Query psy16443
Match_columns 412
No_of_seqs 205 out of 424
Neff 4.6
Searched_HMMs 46136
Date Fri Aug 16 21:29:01 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16443.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16443hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3183|consensus 100.0 2.1E-38 4.5E-43 301.0 1.7 180 162-399 1-220 (250)
2 PF05839 Apc13p: Apc13p protei 99.5 8.9E-15 1.9E-19 121.8 1.4 67 84-150 1-82 (88)
3 PF01428 zf-AN1: AN1-like Zinc 99.1 1.5E-11 3.3E-16 89.5 2.0 38 172-209 1-38 (43)
4 smart00154 ZnF_AN1 AN1-like Zi 99.1 6.2E-11 1.3E-15 85.0 2.3 35 172-208 1-36 (39)
5 PF01428 zf-AN1: AN1-like Zinc 98.2 4.1E-07 9E-12 66.2 1.3 35 228-262 1-38 (43)
6 smart00154 ZnF_AN1 AN1-like Zi 97.4 8.3E-05 1.8E-09 53.5 1.6 30 232-261 3-36 (39)
7 COG3582 Predicted nucleic acid 96.3 0.0035 7.6E-08 58.1 3.6 86 178-263 7-136 (162)
8 KOG3183|consensus 95.8 0.0035 7.5E-08 61.3 0.9 40 226-265 9-51 (250)
9 COG3582 Predicted nucleic acid 93.7 0.035 7.5E-07 51.7 1.8 37 171-209 99-135 (162)
10 KOG3173|consensus 92.2 0.071 1.5E-06 49.7 1.6 33 172-207 108-141 (167)
11 PF04236 Transp_Tc5_C: Tc5 tra 80.6 1.1 2.3E-05 35.8 1.8 39 166-206 24-63 (63)
12 PF11976 Rad60-SLD: Ubiquitin- 76.2 4.9 0.00011 31.1 4.4 50 350-409 11-60 (72)
13 PF13465 zf-H2C2_2: Zinc-finge 72.9 1.3 2.7E-05 28.9 0.2 12 183-194 13-24 (26)
14 PF07975 C1_4: TFIIH C1-like d 68.2 2.5 5.5E-05 32.4 1.0 27 182-208 19-48 (51)
15 PF13912 zf-C2H2_6: C2H2-type 67.3 1.9 4.2E-05 27.5 0.2 13 184-196 1-13 (27)
16 PF01485 IBR: IBR domain; Int 63.5 4.9 0.00011 30.0 1.8 33 226-258 19-60 (64)
17 KOG3173|consensus 59.8 6.9 0.00015 36.6 2.4 33 226-261 106-142 (167)
18 smart00647 IBR In Between Ring 59.0 17 0.00037 27.1 4.1 52 138-204 1-59 (64)
19 smart00647 IBR In Between Ring 56.7 7.2 0.00016 29.2 1.6 30 227-256 20-56 (64)
20 KOG3751|consensus 52.4 26 0.00056 38.6 5.5 60 307-379 169-228 (622)
21 PF04236 Transp_Tc5_C: Tc5 tra 51.7 9.6 0.00021 30.4 1.7 30 225-256 27-56 (63)
22 cd01763 Sumo Small ubiquitin-r 47.7 60 0.0013 26.5 5.9 58 326-399 5-62 (87)
23 PHA00616 hypothetical protein 44.8 7 0.00015 29.2 -0.1 13 184-196 1-13 (44)
24 COG5222 Uncharacterized conser 43.8 18 0.00039 37.3 2.6 63 132-199 240-302 (427)
25 cd01787 GRB7_RA RA (RAS-associ 43.8 55 0.0012 27.7 5.1 38 335-379 5-42 (85)
26 PF00096 zf-C2H2: Zinc finger, 42.8 8.5 0.00018 23.5 0.1 10 185-194 1-10 (23)
27 KOG2462|consensus 42.7 7.9 0.00017 39.1 -0.1 11 240-250 243-253 (279)
28 TIGR00622 ssl1 transcription f 41.8 27 0.00058 31.0 3.1 72 183-260 14-107 (112)
29 cd01784 rasfadin_RA Ubiquitin- 36.7 69 0.0015 27.3 4.6 41 350-396 13-55 (87)
30 PF06524 NOA36: NOA36 protein; 36.6 13 0.00028 37.6 0.3 56 184-255 142-197 (314)
31 PF13894 zf-C2H2_4: C2H2-type 36.4 14 0.0003 21.9 0.3 10 185-194 1-10 (24)
32 PF00788 RA: Ras association ( 33.8 1.5E+02 0.0033 23.3 6.1 41 332-375 2-42 (93)
33 cd01778 RASSF1_RA Ubiquitin-li 33.5 1.3E+02 0.0027 26.2 5.8 52 332-396 6-60 (96)
34 PF04438 zf-HIT: HIT zinc fing 31.9 24 0.00051 24.1 0.9 22 171-196 4-25 (30)
35 PHA02768 hypothetical protein; 30.5 21 0.00045 27.9 0.5 15 182-196 3-17 (55)
36 PF02891 zf-MIZ: MIZ/SP-RING z 30.2 16 0.00034 27.5 -0.2 36 157-192 6-49 (50)
37 cd00065 FYVE FYVE domain; Zinc 30.0 30 0.00064 25.6 1.3 28 171-200 4-34 (57)
38 PF12436 USP7_ICP0_bdg: ICP0-b 28.5 1.2E+02 0.0026 29.7 5.5 35 350-392 190-224 (249)
39 KOG1812|consensus 27.7 22 0.00049 37.2 0.4 80 171-253 235-336 (384)
40 KOG4216|consensus 26.9 36 0.00078 36.3 1.7 25 184-208 63-87 (479)
41 smart00064 FYVE Protein presen 26.2 36 0.00078 26.2 1.2 29 170-200 11-42 (68)
42 smart00295 B41 Band 4.1 homolo 26.0 1.2E+02 0.0025 27.4 4.7 39 334-379 5-43 (207)
43 smart00451 ZnF_U1 U1-like zinc 25.9 28 0.00061 23.1 0.5 14 184-197 3-16 (35)
44 cd01782 AF6_RA_repeat1 Ubiquit 25.8 1.5E+02 0.0032 26.5 4.9 44 349-396 35-81 (112)
45 PF04110 APG12: Ubiquitin-like 24.4 78 0.0017 26.8 2.9 52 350-410 16-67 (87)
46 KOG2807|consensus 24.4 65 0.0014 33.7 2.9 116 136-259 224-370 (378)
47 PF08825 E2_bind: E2 binding d 24.3 51 0.0011 27.5 1.8 35 355-390 2-38 (84)
48 cd01611 GABARAP Ubiquitin doma 24.3 3.8E+02 0.0082 23.5 7.3 84 309-411 9-92 (112)
49 smart00314 RA Ras association 24.2 1E+02 0.0022 24.8 3.6 29 350-378 16-44 (90)
50 smart00355 ZnF_C2H2 zinc finge 23.5 34 0.00074 20.2 0.5 11 185-195 1-11 (26)
51 PF12171 zf-C2H2_jaz: Zinc-fin 23.0 42 0.0009 21.6 0.8 12 185-196 2-13 (27)
52 PF09379 FERM_N: FERM N-termin 21.6 1.1E+02 0.0024 23.8 3.2 29 350-378 7-35 (80)
53 KOG3439|consensus 21.3 5.3E+02 0.012 23.1 7.5 34 352-392 47-80 (116)
54 KOG3896|consensus 20.9 56 0.0012 34.4 1.6 50 177-229 15-68 (449)
55 TIGR00622 ssl1 transcription f 20.7 50 0.0011 29.3 1.1 26 184-209 81-109 (112)
No 1
>KOG3183|consensus
Probab=100.00 E-value=2.1e-38 Score=301.01 Aligned_cols=180 Identities=32% Similarity=0.631 Sum_probs=143.3
Q ss_pred cccccccccccCcCCCCCcccccccCcccccccccCCCCCCCcccCCCCCc-------------c------------ccC
Q psy16443 162 IMELPQLGKQCGEPTCKQLDFLPFQCDLCKNIYCKEHMNPVQHNCTEYKDN-------------V------------LLE 216 (412)
Q Consensus 162 ~ME~~dIGkHCs~~~C~QLDFLPF~C~~C~k~FC~eHrs~~aH~C~~~~~~-------------v------------~~~ 216 (412)
.|||||+|+||++++|+|||||||+|+.|++.||+|||++++|+||..... + .++
T Consensus 1 ~~efpDlGkHCs~~~CkqlDFLPf~Cd~C~~~FC~eHrsye~H~Cp~~~~~~~~v~icp~cs~pv~~~~de~~~~~v~~h 80 (250)
T KOG3183|consen 1 TMEFPDLGKHCSVPYCKQLDFLPFKCDGCSGIFCLEHRSYESHHCPKGLRIDVQVPICPLCSKPVPTKKDEAPDKVVEPH 80 (250)
T ss_pred CCcccccccccCcchhhhccccceeeCCccchhhhccchHhhcCCCcccccceeecccCCCCCCCCCCCCcchhhhhchh
Confidence 599999999999999999999999999999999999999999999854210 0 000
Q ss_pred --------CC-CCCccccccCCCCCCCcccccc--cccccccccccCCCCc---cCCCccchHHHHHHHHhhcCchhHHH
Q psy16443 217 --------KP-TTTSIVSYKCSESGCSTLDQVE--MLCEQCKHHFCVGHRF---HACHQVETSRRKMLREQWKIPKEQFK 282 (412)
Q Consensus 217 --------k~-~~~~~~~~~Cs~~~Ck~~~~~~--v~C~~C~k~FCl~HR~---H~C~~~~~~ar~~K~~~~~~~K~q~~ 282 (412)
.. ......+++|+.++|++++... +.|.+|+++||++||| |.|.
T Consensus 81 ~~~dC~~~~~~~~~k~~t~kc~~~~c~k~~~~~~~~~c~~c~~~~c~khr~~~dhsc~---------------------- 138 (250)
T KOG3183|consen 81 ISNDCDRHPEQKKRKVFTNKCPVPRCKKTLTLANKITCSKCGRNFCLKHRHPLDHSCN---------------------- 138 (250)
T ss_pred hccccccCchhhhcccccccCCchhhHHHHHHHHhhhhHhhcchhhhhccCCCCchhh----------------------
Confidence 00 0122346779999999988755 8999999999999998 7775
Q ss_pred HHHHHHHHHHHHHHhhhhhccCCchHHHHHHHHhhhccccCCCCCCCCCeEEEEEEccCCCCCCCCCccccEEEecCcch
Q psy16443 283 QAKLIADKQIEEKLSKAEIQTENRPLALKLRLMKLKSKAVGDHRIPTADRVYFNIHAPKIEPSPGQEKCKPIYVSRDWSL 362 (412)
Q Consensus 283 ~ak~~v~~~~~~~l~k~~~~sk~s~~A~KV~LmkLKk~AkGD~kIP~~dRVY~~V~~~~~~~~~~~~~~kpvffsK~WsV 362 (412)
| +||+||++|.||..+|+++|+|+|++++.+..++..-.+.+-+++|.|+|
T Consensus 139 ----------------------------~-~~~~~k~~a~~~~~~~~q~~~~~~~~~~~s~~~~~~~t~~~~~~~k~~d~ 189 (250)
T KOG3183|consen 139 ----------------------------K-QLGNLKKKAGGDKIGPMQNRIYIWTYLSSSSETAKECTRMARYIGKMWDV 189 (250)
T ss_pred ----------------------------h-hccCccccccccccccccceeeeeEeecCcccccccccccchhhccCccc
Confidence 1 67889999999999999999999999977643223345678899999999
Q ss_pred HhHHHHHHHHcCCccCCCCCCcccceeEec-cCCcccc
Q psy16443 363 GKVIDFAATKLKVVNENRNPGVSAKLRLFK-TSGEPIG 399 (412)
Q Consensus 363 GRvLD~iA~~L~V~N~N~N~~~~~KLrLF~-e~G~~L~ 399 (412)
|+.||++.. +| |..++.++|.++ ..|+..+
T Consensus 190 ~a~l~~ls~------n~-n~~~~~l~Rs~~~~~~e~~~ 220 (250)
T KOG3183|consen 190 GAALDYLSI------NL-NVKSSTLTRSLSQDKGELCP 220 (250)
T ss_pred chhhHHhhh------cc-ccchHHHHHHhhhhhhhhcc
Confidence 999999853 44 456667788888 6677655
No 2
>PF05839 Apc13p: Apc13p protein; InterPro: IPR008401 The anaphase-promoting complex (APC) is a conserved multi-subunit ubiquitin ligase required for the degradation of key cell cycle regulators. Members of this family are components of the anaphase-promoting complex homologous to Apc13p [].
Probab=99.47 E-value=8.9e-15 Score=121.79 Aligned_cols=67 Identities=42% Similarity=0.753 Sum_probs=54.6
Q ss_pred cccc---cccCCcEEEeccccccccCCCCCCCCCCCCCC------------CCCCCCCCccccccccccchhHHHHHHHH
Q psy16443 84 MDSQ---VQSQGRLLDIVDNEWKEDKLPSDDISVPQNEL------------PDPDSDNGDSHLTLREQESKWTDLALSQL 148 (412)
Q Consensus 84 mds~---~~~~g~liDIVDe~W~~d~LP~Ddi~vP~~~~------------~~~e~d~~ds~~~~~~~e~kW~dLaL~~~ 148 (412)
|||. ++.+++++|||||+|++|+||+|||+||...+ |++.++.+..+.+++.+|++|+||||.+|
T Consensus 1 rDS~~~yvh~~~~~~~il~eeW~~D~LP~DdIeip~~~~~~~~pe~ed~~vp~~~~~~g~~~~~~~~~E~~W~Dl~l~~L 80 (88)
T PF05839_consen 1 RDSYFSYVHLDGSHHDILDEEWNQDKLPFDDIEIPLPQLQNVNPEDEDDVVPDQSAAFGNKKNRQKEKEKDWNDLGLEEL 80 (88)
T ss_pred CCCcceeeecccchHHHHHHHHHhCcCCcccccCcccccCCCCcccccCcCCCccccchhhhhchhcchhhhhhhchhHH
Confidence 5777 89999999999999999999999999994433 22333344455788999999999999998
Q ss_pred HH
Q psy16443 149 IL 150 (412)
Q Consensus 149 ~~ 150 (412)
..
T Consensus 81 ~~ 82 (88)
T PF05839_consen 81 MS 82 (88)
T ss_pred hh
Confidence 76
No 3
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=99.14 E-value=1.5e-11 Score=89.49 Aligned_cols=38 Identities=45% Similarity=1.117 Sum_probs=29.6
Q ss_pred cCcCCCCCcccccccCcccccccccCCCCCCCcccCCC
Q psy16443 172 CGEPTCKQLDFLPFQCDLCKNIYCKEHMNPVQHNCTEY 209 (412)
Q Consensus 172 Cs~~~C~QLDFLPF~C~~C~k~FC~eHrs~~aH~C~~~ 209 (412)
|+++.|+++|||||+|++|++.||.+||.+++|.|+..
T Consensus 1 C~~~~C~~~~~~~~~C~~C~~~FC~~Hr~~e~H~C~~~ 38 (43)
T PF01428_consen 1 CSFPGCKKKDFLPFKCKHCGKSFCLKHRLPEDHNCSKL 38 (43)
T ss_dssp -SSTTT--BCTSHEE-TTTS-EE-TTTHSTTTCT-SST
T ss_pred CccCcCcCccCCCeECCCCCcccCccccCccccCCcch
Confidence 78999999999999999999999999999999999864
No 4
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=99.06 E-value=6.2e-11 Score=85.03 Aligned_cols=35 Identities=37% Similarity=0.903 Sum_probs=32.9
Q ss_pred cCcCCCCCcccc-cccCcccccccccCCCCCCCcccCC
Q psy16443 172 CGEPTCKQLDFL-PFQCDLCKNIYCKEHMNPVQHNCTE 208 (412)
Q Consensus 172 Cs~~~C~QLDFL-PF~C~~C~k~FC~eHrs~~aH~C~~ 208 (412)
|.+ |+++||| ||+|.+|++.||++||.++.|.|+.
T Consensus 1 C~~--C~~~~~l~~f~C~~C~~~FC~~HR~~e~H~C~~ 36 (39)
T smart00154 1 CHF--CRKKVGLTGFKCRHCGNLFCGEHRLPEDHDCPG 36 (39)
T ss_pred Ccc--cCCcccccCeECCccCCccccccCCccccCCcc
Confidence 555 9999999 9999999999999999999999975
No 5
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=98.22 E-value=4.1e-07 Score=66.22 Aligned_cols=35 Identities=37% Similarity=1.010 Sum_probs=26.0
Q ss_pred CCCCCCCcccccccccccccccccCCCCc---cCCCcc
Q psy16443 228 CSESGCSTLDQVEMLCEQCKHHFCVGHRF---HACHQV 262 (412)
Q Consensus 228 Cs~~~Ck~~~~~~v~C~~C~k~FCl~HR~---H~C~~~ 262 (412)
|++++|++.+.+++.|+.|++.||++||+ |.|...
T Consensus 1 C~~~~C~~~~~~~~~C~~C~~~FC~~Hr~~e~H~C~~~ 38 (43)
T PF01428_consen 1 CSFPGCKKKDFLPFKCKHCGKSFCLKHRLPEDHNCSKL 38 (43)
T ss_dssp -SSTTT--BCTSHEE-TTTS-EE-TTTHSTTTCT-SST
T ss_pred CccCcCcCccCCCeECCCCCcccCccccCccccCCcch
Confidence 78899999999999999999999999999 999854
No 6
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=97.38 E-value=8.3e-05 Score=53.48 Aligned_cols=30 Identities=30% Similarity=0.730 Sum_probs=26.9
Q ss_pred CCCccccc-ccccccccccccCCCCc---cCCCc
Q psy16443 232 GCSTLDQV-EMLCEQCKHHFCVGHRF---HACHQ 261 (412)
Q Consensus 232 ~Ck~~~~~-~v~C~~C~k~FCl~HR~---H~C~~ 261 (412)
.|++.+.. ++.|..|++.||++||+ |.|..
T Consensus 3 ~C~~~~~l~~f~C~~C~~~FC~~HR~~e~H~C~~ 36 (39)
T smart00154 3 FCRKKVGLTGFKCRHCGNLFCGEHRLPEDHDCPG 36 (39)
T ss_pred ccCCcccccCeECCccCCccccccCCccccCCcc
Confidence 48888777 99999999999999999 99973
No 7
>COG3582 Predicted nucleic acid binding protein containing the AN1-type Zn-finger [General function prediction only]
Probab=96.31 E-value=0.0035 Score=58.14 Aligned_cols=86 Identities=16% Similarity=0.365 Sum_probs=56.7
Q ss_pred CCcccccccCcccccccccCCCCCCCcccCCC-----CCcc--------------------cc-----CCC--------C
Q psy16443 178 KQLDFLPFQCDLCKNIYCKEHMNPVQHNCTEY-----KDNV--------------------LL-----EKP--------T 219 (412)
Q Consensus 178 ~QLDFLPF~C~~C~k~FC~eHrs~~aH~C~~~-----~~~v--------------------~~-----~k~--------~ 219 (412)
..--=||++|+.|.+.||.+|+..--|.|+-. ...+ .. .+. .
T Consensus 7 ~~~~~lP~r~~~~~kv~s~~~~~~~~~~f~~~i~~~~r~~i~k~~~~~~~~~~p~i~~~~~~~~~~~~~k~s~~~~~~~~ 86 (162)
T COG3582 7 VSETRLPSRGNITAKVSSTDNSLTLFSPFKLFIQLCDRKKIKKPDPGQAMKCLPLISSAVSNPSNTDTPKRSTRVPLNGP 86 (162)
T ss_pred ceeccCCccccceeeeccCccccccccccchhhhhhhhhccccCCCcchhhhcceEEEEeeccccccCcccccccccccc
Confidence 33445899999999999999999888888631 0000 00 000 0
Q ss_pred CCcc--ccccCCCCCC-CcccccccccccccccccCCCCc---cCCCccc
Q psy16443 220 TTSI--VSYKCSESGC-STLDQVEMLCEQCKHHFCVGHRF---HACHQVE 263 (412)
Q Consensus 220 ~~~~--~~~~Cs~~~C-k~~~~~~v~C~~C~k~FCl~HR~---H~C~~~~ 263 (412)
.... ....|....| ...+..+..|+.|+..||..||+ |.|..+.
T Consensus 87 ~~~~~~~t~~~a~~~~~g~~s~l~~~c~~c~g~fc~~h~lp~nhdc~~L~ 136 (162)
T COG3582 87 FDSGKGITDRCATPQCTGKGSTLAGKCNYCTGYFCAEHRLPENHDCNGLG 136 (162)
T ss_pred cccccccceeeecceeccCCccccccccCCCCcceeceecccccccccHH
Confidence 0000 1235655554 45566788999999999999999 9998543
No 8
>KOG3183|consensus
Probab=95.77 E-value=0.0035 Score=61.28 Aligned_cols=40 Identities=33% Similarity=0.690 Sum_probs=35.9
Q ss_pred ccCCCCCCCcccccccccccccccccCCCCc---cCCCccchH
Q psy16443 226 YKCSESGCSTLDQVEMLCEQCKHHFCVGHRF---HACHQVETS 265 (412)
Q Consensus 226 ~~Cs~~~Ck~~~~~~v~C~~C~k~FCl~HR~---H~C~~~~~~ 265 (412)
..|+.+.|++..+-|++|+.|+..||+.||. |.|......
T Consensus 9 kHCs~~~CkqlDFLPf~Cd~C~~~FC~eHrsye~H~Cp~~~~~ 51 (250)
T KOG3183|consen 9 KHCSVPYCKQLDFLPFKCDGCSGIFCLEHRSYESHHCPKGLRI 51 (250)
T ss_pred cccCcchhhhccccceeeCCccchhhhccchHhhcCCCccccc
Confidence 5799999999999999999999999999998 999855433
No 9
>COG3582 Predicted nucleic acid binding protein containing the AN1-type Zn-finger [General function prediction only]
Probab=93.74 E-value=0.035 Score=51.68 Aligned_cols=37 Identities=24% Similarity=0.534 Sum_probs=33.2
Q ss_pred ccCcCCCCCcccccccCcccccccccCCCCCCCcccCCC
Q psy16443 171 QCGEPTCKQLDFLPFQCDLCKNIYCKEHMNPVQHNCTEY 209 (412)
Q Consensus 171 HCs~~~C~QLDFLPF~C~~C~k~FC~eHrs~~aH~C~~~ 209 (412)
+|+. |..---||+.|++|++.||.+||.++.|.|...
T Consensus 99 ~~~~--~g~~s~l~~~c~~c~g~fc~~h~lp~nhdc~~L 135 (162)
T COG3582 99 TPQC--TGKGSTLAGKCNYCTGYFCAEHRLPENHDCNGL 135 (162)
T ss_pred ccee--ccCCccccccccCCCCcceeceecccccccccH
Confidence 5665 788899999999999999999999999999853
No 10
>KOG3173|consensus
Probab=92.24 E-value=0.071 Score=49.67 Aligned_cols=33 Identities=39% Similarity=1.049 Sum_probs=28.7
Q ss_pred cCcCCC-CCcccccccCcccccccccCCCCCCCcccC
Q psy16443 172 CGEPTC-KQLDFLPFQCDLCKNIYCKEHMNPVQHNCT 207 (412)
Q Consensus 172 Cs~~~C-~QLDFLPF~C~~C~k~FC~eHrs~~aH~C~ 207 (412)
|.. | +++.-..|+| -|+.+||..||.++.|.|+
T Consensus 108 C~~--C~kk~gltgf~C-rCG~~fC~~HRy~e~H~C~ 141 (167)
T KOG3173|consen 108 CFK--CRKKVGLTGFKC-RCGNTFCGTHRYPEQHDCS 141 (167)
T ss_pred hhh--hhhhhccccccc-ccCCcccccccCCcccccc
Confidence 665 5 4567779999 9999999999999999997
No 11
>PF04236 Transp_Tc5_C: Tc5 transposase C-terminal domain; InterPro: IPR007350 This domain corresponds to a C-terminal cysteine rich region that probably binds to a metal ion and could be DNA-binding. It is found in association with the DDE superfamily (IPR004875 from INTERPRO) and the Tc5 transposase family (IPR004906 from INTERPRO). More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=80.64 E-value=1.1 Score=35.79 Aligned_cols=39 Identities=26% Similarity=0.697 Sum_probs=33.8
Q ss_pred cccccccCcCCCCCcccccccCcccccccccCCCCC-CCccc
Q psy16443 166 PQLGKQCGEPTCKQLDFLPFQCDLCKNIYCKEHMNP-VQHNC 206 (412)
Q Consensus 166 ~dIGkHCs~~~C~QLDFLPF~C~~C~k~FC~eHrs~-~aH~C 206 (412)
.+....|..+.|+.+-|+ +|.+|++.+|-+|+-. +-|.|
T Consensus 24 ~~~~~~C~~~gC~~~s~I--~C~~Ckk~~Cf~Hfiv~~~H~C 63 (63)
T PF04236_consen 24 KNVAGDCDITGCNNTSFI--RCAYCKKSLCFNHFIVSEYHLC 63 (63)
T ss_pred CCCcCcCCCCCCCCcCEE--EccccCCcccccceeeeeeEcC
Confidence 456677999999999994 8999999999999996 67776
No 12
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=76.20 E-value=4.9 Score=31.08 Aligned_cols=50 Identities=20% Similarity=0.211 Sum_probs=35.9
Q ss_pred ccccEEEecCcchHhHHHHHHHHcCCccCCCCCCcccceeEeccCCcccchhhhHHHHhh
Q psy16443 350 KCKPIYVSRDWSLGKVIDFAATKLKVVNENRNPGVSAKLRLFKTSGEPIGDEFSQILGEL 409 (412)
Q Consensus 350 ~~kpvffsK~WsVGRvLD~iA~~L~V~N~N~N~~~~~KLrLF~e~G~~L~~~md~~l~~l 409 (412)
....+-+....+++++++.+|++.+++..+ .++++- +|+.|. .+.+++++
T Consensus 11 ~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~-------~~~l~f-dG~~L~--~~~T~~~~ 60 (72)
T PF11976_consen 11 KEIKFKVKPTTTVSKLIEKYCEKKGIPPEE-------SIRLIF-DGKRLD--PNDTPEDL 60 (72)
T ss_dssp EEEEEEEETTSCCHHHHHHHHHHHTTTT-T-------TEEEEE-TTEEE---TTSCHHHH
T ss_pred CEEEEEECCCCcHHHHHHHHHHhhCCCccc-------eEEEEE-CCEEcC--CCCCHHHC
Confidence 356788899999999999999999997744 445444 577777 55555543
No 13
>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=72.88 E-value=1.3 Score=28.87 Aligned_cols=12 Identities=25% Similarity=1.038 Sum_probs=10.7
Q ss_pred ccccCccccccc
Q psy16443 183 LPFQCDLCKNIY 194 (412)
Q Consensus 183 LPF~C~~C~k~F 194 (412)
=||.|+.|++.|
T Consensus 13 k~~~C~~C~k~F 24 (26)
T PF13465_consen 13 KPYKCPYCGKSF 24 (26)
T ss_dssp SSEEESSSSEEE
T ss_pred CCCCCCCCcCee
Confidence 389999999988
No 14
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=68.16 E-value=2.5 Score=32.43 Aligned_cols=27 Identities=30% Similarity=0.803 Sum_probs=15.2
Q ss_pred cccccCcccccccccC---CCCCCCcccCC
Q psy16443 182 FLPFQCDLCKNIYCKE---HMNPVQHNCTE 208 (412)
Q Consensus 182 FLPF~C~~C~k~FC~e---Hrs~~aH~C~~ 208 (412)
-..|+|+.|++.||.| -..+.-|+||.
T Consensus 19 ~~~y~C~~C~~~FC~dCD~fiHE~LH~CPG 48 (51)
T PF07975_consen 19 SSRYRCPKCKNHFCIDCDVFIHETLHNCPG 48 (51)
T ss_dssp -EEE--TTTT--B-HHHHHTTTTTS-SSST
T ss_pred CCeEECCCCCCccccCcChhhhccccCCcC
Confidence 3579999999999988 23455899985
No 15
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=67.29 E-value=1.9 Score=27.48 Aligned_cols=13 Identities=38% Similarity=1.168 Sum_probs=11.5
Q ss_pred cccCccccccccc
Q psy16443 184 PFQCDLCKNIYCK 196 (412)
Q Consensus 184 PF~C~~C~k~FC~ 196 (412)
||+|+.|++.|-.
T Consensus 1 ~~~C~~C~~~F~~ 13 (27)
T PF13912_consen 1 PFECDECGKTFSS 13 (27)
T ss_dssp SEEETTTTEEESS
T ss_pred CCCCCccCCccCC
Confidence 7999999999964
No 16
>PF01485 IBR: IBR domain; InterPro: IPR002867 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 a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=63.54 E-value=4.9 Score=29.99 Aligned_cols=33 Identities=21% Similarity=0.564 Sum_probs=21.3
Q ss_pred ccCCCCCCCcccc-----cc--cccccccccccCCCCc--cC
Q psy16443 226 YKCSESGCSTLDQ-----VE--MLCEQCKHHFCVGHRF--HA 258 (412)
Q Consensus 226 ~~Cs~~~Ck~~~~-----~~--v~C~~C~k~FCl~HR~--H~ 258 (412)
..|..++|..... .. +.|+.|+..||...+. |.
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~H~ 60 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPWHE 60 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSESCT
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCcccCC
Confidence 3677777876432 33 8999999999999876 64
No 17
>KOG3173|consensus
Probab=59.76 E-value=6.9 Score=36.59 Aligned_cols=33 Identities=30% Similarity=0.841 Sum_probs=23.9
Q ss_pred ccCCCCCCCcc-cccccccccccccccCCCCc---cCCCc
Q psy16443 226 YKCSESGCSTL-DQVEMLCEQCKHHFCVGHRF---HACHQ 261 (412)
Q Consensus 226 ~~Cs~~~Ck~~-~~~~v~C~~C~k~FCl~HR~---H~C~~ 261 (412)
..|- .|+++ -+.++.| .|+..||-.||| |.|..
T Consensus 106 ~rC~--~C~kk~gltgf~C-rCG~~fC~~HRy~e~H~C~f 142 (167)
T KOG3173|consen 106 KRCF--KCRKKVGLTGFKC-RCGNTFCGTHRYPEQHDCSF 142 (167)
T ss_pred hhhh--hhhhhhccccccc-ccCCcccccccCCccccccc
Confidence 3455 55543 3455666 699999999999 99983
No 18
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=58.97 E-value=17 Score=27.07 Aligned_cols=52 Identities=25% Similarity=0.434 Sum_probs=34.9
Q ss_pred chhHHHHHHHHHHHhhcccccccccccccccccccCcCCCCCcccc-------cccCcccccccccCCCCCCCc
Q psy16443 138 SKWTDLALSQLILFLNSQQHFVIFIMELPQLGKQCGEPTCKQLDFL-------PFQCDLCKNIYCKEHMNPVQH 204 (412)
Q Consensus 138 ~kW~dLaL~~~~~~~~~~~~~~~~~ME~~dIGkHCs~~~C~QLDFL-------PF~C~~C~k~FC~eHrs~~aH 204 (412)
++|.++.+.+..+ + ..-.+.|-.+.|...=.+ .+.|+.|+..||-.++.+ .|
T Consensus 1 ~~y~~~~~~~~i~---~-----------~~~~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~-~H 59 (64)
T smart00647 1 EKYERLLLESYVE---S-----------NPDLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVP-WH 59 (64)
T ss_pred ChHHHHHHHHHHh---c-----------CCCccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCc-CC
Confidence 4788888887444 1 112345776677554444 589999999999988774 45
No 19
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=56.67 E-value=7.2 Score=29.16 Aligned_cols=30 Identities=23% Similarity=0.666 Sum_probs=22.1
Q ss_pred cCCCCCCCcc-------cccccccccccccccCCCCc
Q psy16443 227 KCSESGCSTL-------DQVEMLCEQCKHHFCVGHRF 256 (412)
Q Consensus 227 ~Cs~~~Ck~~-------~~~~v~C~~C~k~FCl~HR~ 256 (412)
-|..++|... ....+.|+.|+..||...+.
T Consensus 20 ~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~ 56 (64)
T smart00647 20 WCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKV 56 (64)
T ss_pred CCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCC
Confidence 4666666542 23468899999999998886
No 20
>KOG3751|consensus
Probab=52.45 E-value=26 Score=38.59 Aligned_cols=60 Identities=18% Similarity=0.202 Sum_probs=47.4
Q ss_pred hHHHHHHHHhhhccccCCCCCCCCCeEEEEEEccCCCCCCCCCccccEEEecCcchHhHHHHHHHHcCCccCC
Q psy16443 307 PLALKLRLMKLKSKAVGDHRIPTADRVYFNIHAPKIEPSPGQEKCKPIYVSRDWSLGKVIDFAATKLKVVNEN 379 (412)
Q Consensus 307 ~~A~KV~LmkLKk~AkGD~kIP~~dRVY~~V~~~~~~~~~~~~~~kpvffsK~WsVGRvLD~iA~~L~V~N~N 379 (412)
+.|.||+|+..|..+ ....++++-|+..++ ..+.+-|..+|++|-|++.+|..-++.-++
T Consensus 169 akAdKI~lAl~klk~------a~vrklvVKvfseDg-------asksL~Vder~tardV~~lL~eKnH~~~d~ 228 (622)
T KOG3751|consen 169 AKADKIRLALEKLKE------AKVRKLVVKVFSEDG-------ASKSLLVDERMTARDVCQLLAEKNHCADDE 228 (622)
T ss_pred hhhHHHHHHHhcccc------ccccceeEEEEccCC-------ceeeEeecccccHHHHHHHHHHhhhhhccc
Confidence 458888877766655 234567777887665 568999999999999999999998887766
No 21
>PF04236 Transp_Tc5_C: Tc5 transposase C-terminal domain; InterPro: IPR007350 This domain corresponds to a C-terminal cysteine rich region that probably binds to a metal ion and could be DNA-binding. It is found in association with the DDE superfamily (IPR004875 from INTERPRO) and the Tc5 transposase family (IPR004906 from INTERPRO). More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=51.72 E-value=9.6 Score=30.40 Aligned_cols=30 Identities=27% Similarity=0.735 Sum_probs=25.3
Q ss_pred cccCCCCCCCcccccccccccccccccCCCCc
Q psy16443 225 SYKCSESGCSTLDQVEMLCEQCKHHFCVGHRF 256 (412)
Q Consensus 225 ~~~Cs~~~Ck~~~~~~v~C~~C~k~FCl~HR~ 256 (412)
...|...+|+... -+.|..|++.+|..|=.
T Consensus 27 ~~~C~~~gC~~~s--~I~C~~Ckk~~Cf~Hfi 56 (63)
T PF04236_consen 27 AGDCDITGCNNTS--FIRCAYCKKSLCFNHFI 56 (63)
T ss_pred cCcCCCCCCCCcC--EEEccccCCccccccee
Confidence 4678888999876 47899999999999965
No 22
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=47.71 E-value=60 Score=26.51 Aligned_cols=58 Identities=10% Similarity=0.170 Sum_probs=41.9
Q ss_pred CCCCCCeEEEEEEccCCCCCCCCCccccEEEecCcchHhHHHHHHHHcCCccCCCCCCcccceeEeccCCcccc
Q psy16443 326 RIPTADRVYFNIHAPKIEPSPGQEKCKPIYVSRDWSLGKVIDFAATKLKVVNENRNPGVSAKLRLFKTSGEPIG 399 (412)
Q Consensus 326 kIP~~dRVY~~V~~~~~~~~~~~~~~kpvffsK~WsVGRvLD~iA~~L~V~N~N~N~~~~~KLrLF~e~G~~L~ 399 (412)
++..++.|.+.|.-..+ ....|-+...-++.++++.+++..+|+=. ..|++. +|+.|.
T Consensus 5 ~~~~~~~i~I~v~~~~g-------~~~~~~v~~~~~l~~l~~~y~~~~gi~~~--------~~rf~f-~G~~L~ 62 (87)
T cd01763 5 KGEISEHINLKVKGQDG-------NEVFFKIKRSTPLKKLMEAYCQRQGLSMN--------SVRFLF-DGQRIR 62 (87)
T ss_pred CCCCCCeEEEEEECCCC-------CEEEEEEcCCCHHHHHHHHHHHHhCCCcc--------ceEEEE-CCeECC
Confidence 45667777777765433 45678899999999999999999988532 455555 466666
No 23
>PHA00616 hypothetical protein
Probab=44.80 E-value=7 Score=29.22 Aligned_cols=13 Identities=38% Similarity=0.810 Sum_probs=11.4
Q ss_pred cccCccccccccc
Q psy16443 184 PFQCDLCKNIYCK 196 (412)
Q Consensus 184 PF~C~~C~k~FC~ 196 (412)
||+|..|++.|..
T Consensus 1 pYqC~~CG~~F~~ 13 (44)
T PHA00616 1 MYQCLRCGGIFRK 13 (44)
T ss_pred CCccchhhHHHhh
Confidence 7999999999974
No 24
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=43.84 E-value=18 Score=37.29 Aligned_cols=63 Identities=17% Similarity=0.419 Sum_probs=46.4
Q ss_pred ccccccchhHHHHHHHHHHHhhcccccccccccccccccccCcCCCCCcccccccCcccccccccCCC
Q psy16443 132 TLREQESKWTDLALSQLILFLNSQQHFVIFIMELPQLGKQCGEPTCKQLDFLPFQCDLCKNIYCKEHM 199 (412)
Q Consensus 132 ~~~~~e~kW~dLaL~~~~~~~~~~~~~~~~~ME~~dIGkHCs~~~C~QLDFLPF~C~~C~k~FC~eHr 199 (412)
-++++.+-|.+.--..-+--.+--+ +-||.+++|.-.|-+ |+-|=--|.+=..|+.+||.+-.
T Consensus 240 v~qpdvqsWe~Yq~r~~a~~~~~Dq---v~k~~~~~i~LkCpl--c~~Llrnp~kT~cC~~~fc~eci 302 (427)
T COG5222 240 VAQPDVQSWEKYQQRTKAVAEIPDQ---VYKMQPPNISLKCPL--CHCLLRNPMKTPCCGHTFCDECI 302 (427)
T ss_pred EeccchHHHHHHHHHHHhhhhCchh---hhccCCCCccccCcc--hhhhhhCcccCccccchHHHHHH
Confidence 3556777898875544222222111 459999999999998 99999999999999999998643
No 25
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=43.81 E-value=55 Score=27.72 Aligned_cols=38 Identities=11% Similarity=0.123 Sum_probs=32.6
Q ss_pred EEEEccCCCCCCCCCccccEEEecCcchHhHHHHHHHHcCCccCC
Q psy16443 335 FNIHAPKIEPSPGQEKCKPIYVSRDWSLGKVIDFAATKLKVVNEN 379 (412)
Q Consensus 335 ~~V~~~~~~~~~~~~~~kpvffsK~WsVGRvLD~iA~~L~V~N~N 379 (412)
+.|+.+++ .++.+.|...|++|-|++.+|.+-++...+
T Consensus 5 vkv~~~Dg-------~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~ 42 (85)
T cd01787 5 VKVYSEDG-------ASKSLEVDERMTARDVCQLLVDKNHCQDDS 42 (85)
T ss_pred EEEEecCC-------CeeEEEEcCCCcHHHHHHHHHHHhCCCCCC
Confidence 44666554 579999999999999999999999998877
No 26
>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=42.83 E-value=8.5 Score=23.48 Aligned_cols=10 Identities=20% Similarity=1.155 Sum_probs=8.3
Q ss_pred ccCccccccc
Q psy16443 185 FQCDLCKNIY 194 (412)
Q Consensus 185 F~C~~C~k~F 194 (412)
|+|+.|++.|
T Consensus 1 y~C~~C~~~f 10 (23)
T PF00096_consen 1 YKCPICGKSF 10 (23)
T ss_dssp EEETTTTEEE
T ss_pred CCCCCCCCcc
Confidence 6788888887
No 27
>KOG2462|consensus
Probab=42.67 E-value=7.9 Score=39.11 Aligned_cols=11 Identities=27% Similarity=0.866 Sum_probs=7.5
Q ss_pred ccccccccccc
Q psy16443 240 EMLCEQCKHHF 250 (412)
Q Consensus 240 ~v~C~~C~k~F 250 (412)
...|.+|+|.|
T Consensus 243 ~~qC~~C~KsF 253 (279)
T KOG2462|consen 243 KHQCPRCGKSF 253 (279)
T ss_pred cccCcchhhHH
Confidence 45577777776
No 28
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=41.78 E-value=27 Score=30.97 Aligned_cols=72 Identities=28% Similarity=0.497 Sum_probs=38.0
Q ss_pred ccccCcccccccccCCCCCC--CcccCCCC-CccccCCCCCCccccccCCCCCCCcccc-------------cccccccc
Q psy16443 183 LPFQCDLCKNIYCKEHMNPV--QHNCTEYK-DNVLLEKPTTTSIVSYKCSESGCSTLDQ-------------VEMLCEQC 246 (412)
Q Consensus 183 LPF~C~~C~k~FC~eHrs~~--aH~C~~~~-~~v~~~k~~~~~~~~~~Cs~~~Ck~~~~-------------~~v~C~~C 246 (412)
||..|..|+.+-=+.+..-. .|-.|-.+ ..+... ....+..|. +|.+.-. ....|+.|
T Consensus 14 LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~----~~~~~~~C~--~C~~~f~~~~~~~~~~~~~~~~y~C~~C 87 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLE----EYNGSRFCF--GCQGPFPKPPVSPFDELKDSHRYVCAVC 87 (112)
T ss_pred CCCcCCcCCCEEeccchHHHhhhccCCCccccccccc----ccCCCCccc--CcCCCCCCcccccccccccccceeCCCC
Confidence 78888888887655542222 23344221 111111 111123354 6665322 23469999
Q ss_pred cccccCC-----CCc-cCCC
Q psy16443 247 KHHFCVG-----HRF-HACH 260 (412)
Q Consensus 247 ~k~FCl~-----HR~-H~C~ 260 (412)
++.||.. |-- |+|.
T Consensus 88 ~~~FC~dCD~fiHe~Lh~CP 107 (112)
T TIGR00622 88 KNVFCVDCDVFVHESLHCCP 107 (112)
T ss_pred CCccccccchhhhhhccCCc
Confidence 9999944 433 7775
No 29
>cd01784 rasfadin_RA Ubiquitin-like domain of Rasfadin. rasfadin_RA Rasfadin (RASSF2) belongs to a family of Ras effectors/tumor suppressors that includes RASSF1 and NORE1. RASSF2 binds directly to K-Ras in a GTP-dependent manner via its RA (RAS-associated) domain. RASSF2 promotes apoptosis and cell cycle arrest and is frequently down-regulated in lung tumor cell lines
Probab=36.69 E-value=69 Score=27.33 Aligned_cols=41 Identities=22% Similarity=0.392 Sum_probs=33.6
Q ss_pred ccccEEEecCcchHhHHHHHHHHcCCccCCCCCCcccceeEec--cCCc
Q psy16443 350 KCKPIYVSRDWSLGKVIDFAATKLKVVNENRNPGVSAKLRLFK--TSGE 396 (412)
Q Consensus 350 ~~kpvffsK~WsVGRvLD~iA~~L~V~N~N~N~~~~~KLrLF~--e~G~ 396 (412)
..+.++||..-++.-||..+-..++|.|+. .|.-||. ++|+
T Consensus 13 s~~~v~VsS~~tt~eVI~~LL~KFkv~~~p------~~FALy~vh~~Ge 55 (87)
T cd01784 13 SVTNVRINSTMTTPQVLKLLLNKFKIENSA------EEFALYIVHTSGE 55 (87)
T ss_pred ceeEEEEecCCCHHHHHHHHHHhccccCCH------HHeEEEEEeeCCC
Confidence 457899999999999999999999998655 2555665 6665
No 30
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=36.64 E-value=13 Score=37.63 Aligned_cols=56 Identities=30% Similarity=0.794 Sum_probs=37.9
Q ss_pred cccCcccccccccCCCCCCCcccCCCCCccccCCCCCCccccccCCCCCCCcccccccccccccccccCCCC
Q psy16443 184 PFQCDLCKNIYCKEHMNPVQHNCTEYKDNVLLEKPTTTSIVSYKCSESGCSTLDQVEMLCEQCKHHFCVGHR 255 (412)
Q Consensus 184 PF~C~~C~k~FC~eHrs~~aH~C~~~~~~v~~~k~~~~~~~~~~Cs~~~Ck~~~~~~v~C~~C~k~FCl~HR 255 (412)
-|+|.+|....|.+---+.+-.|--. ...+++|. +|...- ...|-+|+--||..|-
T Consensus 142 if~CsfC~~flCEDDQFEHQAsCQvL------------e~E~~KC~--SCNrlG--q~sCLRCK~cfCddHv 197 (314)
T PF06524_consen 142 IFKCSFCDNFLCEDDQFEHQASCQVL------------ESETFKCQ--SCNRLG--QYSCLRCKICFCDDHV 197 (314)
T ss_pred EEEeecCCCeeeccchhhhhhhhhhh------------hccccccc--cccccc--chhhhheeeeehhhhh
Confidence 47888888888887666555566321 11236776 677643 5678899999998883
No 31
>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=36.35 E-value=14 Score=21.93 Aligned_cols=10 Identities=40% Similarity=1.258 Sum_probs=6.1
Q ss_pred ccCccccccc
Q psy16443 185 FQCDLCKNIY 194 (412)
Q Consensus 185 F~C~~C~k~F 194 (412)
|.|+.|+..|
T Consensus 1 ~~C~~C~~~~ 10 (24)
T PF13894_consen 1 FQCPICGKSF 10 (24)
T ss_dssp EE-SSTS-EE
T ss_pred CCCcCCCCcC
Confidence 6788888776
No 32
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=33.76 E-value=1.5e+02 Score=23.35 Aligned_cols=41 Identities=22% Similarity=0.225 Sum_probs=32.3
Q ss_pred eEEEEEEccCCCCCCCCCccccEEEecCcchHhHHHHHHHHcCC
Q psy16443 332 RVYFNIHAPKIEPSPGQEKCKPIYVSRDWSLGKVIDFAATKLKV 375 (412)
Q Consensus 332 RVY~~V~~~~~~~~~~~~~~kpvffsK~WsVGRvLD~iA~~L~V 375 (412)
+..+.||....... ...+.|-+++..|++.|+..+++++++
T Consensus 2 ~~~lrVy~~~~~~~---~~~k~i~v~~~tTa~evi~~~l~k~~l 42 (93)
T PF00788_consen 2 SGVLRVYDGDGSPG---STYKTIKVSSSTTAREVIEMALEKFGL 42 (93)
T ss_dssp EEEEEEEETTSSSC---CSEEEEEEETTSBHHHHHHHHHHHTTT
T ss_pred CeEEEEEcCCCCCC---ccEEEEEECCCCCHHHHHHHHHHHhCC
Confidence 44566777655211 247899999999999999999999999
No 33
>cd01778 RASSF1_RA Ubiquitin-like domain of RASSF1 tumour supproessor protein. RASSF1 (also known as RASSF3 and NORE1) is a tumour suppressor protein with a C-terminal Ras-associating (RA) domain that binds Ras. RASSF1 also binds the proapoptotic protein kinase MST1 and is thus thought to regulate the proapoptotic signalling pathway. RASSF1 also associates with microtubule-associated proteins like MAP1B and regulates tubulin polymerization. RASSF1 also binds CDC20 and regulates mitosis by inhibiting the anaphase-promoting complex and preventing degradation of cyclin A and cyclin B until the spindle checkpoint becomes fully operational.
Probab=33.49 E-value=1.3e+02 Score=26.17 Aligned_cols=52 Identities=27% Similarity=0.394 Sum_probs=39.0
Q ss_pred eEEEEEEccCCCCCCCCCccccEEEecCcchHhHHHHHHHHcCCccCCCCCCcccceeEec---cCCc
Q psy16443 332 RVYFNIHAPKIEPSPGQEKCKPIYVSRDWSLGKVIDFAATKLKVVNENRNPGVSAKLRLFK---TSGE 396 (412)
Q Consensus 332 RVY~~V~~~~~~~~~~~~~~kpvffsK~WsVGRvLD~iA~~L~V~N~N~N~~~~~KLrLF~---e~G~ 396 (412)
|.-+..++|.+ ..+.+.||..-++.-||..+-+.|+|.|+- .|.-||. ++|+
T Consensus 6 ~~~~sf~lp~~-------s~k~v~IsS~tTt~eVI~~LL~KF~v~~nP------~kFALYe~~h~~ge 60 (96)
T cd01778 6 RTSTSLPLPKD-------TAKHLHISSKTTVREVIEALLKKFLVVDNP------RKFALFEREHRTGQ 60 (96)
T ss_pred eEEEEEeccCC-------ceeEEEEecCCcHHHHHHHHHHhheeccCC------cceEEEEEEecCCc
Confidence 34444566765 468999999999999999999999996654 2555772 5665
No 34
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=31.89 E-value=24 Score=24.13 Aligned_cols=22 Identities=27% Similarity=0.851 Sum_probs=16.6
Q ss_pred ccCcCCCCCcccccccCccccccccc
Q psy16443 171 QCGEPTCKQLDFLPFQCDLCKNIYCK 196 (412)
Q Consensus 171 HCs~~~C~QLDFLPF~C~~C~k~FC~ 196 (412)
.|++ |+. +=.|+|+.|+..||+
T Consensus 4 ~C~v--C~~--~~kY~Cp~C~~~~CS 25 (30)
T PF04438_consen 4 LCSV--CGN--PAKYRCPRCGARYCS 25 (30)
T ss_dssp EETS--SSS--EESEE-TTT--EESS
T ss_pred CCcc--CcC--CCEEECCCcCCceeC
Confidence 4777 998 889999999999997
No 35
>PHA02768 hypothetical protein; Provisional
Probab=30.48 E-value=21 Score=27.93 Aligned_cols=15 Identities=40% Similarity=1.110 Sum_probs=12.4
Q ss_pred cccccCccccccccc
Q psy16443 182 FLPFQCDLCKNIYCK 196 (412)
Q Consensus 182 FLPF~C~~C~k~FC~ 196 (412)
.|-|.|+.|++.|=.
T Consensus 3 ~~~y~C~~CGK~Fs~ 17 (55)
T PHA02768 3 LLGYECPICGEIYIK 17 (55)
T ss_pred ccccCcchhCCeecc
Confidence 577899999999843
No 36
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 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 MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=30.21 E-value=16 Score=27.49 Aligned_cols=36 Identities=28% Similarity=0.743 Sum_probs=20.8
Q ss_pred ccccccccccccccccCcCCCCCc-ccc-------cccCccccc
Q psy16443 157 HFVIFIMELPQLGKQCGEPTCKQL-DFL-------PFQCDLCKN 192 (412)
Q Consensus 157 ~~~~~~ME~~dIGkHCs~~~C~QL-DFL-------PF~C~~C~k 192 (412)
++...+|+.|-=|.+|..-.|-.| .|| .++|+.|++
T Consensus 6 Pls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 6 PLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT--
T ss_pred CCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcC
Confidence 456788999999999999999777 555 456777765
No 37
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=30.03 E-value=30 Score=25.60 Aligned_cols=28 Identities=21% Similarity=0.729 Sum_probs=20.4
Q ss_pred ccCcCCCCC-cccc--cccCcccccccccCCCC
Q psy16443 171 QCGEPTCKQ-LDFL--PFQCDLCKNIYCKEHMN 200 (412)
Q Consensus 171 HCs~~~C~Q-LDFL--PF~C~~C~k~FC~eHrs 200 (412)
+|+. |+. +.|+ ..+|..|+..||.++..
T Consensus 4 ~C~~--C~~~F~~~~rk~~Cr~Cg~~~C~~C~~ 34 (57)
T cd00065 4 SCMG--CGKPFTLTRRRHHCRNCGRIFCSKCSS 34 (57)
T ss_pred cCcc--cCccccCCccccccCcCcCCcChHHcC
Confidence 4664 654 5666 57899999999987655
No 38
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=28.53 E-value=1.2e+02 Score=29.73 Aligned_cols=35 Identities=20% Similarity=0.393 Sum_probs=26.3
Q ss_pred ccccEEEecCcchHhHHHHHHHHcCCccCCCCCCcccceeEec
Q psy16443 350 KCKPIYVSRDWSLGKVIDFAATKLKVVNENRNPGVSAKLRLFK 392 (412)
Q Consensus 350 ~~kpvffsK~WsVGRvLD~iA~~L~V~N~N~N~~~~~KLrLF~ 392 (412)
+.-.+|+|+.|+-.-+-..+|+.+++ +- .+||+|.
T Consensus 190 ~~F~l~ls~~~tY~~la~~Va~~l~~-dP-------~~lr~~~ 224 (249)
T PF12436_consen 190 PEFTLWLSKKMTYDQLAEKVAEHLNV-DP-------EHLRFFT 224 (249)
T ss_dssp --EEEEEETT--HHHHHHHHHHHHTS--G-------GGEEEE-
T ss_pred CCEEEEECCCCCHHHHHHHHHHHHCC-Ch-------HHEEEEE
Confidence 45679999999999999999999998 33 3899999
No 39
>KOG1812|consensus
Probab=27.72 E-value=22 Score=37.20 Aligned_cols=80 Identities=26% Similarity=0.521 Sum_probs=48.0
Q ss_pred ccCcCCCCCcccccc----------cCcccccccccCCCCC-CC-cccCCCCCccccCCCCCC-----ccccccCCCCCC
Q psy16443 171 QCGEPTCKQLDFLPF----------QCDLCKNIYCKEHMNP-VQ-HNCTEYKDNVLLEKPTTT-----SIVSYKCSESGC 233 (412)
Q Consensus 171 HCs~~~C~QLDFLPF----------~C~~C~k~FC~eHrs~-~a-H~C~~~~~~v~~~k~~~~-----~~~~~~Cs~~~C 233 (412)
.|.++.|-++=|... .|..|+..||-+=..+ ++ =.|..+..-......... ...-..|. .|
T Consensus 235 ycp~~~C~~l~~~~el~~~~~~~~~~C~~C~~~fCv~C~~~wh~~~sC~eykk~~~~~~~d~~~~~~la~~wr~Cp--kC 312 (384)
T KOG1812|consen 235 YCPYPRCSSLMSKTELSSEVKSKRRPCVKCHELFCVKCKVPWHANLSCEEYKKLNPEEYVDDITLKYLAKRWRQCP--KC 312 (384)
T ss_pred cCCCCCchHhhhhhhhccchhhcccccccCCCceeecCCCcCCCCCCHHHHHHhCCcccccHHHHHHHHHhcCcCc--cc
Confidence 899999988888655 7999999999886653 22 236433221110000000 01124565 66
Q ss_pred Cccc-----ccccccccccccccCC
Q psy16443 234 STLD-----QVEMLCEQCKHHFCVG 253 (412)
Q Consensus 234 k~~~-----~~~v~C~~C~k~FCl~ 253 (412)
+... -+-|.|. |+.+||-.
T Consensus 313 ~~~ie~~~GCnhm~Cr-C~~~fcy~ 336 (384)
T KOG1812|consen 313 KFMIELSEGCNHMTCR-CGHQFCYM 336 (384)
T ss_pred ceeeeecCCcceEEee-ccccchhh
Confidence 6531 3788999 99999843
No 40
>KOG4216|consensus
Probab=26.89 E-value=36 Score=36.31 Aligned_cols=25 Identities=16% Similarity=0.568 Sum_probs=20.8
Q ss_pred cccCcccccccccCCCCCCCcccCC
Q psy16443 184 PFQCDLCKNIYCKEHMNPVQHNCTE 208 (412)
Q Consensus 184 PF~C~~C~k~FC~eHrs~~aH~C~~ 208 (412)
-+.|+.|++-|=..-++...+.||.
T Consensus 63 VITCEGCKGFFRRSQ~s~a~YsCpR 87 (479)
T KOG4216|consen 63 VITCEGCKGFFRRSQQSNANYSCPR 87 (479)
T ss_pred eEeeccchHhhhhhhhccccccCCc
Confidence 4789999999988888888888874
No 41
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=26.03 E-value=1.2e+02 Score=27.41 Aligned_cols=39 Identities=8% Similarity=0.058 Sum_probs=31.8
Q ss_pred EEEEEccCCCCCCCCCccccEEEecCcchHhHHHHHHHHcCCccCC
Q psy16443 334 YFNIHAPKIEPSPGQEKCKPIYVSRDWSLGKVIDFAATKLKVVNEN 379 (412)
Q Consensus 334 Y~~V~~~~~~~~~~~~~~kpvffsK~WsVGRvLD~iA~~L~V~N~N 379 (412)
.+.|+++++ ..+.|-++..+++-.+++.+|+++++...+
T Consensus 5 ~~~V~l~dg-------~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~ 43 (207)
T smart00295 5 VLKVYLLDG-------TTLEFEVDSSTTAEELLETVCRKLGIRESE 43 (207)
T ss_pred EEEEEecCC-------CEEEEEECCCCCHHHHHHHHHHHhCCCccc
Confidence 355677766 356789999999999999999999997643
No 43
>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=25.87 E-value=28 Score=23.14 Aligned_cols=14 Identities=36% Similarity=0.902 Sum_probs=11.2
Q ss_pred cccCcccccccccC
Q psy16443 184 PFQCDLCKNIYCKE 197 (412)
Q Consensus 184 PF~C~~C~k~FC~e 197 (412)
||.|+.|+..|=.+
T Consensus 3 ~~~C~~C~~~~~~~ 16 (35)
T smart00451 3 GFYCKLCNVTFTDE 16 (35)
T ss_pred CeEccccCCccCCH
Confidence 68899999988743
No 44
>cd01782 AF6_RA_repeat1 Ubiquitin domain of AT-6, first repeat. The AF-6 protein (also known as afadin and canoe) is a multidomain cell junction protein that contains two N-terminal Ras-associating (RA) domains in addition to FHA (forkhead-associated), DIL (class V myosin homology region), and PDZ domains and a proline-rich region. AF6 acts downstream of the Egfr (Epidermal Growth Factor-receptor)/Ras signalling pathway and provides a link from Egfr to cytoskeletal elements.
Probab=25.76 E-value=1.5e+02 Score=26.48 Aligned_cols=44 Identities=25% Similarity=0.233 Sum_probs=34.3
Q ss_pred CccccEEEecCcchHhHHHHHHHHcCCccC-CCCCCcccceeEec--cCCc
Q psy16443 349 EKCKPIYVSRDWSLGKVIDFAATKLKVVNE-NRNPGVSAKLRLFK--TSGE 396 (412)
Q Consensus 349 ~~~kpvffsK~WsVGRvLD~iA~~L~V~N~-N~N~~~~~KLrLF~--e~G~ 396 (412)
...+.+.||+.-++.-||..+-+.++|.+. | +.++.-||. ++|+
T Consensus 35 ~atK~VrVsS~~tt~eVI~~LLeKFk~d~~~~----s~p~FALYevh~nGe 81 (112)
T cd01782 35 VATKCIRVSSTATTRDVIDTLSEKFRPDMRML----SNPTYSLYEVHENGE 81 (112)
T ss_pred EEEEEEEEecCCCHHHHHHHHHHHhccccccc----CCcceEEEEEecCCc
Confidence 457899999999999999999999999752 3 112555665 7775
No 45
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.
Probab=24.42 E-value=78 Score=26.82 Aligned_cols=52 Identities=25% Similarity=0.360 Sum_probs=31.9
Q ss_pred ccccEEEecCcchHhHHHHHHHHcCCccCCCCCCcccceeEeccCCcccchhhhHHHHhhh
Q psy16443 350 KCKPIYVSRDWSLGKVIDFAATKLKVVNENRNPGVSAKLRLFKTSGEPIGDEFSQILGELI 410 (412)
Q Consensus 350 ~~kpvffsK~WsVGRvLD~iA~~L~V~N~N~N~~~~~KLrLF~e~G~~L~~~md~~l~~l~ 410 (412)
+.+-+=++...+++.+++++-++|+++... .|++|- +.. .....|.+++.|.
T Consensus 16 k~~k~kI~~~~~f~~vi~fLrk~Lk~~~~~-------slFlYi-n~s-FaPspDe~vg~L~ 67 (87)
T PF04110_consen 16 KQKKFKISASQTFATVIAFLRKKLKLKPSD-------SLFLYI-NNS-FAPSPDETVGDLY 67 (87)
T ss_dssp S--EEEEETTSBTHHHHHHHHHHCT----S-------S-EEEE-EEE-E---TTSBHHHHH
T ss_pred cCcEEEECCCCchHHHHHHHHHHhCCccCC-------eEEEEE-cCc-cCCCchhHHHHHH
Confidence 345677999999999999999999996654 677776 222 2224566666664
No 46
>KOG2807|consensus
Probab=24.40 E-value=65 Score=33.69 Aligned_cols=116 Identities=24% Similarity=0.419 Sum_probs=0.0
Q ss_pred ccchhHHHHHHHHHH-Hhhccccccccccccc---ccccccCcCCCCC-cccccccCcccccccccCCCCCCCcccC---
Q psy16443 136 QESKWTDLALSQLIL-FLNSQQHFVIFIMELP---QLGKQCGEPTCKQ-LDFLPFQCDLCKNIYCKEHMNPVQHNCT--- 207 (412)
Q Consensus 136 ~e~kW~dLaL~~~~~-~~~~~~~~~~~~ME~~---dIGkHCs~~~C~Q-LDFLPF~C~~C~k~FC~eHrs~~aH~C~--- 207 (412)
.|+-..+|-+....+ =.|+-.-...-||-|| ..+.. ++-.|+. +--==|.|+.|+...|+ -.-.||
T Consensus 224 De~HlkeLl~e~~~Pp~~~~~~~~sLvkmGFP~~~~e~~p-s~C~CH~~~~~~Gy~CP~CkakvCs-----LP~eCpiC~ 297 (378)
T KOG2807|consen 224 DEGHLKELLLEHTHPPPANKSKECSLVKMGFPSRSPEDTP-SFCACHSELSGGGYFCPQCKAKVCS-----LPIECPICS 297 (378)
T ss_pred CHHHHHHHHHhcCCCCCcccccCCceEEecCCCcccccCc-chheeccccccCceeCCcccCeeec-----CCccCCccc
Q ss_pred ---------------CCCCccccCCCCCCccccccCCCCCCCcccc--cccccccccccccCC-CCc-----cCC
Q psy16443 208 ---------------EYKDNVLLEKPTTTSIVSYKCSESGCSTLDQ--VEMLCEQCKHHFCVG-HRF-----HAC 259 (412)
Q Consensus 208 ---------------~~~~~v~~~k~~~~~~~~~~Cs~~~Ck~~~~--~~v~C~~C~k~FCl~-HR~-----H~C 259 (412)
-.+-.--...+......+..|- +|..... ..+.|+.|+..||+. -+| |.|
T Consensus 298 ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf--~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~C 370 (378)
T KOG2807|consen 298 LTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCF--ACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNC 370 (378)
T ss_pred eeEecchHHHHHHHhhcCCcchhhccccccCCCccee--eeccccCCCCcEEchhccceeeccchHHHHhhhhcC
No 47
>PF08825 E2_bind: E2 binding domain; InterPro: IPR014929 E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades. This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The protein resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains []. ; GO: 0005524 ATP binding, 0016881 acid-amino acid ligase activity, 0045116 protein neddylation; PDB: 3GZN_D 3DBL_F 1R4N_H 1R4M_D 2NVU_B 1TT5_D 3DBR_D 3DBH_H 1YOV_B 3FN1_A ....
Probab=24.33 E-value=51 Score=27.55 Aligned_cols=35 Identities=23% Similarity=0.366 Sum_probs=23.0
Q ss_pred EEecCcchHhHHHHHHHH--cCCccCCCCCCcccceeE
Q psy16443 355 YVSRDWSLGKVIDFAATK--LKVVNENRNPGVSAKLRL 390 (412)
Q Consensus 355 ffsK~WsVGRvLD~iA~~--L~V~N~N~N~~~~~KLrL 390 (412)
=|+..|++...||.+++. ++++|-. =+++.+.|++
T Consensus 2 ~v~~~~TL~~lid~L~~~~~~qlk~PS-lt~~~k~LYm 38 (84)
T PF08825_consen 2 EVSPSWTLQDLIDSLCEKPEFQLKKPS-LTTANKTLYM 38 (84)
T ss_dssp EESTTSBSHHHHHHHHHSTTT--SS-E-EESSEEEEEE
T ss_pred CcCccchHHHHHHHHHhChhhhcCCCc-ccCCCceEEE
Confidence 378999999999999999 6666644 2234444443
No 48
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=24.31 E-value=3.8e+02 Score=23.48 Aligned_cols=84 Identities=17% Similarity=0.192 Sum_probs=53.6
Q ss_pred HHHHHHHhhhccccCCCCCCCCCeEEEEEEccCCCCCCCCCccccEEEecCcchHhHHHHHHHHcCCccCCCCCCcccce
Q psy16443 309 ALKLRLMKLKSKAVGDHRIPTADRVYFNIHAPKIEPSPGQEKCKPIYVSRDWSLGKVIDFAATKLKVVNENRNPGVSAKL 388 (412)
Q Consensus 309 A~KV~LmkLKk~AkGD~kIP~~dRVY~~V~~~~~~~~~~~~~~kpvffsK~WsVGRvLD~iA~~L~V~N~N~N~~~~~KL 388 (412)
.++.+.++++ ++....|| +.|+-... .+.-..+++-+-|.++-+||..++.|=+++++.- ++-|
T Consensus 9 ~R~~e~~~ir--~kyp~~iP------VIvE~~~~-~~~p~l~k~KflVp~~~tv~~f~~~irk~l~l~~-------~~sl 72 (112)
T cd01611 9 KRKAEVERIR--AKYPDRIP------VIVERYPK-SDLPDLDKKKYLVPSDLTVGQFVYIIRKRIQLRP-------EKAL 72 (112)
T ss_pred HHHHHHHHHH--HHCCCceE------EEEEEcCC-CCcccccCceEEecCCCCHHHHHHHHHHHhCCCc-------cceE
Confidence 3444555564 46666666 34432111 1112234677899999999999999999887532 2368
Q ss_pred eEeccCCcccchhhhHHHHhhhc
Q psy16443 389 RLFKTSGEPIGDEFSQILGELIK 411 (412)
Q Consensus 389 rLF~e~G~~L~~~md~~l~~l~~ 411 (412)
+||-.+ .+.+ +|.++++|.+
T Consensus 73 fl~Vn~-~~p~--~~~~~~~lY~ 92 (112)
T cd01611 73 FLFVNN-SLPP--TSATMSQLYE 92 (112)
T ss_pred EEEECC-ccCC--chhHHHHHHH
Confidence 999833 3444 8888888754
No 49
>smart00314 RA Ras association (RalGDS/AF-6) domain. RasGTP effectors (in cases of AF6, canoe and RalGDS); putative RasGTP effectors in other cases. Kalhammer et al. have shown that not all RA domains bind RasGTP. Predicted structure similar to that determined, and that of the RasGTP-binding domain of Raf kinase. Predicted RA domains in PLC210 and nore1 found to bind RasGTP. Included outliers (Grb7, Grb14, adenylyl cyclases etc.)
Probab=24.25 E-value=1e+02 Score=24.79 Aligned_cols=29 Identities=21% Similarity=0.243 Sum_probs=26.5
Q ss_pred ccccEEEecCcchHhHHHHHHHHcCCccC
Q psy16443 350 KCKPIYVSRDWSLGKVIDFAATKLKVVNE 378 (412)
Q Consensus 350 ~~kpvffsK~WsVGRvLD~iA~~L~V~N~ 378 (412)
..+.+-+++.+|+--|+..+++.+++.++
T Consensus 16 ~~kti~v~~~tTa~~Vi~~~l~k~~l~~~ 44 (90)
T smart00314 16 TYKTLRVSSRTTARDVIQQLLEKFHLTDD 44 (90)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHhCCCCC
Confidence 56899999999999999999999999653
No 50
>smart00355 ZnF_C2H2 zinc finger.
Probab=23.51 E-value=34 Score=20.23 Aligned_cols=11 Identities=18% Similarity=0.945 Sum_probs=8.2
Q ss_pred ccCcccccccc
Q psy16443 185 FQCDLCKNIYC 195 (412)
Q Consensus 185 F~C~~C~k~FC 195 (412)
|.|+.|++.|-
T Consensus 1 ~~C~~C~~~f~ 11 (26)
T smart00355 1 YRCPECGKVFK 11 (26)
T ss_pred CCCCCCcchhC
Confidence 56888888774
No 51
>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=22.96 E-value=42 Score=21.56 Aligned_cols=12 Identities=33% Similarity=1.046 Sum_probs=9.2
Q ss_pred ccCccccccccc
Q psy16443 185 FQCDLCKNIYCK 196 (412)
Q Consensus 185 F~C~~C~k~FC~ 196 (412)
|.|+.|++.|=.
T Consensus 2 ~~C~~C~k~f~~ 13 (27)
T PF12171_consen 2 FYCDACDKYFSS 13 (27)
T ss_dssp CBBTTTTBBBSS
T ss_pred CCcccCCCCcCC
Confidence 678899888743
No 52
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=21.61 E-value=1.1e+02 Score=23.81 Aligned_cols=29 Identities=14% Similarity=0.133 Sum_probs=25.2
Q ss_pred ccccEEEecCcchHhHHHHHHHHcCCccC
Q psy16443 350 KCKPIYVSRDWSLGKVIDFAATKLKVVNE 378 (412)
Q Consensus 350 ~~kpvffsK~WsVGRvLD~iA~~L~V~N~ 378 (412)
....+=++++.++.-+++.+|+++++...
T Consensus 7 ~~~~~~v~~~~t~~~l~~~v~~~l~l~e~ 35 (80)
T PF09379_consen 7 TTKTFEVDPKTTGQDLLEQVCDKLGLKEK 35 (80)
T ss_dssp EEEEEEEETTSBHHHHHHHHHHHHTTSSG
T ss_pred CcEEEEEcCCCcHHHHHHHHHHHcCCCCc
Confidence 45778899999999999999999999643
No 53
>KOG3439|consensus
Probab=21.26 E-value=5.3e+02 Score=23.15 Aligned_cols=34 Identities=24% Similarity=0.291 Sum_probs=28.3
Q ss_pred ccEEEecCcchHhHHHHHHHHcCCccCCCCCCcccceeEec
Q psy16443 352 KPIYVSRDWSLGKVIDFAATKLKVVNENRNPGVSAKLRLFK 392 (412)
Q Consensus 352 kpvffsK~WsVGRvLD~iA~~L~V~N~N~N~~~~~KLrLF~ 392 (412)
+-+=|+..=++++++|.+=+.|+++-++ -|+||-
T Consensus 47 ~k~~i~~t~tfa~vi~Flkk~Lkl~as~-------slflYV 80 (116)
T KOG3439|consen 47 SKFKINPTQTFAKVILFLKKFLKLQASD-------SLFLYV 80 (116)
T ss_pred ceEEeCcchhhHHHHHHHHHHhCCcccC-------eEEEEE
Confidence 4455777778999999999999998777 677777
No 54
>KOG3896|consensus
Probab=20.86 E-value=56 Score=34.39 Aligned_cols=50 Identities=22% Similarity=0.519 Sum_probs=30.0
Q ss_pred CCCccccc--ccCcccccccccCCCC--CCCcccCCCCCccccCCCCCCccccccCC
Q psy16443 177 CKQLDFLP--FQCDLCKNIYCKEHMN--PVQHNCTEYKDNVLLEKPTTTSIVSYKCS 229 (412)
Q Consensus 177 C~QLDFLP--F~C~~C~k~FC~eHrs--~~aH~C~~~~~~v~~~k~~~~~~~~~~Cs 229 (412)
|+.+.-|| |-|-+|-+.-|.+-.+ .++|-||..-....... ...+.++|+
T Consensus 15 cg~~~pl~~L~FCRyC~klrc~~Cv~hEvdshfCp~CLEn~ps~E---ArlKKn~CA 68 (449)
T KOG3896|consen 15 CGKFRPLPDLVFCRYCFKLRCDDCVLHEVDSHFCPRCLENSPSPE---ARLKKNKCA 68 (449)
T ss_pred ccccccccceeeeecccccccccccccccccccchhhccCCCchH---HHhhhcccc
Confidence 77666665 7799998865555433 47999997644332111 233446676
No 55
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.74 E-value=50 Score=29.30 Aligned_cols=26 Identities=27% Similarity=0.767 Sum_probs=19.5
Q ss_pred cccCcccccccccCCCC---CCCcccCCC
Q psy16443 184 PFQCDLCKNIYCKEHMN---PVQHNCTEY 209 (412)
Q Consensus 184 PF~C~~C~k~FC~eHrs---~~aH~C~~~ 209 (412)
.|+|+.|++.||.|=-. ..-|+||.-
T Consensus 81 ~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC 109 (112)
T TIGR00622 81 RYVCAVCKNVFCVDCDVFVHESLHCCPGC 109 (112)
T ss_pred ceeCCCCCCccccccchhhhhhccCCcCC
Confidence 58899999999977422 346888853
Done!