC
Q psy3219 68 FDMCQTCFFQG 78 (102)
Q Consensus 68 fdLC~~C~~~~ 78 (102)
||+|..||+..
T Consensus 20 ydIC~VC~WEd 30 (78)
T PF14206_consen 20 YDICPVCFWED 30 (78)
T ss_pred ceECCCCCccc
Confidence 99999999985
No 57
>PHA00626 hypothetical protein
Probab=22.10 E-value=75 Score=19.13 Aligned_cols=9 Identities=33% Similarity=0.659 Sum_probs=6.2
Q ss_pred eeEeeccCC
Q psy3219 58 FRYRCLKCF 66 (102)
Q Consensus 58 ~RykC~~C~ 66 (102)
.||+|-.|-
T Consensus 22 nrYkCkdCG 30 (59)
T PHA00626 22 DDYVCCDCG 30 (59)
T ss_pred cceEcCCCC
Confidence 477777773
No 58
>PF04891 NifQ: NifQ; InterPro: IPR006975 NifQ is involved in early stages of the biosynthesis of the iron-molybdenum cofactor (FeMo-co) [], which is an integral part of the active site of dinitrogenase []. The conserved C-terminal cysteine residues may be involved in metal binding [].; GO: 0030151 molybdenum ion binding, 0009399 nitrogen fixation
Probab=21.33 E-value=35 Score=24.55 Aligned_cols=11 Identities=27% Similarity=1.165 Sum_probs=9.0
Q ss_pred eeccCCCCccc
Q psy3219 61 RCLKCFNFDMC 71 (102)
Q Consensus 61 kC~~C~dfdLC 71 (102)
.|.+|.||+.|
T Consensus 155 sC~~C~D~~~C 165 (167)
T PF04891_consen 155 SCEECSDYAVC 165 (167)
T ss_pred CCCCcCCHhhc
Confidence 48889999777
No 59
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=21.15 E-value=54 Score=15.14 Aligned_cols=7 Identities=43% Similarity=1.379 Sum_probs=4.1
Q ss_pred EeeccCC
Q psy3219 60 YRCLKCF 66 (102)
Q Consensus 60 ykC~~C~ 66 (102)
|+|..|+
T Consensus 1 y~C~~C~ 7 (24)
T PF13909_consen 1 YKCPHCS 7 (24)
T ss_dssp EE-SSSS
T ss_pred CCCCCCC
Confidence 6777775
No 60
>smart00054 EFh EF-hand, calcium binding motif. EF-hands are calcium-binding motifs that occur at least in pairs. Links between disease states and genes encoding EF-hands, particularly the S100 subclass, are emerging. Each motif consists of a 12 residue loop flanked on either side by a 12 residue alpha-helix. EF-hands undergo a conformational change unpon binding calcium ions.
Probab=20.47 E-value=94 Score=13.20 Aligned_cols=16 Identities=19% Similarity=0.137 Sum_probs=11.5
Q ss_pred CCCCcchHHHHHHHhc
Q psy3219 6 GPYPQQAVHFLSWLQQ 21 (102)
Q Consensus 6 ~~~~~~~~~f~~~~~~ 21 (102)
+.+.|+.++|..++.+
T Consensus 13 ~~g~i~~~e~~~~~~~ 28 (29)
T smart00054 13 GDGKIDFEEFKDLLKA 28 (29)
T ss_pred CCCcEeHHHHHHHHHh
Confidence 3457888888887653
Done!