Query psy1344
Match_columns 286
No_of_seqs 209 out of 246
Neff 4.4
Searched_HMMs 46136
Date Fri Aug 16 19:27:26 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1344.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1344hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0227|consensus 100.0 2E-105 4E-110 708.1 15.2 217 1-217 1-217 (222)
2 COG5246 PRP11 Splicing factor 100.0 1.7E-76 3.6E-81 521.2 12.5 214 1-216 1-220 (222)
3 PF09732 CactinC_cactus: Cactu 99.6 6.7E-16 1.5E-20 129.7 7.6 83 125-215 36-121 (125)
4 KOG1924|consensus 99.3 1E-13 2.2E-18 143.4 -1.3 51 132-183 450-500 (1102)
5 smart00451 ZnF_U1 U1-like zinc 98.0 2.4E-06 5.2E-11 55.4 1.5 34 51-84 1-34 (35)
6 PF12874 zf-met: Zinc-finger o 97.7 1.4E-05 3E-10 48.5 0.7 25 54-78 1-25 (25)
7 KOG2370|consensus 97.2 0.00026 5.7E-09 71.5 3.3 74 130-214 539-618 (623)
8 KOG4727|consensus 96.8 0.00063 1.4E-08 60.9 1.6 39 46-84 68-106 (193)
9 PF12171 zf-C2H2_jaz: Zinc-fin 96.3 0.0016 3.4E-08 40.6 0.9 27 53-79 1-27 (27)
10 KOG3671|consensus 94.7 0.092 2E-06 53.8 7.2 14 21-34 20-33 (569)
11 KOG3671|consensus 94.6 0.085 1.8E-06 54.1 6.8 30 53-86 110-139 (569)
12 PF06220 zf-U1: U1 zinc finger 94.1 0.037 8E-07 37.8 2.0 33 53-85 3-37 (38)
13 KOG3032|consensus 91.5 0.22 4.7E-06 46.9 3.9 51 34-85 15-66 (264)
14 PLN02748 tRNA dimethylallyltra 91.3 0.12 2.6E-06 52.4 2.2 34 53-86 418-452 (468)
15 KOG0132|consensus 90.9 0.72 1.6E-05 49.7 7.4 14 195-208 501-514 (894)
16 KOG1923|consensus 89.4 1.4 3E-05 47.4 8.1 26 59-84 99-124 (830)
17 KOG4672|consensus 88.9 1.4 3E-05 44.6 7.3 7 80-86 106-112 (487)
18 KOG0132|consensus 87.1 2 4.3E-05 46.4 7.4 23 235-257 612-634 (894)
19 KOG1830|consensus 85.0 2.8 6.1E-05 42.7 7.0 19 66-84 153-171 (518)
20 KOG3454|consensus 84.2 0.45 9.8E-06 42.4 1.0 32 53-84 3-36 (165)
21 KOG4722|consensus 81.2 0.66 1.4E-05 47.3 1.0 33 54-86 494-526 (672)
22 KOG0150|consensus 79.7 0.87 1.9E-05 44.4 1.2 36 51-86 8-44 (336)
23 KOG1923|consensus 79.0 6.5 0.00014 42.6 7.4 12 219-230 278-289 (830)
24 KOG3576|consensus 78.1 0.88 1.9E-05 42.5 0.7 47 38-87 159-210 (267)
25 smart00500 SFM Splicing Factor 78.1 1.8 3.9E-05 30.8 2.1 26 17-42 18-43 (44)
26 PF08799 PRP4: pre-mRNA proces 75.9 2.2 4.7E-05 28.1 1.9 16 19-34 15-30 (30)
27 PF13912 zf-C2H2_6: C2H2-type 75.1 1.1 2.3E-05 27.2 0.3 20 54-73 2-21 (27)
28 KOG1925|consensus 72.5 4.3 9.3E-05 42.5 3.9 24 48-71 43-66 (817)
29 PF00096 zf-C2H2: Zinc finger, 72.1 1.3 2.8E-05 25.9 0.1 21 54-74 1-21 (23)
30 KOG2893|consensus 71.0 18 0.00038 34.8 7.4 13 227-239 143-155 (341)
31 smart00355 ZnF_C2H2 zinc finge 68.3 1.6 3.5E-05 24.9 -0.0 21 54-74 1-21 (26)
32 PF06346 Drf_FH1: Formin Homol 68.1 16 0.00034 32.4 5.9 8 252-259 84-91 (160)
33 KOG1074|consensus 65.6 2.8 6.1E-05 45.7 1.1 32 46-77 624-657 (958)
34 KOG4849|consensus 62.9 28 0.00061 35.1 7.3 12 60-71 88-99 (498)
35 PF13894 zf-C2H2_4: C2H2-type 61.2 3 6.5E-05 23.6 0.2 20 54-73 1-20 (24)
36 KOG2893|consensus 60.0 29 0.00062 33.4 6.5 17 56-72 13-29 (341)
37 PTZ00448 hypothetical protein; 59.3 5.2 0.00011 39.9 1.6 35 52-86 313-347 (373)
38 PF05477 SURF2: Surfeit locus 58.6 9.8 0.00021 35.9 3.2 62 26-87 47-114 (244)
39 PF12756 zf-C2H2_2: C2H2 type 58.5 2.5 5.3E-05 31.9 -0.7 35 48-82 44-79 (100)
40 KOG1925|consensus 57.6 19 0.00041 37.9 5.3 15 248-263 245-259 (817)
41 KOG4849|consensus 56.5 30 0.00065 34.9 6.2 39 153-191 113-152 (498)
42 KOG2236|consensus 55.6 46 0.00099 34.4 7.5 13 180-192 311-323 (483)
43 PF13465 zf-H2C2_2: Zinc-finge 53.0 4.5 9.8E-05 24.9 0.0 16 47-62 6-23 (26)
44 PF13909 zf-H2C2_5: C2H2-type 52.9 4.3 9.3E-05 24.1 -0.1 20 54-74 1-20 (24)
45 KOG3608|consensus 52.7 4.3 9.4E-05 40.7 -0.2 26 47-72 257-282 (467)
46 KOG3408|consensus 47.2 14 0.0003 31.8 2.1 36 50-85 54-89 (129)
47 PF11281 DUF3083: Protein of u 45.7 29 0.00063 34.0 4.2 58 142-217 214-271 (316)
48 COG5136 U1 snRNP-specific prot 42.2 7.5 0.00016 35.0 -0.3 33 52-84 2-36 (188)
49 KOG3623|consensus 39.4 13 0.00028 40.6 0.8 33 47-79 301-335 (1007)
50 KOG0703|consensus 37.7 30 0.00064 33.6 2.9 49 21-69 7-61 (287)
51 PF02084 Bindin: Bindin; Inte 35.9 29 0.00063 32.7 2.5 42 22-85 101-146 (238)
52 PF04988 AKAP95: A-kinase anch 33.7 21 0.00046 32.0 1.2 32 54-85 1-32 (165)
53 KOG0717|consensus 33.4 24 0.00051 36.5 1.6 33 54-86 293-325 (508)
54 KOG2675|consensus 30.1 37 0.00079 35.0 2.3 9 79-87 89-97 (480)
55 PHA00616 hypothetical protein 30.1 14 0.0003 26.4 -0.5 20 54-73 2-21 (44)
56 PF14749 Acyl-CoA_ox_N: Acyl-c 29.3 24 0.00053 28.7 0.8 36 20-55 12-48 (125)
57 PF05518 Totivirus_coat: Totiv 27.2 2.1E+02 0.0045 31.4 7.3 12 252-263 712-723 (759)
58 PF08315 cwf18: cwf18 pre-mRNA 26.3 51 0.0011 27.8 2.2 20 17-36 1-20 (129)
59 PHA00626 hypothetical protein 23.9 40 0.00086 25.5 0.9 22 46-67 16-37 (59)
60 PF11931 DUF3449: Domain of un 22.4 29 0.00063 31.8 0.0 44 45-88 91-137 (196)
61 PF14968 CCDC84: Coiled coil p 22.0 49 0.0011 32.7 1.5 27 56-85 2-28 (336)
62 PRK07080 hypothetical protein; 22.0 74 0.0016 31.3 2.7 13 37-49 213-225 (317)
63 TIGR00316 cdhC CO dehydrogenas 21.9 54 0.0012 33.7 1.8 29 21-61 165-193 (458)
64 KOG1280|consensus 21.7 34 0.00073 34.2 0.3 22 53-74 79-100 (381)
65 PF14445 Prok-RING_2: Prokaryo 21.6 24 0.00052 26.3 -0.5 15 53-67 7-21 (57)
66 PHA00733 hypothetical protein 21.2 32 0.0007 29.0 0.0 22 53-74 73-94 (128)
67 KOG1922|consensus 20.9 1.7E+02 0.0037 31.5 5.3 46 240-285 316-369 (833)
68 KOG4477|consensus 20.4 35 0.00076 31.6 0.1 18 46-63 31-48 (228)
69 PF12013 DUF3505: Protein of u 20.4 77 0.0017 25.4 2.1 37 52-89 10-47 (109)
70 KOG0272|consensus 20.3 54 0.0012 33.6 1.4 23 21-43 69-92 (459)
No 1
>KOG0227|consensus
Probab=100.00 E-value=1.7e-105 Score=708.08 Aligned_cols=217 Identities=78% Similarity=1.285 Sum_probs=211.9
Q ss_pred CCCCCCCCCCCCCCcccChhhhhHHHHHHHHHHhhhhcCCCCCccccccCCCceeeecccccccCccchhhhccchHHHH
Q psy1344 1 MDYQNRPGGKTGGGGVASWSESNRDRRERLRQLALETIDLNKDPYFMKNHLGSYECKLCLTLHNNEGSYLAHTQGKKHQA 80 (286)
Q Consensus 1 mdyqnr~GsK~G~Gg~as~s~~n~~Rrerlr~La~e~idl~kDPY~~kNH~G~y~C~LC~t~h~~e~sy~~H~qGkkH~~ 80 (286)
||||||+|||+|||||||+||+|+|||||||+||||||||.+||||||||+|+|+|+||+|+|+||+||++||||||||+
T Consensus 1 md~~~r~GsK~G~ggvAS~se~n~~RrerlrqLaletidl~kDPy~mkNh~G~yeCkLClT~H~ne~Syl~HtqGKKHq~ 80 (222)
T KOG0227|consen 1 MDYQNRAGSKTGSGGVASESEFNRDRRERLRQLALETIDLNKDPYFMKNHLGKYECKLCLTLHNNEGSYLAHTQGKKHQT 80 (222)
T ss_pred CCcccccCccCCCCcccchhhhhHHHHHHHHHHHHhhcccccCchhhhccCcceeehhhhhhhcchhhhhhhhccchhhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhcCCCCCCCCCCCcCCccceeccCCCceeeeecCCCCCcceeEEEEeCCCccCCCccceeeccccccccC
Q psy1344 81 NLARRAAKEAKDAPQQPAPEKPRVEPKKFVKIGRPGYRVTKQRDPSNGQQSLLFQVDYPEIADDVFPRHRFMSAYEQRIE 160 (286)
Q Consensus 81 nL~rR~~~e~~~~~~~~~~~~~~v~~r~~vKiGrPgykvtK~rDpet~q~gllfqIdypei~d~~~P~~R~mS~~EqrvE 160 (286)
||+|||++|++++....++.+..|++|++||||||||||||+||++.||+||+|||||++|+++++|+|||||+|||++|
T Consensus 81 Nlarraa~e~k~s~~~~~~~k~~v~vk~~vkigrpgykvtk~r~~~~gq~~L~fQv~Yp~i~~~~~Pr~rfmssyeq~ve 160 (222)
T KOG0227|consen 81 NLARRAAKEAKESPDLPQPQKIIVEVKKFVKIGRPGYKVTKQRDPENGQQGLLFQVNYPEIEEGIMPRHRFMSSYEQKVE 160 (222)
T ss_pred HHHHHHHHHhhcCccccccccchhhhhhhhhcCCCcceeeeeecCccCceeeEEEecchhhhhccCCcchhhhhhHhhcC
Confidence 99999999999988666677778899999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccceEEeecCccccccccCCCcccccCCCcceeeccCCCceEEEEEEeecCCC
Q psy1344 161 PPDRKWQYLLFAAEPYETIAFKVPSREVDKGDTKFWTHWNKDTKQFFLQFSFRNESK 217 (286)
Q Consensus 161 ~~dkk~qYLliAaEPYEtIafkiPn~eId~~~~~~~t~WD~d~k~f~lQ~~fk~~~~ 217 (286)
++|++||||||||||||||||||||+|||++++|||||||.+||+|||||||+....
T Consensus 161 ~~dk~~qyLvfaaePyE~Iafk~p~~Eid~se~Kf~t~wd~~tk~y~lqF~fk~~~~ 217 (222)
T KOG0227|consen 161 PPDKSWQYLVFAAEPYENIAFKVPSREIDKSEGKFWTHWDAETKQYTLQFFFKQAEP 217 (222)
T ss_pred CccccceEEEEEeccccceeeecCchhhhhccCceeeeecCCCceEEEEEEecccCc
Confidence 999999999999999999999999999999999999999999999999999998764
No 2
>COG5246 PRP11 Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=100.00 E-value=1.7e-76 Score=521.18 Aligned_cols=214 Identities=39% Similarity=0.663 Sum_probs=194.0
Q ss_pred CCCCCCCCCCCCCCcccChhhhhHHHHHHHHHHhhhhcCCCCCccccccCCCceeeecccccccCccchhhhccchHHHH
Q psy1344 1 MDYQNRPGGKTGGGGVASWSESNRDRRERLRQLALETIDLNKDPYFMKNHLGSYECKLCLTLHNNEGSYLAHTQGKKHQA 80 (286)
Q Consensus 1 mdyqnr~GsK~G~Gg~as~s~~n~~Rrerlr~La~e~idl~kDPY~~kNH~G~y~C~LC~t~h~~e~sy~~H~qGkkH~~ 80 (286)
||||+|+|||+|+||+||.++.|.+||+|++.|+++++||.+|||+||||+|.|+|+||+|+|.+|+||++|++||||++
T Consensus 1 Mny~~r~Gsk~Gggg~Ase~~~n~~rR~r~~~L~~~gqDl~dDPyl~knh~Gk~vC~LC~T~H~~e~Sy~~H~~GKKH~~ 80 (222)
T COG5246 1 MNYGGRGGSKTGGGGTASEIKKNKKRRSRQLLLEAYGQDLMDDPYLSKNHTGKYVCLLCKTKHLTEMSYVKHREGKKHKE 80 (222)
T ss_pred CCcccccccccCCCcchhHHHhhHHHHHHHHHHHhcCcccccCcchhhcCCCcEEeeeeccccccHHHHHHhhccchhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhcCCC-CCC----CCCCCcCCccc-eeccCCCceeeeecCCCCCcceeEEEEeCCCccCCCccceeeccc
Q psy1344 81 NLARRAAKEAKDAPQ-QPA----PEKPRVEPKKF-VKIGRPGYRVTKQRDPSNGQQSLLFQVDYPEIADDVFPRHRFMSA 154 (286)
Q Consensus 81 nL~rR~~~e~~~~~~-~~~----~~~~~v~~r~~-vKiGrPgykvtK~rDpet~q~gllfqIdypei~d~~~P~~R~mS~ 154 (286)
|++||.+.+.+-+.. |.+ .++.-|+.|+. +++|+|+|||.+++.|+.|..||.|||+|+++....+|++||||+
T Consensus 81 n~~rrs~eksslgrEnqtthdfrqqQkiieaKqSlk~~GiP~ykv~~~~epk~G~~Gl~iqvnY~Dd~a~~~P~yRivs~ 160 (222)
T COG5246 81 NSSRRSEEKSSLGRENQTTHDFRQQQKIIEAKQSLKRSGIPSYKVRSLVEPKGGRRGLGIQVNYEDDLAEEMPQYRIVSS 160 (222)
T ss_pred hHHHHHHHhhcccccCCchhhhhhHHHHHHHHHHHHhcCCCceeEEEeecCCCCceeeEEEEeccchhhccCcceehhhh
Confidence 999996554443221 111 11333566544 477999999999999999999999999999988889999999999
Q ss_pred cccccCCCCcccceEEeecCccccccccCCCcccccCCCcceeeccCCCceEEEEEEeecCC
Q psy1344 155 YEQRIEPPDRKWQYLLFAAEPYETIAFKVPSREVDKGDTKFWTHWNKDTKQFFLQFSFRNES 216 (286)
Q Consensus 155 ~EqrvE~~dkk~qYLliAaEPYEtIafkiPn~eId~~~~~~~t~WD~d~k~f~lQ~~fk~~~ 216 (286)
|||++|+.|++|+||||||||||||||||++.|||..+ .|++||..|++|+|||||+...
T Consensus 161 lEq~ve~~d~~f~yLV~a~ePyEnIafk~~~~ei~f~s--~~~~wDa~~~tYt~qFff~~a~ 220 (222)
T COG5246 161 LEQNVEEYDESFRYLVFACEPYENIAFKFENKEIDFLS--IYEDWDAETGTYTLQFFFLEAG 220 (222)
T ss_pred hhhcchhhcccceEEEEEeccccceeeecCCCccchhh--hcccccccCceEEEEEeeeccc
Confidence 99999999999999999999999999999999999876 7889999999999999998653
No 3
>PF09732 CactinC_cactus: Cactus-binding C-terminus of cactin protein; InterPro: IPR019134 This entry represents the C-terminal 200 residues of the cactin protein which is necessary for the association of cactin with IkappaB-cactus, as one of the intracellular members of the Rel complex. The Rel (NF-kappaB) pathway is conserved in invertebrates and vertebrates. In mammals, it controls the activities of the immune and inflammatory response genes as well as viral genes, and is critical for cell growth and survival. In Drosophila, the Rel pathway functions in the innate cellular and humoral immune response, in muscle development and in the establishment of dorsal-ventral polarity in the early embryo []. Most members of the family also have the conserved mid region of cactin (IPR018816 from INTERPRO) further upstream.
Probab=99.63 E-value=6.7e-16 Score=129.70 Aligned_cols=83 Identities=33% Similarity=0.528 Sum_probs=72.3
Q ss_pred CCCCcceeEEEEeCCCccC-CCccceeeccccccccCCCCcccceEEe-ecCccccccccCCCcccccCCC-cceeeccC
Q psy1344 125 PSNGQQSLLFQVDYPEIAD-DVFPRHRFMSAYEQRIEPPDRKWQYLLF-AAEPYETIAFKVPSREVDKGDT-KFWTHWNK 201 (286)
Q Consensus 125 pet~q~gllfqIdypei~d-~~~P~~R~mS~~EqrvE~~dkk~qYLli-AaEPYEtIafkiPn~eId~~~~-~~~t~WD~ 201 (286)
|-.-.+|+.|+|.||+|+| +..|++|||+ +++ ++.+++|+| |++|||.|||||+|+|+|.+.+ .|++.||.
T Consensus 36 PPK~vqGYkFnIfYPdL~d~~~~P~y~i~~-----~~~-~~~~~~L~F~AgpPYeDIAFkIvnrEWd~s~k~Gfr~~Fd~ 109 (125)
T PF09732_consen 36 PPKIVQGYKFNIFYPDLIDKSKTPRYRIEP-----DED-NPDFCILRFHAGPPYEDIAFKIVNREWDYSHKRGFRCSFDR 109 (125)
T ss_pred CCceeeeeEEEEECCcccCCCCCCcEEEEE-----CCC-CCCEEEEEEeCCCCCcCEEEEEecCeeecCCCCCceEEeeC
Confidence 3445789999999999987 7789999988 333 889999999 5689999999999999999988 78999975
Q ss_pred CCceEEEEEEeecC
Q psy1344 202 DTKQFFLQFSFRNE 215 (286)
Q Consensus 202 d~k~f~lQ~~fk~~ 215 (286)
++|.|+|+||..
T Consensus 110 --gilqL~F~FKr~ 121 (125)
T PF09732_consen 110 --GILQLYFNFKRY 121 (125)
T ss_pred --CEEEEEEEEEhh
Confidence 799999999964
No 4
>KOG1924|consensus
Probab=99.34 E-value=1e-13 Score=143.39 Aligned_cols=51 Identities=18% Similarity=0.238 Sum_probs=44.1
Q ss_pred eEEEEeCCCccCCCccceeeccccccccCCCCcccceEEeecCccccccccC
Q psy1344 132 LLFQVDYPEIADDVFPRHRFMSAYEQRIEPPDRKWQYLLFAAEPYETIAFKV 183 (286)
Q Consensus 132 llfqIdypei~d~~~P~~R~mS~~EqrvE~~dkk~qYLliAaEPYEtIafki 183 (286)
.+|+||..+|+|.++++.+. .+.||++++..++|.-++.|+++.+...-|.
T Consensus 450 ~~l~id~~~liD~~vdkak~-eeseqkA~e~~kk~~ke~ta~qe~qael~k~ 500 (1102)
T KOG1924|consen 450 FRLDIDLTELIDKMVDKAKA-EESEQKAAELEKKFDKELTARQEAQAELQKH 500 (1102)
T ss_pred hcccCcHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHh
Confidence 35688999999999999987 8999999999999999999999987765443
No 5
>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=98.01 E-value=2.4e-06 Score=55.45 Aligned_cols=34 Identities=41% Similarity=0.692 Sum_probs=31.5
Q ss_pred CCceeeecccccccCccchhhhccchHHHHHHHH
Q psy1344 51 LGSYECKLCLTLHNNEGSYLAHTQGKKHQANLAR 84 (286)
Q Consensus 51 ~G~y~C~LC~t~h~~e~sy~~H~qGkkH~~nL~r 84 (286)
.|.|.|.||++..++..++..|+.||+|+.+|++
T Consensus 1 ~~~~~C~~C~~~~~~~~~~~~H~~gk~H~~~~~~ 34 (35)
T smart00451 1 TGGFYCKLCNVTFTDEISVEAHLKGKKHKKNVKK 34 (35)
T ss_pred CcCeEccccCCccCCHHHHHHHHChHHHHHHHHc
Confidence 3679999999999999999999999999999875
No 6
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.66 E-value=1.4e-05 Score=48.53 Aligned_cols=25 Identities=32% Similarity=0.643 Sum_probs=24.4
Q ss_pred eeeecccccccCccchhhhccchHH
Q psy1344 54 YECKLCLTLHNNEGSYLAHTQGKKH 78 (286)
Q Consensus 54 y~C~LC~t~h~~e~sy~~H~qGkkH 78 (286)
|.|.+|++..+++.+|.+|++|++|
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~~H 25 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSKKH 25 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTHHH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcCCC
Confidence 7899999999999999999999998
No 7
>KOG2370|consensus
Probab=97.18 E-value=0.00026 Score=71.47 Aligned_cols=74 Identities=28% Similarity=0.457 Sum_probs=55.9
Q ss_pred ceeEEEEeCCCccC-CCccceeeccccccccCCCCcccceEE---eecCccccccccCCCcccccCC--CcceeeccCCC
Q psy1344 130 QSLLFQVDYPEIAD-DVFPRHRFMSAYEQRIEPPDRKWQYLL---FAAEPYETIAFKVPSREVDKGD--TKFWTHWNKDT 203 (286)
Q Consensus 130 ~gllfqIdypei~d-~~~P~~R~mS~~EqrvE~~dkk~qYLl---iAaEPYEtIafkiPn~eId~~~--~~~~t~WD~d~ 203 (286)
+|..|.|-||.|+| +..|.++|-+ .+. +-++.+ .|..|||.|||+|=|+|-+.+- |..|+| +.
T Consensus 539 QGYkFNIFYPDLidk~~aP~y~ie~-~~d-------~~d~ciIRF~aGpPYeDIAFkIVnkeWeyshKrGfKcqF---~n 607 (623)
T KOG2370|consen 539 QGYKFNIFYPDLIDKGRAPTYRIER-CRD-------KNDFCIIRFHAGPPYEDIAFKIVNKEWEYSHKRGFKCQF---DN 607 (623)
T ss_pred cceeecccchhhhccccCCeeeeee-cCC-------CCceEEEEeccCCcchhhhhhhhcchhhhhhhcCcccee---eC
Confidence 89999999999877 6789999822 221 113444 4999999999999999987653 444554 57
Q ss_pred ceEEEEEEeec
Q psy1344 204 KQFFLQFSFRN 214 (286)
Q Consensus 204 k~f~lQ~~fk~ 214 (286)
++|.|.|.||.
T Consensus 608 gvlqL~F~FKk 618 (623)
T KOG2370|consen 608 GVLQLWFRFKK 618 (623)
T ss_pred Ceeeeeehhhh
Confidence 88999999984
No 8
>KOG4727|consensus
Probab=96.76 E-value=0.00063 Score=60.89 Aligned_cols=39 Identities=33% Similarity=0.624 Sum_probs=34.5
Q ss_pred ccccCCCceeeecccccccCccchhhhccchHHHHHHHH
Q psy1344 46 FMKNHLGSYECKLCLTLHNNEGSYLAHTQGKKHQANLAR 84 (286)
Q Consensus 46 ~~kNH~G~y~C~LC~t~h~~e~sy~~H~qGkkH~~nL~r 84 (286)
+-+-..|+|-|.+|+.+.-.-.+||-|+.||+||.||--
T Consensus 68 tp~sq~~GyyCdVCdcvvKDSinflDHiNgKkHqrnlgm 106 (193)
T KOG4727|consen 68 TPRSQKGGYYCDVCDCVVKDSINFLDHINGKKHQRNLGM 106 (193)
T ss_pred CcccccCceeeeecceeehhhHHHHHHhccHHHHHHHhh
Confidence 335567889999999999999999999999999999864
No 9
>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=96.32 E-value=0.0016 Score=40.61 Aligned_cols=27 Identities=26% Similarity=0.566 Sum_probs=25.1
Q ss_pred ceeeecccccccCccchhhhccchHHH
Q psy1344 53 SYECKLCLTLHNNEGSYLAHTQGKKHQ 79 (286)
Q Consensus 53 ~y~C~LC~t~h~~e~sy~~H~qGkkH~ 79 (286)
.|.|.+|+....++..+..|+.||+|+
T Consensus 1 q~~C~~C~k~f~~~~~~~~H~~sk~Hk 27 (27)
T PF12171_consen 1 QFYCDACDKYFSSENQLKQHMKSKKHK 27 (27)
T ss_dssp -CBBTTTTBBBSSHHHHHCCTTSHHHH
T ss_pred CCCcccCCCCcCCHHHHHHHHccCCCC
Confidence 478999999999999999999999996
No 10
>KOG3671|consensus
Probab=94.68 E-value=0.092 Score=53.79 Aligned_cols=14 Identities=21% Similarity=0.176 Sum_probs=6.9
Q ss_pred hhhHHHHHHHHHHh
Q psy1344 21 ESNRDRRERLRQLA 34 (286)
Q Consensus 21 ~~n~~Rrerlr~La 34 (286)
+.|-+-.|.|++|+
T Consensus 20 lLt~~ene~lf~~l 33 (569)
T KOG3671|consen 20 LLTSEENETLFKLL 33 (569)
T ss_pred ccchhHHHHHHHHh
Confidence 34444455555553
No 11
>KOG3671|consensus
Probab=94.64 E-value=0.085 Score=54.05 Aligned_cols=30 Identities=20% Similarity=0.211 Sum_probs=14.0
Q ss_pred ceeeecccccccCccchhhhccchHHHHHHHHHH
Q psy1344 53 SYECKLCLTLHNNEGSYLAHTQGKKHQANLARRA 86 (286)
Q Consensus 53 ~y~C~LC~t~h~~e~sy~~H~qGkkH~~nL~rR~ 86 (286)
.||-.-|..-.|--..+.+ .+....|.+|.
T Consensus 110 tFegddc~aGLnF~~E~EA----~~F~k~V~~r~ 139 (569)
T KOG3671|consen 110 TFEGDDCQAGLNFASEEEA----QKFRKKVQDRI 139 (569)
T ss_pred eeccccceeeecccCHHHH----HHHHHHHHHHh
Confidence 3555555544444444433 34444455544
No 12
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=94.05 E-value=0.037 Score=37.83 Aligned_cols=33 Identities=27% Similarity=0.533 Sum_probs=19.6
Q ss_pred ceeeecccccccCcc--chhhhccchHHHHHHHHH
Q psy1344 53 SYECKLCLTLHNNEG--SYLAHTQGKKHQANLARR 85 (286)
Q Consensus 53 ~y~C~LC~t~h~~e~--sy~~H~qGkkH~~nL~rR 85 (286)
+|-|..|.+..++.. +-..|..|.+|+.|+++.
T Consensus 3 ryyCdyC~~~~~~d~~~~Rk~H~~G~kH~~nv~~~ 37 (38)
T PF06220_consen 3 RYYCDYCKKYLTHDSPSIRKQHERGWKHKENVKRY 37 (38)
T ss_dssp S-B-TTT--B-S--SHHHHHHHT--THHHHHHHHH
T ss_pred CeecccccceecCCChHHHHHhhccHHHHHHHHHh
Confidence 688999999985554 448899999999998763
No 13
>KOG3032|consensus
Probab=91.48 E-value=0.22 Score=46.87 Aligned_cols=51 Identities=20% Similarity=0.309 Sum_probs=40.5
Q ss_pred hhhhcCCCCCcccc-ccCCCceeeecccccccCccchhhhccchHHHHHHHHH
Q psy1344 34 ALETIDLNKDPYFM-KNHLGSYECKLCLTLHNNEGSYLAHTQGKKHQANLARR 85 (286)
Q Consensus 34 a~e~idl~kDPY~~-kNH~G~y~C~LC~t~h~~e~sy~~H~qGkkH~~nL~rR 85 (286)
-+.+-|+.-|+-|- -|-+|...|.+|++--- +.-...|..||+|..++..-
T Consensus 15 ~~kk~~~ri~splakyn~sgql~C~vCn~piK-p~lW~vHvnsKkHre~id~l 66 (264)
T KOG3032|consen 15 NAKKKDTRIDSPLAKYNESGQLVCRVCNVPIK-PSLWDVHVNSKKHREAIDSL 66 (264)
T ss_pred hccCcccccccHhhccCCCCCeeEEEecCccc-HHHHHHHhccHHHHHHHHHH
Confidence 44455655554444 48899999999999988 89999999999999988764
No 14
>PLN02748 tRNA dimethylallyltransferase
Probab=91.25 E-value=0.12 Score=52.41 Aligned_cols=34 Identities=24% Similarity=0.528 Sum_probs=31.1
Q ss_pred ceeeecccc-cccCccchhhhccchHHHHHHHHHH
Q psy1344 53 SYECKLCLT-LHNNEGSYLAHTQGKKHQANLARRA 86 (286)
Q Consensus 53 ~y~C~LC~t-~h~~e~sy~~H~qGkkH~~nL~rR~ 86 (286)
.|.|.+|.. +.+.+.....|++|++|+.+|++..
T Consensus 418 ~~~Ce~C~~~~~~G~~eW~~Hlksr~Hk~~~~~~~ 452 (468)
T PLN02748 418 QYVCEACGNKVLRGAHEWEQHKQGRGHRKRVQRLK 452 (468)
T ss_pred cccccCCCCcccCCHHHHHHHhcchHHHHHHhHHH
Confidence 589999998 8999999999999999999998764
No 15
>KOG0132|consensus
Probab=90.88 E-value=0.72 Score=49.66 Aligned_cols=14 Identities=7% Similarity=0.444 Sum_probs=8.0
Q ss_pred ceeeccCCCceEEE
Q psy1344 195 FWTHWNKDTKQFFL 208 (286)
Q Consensus 195 ~~t~WD~d~k~f~l 208 (286)
|+.|||.++++-|+
T Consensus 501 ~k~~wD~~lGVt~I 514 (894)
T KOG0132|consen 501 YKDYWDVELGVTYI 514 (894)
T ss_pred hhhhhhcccCeeEe
Confidence 55666666555443
No 16
>KOG1923|consensus
Probab=89.41 E-value=1.4 Score=47.41 Aligned_cols=26 Identities=12% Similarity=0.133 Sum_probs=17.4
Q ss_pred ccccccCccchhhhccchHHHHHHHH
Q psy1344 59 CLTLHNNEGSYLAHTQGKKHQANLAR 84 (286)
Q Consensus 59 C~t~h~~e~sy~~H~qGkkH~~nL~r 84 (286)
-..+|.-.++|..|+|=+--+.-|..
T Consensus 99 ~ifv~v~d~n~rvhlQye~t~lgld~ 124 (830)
T KOG1923|consen 99 DVFVGVPDENFRVHLQYEATHLGLDK 124 (830)
T ss_pred HHHhcchhhhhHHHhhhHHHHHhhhh
Confidence 34567778899999876655544443
No 17
>KOG4672|consensus
Probab=88.95 E-value=1.4 Score=44.63 Aligned_cols=7 Identities=43% Similarity=0.738 Sum_probs=2.9
Q ss_pred HHHHHHH
Q psy1344 80 ANLARRA 86 (286)
Q Consensus 80 ~nL~rR~ 86 (286)
..|.||.
T Consensus 106 ~~L~r~e 112 (487)
T KOG4672|consen 106 SHLQRRE 112 (487)
T ss_pred HHHHHHh
Confidence 3344443
No 18
>KOG0132|consensus
Probab=87.05 E-value=2 Score=46.45 Aligned_cols=23 Identities=43% Similarity=0.954 Sum_probs=11.0
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCC
Q psy1344 235 PPPPMLPPPPPPQMMGPPPPPPG 257 (286)
Q Consensus 235 ~pp~~~~pPPpPp~~~~~PPPPP 257 (286)
+||++.+.+|+|+++.+-+|.++
T Consensus 612 ppPgf~PnpPpP~~~Pg~np~~p 634 (894)
T KOG0132|consen 612 PPPGFVPNPPPPPLRPGYNPYPP 634 (894)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCC
Confidence 55665444444455444443333
No 19
>KOG1830|consensus
Probab=85.02 E-value=2.8 Score=42.67 Aligned_cols=19 Identities=16% Similarity=0.142 Sum_probs=8.6
Q ss_pred ccchhhhccchHHHHHHHH
Q psy1344 66 EGSYLAHTQGKKHQANLAR 84 (286)
Q Consensus 66 e~sy~~H~qGkkH~~nL~r 84 (286)
.-||-=-+|-+|-..-.++
T Consensus 153 dPsyFFDLWKekmLqdted 171 (518)
T KOG1830|consen 153 DPSYFFDLWKEKMLQDTED 171 (518)
T ss_pred CcHHHHHHHHHHHHHHHHH
Confidence 3445444554444444333
No 20
>KOG3454|consensus
Probab=84.20 E-value=0.45 Score=42.40 Aligned_cols=32 Identities=28% Similarity=0.512 Sum_probs=26.4
Q ss_pred ceeeecccccccC--ccchhhhccchHHHHHHHH
Q psy1344 53 SYECKLCLTLHNN--EGSYLAHTQGKKHQANLAR 84 (286)
Q Consensus 53 ~y~C~LC~t~h~~--e~sy~~H~qGkkH~~nL~r 84 (286)
+|-|.-|.|..++ .+.=..|..|+||..|.+.
T Consensus 3 RYyCDYCdt~LthDslsvRK~H~~GrkH~~nvk~ 36 (165)
T KOG3454|consen 3 RYYCDYCDTYLTHDSLSVRKTHCGGRKHKDNVKD 36 (165)
T ss_pred cchhhhhhhhhhcccHHHHHhhhhhHHHHHHHHH
Confidence 6999999976555 4566679999999999887
No 21
>KOG4722|consensus
Probab=81.24 E-value=0.66 Score=47.25 Aligned_cols=33 Identities=33% Similarity=0.583 Sum_probs=29.6
Q ss_pred eeeecccccccCccchhhhccchHHHHHHHHHH
Q psy1344 54 YECKLCLTLHNNEGSYLAHTQGKKHQANLARRA 86 (286)
Q Consensus 54 y~C~LC~t~h~~e~sy~~H~qGkkH~~nL~rR~ 86 (286)
-.|.||+++-.++--+-+|.-|+|||..|..-.
T Consensus 494 kqcslcnvlissevylfshvkgrkhqqal~e~~ 526 (672)
T KOG4722|consen 494 KQCSLCNVLISSEVYLFSHVKGRKHQQALNELL 526 (672)
T ss_pred hccchhhhhhhhhhhhhhhhcchhHHHHHHHHh
Confidence 479999999999999999999999999887653
No 22
>KOG0150|consensus
Probab=79.72 E-value=0.87 Score=44.40 Aligned_cols=36 Identities=31% Similarity=0.495 Sum_probs=30.9
Q ss_pred CCceeeecccccc-cCccchhhhccchHHHHHHHHHH
Q psy1344 51 LGSYECKLCLTLH-NNEGSYLAHTQGKKHQANLARRA 86 (286)
Q Consensus 51 ~G~y~C~LC~t~h-~~e~sy~~H~qGkkH~~nL~rR~ 86 (286)
.|.+-|..|.++. +|--|.--|-+||+|+.||++|.
T Consensus 8 ~~kkfCdyCKiWi~dN~~Sv~~He~GkrHke~V~Kri 44 (336)
T KOG0150|consen 8 QPKKFCDYCKIWIKDNPASVRFHERGKRHKENVAKRI 44 (336)
T ss_pred ccchhhhhhhhhhcCChHHHHhHhhhhHHHHHHHHHH
Confidence 4788999999875 56778888999999999999983
No 23
>KOG1923|consensus
Probab=79.00 E-value=6.5 Score=42.57 Aligned_cols=12 Identities=42% Similarity=0.647 Sum_probs=6.5
Q ss_pred CCCCCCCCCccc
Q psy1344 219 SFRPPPSPSPAI 230 (286)
Q Consensus 219 ~~~~pp~pp~~~ 230 (286)
++..||+|++++
T Consensus 278 S~s~ppppap~p 289 (830)
T KOG1923|consen 278 SGSGPPPPAPLP 289 (830)
T ss_pred CCCCCCCCCCCC
Confidence 345556665554
No 24
>KOG3576|consensus
Probab=78.12 E-value=0.88 Score=42.51 Aligned_cols=47 Identities=32% Similarity=0.613 Sum_probs=33.5
Q ss_pred cCCCCCccccccCCC--ceeeecccccccCccchhhh---ccchHHHHHHHHHHH
Q psy1344 38 IDLNKDPYFMKNHLG--SYECKLCLTLHNNEGSYLAH---TQGKKHQANLARRAA 87 (286)
Q Consensus 38 idl~kDPY~~kNH~G--~y~C~LC~t~h~~e~sy~~H---~qGkkH~~nL~rR~~ 87 (286)
+||.+. +|.|+| -|.|.+|....+---|+.+| .-|-.||...+.|.+
T Consensus 159 fdlkrh---~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~ 210 (267)
T KOG3576|consen 159 FDLKRH---TRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRA 210 (267)
T ss_pred hhhhhh---hccccCccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhh
Confidence 566654 788999 49999998666555555555 558888888777643
No 25
>smart00500 SFM Splicing Factor Motif, present in Prp18 and Pr04.
Probab=78.05 E-value=1.8 Score=30.76 Aligned_cols=26 Identities=38% Similarity=0.670 Sum_probs=19.8
Q ss_pred cChhhhhHHHHHHHHHHhhhhcCCCC
Q psy1344 17 ASWSESNRDRRERLRQLALETIDLNK 42 (286)
Q Consensus 17 as~s~~n~~Rrerlr~La~e~idl~k 42 (286)
.-..|.+.+||+||++|..+.-++++
T Consensus 18 ~lFGE~~~~Rr~RL~~ll~~~~e~~~ 43 (44)
T smart00500 18 TLFGEDDQERRQRLRQLLIVQDELDK 43 (44)
T ss_pred eecCCChHHHHHHHHHHHHccccccc
Confidence 34568899999999999877644443
No 26
>PF08799 PRP4: pre-mRNA processing factor 4 (PRP4) like; InterPro: IPR014906 This small protein is found on PRP4 ribonuleoproteins. PRP4 is a U4/U6 small nuclear ribonucleoprotein that is involved in pre-mRNA processing. ; PDB: 1MZW_B 2DK4_A.
Probab=75.90 E-value=2.2 Score=28.10 Aligned_cols=16 Identities=56% Similarity=0.960 Sum_probs=12.1
Q ss_pred hhhhhHHHHHHHHHHh
Q psy1344 19 WSESNRDRRERLRQLA 34 (286)
Q Consensus 19 ~s~~n~~Rrerlr~La 34 (286)
..|++.+||+||++|.
T Consensus 15 FGE~~~~R~~RLr~l~ 30 (30)
T PF08799_consen 15 FGETDADRRERLRRLL 30 (30)
T ss_dssp TT--HHHHHHHHHHHH
T ss_pred hCCChHHHHHHHHHhC
Confidence 4688999999999984
No 27
>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=75.10 E-value=1.1 Score=27.23 Aligned_cols=20 Identities=20% Similarity=0.469 Sum_probs=19.2
Q ss_pred eeeecccccccCccchhhhc
Q psy1344 54 YECKLCLTLHNNEGSYLAHT 73 (286)
Q Consensus 54 y~C~LC~t~h~~e~sy~~H~ 73 (286)
|+|..|...-.++..|.+|.
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~ 21 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHK 21 (27)
T ss_dssp EEETTTTEEESSHHHHHHHH
T ss_pred CCCCccCCccCChhHHHHHh
Confidence 79999999999999999996
No 28
>KOG1925|consensus
Probab=72.52 E-value=4.3 Score=42.48 Aligned_cols=24 Identities=29% Similarity=0.142 Sum_probs=16.6
Q ss_pred ccCCCceeeecccccccCccchhh
Q psy1344 48 KNHLGSYECKLCLTLHNNEGSYLA 71 (286)
Q Consensus 48 kNH~G~y~C~LC~t~h~~e~sy~~ 71 (286)
+..+|.|+-.|-+.....++-+-+
T Consensus 43 ~~Q~~~~~N~L~L~~~~I~~~~~A 66 (817)
T KOG1925|consen 43 RTQLVLYENALKLEDGDIEEAPGA 66 (817)
T ss_pred cchhhhhhhhhhhhcCChhccccc
Confidence 345678888887777766666654
No 29
>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=72.07 E-value=1.3 Score=25.88 Aligned_cols=21 Identities=19% Similarity=0.575 Sum_probs=19.1
Q ss_pred eeeecccccccCccchhhhcc
Q psy1344 54 YECKLCLTLHNNEGSYLAHTQ 74 (286)
Q Consensus 54 y~C~LC~t~h~~e~sy~~H~q 74 (286)
|+|..|...-.+..++.+|..
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~ 21 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMR 21 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHh
Confidence 799999999999999999853
No 30
>KOG2893|consensus
Probab=70.97 E-value=18 Score=34.82 Aligned_cols=13 Identities=31% Similarity=0.578 Sum_probs=7.7
Q ss_pred CcccCCCCCCCCC
Q psy1344 227 SPAIRNNLPPPPM 239 (286)
Q Consensus 227 p~~~~~~~~pp~~ 239 (286)
|+++..+.+|+||
T Consensus 143 pp~p~~~~~p~gm 155 (341)
T KOG2893|consen 143 PPMPSGMMPPRGM 155 (341)
T ss_pred CCCCCCCCCCCCC
Confidence 4455555666666
No 31
>smart00355 ZnF_C2H2 zinc finger.
Probab=68.28 E-value=1.6 Score=24.88 Aligned_cols=21 Identities=19% Similarity=0.547 Sum_probs=18.9
Q ss_pred eeeecccccccCccchhhhcc
Q psy1344 54 YECKLCLTLHNNEGSYLAHTQ 74 (286)
Q Consensus 54 y~C~LC~t~h~~e~sy~~H~q 74 (286)
|+|..|.....+..++..|..
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH
Confidence 689999999999999998865
No 32
>PF06346 Drf_FH1: Formin Homology Region 1; InterPro: IPR009408 This domain is found in some of the Diaphanous related formins (Drfs) []. It consists of low complexity repeats of around 12 residues.
Probab=68.11 E-value=16 Score=32.40 Aligned_cols=8 Identities=63% Similarity=1.099 Sum_probs=3.1
Q ss_pred CCCCCCCC
Q psy1344 252 PPPPPGLF 259 (286)
Q Consensus 252 ~PPPPP~~ 259 (286)
++++++++
T Consensus 84 IPPPPPLP 91 (160)
T PF06346_consen 84 IPPPPPLP 91 (160)
T ss_pred CCCCCCCC
Confidence 33333333
No 33
>KOG1074|consensus
Probab=65.64 E-value=2.8 Score=45.69 Aligned_cols=32 Identities=28% Similarity=0.624 Sum_probs=29.2
Q ss_pred ccccCCCc--eeeecccccccCccchhhhccchH
Q psy1344 46 FMKNHLGS--YECKLCLTLHNNEGSYLAHTQGKK 77 (286)
Q Consensus 46 ~~kNH~G~--y~C~LC~t~h~~e~sy~~H~qGkk 77 (286)
-||.|.|- |.||+|.-..++.|++.+|..+-|
T Consensus 624 HyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHk 657 (958)
T KOG1074|consen 624 HYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHK 657 (958)
T ss_pred hhhcccCcCccccccccchhccccchhhcccccc
Confidence 68999993 999999999999999999988754
No 34
>KOG4849|consensus
Probab=62.89 E-value=28 Score=35.08 Aligned_cols=12 Identities=17% Similarity=0.227 Sum_probs=6.1
Q ss_pred cccccCccchhh
Q psy1344 60 LTLHNNEGSYLA 71 (286)
Q Consensus 60 ~t~h~~e~sy~~ 71 (286)
+||.++...++.
T Consensus 88 L~W~TTD~DL~~ 99 (498)
T KOG4849|consen 88 LLWYTTDADLLK 99 (498)
T ss_pred eeEEeccHHHHH
Confidence 345555555544
No 35
>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=61.18 E-value=3 Score=23.64 Aligned_cols=20 Identities=15% Similarity=0.526 Sum_probs=16.2
Q ss_pred eeeecccccccCccchhhhc
Q psy1344 54 YECKLCLTLHNNEGSYLAHT 73 (286)
Q Consensus 54 y~C~LC~t~h~~e~sy~~H~ 73 (286)
|.|.+|...-.+...+.+|.
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~ 20 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHM 20 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHH
Confidence 78999999999999998884
No 36
>KOG2893|consensus
Probab=59.96 E-value=29 Score=33.44 Aligned_cols=17 Identities=24% Similarity=0.532 Sum_probs=9.0
Q ss_pred eecccccccCccchhhh
Q psy1344 56 CKLCLTLHNNEGSYLAH 72 (286)
Q Consensus 56 C~LC~t~h~~e~sy~~H 72 (286)
|=.|+--.-.|..++.|
T Consensus 13 cwycnrefddekiliqh 29 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQH 29 (341)
T ss_pred eeecccccchhhhhhhh
Confidence 55555555555555554
No 37
>PTZ00448 hypothetical protein; Provisional
Probab=59.31 E-value=5.2 Score=39.93 Aligned_cols=35 Identities=20% Similarity=0.310 Sum_probs=32.5
Q ss_pred CceeeecccccccCccchhhhccchHHHHHHHHHH
Q psy1344 52 GSYECKLCLTLHNNEGSYLAHTQGKKHQANLARRA 86 (286)
Q Consensus 52 G~y~C~LC~t~h~~e~sy~~H~qGkkH~~nL~rR~ 86 (286)
+.|.|.+|.+...+...+-.|..--=|..||+||.
T Consensus 313 ~~~tC~~C~v~F~~~~~qR~H~KSDwHrYNLKRkl 347 (373)
T PTZ00448 313 NMLLCRKCNIQLMDHNAFKQHYRSEWHIFNTKRNA 347 (373)
T ss_pred CCccccccccccCCHHHHHHHhhhhHHHHHHHHHh
Confidence 46999999999999999999999999999999995
No 38
>PF05477 SURF2: Surfeit locus protein 2 (SURF2); InterPro: IPR008833 Surfeit locus protein 2 is part of a group of at least six sequence unrelated genes (Surf-1 to Surf-6). The six Surfeit genes have been classified as housekeeping genes, being expressed in all tissue types tested and not containing a TATA box in their promoter region. The exact function of SURF2 is unknown [].
Probab=58.60 E-value=9.8 Score=35.91 Aligned_cols=62 Identities=21% Similarity=0.304 Sum_probs=43.5
Q ss_pred HHHHHHHHh--hhhcCCC-CCccccc--cCCCceeeecccccccC-ccchhhhccchHHHHHHHHHHH
Q psy1344 26 RRERLRQLA--LETIDLN-KDPYFMK--NHLGSYECKLCLTLHNN-EGSYLAHTQGKKHQANLARRAA 87 (286)
Q Consensus 26 Rrerlr~La--~e~idl~-kDPY~~k--NH~G~y~C~LC~t~h~~-e~sy~~H~qGkkH~~nL~rR~~ 87 (286)
|-++.++|+ ...+|+. =.|||+- +|-..+-|+|=+++.|- +...++|++||+.+..|..-..
T Consensus 47 ~gKKy~~l~~~~~~~d~~~yeP~ivps~~~~~~LfCkLT~~~iNk~pe~V~rHv~GKRf~kaLek~ee 114 (244)
T PF05477_consen 47 RGKKYQRLIRAKPEFDFSKYEPHIVPSTKNPHKLFCKLTGRHINKSPEHVERHVNGKRFQKALEKYEE 114 (244)
T ss_pred ccHHHHHHHhcccCCChHhcCCccccccCCCceeEEechHhHhccCHHHHHHHhhhHHHHHHHHHHHH
Confidence 445566663 2335533 3688875 34457899988777664 5778999999999999998743
No 39
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=58.45 E-value=2.5 Score=31.91 Aligned_cols=35 Identities=17% Similarity=0.443 Sum_probs=25.7
Q ss_pred ccCCC-ceeeecccccccCccchhhhccchHHHHHH
Q psy1344 48 KNHLG-SYECKLCLTLHNNEGSYLAHTQGKKHQANL 82 (286)
Q Consensus 48 kNH~G-~y~C~LC~t~h~~e~sy~~H~qGkkH~~nL 82 (286)
+.-++ .+.|.+|...-.+...+..|+..+.|+...
T Consensus 44 ~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~~H~~~~ 79 (100)
T PF12756_consen 44 RKKVKESFRCPYCNKTFRSREALQEHMRSKHHKKRN 79 (100)
T ss_dssp -----SSEEBSSSS-EESSHHHHHHHHHHTTTTC-S
T ss_pred ccccCCCCCCCccCCCCcCHHHHHHHHcCccCCCcc
Confidence 33344 599999999999999999999999887753
No 40
>KOG1925|consensus
Probab=57.56 E-value=19 Score=37.89 Aligned_cols=15 Identities=40% Similarity=0.981 Sum_probs=7.4
Q ss_pred CCCCCCCCCCCCCCCC
Q psy1344 248 MMGPPPPPPGLFGNMP 263 (286)
Q Consensus 248 ~~~~~PPPPP~~~~~~ 263 (286)
+.+|+|||||. |..|
T Consensus 245 L~~GvPPPPP~-G~~P 259 (817)
T KOG1925|consen 245 LLSGVPPPPPK-GPFP 259 (817)
T ss_pred hhcCCCCCCCC-CCCC
Confidence 44555555554 3444
No 41
>KOG4849|consensus
Probab=56.52 E-value=30 Score=34.93 Aligned_cols=39 Identities=10% Similarity=0.347 Sum_probs=22.0
Q ss_pred cccccccCCCCcccceEEeecCcccccccc-CCCcccccC
Q psy1344 153 SAYEQRIEPPDRKWQYLLFAAEPYETIAFK-VPSREVDKG 191 (286)
Q Consensus 153 S~~EqrvE~~dkk~qYLliAaEPYEtIafk-iPn~eId~~ 191 (286)
.-||-+..--.|.|-.|++-.+-...-..+ +|-++|--.
T Consensus 113 KFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ 152 (498)
T KOG4849|consen 113 KFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQ 152 (498)
T ss_pred hhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCC
Confidence 457777777777766666654443322233 366666433
No 42
>KOG2236|consensus
Probab=55.60 E-value=46 Score=34.39 Aligned_cols=13 Identities=38% Similarity=0.549 Sum_probs=7.7
Q ss_pred cccCCCcccccCC
Q psy1344 180 AFKVPSREVDKGD 192 (286)
Q Consensus 180 afkiPn~eId~~~ 192 (286)
..+||++|+|.++
T Consensus 311 DeE~p~~e~dfSD 323 (483)
T KOG2236|consen 311 DEEIPPREQDFSD 323 (483)
T ss_pred cccCChhhhccch
Confidence 4556666666553
No 43
>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=53.04 E-value=4.5 Score=24.94 Aligned_cols=16 Identities=38% Similarity=0.920 Sum_probs=12.6
Q ss_pred cccCCC--ceeeeccccc
Q psy1344 47 MKNHLG--SYECKLCLTL 62 (286)
Q Consensus 47 ~kNH~G--~y~C~LC~t~ 62 (286)
||.|+| .|.|.+|.-.
T Consensus 6 ~~~H~~~k~~~C~~C~k~ 23 (26)
T PF13465_consen 6 MRTHTGEKPYKCPYCGKS 23 (26)
T ss_dssp HHHHSSSSSEEESSSSEE
T ss_pred hhhcCCCCCCCCCCCcCe
Confidence 567888 4999999754
No 44
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=52.87 E-value=4.3 Score=24.06 Aligned_cols=20 Identities=20% Similarity=0.501 Sum_probs=14.8
Q ss_pred eeeecccccccCccchhhhcc
Q psy1344 54 YECKLCLTLHNNEGSYLAHTQ 74 (286)
Q Consensus 54 y~C~LC~t~h~~e~sy~~H~q 74 (286)
|.|.+|...-+ +..+.+|++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~ 20 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLK 20 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHH
Confidence 78999998887 888888854
No 45
>KOG3608|consensus
Probab=52.67 E-value=4.3 Score=40.70 Aligned_cols=26 Identities=27% Similarity=0.595 Sum_probs=24.3
Q ss_pred cccCCCceeeecccccccCccchhhh
Q psy1344 47 MKNHLGSYECKLCLTLHNNEGSYLAH 72 (286)
Q Consensus 47 ~kNH~G~y~C~LC~t~h~~e~sy~~H 72 (286)
++||+..|.|.||.+..-.-+|+..|
T Consensus 257 v~rHvn~ykCplCdmtc~~~ssL~~H 282 (467)
T KOG3608|consen 257 VVRHVNCYKCPLCDMTCSSASSLTTH 282 (467)
T ss_pred HHHhhhcccccccccCCCChHHHHHH
Confidence 68999999999999999999999888
No 46
>KOG3408|consensus
Probab=47.22 E-value=14 Score=31.85 Aligned_cols=36 Identities=17% Similarity=0.283 Sum_probs=32.3
Q ss_pred CCCceeeecccccccCccchhhhccchHHHHHHHHH
Q psy1344 50 HLGSYECKLCLTLHNNEGSYLAHTQGKKHQANLARR 85 (286)
Q Consensus 50 H~G~y~C~LC~t~h~~e~sy~~H~qGkkH~~nL~rR 85 (286)
-.|.+.|-+|.-...++.....|.-+|.|...|+.-
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~ktK~HKrRvK~l 89 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKTKVHKRRVKEL 89 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhccHHHHHHHhc
Confidence 467899999999999999999999999998877763
No 47
>PF11281 DUF3083: Protein of unknown function (DUF3083); InterPro: IPR021433 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=45.70 E-value=29 Score=33.97 Aligned_cols=58 Identities=19% Similarity=0.314 Sum_probs=39.3
Q ss_pred cCCCccceeeccccccccCCCCcccceEEeecCccccccccCCCcccccCCCcceeeccCCCceEEEEEEeecCCC
Q psy1344 142 ADDVFPRHRFMSAYEQRIEPPDRKWQYLLFAAEPYETIAFKVPSREVDKGDTKFWTHWNKDTKQFFLQFSFRNESK 217 (286)
Q Consensus 142 ~d~~~P~~R~mS~~EqrvE~~dkk~qYLliAaEPYEtIafkiPn~eId~~~~~~~t~WD~d~k~f~lQ~~fk~~~~ 217 (286)
+-|+.|..|- |.+|+ +....+.+-|+|.+-+ ++..+.++||.|.-+=+|+|.|.....
T Consensus 214 ANGl~PiVRn-sk~d~------------~~~~~Elqmlgfdp~~-----~~~q~~~~w~~~kLVet~~fvi~A~~~ 271 (316)
T PF11281_consen 214 ANGLTPIVRN-SKDDQ------------VEGNGELQMLGFDPNA-----EEPQFICHWDADKLVETVHFVIVAGKQ 271 (316)
T ss_pred hcCCcceeec-ccccc------------ccccceeEEEecCccc-----CCcceeeeeccceeeeeEEEEEEecCc
Confidence 3466777774 44443 1234455566776544 345799999999999999999986553
No 48
>COG5136 U1 snRNP-specific protein C [RNA processing and modification]
Probab=42.24 E-value=7.5 Score=35.04 Aligned_cols=33 Identities=21% Similarity=0.366 Sum_probs=26.5
Q ss_pred CceeeecccccccCc--cchhhhccchHHHHHHHH
Q psy1344 52 GSYECKLCLTLHNNE--GSYLAHTQGKKHQANLAR 84 (286)
Q Consensus 52 G~y~C~LC~t~h~~e--~sy~~H~qGkkH~~nL~r 84 (286)
-+|-|..|..+.++. +.-.+|..|++|..+.++
T Consensus 2 pRY~CeyC~~~LthD~lsvRk~H~~G~~H~~~~~d 36 (188)
T COG5136 2 PRYFCEYCNKMLTHDRLSVRKMHCGGAKHGLMRKD 36 (188)
T ss_pred cchHHHHHHHHHhccHHHHHHHhhhhHHHHHHHHH
Confidence 368999999876665 556679999999988776
No 49
>KOG3623|consensus
Probab=39.38 E-value=13 Score=40.57 Aligned_cols=33 Identities=33% Similarity=0.652 Sum_probs=29.1
Q ss_pred cccCCC--ceeeecccccccCccchhhhccchHHH
Q psy1344 47 MKNHLG--SYECKLCLTLHNNEGSYLAHTQGKKHQ 79 (286)
Q Consensus 47 ~kNH~G--~y~C~LC~t~h~~e~sy~~H~qGkkH~ 79 (286)
+|-|+| -|+|.-|.....+-|||-+|+.-||--
T Consensus 301 lRIHSGEKPfeCpnCkKRFSHSGSySSHmSSKKCI 335 (1007)
T KOG3623|consen 301 LRIHSGEKPFECPNCKKRFSHSGSYSSHMSSKKCI 335 (1007)
T ss_pred heeecCCCCcCCcccccccccCCcccccccccchh
Confidence 456778 399999999999999999999999865
No 50
>KOG0703|consensus
Probab=37.67 E-value=30 Score=33.57 Aligned_cols=49 Identities=31% Similarity=0.481 Sum_probs=38.9
Q ss_pred hhhHHHHHHHHHHhhhhcC------CCCCccccccCCCceeeecccccccCccch
Q psy1344 21 ESNRDRRERLRQLALETID------LNKDPYFMKNHLGSYECKLCLTLHNNEGSY 69 (286)
Q Consensus 21 ~~n~~Rrerlr~La~e~id------l~kDPY~~kNH~G~y~C~LC~t~h~~e~sy 69 (286)
..+.+-+.||++|+.+-.+ =+++|=.--=.+|-|.|--|-.+|-+.|-.
T Consensus 7 ~~~~~~~~~l~~Ll~~~~N~~CADC~a~~P~WaSwnlGvFiC~~C~giHR~lg~h 61 (287)
T KOG0703|consen 7 GSNERNKRRLRELLREPDNKVCADCGAKGPRWASWNLGVFICLRCAGIHRSLGVH 61 (287)
T ss_pred cccchHHHHHHHHHcCcccCcccccCCCCCCeEEeecCeEEEeecccccccccch
Confidence 4455668899999998754 566786665679999999999999999853
No 51
>PF02084 Bindin: Bindin; InterPro: IPR000775 Bindin, the major protein component of the acrosome granule of sea urchin sperm, mediates species-specific adhesion of sperm to the egg surface during fertilisation [, ]. The protein coats the acrosomal process after externalisation by the acrosome reaction; it binds to sulphated, fucose-containing polysaccharides on the vitelline-layer receptor proteoglycans that cover the egg plasma membrane. Bindins from different genera show high levels of sequence similarity in both the mature bindin domain and in the probindin precursor region. The most highly conserved region is a 42-residue segment in the central portion of the mature bindin protein. This domain may be responsible for conserved functions of bindin, while the more highly divergent flanking regions may be responsible for its species-specific properties [].; GO: 0007342 fusion of sperm to egg plasma membrane
Probab=35.91 E-value=29 Score=32.73 Aligned_cols=42 Identities=36% Similarity=0.553 Sum_probs=25.5
Q ss_pred hhHHHHHHHHHHhhhh-cCCC---CCccccccCCCceeeecccccccCccchhhhccchHHHHHHHHH
Q psy1344 22 SNRDRRERLRQLALET-IDLN---KDPYFMKNHLGSYECKLCLTLHNNEGSYLAHTQGKKHQANLARR 85 (286)
Q Consensus 22 ~n~~Rrerlr~La~e~-idl~---kDPY~~kNH~G~y~C~LC~t~h~~e~sy~~H~qGkkH~~nL~rR 85 (286)
++..--+.+|-++--| |||- .||| -||. +|||+ +|+.||+..
T Consensus 101 ISAKvm~~ikavLgaTKiDLPVDINDPY----DlGL---------------LLRhL---RHHSNLLAn 146 (238)
T PF02084_consen 101 ISAKVMEDIKAVLGATKIDLPVDINDPY----DLGL---------------LLRHL---RHHSNLLAN 146 (238)
T ss_pred ccHHHHHHHHHHhcccccccccccCChh----hHHH---------------HHHHH---HHHHHHHhh
Confidence 3555667777775544 5532 3898 3443 56775 577777765
No 52
>PF04988 AKAP95: A-kinase anchoring protein 95 (AKAP95); InterPro: IPR007071 A-kinase (or PKA)-anchoring protein AKAP95 is implicated in mitotic chromosome condensation by acting as a targeting molecule for the condensin complex. The protein contains two zinc fingers which are thought to mediate the binding of AKAP95 to DNA [].; GO: 0003677 DNA binding, 0005634 nucleus
Probab=33.72 E-value=21 Score=32.01 Aligned_cols=32 Identities=22% Similarity=0.355 Sum_probs=28.8
Q ss_pred eeeecccccccCccchhhhccchHHHHHHHHH
Q psy1344 54 YECKLCLTLHNNEGSYLAHTQGKKHQANLARR 85 (286)
Q Consensus 54 y~C~LC~t~h~~e~sy~~H~qGkkH~~nL~rR 85 (286)
|.|.+|...--++.....|++++-|+.-|..-
T Consensus 1 F~Cs~CKfrtf~~~ei~~HleS~~H~E~~~~i 32 (165)
T PF04988_consen 1 FTCSFCKFRTFEEKEIEKHLESKFHKETLKYI 32 (165)
T ss_pred CccceeeeecccHHHHHHHHccchHHHHHHHH
Confidence 57999999999999999999999999777654
No 53
>KOG0717|consensus
Probab=33.39 E-value=24 Score=36.53 Aligned_cols=33 Identities=27% Similarity=0.443 Sum_probs=31.2
Q ss_pred eeeecccccccCccchhhhccchHHHHHHHHHH
Q psy1344 54 YECKLCLTLHNNEGSYLAHTQGKKHQANLARRA 86 (286)
Q Consensus 54 y~C~LC~t~h~~e~sy~~H~qGkkH~~nL~rR~ 86 (286)
|.|..|+-..-++-...-|-+-|||..||+.-.
T Consensus 293 lyC~vCnKsFKseKq~kNHEnSKKHkenv~eLr 325 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENSKKHKENVAELR 325 (508)
T ss_pred eEEeeccccccchHHHHhhHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999843
No 54
>KOG2675|consensus
Probab=30.13 E-value=37 Score=34.96 Aligned_cols=9 Identities=22% Similarity=0.095 Sum_probs=3.8
Q ss_pred HHHHHHHHH
Q psy1344 79 QANLARRAA 87 (286)
Q Consensus 79 ~~nL~rR~~ 87 (286)
|.+++.+|.
T Consensus 89 ~R~~L~~A~ 97 (480)
T KOG2675|consen 89 QRAFLWVAS 97 (480)
T ss_pred HHHHHHHHH
Confidence 344444443
No 55
>PHA00616 hypothetical protein
Probab=30.10 E-value=14 Score=26.36 Aligned_cols=20 Identities=20% Similarity=0.554 Sum_probs=18.2
Q ss_pred eeeecccccccCccchhhhc
Q psy1344 54 YECKLCLTLHNNEGSYLAHT 73 (286)
Q Consensus 54 y~C~LC~t~h~~e~sy~~H~ 73 (286)
|.|..|+..-.+..++.+|+
T Consensus 2 YqC~~CG~~F~~~s~l~~H~ 21 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHL 21 (44)
T ss_pred CccchhhHHHhhHHHHHHHH
Confidence 78999999999999999884
No 56
>PF14749 Acyl-CoA_ox_N: Acyl-coenzyme A oxidase N-terminal; PDB: 2FON_A 1W07_B 1IS2_B 2DDH_A.
Probab=29.29 E-value=24 Score=28.68 Aligned_cols=36 Identities=19% Similarity=0.278 Sum_probs=21.1
Q ss_pred hhhhHHHHHHHHHHhhhhcCCCC-CccccccCCCcee
Q psy1344 20 SESNRDRRERLRQLALETIDLNK-DPYFMKNHLGSYE 55 (286)
Q Consensus 20 s~~n~~Rrerlr~La~e~idl~k-DPY~~kNH~G~y~ 55 (286)
++.+.+||++|.++....-.+.+ .++++.+|-..|+
T Consensus 12 g~~~~~~rr~i~~~i~~dP~f~~~~~~~~lsr~e~~~ 48 (125)
T PF14749_consen 12 GEEKLERRREIESLIESDPIFSKPPDRYFLSREERYE 48 (125)
T ss_dssp SHHHHHHHHHHHHHHHT-GGG---TTGGGS-HHHHHH
T ss_pred CHHHHHHHHHHHHHHhhChhhhcCCCcccCCHHHHHH
Confidence 35678888899888765544555 5666666555443
No 57
>PF05518 Totivirus_coat: Totivirus coat protein; InterPro: IPR008871 This family of proteins contain the coat proteins of the Totiviruses.
Probab=27.16 E-value=2.1e+02 Score=31.44 Aligned_cols=12 Identities=42% Similarity=0.808 Sum_probs=4.8
Q ss_pred CCCCCCCCCCCC
Q psy1344 252 PPPPPGLFGNMP 263 (286)
Q Consensus 252 ~PPPPP~~~~~~ 263 (286)
++|||.++++.+
T Consensus 712 ~~ppp~~~~g~~ 723 (759)
T PF05518_consen 712 APPPPAPPPGPP 723 (759)
T ss_pred CCCCCCCCCCCC
Confidence 344444443333
No 58
>PF08315 cwf18: cwf18 pre-mRNA splicing factor ; InterPro: IPR013169 The cwf18 family is involved in mRNA splicing. It has been isolated as a subcomplex of the splicosome in Schizosaccharomyces pombe (Fission yeast) [].
Probab=26.26 E-value=51 Score=27.84 Aligned_cols=20 Identities=35% Similarity=0.503 Sum_probs=16.5
Q ss_pred cChhhhhHHHHHHHHHHhhh
Q psy1344 17 ASWSESNRDRRERLRQLALE 36 (286)
Q Consensus 17 as~s~~n~~Rrerlr~La~e 36 (286)
+|-+++..+|++||..|..-
T Consensus 1 ~sLee~a~~RK~RL~~Lr~~ 20 (129)
T PF08315_consen 1 GSLEEAAAERKERLAALRSK 20 (129)
T ss_pred CCHHHHHHHHHHHHHHHHcc
Confidence 46788999999999999443
No 59
>PHA00626 hypothetical protein
Probab=23.85 E-value=40 Score=25.55 Aligned_cols=22 Identities=18% Similarity=0.320 Sum_probs=17.2
Q ss_pred ccccCCCceeeecccccccCcc
Q psy1344 46 FMKNHLGSYECKLCLTLHNNEG 67 (286)
Q Consensus 46 ~~kNH~G~y~C~LC~t~h~~e~ 67 (286)
+.|.|+..|+|+-|+...+-..
T Consensus 16 ~cr~~snrYkCkdCGY~ft~~~ 37 (59)
T PHA00626 16 TMRGWSDDYVCCDCGYNDSKDA 37 (59)
T ss_pred eecccCcceEcCCCCCeechhh
Confidence 3568889999999998776543
No 60
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=22.41 E-value=29 Score=31.84 Aligned_cols=44 Identities=25% Similarity=0.465 Sum_probs=0.0
Q ss_pred cccccC-CC-ceeeecccc-cccCccchhhhccchHHHHHHHHHHHH
Q psy1344 45 YFMKNH-LG-SYECKLCLT-LHNNEGSYLAHTQGKKHQANLARRAAK 88 (286)
Q Consensus 45 Y~~kNH-~G-~y~C~LC~t-~h~~e~sy~~H~qGkkH~~nL~rR~~~ 88 (286)
|+||=| || .|.|.+|+- ...--..|.+|-+..+|+.-|+.-+..
T Consensus 91 WLYKLhGL~~ey~CEICGN~~Y~GrkaFekHF~E~rH~~GlrcLGI~ 137 (196)
T PF11931_consen 91 WLYKLHGLGVEYKCEICGNQSYKGRKAFEKHFQEWRHAYGLRCLGIP 137 (196)
T ss_dssp -----------------------------------------------
T ss_pred HHHHHhCCCCeeeeEeCCCcceecHHHHHHhcChhHHHccChhcCCC
Confidence 467776 33 599999974 444566799999999999999887543
No 61
>PF14968 CCDC84: Coiled coil protein 84
Probab=22.04 E-value=49 Score=32.67 Aligned_cols=27 Identities=30% Similarity=0.501 Sum_probs=23.8
Q ss_pred eecccccccCccchhhhccchHHHHHHHHH
Q psy1344 56 CKLCLTLHNNEGSYLAHTQGKKHQANLARR 85 (286)
Q Consensus 56 C~LC~t~h~~e~sy~~H~qGkkH~~nL~rR 85 (286)
|.+|...|.- -.+|.=+++||.+|..=
T Consensus 2 C~vCr~~h~~---gr~H~Y~~~Hq~~L~~~ 28 (336)
T PF14968_consen 2 CEVCRRNHDQ---GRRHVYSPKHQKSLSAF 28 (336)
T ss_pred cchhhCcccc---cCCCccCHHHHHHHHHH
Confidence 9999999887 67899999999998764
No 62
>PRK07080 hypothetical protein; Validated
Probab=21.98 E-value=74 Score=31.31 Aligned_cols=13 Identities=46% Similarity=0.951 Sum_probs=11.1
Q ss_pred hcCCCCCcccccc
Q psy1344 37 TIDLNKDPYFMKN 49 (286)
Q Consensus 37 ~idl~kDPY~~kN 49 (286)
.||+..||||.|+
T Consensus 213 ~ve~AnDPFF~~~ 225 (317)
T PRK07080 213 EIDLANDPFFGRG 225 (317)
T ss_pred eEeecCCcccccc
Confidence 3789999999975
No 63
>TIGR00316 cdhC CO dehydrogenase/CO-methylating acetyl-CoA synthase complex, beta subunit. Nomenclature follows the description for Methanosarcina thermophila. The CO-methylating acetyl-CoA synthase is considered the defining enzyme of the Wood-Ljungdahl pathway, used for acetate catabolism by sulfate reducing bacteria but for acetate biosynthesis by acetogenic bacteria such as oorella thermoacetica (f. Clostridium thermoaceticum).
Probab=21.90 E-value=54 Score=33.70 Aligned_cols=29 Identities=34% Similarity=0.660 Sum_probs=21.9
Q ss_pred hhhHHHHHHHHHHhhhhcCCCCCccccccCCCceeeecccc
Q psy1344 21 ESNRDRRERLRQLALETIDLNKDPYFMKNHLGSYECKLCLT 61 (286)
Q Consensus 21 ~~n~~Rrerlr~La~e~idl~kDPY~~kNH~G~y~C~LC~t 61 (286)
+.=..|-+|+|.|.-|.+|.- |-|.||-.
T Consensus 165 ~~y~~RD~R~~~l~de~Vd~f------------Y~C~lCQs 193 (458)
T TIGR00316 165 EIYEKRDERTKALSDEDVDVF------------YGCVMCQS 193 (458)
T ss_pred HHHHHHHHHhhhccccCccce------------ecceeccc
Confidence 444578889998887776653 99999965
No 64
>KOG1280|consensus
Probab=21.73 E-value=34 Score=34.25 Aligned_cols=22 Identities=23% Similarity=0.484 Sum_probs=20.1
Q ss_pred ceeeecccccccCccchhhhcc
Q psy1344 53 SYECKLCLTLHNNEGSYLAHTQ 74 (286)
Q Consensus 53 ~y~C~LC~t~h~~e~sy~~H~q 74 (286)
+|.|..|.++|.+|..++.|..
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~ 100 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVL 100 (381)
T ss_pred cccCCcccccccchhHHHHHhh
Confidence 7999999999999999998843
No 65
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=21.61 E-value=24 Score=26.26 Aligned_cols=15 Identities=33% Similarity=0.742 Sum_probs=12.2
Q ss_pred ceeeecccccccCcc
Q psy1344 53 SYECKLCLTLHNNEG 67 (286)
Q Consensus 53 ~y~C~LC~t~h~~e~ 67 (286)
+|.|.||++.|...+
T Consensus 7 ry~CDLCn~~~p~~~ 21 (57)
T PF14445_consen 7 RYSCDLCNSSHPISE 21 (57)
T ss_pred hHhHHhhcccCcHHH
Confidence 699999999886543
No 66
>PHA00733 hypothetical protein
Probab=21.18 E-value=32 Score=28.98 Aligned_cols=22 Identities=32% Similarity=0.594 Sum_probs=18.5
Q ss_pred ceeeecccccccCccchhhhcc
Q psy1344 53 SYECKLCLTLHNNEGSYLAHTQ 74 (286)
Q Consensus 53 ~y~C~LC~t~h~~e~sy~~H~q 74 (286)
.|.|..|...-.+..++.+|..
T Consensus 73 Py~C~~Cgk~Fss~s~L~~H~r 94 (128)
T PHA00733 73 PYVCPLCLMPFSSSVSLKQHIR 94 (128)
T ss_pred CccCCCCCCcCCCHHHHHHHHh
Confidence 5999999999888888887765
No 67
>KOG1922|consensus
Probab=20.92 E-value=1.7e+02 Score=31.54 Aligned_cols=46 Identities=43% Similarity=0.802 Sum_probs=0.0
Q ss_pred CCCCCCC----CCCCCCCCCCCCCC----CCCCCCCCCCCCCCCCCCCCCCCCC
Q psy1344 240 LPPPPPP----QMMGPPPPPPGLFG----NMPPPPPHMGGMAPTLAMPPPPPPP 285 (286)
Q Consensus 240 ~~pPPpP----p~~~~~PPPPP~~~----~~~~pPPp~~g~~~~~~~P~~pp~~ 285 (286)
.++|+.+ ++.+..++++++++ +.++||||+.+.+.+..++++++.+
T Consensus 316 ~~~p~~~~~~l~~~~~~s~~~~~~~~~~~~~p~pppppp~~~~~~~~~~~~~~~ 369 (833)
T KOG1922|consen 316 PPPPPILTPKLPALISPTPPPPPPPPNNSGGPPPPPPPPGLALPSPPPPLPPLP 369 (833)
T ss_pred CCCCCCCCcccccccCCCCCCCCCCCccCCCCCCCCCCCCccccCCCCCCCCCc
No 68
>KOG4477|consensus
Probab=20.40 E-value=35 Score=31.56 Aligned_cols=18 Identities=17% Similarity=0.501 Sum_probs=15.9
Q ss_pred ccccCCCceeeecccccc
Q psy1344 46 FMKNHLGSYECKLCLTLH 63 (286)
Q Consensus 46 ~~kNH~G~y~C~LC~t~h 63 (286)
-|||....|.|.+|.+.-
T Consensus 31 TFrNsAeAfkC~vCdvRK 48 (228)
T KOG4477|consen 31 TFRNSAEAFKCFVCDVRK 48 (228)
T ss_pred eecchhhhhheeeecccc
Confidence 489999999999999864
No 69
>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=20.38 E-value=77 Score=25.36 Aligned_cols=37 Identities=16% Similarity=0.250 Sum_probs=27.6
Q ss_pred CceeeecccccccCccchhhhccchHHHH-HHHHHHHHH
Q psy1344 52 GSYECKLCLTLHNNEGSYLAHTQGKKHQA-NLARRAAKE 89 (286)
Q Consensus 52 G~y~C~LC~t~h~~e~sy~~H~qGkkH~~-nL~rR~~~e 89 (286)
....|..|.+.-.. ++..+|+..+-|.. ...+++..+
T Consensus 10 ~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~ 47 (109)
T PF12013_consen 10 RVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVE 47 (109)
T ss_pred CEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHH
Confidence 45899999987766 89999999987776 444544333
No 70
>KOG0272|consensus
Probab=20.35 E-value=54 Score=33.63 Aligned_cols=23 Identities=48% Similarity=0.562 Sum_probs=17.0
Q ss_pred hhhHHHHHHHHHHhhh-hcCCCCC
Q psy1344 21 ESNRDRRERLRQLALE-TIDLNKD 43 (286)
Q Consensus 21 ~~n~~Rrerlr~La~e-~idl~kD 43 (286)
|..++||+||++|+.+ .+||.+|
T Consensus 69 E~~~~RR~RL~~lL~~~~~~l~~~ 92 (459)
T KOG0272|consen 69 EDALARRQRLRELLSVASEDLLKD 92 (459)
T ss_pred CCHHHHHHHHHHHHHHhhHhhhhc
Confidence 3458999999999666 4665555
Done!