Query 041494
Match_columns 279
No_of_seqs 171 out of 293
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 07:44:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041494.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041494hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00642 zf-CCCH: Zinc finger 98.3 1.8E-07 3.9E-12 59.2 0.6 24 6-29 2-26 (27)
2 smart00356 ZnF_C3H1 zinc finge 98.0 3.4E-06 7.4E-11 51.7 1.7 25 6-30 3-27 (27)
3 KOG2185 Predicted RNA-processi 97.6 1.4E-05 3.1E-10 79.0 0.8 29 4-32 137-165 (486)
4 KOG1039 Predicted E3 ubiquitin 97.3 8.6E-05 1.9E-09 71.9 0.7 25 8-32 9-33 (344)
5 KOG1677 CCCH-type Zn-finger pr 96.7 0.0007 1.5E-08 63.1 1.6 27 6-32 176-203 (332)
6 PF14608 zf-CCCH_2: Zinc finge 96.4 0.0018 3.9E-08 38.2 1.3 19 9-29 1-19 (19)
7 KOG2494 C3H1-type Zn-finger pr 96.0 0.0021 4.5E-08 62.1 0.6 26 7-32 37-63 (331)
8 KOG1040 Polyadenylation factor 93.8 0.022 4.9E-07 55.1 0.8 27 4-30 74-100 (325)
9 COG5152 Uncharacterized conser 93.2 0.032 6.9E-07 51.6 0.6 27 6-32 140-167 (259)
10 KOG1763 Uncharacterized conser 92.6 0.038 8.3E-07 53.4 0.3 28 5-32 90-117 (343)
11 KOG1677 CCCH-type Zn-finger pr 91.0 0.096 2.1E-06 48.9 1.1 28 5-32 130-159 (332)
12 KOG1813 Predicted E3 ubiquitin 83.7 0.36 7.9E-06 46.7 0.2 26 7-32 186-212 (313)
13 COG5084 YTH1 Cleavage and poly 80.5 0.93 2E-05 43.5 1.7 28 5-32 102-129 (285)
14 KOG2333 Uncharacterized conser 71.9 1.7 3.6E-05 45.1 0.9 24 8-31 77-103 (614)
15 COG5084 YTH1 Cleavage and poly 71.2 2.1 4.6E-05 41.1 1.4 27 6-32 133-160 (285)
16 KOG2202 U2 snRNP splicing fact 70.5 1.6 3.4E-05 41.5 0.3 28 5-32 13-41 (260)
17 PF10650 zf-C3H1: Putative zin 70.1 2.6 5.6E-05 26.5 1.1 22 8-30 1-23 (23)
18 COG5252 Uncharacterized conser 66.7 1.8 3.9E-05 41.2 -0.1 27 5-31 83-109 (299)
19 KOG2202 U2 snRNP splicing fact 66.1 2.6 5.6E-05 40.1 0.8 28 5-32 150-177 (260)
20 COG5063 CTH1 CCCH-type Zn-fing 63.6 3.7 7.9E-05 40.3 1.3 25 8-32 275-300 (351)
21 KOG4791 Uncharacterized conser 58.5 3.6 7.8E-05 42.7 0.3 24 7-30 3-26 (667)
22 KOG1595 CCCH-type Zn-finger pr 55.5 5.8 0.00013 41.1 1.2 26 6-31 235-260 (528)
23 KOG1492 C3H1-type Zn-finger pr 54.1 6.3 0.00014 37.6 1.1 28 5-32 204-232 (377)
24 PHA02091 hypothetical protein 42.7 27 0.00059 27.1 2.8 26 102-127 23-56 (72)
25 KOG0153 Predicted RNA-binding 42.0 12 0.00026 37.3 1.1 27 6-32 160-186 (377)
26 KOG2494 C3H1-type Zn-finger pr 38.0 15 0.00033 36.1 1.0 22 9-31 73-94 (331)
27 smart00309 PAH Pancreatic horm 37.9 56 0.0012 22.5 3.5 21 129-150 4-24 (36)
28 KOG1763 Uncharacterized conser 36.9 12 0.00025 36.8 0.1 25 8-32 157-192 (343)
29 COG4752 Uncharacterized protei 35.2 65 0.0014 29.2 4.4 48 99-150 86-133 (190)
30 PF07225 NDUF_B4: NADH-ubiquin 34.1 1.1E+02 0.0024 26.2 5.5 44 125-183 6-52 (125)
31 cd00126 PAH Pancreatic Hormone 33.2 62 0.0013 22.3 3.1 21 129-150 4-24 (36)
32 KOG1040 Polyadenylation factor 32.7 18 0.00039 35.4 0.6 27 6-32 133-159 (325)
33 COG5252 Uncharacterized conser 31.4 16 0.00035 34.9 0.1 27 6-32 140-177 (299)
34 KOG1492 C3H1-type Zn-finger pr 31.3 23 0.0005 33.9 1.1 26 6-31 232-257 (377)
35 PF10283 zf-CCHH: Zinc-finger 31.0 17 0.00036 23.5 0.0 10 17-26 2-11 (26)
36 PF10260 SAYSvFN: Uncharacteri 26.9 47 0.001 26.0 1.9 28 116-143 40-67 (71)
37 KOG3988 Protein-tyrosine sulfo 24.7 1.6E+02 0.0034 29.4 5.4 96 136-241 205-310 (378)
38 PF00159 Hormone_3: Pancreatic 23.3 1.3E+02 0.0029 20.7 3.3 20 129-149 4-23 (36)
39 PF03194 LUC7: LUC7 N_terminus 21.2 38 0.00083 31.7 0.5 26 5-30 28-62 (254)
40 smart00549 TAFH TAF homology. 20.9 3.3E+02 0.0072 22.5 5.8 49 135-184 38-86 (92)
41 KOG3331 Mitochondrial/chloropl 20.6 1.7E+02 0.0038 27.2 4.6 23 125-147 53-76 (213)
No 1
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....
Probab=98.30 E-value=1.8e-07 Score=59.20 Aligned_cols=24 Identities=50% Similarity=1.259 Sum_probs=19.2
Q ss_pred Cccccccccc-ccccCCCcccccCC
Q 041494 6 KKDLCRNFQR-GSCQYGERCKFLHV 29 (279)
Q Consensus 6 ~~~vCrfF~~-G~CrfG~~Crf~H~ 29 (279)
++.+|++|++ |.|+||++|+|.|+
T Consensus 2 k~~~C~~f~~~g~C~~G~~C~f~H~ 26 (27)
T PF00642_consen 2 KTKLCRFFMRTGTCPFGDKCRFAHG 26 (27)
T ss_dssp TSSB-HHHHHTS--TTGGGSSSBSS
T ss_pred ccccChhhccCCccCCCCCcCccCC
Confidence 4689999998 99999999999997
No 2
>smart00356 ZnF_C3H1 zinc finger.
Probab=97.98 E-value=3.4e-06 Score=51.67 Aligned_cols=25 Identities=56% Similarity=1.271 Sum_probs=22.1
Q ss_pred CcccccccccccccCCCcccccCCC
Q 041494 6 KKDLCRNFQRGSCQYGERCKFLHVT 30 (279)
Q Consensus 6 ~~~vCrfF~~G~CrfG~~Crf~H~~ 30 (279)
+..+|++|+.|.|++|++|+|.|..
T Consensus 3 k~~~C~~~~~g~C~~g~~C~~~H~~ 27 (27)
T smart00356 3 KTELCKFFKRGYCPYGDRCKFAHPL 27 (27)
T ss_pred CCCcCcCccCCCCCCCCCcCCCCcC
Confidence 3458999999999999999999973
No 3
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=97.65 E-value=1.4e-05 Score=78.99 Aligned_cols=29 Identities=31% Similarity=0.778 Sum_probs=26.4
Q ss_pred CCCcccccccccccccCCCcccccCCCCC
Q 041494 4 YKKKDLCRNFQRGSCQYGERCKFLHVTQQ 32 (279)
Q Consensus 4 ~~~~~vCrfF~~G~CrfG~~Crf~H~~~~ 32 (279)
.+.|.+|+||+.|+||||.+|||.|....
T Consensus 137 h~sMkpC~ffLeg~CRF~enCRfSHG~~V 165 (486)
T KOG2185|consen 137 HESMKPCKFFLEGRCRFGENCRFSHGLDV 165 (486)
T ss_pred chhhccchHhhccccccCcccccccCccc
Confidence 37899999999999999999999998764
No 4
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.25 E-value=8.6e-05 Score=71.94 Aligned_cols=25 Identities=28% Similarity=1.030 Sum_probs=24.1
Q ss_pred ccccccccccccCCCcccccCCCCC
Q 041494 8 DLCRNFQRGSCQYGERCKFLHVTQQ 32 (279)
Q Consensus 8 ~vCrfF~~G~CrfG~~Crf~H~~~~ 32 (279)
+||+||++|.|+||+.|||+|..+.
T Consensus 9 tic~~~~~g~c~~g~~cr~~h~~~~ 33 (344)
T KOG1039|consen 9 TICKYYQKGNCKFGDLCRLSHSLPD 33 (344)
T ss_pred hhhhhcccccccccceeeeeccCch
Confidence 9999999999999999999999984
No 5
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=96.70 E-value=0.0007 Score=63.13 Aligned_cols=27 Identities=48% Similarity=1.190 Sum_probs=24.3
Q ss_pred Cccccccccc-ccccCCCcccccCCCCC
Q 041494 6 KKDLCRNFQR-GSCQYGERCKFLHVTQQ 32 (279)
Q Consensus 6 ~~~vCrfF~~-G~CrfG~~Crf~H~~~~ 32 (279)
+.++|.+|++ |.|+||.+|+|.|+...
T Consensus 176 kt~lC~~f~~tG~C~yG~rC~F~H~~~~ 203 (332)
T KOG1677|consen 176 KTKLCPKFQKTGLCKYGSRCRFIHGEPE 203 (332)
T ss_pred CCcCCCccccCCCCCCCCcCeecCCCcc
Confidence 4578999997 99999999999999874
No 6
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=96.35 E-value=0.0018 Score=38.22 Aligned_cols=19 Identities=32% Similarity=0.761 Sum_probs=17.2
Q ss_pred cccccccccccCCCcccccCC
Q 041494 9 LCRNFQRGSCQYGERCKFLHV 29 (279)
Q Consensus 9 vCrfF~~G~CrfG~~Crf~H~ 29 (279)
+||||.. |++|++|.|.|+
T Consensus 1 ~Ck~~~~--C~~~~~C~f~HP 19 (19)
T PF14608_consen 1 PCKFGPN--CTNGDNCPFSHP 19 (19)
T ss_pred CCcCcCC--CCCCCcCccCCc
Confidence 5998877 999999999996
No 7
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=96.02 E-value=0.0021 Score=62.15 Aligned_cols=26 Identities=42% Similarity=1.055 Sum_probs=24.0
Q ss_pred cccccccccccccCCCc-ccccCCCCC
Q 041494 7 KDLCRNFQRGSCQYGER-CKFLHVTQQ 32 (279)
Q Consensus 7 ~~vCrfF~~G~CrfG~~-Crf~H~~~~ 32 (279)
..|||-||+|.|.-||+ |||.|+..+
T Consensus 37 ~eVCReF~rn~C~R~d~~CkfaHP~~~ 63 (331)
T KOG2494|consen 37 LEVCREFLRNTCSRGDRECKFAHPPKN 63 (331)
T ss_pred HHHHHHHHhccccCCCccccccCCCCC
Confidence 46999999999999999 999999874
No 8
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=93.81 E-value=0.022 Score=55.07 Aligned_cols=27 Identities=37% Similarity=0.938 Sum_probs=24.7
Q ss_pred CCCcccccccccccccCCCcccccCCC
Q 041494 4 YKKKDLCRNFQRGSCQYGERCKFLHVT 30 (279)
Q Consensus 4 ~~~~~vCrfF~~G~CrfG~~Crf~H~~ 30 (279)
.+..+|||||++|.|..||.|-|.|..
T Consensus 74 ~~~~~vcK~~l~glC~kgD~C~Flhe~ 100 (325)
T KOG1040|consen 74 SRGKVVCKHWLRGLCKKGDQCEFLHEY 100 (325)
T ss_pred cCCceeehhhhhhhhhccCcCcchhhh
Confidence 457899999999999999999999975
No 9
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=93.17 E-value=0.032 Score=51.61 Aligned_cols=27 Identities=41% Similarity=1.134 Sum_probs=23.3
Q ss_pred Ccccccccc-cccccCCCcccccCCCCC
Q 041494 6 KKDLCRNFQ-RGSCQYGERCKFLHVTQQ 32 (279)
Q Consensus 6 ~~~vCrfF~-~G~CrfG~~Crf~H~~~~ 32 (279)
...||+-|. .|+|-||+.|+|.|.+..
T Consensus 140 qpdVCKdyk~TGYCGYGDsCKflH~R~D 167 (259)
T COG5152 140 QPDVCKDYKETGYCGYGDSCKFLHDRSD 167 (259)
T ss_pred CcccccchhhcccccCCchhhhhhhhhh
Confidence 346899887 799999999999999874
No 10
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=92.55 E-value=0.038 Score=53.36 Aligned_cols=28 Identities=36% Similarity=0.816 Sum_probs=24.8
Q ss_pred CCcccccccccccccCCCcccccCCCCC
Q 041494 5 KKKDLCRNFQRGSCQYGERCKFLHVTQQ 32 (279)
Q Consensus 5 ~~~~vCrfF~~G~CrfG~~Crf~H~~~~ 32 (279)
...+||-||.+|.|.-|++|+|.|....
T Consensus 90 PKSvvCafFk~g~C~KG~kCKFsHdl~~ 117 (343)
T KOG1763|consen 90 PKSVVCAFFKQGTCTKGDKCKFSHDLAV 117 (343)
T ss_pred chHHHHHHHhccCCCCCCcccccchHHH
Confidence 3457899999999999999999998764
No 11
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=91.01 E-value=0.096 Score=48.95 Aligned_cols=28 Identities=46% Similarity=1.133 Sum_probs=24.1
Q ss_pred CCcccccccc-cccccC-CCcccccCCCCC
Q 041494 5 KKKDLCRNFQ-RGSCQY-GERCKFLHVTQQ 32 (279)
Q Consensus 5 ~~~~vCrfF~-~G~Crf-G~~Crf~H~~~~ 32 (279)
.+..+|++|. .|.|+| |++|||.|....
T Consensus 130 ~kt~lc~~~~~~g~c~y~ge~crfah~~~e 159 (332)
T KOG1677|consen 130 YKTPLCRSFRKSGTCKYRGEQCRFAHGLEE 159 (332)
T ss_pred ccCCcceeeecCccccccCchhhhcCCccc
Confidence 3557899999 589999 999999998775
No 12
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.75 E-value=0.36 Score=46.65 Aligned_cols=26 Identities=42% Similarity=1.171 Sum_probs=22.7
Q ss_pred cccccccc-cccccCCCcccccCCCCC
Q 041494 7 KDLCRNFQ-RGSCQYGERCKFLHVTQQ 32 (279)
Q Consensus 7 ~~vCrfF~-~G~CrfG~~Crf~H~~~~ 32 (279)
..||+=|- .|.|-||++|+|.|.+..
T Consensus 186 pDicKdykeTgycg~gdSckFlh~r~D 212 (313)
T KOG1813|consen 186 PDICKDYKETGYCGYGDSCKFLHDRSD 212 (313)
T ss_pred chhhhhhHhhCcccccchhhhhhhhhh
Confidence 35899887 799999999999999764
No 13
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=80.51 E-value=0.93 Score=43.47 Aligned_cols=28 Identities=36% Similarity=0.758 Sum_probs=24.4
Q ss_pred CCcccccccccccccCCCcccccCCCCC
Q 041494 5 KKKDLCRNFQRGSCQYGERCKFLHVTQQ 32 (279)
Q Consensus 5 ~~~~vCrfF~~G~CrfG~~Crf~H~~~~ 32 (279)
.+.++|++|++|+|.-|.+|-|.|...-
T Consensus 102 ~s~V~c~~~~~g~c~s~~~c~~lh~~d~ 129 (285)
T COG5084 102 SSSVVCKFFLRGLCKSGFSCEFLHEYDL 129 (285)
T ss_pred cCCcccchhccccCcCCCccccccCCCc
Confidence 4668899999999999999999998763
No 14
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only]
Probab=71.91 E-value=1.7 Score=45.05 Aligned_cols=24 Identities=33% Similarity=1.070 Sum_probs=19.6
Q ss_pred ccccccccc---cccCCCcccccCCCC
Q 041494 8 DLCRNFQRG---SCQYGERCKFLHVTQ 31 (279)
Q Consensus 8 ~vCrfF~~G---~CrfG~~Crf~H~~~ 31 (279)
.+|.-..+| .|.||++|||.|...
T Consensus 77 ~LCPsli~g~~~~C~f~d~Crf~HDi~ 103 (614)
T KOG2333|consen 77 RLCPSLIQGDISKCSFGDNCRFVHDIE 103 (614)
T ss_pred ccChHhhcCCCccCcccccccccccHH
Confidence 468777776 799999999999754
No 15
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=71.15 E-value=2.1 Score=41.08 Aligned_cols=27 Identities=33% Similarity=0.867 Sum_probs=24.6
Q ss_pred Cccccccc-ccccccCCCcccccCCCCC
Q 041494 6 KKDLCRNF-QRGSCQYGERCKFLHVTQQ 32 (279)
Q Consensus 6 ~~~vCrfF-~~G~CrfG~~Crf~H~~~~ 32 (279)
.+..|++| +.|.|..|..|.+.|.++.
T Consensus 133 ~~~~c~~Fs~~G~cs~g~~c~~~h~dp~ 160 (285)
T COG5084 133 QGPPCRSFSLKGSCSSGPSCGYSHIDPD 160 (285)
T ss_pred cCCCcccccccceeccCCCCCccccCcc
Confidence 37789999 8999999999999999875
No 16
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=70.48 E-value=1.6 Score=41.54 Aligned_cols=28 Identities=36% Similarity=0.693 Sum_probs=24.4
Q ss_pred CCcccccccc-cccccCCCcccccCCCCC
Q 041494 5 KKKDLCRNFQ-RGSCQYGERCKFLHVTQQ 32 (279)
Q Consensus 5 ~~~~vCrfF~-~G~CrfG~~Crf~H~~~~ 32 (279)
+.++-|.||. .|.||+|++|.-.|..|.
T Consensus 13 kdKv~c~fy~k~gacR~gdrcsR~h~kpt 41 (260)
T KOG2202|consen 13 KDKVNCSFYFKIGACRHGDRCSRLHEKPT 41 (260)
T ss_pred ccccccchHHhhcccccccHHHHhhcccc
Confidence 4567799987 799999999999999986
No 17
>PF10650 zf-C3H1: Putative zinc-finger domain; InterPro: IPR019607 This domain is conserved in fungi and might be a zinc-finger domain as it contains three conserved Cs and an H in the C-x8-C-x5-C-x3-H conformation typical of a zinc-finger.
Probab=70.09 E-value=2.6 Score=26.46 Aligned_cols=22 Identities=32% Similarity=0.726 Sum_probs=18.2
Q ss_pred ccccccccc-cccCCCcccccCCC
Q 041494 8 DLCRNFQRG-SCQYGERCKFLHVT 30 (279)
Q Consensus 8 ~vCrfF~~G-~CrfG~~Crf~H~~ 30 (279)
.+|.|.+.| .|. -+.|.|.|.+
T Consensus 1 ~lC~yEl~Gg~Cn-d~~C~~QHfr 23 (23)
T PF10650_consen 1 PLCPYELTGGVCN-DPDCEFQHFR 23 (23)
T ss_pred CCCccccCCCeeC-CCCCCccccC
Confidence 379999998 997 4689999964
No 18
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=66.75 E-value=1.8 Score=41.22 Aligned_cols=27 Identities=33% Similarity=0.722 Sum_probs=23.9
Q ss_pred CCcccccccccccccCCCcccccCCCC
Q 041494 5 KKKDLCRNFQRGSCQYGERCKFLHVTQ 31 (279)
Q Consensus 5 ~~~~vCrfF~~G~CrfG~~Crf~H~~~ 31 (279)
...+||-.|+.+.|.-|+.|+|.|...
T Consensus 83 pK~~vcalF~~~~c~kg~~ckF~h~~e 109 (299)
T COG5252 83 PKTVVCALFLNKTCAKGDACKFAHGKE 109 (299)
T ss_pred chhHHHHHhccCccccCchhhhhcchH
Confidence 345789999999999999999999865
No 19
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=66.10 E-value=2.6 Score=40.10 Aligned_cols=28 Identities=32% Similarity=0.873 Sum_probs=24.8
Q ss_pred CCcccccccccccccCCCcccccCCCCC
Q 041494 5 KKKDLCRNFQRGSCQYGERCKFLHVTQQ 32 (279)
Q Consensus 5 ~~~~vCrfF~~G~CrfG~~Crf~H~~~~ 32 (279)
-.+.+|++|-++.|.+|..|.|.|....
T Consensus 150 ~rea~C~~~e~~~C~rG~~CnFmH~k~~ 177 (260)
T KOG2202|consen 150 FREAICGQFERTECSRGGACNFMHVKRL 177 (260)
T ss_pred hhhhhhcccccccCCCCCcCcchhhhhh
Confidence 3567899999999999999999999863
No 20
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]
Probab=63.58 E-value=3.7 Score=40.29 Aligned_cols=25 Identities=40% Similarity=0.907 Sum_probs=20.9
Q ss_pred ccccccc-cccccCCCcccccCCCCC
Q 041494 8 DLCRNFQ-RGSCQYGERCKFLHVTQQ 32 (279)
Q Consensus 8 ~vCrfF~-~G~CrfG~~Crf~H~~~~ 32 (279)
+.|..++ -|.|+||.||-|.|....
T Consensus 275 ePcinwe~sGyc~yg~Rc~F~hgd~~ 300 (351)
T COG5063 275 EPCINWEKSGYCPYGLRCCFKHGDDS 300 (351)
T ss_pred CCccchhhcccCccccccccccCChh
Confidence 5677777 599999999999998753
No 21
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=58.48 E-value=3.6 Score=42.65 Aligned_cols=24 Identities=29% Similarity=0.699 Sum_probs=16.9
Q ss_pred cccccccccccccCCCcccccCCC
Q 041494 7 KDLCRNFQRGSCQYGERCKFLHVT 30 (279)
Q Consensus 7 ~~vCrfF~~G~CrfG~~Crf~H~~ 30 (279)
|.-|.||+.-.|+++++|-|.|.-
T Consensus 3 ~~dcyff~ys~cKk~d~c~~rh~E 26 (667)
T KOG4791|consen 3 GEDCYFFFYSTCKKGDSCPFRHCE 26 (667)
T ss_pred cccchhhhhhhhhccCcCcchhhH
Confidence 455777777777777777777754
No 22
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=55.46 E-value=5.8 Score=41.13 Aligned_cols=26 Identities=31% Similarity=0.854 Sum_probs=23.0
Q ss_pred CcccccccccccccCCCcccccCCCC
Q 041494 6 KKDLCRNFQRGSCQYGERCKFLHVTQ 31 (279)
Q Consensus 6 ~~~vCrfF~~G~CrfG~~Crf~H~~~ 31 (279)
.-++|--|.+|.|+-||.|-|.|..-
T Consensus 235 s~tpCPefrkG~C~rGD~CEyaHgvf 260 (528)
T KOG1595|consen 235 SSTPCPEFRKGSCERGDSCEYAHGVF 260 (528)
T ss_pred cCccCcccccCCCCCCCcccccccee
Confidence 34789999999999999999999764
No 23
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=54.13 E-value=6.3 Score=37.58 Aligned_cols=28 Identities=29% Similarity=0.774 Sum_probs=21.8
Q ss_pred CCcccccccc-cccccCCCcccccCCCCC
Q 041494 5 KKKDLCRNFQ-RGSCQYGERCKFLHVTQQ 32 (279)
Q Consensus 5 ~~~~vCrfF~-~G~CrfG~~Crf~H~~~~ 32 (279)
...+-||||- .|.|--|..|||.|....
T Consensus 204 psavycryynangicgkgaacrfvheptr 232 (377)
T KOG1492|consen 204 PSAVYCRYYNANGICGKGAACRFVHEPTR 232 (377)
T ss_pred CceeEEEEecCCCcccCCceeeeeccccc
Confidence 4456699887 689999999999997653
No 24
>PHA02091 hypothetical protein
Probab=42.74 E-value=27 Score=27.09 Aligned_cols=26 Identities=27% Similarity=0.501 Sum_probs=18.8
Q ss_pred HHHHHHHHHhh--------hcCCCeeeeeeccCC
Q 041494 102 SCKRIIAEDFE--------LERPLWKLTCYGHWK 127 (279)
Q Consensus 102 ~~~~~I~~Dl~--------~e~pqW~LScYgp~K 127 (279)
++.++|.+=-+ .++|+|.|-.|||.-
T Consensus 23 ~larsiv~fak~r~l~ii~~d~~~w~lnvygp~~ 56 (72)
T PHA02091 23 KLARSIVDFAKTRELQIIQRDRGMWTLNVYGPLG 56 (72)
T ss_pred HHHHHHHHHHhhheEEEEecCCceEEEEeecccc
Confidence 44566654332 679999999999974
No 25
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=42.00 E-value=12 Score=37.25 Aligned_cols=27 Identities=26% Similarity=0.794 Sum_probs=24.4
Q ss_pred CcccccccccccccCCCcccccCCCCC
Q 041494 6 KKDLCRNFQRGSCQYGERCKFLHVTQQ 32 (279)
Q Consensus 6 ~~~vCrfF~~G~CrfG~~Crf~H~~~~ 32 (279)
..-||.||..|.|+-|..|-|-|..+.
T Consensus 160 ~p~Icsf~v~geckRG~ec~yrhEkp~ 186 (377)
T KOG0153|consen 160 RPHICSFFVKGECKRGAECPYRHEKPP 186 (377)
T ss_pred CCccccceeeccccccccccccccCCC
Confidence 446899999999999999999999883
No 26
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=37.95 E-value=15 Score=36.13 Aligned_cols=22 Identities=41% Similarity=0.895 Sum_probs=18.8
Q ss_pred cccccccccccCCCcccccCCCC
Q 041494 9 LCRNFQRGSCQYGERCKFLHVTQ 31 (279)
Q Consensus 9 vCrfF~~G~CrfG~~Crf~H~~~ 31 (279)
-|-=||.|+|.--+ |||.|+..
T Consensus 73 aC~Ds~kgrCsR~n-CkylHpp~ 94 (331)
T KOG2494|consen 73 ACFDSQKGRCSREN-CKYLHPPQ 94 (331)
T ss_pred EEeccccCccCccc-ceecCCCh
Confidence 38889999999766 99999876
No 27
>smart00309 PAH Pancreatic hormones / neuropeptide F / peptide YY family. Pancreatic hormone is a regulator of pancreatic and gastrointestinal functions.
Probab=37.86 E-value=56 Score=22.54 Aligned_cols=21 Identities=29% Similarity=0.191 Sum_probs=14.1
Q ss_pred CCCCCCCCCCHHHHHHHHHHHH
Q 041494 129 APCDIVGDISYEELRAAAYDDA 150 (279)
Q Consensus 129 ~P~~l~GD~SpEELRl~yYea~ 150 (279)
+|.....|-|+|||| +||.+.
T Consensus 4 ~P~~Pg~~a~~e~l~-~Y~~~L 24 (36)
T smart00309 4 KPERPGDDASPEDLR-QYLAAL 24 (36)
T ss_pred CCCCCCCCCCHHHHH-HHHHHH
Confidence 455555699999977 555543
No 28
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=36.87 E-value=12 Score=36.76 Aligned_cols=25 Identities=28% Similarity=0.783 Sum_probs=21.1
Q ss_pred cccccccc-------c---cccCCC-cccccCCCCC
Q 041494 8 DLCRNFQR-------G---SCQYGE-RCKFLHVTQQ 32 (279)
Q Consensus 8 ~vCrfF~~-------G---~CrfG~-~Crf~H~~~~ 32 (279)
.||+||+- | .|-+|. .|-|-|..|.
T Consensus 157 iVCKfFLeAvE~~kYGWfW~CPnGg~~C~YrHaLP~ 192 (343)
T KOG1763|consen 157 IVCKFFLEAVENGKYGWFWECPNGGDKCIYRHALPE 192 (343)
T ss_pred HHHHHHHHHHhcCCccceeECCCCCCeeeeeecCCc
Confidence 38999995 3 499887 9999999985
No 29
>COG4752 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.15 E-value=65 Score=29.18 Aligned_cols=48 Identities=23% Similarity=0.145 Sum_probs=33.0
Q ss_pred CchHHHHHHHHHhhhcCCCeeeeeeccCCCCCCCCCCCCCHHHHHHHHHHHH
Q 041494 99 DPDSCKRIIAEDFELERPLWKLTCYGHWKNAPCDIVGDISYEELRAAAYDDA 150 (279)
Q Consensus 99 d~~~~~~~I~~Dl~~e~pqW~LScYgp~K~~P~~l~GD~SpEELRl~yYea~ 150 (279)
+....++.+.+|++++.++=||-..-..|-.|+ ++|++++|-+..+.-
T Consensus 86 ~l~~~le~ViEdIEk~eG~rPLi~~TsAr~~~N----~isy~~lr~~I~e~d 133 (190)
T COG4752 86 RLAYTLEEVIEDIEKEEGRRPLIVGTSARTYPN----TISYSWLRNEIQERD 133 (190)
T ss_pred hHHHHHHHHHHHHHhhcCCCceEEeccccccCC----cccHHHHHHHHhhcC
Confidence 455667888889986666556666655653333 899999997776643
No 30
>PF07225 NDUF_B4: NADH-ubiquinone oxidoreductase B15 subunit (NDUFB4); InterPro: IPR009866 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This family contains human NADH-ubiquinone oxidoreductase subunit NDUFB4 and related sequences.; GO: 0008137 NADH dehydrogenase (ubiquinone) activity, 0005739 mitochondrion
Probab=34.15 E-value=1.1e+02 Score=26.21 Aligned_cols=44 Identities=20% Similarity=0.146 Sum_probs=28.2
Q ss_pred cCCCCCCCCCC---CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHhhCCCC
Q 041494 125 HWKNAPCDIVG---DISYEELRAAAYDDAKCGSSLHSIVERERNLLNSNLMKFDNLLRNPYT 183 (279)
Q Consensus 125 p~K~~P~~l~G---D~SpEELRl~yYea~a~Gn~~qyi~e~E~qL~~~~~~~m~~iL~n~~~ 183 (279)
|++..|.-|-+ |+|+||.|++... ..+-.+.++++.+-+.||+.
T Consensus 6 ~~~~~p~~l~p~eY~~SpE~r~a~~eR---------------~a~Ra~Lk~eYlkq~~nP~~ 52 (125)
T PF07225_consen 6 PLATLPKTLDPAEYDVSPEERRAQQER---------------AAIRARLKREYLKQYNNPHR 52 (125)
T ss_pred ccccCCCCCCHhhcCCCHHHHHHHHHH---------------HHHHHHHHHHHHHHcCCCCC
Confidence 34445555532 9999999965432 23444567778888888873
No 31
>cd00126 PAH Pancreatic Hormone domain, a regulator of pancreatic and gastrointestinal functions; neuropeptide Y (NPY)b, peptide YY (PYY), and pancreatic polypetide (PP) are closely related; propeptide is enzymatically cleaved to yield the mature active peptide with amidated C-terminal ends; receptor binding and activation functions may reside in the N- and C-termini respectively; occurs in neurons, intestinal endocrine cells, and pancreas; exist as monomers and dimers
Probab=33.24 E-value=62 Score=22.31 Aligned_cols=21 Identities=33% Similarity=0.245 Sum_probs=14.0
Q ss_pred CCCCCCCCCCHHHHHHHHHHHH
Q 041494 129 APCDIVGDISYEELRAAAYDDA 150 (279)
Q Consensus 129 ~P~~l~GD~SpEELRl~yYea~ 150 (279)
+|.....|-|+|||| +||.+.
T Consensus 4 ~P~~Pg~~a~~eel~-~Y~~~L 24 (36)
T cd00126 4 KPENPGDDASPEELR-QYLAAL 24 (36)
T ss_pred CCCCCCCCCCHHHHH-HHHHHH
Confidence 455455689999998 455543
No 32
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=32.70 E-value=18 Score=35.42 Aligned_cols=27 Identities=26% Similarity=0.560 Sum_probs=20.7
Q ss_pred CcccccccccccccCCCcccccCCCCC
Q 041494 6 KKDLCRNFQRGSCQYGERCKFLHVTQQ 32 (279)
Q Consensus 6 ~~~vCrfF~~G~CrfG~~Crf~H~~~~ 32 (279)
....|++|-+|.|+-|..|++.|....
T Consensus 133 ~~k~c~~~~~g~c~~g~~c~~~h~~~~ 159 (325)
T KOG1040|consen 133 AIKKCKWYKEGFCRGGPSCKKRHERKV 159 (325)
T ss_pred hhhccchhhhccCCCcchhhhhhhccc
Confidence 345688888888888888888887764
No 33
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=31.38 E-value=16 Score=34.94 Aligned_cols=27 Identities=30% Similarity=0.890 Sum_probs=22.0
Q ss_pred Cccccccccc-------c---cccCCC-cccccCCCCC
Q 041494 6 KKDLCRNFQR-------G---SCQYGE-RCKFLHVTQQ 32 (279)
Q Consensus 6 ~~~vCrfF~~-------G---~CrfG~-~Crf~H~~~~ 32 (279)
...||+||+- | .|-+|+ +|-|-|-.|.
T Consensus 140 td~VCkffieA~e~GkYgw~W~CPng~~~C~y~H~Lp~ 177 (299)
T COG5252 140 TDRVCKFFIEAMESGKYGWGWTCPNGNMRCSYIHKLPD 177 (299)
T ss_pred hhHHHHHHHHHHhcCCccceeeCCCCCceeeeeeccCc
Confidence 3458999995 2 599986 9999999985
No 34
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=31.32 E-value=23 Score=33.86 Aligned_cols=26 Identities=31% Similarity=0.795 Sum_probs=15.5
Q ss_pred CcccccccccccccCCCcccccCCCC
Q 041494 6 KKDLCRNFQRGSCQYGERCKFLHVTQ 31 (279)
Q Consensus 6 ~~~vCrfF~~G~CrfG~~Crf~H~~~ 31 (279)
+++||.-|+.|+|.-.+.|...|...
T Consensus 232 rkticpkflngrcnkaedcnlsheld 257 (377)
T KOG1492|consen 232 RKTICPKFLNGRCNKAEDCNLSHELD 257 (377)
T ss_pred ccccChHHhcCccCchhcCCcccccC
Confidence 45566666666666666666666543
No 35
>PF10283 zf-CCHH: Zinc-finger (CX5CX6HX5H) motif; InterPro: IPR019406 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 Znf motif that in humans is part of the APLF (aprataxin- and PNK-like) forkead association domain-containing protein []. The Znf is highly conserved both in primary sequence and in the spacing between the putative zinc coordinating residues, and is configured CX5CX6HX5H. Many of the proteins containing this Znf are involved in DNA strand break repair and/or contain domains implicated in DNA metabolism. This Znf motif appears to be specialised for the non-covalent binding of poly ADP-ribose; Aprataxin also appears to covalently bind poly ADP-ribose, but not through its Znf motif [].; PDB: 2KQC_A 2KUO_A 2KQE_A 2KQD_A 2KQB_A.
Probab=31.04 E-value=17 Score=23.45 Aligned_cols=10 Identities=40% Similarity=1.222 Sum_probs=6.0
Q ss_pred cccCCCcccc
Q 041494 17 SCQYGERCKF 26 (279)
Q Consensus 17 ~CrfG~~Crf 26 (279)
.|+||.+|.-
T Consensus 2 ~C~YG~~CYR 11 (26)
T PF10283_consen 2 PCKYGAKCYR 11 (26)
T ss_dssp E-TTGGG-S-
T ss_pred CCCcchhhhc
Confidence 4999999964
No 36
>PF10260 SAYSvFN: Uncharacterized conserved domain (SAYSvFN); InterPro: IPR019387 This domain of approximately 75 residues contains a highly conserved SATSv/iFN motif. The function is unknown but the domain is conserved from plants to humans.
Probab=26.87 E-value=47 Score=25.96 Aligned_cols=28 Identities=18% Similarity=0.292 Sum_probs=21.4
Q ss_pred CCeeeeeeccCCCCCCCCCCCCCHHHHH
Q 041494 116 PLWKLTCYGHWKNAPCDIVGDISYEELR 143 (279)
Q Consensus 116 pqW~LScYgp~K~~P~~l~GD~SpEELR 143 (279)
...-+|+||.....-.-+.|++.+|++=
T Consensus 40 ~~ge~SAYSVFN~~~~~i~Gtl~aE~~e 67 (71)
T PF10260_consen 40 KPGELSAYSVFNKGCERIPGTLTAEQFE 67 (71)
T ss_pred CCCCccchhhhCCCccccCCCCCHHHHH
Confidence 3345999999975555678999999863
No 37
>KOG3988 consensus Protein-tyrosine sulfotransferase TPST1/TPST2 [Posttranslational modification, protein turnover, chaperones]
Probab=24.74 E-value=1.6e+02 Score=29.41 Aligned_cols=96 Identities=22% Similarity=0.179 Sum_probs=56.7
Q ss_pred CCCHH---------HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCCCC-CCCCCCccccCCCCCC
Q 041494 136 DISYE---------ELRAAAYDDAKCGSSLHSIVERERNLLNSNLMKFDNLLRNPYTGPCNSA-LSGQSPFAAASPNAFS 205 (279)
Q Consensus 136 D~SpE---------ELRl~yYea~a~Gn~~qyi~e~E~qL~~~~~~~m~~iL~n~~~~~~~sa-~p~~~pf~~~~~~~~~ 205 (279)
|+|-+ ++|.+|.++...|.-.=-.+..| +|...-+..|+.||+.++. |=+-+ .--. -+ ..+|+-.+
T Consensus 205 dlssyr~c~tkWN~aie~M~~QC~~vg~~~Cl~VyYE-qLVlhPe~~mr~Il~FLdi-pw~d~vLhHe-dl-Igk~~gVs 280 (378)
T KOG3988|consen 205 DLSSYRQCMTKWNQAIEVMYFQCMEVGKKKCLKVYYE-QLVLHPEEWMRRILKFLDI-PWSDAVLHHE-DL-IGKPGGVS 280 (378)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHhccccchhHHHHH-HHHhCHHHHHHHHHHHhCC-CcHHHHHhHH-Hh-cCCCCCCC
Confidence 77764 78999999988887433334443 3777778899999988872 11110 0000 00 00111111
Q ss_pred CCCCCCCCCccccccccCCCcchhhhhhhhhhcccc
Q 041494 206 PTPQDSTAPSLSSFNQVGSLPSLEALTKFVDQLFSG 241 (279)
Q Consensus 206 ~s~q~~~~p~~ssf~q~~~~~~~~~~~~~~~~~~~~ 241 (279)
-+ + +=-|..|+--+.|++||+|+|+.|=+-
T Consensus 281 Ls-----k-vErSsdQVikpVNl~AlskWvg~ip~d 310 (378)
T KOG3988|consen 281 LS-----K-VERSSDQVIKPVNLEALSKWVGCIPED 310 (378)
T ss_pred hh-----h-hhccHhhhhccccHHHHHHHhccCCHH
Confidence 11 1 112457888999999999999887443
No 38
>PF00159 Hormone_3: Pancreatic hormone peptide; InterPro: IPR001955 Pancreatic hormone (PP) [] is a peptide synthesized in pancreatic islets of Langherhans, which acts as a regulator of pancreatic and gastrointestinal functions. The hormone is produced as a larger propeptide, which is enzymatically cleaved to yield the mature active peptide: this is 36 amino acids in length [] and has an amidated C terminus []. The hormone has a globular structure, residues 2-8 forming a left-handed poly-proline-II-like helix, residues 9-13 a beta turn, and 14-32 an alpha-helix,held close to the first helix by hydrophobic interactions []. Unlike glucagon, another peptide hormone, the structure of pancreatic peptide is preserved in aqueous solution []. Both N and C termini are required for activity: receptor binding and activation functions may reside in the N and C termini respectively []. Pancreatic hormone is part of a wider family of active peptides that includes: Neuropeptide Y (NPY) [], one of the most abundant peptides in the mammalian nervous system. NPY is implicated in the control of feeding and the secretion of the gonadotrophin-releasing hormone. Peptide YY (PYY) []. PPY is a gut peptide that inhibits exocrine pancreatic secretion, has a vasoconstrictory action and inhibits jejunal and colonic mobility. Various NPY and PYY-like polypeptides from fish and amphibians [, ]. Neuropeptide F (NPF) from invertebrates such as worms and snail. Skin peptide Tyr-Tyr (SPYY) from the frog Phyllomedusa bicolor. SPYY shows a large spectra of antibacterial and antifungal activity. All these peptides are 36 to 39 amino acids long. Like most active peptides, their C-terminal is amidated and they are synthesized as larger protein precursors.; GO: 0005179 hormone activity, 0005576 extracellular region; PDB: 1LJV_A 1BBA_A 1V1D_A 1PPT_A 2H3T_A 2H4B_A 2BF9_A 2H3S_B 1K8V_A 2DF0_A ....
Probab=23.26 E-value=1.3e+02 Score=20.67 Aligned_cols=20 Identities=30% Similarity=0.124 Sum_probs=12.4
Q ss_pred CCCCCCCCCCHHHHHHHHHHH
Q 041494 129 APCDIVGDISYEELRAAAYDD 149 (279)
Q Consensus 129 ~P~~l~GD~SpEELRl~yYea 149 (279)
+|.....|-|+|||| +||.+
T Consensus 4 ~P~~P~~~aspeel~-~Y~~~ 23 (36)
T PF00159_consen 4 KPERPGDFASPEELA-QYYAA 23 (36)
T ss_dssp SSSSSSTTSSHHHHH-HHHHH
T ss_pred CCCCCCCCCCHHHHH-HHHHH
Confidence 344334489999988 44443
No 39
>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=21.18 E-value=38 Score=31.67 Aligned_cols=26 Identities=27% Similarity=0.608 Sum_probs=18.7
Q ss_pred CCcccccccccccccCC---------CcccccCCC
Q 041494 5 KKKDLCRNFQRGSCQYG---------ERCKFLHVT 30 (279)
Q Consensus 5 ~~~~vCrfF~~G~CrfG---------~~Crf~H~~ 30 (279)
.-..|||||+-|.|-+- -.|...|..
T Consensus 28 ~D~~VCk~~L~g~CPhdLF~nTK~DLG~C~kiHd~ 62 (254)
T PF03194_consen 28 TDPDVCKYFLVGFCPHDLFVNTKSDLGPCPKIHDE 62 (254)
T ss_pred CCcccCHHHHhCCCcHHHHhhcccccchhhhhcCH
Confidence 34579999999999863 256666653
No 40
>smart00549 TAFH TAF homology. Domain in Drosophila nervy, CBFA2T1, human TAF105, human TAF130, and Drosophila TAF110. Also known as nervy homology region 1 (NHR1).
Probab=20.87 E-value=3.3e+02 Score=22.45 Aligned_cols=49 Identities=14% Similarity=0.021 Sum_probs=33.3
Q ss_pred CCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHhhCCCCC
Q 041494 135 GDISYEELRAAAYDDAKCGSSLHSIVERERNLLNSNLMKFDNLLRNPYTG 184 (279)
Q Consensus 135 GD~SpEELRl~yYea~a~Gn~~qyi~e~E~qL~~~~~~~m~~iL~n~~~~ 184 (279)
|.+++||.+...|++.... ++.|+.-.=++-+-...+++.++-.-+.+.
T Consensus 38 ~~i~~EeF~~~Lq~~lns~-~qP~lvPFLK~slp~Lr~~l~~~~~~i~q~ 86 (92)
T smart00549 38 GTITAEEFTSRLQEALNSP-LQPYLIPFLKNSLPLLRRELLHCARLIEQS 86 (92)
T ss_pred CCCCHHHHHHHHHHHHcCC-CCchhHHHHHHhhHHHHHHHHHHHHHhcCC
Confidence 5799999999999999987 777765552333334455555555555443
No 41
>KOG3331 consensus Mitochondrial/chloroplast ribosomal protein L4/L29 [Translation, ribosomal structure and biogenesis]
Probab=20.64 E-value=1.7e+02 Score=27.24 Aligned_cols=23 Identities=30% Similarity=0.293 Sum_probs=14.2
Q ss_pred cCCCCCCCCCC-CCCHHHHHHHHH
Q 041494 125 HWKNAPCDIVG-DISYEELRAAAY 147 (279)
Q Consensus 125 p~K~~P~~l~G-D~SpEELRl~yY 147 (279)
+..+.|..-.| --+.|||||+-+
T Consensus 53 ~~~~~p~~k~GR~W~aeELR~KS~ 76 (213)
T KOG3331|consen 53 SADEEPPVKHGRAWSAEELRLKSF 76 (213)
T ss_pred ChhhcCCcccCCccchHHHhcchh
Confidence 33344444444 689999998643
Done!