Query 037462
Match_columns 175
No_of_seqs 22 out of 24
Neff 2.1
Searched_HMMs 46136
Date Fri Mar 29 12:33:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037462.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037462hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00451 ZnF_U1 U1-like zinc 98.6 4.4E-08 9.6E-13 58.0 2.6 34 108-141 2-35 (35)
2 PF12874 zf-met: Zinc-finger o 98.4 1.5E-07 3.2E-12 52.8 1.8 25 110-134 1-25 (25)
3 PF12171 zf-C2H2_jaz: Zinc-fin 97.9 6.6E-06 1.4E-10 47.6 1.6 27 109-135 1-27 (27)
4 PF06220 zf-U1: U1 zinc finger 97.8 9.3E-06 2E-10 52.0 2.0 33 108-140 2-36 (38)
5 KOG3408 U1-like Zn-finger-cont 95.8 0.009 1.9E-07 48.1 3.3 37 108-144 56-92 (129)
6 KOG4727 U1-like Zn-finger prot 95.3 0.013 2.8E-07 49.8 2.7 40 102-141 68-107 (193)
7 KOG0150 Spliceosomal protein F 95.0 0.011 2.4E-07 53.5 1.4 36 105-140 6-42 (336)
8 COG5188 PRP9 Splicing factor 3 92.4 0.066 1.4E-06 50.1 1.6 49 90-143 224-272 (470)
9 COG5112 UFD2 U1-like Zn-finger 91.9 0.058 1.3E-06 43.3 0.6 39 108-146 54-92 (126)
10 PLN02748 tRNA dimethylallyltra 91.2 0.13 2.7E-06 47.6 2.0 37 107-143 416-453 (468)
11 KOG3454 U1 snRNP-specific prot 90.2 0.16 3.5E-06 42.3 1.6 32 108-139 2-35 (165)
12 KOG2785 C2H2-type Zn-finger pr 89.2 0.22 4.8E-06 46.0 1.9 59 105-163 64-122 (390)
13 KOG0717 Molecular chaperone (D 86.9 0.33 7.2E-06 46.2 1.5 42 105-146 288-329 (508)
14 KOG2893 Zn finger protein [Gen 86.7 0.36 7.8E-06 43.6 1.6 30 104-133 5-34 (341)
15 PF07535 zf-DBF: DBF zinc fing 86.1 0.54 1.2E-05 32.0 1.8 29 107-138 3-31 (49)
16 KOG3032 Uncharacterized conser 85.9 1 2.2E-05 40.0 3.9 37 105-142 31-67 (264)
17 KOG0227 Splicing factor 3a, su 84.6 0.53 1.1E-05 40.9 1.5 41 102-142 46-86 (222)
18 PF12756 zf-C2H2_2: C2H2 type 82.0 0.6 1.3E-05 31.2 0.7 32 109-140 50-81 (100)
19 PF13894 zf-C2H2_4: C2H2-type 80.7 1.1 2.3E-05 23.3 1.3 21 110-130 1-21 (24)
20 COG5246 PRP11 Splicing factor 78.1 1.7 3.6E-05 37.8 2.3 39 104-142 48-86 (222)
21 PF13912 zf-C2H2_6: C2H2-type 76.9 1.6 3.4E-05 24.4 1.2 21 110-130 2-22 (27)
22 smart00586 ZnF_DBF Zinc finger 73.9 1.8 3.9E-05 29.7 1.1 28 108-138 4-31 (49)
23 PF00096 zf-C2H2: Zinc finger, 72.7 2.4 5.3E-05 22.8 1.3 21 110-130 1-21 (23)
24 PF04988 AKAP95: A-kinase anch 58.0 7.1 0.00015 32.7 1.9 35 110-144 1-35 (165)
25 smart00355 ZnF_C2H2 zinc finge 51.9 11 0.00024 19.3 1.4 21 110-130 1-21 (26)
26 COG5136 U1 snRNP-specific prot 51.0 6.1 0.00013 33.8 0.5 31 108-138 2-34 (188)
27 PF13909 zf-H2C2_5: C2H2-type 44.2 17 0.00037 19.9 1.4 20 110-130 1-20 (24)
28 PF12907 zf-met2: Zinc-binding 43.6 10 0.00022 25.0 0.6 23 110-132 2-27 (40)
29 PF14968 CCDC84: Coiled coil p 36.6 13 0.00028 33.7 0.3 27 112-141 2-28 (336)
30 KOG3792 Transcription factor N 34.8 16 0.00035 36.9 0.7 28 111-138 195-222 (816)
31 PF11931 DUF3449: Domain of un 34.4 13 0.00029 31.5 0.0 53 88-142 82-135 (196)
32 PF14968 CCDC84: Coiled coil p 33.0 23 0.0005 32.1 1.3 42 106-147 55-103 (336)
33 KOG4722 Zn-finger protein [Gen 32.5 25 0.00054 34.4 1.5 31 111-141 495-525 (672)
34 KOG1146 Homeobox protein [Gene 32.1 30 0.00064 37.1 2.0 40 107-146 516-555 (1406)
35 COG0266 Nei Formamidopyrimidin 29.2 29 0.00063 30.7 1.2 12 105-116 261-272 (273)
36 PF05477 SURF2: Surfeit locus 28.2 70 0.0015 27.9 3.4 37 107-143 77-114 (244)
37 PF03107 C1_2: C1 domain; Int 26.6 22 0.00048 21.1 0.1 9 110-118 1-9 (30)
38 PF03194 LUC7: LUC7 N_terminus 25.9 35 0.00076 29.2 1.1 27 110-136 191-220 (254)
39 COG5270 PUA domain (predicted 25.2 31 0.00068 29.9 0.7 16 105-120 10-25 (202)
40 COG0526 TrxA Thiol-disulfide i 25.1 18 0.00038 22.2 -0.6 20 108-127 40-59 (127)
41 PTZ00448 hypothetical protein; 24.4 66 0.0014 30.0 2.7 41 107-147 312-352 (373)
42 PRK13945 formamidopyrimidine-D 22.3 34 0.00074 29.1 0.4 11 106-116 271-281 (282)
43 PRK14810 formamidopyrimidine-D 22.1 35 0.00076 29.0 0.4 12 105-116 260-271 (272)
44 KOG1146 Homeobox protein [Gene 20.3 41 0.00088 36.1 0.5 58 105-165 585-650 (1406)
45 PF13842 Tnp_zf-ribbon_2: DDE_ 20.1 46 0.001 20.5 0.6 14 105-118 12-25 (32)
No 1
>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=98.57 E-value=4.4e-08 Score=57.98 Aligned_cols=34 Identities=26% Similarity=0.496 Sum_probs=31.4
Q ss_pred cceeecceecccChHHHHHHhhhchhHHHhhhhc
Q 037462 108 FEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGS 141 (175)
Q Consensus 108 ~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKl 141 (175)
+.|||++|.+.+++...+.+|.+||+|.+++++.
T Consensus 2 ~~~~C~~C~~~~~~~~~~~~H~~gk~H~~~~~~~ 35 (35)
T smart00451 2 GGFYCKLCNVTFTDEISVEAHLKGKKHKKNVKKR 35 (35)
T ss_pred cCeEccccCCccCCHHHHHHHHChHHHHHHHHcC
Confidence 4699999999999999999999999999999863
No 2
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=98.40 E-value=1.5e-07 Score=52.79 Aligned_cols=25 Identities=32% Similarity=0.635 Sum_probs=24.5
Q ss_pred eeecceecccChHHHHHHhhhchhH
Q 037462 110 FWCEVFQVGTQSAVVMEGHKRGKKH 134 (175)
Q Consensus 110 fWCEvCkIgc~Se~VMe~HKnGKKH 134 (175)
|||++|++.++++..|++|.+||+|
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 7999999999999999999999999
No 3
>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=97.88 E-value=6.6e-06 Score=47.65 Aligned_cols=27 Identities=26% Similarity=0.491 Sum_probs=25.3
Q ss_pred ceeecceecccChHHHHHHhhhchhHH
Q 037462 109 EFWCEVFQVGTQSAVVMEGHKRGKKHM 135 (175)
Q Consensus 109 KfWCEvCkIgc~Se~VMe~HKnGKKHk 135 (175)
.|.|++|...+.++..|+.|.+||+|+
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 489999999999999999999999996
No 4
>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=97.85 E-value=9.3e-06 Score=51.97 Aligned_cols=33 Identities=21% Similarity=0.390 Sum_probs=21.4
Q ss_pred cceeecceeccc--ChHHHHHHhhhchhHHHhhhh
Q 037462 108 FEFWCEVFQVGT--QSAVVMEGHKRGKKHMARSNG 140 (175)
Q Consensus 108 ~KfWCEvCkIgc--~Se~VMe~HKnGKKHkanLqK 140 (175)
++|||+.|++.- ++..+=..|..|.+|+.|+++
T Consensus 2 ~ryyCdyC~~~~~~d~~~~Rk~H~~G~kH~~nv~~ 36 (38)
T PF06220_consen 2 PRYYCDYCKKYLTHDSPSIRKQHERGWKHKENVKR 36 (38)
T ss_dssp -S-B-TTT--B-S--SHHHHHHHT--THHHHHHHH
T ss_pred cCeecccccceecCCChHHHHHhhccHHHHHHHHH
Confidence 479999999988 677888999999999999875
No 5
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=95.83 E-value=0.009 Score=48.13 Aligned_cols=37 Identities=22% Similarity=0.206 Sum_probs=34.5
Q ss_pred cceeecceecccChHHHHHHhhhchhHHHhhhhcccC
Q 037462 108 FEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKN 144 (175)
Q Consensus 108 ~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlqe~ 144 (175)
.-|.|-.|.-.+.+..+|.-|..+|.|+++|+.|.+-
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~ktK~HKrRvK~l~~~ 92 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKTKVHKRRVKELREV 92 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhccHHHHHHHhcccC
Confidence 4699999999999999999999999999999999853
No 6
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=95.32 E-value=0.013 Score=49.76 Aligned_cols=40 Identities=23% Similarity=0.383 Sum_probs=34.9
Q ss_pred cccccCcceeecceecccChHHHHHHhhhchhHHHhhhhc
Q 037462 102 LPLRENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGS 141 (175)
Q Consensus 102 ~~~KKk~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKl 141 (175)
+|.-+.+-|.|.||.--.-+.+-+.+|.|||+|-.||.-+
T Consensus 68 tp~sq~~GyyCdVCdcvvKDSinflDHiNgKkHqrnlgms 107 (193)
T KOG4727|consen 68 TPRSQKGGYYCDVCDCVVKDSINFLDHINGKKHQRNLGMS 107 (193)
T ss_pred CcccccCceeeeecceeehhhHHHHHHhccHHHHHHHhhh
Confidence 3556778999999999888999999999999999998644
No 7
>KOG0150 consensus Spliceosomal protein FBP21 [RNA processing and modification]
Probab=94.97 E-value=0.011 Score=53.50 Aligned_cols=36 Identities=17% Similarity=0.358 Sum_probs=30.1
Q ss_pred ccCcceeecceeccc-ChHHHHHHhhhchhHHHhhhh
Q 037462 105 RENFEFWCEVFQVGT-QSAVVMEGHKRGKKHMARSNG 140 (175)
Q Consensus 105 KKk~KfWCEvCkIgc-~Se~VMe~HKnGKKHkanLqK 140 (175)
+..++.||++|+|-. +....-+.|..||+|+.+|.+
T Consensus 6 kS~~kkfCdyCKiWi~dN~~Sv~~He~GkrHke~V~K 42 (336)
T KOG0150|consen 6 KSQPKKFCDYCKIWIKDNPASVRFHERGKRHKENVAK 42 (336)
T ss_pred hhccchhhhhhhhhhcCChHHHHhHhhhhHHHHHHHH
Confidence 456788999999853 567778999999999999865
No 8
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=92.44 E-value=0.066 Score=50.05 Aligned_cols=49 Identities=22% Similarity=0.331 Sum_probs=40.0
Q ss_pred CCccCCCccccccccccCcceeecceecccChHHHHHHhhhchhHHHhhhhccc
Q 037462 90 NGIPTGGTMRRKLPLRENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRK 143 (175)
Q Consensus 90 ~G~p~g~~~~rK~~~KKk~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlqe 143 (175)
.|.|-+.+++.-++ +|.|++|.--.-...|++.|..||.|.++.++.+.
T Consensus 224 ~~~~~~~~g~~~~~-----~~YC~~C~r~f~~~~VFe~Hl~gK~H~k~~~~~~~ 272 (470)
T COG5188 224 FGKKNGMEGAEWFP-----KVYCVKCGREFSRSKVFEYHLEGKRHCKEGQGKEE 272 (470)
T ss_pred CCcccccchhhhcc-----ceeeHhhhhHhhhhHHHHHHHhhhhhhhhhhhhhH
Confidence 34455555544444 89999999998888999999999999999998887
No 9
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=91.95 E-value=0.058 Score=43.29 Aligned_cols=39 Identities=21% Similarity=0.207 Sum_probs=35.4
Q ss_pred cceeecceecccChHHHHHHhhhchhHHHhhhhcccCCC
Q 037462 108 FEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKNNE 146 (175)
Q Consensus 108 ~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlqe~~e 146 (175)
.-|+|--|--...++.+|.-|+.||=|+++++.+.+-+-
T Consensus 54 GqhYCieCaryf~t~~aL~~HkkgkvHkRR~KelRevpy 92 (126)
T COG5112 54 GQHYCIECARYFITEKALMEHKKGKVHKRRAKELREVPY 92 (126)
T ss_pred ceeeeehhHHHHHHHHHHHHHhccchhHHHHHHHhcCcc
Confidence 468999999999999999999999999999999987544
No 10
>PLN02748 tRNA dimethylallyltransferase
Probab=91.19 E-value=0.13 Score=47.61 Aligned_cols=37 Identities=24% Similarity=0.320 Sum_probs=32.4
Q ss_pred Ccceeecceec-ccChHHHHHHhhhchhHHHhhhhccc
Q 037462 107 NFEFWCEVFQV-GTQSAVVMEGHKRGKKHMARSNGSRK 143 (175)
Q Consensus 107 k~KfWCEvCkI-gc~Se~VMe~HKnGKKHkanLqKlqe 143 (175)
...|-||+|.. -...+.--++|.+|++|++++++...
T Consensus 416 ~~~~~Ce~C~~~~~~G~~eW~~Hlksr~Hk~~~~~~~k 453 (468)
T PLN02748 416 WTQYVCEACGNKVLRGAHEWEQHKQGRGHRKRVQRLKQ 453 (468)
T ss_pred cccccccCCCCcccCCHHHHHHHhcchHHHHHHhHHHh
Confidence 34678999998 78899999999999999999997754
No 11
>KOG3454 consensus U1 snRNP-specific protein C [RNA processing and modification]
Probab=90.17 E-value=0.16 Score=42.29 Aligned_cols=32 Identities=22% Similarity=0.412 Sum_probs=27.6
Q ss_pred cceeecceec--ccChHHHHHHhhhchhHHHhhh
Q 037462 108 FEFWCEVFQV--GTQSAVVMEGHKRGKKHMARSN 139 (175)
Q Consensus 108 ~KfWCEvCkI--gc~Se~VMe~HKnGKKHkanLq 139 (175)
.+|.|+.|.. --+|..|=..|-.|+||+.|++
T Consensus 2 pRYyCDYCdt~LthDslsvRK~H~~GrkH~~nvk 35 (165)
T KOG3454|consen 2 PRYYCDYCDTYLTHDSLSVRKTHCGGRKHKDNVK 35 (165)
T ss_pred CcchhhhhhhhhhcccHHHHHhhhhhHHHHHHHH
Confidence 4689999984 4579999999999999999874
No 12
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=89.24 E-value=0.22 Score=46.03 Aligned_cols=59 Identities=15% Similarity=0.195 Sum_probs=48.0
Q ss_pred ccCcceeecceecccChHHHHHHhhhchhHHHhhhhcccCCCCCCCccceeeeCCCCCC
Q 037462 105 RENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKNNEAVPLTTRTTIVTPSEPT 163 (175)
Q Consensus 105 KKk~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlqe~~e~vpts~staivT~pep~ 163 (175)
...+-+.|++|+-+..|+..+++|-+-|+|..++.+.+.+.++-....++.+.+.|++.
T Consensus 64 ~~~~~~~c~~c~k~~~s~~a~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q~~~~~p~~l 122 (390)
T KOG2785|consen 64 EAESVVYCEACNKSFASPKAHENHLKSKKHVENLSNHQRSEEGDSAKISQLPSRRPSNL 122 (390)
T ss_pred hcccceehHHhhccccChhhHHHHHHHhhcchhhhhhhccccccchhhhhccccCcccc
Confidence 44567899999999999999999999999999999988777766666666665554433
No 13
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=86.91 E-value=0.33 Score=46.22 Aligned_cols=42 Identities=24% Similarity=0.338 Sum_probs=36.3
Q ss_pred ccCcceeecceecccChHHHHHHhhhchhHHHhhhhcccCCC
Q 037462 105 RENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKNNE 146 (175)
Q Consensus 105 KKk~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlqe~~e 146 (175)
..+....|-+|.-.+-|+-.|..|.|-|||+.+|.+|.+-.+
T Consensus 288 ~~ge~lyC~vCnKsFKseKq~kNHEnSKKHkenv~eLrqemE 329 (508)
T KOG0717|consen 288 NEGEVLYCVVCNKSFKSEKQLKNHENSKKHKENVAELRQEME 329 (508)
T ss_pred hcCCceEEeeccccccchHHHHhhHHHHHHHHHHHHHHHHHH
Confidence 344448999999999999999999999999999999876544
No 14
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=86.74 E-value=0.36 Score=43.60 Aligned_cols=30 Identities=13% Similarity=0.269 Sum_probs=26.4
Q ss_pred cccCcceeecceecccChHHHHHHhhhchh
Q 037462 104 LRENFEFWCEVFQVGTQSAVVMEGHKRGKK 133 (175)
Q Consensus 104 ~KKk~KfWCEvCkIgc~Se~VMe~HKnGKK 133 (175)
+||..|-||-.|+-.++++-+|-+|..-|-
T Consensus 5 kkk~~kpwcwycnrefddekiliqhqkakh 34 (341)
T KOG2893|consen 5 KKKVDKPWCWYCNREFDDEKILIQHQKAKH 34 (341)
T ss_pred ccccCCceeeecccccchhhhhhhhhhhcc
Confidence 356668899999999999999999998874
No 15
>PF07535 zf-DBF: DBF zinc finger; InterPro: IPR006572 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. In eukaryotes, initiation of DNA replication requires the assembly of pre-replication complexes (pre-RCs) on chromatin during the G1 phase. In the S phase, pre-RCs are activated by two protein kinases, Cdk2 and Cdc7, which results in the loading of replication factors and the unwinding of replication origins by the MCM helicase complex []. Cdc7 is a serine/threonine kinase that is conserved from yeast to human. It is regulated by its association with a regulatory subunit, the Dbf4 protein. This complex is often referred to as DDK (Dbf4-dependent kinase) []. DBF4 contains an N-terminal BRCT domain and a C-terminal conserved region that could potentially coordinate one zinc atom, the DBF4-type zinc finger. This entry represents the zinc finger, which is important for the interaction with Cdc7 [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding
Probab=86.09 E-value=0.54 Score=31.98 Aligned_cols=29 Identities=24% Similarity=0.334 Sum_probs=24.2
Q ss_pred CcceeecceecccChHHHHHHhhhchhHHHhh
Q 037462 107 NFEFWCEVFQVGTQSAVVMEGHKRGKKHMARS 138 (175)
Q Consensus 107 k~KfWCEvCkIgc~Se~VMe~HKnGKKHkanL 138 (175)
+..-+||.|++...+ |..|-.+.+|.+-.
T Consensus 3 ~k~GYCE~C~~ky~~---l~~Hi~s~~Hr~FA 31 (49)
T PF07535_consen 3 KKPGYCENCRVKYDD---LEEHIQSEKHRKFA 31 (49)
T ss_pred CCCccCccccchhhh---HHHHhCCHHHHHHH
Confidence 445689999999875 88999999998754
No 16
>KOG3032 consensus Uncharacterized conserved protein [Function unknown]
Probab=85.89 E-value=1 Score=39.98 Aligned_cols=37 Identities=22% Similarity=0.313 Sum_probs=31.8
Q ss_pred ccCcceeecceecccChHHHHHHhhhchhHHHhhhhcc
Q 037462 105 RENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSR 142 (175)
Q Consensus 105 KKk~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlq 142 (175)
..+.-.-|-||+|--- +-+-.-|.|||+|.-++..|-
T Consensus 31 n~sgql~C~vCn~piK-p~lW~vHvnsKkHre~id~lK 67 (264)
T KOG3032|consen 31 NESGQLVCRVCNVPIK-PSLWDVHVNSKKHREAIDSLK 67 (264)
T ss_pred CCCCCeeEEEecCccc-HHHHHHHhccHHHHHHHHHHH
Confidence 3455567999999988 999999999999999988776
No 17
>KOG0227 consensus Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=84.61 E-value=0.53 Score=40.90 Aligned_cols=41 Identities=15% Similarity=0.136 Sum_probs=35.1
Q ss_pred cccccCcceeecceecccChHHHHHHhhhchhHHHhhhhcc
Q 037462 102 LPLRENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSR 142 (175)
Q Consensus 102 ~~~KKk~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlq 142 (175)
|++---.+|-|.+|.---+++-....|..||||..||-+-.
T Consensus 46 ~mkNh~G~yeCkLClT~H~ne~Syl~HtqGKKHq~Nlarra 86 (222)
T KOG0227|consen 46 FMKNHLGKYECKLCLTLHNNEGSYLAHTQGKKHQTNLARRA 86 (222)
T ss_pred hhhccCcceeehhhhhhhcchhhhhhhhccchhhHHHHHHH
Confidence 44455678999999999999999999999999999987643
No 18
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=82.00 E-value=0.6 Score=31.22 Aligned_cols=32 Identities=25% Similarity=0.405 Sum_probs=26.5
Q ss_pred ceeecceecccChHHHHHHhhhchhHHHhhhh
Q 037462 109 EFWCEVFQVGTQSAVVMEGHKRGKKHMARSNG 140 (175)
Q Consensus 109 KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqK 140 (175)
.|-|.+|.....|...|..|.+.+.|+.....
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~~H~~~~~~ 81 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSKHHKKRNSE 81 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHTTTTC-S--
T ss_pred CCCCCccCCCCcCHHHHHHHHcCccCCCcccc
Confidence 68999999999999999999999999987553
No 19
>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=80.67 E-value=1.1 Score=23.32 Aligned_cols=21 Identities=24% Similarity=0.398 Sum_probs=17.0
Q ss_pred eeecceecccChHHHHHHhhh
Q 037462 110 FWCEVFQVGTQSAVVMEGHKR 130 (175)
Q Consensus 110 fWCEvCkIgc~Se~VMe~HKn 130 (175)
|-|++|.....+...|+.|..
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~ 21 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMR 21 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHH
Confidence 569999999999999999964
No 20
>COG5246 PRP11 Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=78.08 E-value=1.7 Score=37.81 Aligned_cols=39 Identities=18% Similarity=0.287 Sum_probs=34.1
Q ss_pred cccCcceeecceecccChHHHHHHhhhchhHHHhhhhcc
Q 037462 104 LRENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSR 142 (175)
Q Consensus 104 ~KKk~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlq 142 (175)
+--..+|-|-+|+----++.....|..||||.-|+-+-+
T Consensus 48 knh~Gk~vC~LC~T~H~~e~Sy~~H~~GKKH~~n~~rrs 86 (222)
T COG5246 48 KNHTGKYVCLLCKTKHLTEMSYVKHREGKKHKENSSRRS 86 (222)
T ss_pred hcCCCcEEeeeeccccccHHHHHHhhccchhhhhHHHHH
Confidence 355679999999999999999999999999999887653
No 21
>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=76.85 E-value=1.6 Score=24.38 Aligned_cols=21 Identities=29% Similarity=0.395 Sum_probs=19.5
Q ss_pred eeecceecccChHHHHHHhhh
Q 037462 110 FWCEVFQVGTQSAVVMEGHKR 130 (175)
Q Consensus 110 fWCEvCkIgc~Se~VMe~HKn 130 (175)
|-|..|.....+...|..|+.
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~ 22 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKR 22 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHC
T ss_pred CCCCccCCccCChhHHHHHhH
Confidence 679999999999999999983
No 22
>smart00586 ZnF_DBF Zinc finger in DBF-like proteins.
Probab=73.94 E-value=1.8 Score=29.67 Aligned_cols=28 Identities=21% Similarity=0.183 Sum_probs=22.6
Q ss_pred cceeecceecccChHHHHHHhhhchhHHHhh
Q 037462 108 FEFWCEVFQVGTQSAVVMEGHKRGKKHMARS 138 (175)
Q Consensus 108 ~KfWCEvCkIgc~Se~VMe~HKnGKKHkanL 138 (175)
...+||.|++-.+ .|+.|-.+++|-+=.
T Consensus 4 k~GYCE~Cr~kfd---~l~~Hi~s~~Hr~FA 31 (49)
T smart00586 4 KPGYCENCREKYD---DLETHLLSEKHRRFA 31 (49)
T ss_pred CCcccccHhHHHh---hHHHHhccHHHHHHH
Confidence 3468999999876 578899999997643
No 23
>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=72.69 E-value=2.4 Score=22.76 Aligned_cols=21 Identities=19% Similarity=0.343 Sum_probs=19.3
Q ss_pred eeecceecccChHHHHHHhhh
Q 037462 110 FWCEVFQVGTQSAVVMEGHKR 130 (175)
Q Consensus 110 fWCEvCkIgc~Se~VMe~HKn 130 (175)
|-|+.|...+.+...|..|..
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 569999999999999999975
No 24
>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=57.99 E-value=7.1 Score=32.74 Aligned_cols=35 Identities=20% Similarity=0.201 Sum_probs=31.7
Q ss_pred eeecceecccChHHHHHHhhhchhHHHhhhhcccC
Q 037462 110 FWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKN 144 (175)
Q Consensus 110 fWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlqe~ 144 (175)
|.|-+|+..+.-+.-|+.|-.++=|+.-|.-++..
T Consensus 1 F~Cs~CKfrtf~~~ei~~HleS~~H~E~~~~i~tk 35 (165)
T PF04988_consen 1 FTCSFCKFRTFEEKEIEKHLESKFHKETLKYIQTK 35 (165)
T ss_pred CccceeeeecccHHHHHHHHccchHHHHHHHHHhc
Confidence 78999999999999999999999999888887544
No 25
>smart00355 ZnF_C2H2 zinc finger.
Probab=51.91 E-value=11 Score=19.25 Aligned_cols=21 Identities=19% Similarity=0.295 Sum_probs=18.6
Q ss_pred eeecceecccChHHHHHHhhh
Q 037462 110 FWCEVFQVGTQSAVVMEGHKR 130 (175)
Q Consensus 110 fWCEvCkIgc~Se~VMe~HKn 130 (175)
|-|..|.-.+.+...|..|..
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH
Confidence 359999999999999999986
No 26
>COG5136 U1 snRNP-specific protein C [RNA processing and modification]
Probab=51.02 E-value=6.1 Score=33.78 Aligned_cols=31 Identities=23% Similarity=0.245 Sum_probs=26.0
Q ss_pred cceeecceecc--cChHHHHHHhhhchhHHHhh
Q 037462 108 FEFWCEVFQVG--TQSAVVMEGHKRGKKHMARS 138 (175)
Q Consensus 108 ~KfWCEvCkIg--c~Se~VMe~HKnGKKHkanL 138 (175)
+.+.||.|++. -+++.|-..|--|++|..+.
T Consensus 2 pRY~CeyC~~~LthD~lsvRk~H~~G~~H~~~~ 34 (188)
T COG5136 2 PRYFCEYCNKMLTHDRLSVRKMHCGGAKHGLMR 34 (188)
T ss_pred cchHHHHHHHHHhccHHHHHHHhhhhHHHHHHH
Confidence 35789999975 57899999999999997654
No 27
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=44.17 E-value=17 Score=19.86 Aligned_cols=20 Identities=15% Similarity=0.302 Sum_probs=15.2
Q ss_pred eeecceecccChHHHHHHhhh
Q 037462 110 FWCEVFQVGTQSAVVMEGHKR 130 (175)
Q Consensus 110 fWCEvCkIgc~Se~VMe~HKn 130 (175)
|-|..|.-.+. ...|..|..
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 56999999998 889999864
No 28
>PF12907 zf-met2: Zinc-binding
Probab=43.61 E-value=10 Score=25.04 Aligned_cols=23 Identities=17% Similarity=0.424 Sum_probs=20.2
Q ss_pred eeeccee---cccChHHHHHHhhhch
Q 037462 110 FWCEVFQ---VGTQSAVVMEGHKRGK 132 (175)
Q Consensus 110 fWCEvCk---Igc~Se~VMe~HKnGK 132 (175)
+-|.+|+ ..+.+.-.|+.|-..|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enK 27 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENK 27 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHcc
Confidence 4599999 9999999999998765
No 29
>PF14968 CCDC84: Coiled coil protein 84
Probab=36.60 E-value=13 Score=33.71 Aligned_cols=27 Identities=22% Similarity=0.257 Sum_probs=24.0
Q ss_pred ecceecccChHHHHHHhhhchhHHHhhhhc
Q 037462 112 CEVFQVGTQSAVVMEGHKRGKKHMARSNGS 141 (175)
Q Consensus 112 CEvCkIgc~Se~VMe~HKnGKKHkanLqKl 141 (175)
|++|++..+. =+.|.=+.+|.++|..+
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 9999998887 89999999999988654
No 30
>KOG3792 consensus Transcription factor NFAT, subunit NF90 [General function prediction only]
Probab=34.78 E-value=16 Score=36.94 Aligned_cols=28 Identities=21% Similarity=0.579 Sum_probs=26.7
Q ss_pred eecceecccChHHHHHHhhhchhHHHhh
Q 037462 111 WCEVFQVGTQSAVVMEGHKRGKKHMARS 138 (175)
Q Consensus 111 WCEvCkIgc~Se~VMe~HKnGKKHkanL 138 (175)
.|++|+|.|+-...-+.|-.|-||+++-
T Consensus 195 ~~kw~k~~a~G~qs~re~lr~~r~l~kr 222 (816)
T KOG3792|consen 195 YCKWCKISAAGPQTYREHLRGQKHLKKE 222 (816)
T ss_pred hhHHHHHhccccHHHHHHHHHHHHHHhc
Confidence 8999999999999999999999999874
No 31
>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=34.39 E-value=13 Score=31.45 Aligned_cols=53 Identities=19% Similarity=0.141 Sum_probs=0.0
Q ss_pred ccCCccCCCccccccccccCcceeecceecccC-hHHHHHHhhhchhHHHhhhhcc
Q 037462 88 TTNGIPTGGTMRRKLPLRENFEFWCEVFQVGTQ-SAVVMEGHKRGKKHMARSNGSR 142 (175)
Q Consensus 88 ~t~G~p~g~~~~rK~~~KKk~KfWCEvCkIgc~-Se~VMe~HKnGKKHkanLqKlq 142 (175)
-.||.|.|-=+- |+- .=.-.|-||||--..| -.-+++.|=+.-+|.--|+-|.
T Consensus 82 G~DGkPIPyWLY-KLh-GL~~ey~CEICGN~~Y~GrkaFekHF~E~rH~~GlrcLG 135 (196)
T PF11931_consen 82 GWDGKPIPYWLY-KLH-GLGVEYKCEICGNQSYKGRKAFEKHFQEWRHAYGLRCLG 135 (196)
T ss_dssp --------------------------------------------------------
T ss_pred CCCCCcccHHHH-HHh-CCCCeeeeEeCCCcceecHHHHHHhcChhHHHccChhcC
Confidence 468888876311 221 3345789999988777 8899999999999987776654
No 32
>PF14968 CCDC84: Coiled coil protein 84
Probab=32.99 E-value=23 Score=32.13 Aligned_cols=42 Identities=17% Similarity=0.226 Sum_probs=29.8
Q ss_pred cCcceeecceecccChH------HHHHHhhhchhHHHhhhhc-ccCCCC
Q 037462 106 ENFEFWCEVFQVGTQSA------VVMEGHKRGKKHMARSNGS-RKNNEA 147 (175)
Q Consensus 106 Kk~KfWCEvCkIgc~Se------~VMe~HKnGKKHkanLqKl-qe~~e~ 147 (175)
....|||-.|-..-... .-+..|.-+.-|++++.+- .+++.+
T Consensus 55 ~~~~fWC~fC~~ev~~~~s~~~~~~ai~HLaS~eH~k~vk~F~w~~g~~ 103 (336)
T PF14968_consen 55 HRNRFWCVFCDCEVREHDSSFACGGAIEHLASPEHRKNVKKFWWKNGAD 103 (336)
T ss_pred ccceeEeeCccchhhhccchhhhccHHhhcCCHHHHHHHHHHHHHcCCC
Confidence 45679999996543322 2367899999999999986 555443
No 33
>KOG4722 consensus Zn-finger protein [General function prediction only]
Probab=32.46 E-value=25 Score=34.41 Aligned_cols=31 Identities=29% Similarity=0.384 Sum_probs=28.3
Q ss_pred eecceecccChHHHHHHhhhchhHHHhhhhc
Q 037462 111 WCEVFQVGTQSAVVMEGHKRGKKHMARSNGS 141 (175)
Q Consensus 111 WCEvCkIgc~Se~VMe~HKnGKKHkanLqKl 141 (175)
-|-+|+|--.|++.|-.|-.|.||-..|..+
T Consensus 495 qcslcnvlissevylfshvkgrkhqqal~e~ 525 (672)
T KOG4722|consen 495 QCSLCNVLISSEVYLFSHVKGRKHQQALNEL 525 (672)
T ss_pred ccchhhhhhhhhhhhhhhhcchhHHHHHHHH
Confidence 5999999999999999999999998877654
No 34
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=32.09 E-value=30 Score=37.08 Aligned_cols=40 Identities=13% Similarity=0.140 Sum_probs=35.7
Q ss_pred CcceeecceecccChHHHHHHhhhchhHHHhhhhcccCCC
Q 037462 107 NFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKNNE 146 (175)
Q Consensus 107 k~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlqe~~e 146 (175)
-..|-|+.|.+.+.+..-|-+|..-=+|+.+|+..++++.
T Consensus 516 ~~p~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g 555 (1406)
T KOG1146|consen 516 GKPYPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAG 555 (1406)
T ss_pred CCcccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccc
Confidence 3467999999999999999999999999999988887755
No 35
>COG0266 Nei Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]
Probab=29.18 E-value=29 Score=30.70 Aligned_cols=12 Identities=33% Similarity=0.639 Sum_probs=9.4
Q ss_pred ccCcceeeccee
Q 037462 105 RENFEFWCEVFQ 116 (175)
Q Consensus 105 KKk~KfWCEvCk 116 (175)
.--..|||+.||
T Consensus 261 ~gR~t~~CP~CQ 272 (273)
T COG0266 261 GGRSTFYCPVCQ 272 (273)
T ss_pred cCCcCEeCCCCC
Confidence 444589999997
No 36
>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=28.24 E-value=70 Score=27.92 Aligned_cols=37 Identities=16% Similarity=0.248 Sum_probs=27.5
Q ss_pred Ccceeecc-eecccChHHHHHHhhhchhHHHhhhhccc
Q 037462 107 NFEFWCEV-FQVGTQSAVVMEGHKRGKKHMARSNGSRK 143 (175)
Q Consensus 107 k~KfWCEv-CkIgc~Se~VMe~HKnGKKHkanLqKlqe 143 (175)
.-.+||-+ ...=--+.+.+..|.+||+-.+.|++..+
T Consensus 77 ~~~LfCkLT~~~iNk~pe~V~rHv~GKRf~kaLek~ee 114 (244)
T PF05477_consen 77 PHKLFCKLTGRHINKSPEHVERHVNGKRFQKALEKYEE 114 (244)
T ss_pred CceeEEechHhHhccCHHHHHHHhhhHHHHHHHHHHHH
Confidence 34667765 44455678899999999999999986543
No 37
>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=26.65 E-value=22 Score=21.14 Aligned_cols=9 Identities=44% Similarity=1.346 Sum_probs=6.7
Q ss_pred eeecceecc
Q 037462 110 FWCEVFQVG 118 (175)
Q Consensus 110 fWCEvCkIg 118 (175)
|||++|.--
T Consensus 1 ~~C~~C~~~ 9 (30)
T PF03107_consen 1 FWCDVCRRK 9 (30)
T ss_pred CCCCCCCCC
Confidence 689988644
No 38
>PF03194 LUC7: LUC7 N_terminus; InterPro: IPR004882 This family consists of several LUC7 protein homologues that are restricted to eukaryotes. LUC7 has been shown to be a U1 snRNA associated protein [] with a role in splice site recognition []. The entry contains human and mouse LUC7 like (LUC7L) proteins [] and human cisplatin resistance-associated overexpressed protein (CROP) [].
Probab=25.90 E-value=35 Score=29.18 Aligned_cols=27 Identities=26% Similarity=0.341 Sum_probs=21.5
Q ss_pred eeeccee---cccChHHHHHHhhhchhHHH
Q 037462 110 FWCEVFQ---VGTQSAVVMEGHKRGKKHMA 136 (175)
Q Consensus 110 fWCEvCk---Igc~Se~VMe~HKnGKKHka 136 (175)
.-|+||- +-.++..=|..|-.||-|+-
T Consensus 191 ~VCeVCGA~Ls~~D~d~RladH~~GK~HlG 220 (254)
T PF03194_consen 191 EVCEVCGAFLSVGDNDRRLADHFGGKQHLG 220 (254)
T ss_pred cchhhhhhHHhccchHHHHHHHhccchhhh
Confidence 3699996 34466778999999999984
No 39
>COG5270 PUA domain (predicted RNA-binding domain) [Translation, ribosomal structure and biogenesis]
Probab=25.18 E-value=31 Score=29.89 Aligned_cols=16 Identities=19% Similarity=0.428 Sum_probs=12.0
Q ss_pred ccCcceeecceecccC
Q 037462 105 RENFEFWCEVFQVGTQ 120 (175)
Q Consensus 105 KKk~KfWCEvCkIgc~ 120 (175)
.|-+.+||+-|++-..
T Consensus 10 gk~~iyWCe~cNlPl~ 25 (202)
T COG5270 10 GKFPIYWCEKCNLPLL 25 (202)
T ss_pred cccceeehhhCCCccc
Confidence 4556789999998643
No 40
>COG0526 TrxA Thiol-disulfide isomerase and thioredoxins [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]
Probab=25.07 E-value=18 Score=22.20 Aligned_cols=20 Identities=10% Similarity=0.310 Sum_probs=13.2
Q ss_pred cceeecceecccChHHHHHH
Q 037462 108 FEFWCEVFQVGTQSAVVMEG 127 (175)
Q Consensus 108 ~KfWCEvCkIgc~Se~VMe~ 127 (175)
+..||..|+--.....-+..
T Consensus 40 ~~~~C~~C~~~~~~l~~~~~ 59 (127)
T COG0526 40 WAPWCPPCRAEAPLLEELAE 59 (127)
T ss_pred EcCcCHHHHhhchhHHHHHH
Confidence 36699999987554444443
No 41
>PTZ00448 hypothetical protein; Provisional
Probab=24.39 E-value=66 Score=30.02 Aligned_cols=41 Identities=12% Similarity=0.217 Sum_probs=35.3
Q ss_pred CcceeecceecccChHHHHHHhhhchhHHHhhhhcccCCCC
Q 037462 107 NFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKNNEA 147 (175)
Q Consensus 107 k~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlqe~~e~ 147 (175)
...|.|-.|.+...+..--+.|-.-==|.-||++.-..+.+
T Consensus 312 ~~~~tC~~C~v~F~~~~~qR~H~KSDwHrYNLKRkl~gLpp 352 (373)
T PTZ00448 312 SNMLLCRKCNIQLMDHNAFKQHYRSEWHIFNTKRNARKMEP 352 (373)
T ss_pred cCCccccccccccCCHHHHHHHhhhhHHHHHHHHHhcCCCC
Confidence 34689999999999999999999999999999887655443
No 42
>PRK13945 formamidopyrimidine-DNA glycosylase; Provisional
Probab=22.30 E-value=34 Score=29.13 Aligned_cols=11 Identities=27% Similarity=0.649 Sum_probs=8.7
Q ss_pred cCcceeeccee
Q 037462 106 ENFEFWCEVFQ 116 (175)
Q Consensus 106 Kk~KfWCEvCk 116 (175)
--..|||+.||
T Consensus 271 gR~t~~CP~CQ 281 (282)
T PRK13945 271 GRSTHWCPNCQ 281 (282)
T ss_pred CCccEECCCCc
Confidence 34578999997
No 43
>PRK14810 formamidopyrimidine-DNA glycosylase; Provisional
Probab=22.07 E-value=35 Score=28.99 Aligned_cols=12 Identities=17% Similarity=0.312 Sum_probs=9.6
Q ss_pred ccCcceeeccee
Q 037462 105 RENFEFWCEVFQ 116 (175)
Q Consensus 105 KKk~KfWCEvCk 116 (175)
---..|||+.||
T Consensus 260 ~gR~t~~CP~CQ 271 (272)
T PRK14810 260 AGRSSHYCPHCQ 271 (272)
T ss_pred CCCccEECcCCc
Confidence 445689999997
No 44
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=20.28 E-value=41 Score=36.10 Aligned_cols=58 Identities=19% Similarity=0.130 Sum_probs=45.3
Q ss_pred ccCcceeecceecccChHHHHHHhhhchhHHHh--------hhhcccCCCCCCCccceeeeCCCCCCCC
Q 037462 105 RENFEFWCEVFQVGTQSAVVMEGHKRGKKHMAR--------SNGSRKNNEAVPLTTRTTIVTPSEPTEN 165 (175)
Q Consensus 105 KKk~KfWCEvCkIgc~Se~VMe~HKnGKKHkan--------LqKlqe~~e~vpts~staivT~pep~~~ 165 (175)
+.++.+-|++|.-.++=.--|++|..--+|+.+ +..++..+..+..+... |+..|.++
T Consensus 585 ktkP~~~C~vc~yetniarnlrihmtss~~s~~p~~~Lq~~it~~l~~~~~~~~~lp~---tps~~~~s 650 (1406)
T KOG1146|consen 585 KTKPSWRCEVCSYETNIARNLRIHMTASPSSSPPSLVLQQNITSSLASLLGGQGRLPF---TPSSPPSS 650 (1406)
T ss_pred CCCCCcchhhhcchhhhhhccccccccCCCCCChHHHhhhcchhhccccccCcCCCCC---CCCCCccc
Confidence 778899999999999999999999999999998 44555556667766665 44444443
No 45
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=20.12 E-value=46 Score=20.49 Aligned_cols=14 Identities=21% Similarity=0.532 Sum_probs=10.6
Q ss_pred ccCcceeecceecc
Q 037462 105 RENFEFWCEVFQVG 118 (175)
Q Consensus 105 KKk~KfWCEvCkIg 118 (175)
+++-.|||..|.|.
T Consensus 12 rk~T~~~C~~C~v~ 25 (32)
T PF13842_consen 12 RKDTRYMCSKCDVP 25 (32)
T ss_pred cceeEEEccCCCCc
Confidence 44578999999753
Done!