Query 021579
Match_columns 310
No_of_seqs 276 out of 1082
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 04:05:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021579.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021579hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01585 G-patch: G-patch doma 99.4 1.4E-13 3.1E-18 97.8 4.6 44 66-109 1-45 (45)
2 smart00443 G_patch glycine ric 99.3 2.5E-12 5.4E-17 91.3 4.6 45 65-109 2-47 (47)
3 KOG2809 Telomerase elongation 99.1 8.7E-11 1.9E-15 113.5 5.2 68 62-129 21-93 (326)
4 KOG0965 Predicted RNA-binding 98.8 3.6E-09 7.7E-14 110.9 5.3 50 62-111 901-952 (988)
5 KOG2384 Major histocompatibili 98.7 1.4E-08 3E-13 93.1 4.6 56 62-117 123-179 (223)
6 KOG2185 Predicted RNA-processi 98.7 2.3E-08 5.1E-13 99.3 6.6 92 65-172 295-387 (486)
7 PF12656 G-patch_2: DExH-box s 98.7 1.2E-08 2.5E-13 80.5 3.3 49 63-111 26-75 (77)
8 KOG1994 Predicted RNA binding 98.6 2.9E-08 6.3E-13 92.5 5.2 54 57-110 71-128 (268)
9 KOG2184 Tuftelin-interacting p 98.5 3.3E-08 7.1E-13 104.3 3.0 48 64-111 113-161 (767)
10 KOG0154 RNA-binding protein RB 98.5 1.2E-07 2.6E-12 97.0 5.4 90 19-109 452-555 (573)
11 KOG3673 FtsJ-like RNA methyltr 98.0 2.1E-06 4.5E-11 88.7 2.6 45 66-110 82-127 (845)
12 KOG4727 U1-like Zn-finger prot 97.8 2E-05 4.4E-10 71.1 4.0 30 159-188 74-103 (193)
13 KOG4368 Predicted RNA binding 97.7 3.3E-05 7.3E-10 80.1 5.2 52 62-114 682-737 (757)
14 PF12171 zf-C2H2_jaz: Zinc-fin 97.7 7.6E-06 1.7E-10 51.8 0.0 25 161-185 2-26 (27)
15 KOG1996 mRNA splicing factor [ 97.7 2.7E-05 5.9E-10 75.5 3.1 44 68-111 213-260 (378)
16 KOG4315 G-patch nucleic acid b 97.4 9.9E-05 2.1E-09 74.1 3.5 49 62-111 149-198 (455)
17 PF12874 zf-met: Zinc-finger o 97.3 4.9E-05 1.1E-09 46.6 -0.3 25 161-185 1-25 (25)
18 smart00451 ZnF_U1 U1-like zinc 97.2 0.00012 2.7E-09 47.9 0.6 28 160-187 3-30 (35)
19 KOG0717 Molecular chaperone (D 94.4 0.017 3.6E-07 59.3 1.2 35 160-196 292-326 (508)
20 KOG2138 Predicted RNA binding 93.2 0.044 9.6E-07 58.7 1.8 20 66-85 147-167 (883)
21 PF13912 zf-C2H2_6: C2H2-type 93.1 0.021 4.6E-07 35.4 -0.5 24 160-183 1-24 (27)
22 KOG3408 U1-like Zn-finger-cont 91.4 0.11 2.5E-06 44.9 1.8 35 160-196 57-91 (129)
23 KOG1994 Predicted RNA binding 91.3 0.091 2E-06 49.9 1.2 47 66-112 37-84 (268)
24 PF00096 zf-C2H2: Zinc finger, 91.2 0.035 7.6E-07 33.1 -1.0 22 161-182 1-22 (23)
25 KOG2785 C2H2-type Zn-finger pr 90.2 0.22 4.7E-06 50.1 2.8 67 118-187 29-95 (390)
26 PF13894 zf-C2H2_4: C2H2-type 89.3 0.082 1.8E-06 30.8 -0.6 22 161-182 1-22 (24)
27 smart00586 ZnF_DBF Zinc finger 89.2 0.18 3.9E-06 37.1 1.0 27 158-187 3-29 (49)
28 PF07535 zf-DBF: DBF zinc fing 87.8 0.21 4.5E-06 36.7 0.6 27 158-187 3-29 (49)
29 PF15473 PCNP: PEST, proteolyt 86.3 0.63 1.4E-05 41.5 2.9 19 291-309 85-103 (150)
30 KOG0150 Spliceosomal protein F 85.2 4.1 8.8E-05 40.4 8.0 69 158-232 8-79 (336)
31 COG5188 PRP9 Splicing factor 3 84.2 3.6 7.8E-05 41.7 7.3 35 154-188 232-266 (470)
32 PLN02748 tRNA dimethylallyltra 82.8 0.49 1.1E-05 48.6 0.8 35 159-195 417-452 (468)
33 PF12756 zf-C2H2_2: C2H2 type 82.4 0.24 5.1E-06 37.9 -1.3 32 157-188 47-78 (100)
34 KOG2384 Major histocompatibili 80.7 0.39 8.4E-06 44.9 -0.8 30 158-188 82-111 (223)
35 smart00355 ZnF_C2H2 zinc finge 80.3 0.59 1.3E-05 27.1 0.2 21 161-181 1-21 (26)
36 PF06220 zf-U1: U1 zinc finger 80.0 0.93 2E-05 31.4 1.1 30 159-188 2-33 (38)
37 COG5112 UFD2 U1-like Zn-finger 79.1 1.6 3.5E-05 37.4 2.5 36 160-197 55-90 (126)
38 KOG2837 Protein containing a U 77.6 1.1 2.3E-05 43.8 1.1 33 156-188 20-53 (309)
39 PHA02768 hypothetical protein; 76.4 0.81 1.8E-05 34.5 -0.0 24 160-183 5-28 (55)
40 PHA00616 hypothetical protein 72.3 1.8 3.9E-05 31.3 0.9 23 160-182 1-23 (44)
41 PF11931 DUF3449: Domain of un 70.5 1.4 3E-05 40.8 0.0 34 155-188 96-130 (196)
42 PF03194 LUC7: LUC7 N_terminus 67.3 15 0.00033 34.8 6.2 43 158-200 188-237 (254)
43 KOG3454 U1 snRNP-specific prot 60.2 20 0.00044 32.6 5.3 37 160-196 3-41 (165)
44 KOG2412 Nuclear-export-signal 57.4 1.7E+02 0.0036 31.5 12.0 43 139-182 159-201 (591)
45 PF07808 RED_N: RED-like prote 52.2 5.6 0.00012 37.6 0.5 16 21-37 19-34 (238)
46 KOG2462 C2H2-type Zn-finger pr 52.0 4.3 9.2E-05 39.6 -0.3 27 158-184 159-185 (279)
47 COG5189 SFP1 Putative transcri 50.2 3.2 6.9E-05 41.6 -1.5 27 158-184 396-422 (423)
48 PF13465 zf-H2C2_2: Zinc-finge 45.6 2.3 5E-05 26.6 -2.2 15 157-171 11-25 (26)
49 PF04988 AKAP95: A-kinase anch 37.9 12 0.00025 34.1 0.2 32 161-194 1-32 (165)
50 PTZ00448 hypothetical protein; 37.7 14 0.0003 37.4 0.8 29 160-188 314-342 (373)
51 PF04988 AKAP95: A-kinase anch 35.3 29 0.00062 31.6 2.3 31 160-190 91-122 (165)
52 KOG3623 Homeobox transcription 34.7 22 0.00048 39.3 1.7 21 160-180 894-914 (1007)
53 KOG2636 Splicing factor 3a, su 34.4 12 0.00026 38.9 -0.3 35 154-188 395-430 (497)
54 PF13821 DUF4187: Domain of un 33.2 26 0.00056 26.2 1.4 32 148-179 14-46 (55)
55 KOG3032 Uncharacterized conser 33.1 18 0.00038 34.9 0.6 33 160-195 35-67 (264)
56 PF05605 zf-Di19: Drought indu 33.1 13 0.00028 26.8 -0.2 23 160-183 2-24 (54)
57 PF12756 zf-C2H2_2: C2H2 type 32.9 14 0.00031 27.9 0.0 21 163-183 2-22 (100)
58 PF13909 zf-H2C2_5: C2H2-type 31.4 12 0.00026 22.4 -0.5 20 161-181 1-20 (24)
59 KOG2462 C2H2-type Zn-finger pr 29.7 18 0.00039 35.3 0.1 29 158-186 213-241 (279)
60 KOG3576 Ovo and related transc 28.2 27 0.00058 33.4 0.9 24 158-181 171-194 (267)
61 COG4049 Uncharacterized protei 26.8 32 0.0007 26.6 1.0 28 160-188 17-44 (65)
62 PHA00732 hypothetical protein 25.8 23 0.0005 28.1 0.0 21 161-181 2-22 (79)
63 PLN02381 valyl-tRNA synthetase 24.2 1.2E+02 0.0025 34.7 5.1 27 203-229 18-44 (1066)
64 KOG0796 Spliceosome subunit [R 22.5 2.5E+02 0.0053 28.2 6.4 41 158-198 184-231 (319)
65 KOG3623 Homeobox transcription 21.2 44 0.00095 37.1 1.0 27 155-181 276-302 (1007)
No 1
>PF01585 G-patch: G-patch domain; InterPro: IPR000467 The D111/G-patch domain [] is a short conserved region of about 40 amino acids which occurs in a number of putative RNA-binding proteins, including tumor suppressor and DNA-damage-repair proteins, suggesting that this domain may have an RNA binding function. This domain has seven highly conserved glycines. A multiple alignment of a small subset of D111/G-patch domains is shown in Fig. 2b of [].; GO: 0003676 nucleic acid binding, 0005622 intracellular
Probab=99.43 E-value=1.4e-13 Score=97.76 Aligned_cols=44 Identities=52% Similarity=1.050 Sum_probs=42.0
Q ss_pred CCcHHHHHHHhcCCC-CCCCCCCCCCcccceeeeecCCCccccCC
Q 021579 66 SSNIGFRLLQKMGWK-GKGLGKDEQGIIEPIKSGIRDPKLGVGKQ 109 (310)
Q Consensus 66 ~sniG~kML~KMGWk-G~GLGk~~qGi~ePI~~~~k~~~~GLGa~ 109 (310)
++++|++||.+|||+ |+|||++.+||++||.+..+.++.|||+.
T Consensus 1 t~~~g~~lm~kmGw~~G~GLGk~~~G~~~pi~~~~~~~~~GlG~~ 45 (45)
T PF01585_consen 1 TSSIGFKLMKKMGWKPGQGLGKNGQGIAEPIEVKKKKDRKGLGAE 45 (45)
T ss_pred CCcHHHHHHHHCCCCCCcCCCcCCccCCcceEEeeEcCCccccCC
Confidence 479999999999999 99999999999999999999999999973
No 2
>smart00443 G_patch glycine rich nucleic binding domain. A predicted glycine rich nucleic binding domain found in the splicing factor 45, SON DNA binding protein and D-type Retrovirus- polyproteins.
Probab=99.30 E-value=2.5e-12 Score=91.28 Aligned_cols=45 Identities=58% Similarity=1.170 Sum_probs=42.7
Q ss_pred CCCcHHHHHHHhcCCC-CCCCCCCCCCcccceeeeecCCCccccCC
Q 021579 65 TSSNIGFRLLQKMGWK-GKGLGKDEQGIIEPIKSGIRDPKLGVGKQ 109 (310)
Q Consensus 65 ~~sniG~kML~KMGWk-G~GLGk~~qGi~ePI~~~~k~~~~GLGa~ 109 (310)
+.+++|++||.+|||+ |.|||++++||++||.+..+.++.|||+.
T Consensus 2 ~~~~~g~~~l~~mGw~~G~GLG~~~~g~~~pi~~~~~~~~~GlG~~ 47 (47)
T smart00443 2 STSNIGYKLLRKMGWKEGQGLGKNEQGIVEPISAEIKKDRKGLGAE 47 (47)
T ss_pred CcccHHHHHHHHcCCCCCCcCCCCCCcCccceeEeeccCCcCcCCC
Confidence 5689999999999999 99999999999999999999999999973
No 3
>KOG2809 consensus Telomerase elongation inhibitor/RNA maturation protein PINX1 [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.09 E-value=8.7e-11 Score=113.52 Aligned_cols=68 Identities=38% Similarity=0.722 Sum_probs=58.2
Q ss_pred ccCCCCcHHHHHHHhcCCC-CCCCCCCCCCcccceeeeecCCCccccCCCcc--chhhh--HHHHhhhhcchh
Q 021579 62 TKLTSSNIGFRLLQKMGWK-GKGLGKDEQGIIEPIKSGIRDPKLGVGKQEED--DFFTA--EENIQRRKLDIE 129 (310)
Q Consensus 62 ~~i~~sniG~kML~KMGWk-G~GLGk~~qGi~ePI~~~~k~~~~GLGa~~~d--~~~~~--~~~~~rKkLe~E 129 (310)
..++.+.+|++||.+|||. |.|||++.||++.||.+.++.+.+|||+..+. +||.+ ..|.....|+..
T Consensus 21 w~nd~~~fg~KlLekmGW~eG~GLG~~~qG~~~~IKvs~K~d~~GLGa~~~ned~W~~h~d~Fn~lla~Ln~~ 93 (326)
T KOG2809|consen 21 WSNDDSRFGKKLLEKMGWSEGDGLGKNEQGITDPIKVSLKNDTLGLGADKNNEDQWIAHQDDFNALLAKLNKQ 93 (326)
T ss_pred hcccchHHHHHHHHHcCCccCCcccccccCCccceEEEeccCCcccCccccccccchhhcccHHHHHHHhhhh
Confidence 4568899999999999999 99999999999999999999999999999854 67664 456666666654
No 4
>KOG0965 consensus Predicted RNA-binding protein, contains SWAP and G-patch domains [General function prediction only]
Probab=98.82 E-value=3.6e-09 Score=110.94 Aligned_cols=50 Identities=48% Similarity=0.873 Sum_probs=45.2
Q ss_pred ccCCCCcHHHHHHHhcCCC-CCCCCCCCCCcccceeee-ecCCCccccCCCc
Q 021579 62 TKLTSSNIGFRLLQKMGWK-GKGLGKDEQGIIEPIKSG-IRDPKLGVGKQEE 111 (310)
Q Consensus 62 ~~i~~sniG~kML~KMGWk-G~GLGk~~qGi~ePI~~~-~k~~~~GLGa~~~ 111 (310)
..|...||||+||+||||+ |.|||-.++||.+||.+. +..++.|+|...+
T Consensus 901 ~KLt~dNiGfQMLqKMGWKEGeGLGS~gkGI~dPVnkg~~~~~g~G~G~s~p 952 (988)
T KOG0965|consen 901 QKLTDDNIGFQMLQKMGWKEGEGLGSLGKGIRDPVNKGAAGSLGWGWGGSQP 952 (988)
T ss_pred hhccccchHHHHHHHhCccccccccccCcccccchhhcccccCCcccccCCc
Confidence 4688999999999999999 999999999999999776 5778899998875
No 5
>KOG2384 consensus Major histocompatibility complex protein BAT4, contains G-patch and ankyrin domains [General function prediction only]
Probab=98.70 E-value=1.4e-08 Score=93.06 Aligned_cols=56 Identities=27% Similarity=0.673 Sum_probs=50.0
Q ss_pred ccCCCCcHHHHHHHhcCCC-CCCCCCCCCCcccceeeeecCCCccccCCCccchhhh
Q 021579 62 TKLTSSNIGFRLLQKMGWK-GKGLGKDEQGIIEPIKSGIRDPKLGVGKQEEDDFFTA 117 (310)
Q Consensus 62 ~~i~~sniG~kML~KMGWk-G~GLGk~~qGi~ePI~~~~k~~~~GLGa~~~d~~~~~ 117 (310)
-.|+++|+|++||.+.||. +.|||.+++|+..||.+.++.++.|||+...-+..+.
T Consensus 123 ~~i~pks~GyrLl~~~GW~pe~GLGp~~~Grr~PvrTvlkkdr~GLG~e~~~~rVth 179 (223)
T KOG2384|consen 123 HLIKPKSLGYRLLSQYGWSPEAGLGPENQGRRAPVRTVLKKDRIGLGTEIDQPRVTH 179 (223)
T ss_pred CcCCCCCchHHHHHhcCCCcccCCCccccCcccchhHHHhhcccccchhhccccccc
Confidence 3478999999999999999 9999999999999999999999999999876444444
No 6
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=98.70 E-value=2.3e-08 Score=99.32 Aligned_cols=92 Identities=25% Similarity=0.397 Sum_probs=63.4
Q ss_pred CCCcHHHHHHHhcCCC-CCCCCCCCCCcccceeeeecCCCccccCCCccchhhhHHHHhhhhcchhhhhhHHHHHHHHHH
Q 021579 65 TSSNIGFRLLQKMGWK-GKGLGKDEQGIIEPIKSGIRDPKLGVGKQEEDDFFTAEENIQRRKLDIEVEDTEENAKKREVL 143 (310)
Q Consensus 65 ~~sniG~kML~KMGWk-G~GLGk~~qGi~ePI~~~~k~~~~GLGa~~~d~~~~~~~~~~rKkLe~E~EEtee~kRKRe~~ 143 (310)
.+-+||.+||.||||. |.|||+.++||++||.+.|-+.+..|.. .-..++++.. ....+||+-..
T Consensus 295 hTRGIgsKLM~kMGY~~G~GLG~~g~GiV~pI~a~vlp~grSLDe---------cme~kqk~~r-----~r~gkrk~~rk 360 (486)
T KOG2185|consen 295 HTRGIGSKLMAKMGYREGMGLGVSGQGIVNPILAKVLPAGRSLDE---------CMEEKQKKKR-----SRGGKRKRGRK 360 (486)
T ss_pred ccchHHHHHHHHhchhhccccCcCCCccccchhhhhccCCCCHHH---------HHHHHHHhhc-----cccccccchhh
Confidence 4568999999999999 9999999999999999999988866652 1112222211 33344554444
Q ss_pred HHHHHHHHHHHHhhhhhhhhhhhhhhhhh
Q 021579 144 AEREQKIQTEVKEIRKVFYCDLCNKQYKL 172 (310)
Q Consensus 144 akREqKIq~ElkeirkvFyC~lCnkqy~~ 172 (310)
-++..|...-.+.-.-||. |+|.++..
T Consensus 361 rk~~aKa~~ree~r~dvF~--fiNekl~g 387 (486)
T KOG2185|consen 361 RKEAAKAAKREEERKDVFS--FINEKLFG 387 (486)
T ss_pred hhhhccccCCccccccHHH--HHHHHhcc
Confidence 4444445444444444898 99988776
No 7
>PF12656 G-patch_2: DExH-box splicing factor binding site
Probab=98.69 E-value=1.2e-08 Score=80.47 Aligned_cols=49 Identities=33% Similarity=0.728 Sum_probs=45.7
Q ss_pred cCCCCcHHHHHHHhcCCC-CCCCCCCCCCcccceeeeecCCCccccCCCc
Q 021579 63 KLTSSNIGFRLLQKMGWK-GKGLGKDEQGIIEPIKSGIRDPKLGVGKQEE 111 (310)
Q Consensus 63 ~i~~sniG~kML~KMGWk-G~GLGk~~qGi~ePI~~~~k~~~~GLGa~~~ 111 (310)
.++...+|..||.-|||+ |.|+|++.++.+.||....+..++|||+...
T Consensus 26 ~vPVe~FG~AlLRGMGW~~~~~~g~~~~~~~~~~~~~~Rp~~lGLGA~~~ 75 (77)
T PF12656_consen 26 AVPVEEFGAALLRGMGWKPGEGIGKNKKKSVKPVEPKRRPKGLGLGAKPA 75 (77)
T ss_pred hCCHHHHHHHHHHHcCCCCCCCCCCCcccccCcccccccccCcCCCcCCC
Confidence 467789999999999999 9999999999999999999999999999764
No 8
>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]
Probab=98.65 E-value=2.9e-08 Score=92.55 Aligned_cols=54 Identities=30% Similarity=0.519 Sum_probs=49.5
Q ss_pred hccccccCCCCcHHHHHHHhcCCC-CCCCCCCCCC---cccceeeeecCCCccccCCC
Q 021579 57 QASLDTKLTSSNIGFRLLQKMGWK-GKGLGKDEQG---IIEPIKSGIRDPKLGVGKQE 110 (310)
Q Consensus 57 ~as~~~~i~~sniG~kML~KMGWk-G~GLGk~~qG---i~ePI~~~~k~~~~GLGa~~ 110 (310)
.-.+..+|..+++||.||.+|||+ |.-||++..+ |++||.+-++..+.|||...
T Consensus 71 a~~~~~~i~~e~~gf~lm~~Mg~kpg~~lgkq~e~~~~r~epI~~dI~~~r~g~G~ed 128 (268)
T KOG1994|consen 71 ANTKRRGIRAEKPGFSLMNDMGMKPGRFLGKQSEMKNKRLEPIWYDIQVAREGMGDED 128 (268)
T ss_pred hhhccccccccCcChHHHHHhCCCccchhccccccccccccceeehHHHHhhccCccc
Confidence 345567888999999999999999 9999999999 99999999999999999875
No 9
>KOG2184 consensus Tuftelin-interacting protein TIP39, contains G-patch domain [RNA processing and modification]
Probab=98.55 E-value=3.3e-08 Score=104.35 Aligned_cols=48 Identities=46% Similarity=0.794 Sum_probs=45.2
Q ss_pred CCCCcHHHHHHHhcCCC-CCCCCCCCCCcccceeeeecCCCccccCCCc
Q 021579 64 LTSSNIGFRLLQKMGWK-GKGLGKDEQGIIEPIKSGIRDPKLGVGKQEE 111 (310)
Q Consensus 64 i~~sniG~kML~KMGWk-G~GLGk~~qGi~ePI~~~~k~~~~GLGa~~~ 111 (310)
-...+||.+||.+|||+ |.|||+++|||++||++++++.+.|||+...
T Consensus 113 ~~t~gig~Kll~kMGYkpG~GLGkn~qGIv~Pieaq~Rp~rgg~Gay~~ 161 (767)
T KOG2184|consen 113 KGTKGIGAKLLEKMGYKPGKGLGKNAQGIVAPIEAQLRPGRGGLGAYGF 161 (767)
T ss_pred hcccchhHHHHHHcCCccccccCccccccccHHhcccCccCcccccccc
Confidence 36789999999999999 9999999999999999999999999999864
No 10
>KOG0154 consensus RNA-binding protein RBM5 and related proteins, contain G-patch and RRM domains [General function prediction only]
Probab=98.50 E-value=1.2e-07 Score=97.03 Aligned_cols=90 Identities=37% Similarity=0.573 Sum_probs=71.5
Q ss_pred CCcccccccchhhhhhhhhcCCCCCCCCCCCCCc--c----hhh-------hccccccCCCCcHHHHHHHhcCCC-CCCC
Q 021579 19 PHEKEQAYQDSVIEDLAEDFRLPIHQKPIENVDL--D----DVE-------QASLDTKLTSSNIGFRLLQKMGWK-GKGL 84 (310)
Q Consensus 19 ~~~~~~~YRDRA~ER~re~fg~P~~p~p~~~~~~--e----~~e-------~as~~~~i~~sniG~kML~KMGWk-G~GL 84 (310)
.+.....|+|||.++ +..+|.+..+.|...... + .++ .......|+.+|+|.+||.+|||. |.||
T Consensus 452 ~~~~~~~~~~~~~~~-~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sn~~~~~l~~~gw~~g~Gl 530 (573)
T KOG0154|consen 452 SAEGPLAYRDRAKER-RKSMGIVEGRGPGRSKPDSFEPISVLLESRQKSSRGATEEPPIDTSNVGNRMLQSMGWKEGSGL 530 (573)
T ss_pred ccccccccchHHHhH-HHHhcCCCCCCCCcccCCCcccceeeccccccchhhccccccCCCCccchhhhhccCccccccc
Confidence 345568899999999 999999988765444221 0 011 111234578999999999999999 9999
Q ss_pred CCCCCCcccceeeeecCCCccccCC
Q 021579 85 GKDEQGIIEPIKSGIRDPKLGVGKQ 109 (310)
Q Consensus 85 Gk~~qGi~ePI~~~~k~~~~GLGa~ 109 (310)
|...+|++.||++..+..+.|||+.
T Consensus 531 g~~~~g~~~~~e~~~~~~~~~lg~~ 555 (573)
T KOG0154|consen 531 GKKNQGIKEPIEAEGRDRGAGLGAK 555 (573)
T ss_pred ccccCCCcccccccccccCCCCCcc
Confidence 9999999999999999999999998
No 11
>KOG3673 consensus FtsJ-like RNA methyltransferase [RNA processing and modification]
Probab=98.05 E-value=2.1e-06 Score=88.69 Aligned_cols=45 Identities=40% Similarity=0.619 Sum_probs=43.0
Q ss_pred CCcHHHHHHHhcCCC-CCCCCCCCCCcccceeeeecCCCccccCCC
Q 021579 66 SSNIGFRLLQKMGWK-GKGLGKDEQGIIEPIKSGIRDPKLGVGKQE 110 (310)
Q Consensus 66 ~sniG~kML~KMGWk-G~GLGk~~qGi~ePI~~~~k~~~~GLGa~~ 110 (310)
..++..+||++||+. |.|||+.+||+.+||.+....++.|||...
T Consensus 82 y~~va~~lMakMG~~~geGLGK~~QGr~epi~as~Q~GRrGlGl~l 127 (845)
T KOG3673|consen 82 YLTVAERLMAKMGHKAGEGLGKHGQGRSEPIAASTQRGRRGLGLNL 127 (845)
T ss_pred cchHHHHHHHHhCccccccccccCCCccchhhhhhhccccccCccc
Confidence 679999999999999 999999999999999999999999999876
No 12
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=97.79 E-value=2e-05 Score=71.07 Aligned_cols=30 Identities=27% Similarity=0.657 Sum_probs=28.4
Q ss_pred hhhhhhhhhhhhhhHHHHHhhccchhhhHH
Q 021579 159 KVFYCDLCNKQYKLAVEFEAHLSSYDHNHR 188 (310)
Q Consensus 159 kvFyC~lCnkqy~~~~eye~Hlnsy~H~h~ 188 (310)
-+|||.+||+.++++..|++|||+.-|+.+
T Consensus 74 ~GyyCdVCdcvvKDSinflDHiNgKkHqrn 103 (193)
T KOG4727|consen 74 GGYYCDVCDCVVKDSINFLDHINGKKHQRN 103 (193)
T ss_pred CceeeeecceeehhhHHHHHHhccHHHHHH
Confidence 389999999999999999999999999985
No 13
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=97.74 E-value=3.3e-05 Score=80.07 Aligned_cols=52 Identities=48% Similarity=0.836 Sum_probs=43.5
Q ss_pred ccCCCCcHHHHHHHhcCCCCCCCCCCCCCcccceeeee-cC---CCccccCCCccch
Q 021579 62 TKLTSSNIGFRLLQKMGWKGKGLGKDEQGIIEPIKSGI-RD---PKLGVGKQEEDDF 114 (310)
Q Consensus 62 ~~i~~sniG~kML~KMGWkG~GLGk~~qGi~ePI~~~~-k~---~~~GLGa~~~d~~ 114 (310)
..|..+|+|.+||.||||.|.|||..++||.+||...- +. -..|+|... |++
T Consensus 682 ~~lse~NKGhQml~KMGWsG~GLGak~qGI~DPiSGGEVRdR~E~yKGvG~~l-DP~ 737 (757)
T KOG4368|consen 682 APLGEENKGHQMLVKMGWSGSGLGAKEQGIQDPISGGEVRDRWEQYKGVGVAL-DPY 737 (757)
T ss_pred CccccccchhhhHhhcCcccCCcccccccccCcccCccccchhhhhcccCccc-CcH
Confidence 45899999999999999999999999999999997653 22 257999877 543
No 14
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=97.71 E-value=7.6e-06 Score=51.78 Aligned_cols=25 Identities=36% Similarity=0.881 Sum_probs=24.0
Q ss_pred hhhhhhhhhhhhHHHHHhhccchhh
Q 021579 161 FYCDLCNKQYKLAVEFEAHLSSYDH 185 (310)
Q Consensus 161 FyC~lCnkqy~~~~eye~Hlnsy~H 185 (310)
|||.+||+.|.+...|+.|++|..|
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~sk~H 26 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKSKKH 26 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTSHHH
T ss_pred CCcccCCCCcCCHHHHHHHHccCCC
Confidence 8999999999999999999999777
No 15
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.67 E-value=2.7e-05 Score=75.54 Aligned_cols=44 Identities=36% Similarity=0.690 Sum_probs=37.3
Q ss_pred cHHHHHHHhcCCC-CCCCCCCCCCcccceeeeecCCCcc---ccCCCc
Q 021579 68 NIGFRLLQKMGWK-GKGLGKDEQGIIEPIKSGIRDPKLG---VGKQEE 111 (310)
Q Consensus 68 niG~kML~KMGWk-G~GLGk~~qGi~ePI~~~~k~~~~G---LGa~~~ 111 (310)
.+.++||+||||+ |+|||+++||+..|+.+.....+.| +|+...
T Consensus 213 tvA~~im~k~G~keGqGLGKsEQGlsTalsveKT~~rgG~IIv~a~~~ 260 (378)
T KOG1996|consen 213 TVAHKIMQKYGFKEGQGLGKSEQGLSTALSVEKTSKRGGKIIVGAATE 260 (378)
T ss_pred hHHHHHHHHhCcccccCcCccccccccceeeeeccccCceeEecCccc
Confidence 5789999999999 9999999999999998887766666 555543
No 16
>KOG4315 consensus G-patch nucleic acid binding protein [General function prediction only]
Probab=97.43 E-value=9.9e-05 Score=74.10 Aligned_cols=49 Identities=31% Similarity=0.667 Sum_probs=41.9
Q ss_pred ccCCCCcHHHHHHHhcCCC-CCCCCCCCCCcccceeeeecCCCccccCCCc
Q 021579 62 TKLTSSNIGFRLLQKMGWK-GKGLGKDEQGIIEPIKSGIRDPKLGVGKQEE 111 (310)
Q Consensus 62 ~~i~~sniG~kML~KMGWk-G~GLGk~~qGi~ePI~~~~k~~~~GLGa~~~ 111 (310)
..|+...+|..||.-|||+ |.|+|+++|+ +.+....+++.+.|||+...
T Consensus 149 eaiPVe~FGlAmLrG~GWkpg~gigk~~q~-v~~~~~~~rpkglGLGa~~~ 198 (455)
T KOG4315|consen 149 EAIPVEGFGLAMLRGMGWKPGPGIGKNKQD-VKIKEPFLRPKGLGLGADPA 198 (455)
T ss_pred ccCchhHHHHHHHhcCCCCCCCCcCcCCcc-ccccccccCCCCcccCCCcc
Confidence 3578899999999999999 9999999766 55566778999999999863
No 17
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.30 E-value=4.9e-05 Score=46.65 Aligned_cols=25 Identities=44% Similarity=0.962 Sum_probs=23.9
Q ss_pred hhhhhhhhhhhhHHHHHhhccchhh
Q 021579 161 FYCDLCNKQYKLAVEFEAHLSSYDH 185 (310)
Q Consensus 161 FyC~lCnkqy~~~~eye~Hlnsy~H 185 (310)
|+|++|+++|.+...|..|++|.-|
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~~H 25 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSKKH 25 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTHHH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcCCC
Confidence 7999999999999999999999877
No 18
>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=97.17 E-value=0.00012 Score=47.89 Aligned_cols=28 Identities=39% Similarity=0.809 Sum_probs=25.7
Q ss_pred hhhhhhhhhhhhhHHHHHhhccchhhhH
Q 021579 160 VFYCDLCNKQYKLAVEFEAHLSSYDHNH 187 (310)
Q Consensus 160 vFyC~lCnkqy~~~~eye~Hlnsy~H~h 187 (310)
.|||++|++.|.+...+..|++|..|.-
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~gk~H~~ 30 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKGKKHKK 30 (35)
T ss_pred CeEccccCCccCCHHHHHHHHChHHHHH
Confidence 5899999999999999999999998754
No 19
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=94.38 E-value=0.017 Score=59.27 Aligned_cols=35 Identities=34% Similarity=0.750 Sum_probs=30.2
Q ss_pred hhhhhhhhhhhhhHHHHHhhccchhhhHHHHHHHHHH
Q 021579 160 VFYCDLCNKQYKLAVEFEAHLSSYDHNHRKRFKEMRE 196 (310)
Q Consensus 160 vFyC~lCnkqy~~~~eye~Hlnsy~H~h~~Rlk~lk~ 196 (310)
+.||-+|||.|++..++.||.||..| ++.+.+|++
T Consensus 292 ~lyC~vCnKsFKseKq~kNHEnSKKH--kenv~eLrq 326 (508)
T KOG0717|consen 292 VLYCVVCNKSFKSEKQLKNHENSKKH--KENVAELRQ 326 (508)
T ss_pred ceEEeeccccccchHHHHhhHHHHHH--HHHHHHHHH
Confidence 58999999999999999999999876 566666663
No 20
>KOG2138 consensus Predicted RNA binding protein, contains G-patch domain [RNA processing and modification]
Probab=93.21 E-value=0.044 Score=58.66 Aligned_cols=20 Identities=60% Similarity=1.340 Sum_probs=18.8
Q ss_pred CCcHHHHHHHhcCCC-CCCCC
Q 021579 66 SSNIGFRLLQKMGWK-GKGLG 85 (310)
Q Consensus 66 ~sniG~kML~KMGWk-G~GLG 85 (310)
...||.+||.+|||. |+|+|
T Consensus 147 s~sIgvrlLrsMGWr~GqgIg 167 (883)
T KOG2138|consen 147 SDSIGVRLLRSMGWREGQGIG 167 (883)
T ss_pred hhhHHHHHHHHhcCccCCCcC
Confidence 468999999999999 99999
No 21
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=93.07 E-value=0.021 Score=35.40 Aligned_cols=24 Identities=29% Similarity=0.528 Sum_probs=22.0
Q ss_pred hhhhhhhhhhhhhHHHHHhhccch
Q 021579 160 VFYCDLCNKQYKLAVEFEAHLSSY 183 (310)
Q Consensus 160 vFyC~lCnkqy~~~~eye~Hlnsy 183 (310)
+|.|..|++.|.+...|..|...+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCCccCCccCChhHHHHHhHHh
Confidence 588999999999999999999765
No 22
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=91.39 E-value=0.11 Score=44.90 Aligned_cols=35 Identities=34% Similarity=0.692 Sum_probs=31.8
Q ss_pred hhhhhhhhhhhhhHHHHHhhccchhhhHHHHHHHHHH
Q 021579 160 VFYCDLCNKQYKLAVEFEAHLSSYDHNHRKRFKEMRE 196 (310)
Q Consensus 160 vFyC~lCnkqy~~~~eye~Hlnsy~H~h~~Rlk~lk~ 196 (310)
-|||=.|.+.|.+...+..|.-+..| +.|+|+|+.
T Consensus 57 qfyCi~CaRyFi~~~~l~~H~ktK~H--KrRvK~l~~ 91 (129)
T KOG3408|consen 57 QFYCIECARYFIDAKALKTHFKTKVH--KRRVKELRE 91 (129)
T ss_pred eeehhhhhhhhcchHHHHHHHhccHH--HHHHHhccc
Confidence 59999999999999999999998865 789999984
No 23
>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]
Probab=91.28 E-value=0.091 Score=49.88 Aligned_cols=47 Identities=26% Similarity=0.545 Sum_probs=43.0
Q ss_pred CCcHHHHHHHhcCCC-CCCCCCCCCCcccceeeeecCCCccccCCCcc
Q 021579 66 SSNIGFRLLQKMGWK-GKGLGKDEQGIIEPIKSGIRDPKLGVGKQEED 112 (310)
Q Consensus 66 ~sniG~kML~KMGWk-G~GLGk~~qGi~ePI~~~~k~~~~GLGa~~~d 112 (310)
...++++||..|||+ |.-||.+..-+.+||++-++.-..|+|+..++
T Consensus 37 ~~r~e~k~~~n~~~~e~r~l~~~e~~~ee~~~~la~~~~~~i~~e~~g 84 (268)
T KOG1994|consen 37 IMRREYKMMENMGYKEGRTLGSNESALEEPIKVLANTKRRGIRAEKPG 84 (268)
T ss_pred hhhhHHHHHHhcCCCCCCccchhhhhhcchHHHhhhhccccccccCcC
Confidence 467899999999999 99999999999999999999999999988754
No 24
>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=91.25 E-value=0.035 Score=33.13 Aligned_cols=22 Identities=18% Similarity=0.689 Sum_probs=20.3
Q ss_pred hhhhhhhhhhhhHHHHHhhccc
Q 021579 161 FYCDLCNKQYKLAVEFEAHLSS 182 (310)
Q Consensus 161 FyC~lCnkqy~~~~eye~Hlns 182 (310)
|-|..|++.|.....|..|+..
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 6799999999999999999875
No 25
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=90.22 E-value=0.22 Score=50.14 Aligned_cols=67 Identities=25% Similarity=0.454 Sum_probs=44.3
Q ss_pred HHHHhhhhcchhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhccchhhhH
Q 021579 118 EENIQRRKLDIEVEDTEENAKKREVLAEREQKIQTEVKEIRKVFYCDLCNKQYKLAVEFEAHLSSYDHNH 187 (310)
Q Consensus 118 ~~~~~rKkLe~E~EEtee~kRKRe~~akREqKIq~ElkeirkvFyC~lCnkqy~~~~eye~Hlnsy~H~h 187 (310)
.+|.+|+....= ==|.+.|-.+-.....+.-+. +++.--++||.+|++.|.....+++||.|.-|--
T Consensus 29 RYNLKRkVA~lP-PItaE~F~~k~~s~~~~~~~~--~e~~~~~~~c~~c~k~~~s~~a~~~hl~Sk~h~~ 95 (390)
T KOG2785|consen 29 RYNLKRKVASLP-PITAEEFNEKVLSDDSEKEEN--LEEAESVVYCEACNKSFASPKAHENHLKSKKHVE 95 (390)
T ss_pred HhhHHhHhhcCC-CcCHHHHhHHHhhhhhhhhhh--hhhcccceehHHhhccccChhhHHHHHHHhhcch
Confidence 466666654311 014555554444444333332 4556669999999999999999999999998854
No 26
>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=89.35 E-value=0.082 Score=30.83 Aligned_cols=22 Identities=27% Similarity=0.824 Sum_probs=18.0
Q ss_pred hhhhhhhhhhhhHHHHHhhccc
Q 021579 161 FYCDLCNKQYKLAVEFEAHLSS 182 (310)
Q Consensus 161 FyC~lCnkqy~~~~eye~Hlns 182 (310)
|-|++|++.|....+|..|+..
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~ 22 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRT 22 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHh
Confidence 6799999999999999999864
No 27
>smart00586 ZnF_DBF Zinc finger in DBF-like proteins.
Probab=89.16 E-value=0.18 Score=37.11 Aligned_cols=27 Identities=37% Similarity=0.795 Sum_probs=22.8
Q ss_pred hhhhhhhhhhhhhhhHHHHHhhccchhhhH
Q 021579 158 RKVFYCDLCNKQYKLAVEFEAHLSSYDHNH 187 (310)
Q Consensus 158 rkvFyC~lCnkqy~~~~eye~Hlnsy~H~h 187 (310)
.|..|||.|..-|. .|+.||.|..|..
T Consensus 3 ~k~GYCE~Cr~kfd---~l~~Hi~s~~Hr~ 29 (49)
T smart00586 3 KKPGYCENCREKYD---DLETHLLSEKHRR 29 (49)
T ss_pred CCCcccccHhHHHh---hHHHHhccHHHHH
Confidence 46789999988776 6889999999975
No 28
>PF07535 zf-DBF: DBF zinc finger; InterPro: IPR006572 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. In eukaryotes, initiation of DNA replication requires the assembly of pre-replication complexes (pre-RCs) on chromatin during the G1 phase. In the S phase, pre-RCs are activated by two protein kinases, Cdk2 and Cdc7, which results in the loading of replication factors and the unwinding of replication origins by the MCM helicase complex []. Cdc7 is a serine/threonine kinase that is conserved from yeast to human. It is regulated by its association with a regulatory subunit, the Dbf4 protein. This complex is often referred to as DDK (Dbf4-dependent kinase) []. DBF4 contains an N-terminal BRCT domain and a C-terminal conserved region that could potentially coordinate one zinc atom, the DBF4-type zinc finger. This entry represents the zinc finger, which is important for the interaction with Cdc7 [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding
Probab=87.76 E-value=0.21 Score=36.72 Aligned_cols=27 Identities=33% Similarity=0.765 Sum_probs=23.0
Q ss_pred hhhhhhhhhhhhhhhHHHHHhhccchhhhH
Q 021579 158 RKVFYCDLCNKQYKLAVEFEAHLSSYDHNH 187 (310)
Q Consensus 158 rkvFyC~lCnkqy~~~~eye~Hlnsy~H~h 187 (310)
.+.-|||.|...|. .|+.||.|..|..
T Consensus 3 ~k~GYCE~C~~ky~---~l~~Hi~s~~Hr~ 29 (49)
T PF07535_consen 3 KKPGYCENCRVKYD---DLEEHIQSEKHRK 29 (49)
T ss_pred CCCccCccccchhh---hHHHHhCCHHHHH
Confidence 35679999999887 5999999999976
No 29
>PF15473 PCNP: PEST, proteolytic signal-containing nuclear protein family
Probab=86.35 E-value=0.63 Score=41.45 Aligned_cols=19 Identities=47% Similarity=0.679 Sum_probs=14.5
Q ss_pred cCCCccceeecccCCCCcC
Q 021579 291 AKKPKVAVASVFGHDSDEE 309 (310)
Q Consensus 291 ~~~~~~~~~~~~~~~~~~~ 309 (310)
.+.++.+||+||+-|+|+|
T Consensus 85 ~~~~~~~va~~Fn~d~d~e 103 (150)
T PF15473_consen 85 LKPKKLSVAAVFNEDDDSE 103 (150)
T ss_pred cCCCcchhhhhhccccccC
Confidence 3445677999999888775
No 30
>KOG0150 consensus Spliceosomal protein FBP21 [RNA processing and modification]
Probab=85.16 E-value=4.1 Score=40.41 Aligned_cols=69 Identities=19% Similarity=0.338 Sum_probs=50.5
Q ss_pred hhhhhhhhhhhhhhhHH-HHHhhccchhhhH--HHHHHHHHHHhCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 021579 158 RKVFYCDLCNKQYKLAV-EFEAHLSSYDHNH--RKRFKEMREMHGTSSRDDRQKREQQRQEREMAKFAQMADAHKQQQ 232 (310)
Q Consensus 158 rkvFyC~lCnkqy~~~~-eye~Hlnsy~H~h--~~Rlk~lk~~~~~~~~~~r~~kE~~r~ekel~r~~~~a~~~~~~~ 232 (310)
+--.||++|-.=+.++. .-..|-.+|-|.. .+||.|+.+... .+.+|.+...++|+.|...|-+-=++.
T Consensus 8 ~~kkfCdyCKiWi~dN~~Sv~~He~GkrHke~V~Kritdi~rks~------~kekeekKls~~la~mEaaA~~syaed 79 (336)
T KOG0150|consen 8 QPKKFCDYCKIWIKDNPASVRFHERGKRHKENVAKRITDIHRKSL------KKEKEEKKLSKELAAMEAAASASYAED 79 (336)
T ss_pred ccchhhhhhhhhhcCChHHHHhHhhhhHHHHHHHHHHHHHHHhhH------HHHHHHHhhhhHHHHHHHHHHHHHHHh
Confidence 34568999988777764 3466888888866 489999987533 345677778999999988776655544
No 31
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=84.19 E-value=3.6 Score=41.69 Aligned_cols=35 Identities=26% Similarity=0.435 Sum_probs=31.1
Q ss_pred HHhhhhhhhhhhhhhhhhhHHHHHhhccchhhhHH
Q 021579 154 VKEIRKVFYCDLCNKQYKLAVEFEAHLSSYDHNHR 188 (310)
Q Consensus 154 lkeirkvFyC~lCnkqy~~~~eye~Hlnsy~H~h~ 188 (310)
..+.-+.|||.+|.+-|+.+..|+.|+-+..|...
T Consensus 232 g~~~~~~~YC~~C~r~f~~~~VFe~Hl~gK~H~k~ 266 (470)
T COG5188 232 GAEWFPKVYCVKCGREFSRSKVFEYHLEGKRHCKE 266 (470)
T ss_pred hhhhccceeeHhhhhHhhhhHHHHHHHhhhhhhhh
Confidence 45556789999999999999999999999999874
No 32
>PLN02748 tRNA dimethylallyltransferase
Probab=82.84 E-value=0.49 Score=48.63 Aligned_cols=35 Identities=23% Similarity=0.553 Sum_probs=28.8
Q ss_pred hhhhhhhhhh-hhhhHHHHHhhccchhhhHHHHHHHHH
Q 021579 159 KVFYCDLCNK-QYKLAVEFEAHLSSYDHNHRKRFKEMR 195 (310)
Q Consensus 159 kvFyC~lCnk-qy~~~~eye~Hlnsy~H~h~~Rlk~lk 195 (310)
+.|+|++|++ .+..-.+++-|+.|..|.+ |++-++
T Consensus 417 ~~~~Ce~C~~~~~~G~~eW~~Hlksr~Hk~--~~~~~~ 452 (468)
T PLN02748 417 TQYVCEACGNKVLRGAHEWEQHKQGRGHRK--RVQRLK 452 (468)
T ss_pred ccccccCCCCcccCCHHHHHHHhcchHHHH--HHhHHH
Confidence 6789999997 8999999999999988765 444333
No 33
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=82.41 E-value=0.24 Score=37.94 Aligned_cols=32 Identities=28% Similarity=0.715 Sum_probs=25.2
Q ss_pred hhhhhhhhhhhhhhhhHHHHHhhccchhhhHH
Q 021579 157 IRKVFYCDLCNKQYKLAVEFEAHLSSYDHNHR 188 (310)
Q Consensus 157 irkvFyC~lCnkqy~~~~eye~Hlnsy~H~h~ 188 (310)
+...|.|.+|++.|.+...+..|+++..|...
T Consensus 47 ~~~~~~C~~C~~~f~s~~~l~~Hm~~~~H~~~ 78 (100)
T PF12756_consen 47 VKESFRCPYCNKTFRSREALQEHMRSKHHKKR 78 (100)
T ss_dssp --SSEEBSSSS-EESSHHHHHHHHHHTTTTC-
T ss_pred cCCCCCCCccCCCCcCHHHHHHHHcCccCCCc
Confidence 33479999999999999999999999776543
No 34
>KOG2384 consensus Major histocompatibility complex protein BAT4, contains G-patch and ankyrin domains [General function prediction only]
Probab=80.68 E-value=0.39 Score=44.89 Aligned_cols=30 Identities=23% Similarity=0.508 Sum_probs=23.5
Q ss_pred hhhhhhhhhhhhhhhHHHHHhhccchhhhHH
Q 021579 158 RKVFYCDLCNKQYKLAVEFEAHLSSYDHNHR 188 (310)
Q Consensus 158 rkvFyC~lCnkqy~~~~eye~Hlnsy~H~h~ 188 (310)
-..||||+|+..|.+ +-.-+|+.|.-|++.
T Consensus 82 e~lfyCE~Cd~~ip~-~~~snH~tSttHlls 111 (223)
T KOG2384|consen 82 EALFYCEVCDIYIPN-SKKSNHFTSTTHLLS 111 (223)
T ss_pred CccchhhhhhhhccC-CCCccchhhHHHHhh
Confidence 458999999877765 346689999999875
No 35
>smart00355 ZnF_C2H2 zinc finger.
Probab=80.25 E-value=0.59 Score=27.14 Aligned_cols=21 Identities=24% Similarity=0.659 Sum_probs=19.2
Q ss_pred hhhhhhhhhhhhHHHHHhhcc
Q 021579 161 FYCDLCNKQYKLAVEFEAHLS 181 (310)
Q Consensus 161 FyC~lCnkqy~~~~eye~Hln 181 (310)
|.|..|++.|.....+..|+.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH
Confidence 569999999999999999986
No 36
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=80.02 E-value=0.93 Score=31.39 Aligned_cols=30 Identities=23% Similarity=0.530 Sum_probs=15.9
Q ss_pred hhhhhhhhhhhh-hhH-HHHHhhccchhhhHH
Q 021579 159 KVFYCDLCNKQY-KLA-VEFEAHLSSYDHNHR 188 (310)
Q Consensus 159 kvFyC~lCnkqy-~~~-~eye~Hlnsy~H~h~ 188 (310)
+-|||+.|++-+ .+. ..-..|+.+..|...
T Consensus 2 ~ryyCdyC~~~~~~d~~~~Rk~H~~G~kH~~n 33 (38)
T PF06220_consen 2 PRYYCDYCKKYLTHDSPSIRKQHERGWKHKEN 33 (38)
T ss_dssp -S-B-TTT--B-S--SHHHHHHHT--THHHHH
T ss_pred cCeecccccceecCCChHHHHHhhccHHHHHH
Confidence 459999999999 455 455899999999764
No 37
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=79.06 E-value=1.6 Score=37.37 Aligned_cols=36 Identities=28% Similarity=0.519 Sum_probs=32.0
Q ss_pred hhhhhhhhhhhhhHHHHHhhccchhhhHHHHHHHHHHH
Q 021579 160 VFYCDLCNKQYKLAVEFEAHLSSYDHNHRKRFKEMREM 197 (310)
Q Consensus 160 vFyC~lCnkqy~~~~eye~Hlnsy~H~h~~Rlk~lk~~ 197 (310)
-|||--|.+-|-....+.+|.-+.- |+.|+|+||.-
T Consensus 55 qhYCieCaryf~t~~aL~~Hkkgkv--HkRR~KelRev 90 (126)
T COG5112 55 QHYCIECARYFITEKALMEHKKGKV--HKRRAKELREV 90 (126)
T ss_pred eeeeehhHHHHHHHHHHHHHhccch--hHHHHHHHhcC
Confidence 4999999999999999999998876 47799999874
No 38
>KOG2837 consensus Protein containing a U1-type Zn-finger and implicated in RNA splicing or processing [RNA processing and modification]
Probab=77.56 E-value=1.1 Score=43.75 Aligned_cols=33 Identities=30% Similarity=0.661 Sum_probs=29.6
Q ss_pred hhhh-hhhhhhhhhhhhhHHHHHhhccchhhhHH
Q 021579 156 EIRK-VFYCDLCNKQYKLAVEFEAHLSSYDHNHR 188 (310)
Q Consensus 156 eirk-vFyC~lCnkqy~~~~eye~Hlnsy~H~h~ 188 (310)
-+|| -|||..|.+|+.+.+-|--|+.|-.|+.+
T Consensus 20 GLQKlRwyCqmCQkQcrDeNGFkCH~~SeSHqRq 53 (309)
T KOG2837|consen 20 GLQKLRWYCQMCQKQCRDENGFKCHTMSESHQRQ 53 (309)
T ss_pred hHHHHHHHHHHHHHHhccccccccccCCHHHHHH
Confidence 3444 69999999999999999999999999985
No 39
>PHA02768 hypothetical protein; Provisional
Probab=76.45 E-value=0.81 Score=34.48 Aligned_cols=24 Identities=21% Similarity=0.454 Sum_probs=22.5
Q ss_pred hhhhhhhhhhhhhHHHHHhhccch
Q 021579 160 VFYCDLCNKQYKLAVEFEAHLSSY 183 (310)
Q Consensus 160 vFyC~lCnkqy~~~~eye~Hlnsy 183 (310)
+|.|+.|++.|+....+-.|...+
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H 28 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKH 28 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhc
Confidence 699999999999999999999883
No 40
>PHA00616 hypothetical protein
Probab=72.32 E-value=1.8 Score=31.30 Aligned_cols=23 Identities=26% Similarity=0.492 Sum_probs=21.0
Q ss_pred hhhhhhhhhhhhhHHHHHhhccc
Q 021579 160 VFYCDLCNKQYKLAVEFEAHLSS 182 (310)
Q Consensus 160 vFyC~lCnkqy~~~~eye~Hlns 182 (310)
.|-|..|++.|....++-.|+++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~ 23 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLS 23 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHH
Confidence 37799999999999999999975
No 41
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=70.50 E-value=1.4 Score=40.79 Aligned_cols=34 Identities=24% Similarity=0.596 Sum_probs=0.0
Q ss_pred Hhhhhhhhhhhhh-hhhhhHHHHHhhccchhhhHH
Q 021579 155 KEIRKVFYCDLCN-KQYKLAVEFEAHLSSYDHNHR 188 (310)
Q Consensus 155 keirkvFyC~lCn-kqy~~~~eye~Hlnsy~H~h~ 188 (310)
..+-..|+||+|. ..|.--..|+.|.+-.-|.|=
T Consensus 96 hGL~~ey~CEICGN~~Y~GrkaFekHF~E~rH~~G 130 (196)
T PF11931_consen 96 HGLGVEYKCEICGNQSYKGRKAFEKHFQEWRHAYG 130 (196)
T ss_dssp -----------------------------------
T ss_pred hCCCCeeeeEeCCCcceecHHHHHHhcChhHHHcc
Confidence 4577899999995 568899999999999999984
No 42
>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=67.27 E-value=15 Score=34.85 Aligned_cols=43 Identities=21% Similarity=0.482 Sum_probs=30.8
Q ss_pred hhhhhhhhhhhhhhh--H-HHHHhhccchhhhH----HHHHHHHHHHhCC
Q 021579 158 RKVFYCDLCNKQYKL--A-VEFEAHLSSYDHNH----RKRFKEMREMHGT 200 (310)
Q Consensus 158 rkvFyC~lCnkqy~~--~-~eye~Hlnsy~H~h----~~Rlk~lk~~~~~ 200 (310)
++..-|++|.--+.. + .-+.+|+.+..|.= |+.|++|++....
T Consensus 188 qkl~VCeVCGA~Ls~~D~d~RladH~~GK~HlGy~~IR~~l~el~e~~~~ 237 (254)
T PF03194_consen 188 QKLEVCEVCGAFLSVGDNDRRLADHFGGKQHLGYAKIREKLKELKEKREE 237 (254)
T ss_pred cCccchhhhhhHHhccchHHHHHHHhccchhhhHHHHHHHHHHHHHHHHH
Confidence 345669999865543 3 35899999999975 6777888775544
No 43
>KOG3454 consensus U1 snRNP-specific protein C [RNA processing and modification]
Probab=60.24 E-value=20 Score=32.56 Aligned_cols=37 Identities=16% Similarity=0.293 Sum_probs=26.0
Q ss_pred hhhhhhhhhhhh--hHHHHHhhccchhhhHHHHHHHHHH
Q 021579 160 VFYCDLCNKQYK--LAVEFEAHLSSYDHNHRKRFKEMRE 196 (310)
Q Consensus 160 vFyC~lCnkqy~--~~~eye~Hlnsy~H~h~~Rlk~lk~ 196 (310)
-|||+.||.=++ +-+.=..|++++.|....+.=+.+=
T Consensus 3 RYyCDYCdt~LthDslsvRK~H~~GrkH~~nvk~YY~k~ 41 (165)
T KOG3454|consen 3 RYYCDYCDTYLTHDSLSVRKTHCGGRKHKDNVKDYYQKW 41 (165)
T ss_pred cchhhhhhhhhhcccHHHHHhhhhhHHHHHHHHHHHHHH
Confidence 489999984332 3355678999999988766655443
No 44
>KOG2412 consensus Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]
Probab=57.36 E-value=1.7e+02 Score=31.54 Aligned_cols=43 Identities=16% Similarity=0.156 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhccc
Q 021579 139 KREVLAEREQKIQTEVKEIRKVFYCDLCNKQYKLAVEFEAHLSS 182 (310)
Q Consensus 139 KRe~~akREqKIq~ElkeirkvFyC~lCnkqy~~~~eye~Hlns 182 (310)
.+...++..+..+...+-+..||+- +|.-|..-....+.|+-.
T Consensus 159 ~~~~n~e~~~l~~~~~e~~~~~~~r-~~e~Q~qv~qsl~~el~~ 201 (591)
T KOG2412|consen 159 EIETNAENIRLVEKLSETRKEVKRR-LLEEQNQVLQSLDTELQA 201 (591)
T ss_pred HHHhhHHHHHhhhhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444456662 354444444444444433
No 45
>PF07808 RED_N: RED-like protein N-terminal region; InterPro: IPR012916 This domain contains sequences that are similar to the N-terminal region of Red protein (Q13123 from SWISSPROT). This and related proteins contain a RED repeat which consists of a number of RE and RD sequence elements []. The region in question has several conserved NLS sequences and a putative trimeric coiled-coil region [], suggesting that these proteins are expressed in the nucleus []. The function of Red protein is unknown, but efficient sequestration to nuclear bodies suggests that its expression may be tightly regulated, or that the protein self-aggregates extremely efficiently []. ; GO: 0005634 nucleus
Probab=52.16 E-value=5.6 Score=37.60 Aligned_cols=16 Identities=25% Similarity=0.368 Sum_probs=12.2
Q ss_pred cccccccchhhhhhhhh
Q 021579 21 EKEQAYQDSVIEDLAED 37 (310)
Q Consensus 21 ~~~~~YRDRA~ER~re~ 37 (310)
.-.+.|||||+|| |+.
T Consensus 19 ~~~~~YrDRA~eR-R~~ 34 (238)
T PF07808_consen 19 KLAPGYRDRAKER-REG 34 (238)
T ss_pred ccccchhhHHHHH-Hcc
Confidence 3457899999999 543
No 46
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=52.01 E-value=4.3 Score=39.56 Aligned_cols=27 Identities=26% Similarity=0.600 Sum_probs=25.5
Q ss_pred hhhhhhhhhhhhhhhHHHHHhhccchh
Q 021579 158 RKVFYCDLCNKQYKLAVEFEAHLSSYD 184 (310)
Q Consensus 158 rkvFyC~lCnkqy~~~~eye~Hlnsy~ 184 (310)
+++|.|..|+|.|...-.+--||-+..
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~ 185 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHT 185 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccC
Confidence 889999999999999999999998876
No 47
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=50.22 E-value=3.2 Score=41.58 Aligned_cols=27 Identities=26% Similarity=0.566 Sum_probs=23.0
Q ss_pred hhhhhhhhhhhhhhhHHHHHhhccchh
Q 021579 158 RKVFYCDLCNKQYKLAVEFEAHLSSYD 184 (310)
Q Consensus 158 rkvFyC~lCnkqy~~~~eye~Hlnsy~ 184 (310)
-|.|-|++|+|-|++.+-+.-|..++-
T Consensus 396 ~KPYrCevC~KRYKNlNGLKYHr~Hsh 422 (423)
T COG5189 396 DKPYRCEVCDKRYKNLNGLKYHRKHSH 422 (423)
T ss_pred CCceeccccchhhccCccceecccccC
Confidence 378999999999999988888877654
No 48
>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=45.57 E-value=2.3 Score=26.64 Aligned_cols=15 Identities=27% Similarity=0.702 Sum_probs=12.4
Q ss_pred hhhhhhhhhhhhhhh
Q 021579 157 IRKVFYCDLCNKQYK 171 (310)
Q Consensus 157 irkvFyC~lCnkqy~ 171 (310)
-.+.|.|..|++.|+
T Consensus 11 ~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 11 GEKPYKCPYCGKSFS 25 (26)
T ss_dssp SSSSEEESSSSEEES
T ss_pred CCCCCCCCCCcCeeC
Confidence 357899999999885
No 49
>PF04988 AKAP95: A-kinase anchoring protein 95 (AKAP95); InterPro: IPR007071 A-kinase (or PKA)-anchoring protein AKAP95 is implicated in mitotic chromosome condensation by acting as a targeting molecule for the condensin complex. The protein contains two zinc fingers which are thought to mediate the binding of AKAP95 to DNA [].; GO: 0003677 DNA binding, 0005634 nucleus
Probab=37.94 E-value=12 Score=34.06 Aligned_cols=32 Identities=31% Similarity=0.503 Sum_probs=27.6
Q ss_pred hhhhhhhhhhhhHHHHHhhccchhhhHHHHHHHH
Q 021579 161 FYCDLCNKQYKLAVEFEAHLSSYDHNHRKRFKEM 194 (310)
Q Consensus 161 FyC~lCnkqy~~~~eye~Hlnsy~H~h~~Rlk~l 194 (310)
|.|.+|--.-..-.+.+.||.|..| ++-|+.+
T Consensus 1 F~Cs~CKfrtf~~~ei~~HleS~~H--~E~~~~i 32 (165)
T PF04988_consen 1 FTCSFCKFRTFEEKEIEKHLESKFH--KETLKYI 32 (165)
T ss_pred CccceeeeecccHHHHHHHHccchH--HHHHHHH
Confidence 8899999999999999999999987 4556655
No 50
>PTZ00448 hypothetical protein; Provisional
Probab=37.71 E-value=14 Score=37.42 Aligned_cols=29 Identities=28% Similarity=0.366 Sum_probs=26.7
Q ss_pred hhhhhhhhhhhhhHHHHHhhccchhhhHH
Q 021579 160 VFYCDLCNKQYKLAVEFEAHLSSYDHNHR 188 (310)
Q Consensus 160 vFyC~lCnkqy~~~~eye~Hlnsy~H~h~ 188 (310)
+|.|..|+.+|.+..++-.|.-|=-|.++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSDwHrYN 342 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSEWHIFN 342 (373)
T ss_pred CccccccccccCCHHHHHHHhhhhHHHHH
Confidence 79999999999999999999999888775
No 51
>PF04988 AKAP95: A-kinase anchoring protein 95 (AKAP95); InterPro: IPR007071 A-kinase (or PKA)-anchoring protein AKAP95 is implicated in mitotic chromosome condensation by acting as a targeting molecule for the condensin complex. The protein contains two zinc fingers which are thought to mediate the binding of AKAP95 to DNA [].; GO: 0003677 DNA binding, 0005634 nucleus
Probab=35.32 E-value=29 Score=31.61 Aligned_cols=31 Identities=29% Similarity=0.550 Sum_probs=25.2
Q ss_pred hhhhhhhhhhhhhH-HHHHhhccchhhhHHHH
Q 021579 160 VFYCDLCNKQYKLA-VEFEAHLSSYDHNHRKR 190 (310)
Q Consensus 160 vFyC~lCnkqy~~~-~eye~Hlnsy~H~h~~R 190 (310)
+++|..||.-.-.+ .-.-.||-|++|++..|
T Consensus 91 a~hCsACd~~IP~~~~~vQ~Hl~S~~H~~Nrr 122 (165)
T PF04988_consen 91 AAHCSACDVFIPMQHSSVQKHLKSQDHNKNRR 122 (165)
T ss_pred HhhhhHhhhhccCcHHHHHHHhccHHHHhhHH
Confidence 67999998877653 45678999999999765
No 52
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=34.70 E-value=22 Score=39.31 Aligned_cols=21 Identities=24% Similarity=0.708 Sum_probs=19.2
Q ss_pred hhhhhhhhhhhhhHHHHHhhc
Q 021579 160 VFYCDLCNKQYKLAVEFEAHL 180 (310)
Q Consensus 160 vFyC~lCnkqy~~~~eye~Hl 180 (310)
.|.|++|||.|..++.+..|-
T Consensus 894 myaCDqCDK~FqKqSSLaRHK 914 (1007)
T KOG3623|consen 894 MYACDQCDKAFQKQSSLARHK 914 (1007)
T ss_pred cchHHHHHHHHHhhHHHHHhh
Confidence 699999999999999998874
No 53
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=34.35 E-value=12 Score=38.92 Aligned_cols=35 Identities=23% Similarity=0.630 Sum_probs=30.4
Q ss_pred HHhhhhhhhhhhhh-hhhhhHHHHHhhccchhhhHH
Q 021579 154 VKEIRKVFYCDLCN-KQYKLAVEFEAHLSSYDHNHR 188 (310)
Q Consensus 154 lkeirkvFyC~lCn-kqy~~~~eye~Hlnsy~H~h~ 188 (310)
+..+-..|.|++|+ ..|..-..|+.|.|-.-|.|-
T Consensus 395 LHGL~~ey~CEICGNy~Y~GrkaF~RHF~EwRH~hG 430 (497)
T KOG2636|consen 395 LHGLDIEYNCEICGNYVYKGRKAFDRHFNEWRHAHG 430 (497)
T ss_pred hcCCCcccceeeccCccccCcHHHHHHhHHHHHhhc
Confidence 34457789999998 999999999999999999884
No 54
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=33.24 E-value=26 Score=26.17 Aligned_cols=32 Identities=19% Similarity=0.491 Sum_probs=25.9
Q ss_pred HHHHHHHHhhhh-hhhhhhhhhhhhhHHHHHhh
Q 021579 148 QKIQTEVKEIRK-VFYCDLCNKQYKLAVEFEAH 179 (310)
Q Consensus 148 qKIq~Elkeirk-vFyC~lCnkqy~~~~eye~H 179 (310)
.+|..-+.=+|. -|||=.|..+|.+..++..|
T Consensus 14 e~L~~l~~YLR~~~~YC~~Cg~~Y~d~~dL~~~ 46 (55)
T PF13821_consen 14 ERLDKLLSYLREEHNYCFWCGTKYDDEEDLERN 46 (55)
T ss_pred HHHHHHHHHHHhhCceeeeeCCccCCHHHHHhC
Confidence 356666777777 57999999999999998776
No 55
>KOG3032 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.14 E-value=18 Score=34.88 Aligned_cols=33 Identities=21% Similarity=0.544 Sum_probs=27.3
Q ss_pred hhhhhhhhhhhhhHHHHHhhccchhhhHHHHHHHHH
Q 021579 160 VFYCDLCNKQYKLAVEFEAHLSSYDHNHRKRFKEMR 195 (310)
Q Consensus 160 vFyC~lCnkqy~~~~eye~Hlnsy~H~h~~Rlk~lk 195 (310)
...|-+||--.+ -.-+..|+||..|+. -+..||
T Consensus 35 ql~C~vCn~piK-p~lW~vHvnsKkHre--~id~lK 67 (264)
T KOG3032|consen 35 QLVCRVCNVPIK-PSLWDVHVNSKKHRE--AIDSLK 67 (264)
T ss_pred CeeEEEecCccc-HHHHHHHhccHHHHH--HHHHHH
Confidence 456999999999 889999999998764 466666
No 56
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=33.13 E-value=13 Score=26.83 Aligned_cols=23 Identities=22% Similarity=0.326 Sum_probs=18.8
Q ss_pred hhhhhhhhhhhhhHHHHHhhccch
Q 021579 160 VFYCDLCNKQYKLAVEFEAHLSSY 183 (310)
Q Consensus 160 vFyC~lCnkqy~~~~eye~Hlnsy 183 (310)
.|-|.+|++ +.+...+..|+..+
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~ 24 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDE 24 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhH
Confidence 488999999 77788899998653
No 57
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=32.92 E-value=14 Score=27.95 Aligned_cols=21 Identities=14% Similarity=0.532 Sum_probs=0.0
Q ss_pred hhhhhhhhhhHHHHHhhccch
Q 021579 163 CDLCNKQYKLAVEFEAHLSSY 183 (310)
Q Consensus 163 C~lCnkqy~~~~eye~Hlnsy 183 (310)
|-+|+..|.+...+..|++.-
T Consensus 2 C~~C~~~f~~~~~l~~H~~~~ 22 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMKKK 22 (100)
T ss_dssp ---------------------
T ss_pred ccccccccccccccccccccc
Confidence 999999999999999999653
No 58
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=31.44 E-value=12 Score=22.40 Aligned_cols=20 Identities=20% Similarity=0.547 Sum_probs=14.1
Q ss_pred hhhhhhhhhhhhHHHHHhhcc
Q 021579 161 FYCDLCNKQYKLAVEFEAHLS 181 (310)
Q Consensus 161 FyC~lCnkqy~~~~eye~Hln 181 (310)
|-|.+|+-... ...+..|+.
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~ 20 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLK 20 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHH
Confidence 56999997777 778888874
No 59
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=29.74 E-value=18 Score=35.35 Aligned_cols=29 Identities=24% Similarity=0.489 Sum_probs=22.7
Q ss_pred hhhhhhhhhhhhhhhHHHHHhhccchhhh
Q 021579 158 RKVFYCDLCNKQYKLAVEFEAHLSSYDHN 186 (310)
Q Consensus 158 rkvFyC~lCnkqy~~~~eye~Hlnsy~H~ 186 (310)
-|.|.|..|+|-|.+-..+-.|+-+..+.
T Consensus 213 EKPF~C~hC~kAFADRSNLRAHmQTHS~~ 241 (279)
T KOG2462|consen 213 EKPFSCPHCGKAFADRSNLRAHMQTHSDV 241 (279)
T ss_pred CCCccCCcccchhcchHHHHHHHHhhcCC
Confidence 47888888888888888888888765543
No 60
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=28.23 E-value=27 Score=33.39 Aligned_cols=24 Identities=29% Similarity=0.740 Sum_probs=20.6
Q ss_pred hhhhhhhhhhhhhhhHHHHHhhcc
Q 021579 158 RKVFYCDLCNKQYKLAVEFEAHLS 181 (310)
Q Consensus 158 rkvFyC~lCnkqy~~~~eye~Hln 181 (310)
-+.|.|++|+|.|+---.++.||-
T Consensus 171 vrpykc~~c~kaftqrcsleshl~ 194 (267)
T KOG3576|consen 171 VRPYKCSLCEKAFTQRCSLESHLK 194 (267)
T ss_pred ccccchhhhhHHHHhhccHHHHHH
Confidence 357899999999999999998874
No 61
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=26.81 E-value=32 Score=26.58 Aligned_cols=28 Identities=14% Similarity=0.449 Sum_probs=23.9
Q ss_pred hhhhhhhhhhhhhHHHHHhhccchhhhHH
Q 021579 160 VFYCDLCNKQYKLAVEFEAHLSSYDHNHR 188 (310)
Q Consensus 160 vFyC~lCnkqy~~~~eye~Hlnsy~H~h~ 188 (310)
-|-|.-|+.-|..+..|..|.|- .|.|.
T Consensus 17 ~lrCPRC~~~FR~~K~Y~RHVNK-aH~~~ 44 (65)
T COG4049 17 FLRCPRCGMVFRRRKDYIRHVNK-AHGWL 44 (65)
T ss_pred eeeCCchhHHHHHhHHHHHHhhH-Hhhhh
Confidence 47799999999999999999995 55553
No 62
>PHA00732 hypothetical protein
Probab=25.79 E-value=23 Score=28.08 Aligned_cols=21 Identities=19% Similarity=0.456 Sum_probs=18.9
Q ss_pred hhhhhhhhhhhhHHHHHhhcc
Q 021579 161 FYCDLCNKQYKLAVEFEAHLS 181 (310)
Q Consensus 161 FyC~lCnkqy~~~~eye~Hln 181 (310)
|-|..|++.|.....+..|+.
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r 22 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHAR 22 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhh
Confidence 779999999999999999975
No 63
>PLN02381 valyl-tRNA synthetase
Probab=24.23 E-value=1.2e+02 Score=34.69 Aligned_cols=27 Identities=22% Similarity=0.457 Sum_probs=22.3
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHH
Q 021579 203 RDDRQKREQQRQEREMAKFAQMADAHK 229 (310)
Q Consensus 203 ~~~r~~kE~~r~ekel~r~~~~a~~~~ 229 (310)
-+.+++||.+..||||++|..+|-+.+
T Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 44 (1066)
T PLN02381 18 LERKKKKEEKAKEKELKKLKAAQKEAK 44 (1066)
T ss_pred HHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence 456778899999999999988777665
No 64
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=22.47 E-value=2.5e+02 Score=28.22 Aligned_cols=41 Identities=17% Similarity=0.425 Sum_probs=30.4
Q ss_pred hhhhhhhhhhhhhhh---HHHHHhhccchhhhH----HHHHHHHHHHh
Q 021579 158 RKVFYCDLCNKQYKL---AVEFEAHLSSYDHNH----RKRFKEMREMH 198 (310)
Q Consensus 158 rkvFyC~lCnkqy~~---~~eye~Hlnsy~H~h----~~Rlk~lk~~~ 198 (310)
+|.=-|++|+-.+.- ..-+.+|+++.-|+= +.-|.+|+...
T Consensus 184 qkl~VCeVCGa~L~~~D~d~RlaDHf~GKlHlGy~~iR~~l~eLk~~~ 231 (319)
T KOG0796|consen 184 QKLRVCEVCGAFLSVNDADRRLADHFGGKLHLGYVLIREKLAELKKEK 231 (319)
T ss_pred hhhhHHHhhhHHHhccchHHHHHHhhcchHHHHHHHHHHHHHHHHHHH
Confidence 555569999877654 356889999999975 57777777643
No 65
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=21.15 E-value=44 Score=37.13 Aligned_cols=27 Identities=26% Similarity=0.636 Sum_probs=22.6
Q ss_pred HhhhhhhhhhhhhhhhhhHHHHHhhcc
Q 021579 155 KEIRKVFYCDLCNKQYKLAVEFEAHLS 181 (310)
Q Consensus 155 keirkvFyC~lCnkqy~~~~eye~Hln 181 (310)
....+-|.|.-|+|-|+.-+.+.+||.
T Consensus 276 sa~lRKFKCtECgKAFKfKHHLKEHlR 302 (1007)
T KOG3623|consen 276 SALLRKFKCTECGKAFKFKHHLKEHLR 302 (1007)
T ss_pred hhhhccccccccchhhhhHHHHHhhhe
Confidence 345678999999999999999998873
Done!