Query psy3216
Match_columns 547
No_of_seqs 300 out of 799
Neff 5.6
Searched_HMMs 46136
Date Fri Aug 16 19:17:03 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3216.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3216hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4286|consensus 100.0 7E-125 1E-129 1014.3 27.0 486 1-514 229-794 (966)
2 KOG4301|consensus 100.0 2.8E-75 6E-80 587.5 11.3 392 98-525 14-434 (434)
3 PF09068 EF-hand_2: EF hand; 100.0 1.3E-35 2.8E-40 270.1 10.2 120 98-230 1-127 (127)
4 PF09069 EF-hand_3: EF-hand; 99.9 5.1E-23 1.1E-27 176.5 1.2 77 234-318 1-90 (90)
5 cd02334 ZZ_dystrophin Zinc fin 99.7 4.7E-18 1E-22 130.4 3.7 49 327-375 1-49 (49)
6 cd02345 ZZ_dah Zinc finger, ZZ 99.5 2.8E-15 6.1E-20 115.2 3.5 49 327-375 1-49 (49)
7 cd02343 ZZ_EF Zinc finger, ZZ 99.5 4.9E-15 1.1E-19 112.8 3.2 46 327-373 1-46 (48)
8 cd02344 ZZ_HERC2 Zinc finger, 99.5 7.5E-15 1.6E-19 110.6 3.3 45 327-375 1-45 (45)
9 cd02339 ZZ_Mind_bomb Zinc fing 99.5 8.2E-15 1.8E-19 110.6 3.4 45 327-375 1-45 (45)
10 cd02338 ZZ_PCMF_like Zinc fing 99.5 1.1E-14 2.4E-19 111.9 3.9 48 327-374 1-48 (49)
11 cd02341 ZZ_ZZZ3 Zinc finger, Z 99.4 7.1E-14 1.5E-18 106.9 3.6 46 327-375 1-48 (48)
12 cd02340 ZZ_NBR1_like Zinc fing 99.4 1.3E-13 2.8E-18 103.2 3.1 42 327-374 1-42 (43)
13 cd02335 ZZ_ADA2 Zinc finger, Z 99.4 4.6E-13 1E-17 102.9 3.8 48 327-374 1-48 (49)
14 PF00569 ZZ: Zinc finger, ZZ t 99.3 3.1E-13 6.8E-18 102.5 1.4 44 324-367 2-45 (46)
15 cd02249 ZZ Zinc finger, ZZ typ 99.3 3.4E-12 7.4E-17 96.7 3.5 46 327-375 1-46 (46)
16 cd02342 ZZ_UBA_plant Zinc fing 99.3 2.2E-12 4.9E-17 95.5 2.1 34 327-360 1-34 (43)
17 smart00291 ZnF_ZZ Zinc-binding 99.2 1.1E-11 2.3E-16 93.2 3.3 42 324-366 2-43 (44)
18 KOG1280|consensus 99.1 5E-11 1.1E-15 122.7 2.9 56 323-378 4-60 (381)
19 KOG4582|consensus 99.1 1.2E-10 2.5E-15 119.6 5.3 58 318-379 138-201 (278)
20 cd02337 ZZ_CBP Zinc finger, ZZ 98.6 1.7E-08 3.7E-13 74.9 2.1 33 327-361 1-33 (41)
21 KOG0457|consensus 98.2 5.8E-07 1.3E-11 95.7 1.4 48 327-375 15-63 (438)
22 cd02336 ZZ_RSC8 Zinc finger, Z 98.0 4.8E-06 1E-10 63.1 3.0 41 327-368 1-41 (45)
23 COG5114 Histone acetyltransfer 97.6 2.1E-05 4.6E-10 80.9 1.2 50 327-376 6-55 (432)
24 PF00435 Spectrin: Spectrin re 97.2 0.00021 4.6E-09 60.0 2.6 86 1-86 3-88 (105)
25 smart00150 SPEC Spectrin repea 97.1 0.00052 1.1E-08 57.5 4.2 84 2-86 1-85 (101)
26 KOG4301|consensus 96.6 0.0054 1.2E-07 64.3 7.2 81 459-540 95-197 (434)
27 cd00176 SPEC Spectrin repeats, 96.2 0.0047 1E-07 58.1 4.1 86 1-86 2-87 (213)
28 cd00176 SPEC Spectrin repeats, 95.1 0.023 5E-07 53.5 4.1 83 3-86 111-194 (213)
29 KOG4286|consensus 94.2 0.037 8.1E-07 63.1 3.6 70 168-237 797-877 (966)
30 PF07649 C1_3: C1-like domain; 92.4 0.061 1.3E-06 37.1 1.0 27 328-356 2-29 (30)
31 KOG0044|consensus 88.8 1.9 4.1E-05 42.6 8.2 72 193-277 62-134 (193)
32 PF03107 C1_2: C1 domain; Int 85.3 0.51 1.1E-05 32.6 1.4 27 328-356 2-29 (30)
33 PF02207 zf-UBR: Putative zinc 57.1 6.1 0.00013 32.5 1.4 33 341-378 13-48 (71)
34 PF00397 WW: WW domain; Inter 57.0 4.5 9.7E-05 28.0 0.5 11 87-97 21-31 (31)
35 COG5259 RSC8 RSC chromatin rem 56.0 6.6 0.00014 43.4 1.8 43 322-365 220-262 (531)
36 KOG1778|consensus 45.2 10 0.00022 40.4 1.1 34 326-361 169-202 (319)
37 KOG1891|consensus 43.3 11 0.00025 38.0 1.1 36 66-101 88-127 (271)
38 PF07544 Med9: RNA polymerase 42.4 1.2E+02 0.0025 25.9 7.0 58 2-61 24-81 (83)
39 cd00201 WW Two conserved trypt 41.3 12 0.00026 25.0 0.7 12 87-98 19-30 (31)
40 PF07975 C1_4: TFIIH C1-like d 37.3 12 0.00027 29.3 0.3 30 329-359 2-38 (51)
41 PF08984 DUF1858: Domain of un 37.3 28 0.00061 27.5 2.3 46 95-141 13-59 (59)
42 smart00456 WW Domain with 2 co 36.0 15 0.00033 25.0 0.5 12 87-98 20-31 (32)
43 cd00051 EFh EF-hand, calcium b 31.9 1.2E+02 0.0026 21.6 5.0 54 204-269 8-62 (63)
44 PF14206 Cys_rich_CPCC: Cystei 30.4 23 0.00049 30.2 0.8 28 327-361 2-31 (78)
45 PF10805 DUF2730: Protein of u 30.2 61 0.0013 28.8 3.5 54 2-55 38-95 (106)
46 KOG0034|consensus 28.7 2.5E+02 0.0054 27.7 7.8 47 219-273 86-134 (187)
47 PF14445 Prok-RING_2: Prokaryo 28.0 10 0.00023 29.7 -1.5 33 326-358 7-49 (57)
48 PF00643 zf-B_box: B-box zinc 26.7 53 0.0011 23.6 2.1 30 327-360 4-33 (42)
49 PTZ00183 centrin; Provisional 26.3 2E+02 0.0043 25.7 6.3 103 136-272 15-119 (158)
50 PF04135 Nop10p: Nucleolar RNA 25.8 39 0.00086 26.7 1.3 13 113-125 40-52 (53)
51 PF00130 C1_1: Phorbol esters/ 25.0 38 0.00083 25.6 1.1 23 326-349 11-36 (53)
52 PF13842 Tnp_zf-ribbon_2: DDE_ 24.9 40 0.00087 23.8 1.1 27 328-355 2-29 (32)
53 cd05024 S-100A10 S-100A10: A s 24.4 4.8E+02 0.01 22.8 7.9 68 137-226 7-74 (91)
54 TIGR01053 LSD1 zinc finger dom 23.2 59 0.0013 22.9 1.7 24 327-350 2-28 (31)
55 TIGR00622 ssl1 transcription f 23.1 58 0.0013 29.7 2.1 30 327-358 56-97 (112)
56 PF07361 Cytochrom_B562: Cytoc 22.9 85 0.0018 27.8 3.1 38 4-45 58-95 (103)
57 PF03811 Zn_Tnp_IS1: InsA N-te 21.8 55 0.0012 23.8 1.3 22 327-348 6-36 (36)
58 KOG2807|consensus 21.6 35 0.00077 36.4 0.4 32 327-359 331-362 (378)
59 cd05026 S-100Z S-100Z: S-100Z 21.2 4.1E+02 0.0088 22.6 6.9 74 137-231 9-84 (93)
60 PRK15058 cytochrome b562; Prov 20.0 1.5E+02 0.0031 27.7 4.0 7 18-24 59-65 (128)
No 1
>KOG4286|consensus
Probab=100.00 E-value=6.7e-125 Score=1014.26 Aligned_cols=486 Identities=51% Similarity=0.880 Sum_probs=466.0
Q ss_pred ChhHHHHHHHHHHHHHHHHHhhccCCCCCC--CCchHHHHHHHHHHHhhhhHhHHHHhhhhhhhcccccCCcccCcchhh
Q psy3216 1 MRLFQKSLDDLSNRLSAAESVKNTWTSVSD--ASQIPELREYLKKFSERLTPLQRALEDTNDQASFFSSNNILITSNSLH 78 (547)
Q Consensus 1 ~~~lq~am~el~~~l~~aE~~~~~W~pv~d--~d~l~~~i~~~k~f~e~l~pl~~~v~~~nd~a~~l~~~~v~Ls~~~~~ 78 (547)
|++||.+||||+..|++||.++++|+|||| ||+|++||++++.|+++|+|++..|++|||+|++|++.||+||+.+..
T Consensus 229 l~elq~a~~el~~~l~~ae~~~~~w~pvgdl~idsl~~h~e~~~~~~~ei~p~~~~v~~vndla~ql~~~d~~ls~~~~~ 308 (966)
T KOG4286|consen 229 LQELQEATDELDLKLRQAEVIKGSWQPVGDLLIDSLQDHLEKVKALRGEIAPLKENVSHVNDLARQLTTLDIQLSPYNLS 308 (966)
T ss_pred HHHHHHHHHHHHHhhhHHHhhhhccccHHHHHHhHHHHHHHHHHHHHhhcchHhhchhhHHHHHHHhhhcccCCChhhHh
Confidence 578999999999999999999999999999 499999999999999999999999999999999999999999999999
Q ss_pred hhhhccCC----------------------------------------------------CCCcccccCchhHHHHHHHH
Q psy3216 79 KLDDLNTS----------------------------------------------------HHTETTSWDHPKMIQLMNSL 106 (547)
Q Consensus 79 ~LedlN~R----------------------------------------------------h~~~~t~wdhp~~~~l~~~l 106 (547)
+|||+|+| |+|||||||||+|++|+++|
T Consensus 309 ~le~~n~rwk~Lq~SV~~rl~qlrna~~dfgp~sqhflsqsvq~pw~rais~nkvpyyinh~~q~t~wdhp~~tel~q~l 388 (966)
T KOG4286|consen 309 TLEDLNTRWKLLQVSVPDRLTQLRNAHRDFGPISQHFLSQSVQGPWERAISPNKVPYYINHETQTTCWDHPKMTELYQSL 388 (966)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHhhccCcccchhccCccccchhhcccchhhhccchHHHHHHHHH
Confidence 99999998 99999999999999999999
Q ss_pred hhhccchhhHHHHHHHHHhHhHhhccccccHHHHHHHHhhCCCcccCCcccChhhhhhhHHhhHHHHHHHHHHhCCCCCC
Q psy3216 107 SELNEVRFSAYRTALKLRTVQKRLCLDLLNLVRAIEAFDTHGLRAQNDKLLDVSDMVVLEEENHMLQAEYERLRGSRTTP 186 (547)
Q Consensus 107 ~~~n~Irfs~YRtA~KLR~lQk~~~l~lv~l~~~~~~f~~~~l~~~~~~~l~v~~~~~l~~~~~~L~~iY~~L~~~~~~p 186 (547)
+|||+|||+|||||||||+|||++|||+|++.++.+||++|+|+ +++..++|.+++++ |..+|++|..+
T Consensus 389 ad~nnvKfsaYRtAmKlr~LQK~l~ldlv~ltl~l~if~~h~l~-~~~e~m~~~~~i~~------L~~~y~~l~e~---- 457 (966)
T KOG4286|consen 389 ADLNNVKFSAYRTAMKLRRLQKALCLDLLSLSLALDALDQHNLK-QNDQPMDILQIINC------LTTIYDRLEQE---- 457 (966)
T ss_pred HHhcCeeehhHHHHHHHHHHHHHHHhccccHHHHHHHHHHhccc-ccCcCCCHHHHHHH------HHHHHHHHHHH----
Confidence 99999999999999999999999999999999999999999996 78999999999999 99999999988
Q ss_pred CCCCCCchhHHHHHHHHHHhh----cccCccccchhHHHHHHHHHHHhcccchhccccchhhhhhhhcccccCCCCcccH
Q psy3216 187 DPSSTTTPDDLEMAAEAKLLR----QHKGRLEARMQILEDHNRQLEAQLSQLESKDRSSSRFIFQNLFRLIADPNRLVDQ 262 (547)
Q Consensus 187 ~~~~~~v~~~~dLllnawLL~----~r~Grl~~rm~Vls~k~~l~~Lc~~~L~dK~~~~~~~~~rylF~liad~~g~~~~ 262 (547)
.+++++|++|+|||+| ||+| +|+|+|+ |+|||++++.||++.++|| |||+|.++|++...+++
T Consensus 458 ~g~~v~v~l~vD~~lN-~llNvyD~~R~g~ir----vls~ki~~i~lck~~leek--------~~ylF~~vA~~~sq~~q 524 (966)
T KOG4286|consen 458 HGNLVNVPLCVDMCLN-WLLNVYDTGRTGRIR----VLSFKIGIISLCKAHLEDK--------YRYLFKQVASSTSQCDQ 524 (966)
T ss_pred cccccccchHHHHHHH-HHHHhcccCCCcceE----EeeehhhHHHHhcchhHHH--------HHHHHHHHcCchhhHHH
Confidence 5788999999999999 9999 9999999 9999999999999999999 99999999999999999
Q ss_pred HHHhHHHhhhhccccccccccccCCCcCCCc---------------cchhhhhcccCCCcccchhhhhccccccCCcccc
Q psy3216 263 RKLGLLLHDCIQLPRQLGEVASFGGSNIEPS---------------AVHFLSWLQQEPQSIVWLPVLHRLSAAESAKHQA 327 (547)
Q Consensus 263 ~~l~~lL~~~i~lP~~vge~~sfggs~~~ps---------------~~~Fl~w~~~ePq~l~WLpll~rl~a~e~v~H~v 327 (547)
++|+.||+++|+||+++||+++|||+|++|+ ...|++|+..+||.+||||++||+.++|.++|..
T Consensus 525 ~~l~lLL~dliqipr~lGE~aAfGgsNvepsvrsCF~~v~~~pei~~~~f~dw~~~epqsmVwL~vlhRv~~aE~~kH~~ 604 (966)
T KOG4286|consen 525 RRLGLLLHDLIQIPRQLGEVAAFGGSNIEPSVRSCFQFVNNKPEIEAALFLDWMRLEPQSMVWLPVLHRVAAAETAKHQA 604 (966)
T ss_pred HHHHHHHHHHHHHHHHHhHHHhhcCCCCChHHHHHHHhcCCCCcchHHHHHHHhccCcchhhHHHHHHHHHHHHHHHhhh
Confidence 9999999999999999999999999999876 5779999999999999999999999999999999
Q ss_pred cCCCCCCCCcccccccccccCCCccchhhhhcCccCCCCCCCCCceEeecCCCCchhHHHHHHHHHhhccccccccCCCC
Q psy3216 328 KCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEYCTTTTSGEDVRDFTRALRNKFKSKRYFKKHPR 407 (547)
Q Consensus 328 ~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H~~~H~~~e~~~~~s~~~~~kd~~~~lr~~~~~~~~~~k~p~ 407 (547)
+|++|+++||+|+||||++|||||+|+.||++|+++++|++.|||.|||+|++++++++||++.|+|+|++++||.|||+
T Consensus 605 kCniCk~~pIvG~RyR~l~~fn~dlCq~CF~sgraak~hk~~~pM~Ey~~~tts~~d~rdfak~L~nkfr~~~~~a~~~r 684 (966)
T KOG4286|consen 605 KCNICKECPIIGFRYRSLKHFNYDICQSCFFSGRAAKGHKMHYPMVEYCTPTTSGEDVRDFAKVLKNKFRTKRYFAKHPR 684 (966)
T ss_pred hcchhhhCccceeeeeehhhcChhHHhhHhhhcccccCCCCCCCceeeeCCCCChhhHHHHHHHHHhhhccchhhhcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCccccccCCCCCC-CCCCCCCCCCCCCCCcchhhHHHHHHHHHhhhccC------CCCCCCCchHHHHHHHHHHhh
Q psy3216 408 VGYLPVQTVLEGDALES-PAPSPQHSHTIGPHDMHSRLEMYASRLAEVELRTR------SNSTPDSEDEHQLIAQYCHSL 480 (547)
Q Consensus 408 ~~~~P~~~~~~~~~~~~-p~~~p~~~~~~~~~d~h~~i~~ya~rLa~~~~~~~------~~~~~~~ddEh~lIa~y~~~L 480 (547)
+||+|++++++||++++ |+.+|. ..+.|.|++|+.|++|||.|+.... .+++.+.||+|.+|.+|+..|
T Consensus 685 rGylpvq~~~e~~~~et~pa~sP~----~~~t~t~s~~~~~asRla~me~qn~S~~~dsgs~~~s~~~~q~lI~~~~~qL 760 (966)
T KOG4286|consen 685 RGYLPVQTVLEGDNMETQPASSPQ----LSHTDTHSRIEHYASRLAEMENQNGSYLNDSGSPNESIDDEQLLIQHYCQQL 760 (966)
T ss_pred cCCccchhcccccccccCccCCCC----CcccchHHHHHHHHHHHHHHHHccccccCCCCCccccchhHHHHHHHHHHHh
Confidence 99999999999999887 333444 3678999999999999999996433 234456899999999999999
Q ss_pred cCCCCCCCCCChhHhhhhcchhhHHHHHHHHHHH
Q psy3216 481 NGGDIVPVPRSPVQVMHAIDADQREELEVMISVL 514 (547)
Q Consensus 481 ~~~~~~~~~~~p~~l~~~~~~~~r~~Le~~i~~L 514 (547)
.++++.+++.+|+||+..+++++|+|||.|++.+
T Consensus 761 ~rd~~~~q~~s~~~ilQf~~~e~r~ELe~I~a~l 794 (966)
T KOG4286|consen 761 NQDSPLSQPRSPAQILQSLESEERGELERILADL 794 (966)
T ss_pred ccccccccccChHHHHHHHHHHHhhHHHHHHHHH
Confidence 9999999999999999999999999999999999
No 2
>KOG4301|consensus
Probab=100.00 E-value=2.8e-75 Score=587.46 Aligned_cols=392 Identities=27% Similarity=0.481 Sum_probs=328.6
Q ss_pred hHHHHHHHH--hhhccchhhHHHHHHHHHhHhHhhccccccHHHHHHHHhhCCCccc-CCcccChhhhhhhHHhhHHHHH
Q psy3216 98 KMIQLMNSL--SELNEVRFSAYRTALKLRTVQKRLCLDLLNLVRAIEAFDTHGLRAQ-NDKLLDVSDMVVLEEENHMLQA 174 (547)
Q Consensus 98 ~~~~l~~~l--~~~n~Irfs~YRtA~KLR~lQk~~~l~lv~l~~~~~~f~~~~l~~~-~~~~l~v~~~~~l~~~~~~L~~ 174 (547)
+|++||.+| ++||+||||+||||||||||||+|+||+|||||+||+|+++|||.. .++.+.+++++.+ ++.
T Consensus 14 e~~ql~~emr~qd~d~irfstyr~acklrFiqkk~~~hlvdiwnmieafren~ln~l~~~tei~~srlea~------lst 87 (434)
T KOG4301|consen 14 EIRQLFAEMRAQDMDDIRFSTYRTACKLRFIQKKCNLHLVDIWNMIEAFRENGLNNLDPNTEINVSRLEAV------LST 87 (434)
T ss_pred HHHhhcccccccchhhhhhhccccccCCcceeccCCchhHHHHHHHHHHHhccccCCCCcchhhhhHHHHH------HHH
Confidence 578888888 6999999999999999999999999999999999999999999976 6788999888888 999
Q ss_pred HHHHHhCCCCCCCCCCCCchhHHHHHHHHHHhh----cccCccccchhHHHHHHHHHHHhcccchhccccchhhhhhhhc
Q psy3216 175 EYERLRGSRTTPDPSSTTTPDDLEMAAEAKLLR----QHKGRLEARMQILEDHNRQLEAQLSQLESKDRSSSRFIFQNLF 250 (547)
Q Consensus 175 iY~~L~~~~~~p~~~~~~v~~~~dLllnawLL~----~r~Grl~~rm~Vls~k~~l~~Lc~~~L~dK~~~~~~~~~rylF 250 (547)
+|.++|++ +|..++++++..+.++++ |+|. +..|++. |+++|++|+++|+|++.|| .||+|
T Consensus 88 if~qlnkr--L~ss~~id~e~sisllla-flLaA~ds~~~g~~~----vfavkialatlc~gk~~dk--------lryIf 152 (434)
T KOG4301|consen 88 IFYQLNKR--LPSSHQIDVEQSISLLLA-FLLAAEDSEGQGKQQ----VFAVKIALATLCGGKIKDK--------LRYIF 152 (434)
T ss_pred HHHhhhcc--CcccccccHHHHHHHHHH-HHHhhcCccCCCCce----eecchhhhhhhccchHHHH--------HHHHH
Confidence 99999998 789999999999999999 8887 8899999 9999999999999999999 99999
Q ss_pred ccccCCCCcccHHHHhHHHhhhhccccccccccccCCCcCC----------Cccchhhhhccc--CCCcccchhhhhccc
Q psy3216 251 RLIADPNRLVDQRKLGLLLHDCIQLPRQLGEVASFGGSNIE----------PSAVHFLSWLQQ--EPQSIVWLPVLHRLS 318 (547)
Q Consensus 251 ~liad~~g~~~~~~l~~lL~~~i~lP~~vge~~sfggs~~~----------ps~~~Fl~w~~~--ePq~l~WLpll~rl~ 318 (547)
++++|++|.++..++..||++++++|++|.|+++||+++.. ++++.|++.++. .|++++|||++|||+
T Consensus 153 s~isds~gim~~i~~~~fl~evlslpT~v~e~psfg~te~~a~~cf~qqrKv~Ln~fldtl~sdp~p~cl~wlpLmhrla 232 (434)
T KOG4301|consen 153 SLISDSRGIMQEIQRDQFLHEVLSLPTAVFEGPSFGYTELSARLCFLQQRKVELNQFLDTLMSDPPPQCLVWLPLMHRLA 232 (434)
T ss_pred HHHccchHHHHHHHHHHHHHHHHcCCchhhcCCCcchHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHH
Confidence 99999999999999999999999999999999999998643 348999999986 468999999999999
Q ss_pred cccCCcccccCCCCCCCCcccccccccccCCCccchhhhhcCccCCCCCCCCCceEeecCCCCchhHHHHHHHHHhhccc
Q psy3216 319 AAESAKHQAKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEYCTTTTSGEDVRDFTRALRNKFKS 398 (547)
Q Consensus 319 a~e~v~H~v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H~~~H~~~e~~~~~s~~~~~kd~~~~lr~~~~~ 398 (547)
.+++|.|++.|+.|...+|.|+||+|+.|.||.+|++|||+|..++.|++.|.|+||+.++++. |...+++.+.+.|
T Consensus 233 ~v~nv~hpv~cs~c~srs~~gfry~cq~C~nyqlcq~cfwrG~~g~~hsnqh~mke~Ss~ksp~---k~Lv~aisksl~c 309 (434)
T KOG4301|consen 233 TVENVFHPVECSYCRSRSMMGFRYRCQQCHNYQLCQQCFWRGHAGGSHSNQHQMKEYSSWKSPA---KKLVHAISKSLTC 309 (434)
T ss_pred hhcccCCCccCcceecccccchhhhHhhcCCccccchhhccccCCCCcchHHHHHHhhcccChH---HHHHHHhhhcccc
Confidence 9999999999999999999999999999999999999999999999999999999999999776 4678999999988
Q ss_pred cccc-cCCCCCCCCCccccccCCCCCCCCCCCCCCC---CCCCCCcchhhHHHHHHHHHhhhccCCCCCCC-CchHHHHH
Q psy3216 399 KRYF-KKHPRVGYLPVQTVLEGDALESPAPSPQHSH---TIGPHDMHSRLEMYASRLAEVELRTRSNSTPD-SEDEHQLI 473 (547)
Q Consensus 399 ~~~~-~k~p~~~~~P~~~~~~~~~~~~p~~~p~~~~---~~~~~d~h~~i~~ya~rLa~~~~~~~~~~~~~-~ddEh~lI 473 (547)
.+.. +-+|.+|--|..++ +..++.++.|+-..+. ..+..+-|+.=..| ..+.+.++ ++|||++|
T Consensus 310 ~s~~~~l~~~v~sqpekpl-dl~~iv~~~p~~~~~~t~~~~fsa~vpt~~~~~----------i~s~~~~s~~r~e~~~~ 378 (434)
T KOG4301|consen 310 SSLREPLHPEVPSQPEKPL-DLAHIVPQFPDTVPSPTSEKAFSAQVPTSKPGL----------IHSGSTPSTMRDEHALI 378 (434)
T ss_pred cccccccCCCCCCCCCCCc-chhhccCCCCCCCCCcchhhHhhccCCCCCCCc----------ccCCCCccchhhHHHHH
Confidence 6543 45677777666653 5556666554322111 01112222110000 11233444 89999999
Q ss_pred HHHHHhhcCCCCCCCCCChhHhhhhcchh--hH---HHHHHHHHHHHHHHhhhcccc
Q psy3216 474 AQYCHSLNGGDIVPVPRSPVQVMHAIDAD--QR---EELEVMISVLNPTLQTRSVTA 525 (547)
Q Consensus 474 a~y~~~L~~~~~~~~~~~p~~l~~~~~~~--~r---~~Le~~i~~L~r~lq~~~~~~ 525 (547)
||||+.|+++.+ ++-++|.++-...|+. +| .+||+..++|.+|+|+++++|
T Consensus 379 ar~aa~ls~e~~-~p~~~p~d~nf~~davkq~r~lia~lE~~n~~i~~E~~rl~lq~ 434 (434)
T KOG4301|consen 379 ARYAADLSTEAA-DPYRQPEDENFENDAVKQQRQLIAELENKNREILQEIQRLRLQH 434 (434)
T ss_pred HHHHhhhccccC-CCccCcccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 999999999854 5566777777665543 44 456777788888888887653
No 3
>PF09068 EF-hand_2: EF hand; InterPro: IPR015153 Like other EF hand domains, this domain forms a helix-loop-helix motif, though since it does not contain the canonical pattern of calcium binding residues found in many EF hand domains, it does not bind calcium ions. The main function of this domain is the provision of specificity in beta-dystroglycan recognition, though in dystrophin it serves an additional role: stabilisation of the WW domain (IPR001202 from INTERPRO), enhancing dystroglycan binding []. ; PDB: 1EG3_A 1EG4_A.
Probab=100.00 E-value=1.3e-35 Score=270.13 Aligned_cols=120 Identities=41% Similarity=0.613 Sum_probs=101.2
Q ss_pred hHHHHHHHHhhhccchhhHHHHHHHHHhHhHhhccccccHHHHHHHHhhCCCcccCCcccChhhhhhhHHhhHHHHHHHH
Q psy3216 98 KMIQLMNSLSELNEVRFSAYRTALKLRTVQKRLCLDLLNLVRAIEAFDTHGLRAQNDKLLDVSDMVVLEEENHMLQAEYE 177 (547)
Q Consensus 98 ~~~~l~~~l~~~n~Irfs~YRtA~KLR~lQk~~~l~lv~l~~~~~~f~~~~l~~~~~~~l~v~~~~~l~~~~~~L~~iY~ 177 (547)
||+|||++|++||+|||||||||||||+|||+|+||+||+|+++++|++|||+..+|..++|++++++ |+++|+
T Consensus 1 ~m~~l~~~l~~~n~IrfsaYRtA~KLR~lQk~~~l~lv~l~~v~~~f~~~~l~~~~d~~l~v~~l~~~------L~~iy~ 74 (127)
T PF09068_consen 1 KMTELMQELQDFNNIRFSAYRTAMKLRFLQKRLCLDLVDLSNVIEAFREHGLNQSNDSSLSVSQLETL------LSSIYE 74 (127)
T ss_dssp HHHHHHHHGGGGTT-SSHHHHHHHHHHHHHHHTTGGG--HHHHHHHHHHTT---T-TSEEEHHHHHHH------HHHHHH
T ss_pred CHHHHHHHHHHHhhHHHHHhHHHHHHHHHHHHHhheeeeHHHHHHHHHHcCCCcccCCCCCHHHHHHH------HHHHHH
Confidence 79999999999999999999999999999999999999999999999999999877989999999999 999999
Q ss_pred HHhCCCCCCCCCCCC---chhHHHHHHHHHHhh----cccCccccchhHHHHHHHHHHHh
Q psy3216 178 RLRGSRTTPDPSSTT---TPDDLEMAAEAKLLR----QHKGRLEARMQILEDHNRQLEAQ 230 (547)
Q Consensus 178 ~L~~~~~~p~~~~~~---v~~~~dLllnawLL~----~r~Grl~~rm~Vls~k~~l~~Lc 230 (547)
+++++. |+..+++ ++.|++|++| ||++ +|+|+|+ |+|+|++|++||
T Consensus 75 ~l~~~~--p~~~~i~~~~v~~a~~L~ln-~Ll~vyD~~rtG~I~----vls~KvaL~~Lc 127 (127)
T PF09068_consen 75 FLNKRL--PTLHQIPSRPVDLAVDLLLN-WLLNVYDSQRTGKIR----VLSFKVALITLC 127 (127)
T ss_dssp HHHHHS--TTS--HH-----HHHHHHHH-HHHHHH-TT--SEEE----HHHHHHHHHHTS
T ss_pred HHHHHC--CCCCCCCchhHHHHHHHHHH-HHHHHhCCCCCCeee----hhHHHHHHHHhC
Confidence 999983 3433333 5699999999 9999 8999999 999999999998
No 4
>PF09069 EF-hand_3: EF-hand; InterPro: IPR015154 Like other EF hand domains, this domain forms a helix-loop-helix motif, though since it does not contain the canonical pattern of calcium binding residues found in many EF hand domains, it does not bind calcium ions. The main function of this domain is the provision of specificity in beta-dystroglycan recognition, though in dystrophin it serves an additional role: stabilisation of the WW domain (IPR001202 from INTERPRO), enhancing dystroglycan binding []. ; PDB: 1EG3_A 1EG4_A.
Probab=99.86 E-value=5.1e-23 Score=176.45 Aligned_cols=77 Identities=56% Similarity=0.975 Sum_probs=63.0
Q ss_pred chhccccchhhhhhhhcccccCCCCcccHHHHhHHHhhhhccccccccccccCCCcC-------------CCccchhhhh
Q psy3216 234 LESKDRSSSRFIFQNLFRLIADPNRLVDQRKLGLLLHDCIQLPRQLGEVASFGGSNI-------------EPSAVHFLSW 300 (547)
Q Consensus 234 L~dK~~~~~~~~~rylF~liad~~g~~~~~~l~~lL~~~i~lP~~vge~~sfggs~~-------------~ps~~~Fl~w 300 (547)
|.|| |||+|++++|++|++++++|+.||+|+++||++|||+++|||.+. ..++++|++|
T Consensus 1 L~dK--------yRylFslisd~~g~~~~~~l~~lL~d~lqip~~vgE~~aFg~~e~sv~sCF~~~~~~~~I~~~~Fl~w 72 (90)
T PF09069_consen 1 LEDK--------YRYLFSLISDSNGCMDQRKLGLLLHDVLQIPRAVGEGPAFGYIEPSVRSCFQQVQLSPKITENQFLDW 72 (90)
T ss_dssp HHHH--------HHHHHHHHS-TTS-B-HHHHHHHHHHHHHHHHHTT-GGGGT--HHHHHHHHHHTTT-S-B-HHHHHHH
T ss_pred ChHH--------HHHHHHHHcCCCCCCcHHHHHHHHHHHHHHHHHhCccccccCcHHHHHHHhcccCCCCccCHHHHHHH
Confidence 6799 999999999999999999999999999999999999999999541 2347999999
Q ss_pred cccCCCcccchhhhhccc
Q psy3216 301 LQQEPQSIVWLPVLHRLS 318 (547)
Q Consensus 301 ~~~ePq~l~WLpll~rl~ 318 (547)
++.|||+++|||++|||+
T Consensus 73 l~~ePq~lVWLP~lhRlA 90 (90)
T PF09069_consen 73 LMSEPQSLVWLPTLHRLA 90 (90)
T ss_dssp HHT--TTTTHHHHHHHHH
T ss_pred HHhCCCeeeHHHHHhhcC
Confidence 999999999999999985
No 5
>cd02334 ZZ_dystrophin Zinc finger, ZZ type. Zinc finger present in dystrophin and dystrobrevin. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dystrophin attaches actin filaments to an integral membrane glycoprotein complex in muscle cells. The ZZ domain in dystrophin has been shown to be essential for binding to the membrane protein beta-dystroglycan.
Probab=99.71 E-value=4.7e-18 Score=130.37 Aligned_cols=49 Identities=73% Similarity=1.577 Sum_probs=47.7
Q ss_pred ccCCCCCCCCcccccccccccCCCccchhhhhcCccCCCCCCCCCceEe
Q psy3216 327 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEY 375 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H~~~H~~~e~ 375 (547)
|.||+|++.||.|+||||++|.|||||+.||+.|.+++.|+..|||+||
T Consensus 1 ~~Cd~C~~~pi~g~RykC~~C~d~DLC~~Cf~~g~~~~~H~~~Hp~~e~ 49 (49)
T cd02334 1 AKCNICKEFPITGFRYRCLKCFNYDLCQSCFFSGRTSKSHKNSHPMKEY 49 (49)
T ss_pred CCCCCCCCCCceeeeEECCCCCCcCchHHHHhCCCcCCCCCCCCCeecC
Confidence 6899999999999999999999999999999999999999999999987
No 6
>cd02345 ZZ_dah Zinc finger, ZZ type. Zinc finger present in Drosophila dah and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dah (discontinuous actin hexagon) is a membrane associated protein essential for cortical furrow formation in Drosophila.
Probab=99.54 E-value=2.8e-15 Score=115.19 Aligned_cols=49 Identities=31% Similarity=0.822 Sum_probs=46.5
Q ss_pred ccCCCCCCCCcccccccccccCCCccchhhhhcCccCCCCCCCCCceEe
Q psy3216 327 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEY 375 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H~~~H~~~e~ 375 (547)
+.|++|+..||.|.||+|++|.|||||+.||+.|.+++.|+..|+|+++
T Consensus 1 ~~C~~C~~~~i~g~R~~C~~C~dydLC~~Cf~~~~~~~~H~~~H~~~~~ 49 (49)
T cd02345 1 LSCSACRKQDISGIRFPCQVCRDYSLCLGCYTKGRETKRHNSLHIMYEL 49 (49)
T ss_pred CcCCCCCCCCceEeeEECCCCCCcCchHHHHhCCCcCCCCCCCCCcccC
Confidence 4799999999999999999999999999999999999999999999864
No 7
>cd02343 ZZ_EF Zinc finger, ZZ type. Zinc finger present in proteins with an EF_hand motif. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=99.52 E-value=4.9e-15 Score=112.76 Aligned_cols=46 Identities=41% Similarity=0.907 Sum_probs=43.7
Q ss_pred ccCCCCCCCCcccccccccccCCCccchhhhhcCccCCCCCCCCCce
Q psy3216 327 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQ 373 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H~~~H~~~ 373 (547)
+.||+|.. .+.|+||||++|+|||||+.||+.|.+++.|+..|||+
T Consensus 1 i~CdgC~~-~~~~~RykCl~C~d~DlC~~Cf~~g~~~~~H~~~Hpm~ 46 (48)
T cd02343 1 ISCDGCDE-IAPWHRYRCLQCTDMDLCKTCFLGGVKPEGHEDDHEMV 46 (48)
T ss_pred CCCCCCCC-cCCCceEECCCCCCchhHHHHHhCCccCCCCCCCCCcc
Confidence 57999998 58899999999999999999999999999999999996
No 8
>cd02344 ZZ_HERC2 Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=99.51 E-value=7.5e-15 Score=110.63 Aligned_cols=45 Identities=33% Similarity=0.864 Sum_probs=41.7
Q ss_pred ccCCCCCCCCcccccccccccCCCccchhhhhcCccCCCCCCCCCceEe
Q psy3216 327 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEY 375 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H~~~H~~~e~ 375 (547)
|.||+|+..||.|.||||++|.|||||+.||..+ .|+..|+|.+|
T Consensus 1 V~Cd~C~~~pI~G~RykC~~C~dyDLC~~Cf~~~----~H~~~H~F~ri 45 (45)
T cd02344 1 VTCDGCQMFPINGPRFKCRNCDDFDFCENCFKTR----KHNTRHTFGRI 45 (45)
T ss_pred CCCCCCCCCCCccCeEECCCCCCccchHHhhCCC----CcCCCCceeeC
Confidence 6899999999999999999999999999999996 68899999764
No 9
>cd02339 ZZ_Mind_bomb Zinc finger, ZZ type. Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has been shown to regulate signaling by the Notch ligand Delta in Drosophila melanogaster.
Probab=99.51 E-value=8.2e-15 Score=110.60 Aligned_cols=45 Identities=38% Similarity=1.023 Sum_probs=42.1
Q ss_pred ccCCCCCCCCcccccccccccCCCccchhhhhcCccCCCCCCCCCceEe
Q psy3216 327 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEY 375 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H~~~H~~~e~ 375 (547)
+.||+|+..||.|.||||++|.|||||+.||..+ .|++.|||.+|
T Consensus 1 i~Cd~C~~~~i~G~RykC~~C~dyDLC~~C~~~~----~H~~~H~f~r~ 45 (45)
T cd02339 1 IICDTCRKQGIIGIRWKCAECPNYDLCTTCYHGD----KHDLEHRFYRY 45 (45)
T ss_pred CCCCCCCCCCcccCeEECCCCCCccchHHHhCCC----CCCCCCCEEeC
Confidence 5799999999999999999999999999999964 68999999886
No 10
>cd02338 ZZ_PCMF_like Zinc finger, ZZ type. Zinc finger present in potassium channel modulatory factor (PCMF) 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Human potassium channel modulatory factor 1 or FIGC has been shown to possess intrinsic E3 ubiquitin ligase activity and to promote ubiquitination.
Probab=99.51 E-value=1.1e-14 Score=111.92 Aligned_cols=48 Identities=35% Similarity=0.959 Sum_probs=45.7
Q ss_pred ccCCCCCCCCcccccccccccCCCccchhhhhcCccCCCCCCCCCceE
Q psy3216 327 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQE 374 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H~~~H~~~e 374 (547)
+.||+|+..||.|.||||++|.|||||++||+.|.+++.|+.+|||+-
T Consensus 1 i~C~~C~~~~i~g~R~~C~~C~d~dlC~~Cf~~~~~~~~H~~~H~~~~ 48 (49)
T cd02338 1 VSCDGCGKSNFTGRRYKCLICYDYDLCADCYDSGVTTERHLFDHPMQC 48 (49)
T ss_pred CCCCCCcCCCcEEeeEEeCCCCCCccchhHHhCCCcCCCCCCCCCEEE
Confidence 589999988999999999999999999999999999999999999963
No 11
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=99.43 E-value=7.1e-14 Score=106.90 Aligned_cols=46 Identities=39% Similarity=0.883 Sum_probs=42.7
Q ss_pred ccCCCCCCCCcccccccccccC--CCccchhhhhcCccCCCCCCCCCceEe
Q psy3216 327 AKCNICKECPIIGFRYRCLKCF--NFDMCQTCFFQGKKAKNHKLTHPMQEY 375 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~--nfDLC~~Cf~~g~~~~~H~~~H~~~e~ 375 (547)
+.||+|+..||.|.||+|++|. |||||+.||..|. .|+..|+|..+
T Consensus 1 y~Cd~C~~~pI~G~R~~C~~C~~~d~DlC~~C~~~~~---~H~~~H~~~~i 48 (48)
T cd02341 1 FKCDSCGIEPIPGTRYHCSECDDGDFDLCQDCVVKGE---SHQEDHWLVKI 48 (48)
T ss_pred CCCCCCCCCccccceEECCCCCCCCCccCHHHHhCcC---CCCCCCceeeC
Confidence 4799999999999999999999 9999999999986 79999999753
No 12
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=99.40 E-value=1.3e-13 Score=103.24 Aligned_cols=42 Identities=40% Similarity=1.046 Sum_probs=39.4
Q ss_pred ccCCCCCCCCcccccccccccCCCccchhhhhcCccCCCCCCCCCceE
Q psy3216 327 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQE 374 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H~~~H~~~e 374 (547)
|.||+|+. ||.|.||||++|+|||||+.||..+ .| ..|||.+
T Consensus 1 v~Cd~C~~-~i~G~ry~C~~C~d~dLC~~C~~~~----~H-~~H~f~~ 42 (43)
T cd02340 1 VICDGCQG-PIVGVRYKCLVCPDYDLCESCEAKG----VH-PEHAMLK 42 (43)
T ss_pred CCCCCCCC-cCcCCeEECCCCCCccchHHhhCcC----CC-CCCCEEe
Confidence 68999999 9999999999999999999999988 68 8999975
No 13
>cd02335 ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=99.36 E-value=4.6e-13 Score=102.86 Aligned_cols=48 Identities=27% Similarity=0.678 Sum_probs=45.1
Q ss_pred ccCCCCCCCCcccccccccccCCCccchhhhhcCccCCCCCCCCCceE
Q psy3216 327 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQE 374 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H~~~H~~~e 374 (547)
..||+|...++.|.||+|.+|.|||||++||+.|.+++.|+..|+|+-
T Consensus 1 ~~Cd~C~~~~~~g~r~~C~~C~d~dLC~~Cf~~g~~~~~H~~~H~~~~ 48 (49)
T cd02335 1 YHCDYCSKDITGTIRIKCAECPDFDLCLECFSAGAEIGKHRNDHNYRV 48 (49)
T ss_pred CCCCCcCCCCCCCcEEECCCCCCcchhHHhhhCcCCCCCCCCCCCeEe
Confidence 369999999999999999999999999999999999999999999863
No 14
>PF00569 ZZ: Zinc finger, ZZ type; InterPro: IPR000433 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 ZZ-type zinc finger domains, named because of their ability to bind two zinc ions []. These domains contain 4-6 Cys residues that participate in zinc binding (plus additional Ser/His residues), including a Cys-X2-Cys motif found in other zinc finger domains. These zinc fingers are thought to be involved in protein-protein interactions. The structure of the ZZ domain shows that it belongs to the family of cross-brace zinc finger motifs that include the PHD, RING, and FYVE domains []. ZZ-type zinc finger domains are found in: Transcription factors P300 and CBP. Plant proteins involved in light responses, such as Hrb1. E3 ubiquitin ligases MEX and MIB2 (6.3.2 from EC). Dystrophin and its homologues. Single copies of the ZZ zinc finger occur in the transcriptional adaptor/coactivator proteins P300, in cAMP response element-binding protein (CREB)-binding protein (CBP) and ADA2. CBP provides several binding sites for transcriptional coactivators. The site of interaction with the tumour suppressor protein p53 and the oncoprotein E1A with CBP/P300 is a Cys-rich region that incorporates two zinc-binding motifs: ZZ-type and TAZ2-type. The ZZ-type zinc finger of CBP contains two twisted anti-parallel beta-sheets and a short alpha-helix, and binds two zinc ions []. One zinc ion is coordinated by four cysteine residues via 2 Cys-X2-Cys motifs, and the third zinc ion via a third Cys-X-Cys motif and a His-X-His motif. The first zinc cluster is strictly conserved, whereas the second zinc cluster displays variability in the position of the two His residues. In Arabidopsis thaliana (Mouse-ear cress), the hypersensitive to red and blue 1 (Hrb1) protein, which regulating both red and blue light responses, contains a ZZ-type zinc finger domain []. ZZ-type zinc finger domains have also been identified in the testis-specific E3 ubiquitin ligase MEX that promotes death receptor-induced apoptosis []. MEX has four putative zinc finger domains: one ZZ-type, one SWIM-type and two RING-type. The region containing the ZZ-type and RING-type zinc fingers is required for interaction with UbcH5a and MEX self-association, whereas the SWIM domain was critical for MEX ubiquitination. In addition, the Cys-rich domains of dystrophin, utrophin and an 87kDa post-synaptic protein contain a ZZ-type zinc finger with high sequence identity to P300/CBP ZZ-type zinc fingers. In dystrophin and utrophin, the ZZ-type zinc finger lies between a WW domain (flanked by and EF hand) and the C-terminal coiled-coil domain. Dystrophin is thought to act as a link between the actin cytoskeleton and the extracellular matrix, and perturbations of the dystrophin-associated complex, for example, between dystrophin and the transmembrane glycoprotein beta-dystroglycan, may lead to muscular dystrophy. Dystrophin and its autosomal homologue utrophin interact with beta-dystroglycan via their C-terminal regions, which are comprised of a WW domain, an EF hand domain and a ZZ-type zinc finger domain []. The WW domain is the primary site of interaction between dystrophin or utrophin and dystroglycan, while the EF hand and ZZ-type zinc finger domains stabilise and strengthen this interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1TOT_A 2DIP_A 2FC7_A 2E5R_A.
Probab=99.33 E-value=3.1e-13 Score=102.48 Aligned_cols=44 Identities=45% Similarity=1.109 Sum_probs=34.2
Q ss_pred cccccCCCCCCCCcccccccccccCCCccchhhhhcCccCCCCC
Q psy3216 324 KHQAKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHK 367 (547)
Q Consensus 324 ~H~v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H~ 367 (547)
++++.||+|+..||.|.||+|++|.|||||+.||..|..+..|+
T Consensus 2 h~~~~C~~C~~~~i~g~Ry~C~~C~d~dLC~~C~~~g~~~~~H~ 45 (46)
T PF00569_consen 2 HHGYTCDGCGTDPIIGVRYHCLVCPDYDLCEDCFSKGRHSHNHK 45 (46)
T ss_dssp CSSCE-SSS-SSSEESSEEEESSSSS-EEEHHHHHH--H-SSSS
T ss_pred CCCeECcCCCCCcCcCCeEECCCCCCCchhhHHHhCcCCCCCcC
Confidence 34799999999999999999999999999999999997655554
No 15
>cd02249 ZZ Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.
Probab=99.26 E-value=3.4e-12 Score=96.71 Aligned_cols=46 Identities=43% Similarity=1.062 Sum_probs=42.3
Q ss_pred ccCCCCCCCCcccccccccccCCCccchhhhhcCccCCCCCCCCCceEe
Q psy3216 327 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEY 375 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H~~~H~~~e~ 375 (547)
+.||+|+. +|.|.||+|.+|.|||||+.||..+. +.|+..|+|.++
T Consensus 1 ~~C~~C~~-~i~g~r~~C~~C~d~dLC~~Cf~~~~--~~H~~~H~~~~~ 46 (46)
T cd02249 1 YSCDGCLK-PIVGVRYHCLVCEDFDLCSSCYAKGK--KGHPPDHSFTEI 46 (46)
T ss_pred CCCcCCCC-CCcCCEEECCCCCCCcCHHHHHCcCc--CCCCCCCCEeEC
Confidence 47999999 99999999999999999999999986 789999999763
No 16
>cd02342 ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger present in plant ubiquitin-associated (UBA) proteins. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=99.25 E-value=2.2e-12 Score=95.52 Aligned_cols=34 Identities=32% Similarity=0.734 Sum_probs=32.5
Q ss_pred ccCCCCCCCCcccccccccccCCCccchhhhhcC
Q psy3216 327 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQG 360 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g 360 (547)
+.||+|++.||+|.||||.+|.|||||+.||...
T Consensus 1 I~CDgCg~~PI~G~RykC~~C~dyDLC~~C~~~~ 34 (43)
T cd02342 1 IQCDGCGVLPITGPRYKSKVKEDYDLCTICFSRM 34 (43)
T ss_pred CCCCCCCCCcccccceEeCCCCCCccHHHHhhhh
Confidence 5799999999999999999999999999999974
No 17
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=99.19 E-value=1.1e-11 Score=93.19 Aligned_cols=42 Identities=43% Similarity=1.159 Sum_probs=38.4
Q ss_pred cccccCCCCCCCCcccccccccccCCCccchhhhhcCccCCCC
Q psy3216 324 KHQAKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNH 366 (547)
Q Consensus 324 ~H~v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H 366 (547)
.|.+.|++|+. +|.|.||+|+.|.|||||..||..|++++.|
T Consensus 2 ~~~~~C~~C~~-~i~g~ry~C~~C~d~dlC~~Cf~~~~~~~~h 43 (44)
T smart00291 2 HHSYSCDTCGK-PIVGVRYHCLVCPDYDLCQSCFAKGSAGGEH 43 (44)
T ss_pred CCCcCCCCCCC-CCcCCEEECCCCCCccchHHHHhCcCcCCCC
Confidence 56899999999 9999999999999999999999999776555
No 18
>KOG1280|consensus
Probab=99.07 E-value=5e-11 Score=122.71 Aligned_cols=56 Identities=30% Similarity=0.751 Sum_probs=51.9
Q ss_pred Ccc-cccCCCCCCCCcccccccccccCCCccchhhhhcCccCCCCCCCCCceEeecC
Q psy3216 323 AKH-QAKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEYCTT 378 (547)
Q Consensus 323 v~H-~v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H~~~H~~~e~~~~ 378 (547)
..| +|.||||.+..+.|.||||+.|.|||||.+||..|.++.-|..+|||+-++.+
T Consensus 4 ~rHe~v~CdgC~k~~~t~rrYkCL~C~DyDlC~sCyen~~tt~~H~~dHPmqcil~~ 60 (381)
T KOG1280|consen 4 SRHEGVSCDGCGKTAFTFRRYKCLRCSDYDLCFSCYENGATTPIHDEDHPMQCILSR 60 (381)
T ss_pred CCcCCceeccccccceeeeeeEeeeecchhHHHHHhhcCCCCcccCCCCceeEEeec
Confidence 357 79999999999999999999999999999999999999999999999876654
No 19
>KOG4582|consensus
Probab=99.07 E-value=1.2e-10 Score=119.59 Aligned_cols=58 Identities=28% Similarity=0.665 Sum_probs=49.0
Q ss_pred ccccCCcc-c-----ccCCCCCCCCcccccccccccCCCccchhhhhcCccCCCCCCCCCceEeecCC
Q psy3216 318 SAAESAKH-Q-----AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEYCTTT 379 (547)
Q Consensus 318 ~a~e~v~H-~-----v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H~~~H~~~e~~~~~ 379 (547)
+..-+..| . +.||.|...+|+|.||||+.|.|||||+.|+..+ .|+..|.|.++.+..
T Consensus 138 ~~~~~~~H~~~~~~~v~CD~C~~~~IvG~RyKC~~C~dYDLCe~Ce~~~----~~h~~H~~lR~~t~~ 201 (278)
T KOG4582|consen 138 NPVVGEMHPNISKLSVPCDNCGKPGIVGARYKCTVCPDYDLCERCEAGN----EHHAAHAMLRLHTNE 201 (278)
T ss_pred CCCccccCCCcccccccCCCccCCccccceeeecCCCccchhHHhhcCC----CCCcccceeeccccc
Confidence 34445566 6 8999999999999999999999999999999986 578999999955533
No 20
>cd02337 ZZ_CBP Zinc finger, ZZ type. Zinc finger present in CBP/p300 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. CREB-binding protein (CBP) is a large multidomain protein that provides binding sites for transcriptional coactivators, the role of the ZZ domain in CBP/p300 is unclear.
Probab=98.61 E-value=1.7e-08 Score=74.93 Aligned_cols=33 Identities=33% Similarity=0.899 Sum_probs=29.6
Q ss_pred ccCCCCCCCCcccccccccccCCCccchhhhhcCc
Q psy3216 327 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGK 361 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~ 361 (547)
+.||+|.. +.|.||+|..|.|||||..||.++.
T Consensus 1 y~C~~C~~--~~~~r~~C~~C~dfDLC~~C~~~~~ 33 (41)
T cd02337 1 YTCNECKH--HVETRWHCTVCEDYDLCITCYNTKN 33 (41)
T ss_pred CcCCCCCC--cCCCceECCCCcchhhHHHHhCCCC
Confidence 46999986 6689999999999999999999864
No 21
>KOG0457|consensus
Probab=98.17 E-value=5.8e-07 Score=95.72 Aligned_cols=48 Identities=31% Similarity=0.802 Sum_probs=43.4
Q ss_pred ccCCCCCCCCccccc-ccccccCCCccchhhhhcCccCCCCCCCCCceEe
Q psy3216 327 AKCNICKECPIIGFR-YRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEY 375 (547)
Q Consensus 327 v~Cd~C~~~pI~G~R-ykC~~C~nfDLC~~Cf~~g~~~~~H~~~H~~~e~ 375 (547)
+.|++|.. .|.|.. .||.+|+|||||-.||..|...+.|+.+||+.=.
T Consensus 15 y~C~~C~~-dit~~i~ikCaeCp~fdLCl~CFs~GaE~~~H~~~H~Yrim 63 (438)
T KOG0457|consen 15 YNCDYCSL-DITGLIRIKCAECPDFDLCLQCFSVGAETGKHQNDHPYRIM 63 (438)
T ss_pred CCCccHhH-HhccceEEEeecCCCcchhHHHHhcccccCCCCCCCCceee
Confidence 78999998 777765 9999999999999999999999999999998543
No 22
>cd02336 ZZ_RSC8 Zinc finger, ZZ type. Zinc finger present in RSC8 and related proteins. RSC8 is a component of the RSC complex, which is closely related to the SWI/SNF complex and is involved in remodeling chromatin structure. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=97.99 E-value=4.8e-06 Score=63.13 Aligned_cols=41 Identities=27% Similarity=0.661 Sum_probs=36.1
Q ss_pred ccCCCCCCCCcccccccccccCCCccchhhhhcCccCCCCCC
Q psy3216 327 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKL 368 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H~~ 368 (547)
+.|+.|+. .+...||+|+++.+||||..||..|+.+..|..
T Consensus 1 y~C~~Cg~-D~t~vryh~~~~~~~dLC~~CF~~G~f~~~~~s 41 (45)
T cd02336 1 YHCFTCGN-DCTRVRYHNLKAKKYDLCPSCYQEGRFPSNFQS 41 (45)
T ss_pred CcccCCCC-ccCceEEEecCCCccccChHHHhCcCCCCCCcc
Confidence 46999998 667899999999999999999999988777753
No 23
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.59 E-value=2.1e-05 Score=80.93 Aligned_cols=50 Identities=22% Similarity=0.417 Sum_probs=44.5
Q ss_pred ccCCCCCCCCcccccccccccCCCccchhhhhcCccCCCCCCCCCceEee
Q psy3216 327 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKNHKLTHPMQEYC 376 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~H~~~H~~~e~~ 376 (547)
+.||+|...-.--.+-+|..|++||||-.||..|...+.|++.|++.-+.
T Consensus 6 ~hCdvC~~d~T~~~~i~C~eC~~~DLC~pCF~~g~~tg~H~pyH~YRiie 55 (432)
T COG5114 6 IHCDVCFLDMTDLTFIKCNECPAVDLCLPCFVNGIETGVHSPYHGYRIIE 55 (432)
T ss_pred eeehHHHHhhhcceeeeeecccccceehhhhhccccccccCCCCCeeEee
Confidence 67999998666667899999999999999999999999999999986443
No 24
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=97.20 E-value=0.00021 Score=60.00 Aligned_cols=86 Identities=24% Similarity=0.290 Sum_probs=74.8
Q ss_pred ChhHHHHHHHHHHHHHHHHHhhccCCCCCCCCchHHHHHHHHHHHhhhhHhHHHHhhhhhhhcccccCCcccCcchhhhh
Q psy3216 1 MRLFQKSLDDLSNRLSAAESVKNTWTSVSDASQIPELREYLKKFSERLTPLQRALEDTNDQASFFSSNNILITSNSLHKL 80 (547)
Q Consensus 1 ~~~lq~am~el~~~l~~aE~~~~~W~pv~d~d~l~~~i~~~k~f~e~l~pl~~~v~~~nd~a~~l~~~~v~Ls~~~~~~L 80 (547)
++.|+..++++..=|..+|..-.+..+++|++.+...+.+.+.|.++|.-.+..|+.+|+.+..|...+-.-+..+..++
T Consensus 3 ~~~f~~~~~~l~~Wl~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~~ei~~~~~~l~~l~~~~~~L~~~~~~~~~~i~~~~ 82 (105)
T PF00435_consen 3 LQQFQQEADELLDWLQETEAKLSSSEPGSDLEELEEQLKKHKELQEEIESRQERLESLNEQAQQLIDSGPEDSDEIQEKL 82 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCSCTHSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHTTHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHcCCCcHHHHHHHH
Confidence 46899999999999999999997777778899999999999999999999999999999999999777756666666666
Q ss_pred hhccCC
Q psy3216 81 DDLNTS 86 (547)
Q Consensus 81 edlN~R 86 (547)
++||.|
T Consensus 83 ~~l~~~ 88 (105)
T PF00435_consen 83 EELNQR 88 (105)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 666654
No 25
>smart00150 SPEC Spectrin repeats.
Probab=97.13 E-value=0.00052 Score=57.48 Aligned_cols=84 Identities=17% Similarity=0.243 Sum_probs=71.4
Q ss_pred hhHHHHHHHHHHHHHHHHHhhccCCCC-CCCCchHHHHHHHHHHHhhhhHhHHHHhhhhhhhcccccCCcccCcchhhhh
Q psy3216 2 RLFQKSLDDLSNRLSAAESVKNTWTSV-SDASQIPELREYLKKFSERLTPLQRALEDTNDQASFFSSNNILITSNSLHKL 80 (547)
Q Consensus 2 ~~lq~am~el~~~l~~aE~~~~~W~pv-~d~d~l~~~i~~~k~f~e~l~pl~~~v~~~nd~a~~l~~~~v~Ls~~~~~~L 80 (547)
+.|...++++..-|..+|..-.+ .++ +|++.++.++++.+.|..+|...+..|+.++..+..|...+-.-+..+..++
T Consensus 1 ~~f~~~~~~l~~Wl~~~e~~l~~-~~~~~d~~~~~~~~~~~~~~~~e~~~~~~~v~~~~~~~~~L~~~~~~~~~~i~~~~ 79 (101)
T smart00150 1 QQFLRDADELEAWLSEKEALLAS-EDLGKDLESVEALLKKHEALEAELEAHEERVEALNELGEQLIEEGHPDAEEIEERL 79 (101)
T ss_pred CchHHHHHHHHHHHHHHHHHHhC-CCCCCCHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCcHHHHHHHH
Confidence 36889999999999999966554 444 5689999999999999999999999999999999999888766666777777
Q ss_pred hhccCC
Q psy3216 81 DDLNTS 86 (547)
Q Consensus 81 edlN~R 86 (547)
++||.|
T Consensus 80 ~~l~~~ 85 (101)
T smart00150 80 EELNER 85 (101)
T ss_pred HHHHHH
Confidence 777754
No 26
>KOG4301|consensus
Probab=96.59 E-value=0.0054 Score=64.29 Aligned_cols=81 Identities=14% Similarity=0.086 Sum_probs=65.8
Q ss_pred CCCCCCCCchHHHHHHHHHHhhcCCCCCCCCCC-------------------hhHhhhhcchhhHHHHHHHHHHHHHHHh
Q psy3216 459 RSNSTPDSEDEHQLIAQYCHSLNGGDIVPVPRS-------------------PVQVMHAIDADQREELEVMISVLNPTLQ 519 (547)
Q Consensus 459 ~~~~~~~~ddEh~lIa~y~~~L~~~~~~~~~~~-------------------p~~l~~~~~~~~r~~Le~~i~~L~r~lq 519 (547)
+..++..+|.||.++++|+.+||++++.++++. ..+.|+++.++.||+|.. |+.++=..+
T Consensus 95 rL~ss~~id~e~sislllaflLaA~ds~~~g~~~vfavkialatlc~gk~~dklryIfs~isds~gim~~-i~~~~fl~e 173 (434)
T KOG4301|consen 95 RLPSSHQIDVEQSISLLLAFLLAAEDSEGQGKQQVFAVKIALATLCGGKIKDKLRYIFSLISDSRGIMQE-IQRDQFLHE 173 (434)
T ss_pred cCcccccccHHHHHHHHHHHHHhhcCccCCCCceeecchhhhhhhccchHHHHHHHHHHHHccchHHHHH-HHHHHHHHH
Confidence 344555699999999999999999876555432 347789999999999999 888887888
Q ss_pred hhcccchhhcCCCh---hhhhccc
Q psy3216 520 TRSVTASQLATDSP---AKMNGHC 540 (547)
Q Consensus 520 ~~~~~~~~~~~~~p---~~~~~~~ 540 (547)
.++++++...++|| ++.+++|
T Consensus 174 vlslpT~v~e~psfg~te~~a~~c 197 (434)
T KOG4301|consen 174 VLSLPTAVFEGPSFGYTELSARLC 197 (434)
T ss_pred HHcCCchhhcCCCcchHHHHHHHH
Confidence 99999999999999 7766655
No 27
>cd00176 SPEC Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; the repeats are independent folding units; tandem repeats are found in differing numbers and arrange in an antiparallel manner to form dimers; the repeats are defined by a characteristic tryptophan (W) residue in helix A and a leucine (L) at the carboxyl end of helix C and separated by a linker of 5 residues; two copies of the repeat are present here
Probab=96.21 E-value=0.0047 Score=58.15 Aligned_cols=86 Identities=16% Similarity=0.216 Sum_probs=78.3
Q ss_pred ChhHHHHHHHHHHHHHHHHHhhccCCCCCCCCchHHHHHHHHHHHhhhhHhHHHHhhhhhhhcccccCCcccCcchhhhh
Q psy3216 1 MRLFQKSLDDLSNRLSAAESVKNTWTSVSDASQIPELREYLKKFSERLTPLQRALEDTNDQASFFSSNNILITSNSLHKL 80 (547)
Q Consensus 1 ~~~lq~am~el~~~l~~aE~~~~~W~pv~d~d~l~~~i~~~k~f~e~l~pl~~~v~~~nd~a~~l~~~~v~Ls~~~~~~L 80 (547)
++.|+..++++..=|..+|..-.++.+++|++++...+++.+.|...+...+..|+.++..+..|...+-..+......+
T Consensus 2 ~~~f~~~~~~l~~Wl~~~e~~l~~~~~~~d~~~~~~~l~~~~~~~~e~~~~~~~~~~l~~~~~~L~~~~~~~~~~i~~~~ 81 (213)
T cd00176 2 LQQFLRDADELEAWLSEKEELLSSTDYGDDLESVEALLKKHEALEAELAAHEERVEALNELGEQLIEEGHPDAEEIQERL 81 (213)
T ss_pred HHHHHHhHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHhcCCCChHHHHHHH
Confidence 36799999999999999999999999999999999999999999999999999999999999999988776677777778
Q ss_pred hhccCC
Q psy3216 81 DDLNTS 86 (547)
Q Consensus 81 edlN~R 86 (547)
++||.|
T Consensus 82 ~~l~~~ 87 (213)
T cd00176 82 EELNQR 87 (213)
T ss_pred HHHHHH
Confidence 888866
No 28
>cd00176 SPEC Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; the repeats are independent folding units; tandem repeats are found in differing numbers and arrange in an antiparallel manner to form dimers; the repeats are defined by a characteristic tryptophan (W) residue in helix A and a leucine (L) at the carboxyl end of helix C and separated by a linker of 5 residues; two copies of the repeat are present here
Probab=95.10 E-value=0.023 Score=53.47 Aligned_cols=83 Identities=22% Similarity=0.223 Sum_probs=69.0
Q ss_pred hHHHHHHHHHHHHHHHHHhhccCCCCCCCCchHHHHHHHHHHHhhhhHhHHHHhhhhhhhcccccCCcccC-cchhhhhh
Q psy3216 3 LFQKSLDDLSNRLSAAESVKNTWTSVSDASQIPELREYLKKFSERLTPLQRALEDTNDQASFFSSNNILIT-SNSLHKLD 81 (547)
Q Consensus 3 ~lq~am~el~~~l~~aE~~~~~W~pv~d~d~l~~~i~~~k~f~e~l~pl~~~v~~~nd~a~~l~~~~v~Ls-~~~~~~Le 81 (547)
.++..++ +..-+..+|..-..+.++++++.+++++++++.|.+.|+..+..++.+++.+..|...+...+ ..+..+++
T Consensus 111 ~~~~~~~-l~~wl~~~e~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~ 189 (213)
T cd00176 111 FFRDADD-LEQWLEEKEAALASEDLGKDLESVEELLKKHKELEEELEAHEPRLKSLNELAEELLEEGHPDADEEIEEKLE 189 (213)
T ss_pred HHHHHHH-HHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence 3455555 888899999999999999889999999999999999999999999999999999988876665 45555555
Q ss_pred hccCC
Q psy3216 82 DLNTS 86 (547)
Q Consensus 82 dlN~R 86 (547)
.|+.|
T Consensus 190 ~l~~~ 194 (213)
T cd00176 190 ELNER 194 (213)
T ss_pred HHHHH
Confidence 55543
No 29
>KOG4286|consensus
Probab=94.21 E-value=0.037 Score=63.12 Aligned_cols=70 Identities=61% Similarity=0.840 Sum_probs=53.6
Q ss_pred hhHHHHHHHHHHhCCC----CCCCCC---C-C---CchhHHHHHHHHHHhhcccCccccchhHHHHHHHHHHHhcccchh
Q psy3216 168 ENHMLQAEYERLRGSR----TTPDPS---S-T---TTPDDLEMAAEAKLLRQHKGRLEARMQILEDHNRQLEAQLSQLES 236 (547)
Q Consensus 168 ~~~~L~~iY~~L~~~~----~~p~~~---~-~---~v~~~~dLllnawLL~~r~Grl~~rm~Vls~k~~l~~Lc~~~L~d 236 (547)
.|+.++..|.+++..+ .+|..+ . + +.....||+.+|.++++|+||+++|||+++.+|.++++++.+|..
T Consensus 797 e~r~lq~e~~qlk~Qhe~rg~AP~ls~~~s~~St~~tQ~~~dl~AEAkaLRqHK~RLE~R~rILEdhNKQLESQLqRLr~ 876 (966)
T KOG4286|consen 797 ENRNLQAEYDRLKQQHEHKGLAPLPSPPEMMPSTPQSQRDAELIAEAKALRQHKGRLEARMQILEDHNKQLESQLHRLRQ 876 (966)
T ss_pred hhhhhhcCCCcchhhhhcccCCCCCCCcccccCCCCcchhHHHHHHHHHHHHhhhhHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 5555666777776544 112222 1 1 233588999999999999999999999999999999999999976
Q ss_pred c
Q psy3216 237 K 237 (547)
Q Consensus 237 K 237 (547)
.
T Consensus 877 L 877 (966)
T KOG4286|consen 877 L 877 (966)
T ss_pred H
Confidence 6
No 30
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=92.35 E-value=0.061 Score=37.06 Aligned_cols=27 Identities=44% Similarity=1.296 Sum_probs=12.7
Q ss_pred cCCCCCCCCccc-ccccccccCCCccchhh
Q psy3216 328 KCNICKECPIIG-FRYRCLKCFNFDMCQTC 356 (547)
Q Consensus 328 ~Cd~C~~~pI~G-~RykC~~C~nfDLC~~C 356 (547)
.|+.|+. ++.| .-|.|..| ||++...|
T Consensus 2 ~C~~C~~-~~~~~~~Y~C~~C-df~lH~~C 29 (30)
T PF07649_consen 2 RCDACGK-PIDGGWFYRCSEC-DFDLHEEC 29 (30)
T ss_dssp --TTTS-----S--EEE-TTT------HHH
T ss_pred cCCcCCC-cCCCCceEECccC-CCccChhc
Confidence 6999997 7777 89999999 89988877
No 31
>KOG0044|consensus
Probab=88.78 E-value=1.9 Score=42.58 Aligned_cols=72 Identities=17% Similarity=0.224 Sum_probs=60.0
Q ss_pred chhHHHHHHHHHHhhcccCccccchhHHHHHHHHHHHhcccchhccccchhhhhhhhccccc-CCCCcccHHHHhHHHhh
Q psy3216 193 TPDDLEMAAEAKLLRQHKGRLEARMQILEDHNRQLEAQLSQLESKDRSSSRFIFQNLFRLIA-DPNRLVDQRKLGLLLHD 271 (547)
Q Consensus 193 v~~~~dLllnawLL~~r~Grl~~rm~Vls~k~~l~~Lc~~~L~dK~~~~~~~~~rylF~lia-d~~g~~~~~~l~~lL~~ 271 (547)
...-.+++.+ =+...+.|.|+ ..+|-.++..++.|.+.+| .+..|+++. |++|+|++.-+-.++..
T Consensus 62 ~~~y~~~vF~-~fD~~~dg~i~----F~Efi~als~~~rGt~eek--------l~w~F~lyD~dgdG~It~~Eml~iv~~ 128 (193)
T KOG0044|consen 62 ASKYAELVFR-TFDKNKDGTID----FLEFICALSLTSRGTLEEK--------LKWAFRLYDLDGDGYITKEEMLKIVQA 128 (193)
T ss_pred HHHHHHHHHH-HhcccCCCCcC----HHHHHHHHHHHcCCcHHHH--------hhhhheeecCCCCceEcHHHHHHHHHH
Confidence 3445566666 55668999999 9999999999999999999 999999977 67899999999888887
Q ss_pred hhcccc
Q psy3216 272 CIQLPR 277 (547)
Q Consensus 272 ~i~lP~ 277 (547)
+.++-.
T Consensus 129 i~~m~~ 134 (193)
T KOG0044|consen 129 IYQMTG 134 (193)
T ss_pred HHHHcc
Confidence 766643
No 32
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=85.25 E-value=0.51 Score=32.59 Aligned_cols=27 Identities=37% Similarity=1.059 Sum_probs=22.8
Q ss_pred cCCCCCCCCcccc-cccccccCCCccchhh
Q psy3216 328 KCNICKECPIIGF-RYRCLKCFNFDMCQTC 356 (547)
Q Consensus 328 ~Cd~C~~~pI~G~-RykC~~C~nfDLC~~C 356 (547)
.|++|.. .+.|+ .|+|..|. |++...|
T Consensus 2 ~C~~C~~-~~~~~~~Y~C~~c~-f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRR-KIDGFYFYHCSECC-FTLHVRC 29 (30)
T ss_pred CCCCCCC-CcCCCEeEEeCCCC-CeEcCcc
Confidence 6999986 88899 99999988 8876665
No 33
>PF02207 zf-UBR: Putative zinc finger in N-recognin (UBR box); InterPro: IPR003126 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 N-end rule-based degradation signal, which targets a protein for ubiquitin-dependent proteolysis, comprises a destabilising amino-terminal residue and a specific internal lysine residue. This entry describes a putative zinc finger in N-recognin, a recognition component of the N-end rule pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0004842 ubiquitin-protein ligase activity, 0008270 zinc ion binding; PDB: 3NY1_B 3NIS_F 3NIM_A 3NIK_A 3NII_A 3NIH_A 3NIL_D 3NIN_B 3NIJ_A 3NIT_A ....
Probab=57.13 E-value=6.1 Score=32.51 Aligned_cols=33 Identities=33% Similarity=0.759 Sum_probs=23.2
Q ss_pred cccccccCC---CccchhhhhcCccCCCCCCCCCceEeecC
Q psy3216 341 RYRCLKCFN---FDMCQTCFFQGKKAKNHKLTHPMQEYCTT 378 (547)
Q Consensus 341 RykC~~C~n---fDLC~~Cf~~g~~~~~H~~~H~~~e~~~~ 378 (547)
-|+|..|.. .-+|..||..+- |. .|.+..+...
T Consensus 13 ~y~C~tC~~~~~~~iC~~CF~~~~----H~-gH~~~~~~~~ 48 (71)
T PF02207_consen 13 FYRCLTCSLDESSGICEECFANSC----HE-GHRVVYYRSS 48 (71)
T ss_dssp EEEETTTBSSTT-BBEHHHHCTSG----GG-GSSEEEEE--
T ss_pred EEECccCCCCCCEEEchhhCCCCC----cC-CCcEEEEEeC
Confidence 488888875 888999999874 33 7777766544
No 34
>PF00397 WW: WW domain; InterPro: IPR001202 Synonym(s): Rsp5 or WWP domain The WW domain is a short conserved region in a number of unrelated proteins, which folds as a stable, triple stranded beta-sheet. This short domain of approximately 40 amino acids, may be repeated up to four times in some proteins [, , , ]. The name WW or WWP derives from the presence of two signature tryptophan residues that are spaced 20-23 amino acids apart and are present in most WW domains known to date, as well as that of a conserved Pro. The WW domain binds to proteins with particular proline-motifs, [AP]-P-P-[AP]-Y, and/or phosphoserine- phosphothreonine-containing motifs [, ]. It is frequently associated with other domains typical for proteins in signal transduction processes. A large variety of proteins containing the WW domain are known. These include; dystrophin, a multidomain cytoskeletal protein; utrophin, a dystrophin-like protein of unknown function; vertebrate YAP protein, substrate of an unknown serine kinase; Mus musculus (Mouse) NEDD-4, involved in the embryonic development and differentiation of the central nervous system; Saccharomyces cerevisiae (Baker's yeast) RSP5, similar to NEDD-4 in its molecular organisation; Rattus norvegicus (Rat) FE65, a transcription-factor activator expressed preferentially in liver; Nicotiana tabacum (Common tobacco) DB10 protein, amongst others.; GO: 0005515 protein binding; PDB: 2JXW_A 2DK1_A 2JOC_A 2JO9_A 1YIU_A 1O6W_A 2JMF_A 1TK7_A 2KYK_A 2L5F_A ....
Probab=57.03 E-value=4.5 Score=27.98 Aligned_cols=11 Identities=36% Similarity=1.054 Sum_probs=10.6
Q ss_pred CCCcccccCch
Q psy3216 87 HHTETTSWDHP 97 (547)
Q Consensus 87 h~~~~t~wdhp 97 (547)
|.|++|+|+||
T Consensus 21 ~~t~~s~W~~P 31 (31)
T PF00397_consen 21 HETGESQWERP 31 (31)
T ss_dssp TTTTEEESSST
T ss_pred CCCCCEEeCCC
Confidence 99999999998
No 35
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=55.98 E-value=6.6 Score=43.45 Aligned_cols=43 Identities=28% Similarity=0.648 Sum_probs=34.5
Q ss_pred CCcccccCCCCCCCCcccccccccccCCCccchhhhhcCccCCC
Q psy3216 322 SAKHQAKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGKKAKN 365 (547)
Q Consensus 322 ~v~H~v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~~~~~ 365 (547)
.-.|...|+-|+...+. .||.-+.-..|++|..||..|+.+..
T Consensus 220 ~~~~~~~C~~cG~~~~~-t~y~nlra~~~n~C~~C~~qg~f~s~ 262 (531)
T COG5259 220 SEKHPSSCSCCGNKSFN-TRYHNLRAEKYNSCSECYDQGRFPSE 262 (531)
T ss_pred cccCCceeeccCccccc-hhhhhhhhhhcccchHHHhcCcCCCc
Confidence 34567899999985554 57999999999999999999976433
No 36
>KOG1778|consensus
Probab=45.17 E-value=10 Score=40.35 Aligned_cols=34 Identities=26% Similarity=0.607 Sum_probs=29.8
Q ss_pred cccCCCCCCCCcccccccccccCCCccchhhhhcCc
Q psy3216 326 QAKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQGK 361 (547)
Q Consensus 326 ~v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g~ 361 (547)
...|..|... . ..+|.|..|.+||.|..|+....
T Consensus 169 ~~~c~~c~~~-~-~~~~~c~~~~d~d~~~~~~~k~~ 202 (319)
T KOG1778|consen 169 AYTCPICKLE-V-LTAWHCEVCPDYDRCRACEEKPL 202 (319)
T ss_pred eeecCccccc-c-ccccccccCCchhhhhcccCCCC
Confidence 4899999973 3 77899999999999999999874
No 37
>KOG1891|consensus
Probab=43.32 E-value=11 Score=38.03 Aligned_cols=36 Identities=19% Similarity=0.342 Sum_probs=27.7
Q ss_pred ccCCcccCcchhhhhhhccCC----CCCcccccCchhHHH
Q psy3216 66 SSNNILITSNSLHKLDDLNTS----HHTETTSWDHPKMIQ 101 (547)
Q Consensus 66 ~~~~v~Ls~~~~~~LedlN~R----h~~~~t~wdhp~~~~ 101 (547)
.+.++.||+..+.+.--=|+. |.+.||+|.||--+|
T Consensus 88 ~sedlPLPpgWav~~T~~grkYYIDHn~~tTHW~HPlerE 127 (271)
T KOG1891|consen 88 CSEDLPLPPGWAVEFTTEGRKYYIDHNNRTTHWVHPLERE 127 (271)
T ss_pred CcccCCCCCCcceeeEecCceeEeecCCCcccccChhhhc
Confidence 567899999997665443433 999999999997655
No 38
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=42.36 E-value=1.2e+02 Score=25.88 Aligned_cols=58 Identities=12% Similarity=0.282 Sum_probs=48.3
Q ss_pred hhHHHHHHHHHHHHHHHHHhhccCCCCCCCCchHHHHHHHHHHHhhhhHhHHHHhhhhhh
Q psy3216 2 RLFQKSLDDLSNRLSAAESVKNTWTSVSDASQIPELREYLKKFSERLTPLQRALEDTNDQ 61 (547)
Q Consensus 2 ~~lq~am~el~~~l~~aE~~~~~W~pv~d~d~l~~~i~~~k~f~e~l~pl~~~v~~~nd~ 61 (547)
++|..+.+.+..+|..|-+.-.+-..++ .+..++.++++..++++.--+..+.++.+.
T Consensus 24 kd~~~~~~~lk~Klq~ar~~i~~lpgi~--~s~eeq~~~i~~Le~~i~~k~~~L~~~~~~ 81 (83)
T PF07544_consen 24 KDLDTATGSLKHKLQKARAAIRELPGID--RSVEEQEEEIEELEEQIRKKREVLQKFKER 81 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCcc--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4678899999999999998888765533 688999999999999999988888887664
No 39
>cd00201 WW Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other peptide recognition proteins such as antibodies and receptors; WW domains have a single groove formed by a conserved Trp and Tyr which recognizes a pair of residues of the sequence X-Pro; variable loops and neighboring domains confer specificity in this domain; there are five distinct groups based on binding: 1) PPXY motifs 2) the PPLP motif; 3) PGM motifs; 4) PSP or PTP motifs; 5) PR motifs.
Probab=41.30 E-value=12 Score=25.00 Aligned_cols=12 Identities=42% Similarity=1.140 Sum_probs=11.1
Q ss_pred CCCcccccCchh
Q psy3216 87 HHTETTSWDHPK 98 (547)
Q Consensus 87 h~~~~t~wdhp~ 98 (547)
|.|+.|+|+||.
T Consensus 19 ~~t~~s~W~~P~ 30 (31)
T cd00201 19 HNTKETQWEDPR 30 (31)
T ss_pred CCCCCEeCCCCC
Confidence 899999999995
No 40
>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=37.35 E-value=12 Score=29.27 Aligned_cols=30 Identities=40% Similarity=0.731 Sum_probs=17.0
Q ss_pred CCCCCCCCccc-------ccccccccCCCccchhhhhc
Q psy3216 329 CNICKECPIIG-------FRYRCLKCFNFDMCQTCFFQ 359 (547)
Q Consensus 329 Cd~C~~~pI~G-------~RykC~~C~nfDLC~~Cf~~ 359 (547)
|-+|...-..+ .||+|.+|.++ +|.+|-.-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~-FC~dCD~f 38 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNH-FCIDCDVF 38 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT---B-HHHHHT
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCc-cccCcChh
Confidence 66777632222 69999999985 69998764
No 41
>PF08984 DUF1858: Domain of unknown function (DUF1858); InterPro: IPR015077 This protein has no known function. It is found in various hypothetical bacterial proteins. ; PDB: 2K53_A 2K5E_A 2FI0_A.
Probab=37.27 E-value=28 Score=27.46 Aligned_cols=46 Identities=17% Similarity=0.273 Sum_probs=36.4
Q ss_pred CchhHHHHHHHHhhhccchhh-HHHHHHHHHhHhHhhccccccHHHHH
Q psy3216 95 DHPKMIQLMNSLSELNEVRFS-AYRTALKLRTVQKRLCLDLLNLVRAI 141 (547)
Q Consensus 95 dhp~~~~l~~~l~~~n~Irfs-~YRtA~KLR~lQk~~~l~lv~l~~~~ 141 (547)
.||++.++|.++ .|+.+.-. .-+|-.|.-.|.+.+..+-||+..++
T Consensus 13 ~yP~~~~il~~~-gf~~l~~p~~~~~~~~~~Tl~~aa~~~gid~~~li 59 (59)
T PF08984_consen 13 QYPELIEILVSY-GFHCLGNPVMRNTMAKFETLEQAAKMHGIDLEKLI 59 (59)
T ss_dssp H-GGGHHHHHHT-TGGGGGSCCHHTTHHHHSBHHHHHHHHT--HHHHH
T ss_pred HCHHHHHHHHHc-CCcccCCcHHHHhhcccCCHHHHHHHcCCCHHHhC
Confidence 489999999998 88888876 68888899999999999999887653
No 42
>smart00456 WW Domain with 2 conserved Trp (W) residues. Also known as the WWP or rsp5 domain. Binds proline-rich polypeptides.
Probab=36.04 E-value=15 Score=24.96 Aligned_cols=12 Identities=42% Similarity=1.124 Sum_probs=11.2
Q ss_pred CCCcccccCchh
Q psy3216 87 HHTETTSWDHPK 98 (547)
Q Consensus 87 h~~~~t~wdhp~ 98 (547)
|.|+.++|++|.
T Consensus 20 ~~t~~s~W~~P~ 31 (32)
T smart00456 20 HETKETQWEKPR 31 (32)
T ss_pred CCCCCEEcCCCC
Confidence 899999999995
No 43
>cd00051 EFh EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to the activation or inactivation of target proteins. EF-hands tend to occur in pairs or higher copy numbers.
Probab=31.87 E-value=1.2e+02 Score=21.64 Aligned_cols=54 Identities=13% Similarity=0.111 Sum_probs=39.1
Q ss_pred HHhhcccCccccchhHHHHHHHHHHHhcccchhccccchhhhhhhhccccc-CCCCcccHHHHhHHH
Q psy3216 204 KLLRQHKGRLEARMQILEDHNRQLEAQLSQLESKDRSSSRFIFQNLFRLIA-DPNRLVDQRKLGLLL 269 (547)
Q Consensus 204 wLL~~r~Grl~~rm~Vls~k~~l~~Lc~~~L~dK~~~~~~~~~rylF~lia-d~~g~~~~~~l~~lL 269 (547)
.+...++|.|. .-++..++..++.....+. ++.+|.... +.+|.++...|..++
T Consensus 8 ~~d~~~~g~l~----~~e~~~~l~~~~~~~~~~~--------~~~~~~~~~~~~~~~l~~~ef~~~~ 62 (63)
T cd00051 8 LFDKDGDGTIS----ADELKAALKSLGEGLSEEE--------IDEMIREVDKDGDGKIDFEEFLELM 62 (63)
T ss_pred HhCCCCCCcCc----HHHHHHHHHHhCCCCCHHH--------HHHHHHHhCCCCCCeEeHHHHHHHh
Confidence 45558889999 8888888888776666666 777888763 456788877775543
No 44
>PF14206 Cys_rich_CPCC: Cysteine-rich CPCC
Probab=30.40 E-value=23 Score=30.21 Aligned_cols=28 Identities=21% Similarity=0.641 Sum_probs=18.9
Q ss_pred ccCCCCCCCCcccccccccccCC--CccchhhhhcCc
Q psy3216 327 AKCNICKECPIIGFRYRCLKCFN--FDMCQTCFFQGK 361 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~n--fDLC~~Cf~~g~ 361 (547)
+.|--|+...+... .+ ||+|..|||..-
T Consensus 2 ~~CPCCg~~Tl~~~-------~~~~ydIC~VC~WEdD 31 (78)
T PF14206_consen 2 YPCPCCGYYTLEER-------GEGTYDICPVCFWEDD 31 (78)
T ss_pred ccCCCCCcEEeccC-------CCcCceECCCCCcccC
Confidence 45777776444322 33 999999999863
No 45
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=30.17 E-value=61 Score=28.83 Aligned_cols=54 Identities=24% Similarity=0.300 Sum_probs=37.0
Q ss_pred hhHHHHHHHHHHHHHHHHHhhccCCCCCCCCchHHHHHHH----HHHHhhhhHhHHHH
Q psy3216 2 RLFQKSLDDLSNRLSAAESVKNTWTSVSDASQIPELREYL----KKFSERLTPLQRAL 55 (547)
Q Consensus 2 ~~lq~am~el~~~l~~aE~~~~~W~pv~d~d~l~~~i~~~----k~f~e~l~pl~~~v 55 (547)
..++..+++.+.||+..|..-..-+.=+|+..|+-.|.++ +...++|.++.+.+
T Consensus 38 ~~l~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~~~~ 95 (106)
T PF10805_consen 38 EKLEERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVSHQL 95 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 3566777888999999999999988777776665555544 34455555554443
No 46
>KOG0034|consensus
Probab=28.73 E-value=2.5e+02 Score=27.65 Aligned_cols=47 Identities=15% Similarity=0.137 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHhc-ccchhccccchhhhhhhhccccc-CCCCcccHHHHhHHHhhhh
Q psy3216 219 ILEDHNRQLEAQL-SQLESKDRSSSRFIFQNLFRLIA-DPNRLVDQRKLGLLLHDCI 273 (547)
Q Consensus 219 Vls~k~~l~~Lc~-~~L~dK~~~~~~~~~rylF~lia-d~~g~~~~~~l~~lL~~~i 273 (547)
--+|-..+..... +...+| .+++|+.+. +.+|.|++.-+...+...+
T Consensus 86 F~~Fv~~ls~f~~~~~~~~K--------l~faF~vYD~~~~G~I~reel~~iv~~~~ 134 (187)
T KOG0034|consen 86 FEEFVRLLSVFSPKASKREK--------LRFAFRVYDLDGDGFISREELKQILRMMV 134 (187)
T ss_pred HHHHHHHHhhhcCCccHHHH--------HHHHHHHhcCCCCCcCcHHHHHHHHHHHH
Confidence 6666666666555 445559 999999977 5679999999988888443
No 47
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=27.96 E-value=10 Score=29.72 Aligned_cols=33 Identities=27% Similarity=0.911 Sum_probs=21.5
Q ss_pred cccCCCCCC-CCcccc-------cccccccC--CCccchhhhh
Q psy3216 326 QAKCNICKE-CPIIGF-------RYRCLKCF--NFDMCQTCFF 358 (547)
Q Consensus 326 ~v~Cd~C~~-~pI~G~-------RykC~~C~--nfDLC~~Cf~ 358 (547)
++.||-|.. .|+.|. ||-|..|- .|.+|-.|-.
T Consensus 7 ry~CDLCn~~~p~~~LRQCvlCGRWaC~sCW~deYY~CksC~G 49 (57)
T PF14445_consen 7 RYSCDLCNSSHPISELRQCVLCGRWACNSCWQDEYYTCKSCNG 49 (57)
T ss_pred hHhHHhhcccCcHHHHHHHhhhchhhhhhhhhhhHhHHHhhhc
Confidence 467888875 566665 56777774 4667777743
No 48
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 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 B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=26.71 E-value=53 Score=23.65 Aligned_cols=30 Identities=30% Similarity=0.719 Sum_probs=23.1
Q ss_pred ccCCCCCCCCcccccccccccCCCccchhhhhcC
Q psy3216 327 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQG 360 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~g 360 (547)
..|..|...+ ..|-|..|.. -+|..|...+
T Consensus 4 ~~C~~H~~~~---~~~~C~~C~~-~~C~~C~~~~ 33 (42)
T PF00643_consen 4 PKCPEHPEEP---LSLFCEDCNE-PLCSECTVSG 33 (42)
T ss_dssp SB-SSTTTSB---EEEEETTTTE-EEEHHHHHTS
T ss_pred ccCccCCccc---eEEEecCCCC-ccCccCCCCC
Confidence 4677777633 5688999988 6999999987
No 49
>PTZ00183 centrin; Provisional
Probab=26.27 E-value=2e+02 Score=25.75 Aligned_cols=103 Identities=13% Similarity=0.172 Sum_probs=58.8
Q ss_pred cHHHHHHHHhhCCCcccCCcccChhhhhhhHHhhHHHHHHHHHHhCCCCCCCCCCCCchhHHHHHHHHHHhhcccCcccc
Q psy3216 136 NLVRAIEAFDTHGLRAQNDKLLDVSDMVVLEEENHMLQAEYERLRGSRTTPDPSSTTTPDDLEMAAEAKLLRQHKGRLEA 215 (547)
Q Consensus 136 ~l~~~~~~f~~~~l~~~~~~~l~v~~~~~l~~~~~~L~~iY~~L~~~~~~p~~~~~~v~~~~dLllnawLL~~r~Grl~~ 215 (547)
.+..+.++|..... ..++.++..++..+ |..+ . ....-. .+.-+.. .+...+.|+|.
T Consensus 15 ~~~~~~~~F~~~D~--~~~G~i~~~e~~~~------l~~~----g--------~~~~~~-~~~~l~~-~~d~~~~g~i~- 71 (158)
T PTZ00183 15 QKKEIREAFDLFDT--DGSGTIDPKELKVA------MRSL----G--------FEPKKE-EIKQMIA-DVDKDGSGKID- 71 (158)
T ss_pred HHHHHHHHHHHhCC--CCCCcccHHHHHHH------HHHh----C--------CCCCHH-HHHHHHH-HhCCCCCCcEe-
Confidence 34455666766554 34666777776665 5422 1 011111 2222232 34457888888
Q ss_pred chhHHHHHHHHHHHhcc-cchhccccchhhhhhhhccccc-CCCCcccHHHHhHHHhhh
Q psy3216 216 RMQILEDHNRQLEAQLS-QLESKDRSSSRFIFQNLFRLIA-DPNRLVDQRKLGLLLHDC 272 (547)
Q Consensus 216 rm~Vls~k~~l~~Lc~~-~L~dK~~~~~~~~~rylF~lia-d~~g~~~~~~l~~lL~~~ 272 (547)
.-+|...+...... ...+. .+.+|..+. +.+|.++...|..+|..+
T Consensus 72 ---~~eF~~~~~~~~~~~~~~~~--------l~~~F~~~D~~~~G~i~~~e~~~~l~~~ 119 (158)
T PTZ00183 72 ---FEEFLDIMTKKLGERDPREE--------ILKAFRLFDDDKTGKISLKNLKRVAKEL 119 (158)
T ss_pred ---HHHHHHHHHHHhcCCCcHHH--------HHHHHHHhCCCCCCcCcHHHHHHHHHHh
Confidence 77777766554322 22234 677888865 456889988888887743
No 50
>PF04135 Nop10p: Nucleolar RNA-binding protein, Nop10p family; InterPro: IPR007264 H/ACA ribonucleoprotein particles (RNPs) are a family of RNA pseudouridine synthases that specify modification sites through guide RNAs. More than 100 mammalian H/ACA RNAs form an equal number of ribonucleoproteins (RNPs) by associating with the same four core proteins: Cbf5, Gar1, Nhp2 and Nop10. The function of these H/ACA RNPs is essential for biogenesis of the ribosome, splicing of precursor mRNAs (pre-mRNAs), maintenance of telomeres and probably for additional cellular processes []. Recent crystal structures of archaeal H/ACA protein complexes show how the same four proteins accommodate >100 distinct but related H/ACA RNAs []. The complex contains a stable core composed of Cbf5 and Nop10, to which Gar1 and Nhp2 subsequently bind, the complex interacts with snoRNAs []. In eukaryotes Nop10 is a nucleolar protein that is specifically associated with H/ACA snoRNAs. It is essential for normal 18S rRNA production and rRNA pseudouridylation by the ribonucleoprotein particles containing H/ACA snoRNAs (H/ACA snoRNPs). Nop10 is probably necessary for the stability of these RNPs [].; PDB: 2RFK_B 3LWR_B 2HVY_C 3HAX_C 3MQK_B 3LWO_B 3LWV_B 3HAY_C 3HJY_B 2EY4_E ....
Probab=25.82 E-value=39 Score=26.75 Aligned_cols=13 Identities=54% Similarity=0.807 Sum_probs=11.9
Q ss_pred hhhHHHHHHHHHh
Q psy3216 113 RFSAYRTALKLRT 125 (547)
Q Consensus 113 rfs~YRtA~KLR~ 125 (547)
+|+.||-++|-|+
T Consensus 40 ky~~yRi~lKkrf 52 (53)
T PF04135_consen 40 KYSKYRIALKKRF 52 (53)
T ss_dssp TTCHHHHHHHHHH
T ss_pred ccHHHHHHHHhhc
Confidence 7999999999886
No 51
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=24.96 E-value=38 Score=25.61 Aligned_cols=23 Identities=30% Similarity=0.572 Sum_probs=15.6
Q ss_pred cccCCCCCCCCc---ccccccccccCC
Q psy3216 326 QAKCNICKECPI---IGFRYRCLKCFN 349 (547)
Q Consensus 326 ~v~Cd~C~~~pI---~G~RykC~~C~n 349 (547)
+..|+.|+. .| .+.-|+|..|.-
T Consensus 11 ~~~C~~C~~-~i~g~~~~g~~C~~C~~ 36 (53)
T PF00130_consen 11 PTYCDVCGK-FIWGLGKQGYRCSWCGL 36 (53)
T ss_dssp TEB-TTSSS-BECSSSSCEEEETTTT-
T ss_pred CCCCcccCc-ccCCCCCCeEEECCCCC
Confidence 589999997 66 445677877754
No 52
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=24.86 E-value=40 Score=23.76 Aligned_cols=27 Identities=30% Similarity=0.846 Sum_probs=18.8
Q ss_pred cCCCCCCCCccc-ccccccccCCCccchh
Q psy3216 328 KCNICKECPIIG-FRYRCLKCFNFDMCQT 355 (547)
Q Consensus 328 ~Cd~C~~~pI~G-~RykC~~C~nfDLC~~ 355 (547)
.|..|....+.- .+|.|..| +..||..
T Consensus 2 rC~vC~~~k~rk~T~~~C~~C-~v~lC~~ 29 (32)
T PF13842_consen 2 RCKVCSKKKRRKDTRYMCSKC-DVPLCVE 29 (32)
T ss_pred CCeECCcCCccceeEEEccCC-CCcccCC
Confidence 466777643333 78999999 5777764
No 53
>cd05024 S-100A10 S-100A10: A subgroup of the S-100A10 domain found in proteins similar to S100A10. S100A10 is a member of the S100 family of EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A10 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins are expressed exclusively in vertebrates, and are implicated in intracellular and extracellular regulatory activities. A unique feature of S100A10 is that it contains mutation in both of the calcium binding sites, making it calcium insensitive. S100A10 has been detected in brain, heart, gastrointestinal tract, kidney, liver, lung, spleen, testes, epidermis, aorta, and thymus. Structural data supports the homo- and hetero-dimeric as well as hetero-tetrameric nature of the protein. S100A10 has multiple binding partners in its calcium free state and is therefore involved in many diverse biological functions.
Probab=24.36 E-value=4.8e+02 Score=22.84 Aligned_cols=68 Identities=12% Similarity=0.232 Sum_probs=46.2
Q ss_pred HHHHHHHHhhCCCcccCCcccChhhhhhhHHhhHHHHHHHHHHhCCCCCCCCCCCCchhHHHHHHHHHHhhcccCccccc
Q psy3216 137 LVRAIEAFDTHGLRAQNDKLLDVSDMVVLEEENHMLQAEYERLRGSRTTPDPSSTTTPDDLEMAAEAKLLRQHKGRLEAR 216 (547)
Q Consensus 137 l~~~~~~f~~~~l~~~~~~~l~v~~~~~l~~~~~~L~~iY~~L~~~~~~p~~~~~~v~~~~dLllnawLL~~r~Grl~~r 216 (547)
|.+++.+|++.- -....|+-.++..+ |++.+-..=+. ..-|..++-++. -|+..+.|.|.
T Consensus 7 i~~lI~~FhkYa---G~~~tLsk~Elk~L------l~~Elp~~l~~--------~~d~~~vd~im~-~LD~n~Dg~vd-- 66 (91)
T cd05024 7 MEKMMLTFHKFA---GEKNYLNRDDLQKL------MEKEFSEFLKN--------QNDPMAVDKIMK-DLDDCRDGKVG-- 66 (91)
T ss_pred HHHHHHHHHHHc---CCCCcCCHHHHHHH------HHHHhHHHHcC--------CCCHHHHHHHHH-HhCCCCCCcCc--
Confidence 567889998765 22336777777777 88777654432 124567787777 78889999999
Q ss_pred hhHHHHHHHH
Q psy3216 217 MQILEDHNRQ 226 (547)
Q Consensus 217 m~Vls~k~~l 226 (547)
--+|-+-+
T Consensus 67 --F~EF~~Lv 74 (91)
T cd05024 67 --FQSFFSLI 74 (91)
T ss_pred --HHHHHHHH
Confidence 55554433
No 54
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=23.22 E-value=59 Score=22.89 Aligned_cols=24 Identities=25% Similarity=0.541 Sum_probs=17.9
Q ss_pred ccCCCCCC---CCcccccccccccCCC
Q psy3216 327 AKCNICKE---CPIIGFRYRCLKCFNF 350 (547)
Q Consensus 327 v~Cd~C~~---~pI~G~RykC~~C~nf 350 (547)
+.|.+|+. +|.....+||..|.-.
T Consensus 2 ~~C~~C~t~L~yP~gA~~vrCs~C~~v 28 (31)
T TIGR01053 2 VVCGGCRTLLMYPRGASSVRCALCQTV 28 (31)
T ss_pred cCcCCCCcEeecCCCCCeEECCCCCeE
Confidence 57888886 5666677889888643
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=23.12 E-value=58 Score=29.66 Aligned_cols=30 Identities=33% Similarity=0.760 Sum_probs=22.0
Q ss_pred ccCCCCCCCCcc------------cccccccccCCCccchhhhh
Q psy3216 327 AKCNICKECPII------------GFRYRCLKCFNFDMCQTCFF 358 (547)
Q Consensus 327 v~Cd~C~~~pI~------------G~RykC~~C~nfDLC~~Cf~ 358 (547)
..|-+|.. ++. ..||+|.+|.+. +|.+|-.
T Consensus 56 ~~C~~C~~-~f~~~~~~~~~~~~~~~~y~C~~C~~~-FC~dCD~ 97 (112)
T TIGR00622 56 RFCFGCQG-PFPKPPVSPFDELKDSHRYVCAVCKNV-FCVDCDV 97 (112)
T ss_pred CcccCcCC-CCCCcccccccccccccceeCCCCCCc-cccccch
Confidence 46999987 222 348999999885 6888854
No 56
>PF07361 Cytochrom_B562: Cytochrome b562; InterPro: IPR009155 Cytochrome b562 is a haem-containing protein that is expressed in the periplasm of Escherichia coli. In b-type cytochromes, the haem atom is not covalently attached to the polypeptide. Cytochrome b562 has a four-helical bundle structure that is structurally similar to that found in members of the cytochrome c family (IPR002321 from INTERPRO). Cytochrome b562 has a reduction potential of 167 mV, which sets the energy yield possible in metabolism and is also a key determinant of the rate at which redox reactions proceed [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding, 0042597 periplasmic space; PDB: 4ER9_A 3IQ6_G 2QLA_B 3FOO_A 3M79_C 256B_A 3NMI_F 3HNK_A 3NMK_D 2BC5_A ....
Probab=22.87 E-value=85 Score=27.81 Aligned_cols=38 Identities=18% Similarity=0.356 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHhhccCCCCCCCCchHHHHHHHHHHH
Q psy3216 4 FQKSLDDLSNRLSAAESVKNTWTSVSDASQIPELREYLKKFS 45 (547)
Q Consensus 4 lq~am~el~~~l~~aE~~~~~W~pv~d~d~l~~~i~~~k~f~ 45 (547)
++.+|+.|...|..|+..-.. |+++++...++++..+|
T Consensus 58 Y~~Gl~~li~~id~a~~~~~~----G~l~~AK~~l~~l~~lR 95 (103)
T PF07361_consen 58 YQEGLDKLIDQIDKAEALAEA----GKLDEAKAALKKLDDLR 95 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHT----THHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHC----CCHHHHHHHHHHHHHHH
Confidence 444444444444444443332 44444444444444443
No 57
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=21.79 E-value=55 Score=23.80 Aligned_cols=22 Identities=36% Similarity=0.936 Sum_probs=14.1
Q ss_pred ccCCCCCCCC-c-------cc-ccccccccC
Q psy3216 327 AKCNICKECP-I-------IG-FRYRCLKCF 348 (547)
Q Consensus 327 v~Cd~C~~~p-I-------~G-~RykC~~C~ 348 (547)
|.|-.|.... + .| .||+|..|.
T Consensus 6 v~CP~C~s~~~v~k~G~~~~G~qryrC~~C~ 36 (36)
T PF03811_consen 6 VHCPRCQSTEGVKKNGKSPSGHQRYRCKDCR 36 (36)
T ss_pred eeCCCCCCCCcceeCCCCCCCCEeEecCcCC
Confidence 5677776533 2 12 599999883
No 58
>KOG2807|consensus
Probab=21.60 E-value=35 Score=36.40 Aligned_cols=32 Identities=31% Similarity=0.635 Sum_probs=26.0
Q ss_pred ccCCCCCCCCcccccccccccCCCccchhhhhc
Q psy3216 327 AKCNICKECPIIGFRYRCLKCFNFDMCQTCFFQ 359 (547)
Q Consensus 327 v~Cd~C~~~pI~G~RykC~~C~nfDLC~~Cf~~ 359 (547)
..|-+|...-..+.||+|-.|.++ +|.+|-.-
T Consensus 331 ~~Cf~C~~~~~~~~~y~C~~Ck~~-FCldCDv~ 362 (378)
T KOG2807|consen 331 RFCFACQGELLSSGRYRCESCKNV-FCLDCDVF 362 (378)
T ss_pred cceeeeccccCCCCcEEchhccce-eeccchHH
Confidence 459999766777899999999997 68888653
No 59
>cd05026 S-100Z S-100Z: S-100Z domain found in proteins similar to S100Z. S100Z is a member of the S100 domain family within the EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100Z group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately.S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control. S100Z is normally expressed in various tissues, with its highest level of expression being in spleen and leukocytes. The function of S100Z remains unclear. Preliminary structural data suggests that S100Z is homodimer, however a heterodimer with S100P has been reported. S100Z is capable of binding calcium ions. When calcium binds to S110Z, the protein experiences a conformational change, which exposes hydrophobic surfac
Probab=21.18 E-value=4.1e+02 Score=22.63 Aligned_cols=74 Identities=16% Similarity=0.155 Sum_probs=44.9
Q ss_pred HHHHHHHHhhCCCcccCCc-ccChhhhhhhHHhhHHHHHH-HHHHhCCCCCCCCCCCCchhHHHHHHHHHHhhcccCccc
Q psy3216 137 LVRAIEAFDTHGLRAQNDK-LLDVSDMVVLEEENHMLQAE-YERLRGSRTTPDPSSTTTPDDLEMAAEAKLLRQHKGRLE 214 (547)
Q Consensus 137 l~~~~~~f~~~~l~~~~~~-~l~v~~~~~l~~~~~~L~~i-Y~~L~~~~~~p~~~~~~v~~~~dLllnawLL~~r~Grl~ 214 (547)
|..++++|+...-. -.++ .|+..++..+ +... +..+... . .+..++-+++ -+...+.|+|+
T Consensus 9 ~~~~~~~F~~~dd~-dgdg~~Is~~EL~~l------l~~~~~~~~~~~--------~-~~~~v~~i~~-elD~n~dG~Id 71 (93)
T cd05026 9 MDTLIRIFHNYSGK-EGDRYKLSKGELKEL------LQRELTDFLSSQ--------K-DPMLVDKIMN-DLDSNKDNEVD 71 (93)
T ss_pred HHHHHHHHHHHHcc-CCCCCEECHHHHHHH------HHHHhHHhcccc--------c-CHHHHHHHHH-HhCCCCCCCCC
Confidence 56778888876632 2444 5888888777 7653 3333311 1 2234444554 46778899999
Q ss_pred cchhHHHHHHHHHHHhc
Q psy3216 215 ARMQILEDHNRQLEAQL 231 (547)
Q Consensus 215 ~rm~Vls~k~~l~~Lc~ 231 (547)
--+|-..+..|+.
T Consensus 72 ----f~EF~~l~~~l~~ 84 (93)
T cd05026 72 ----FNEFVVLVAALTV 84 (93)
T ss_pred ----HHHHHHHHHHHHH
Confidence 7777666655543
No 60
>PRK15058 cytochrome b562; Provisional
Probab=20.00 E-value=1.5e+02 Score=27.74 Aligned_cols=7 Identities=14% Similarity=0.150 Sum_probs=2.7
Q ss_pred HHHhhcc
Q psy3216 18 AESVKNT 24 (547)
Q Consensus 18 aE~~~~~ 24 (547)
|+..+.+
T Consensus 59 a~~Ak~~ 65 (128)
T PRK15058 59 ALDAQKA 65 (128)
T ss_pred HHHHhcc
Confidence 3333433
Done!