Query 045661
Match_columns 719
No_of_seqs 170 out of 1173
Neff 3.3
Searched_HMMs 46136
Date Fri Mar 29 04:13:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045661.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045661hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03131 hypothetical protein; 100.0 4.3E-87 9.3E-92 728.6 36.2 310 1-340 1-322 (705)
2 PLN03119 putative ADP-ribosyla 100.0 3.3E-70 7.2E-75 592.9 35.2 291 1-338 1-303 (648)
3 KOG0702 Predicted GTPase-activ 100.0 9.7E-48 2.1E-52 412.6 29.3 296 1-345 1-305 (524)
4 KOG0703 Predicted GTPase-activ 100.0 2.7E-37 5.9E-42 317.2 10.0 117 6-122 7-127 (287)
5 PF01412 ArfGap: Putative GTPa 100.0 3E-35 6.5E-40 265.9 7.6 109 13-121 2-116 (116)
6 smart00105 ArfGap Putative GTP 100.0 4.1E-33 8.9E-38 250.9 8.6 102 22-123 1-109 (112)
7 COG5347 GTPase-activating prot 100.0 9.3E-31 2E-35 273.2 10.4 113 9-121 5-125 (319)
8 PLN03114 ADP-ribosylation fact 99.9 1.4E-25 3E-30 236.1 10.5 112 12-123 10-130 (395)
9 KOG0704 ADP-ribosylation facto 99.9 2.4E-25 5.1E-30 233.3 8.4 85 9-93 4-91 (386)
10 KOG0706 Predicted GTPase-activ 99.9 2.3E-24 5.1E-29 231.1 8.1 83 10-92 9-94 (454)
11 KOG0705 GTPase-activating prot 99.9 3.5E-24 7.5E-29 234.7 8.3 112 12-123 501-618 (749)
12 KOG0521 Putative GTPase activa 99.8 9.5E-21 2.1E-25 216.9 3.1 110 14-123 416-533 (785)
13 KOG1117 Rho- and Arf-GTPase ac 99.7 1.5E-17 3.2E-22 188.5 5.4 110 14-123 288-405 (1186)
14 KOG0818 GTPase-activating prot 99.7 3.9E-17 8.4E-22 177.8 3.7 105 19-123 3-121 (669)
15 KOG0521 Putative GTPase activa 90.6 0.027 5.9E-07 66.8 -3.6 101 20-122 626-732 (785)
16 KOG0702 Predicted GTPase-activ 87.6 63 0.0014 37.7 21.1 48 342-389 312-363 (524)
17 PF00643 zf-B_box: B-box zinc 82.6 0.97 2.1E-05 34.2 2.1 40 23-64 2-42 (42)
18 PRK12495 hypothetical protein; 74.9 3 6.5E-05 43.7 3.5 30 21-54 39-68 (226)
19 PRK00085 recO DNA repair prote 67.2 3.5 7.7E-05 41.5 2.1 34 21-54 146-180 (247)
20 TIGR00613 reco DNA repair prot 66.6 5 0.00011 40.3 3.0 33 21-53 144-177 (241)
21 PLN03131 hypothetical protein; 51.5 4.6E+02 0.01 32.0 15.5 20 693-712 602-621 (705)
22 COG1381 RecO Recombinational D 49.1 9.3 0.0002 39.8 1.5 31 21-51 151-182 (251)
23 PF08271 TF_Zn_Ribbon: TFIIB z 48.8 13 0.00029 28.9 2.0 27 26-53 2-28 (43)
24 KOG3537 Adaptor protein NUMB [ 48.6 97 0.0021 36.0 9.3 69 496-570 314-392 (543)
25 PF11781 RRN7: RNA polymerase 41.4 21 0.00045 27.6 2.0 28 22-52 6-33 (36)
26 COG1734 DksA DnaK suppressor p 37.1 5.6 0.00012 38.0 -2.0 46 9-54 63-111 (120)
27 PRK11019 hypothetical protein; 35.1 12 0.00027 34.2 -0.1 33 23-56 35-69 (88)
28 PF01286 XPA_N: XPA protein N- 33.9 13 0.00029 28.7 -0.0 27 25-51 4-31 (34)
29 TIGR02419 C4_traR_proteo phage 32.0 14 0.00031 31.5 -0.2 34 20-54 27-62 (63)
30 cd03031 GRX_GRX_like Glutaredo 29.8 38 0.00082 33.2 2.3 43 6-57 81-123 (147)
31 TIGR00100 hypA hydrogenase nic 29.7 29 0.00063 32.5 1.4 44 20-67 66-113 (115)
32 KOG3362 Predicted BBOX Zn-fing 27.2 24 0.00051 35.4 0.4 34 22-56 116-150 (156)
33 PRK03681 hypA hydrogenase nick 26.8 26 0.00057 32.8 0.6 44 20-66 66-113 (114)
34 COG2158 Uncharacterized protei 26.8 46 0.001 31.9 2.2 23 36-58 52-76 (112)
35 PF02318 FYVE_2: FYVE-type zin 26.7 1.4E+02 0.003 27.9 5.3 51 5-55 23-90 (118)
36 COG0675 Transposase and inacti 26.4 38 0.00082 34.3 1.7 25 25-56 310-335 (364)
37 smart00401 ZnF_GATA zinc finge 25.7 52 0.0011 27.0 2.0 36 23-58 2-39 (52)
38 PRK00564 hypA hydrogenase nick 25.5 30 0.00065 32.5 0.7 44 21-67 68-115 (117)
39 PRK00423 tfb transcription ini 25.0 56 0.0012 35.1 2.7 34 21-55 8-41 (310)
40 PF07282 OrfB_Zn_ribbon: Putat 24.5 49 0.0011 27.5 1.7 30 24-55 28-58 (69)
41 PF14803 Nudix_N_2: Nudix N-te 22.7 43 0.00093 25.8 1.0 30 25-55 1-33 (34)
42 COG1997 RPL43A Ribosomal prote 22.0 91 0.002 29.0 3.0 32 22-55 33-64 (89)
43 TIGR02890 spore_yteA sporulati 21.9 34 0.00073 34.1 0.3 32 22-54 84-117 (159)
44 PRK12380 hydrogenase nickel in 21.9 52 0.0011 30.8 1.6 43 20-66 66-112 (113)
45 PF12760 Zn_Tnp_IS1595: Transp 21.8 1.3E+02 0.0028 23.8 3.5 42 8-51 3-44 (46)
46 PRK03824 hypA hydrogenase nick 20.2 64 0.0014 31.1 1.8 25 43-67 106-134 (135)
47 PRK00762 hypA hydrogenase nick 20.1 39 0.00084 32.1 0.3 48 20-68 66-120 (124)
No 1
>PLN03131 hypothetical protein; Provisional
Probab=100.00 E-value=4.3e-87 Score=728.62 Aligned_cols=310 Identities=41% Similarity=0.666 Sum_probs=289.1
Q ss_pred CCcchhhhHHHHHHHHHHhcCCCCCcccCCCCCCCCeeEccceeEEecccccccccCCceeeecccCCCCHHHHHHHHhh
Q 045661 1 MGNKIKEDERIEGIIRGLLKLPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREFTHRVKSISMAKFSAEEVSALQAA 80 (719)
Q Consensus 1 M~sr~kedernekiLr~Llk~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsLGHRVKSITLDtWT~EEVe~Mq~g 80 (719)
|++| |++|+++++|++|+++++|++||||++++|+|||++||||||++|+||||+|+||||||+||+|+++||++|+.+
T Consensus 1 m~Sk-kqqErnekiLreLlk~PgNk~CADCga~~P~WASiNlGIFICi~CSGIHRsLghRVKSVTLD~WtdeEV~~Mk~g 79 (705)
T PLN03131 1 MGSR-KEEERNEKIIRGLMKLPPNRRCINCNSLGPQFVCTNFWTFICMTCSGIHREFTHRVKSVSMSKFTSQDVEALQNG 79 (705)
T ss_pred Ccch-HHHHHHHHHHHHHhhCcCCCccccCCCCCCCeeEeccceEEchhchhhhcccCcccccccCCCCCHHHHHHHHHh
Confidence 8999 888999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chHHHHHHHhhcCCCCCCCCCch----HHHHHHHHHHhhccccCCCC-chhhhhhccccccccccccccCcccccCCCCC
Q 045661 81 GNERARQIYLKDWDPQRNSYPDG----RIRDFIKHVYVDRRYAGEKT-DKFLRLRLGEKEDSCQSNKVGAYIGEFRSPRS 155 (719)
Q Consensus 81 GN~rAN~IwEa~~pp~rkp~PDS----~re~FIRaKYVdKrF~~~~~-dkppRlk~~~re~s~eSRr~~sy~g~S~SPp~ 155 (719)
||.+||+|||++|+..+.+.|+. ++|+|||.|||+|||+.... ++++|.....+.+..|+||.++||++|+||||
T Consensus 80 GN~~AN~iyeanwd~~r~~lP~~sd~ekrr~FIR~KYVeKRFa~~~s~d~pprd~q~~r~~e~e~rr~~syh~~SqSPpY 159 (705)
T PLN03131 80 GNQRAREIYLKDWDQQRQRLPDNSKVDKIREFIKDIYVDKKYAGGKTHDKPPRDLQRIRSHEDETRRACSYHSYSQSPPY 159 (705)
T ss_pred ccHHHHHHHHhhcccccCCCCCCccHHHHHHHHHHHHhhhhhhcCCCCCCCchhhhhhhcccccccccccccCCCcCCCc
Confidence 99999999999998776555543 68999999999999999988 99999998989899999999999999999999
Q ss_pred Cccccc-ccCCCCCcccCCCCCCCccccccCCCcccccccccCCCCCCCC--CCCCCCCCCCCccc--cccccccccccc
Q 045661 156 ESRYEQ-SSSGRSQHRERSNDRNSEYYFEDRRSPRYYIEERRSPGYNQEN--PRFGGHSRKTPACF--EIVDDRFRDDVS 230 (719)
Q Consensus 156 ~~~~e~-~~~~~~~~~grsddkns~y~~~~~~~~~~~~~~~rspg~d~~~--~~~~~~~~ksP~r~--~~~ddrfr~d~~ 230 (719)
+++||+ ||++++.+. +|+||||++. .|||+|+ |||+|| +|+||||+||++
T Consensus 160 ~~~yedrRygk~~~~~------------------------~R~pg~d~~~~~~k~~~~~-~SP~r~~d~~~eDrf~ne~~ 214 (705)
T PLN03131 160 DFQYEDRRYGKQAGIL------------------------TRKPGSDRGLNVGKMASFI-CSPTRLNDRMFEDRFANEGS 214 (705)
T ss_pred cccccccccccccccc------------------------ccCCccccccccccccccc-cCchhhhhhhhhcccccCCC
Confidence 999999 688877644 4599999984 9999999 999999 699999999999
Q ss_pred ccccccccccccCCccccc--CCCcccccccCCCCCccccchhhhhccCCCCcccCCCCCCCCCCCCCCccCccccCCCC
Q 045661 231 ASRRRSDSISFTNTEHKSR--SMSPEYQKNTNNSRTLVVRPIKEILGENAPSLEVGKCSKASDGKDADDSANNQKIAPSG 308 (719)
Q Consensus 231 ~~~~~~~d~~~s~g~~~~~--~~Sp~~~k~~~~sspp~vrp~~~il~~n~~~l~~~~~pk~~~~~~~~~~~~~q~~~ss~ 308 (719)
++| ++||++|+++.+++ .+|||+||+.++ || +|||+|+||||||++|||+||+|++..+++++.+++|||+|+|
T Consensus 215 ~~r--~~d~s~ss~~~~~r~~~~SP~~~k~~~~-Sp-~v~p~r~ilg~n~~~~~v~~~s~~~~~~~~~~~~~~Qrt~Ssg 290 (705)
T PLN03131 215 VSG--VSDYSVSSGGDLVRSGAESPNFQKDIAF-SP-PIQPPKDILGEDVQQRRIDLFSAALCKQGAEGCPHIQRSASLG 290 (705)
T ss_pred Ccc--cccccccccccccccCCCCCCcccccCC-CC-CcccchhhccccccccccCCCcccccccccccccccccccccC
Confidence 997 99999998876555 699999999875 45 4699999999999999999999999999999999999999999
Q ss_pred CcccCCCCCccccccccCcccCCCCCCCCCcc
Q 045661 309 SQQCDDGNPVEQKKSHSESLENSSTDPEPTDT 340 (719)
Q Consensus 309 s~~s~~~~~~~~k~~~s~sl~d~~~~~ep~~~ 340 (719)
|+||+||+++++|+++++|||||++|+|+...
T Consensus 291 s~gS~dg~s~s~Ks~~s~sL~D~~~e~~~~~~ 322 (705)
T PLN03131 291 SIGSFDSLSVSIKSFNSGSLADIVAEAEQAAG 322 (705)
T ss_pred cccccCCCccceeecccccccccccCcccccc
Confidence 99999999999999999999999999997544
No 2
>PLN03119 putative ADP-ribosylation factor GTPase-activating protein AGD14; Provisional
Probab=100.00 E-value=3.3e-70 Score=592.89 Aligned_cols=291 Identities=39% Similarity=0.642 Sum_probs=258.4
Q ss_pred CCcchhhhHHHHHHHHHHhcCCCCCcccCCCCCCCCeeEccceeEEecccccccccCCceeeecccCCCCHHHHHHHHhh
Q 045661 1 MGNKIKEDERIEGIIRGLLKLPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREFTHRVKSISMAKFSAEEVSALQAA 80 (719)
Q Consensus 1 M~sr~kedernekiLr~Llk~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsLGHRVKSITLDtWT~EEVe~Mq~g 80 (719)
|++| +++||++++|++|+++++|++|+||++++|+|||++||||||++|+||||+||||||||+||+|+++||++|+.+
T Consensus 1 M~SK-R~qERnekILreLlklPgNk~CADCgs~~P~WASiNlGIFICi~CSGIHRsLGhRVKSLSLDkWT~EEVe~Mk~g 79 (648)
T PLN03119 1 MGSK-REEERNEKIIRGLMKLPPNRRCINCNSLGPQYVCTTFWTFVCMACSGIHREFTHRVKSVSMSKFTSKEVEVLQNG 79 (648)
T ss_pred Ccch-HHHHHHHHHHHHHhhCcCCCccccCCCCCCCceeeccceEEeccchhhhccCCceeeccccCCCCHHHHHHHHHh
Confidence 8998 888999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chHHHHHHHhhcCCCCCCCCCch----HHHHHHHHHHhhccccCCCC-chhhhhhccccccccccccccCcccccCCCCC
Q 045661 81 GNERARQIYLKDWDPQRNSYPDG----RIRDFIKHVYVDRRYAGEKT-DKFLRLRLGEKEDSCQSNKVGAYIGEFRSPRS 155 (719)
Q Consensus 81 GN~rAN~IwEa~~pp~rkp~PDS----~re~FIRaKYVdKrF~~~~~-dkppRlk~~~re~s~eSRr~~sy~g~S~SPp~ 155 (719)
||.+||+|||++|+..+.+.|+. .+|+|||+|||+|||++... +++++....++....+.|+.++||++++||+|
T Consensus 80 GN~~AN~iyeanw~~~~~~~P~~sD~e~lr~FIR~KYVeKRF~~~~~~d~p~~~~~~~~~~~~~~~~~~s~h~~s~sp~y 159 (648)
T PLN03119 80 GNQRAREIYLKNWDHQRQRLPENSNAERVREFIKNVYVQKKYAGANDADKPSKDSQDHVSSEDMTRRANSYHSYSQSPPY 159 (648)
T ss_pred chHHHHHHHHhhcccccCCCCCCccHHHHHHHHHHHHhhhhccCcCCCCCCcccccccccccccccccccCCCCCCCCCc
Confidence 99999999999998865554543 67899999999999999988 88888777777677789999999999999999
Q ss_pred Cccccc-ccCCCCCcccCCCCCCCccccccCCCcccccccccCCCCCCC-CCCCCCCCCCCCcccc--cccccccccccc
Q 045661 156 ESRYEQ-SSSGRSQHRERSNDRNSEYYFEDRRSPRYYIEERRSPGYNQE-NPRFGGHSRKTPACFE--IVDDRFRDDVSA 231 (719)
Q Consensus 156 ~~~~e~-~~~~~~~~~grsddkns~y~~~~~~~~~~~~~~~rspg~d~~-~~~~~~~~~ksP~r~~--~~ddrfr~d~~~ 231 (719)
+++||+ ||+++.. .++|+||.|+. +.++++|. +||+|+. |++|||+||.+|
T Consensus 160 ~~~ye~rr~~~~~~------------------------~~~~~~~s~r~~~~k~~~~~-~s~~~~~~~m~ed~f~~e~~~ 214 (648)
T PLN03119 160 DYQYEERRYGKIPL------------------------GFTGKSASVKGLHAKASSFV-YSPGRFSDHMFEDQFSNEDSA 214 (648)
T ss_pred ccchhhhhcccccc------------------------ccccCCCcccccccccccee-eccchHHHHhhhhhcccCCCC
Confidence 999997 7999988 45568888887 58889998 9999998 999999999999
Q ss_pred cccccccccccCCccccc--CCCcccccccCCCCCccccchhhhhc-cCCCCcccCCCCCCCCCCCCCCccCccccCCCC
Q 045661 232 SRRRSDSISFTNTEHKSR--SMSPEYQKNTNNSRTLVVRPIKEILG-ENAPSLEVGKCSKASDGKDADDSANNQKIAPSG 308 (719)
Q Consensus 232 ~~~~~~d~~~s~g~~~~~--~~Sp~~~k~~~~sspp~vrp~~~il~-~n~~~l~~~~~pk~~~~~~~~~~~~~q~~~ss~ 308 (719)
+| ++||++|.+++.++ .+|||||++..+|.| |.+.++++. ++... .++.|||+|+|
T Consensus 215 ~r--~sd~s~ss~g~~~~~~~~sp~~~~~~~~~~~--~~~~~~~~~~~~~~~-----------------~~~sqRT~SsG 273 (648)
T PLN03119 215 PR--ASDYSVSSAGDPFRSDIQSPNFQQEAEFRSP--QFQHSNAPPSENLFP-----------------GRQHQRTTSSG 273 (648)
T ss_pred Cc--ccccccccCCcccccCcCCCCcccccccCCc--ccccccCcchhhccc-----------------ccccccccccc
Confidence 97 99999998887655 699999987766655 455666542 11111 46789999999
Q ss_pred CcccCCCCCccccccccCcccCCCCCCCCC
Q 045661 309 SQQCDDGNPVEQKKSHSESLENSSTDPEPT 338 (719)
Q Consensus 309 s~~s~~~~~~~~k~~~s~sl~d~~~~~ep~ 338 (719)
|+||+|++++++|++++++|.|.++|+++.
T Consensus 274 s~gSfDs~s~S~ks~~Sg~l~d~~~E~~~~ 303 (648)
T PLN03119 274 SVRSVDSNFMSIKSYTSGGLGEAVSESRQN 303 (648)
T ss_pred cccccccccccccccccCCccccccccccc
Confidence 999999999999999999999999988863
No 3
>KOG0702 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=100.00 E-value=9.7e-48 Score=412.62 Aligned_cols=296 Identities=32% Similarity=0.399 Sum_probs=244.1
Q ss_pred CCcchhhhHHH-HHHHHHHhcCCCCCcccCCCCCCC-CeeEccceeEEecccccccccCC--ceeeecccCCCCHHHHHH
Q 045661 1 MGNKIKEDERI-EGIIRGLLKLPENRRCINCNCLGP-QYVCTTFLTFVCTNCSGVHREFT--HRVKSISMAKFSAEEVSA 76 (719)
Q Consensus 1 M~sr~kedern-ekiLr~Llk~PgNK~CADCGA~~P-qWASvNfGVFVCi~CSGIHRsLG--HRVKSITLDtWT~EEVe~ 76 (719)
|++++||+|+. |++||.|+++|+|++|++|+...+ +|+++.-|-|||+.|+|+.|.|. ||||+|.|.+|+..||..
T Consensus 1 ~a~~~ke~E~~~ek~iR~l~kLP~NrrC~nCnsl~~~t~~~~~~g~fv~~~~sg~ls~l~~ahRvksiSmttft~qevs~ 80 (524)
T KOG0702|consen 1 YAGYKKEDEYDYEKEIRRLLKLPENRRCINCNSLVAATYVVYTVGSFVCTMCSGLLSGLNPAHRVKSISMTTFTDQEVSF 80 (524)
T ss_pred CCcccccchhHHHHHHHHHhcCCCCCceeeccccccceEEEeeccceeeeccchhhccCCCccccceeeeeeccccchHH
Confidence 78999999997 999999999999999999999888 99999999999999999999996 999999999999999999
Q ss_pred HHhhchHHHHHHHhhcCCCCCCCCCch----HHHHHHHHHHhhccccCCCC-chhhhhhccccccccccccccCcccccC
Q 045661 77 LQAAGNERARQIYLKDWDPQRNSYPDG----RIRDFIKHVYVDRRYAGEKT-DKFLRLRLGEKEDSCQSNKVGAYIGEFR 151 (719)
Q Consensus 77 Mq~gGN~rAN~IwEa~~pp~rkp~PDS----~re~FIRaKYVdKrF~~~~~-dkppRlk~~~re~s~eSRr~~sy~g~S~ 151 (719)
|+.+||+.+++||++-.+.++-..||. +.++||++||+.|||+.++. .|-+ ..+| +..+ ..
T Consensus 81 lQshgNq~~k~i~fkl~D~q~S~vPD~rn~~~~kef~q~~y~~kr~~v~~n~~k~~----------s~tr---~s~s-~~ 146 (524)
T KOG0702|consen 81 LQSHGNQVCKEIWFKLFDFQRSNVPDSRNPQKVKEFQQEKYVKKRYYVPKNQMKIP----------SYTR---GSLS-ED 146 (524)
T ss_pred HhhcchhhhhhhhhcchhhhhccCCCcccchhhHHHHhhhhccceeecCccccccc----------cccc---cccc-cc
Confidence 999999999999999999888888887 78999999999999998765 3322 1111 0011 12
Q ss_pred CCCCCcccccccCCCCCcccCCCCCCCccccccCCCcccccccccCCCCCCCCCCCCCCCCCCCcccccccccccccccc
Q 045661 152 SPRSESRYEQSSSGRSQHRERSNDRNSEYYFEDRRSPRYYIEERRSPGYNQENPRFGGHSRKTPACFEIVDDRFRDDVSA 231 (719)
Q Consensus 152 SPp~~~~~e~~~~~~~~~~grsddkns~y~~~~~~~~~~~~~~~rspg~d~~~~~~~~~~~ksP~r~~~~ddrfr~d~~~ 231 (719)
++++ ..+|++.+-.|.++.|+-..... ..+|.+..++. |+|+||+++||||+.++..
T Consensus 147 s~~~-------------~~s~~~~~~lrs~~gd~~P~~~~---------~t~np~~~~~~-~~~~~~~~~~~rfdlfg~~ 203 (524)
T KOG0702|consen 147 SRPV-------------SESRPETKSLRSLLGDHAPLLAE---------STKNPRSRGLP-KSPIRFEIVDDRFDLFGLP 203 (524)
T ss_pred CCcc-------------cccCCCccccccccCCCCcchhh---------cccCccccCCC-CCCchhhhhhhhhhhhcCc
Confidence 3334 44454555555555343333321 34566767787 9999999999999887655
Q ss_pred cccccccccccCCcccccCCCcccccccCCCCCccccchhhhhccCCCCcccCCCCCCCCCCCCCCccCccccCCCCCcc
Q 045661 232 SRRRSDSISFTNTEHKSRSMSPEYQKNTNNSRTLVVRPIKEILGENAPSLEVGKCSKASDGKDADDSANNQKIAPSGSQQ 311 (719)
Q Consensus 232 ~~~~~~d~~~s~g~~~~~~~Sp~~~k~~~~sspp~vrp~~~il~~n~~~l~~~~~pk~~~~~~~~~~~~~q~~~ss~s~~ 311 (719)
++ .+ -..+|...-|.++.++|+..+++++|+++-+..|+++|+.|....+..+++++.--...+.+..
T Consensus 204 k~--sd----------~~s~s~~qss~~~~ssp~~~~~~~~~~~~s~an~~~ge~~k~P~~~~~~asapk~eg~~s~sd~ 271 (524)
T KOG0702|consen 204 KA--SD----------AQSQSTFQSSIAPSSSPPNHQSVPQAYSDSPANIFAGEPFKQPVSRPSFASAPKNEGWASLSDN 271 (524)
T ss_pred Cc--cc----------ccccCcccccccccCCCCccccchhhcccccccccccCCCCCCccCccccccccccCCcccccC
Confidence 53 32 3345777778999999999999999999999999999999999999999999999888888999
Q ss_pred cCCCCCccccccccCcccCCCCCCCCCccccccc
Q 045661 312 CDDGNPVEQKKSHSESLENSSTDPEPTDTAVAAQ 345 (719)
Q Consensus 312 s~~~~~~~~k~~~s~sl~d~~~~~ep~~~~~~~q 345 (719)
+.+.++.+.+..+.++++||+...|-+...++-|
T Consensus 272 pvne~~~e~~i~s~~~~~~f~k~~e~paps~a~q 305 (524)
T KOG0702|consen 272 PVNEAKSENVITSPGSFADFLKFEEIPAPSVAMQ 305 (524)
T ss_pred ccccccccccccCcccchhhcccccccCcchhhh
Confidence 9999999999999999999998888765555443
No 4
>KOG0703 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=100.00 E-value=2.7e-37 Score=317.23 Aligned_cols=117 Identities=28% Similarity=0.642 Sum_probs=110.4
Q ss_pred hhhHHHHHHHHHHhcCCCCCcccCCCCCCCCeeEccceeEEecccccccccCC-c--eeeecccCCCCHHHHHHHHhhch
Q 045661 6 KEDERIEGIIRGLLKLPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREFT-H--RVKSISMAKFSAEEVSALQAAGN 82 (719)
Q Consensus 6 kedernekiLr~Llk~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsLG-H--RVKSITLDtWT~EEVe~Mq~gGN 82 (719)
...++++++|++||+.|+|+.|||||+++|+|||+|+|||||++|+||||+|| | |||||+||.|++|+|+.|+.+||
T Consensus 7 ~~~~~~~~~l~~Ll~~~~N~~CADC~a~~P~WaSwnlGvFiC~~C~giHR~lg~hiSkVkSv~LD~W~~eqv~~m~~~GN 86 (287)
T KOG0703|consen 7 GSNERNKRRLRELLREPDNKVCADCGAKGPRWASWNLGVFICLRCAGIHRSLGVHISKVKSVTLDEWTDEQVDFMISMGN 86 (287)
T ss_pred cccchHHHHHHHHHcCcccCcccccCCCCCCeEEeecCeEEEeecccccccccchhheeeeeeccccCHHHHHHHHHHcc
Confidence 45688999999999999999999999999999999999999999999999999 6 99999999999999999999999
Q ss_pred HHHHHHHhhcCCC-CCCCCCchHHHHHHHHHHhhccccCCC
Q 045661 83 ERARQIYLKDWDP-QRNSYPDGRIRDFIKHVYVDRRYAGEK 122 (719)
Q Consensus 83 ~rAN~IwEa~~pp-~rkp~PDS~re~FIRaKYVdKrF~~~~ 122 (719)
.+||++||++++. .+++.+|..+++|||+|||+|+|+.+.
T Consensus 87 ~~an~~~ea~~p~~~~~p~~d~~~e~FIR~KYE~kkf~~~~ 127 (287)
T KOG0703|consen 87 AKANSYYEAKLPDPFRRPGPDDLVEQFIRDKYERKKFLDPE 127 (287)
T ss_pred hhhhhhccccCCccccCCChHHHHHHHHHHHHhhhhhccch
Confidence 9999999999876 567777779999999999999999764
No 5
>PF01412 ArfGap: Putative GTPase activating protein for Arf; InterPro: IPR001164 This entry describes a family of small GTPase activating proteins, for example ARF1-directed GTPase-activating protein, the cycle control GTPase activating protein (GAP) GCS1 which is important for the regulation of the ADP ribosylation factor ARF, a member of the Ras superfamily of GTP-binding proteins []. The GTP-bound form of ARF is essential for the maintenance of normal Golgi morphology, it participates in recruitment of coat proteins which are required for budding and fission of membranes. Before the fusion with an acceptor compartment the membrane must be uncoated. This step required the hydrolysis of GTP associated to ARF. These proteins contain a characteristic zinc finger motif (Cys-x2-Cys-x(16,17)-x2-Cys) which displays some similarity to the C4-type GATA zinc finger. The ARFGAP domain display no obvious similarity to other GAP proteins. The 3D structure of the ARFGAP domain of the PYK2-associated protein beta has been solved []. It consists of a three-stranded beta-sheet surrounded by 5 alpha helices. The domain is organised around a central zinc atom which is coordinated by 4 cysteines. The ARFGAP domain is clearly unrelated to the other GAP proteins structures which are exclusively helical. Classical GAP proteins accelerate GTPase activity by supplying an arginine finger to the active site. The crystal structure of ARFGAP bound to ARF revealed that the ARFGAP domain does not supply an arginine to the active site which suggests a more indirect role of the ARFGAP domain in the GTPase hydrolysis []. The Rev protein of human immunodeficiency virus type 1 (HIV-1) facilitates nuclear export of unspliced and partly-spliced viral RNAs []. Rev contains an RNA-binding domain and an effector domain; the latter is believed to interact with a cellular cofactor required for the Rev response and hence HIV-1 replication. Human Rev interacting protein (hRIP) specifically interacts with the Rev effector. The amino acid sequence of hRIP is characterised by an N-terminal, C-4 class zinc finger motif.; GO: 0008060 ARF GTPase activator activity, 0008270 zinc ion binding, 0032312 regulation of ARF GTPase activity; PDB: 2P57_A 2CRR_A 2OWA_B 3O47_B 3DWD_A 1DCQ_A 2CRW_A 3MDB_D 3FEH_A 3LJU_X ....
Probab=100.00 E-value=3e-35 Score=265.90 Aligned_cols=109 Identities=34% Similarity=0.725 Sum_probs=89.4
Q ss_pred HHHHHHhcCCCCCcccCCCCCCCCeeEccceeEEecccccccccCC---ceeeecccCCCCHHHHHHHHhhchHHHHHHH
Q 045661 13 GIIRGLLKLPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREFT---HRVKSISMAKFSAEEVSALQAAGNERARQIY 89 (719)
Q Consensus 13 kiLr~Llk~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsLG---HRVKSITLDtWT~EEVe~Mq~gGN~rAN~Iw 89 (719)
++|++|++.++|++|||||+++|+|||++||||||+.|+|+||+|| ++||||+||+|+++||++|+.+||.++|++|
T Consensus 2 ~~l~~l~~~~~N~~CaDCg~~~p~w~s~~~GiflC~~Cag~HR~lg~~is~VkSi~~d~w~~~ev~~~~~~GN~~~n~~~ 81 (116)
T PF01412_consen 2 KILRELLKKPGNKVCADCGAPNPTWASLNYGIFLCLECAGIHRSLGVHISRVKSITMDNWSPEEVQRMREGGNKRANSIW 81 (116)
T ss_dssp HHHHHHHCSTTCTB-TTT-SBS--EEETTTTEEE-HHHHHHHHHHTTTT--EEETTTS---HHHHHHHHHSHHHHHHHHH
T ss_pred HHHHHHHcCcCcCcCCCCCCCCCCEEEeecChhhhHHHHHHHHHhcccchhccccccCCCCHHHHHHHHHHChHHHHHHH
Confidence 6899999999999999999999999999999999999999999999 6999999999999999999999999999999
Q ss_pred hhcCCCCCCCCCch---HHHHHHHHHHhhccccCC
Q 045661 90 LKDWDPQRNSYPDG---RIRDFIKHVYVDRRYAGE 121 (719)
Q Consensus 90 Ea~~pp~rkp~PDS---~re~FIRaKYVdKrF~~~ 121 (719)
|++.+...++.+++ .+++||++||++++|+.+
T Consensus 82 e~~~~~~~~~~~~~~~~~~~~fI~~KY~~k~f~~~ 116 (116)
T PF01412_consen 82 EANSPPPKKPPPSSDQEKREQFIRAKYVEKAFISK 116 (116)
T ss_dssp TTTSTTTTTHCTTSHHHHHHHHHHHHHTTHTTS-C
T ss_pred HcCCCCCCCCCCCCcHHHHHHHHHHHHHhhhhccC
Confidence 99954444444333 889999999999999863
No 6
>smart00105 ArfGap Putative GTP-ase activating proteins for the small GTPase, ARF. Putative zinc fingers with GTPase activating proteins (GAPs) towards the small GTPase, Arf. The GAP of ARD1 stimulates GTPase hydrolysis for ARD1 but not ARFs.
Probab=99.98 E-value=4.1e-33 Score=250.94 Aligned_cols=102 Identities=29% Similarity=0.676 Sum_probs=92.8
Q ss_pred CCCCcccCCCCCCCCeeEccceeEEecccccccccCC-c--eeeecccCCCCHHHHHHHHhhchHHHHHHHhhcCCCCCC
Q 045661 22 PENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREFT-H--RVKSISMAKFSAEEVSALQAAGNERARQIYLKDWDPQRN 98 (719)
Q Consensus 22 PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsLG-H--RVKSITLDtWT~EEVe~Mq~gGN~rAN~IwEa~~pp~rk 98 (719)
|+|++||||++++|+|||++||||||+.|+||||+|| | +||||+||+|++++|++|+.+||.++|++||++++....
T Consensus 1 ~~N~~CaDC~~~~p~w~s~~~GifvC~~CsgiHR~lg~his~VkSl~md~w~~~~i~~~~~~GN~~~n~~~e~~~~~~~~ 80 (112)
T smart00105 1 PGNKKCFDCGAPNPTWASVNLGVFLCIECSGIHRSLGVHISKVRSLTLDTWTEEELRLLQKGGNENANSIWESNLDDFSL 80 (112)
T ss_pred CCCCcccCCCCCCCCcEEeccceeEhHHhHHHHHhcCCCcCeeeecccCCCCHHHHHHHHHhhhHHHHHHHHhhCCcccc
Confidence 5899999999999999999999999999999999998 5 799999999999999999999999999999999987543
Q ss_pred CCCc----hHHHHHHHHHHhhccccCCCC
Q 045661 99 SYPD----GRIRDFIKHVYVDRRYAGEKT 123 (719)
Q Consensus 99 p~PD----S~re~FIRaKYVdKrF~~~~~ 123 (719)
+.++ ..+++||+.||++|+|+.+..
T Consensus 81 ~~~~~~~~~~~~~fI~~KY~~k~f~~~~~ 109 (112)
T smart00105 81 KPPDSDDQQKYESFIAAKYEEKLFVPPES 109 (112)
T ss_pred CCCCCchHHHHHHHHHHHHHhhhcccccc
Confidence 3332 289999999999999997654
No 7
>COG5347 GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
Probab=99.97 E-value=9.3e-31 Score=273.21 Aligned_cols=113 Identities=24% Similarity=0.593 Sum_probs=100.9
Q ss_pred HHHHHHHHHHhcCCCCCcccCCCCCCCCeeEccceeEEecccccccccCC-c--eeeecccCCCCHHHHHHHHhhchHHH
Q 045661 9 ERIEGIIRGLLKLPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREFT-H--RVKSISMAKFSAEEVSALQAAGNERA 85 (719)
Q Consensus 9 ernekiLr~Llk~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsLG-H--RVKSITLDtWT~EEVe~Mq~gGN~rA 85 (719)
...+++|..|.+.++|++|||||+++|+|||++||||||++||||||+|| | +||||+||+|+++||++|+.+||.+|
T Consensus 5 ~~~~~~l~~l~~~~~Nk~CaDCga~~P~W~S~nlGvfiCi~CagvHRsLGvhiS~VKSitLD~wt~~~l~~m~~gGN~~a 84 (319)
T COG5347 5 SEDRKLLKLLKSDSSNKKCADCGAPNPTWASVNLGVFLCIDCAGVHRSLGVHISKVKSLTLDNWTEEELRRMEVGGNSNA 84 (319)
T ss_pred hHHHHHHHHHhhccccCccccCCCCCCceEecccCeEEEeecchhhhccccceeeeeeeecccCCHHHHHHHHHhcchhh
Confidence 45678888999999999999999999999999999999999999999999 5 99999999999999999999999999
Q ss_pred HHHHhhcCCCC-----CCCCCchHHHHHHHHHHhhccccCC
Q 045661 86 RQIYLKDWDPQ-----RNSYPDGRIRDFIKHVYVDRRYAGE 121 (719)
Q Consensus 86 N~IwEa~~pp~-----rkp~PDS~re~FIRaKYVdKrF~~~ 121 (719)
|.||+++.-.. +..+.+..+++||++||++++|...
T Consensus 85 ~~~~e~~~~~~~~~~~k~~yd~~v~~~y~~~ky~~~~~~~~ 125 (319)
T COG5347 85 NRFYEKNLLDQLLLPIKAKYDSSVAKKYIRKKYELKKFIDD 125 (319)
T ss_pred hhHhccCCCcccccccccccCHHHHHHHHHHHHHhhhcccc
Confidence 99999975431 2222233889999999999999975
No 8
>PLN03114 ADP-ribosylation factor GTPase-activating protein AGD10; Provisional
Probab=99.92 E-value=1.4e-25 Score=236.13 Aligned_cols=112 Identities=25% Similarity=0.456 Sum_probs=95.2
Q ss_pred HHHHHHHhcCCCCCcccCCCCCCCCeeEccceeEEecccccccccCC-c--eeeecccCCCCHHHHHHHHhhchHHHHHH
Q 045661 12 EGIIRGLLKLPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREFT-H--RVKSISMAKFSAEEVSALQAAGNERARQI 88 (719)
Q Consensus 12 ekiLr~Llk~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsLG-H--RVKSITLDtWT~EEVe~Mq~gGN~rAN~I 88 (719)
.++|+.|++.++|++|+|||+++|+||+++||||||++|+||||.|| | +|||++||+|+.++|++|+.+||.++|+|
T Consensus 10 ~~vfrkL~~kPgNk~CaDCga~nPtWASvn~GIFLCl~CSGVHRsLGvHISfVRSltLD~Ws~eqL~~Mk~GGN~rA~~f 89 (395)
T PLN03114 10 ISVFKKLKAKSDNKICFDCNAKNPTWASVTYGIFLCIDCSAVHRSLGVHISFVRSTNLDSWSSEQLKMMIYGGNNRAQVF 89 (395)
T ss_pred HHHHHHHHhCcCCCcCccCCCCCCCceeeccceeehhhhhHhhccCCCCCceeecccCCCCCHHHHHHHHHhcCHHHHHH
Confidence 46699999999999999999999999999999999999999999999 4 89999999999999999999999999999
Q ss_pred HhhcCC-CC---CCCCCch--HHHHHHHHHHhhccccCCCC
Q 045661 89 YLKDWD-PQ---RNSYPDG--RIRDFIKHVYVDRRYAGEKT 123 (719)
Q Consensus 89 wEa~~p-p~---rkp~PDS--~re~FIRaKYVdKrF~~~~~ 123 (719)
|+.+.- .. +..+... .+.+-+.+|++++.+..+..
T Consensus 90 F~qhG~~~~~~~~~KY~S~aA~~Yre~L~keVa~~~a~~~~ 130 (395)
T PLN03114 90 FKQYGWSDGGKTEAKYTSRAADLYKQILAKEVAKSKAEEEL 130 (395)
T ss_pred HHHcCCCCCCCcccccCCHHHHHHHHHHHHHHHHhhhcccc
Confidence 987532 11 1111111 45566889999999986654
No 9
>KOG0704 consensus ADP-ribosylation factor GTPase activator [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=99.92 E-value=2.4e-25 Score=233.29 Aligned_cols=85 Identities=33% Similarity=0.654 Sum_probs=79.5
Q ss_pred HHHHHHHHHHhcCCCCCcccCCCCCCCCeeEccceeEEecccccccccCC-c--eeeecccCCCCHHHHHHHHhhchHHH
Q 045661 9 ERIEGIIRGLLKLPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREFT-H--RVKSISMAKFSAEEVSALQAAGNERA 85 (719)
Q Consensus 9 ernekiLr~Llk~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsLG-H--RVKSITLDtWT~EEVe~Mq~gGN~rA 85 (719)
-+.++.|..|....+|++|+||++++|+|||++||||||++|+|+||.|| | +|||||||+|.+.||++|+.+||.++
T Consensus 4 prtrr~L~~lkp~deNk~CfeC~a~NPQWvSvsyGIfICLECSG~HRgLGVhiSFVRSVTMD~wkeiel~kMeaGGN~~~ 83 (386)
T KOG0704|consen 4 PRTRRVLLELKPQDENKKCFECGAPNPQWVSVSYGIFICLECSGKHRGLGVHISFVRSVTMDKWKEIELKKMEAGGNERF 83 (386)
T ss_pred hHHHHHHHhcCccccCCceeecCCCCCCeEeecccEEEEEecCCcccccceeeEEEEeeecccccHHHHHHHHhccchhH
Confidence 46778888888888999999999999999999999999999999999999 5 99999999999999999999999999
Q ss_pred HHHHhhcC
Q 045661 86 RQIYLKDW 93 (719)
Q Consensus 86 N~IwEa~~ 93 (719)
++|++..-
T Consensus 84 ~eFL~s~~ 91 (386)
T KOG0704|consen 84 REFLSSQG 91 (386)
T ss_pred HHHHhhCc
Confidence 99998753
No 10
>KOG0706 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=99.90 E-value=2.3e-24 Score=231.07 Aligned_cols=83 Identities=30% Similarity=0.649 Sum_probs=80.0
Q ss_pred HHHHHHHHHhcCCCCCcccCCCCCCCCeeEccceeEEecccccccccCC-c--eeeecccCCCCHHHHHHHHhhchHHHH
Q 045661 10 RIEGIIRGLLKLPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREFT-H--RVKSISMAKFSAEEVSALQAAGNERAR 86 (719)
Q Consensus 10 rnekiLr~Llk~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsLG-H--RVKSITLDtWT~EEVe~Mq~gGN~rAN 86 (719)
..+++++.|...++||+|||||+++|+|++++||||||+.|+++||+|| | +|||.+||+|+.+||++|+.+||.+|+
T Consensus 9 d~~~vfkkLRs~~~NKvCFDCgAknPtWaSVTYGIFLCiDCSAvHRnLGVHiSFVRSTnLDsWs~~qLR~M~~GGN~nA~ 88 (454)
T KOG0706|consen 9 DIQTVFKKLRSQSENKVCFDCGAKNPTWASVTYGIFLCIDCSAVHRNLGVHISFVRSTNLDSWSWEQLRRMQVGGNANAR 88 (454)
T ss_pred hHHHHHHHHhcCCCCceecccCCCCCCceeecceEEEEEecchhhhccccceEEEeecccccCCHHHHhHhhhcCchhHH
Confidence 4578999999999999999999999999999999999999999999999 6 999999999999999999999999999
Q ss_pred HHHhhc
Q 045661 87 QIYLKD 92 (719)
Q Consensus 87 ~IwEa~ 92 (719)
.||..+
T Consensus 89 ~FFkqh 94 (454)
T KOG0706|consen 89 VFFKQH 94 (454)
T ss_pred HHHHHc
Confidence 999876
No 11
>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]
Probab=99.90 E-value=3.5e-24 Score=234.73 Aligned_cols=112 Identities=21% Similarity=0.522 Sum_probs=106.0
Q ss_pred HHHHHHHhcCCCCCcccCCCCCCCCeeEccceeEEecccccccccCC-c--eeeecccCCCCHHHHHHHHhhchHHHHHH
Q 045661 12 EGIIRGLLKLPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREFT-H--RVKSISMAKFSAEEVSALQAAGNERARQI 88 (719)
Q Consensus 12 ekiLr~Llk~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsLG-H--RVKSITLDtWT~EEVe~Mq~gGN~rAN~I 88 (719)
.-.|+.|...+||..|+||+.++|.||++|+|++||++|+||||.|| | ||+++.||.|..|.+..|..+||+.||.+
T Consensus 501 a~a~qairn~rgn~~c~dc~~~n~~wAslnlg~l~cieCsgihr~lgt~lSrvr~LeLDdWPvEl~~Vm~aiGN~~AN~v 580 (749)
T KOG0705|consen 501 AMALQAIRNMRGNSHCVDCGTPNPKWASLNLGVLMCIECSGIHRNLGTHLSRVRSLELDDWPVELLKVMSAIGNDLANSV 580 (749)
T ss_pred HHHHHHHhcCcCCceeeecCCCCcccccccCCeEEEEEchhhhhhhhhhhhhhhccccccCcHHHHHHHHHhhhhHHHHH
Confidence 45678888999999999999999999999999999999999999998 4 99999999999999999999999999999
Q ss_pred HhhcCCCCCCCCCch---HHHHHHHHHHhhccccCCCC
Q 045661 89 YLKDWDPQRNSYPDG---RIRDFIKHVYVDRRYAGEKT 123 (719)
Q Consensus 89 wEa~~pp~rkp~PDS---~re~FIRaKYVdKrF~~~~~ 123 (719)
||.....+.+|.+++ ++|.|||.||++|.|.....
T Consensus 581 WE~~~~G~~KPs~~s~REEkErwIr~KYeqklFLaPl~ 618 (749)
T KOG0705|consen 581 WEGSSQGQTKPSPDSSREEKERWIRAKYEQKLFLAPLP 618 (749)
T ss_pred hhhhccCCcCCCccccHHHHHHHHHHHHHHHhhcCCCC
Confidence 999888889999998 78999999999999998776
No 12
>KOG0521 consensus Putative GTPase activating proteins (GAPs) [Signal transduction mechanisms]
Probab=99.80 E-value=9.5e-21 Score=216.87 Aligned_cols=110 Identities=25% Similarity=0.541 Sum_probs=100.1
Q ss_pred HHHHHhcCCCCCcccCCCCCCCCeeEccceeEEecccccccccCC-c--eeeecccCCCCHHHHHHHHhhchHHHHHHHh
Q 045661 14 IIRGLLKLPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREFT-H--RVKSISMAKFSAEEVSALQAAGNERARQIYL 90 (719)
Q Consensus 14 iLr~Llk~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsLG-H--RVKSITLDtWT~EEVe~Mq~gGN~rAN~IwE 90 (719)
.+..+.+.++|..|+|||++.|+|+++|+||.+|++|+||||+|| | ||+|++||.|..+.+.+|+.+||..+|.|||
T Consensus 416 ~~~~vq~~pgN~~c~Dcg~p~ptw~S~NLgv~~CIecSGvhRslGvh~SkvrsLtLD~~~~~l~~l~~~lgn~~~N~i~e 495 (785)
T KOG0521|consen 416 VIEEVQSVPGNAQCCDCGAPEPTWASINLGVLLCIECSGVHRSLGVHISKVRSLTLDVWEPELLLLFKNLGNKYVNEIYE 495 (785)
T ss_pred hhhhhhcCCchhhhhhcCCCCCchHhhhhchhhHhhccccccccCchhhhhhhhhhhccCcHHHHHHHHhCcchhhhhhh
Confidence 478888999999999999999999999999999999999999999 5 9999999999999999999999999999999
Q ss_pred hcCCCCC--CCCCch---HHHHHHHHHHhhccccCCCC
Q 045661 91 KDWDPQR--NSYPDG---RIRDFIKHVYVDRRYAGEKT 123 (719)
Q Consensus 91 a~~pp~r--kp~PDS---~re~FIRaKYVdKrF~~~~~ 123 (719)
+.++... ++.+.+ .|+.||++||++++|..+..
T Consensus 496 ~~l~~~~~~~~~~~~~~~~r~~~i~~kyve~~F~~k~~ 533 (785)
T KOG0521|consen 496 ALLPSYDSSKPTASSSRQAREAWIKAKYVERRFSVKEP 533 (785)
T ss_pred cccccccccCCCCccchhhhhHhhhcccceeeEeeccc
Confidence 9987542 343333 78999999999999998766
No 13
>KOG1117 consensus Rho- and Arf-GTPase activating protein ARAP3 [Signal transduction mechanisms; Cytoskeleton]
Probab=99.69 E-value=1.5e-17 Score=188.51 Aligned_cols=110 Identities=26% Similarity=0.572 Sum_probs=101.4
Q ss_pred HHHHHhcCCCCCcccCCCCCCCCeeEccceeEEecccccccccCC---ceeeecccCC--CCHHHHHHHHhhchHHHHHH
Q 045661 14 IIRGLLKLPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREFT---HRVKSISMAK--FSAEEVSALQAAGNERARQI 88 (719)
Q Consensus 14 iLr~Llk~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsLG---HRVKSITLDt--WT~EEVe~Mq~gGN~rAN~I 88 (719)
.-.++.....|+.|+||++..|.||++|+++.||-.|+|-||+|| +||+|++||. |+.+.|++|..+||.++|.|
T Consensus 288 vaeriW~ne~nr~cadC~ssrPdwasiNL~vvIck~caGqhrslgs~dSkvrslkmd~svwsneliElfivlgn~~an~F 367 (1186)
T KOG1117|consen 288 VAERIWLNEENRECADCGSSRPDWASINLCVVICKPCAGQHRSLGSGDSKVRSLKMDPSVWSNELIELFIVLGNPRANRF 367 (1186)
T ss_pred HHHHHHhccccccccccCCCCCcccccccceEEcccCCCccccCCCccccccccccCcccccchhhhhheeecCcccccc
Confidence 345677888999999999999999999999999999999999998 5999999995 99999999999999999999
Q ss_pred HhhcCCCCCCCCCch---HHHHHHHHHHhhccccCCCC
Q 045661 89 YLKDWDPQRNSYPDG---RIRDFIKHVYVDRRYAGEKT 123 (719)
Q Consensus 89 wEa~~pp~rkp~PDS---~re~FIRaKYVdKrF~~~~~ 123 (719)
|-.++++...-.+++ .|++||+.||.+.+|.....
T Consensus 368 wa~nl~~~e~lh~dssp~~r~~fi~~Kykeg~fRk~~~ 405 (1186)
T KOG1117|consen 368 WAGNLPPNEHLHPDSSPSTRRQFIKEKYKEGKFRKEHP 405 (1186)
T ss_pred cccCCCCccccCCCCCcchhhhHHHHHhhccccccccc
Confidence 999999988877776 89999999999999986554
No 14
>KOG0818 consensus GTPase-activating proteins of the GIT family [Signal transduction mechanisms]
Probab=99.65 E-value=3.9e-17 Score=177.82 Aligned_cols=105 Identities=22% Similarity=0.488 Sum_probs=92.3
Q ss_pred hcCCCCCcccCCCCCCCCeeEccceeEEecccccccccCC-c--eeeecccCCCCHHHHHHHHhhchHHHHHHHhhcC-C
Q 045661 19 LKLPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREFT-H--RVKSISMAKFSAEEVSALQAAGNERARQIYLKDW-D 94 (719)
Q Consensus 19 lk~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsLG-H--RVKSITLDtWT~EEVe~Mq~gGN~rAN~IwEa~~-p 94 (719)
.+...-++|+|||+++|.|||++-|+|||.+|..+||.|| | .||++....|.++.|+++..+.|..+|.|||..+ +
T Consensus 3 k~~l~~evC~DC~~~dp~WASvnrGt~lC~eCcsvHrsLGrhIS~vrhLR~s~W~pt~l~~V~tLn~~gaNsIWEh~Lld 82 (669)
T KOG0818|consen 3 KRLLSSEVCADCSGPDPSWASVNRGTFLCDECCSVHRSLGRHISQVRHLRHTPWPPTLLQMVETLNNNGANSIWEHSLLD 82 (669)
T ss_pred ccchhhhhhcccCCCCCcceeecCceEehHhhhHHHhhhcchHHHHHHhccCCCCHHHHHHHHHHHhcCcchhhhhhccC
Confidence 3455678999999999999999999999999999999999 5 8999999999999999999999999999999875 3
Q ss_pred C------CCCCCCch----HHHHHHHHHHhhccccCCCC
Q 045661 95 P------QRNSYPDG----RIRDFIKHVYVDRRYAGEKT 123 (719)
Q Consensus 95 p------~rkp~PDS----~re~FIRaKYVdKrF~~~~~ 123 (719)
+ .+++.|.. .+.+|||+||+...|..+..
T Consensus 83 ~st~~sg~rk~~pqD~~Hp~K~eFIkaKy~~LtFv~~~~ 121 (669)
T KOG0818|consen 83 PATIMSGRRKANPQDKVHPNKAEFIRAKYQMLAFVHRLP 121 (669)
T ss_pred chhhhcccCCCCCcCCCCccHHHHHHHHHHheeeeccCC
Confidence 3 24555644 78999999999999998544
No 15
>KOG0521 consensus Putative GTPase activating proteins (GAPs) [Signal transduction mechanisms]
Probab=90.56 E-value=0.027 Score=66.85 Aligned_cols=101 Identities=14% Similarity=0.141 Sum_probs=69.4
Q ss_pred cCCCCCcccCCCC-CCCCeeEccceeEEecccccccccCC-c--eeeecccCCCCHHHHHHHHhhchHHHHHHHhhcCCC
Q 045661 20 KLPENRRCINCNC-LGPQYVCTTFLTFVCTNCSGVHREFT-H--RVKSISMAKFSAEEVSALQAAGNERARQIYLKDWDP 95 (719)
Q Consensus 20 k~PgNK~CADCGA-~~PqWASvNfGVFVCi~CSGIHRsLG-H--RVKSITLDtWT~EEVe~Mq~gGN~rAN~IwEa~~pp 95 (719)
....+-.|++|++ ....|+|+++.+-+|+.|+++|+.++ | .+.++.|++..+ |..+-..|+..++..|......
T Consensus 626 ~~~~~~~~~~~~~~~~~~~~~~n~~~~~~~~~s~lh~a~~~~~~~~~e~ll~~ga~--vn~~d~~g~~plh~~~~~g~~~ 703 (785)
T KOG0521|consen 626 KASSDGECLPRIATALAHGCCENWPVVLCIGCSLLHVAVGTGDSGAVELLLQNGAD--VNALDSKGRTPLHHATASGHTS 703 (785)
T ss_pred HhccCccchhhhhhhhcchhhhccchhhhcccchhhhhhccchHHHHHHHHhcCCc--chhhhccCCCcchhhhhhcccc
Confidence 4556889999996 68999999999999999999999997 4 667777777766 7777777777777666543222
Q ss_pred CCCC--CCchHHHHHHHHHHhhccccCCC
Q 045661 96 QRNS--YPDGRIRDFIKHVYVDRRYAGEK 122 (719)
Q Consensus 96 ~rkp--~PDS~re~FIRaKYVdKrF~~~~ 122 (719)
.... ..-+....|-.++|....|....
T Consensus 704 ~~~~ll~~~a~~~a~~~~~~~~l~~a~~~ 732 (785)
T KOG0521|consen 704 IACLLLKRGADPNAFDPDGKLPLDIAMEA 732 (785)
T ss_pred hhhhhccccccccccCccCcchhhHHhhh
Confidence 1111 11113344555566666665443
No 16
>KOG0702 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=87.62 E-value=63 Score=37.73 Aligned_cols=48 Identities=13% Similarity=-0.056 Sum_probs=31.5
Q ss_pred cccccCCCCCCCCCCCCCCCCccccccCCCCC---CC-ChHHHHHHhhcccc
Q 045661 342 VAAQQTQPITPSDGDNEPSTEQPVEEKAPVAP---PP-NTLEFLLFELGASF 389 (719)
Q Consensus 342 ~~~q~~~~~~~s~~~n~~S~d~~~~~~~~~~~---~~-n~le~~l~~ls~~~ 389 (719)
+..|.|-++....+++|++|+..+.+...... +. +.|...+.+|.+..
T Consensus 312 ~~~~~q~t~~~~~nd~~ssf~~~~~Ap~~~~~s~p~i~s~~~s~~~~l~~~~ 363 (524)
T KOG0702|consen 312 TVDQHQPTIPSPWNDQGSSFGATPVAPPLWVASPPSIGSNLLSSSRALAVQS 363 (524)
T ss_pred CccccCCCCCCcccccCcccccccccCCccccCCCCcccccccccccccccc
Confidence 33344444445779999999988777554332 22 77777888887754
No 17
>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=82.56 E-value=0.97 Score=34.24 Aligned_cols=40 Identities=18% Similarity=0.444 Sum_probs=33.8
Q ss_pred CCCcccCCCCCCCCeeEccceeEEecccccc-cccCCceeeec
Q 045661 23 ENRRCINCNCLGPQYVCTTFLTFVCTNCSGV-HREFTHRVKSI 64 (719)
Q Consensus 23 gNK~CADCGA~~PqWASvNfGVFVCi~CSGI-HRsLGHRVKSI 64 (719)
.+..|..|......|.+.+=.++||..|... |+. |+|..|
T Consensus 2 ~~~~C~~H~~~~~~~~C~~C~~~~C~~C~~~~H~~--H~~~~i 42 (42)
T PF00643_consen 2 QEPKCPEHPEEPLSLFCEDCNEPLCSECTVSGHKG--HKIVPI 42 (42)
T ss_dssp SSSB-SSTTTSBEEEEETTTTEEEEHHHHHTSTTT--SEEEEC
T ss_pred cCccCccCCccceEEEecCCCCccCccCCCCCCCC--CEEeEC
Confidence 3678999999889999999999999999987 887 877664
No 18
>PRK12495 hypothetical protein; Provisional
Probab=74.92 E-value=3 Score=43.71 Aligned_cols=30 Identities=17% Similarity=0.139 Sum_probs=25.0
Q ss_pred CCCCCcccCCCCCCCCeeEccceeEEeccccccc
Q 045661 21 LPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVH 54 (719)
Q Consensus 21 ~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIH 54 (719)
...++.|-+||.+-|.+ -|+.+|..|..+-
T Consensus 39 tmsa~hC~~CG~PIpa~----pG~~~Cp~CQ~~~ 68 (226)
T PRK12495 39 TMTNAHCDECGDPIFRH----DGQEFCPTCQQPV 68 (226)
T ss_pred ccchhhcccccCcccCC----CCeeECCCCCCcc
Confidence 45789999999998832 6999999998664
No 19
>PRK00085 recO DNA repair protein RecO; Reviewed
Probab=67.22 E-value=3.5 Score=41.51 Aligned_cols=34 Identities=21% Similarity=0.404 Sum_probs=27.6
Q ss_pred CCCCCcccCCCCCCC-CeeEccceeEEeccccccc
Q 045661 21 LPENRRCINCNCLGP-QYVCTTFLTFVCTNCSGVH 54 (719)
Q Consensus 21 ~PgNK~CADCGA~~P-qWASvNfGVFVCi~CSGIH 54 (719)
.|.-..|+-||.... .|.+...|.|+|..|...|
T Consensus 146 ~p~l~~C~~Cg~~~~~~~f~~~~gg~~c~~c~~~~ 180 (247)
T PRK00085 146 GLDLDHCAVCGAPGDHRYFSPKEGGAVCSECGDPY 180 (247)
T ss_pred ccchhhHhcCCCCCCceEEecccCCcccccccCcc
Confidence 456679999997644 7889999999999997433
No 20
>TIGR00613 reco DNA repair protein RecO. All proteins in this family for which functions are known are DNA binding proteins that are involved in the initiation of recombination or recombinational repair.
Probab=66.62 E-value=5 Score=40.30 Aligned_cols=33 Identities=18% Similarity=0.445 Sum_probs=27.3
Q ss_pred CCCCCcccCCCCCCC-CeeEccceeEEecccccc
Q 045661 21 LPENRRCINCNCLGP-QYVCTTFLTFVCTNCSGV 53 (719)
Q Consensus 21 ~PgNK~CADCGA~~P-qWASvNfGVFVCi~CSGI 53 (719)
.|.-..|+.||..++ .|.+...|.|+|..|...
T Consensus 144 ~p~l~~C~~cg~~~~~~~fs~~~gg~~C~~c~~~ 177 (241)
T TIGR00613 144 ALDLDKCAVCGSKEDLIYFSMTYGGALCRQCGEK 177 (241)
T ss_pred CcccCccCCCCCcCCCceEchhcCeEEChhhCcc
Confidence 466689999997544 688999999999999875
No 21
>PLN03131 hypothetical protein; Provisional
Probab=51.48 E-value=4.6e+02 Score=32.01 Aligned_cols=20 Identities=45% Similarity=0.665 Sum_probs=15.2
Q ss_pred CCCCCCCCCCCCCCCCCCCC
Q 045661 693 APAYSNPAKSTNPFDISSDT 712 (719)
Q Consensus 693 ~~~~~~~aks~NPFD~~~~~ 712 (719)
|++--++.||+|||||-.|-
T Consensus 602 ~~s~~~~~ks~npfdl~~ds 621 (705)
T PLN03131 602 AQSHANDHKSINPFDLPYDS 621 (705)
T ss_pred cccccCccCCCCCcCCcccc
Confidence 34445699999999997764
No 22
>COG1381 RecO Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=49.08 E-value=9.3 Score=39.80 Aligned_cols=31 Identities=26% Similarity=0.631 Sum_probs=26.5
Q ss_pred CCCCCcccCCCCCC-CCeeEccceeEEecccc
Q 045661 21 LPENRRCINCNCLG-PQYVCTTFLTFVCTNCS 51 (719)
Q Consensus 21 ~PgNK~CADCGA~~-PqWASvNfGVFVCi~CS 51 (719)
.+.=..|+.||... +..++.-.|-+||.+|.
T Consensus 151 ~~~l~~Ca~cg~~~~~~~~s~~~~~~~C~~~~ 182 (251)
T COG1381 151 GPNLTSCARCGTPVDPVYFSPKSGGFLCSKCA 182 (251)
T ss_pred ccchHHHhCcCCcCCCcceeeccCcccchhcc
Confidence 34458999999864 57999999999999999
No 23
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=48.82 E-value=13 Score=28.91 Aligned_cols=27 Identities=30% Similarity=0.524 Sum_probs=21.3
Q ss_pred cccCCCCCCCCeeEccceeEEecccccc
Q 045661 26 RCINCNCLGPQYVCTTFLTFVCTNCSGV 53 (719)
Q Consensus 26 ~CADCGA~~PqWASvNfGVFVCi~CSGI 53 (719)
+|-.||+.. ......-|-+||..|--|
T Consensus 2 ~Cp~Cg~~~-~~~D~~~g~~vC~~CG~V 28 (43)
T PF08271_consen 2 KCPNCGSKE-IVFDPERGELVCPNCGLV 28 (43)
T ss_dssp SBTTTSSSE-EEEETTTTEEEETTT-BB
T ss_pred CCcCCcCCc-eEEcCCCCeEECCCCCCE
Confidence 699999977 555677899999999654
No 24
>KOG3537 consensus Adaptor protein NUMB [Signal transduction mechanisms]
Probab=48.62 E-value=97 Score=36.05 Aligned_cols=69 Identities=23% Similarity=0.295 Sum_probs=41.8
Q ss_pred CCCCCCC-CCCCCCCCCCCccccCCCCCCCCCccccccccccCCCCCCCCCCccc---------CCcccccCCccccccc
Q 045661 496 SGDNVPQ-SSASPAPSSGQMTALPNSVGDSTTESTAIVPVSFSDEGPPQDKPVVN---------VDSTVKFPDVQQLNGL 565 (719)
Q Consensus 496 ~~~~~~~-~~~~~~~~~g~~~~~~~~~~~s~~~~~~~~p~~~s~~~~~~~~~~~~---------~~s~~~~~~~~q~~~~ 565 (719)
.|+..+| ..++|.-+++-+|+|-+.+.|.+.-.=-.++ .|.|-.+--+ ..-+++..-+||+--+
T Consensus 314 ~Gdsdsl~a~itp~~~a~aspsla~~~~d~i~~~W~e~s------ap~~~~~~H~~~~~~a~~Wlq~~~e~~~~q~~~~~ 387 (543)
T KOG3537|consen 314 EGDSDSLGAGITPPVSAKASPSLANVALDGISLNWKEIS------APGLQMQQHNANGDFAAAWLQNTIEKPTVQPLDAL 387 (543)
T ss_pred CCccCCccccccCccccccCccccccCCCchhcccccCC------chhhhhhhcccchHHHHHhHHhhhcccccCCHHHH
Confidence 4666666 6788888888898998888887542222222 2222222111 1345777888888888
Q ss_pred ccccc
Q 045661 566 QQHQT 570 (719)
Q Consensus 566 ~~~q~ 570 (719)
|+|++
T Consensus 388 qkQ~q 392 (543)
T KOG3537|consen 388 QKQFQ 392 (543)
T ss_pred Hhhhc
Confidence 65554
No 25
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=41.37 E-value=21 Score=27.62 Aligned_cols=28 Identities=18% Similarity=0.454 Sum_probs=23.7
Q ss_pred CCCCcccCCCCCCCCeeEccceeEEeccccc
Q 045661 22 PENRRCINCNCLGPQYVCTTFLTFVCTNCSG 52 (719)
Q Consensus 22 PgNK~CADCGA~~PqWASvNfGVFVCi~CSG 52 (719)
..|..|..|++. |....=|-++|.+|-.
T Consensus 6 ~~~~~C~~C~~~---~~~~~dG~~yC~~cG~ 33 (36)
T PF11781_consen 6 GPNEPCPVCGSR---WFYSDDGFYYCDRCGH 33 (36)
T ss_pred cCCCcCCCCCCe---EeEccCCEEEhhhCce
Confidence 346679999998 8889999999999854
No 26
>COG1734 DksA DnaK suppressor protein [Signal transduction mechanisms]
Probab=37.10 E-value=5.6 Score=38.02 Aligned_cols=46 Identities=17% Similarity=0.283 Sum_probs=26.3
Q ss_pred HHHHHHHHHHhcCCCC--CcccCCCCCCC-CeeEccceeEEeccccccc
Q 045661 9 ERIEGIIRGLLKLPEN--RRCINCNCLGP-QYVCTTFLTFVCTNCSGVH 54 (719)
Q Consensus 9 ernekiLr~Llk~PgN--K~CADCGA~~P-qWASvNfGVFVCi~CSGIH 54 (719)
...+++-..|.++... -.|.+||.+=| .-.-.-=+..+|+.|.-.|
T Consensus 63 ~~l~~i~~al~rIe~gtYG~Ce~cG~~Ip~~RL~A~P~A~~Ci~cQ~~~ 111 (120)
T COG1734 63 KLLRKIESALDRIEEGTYGICEECGEPIPEARLEARPTARLCIECQERA 111 (120)
T ss_pred HHHHHHHHHHHHHHcCCccchhccCCcCCHHHHhhCcchHHHHHHHHHH
Confidence 3344444445444433 48999998632 1122223567899998765
No 27
>PRK11019 hypothetical protein; Provisional
Probab=35.06 E-value=12 Score=34.17 Aligned_cols=33 Identities=15% Similarity=0.269 Sum_probs=23.1
Q ss_pred CCCcccCCCCCCC--CeeEccceeEEeccccccccc
Q 045661 23 ENRRCINCNCLGP--QYVCTTFLTFVCTNCSGVHRE 56 (719)
Q Consensus 23 gNK~CADCGA~~P--qWASvNfGVFVCi~CSGIHRs 56 (719)
.-..|.|||.+=| +|.-+. ++-.|+.|...+..
T Consensus 35 syg~C~~CG~~Ip~~Rl~A~P-~a~~Cv~Cq~~~E~ 69 (88)
T PRK11019 35 SLTECEECGEPIPEARRKAIP-GVRLCVACQQEKDL 69 (88)
T ss_pred cCCeeCcCCCcCcHHHHhhcC-CccccHHHHHHHHH
Confidence 3579999998643 343333 67899999987643
No 28
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=33.89 E-value=13 Score=28.74 Aligned_cols=27 Identities=26% Similarity=0.636 Sum_probs=16.7
Q ss_pred CcccCCCC-CCCCeeEccceeEEecccc
Q 045661 25 RRCINCNC-LGPQYVCTTFLTFVCTNCS 51 (719)
Q Consensus 25 K~CADCGA-~~PqWASvNfGVFVCi~CS 51 (719)
..|.+|+. ..-.|..-+|+.-||.+|.
T Consensus 4 ~~C~eC~~~f~dSyL~~~F~~~VCD~CR 31 (34)
T PF01286_consen 4 PKCDECGKPFMDSYLLNNFDLPVCDKCR 31 (34)
T ss_dssp EE-TTT--EES-SSCCCCTS-S--TTT-
T ss_pred chHhHhCCHHHHHHHHHhCCcccccccc
Confidence 47999997 4678999999999999995
No 29
>TIGR02419 C4_traR_proteo phage/conjugal plasmid C-4 type zinc finger protein, TraR family. Members of this family are putative C4-type zinc finger proteins found almost exclusively in prophage regions, actual phage, or conjugal transfer regions of the Proteobactia. This small protein (about 70 amino acids) appears homologous to but is smaller than DksA (DnaK suppressor protein), found to be critical for regulating transcription of ribosomal RNA.
Probab=31.96 E-value=14 Score=31.45 Aligned_cols=34 Identities=21% Similarity=0.328 Sum_probs=22.9
Q ss_pred cCCCCCcccCCCCCCC--CeeEccceeEEeccccccc
Q 045661 20 KLPENRRCINCNCLGP--QYVCTTFLTFVCTNCSGVH 54 (719)
Q Consensus 20 k~PgNK~CADCGA~~P--qWASvNfGVFVCi~CSGIH 54 (719)
..++...|.|||.+=| +|. ..-|+..|+.|...+
T Consensus 27 ~~~s~g~C~~Cg~~Ip~~Rl~-a~p~~~~Cv~Cq~~~ 62 (63)
T TIGR02419 27 IGPSLRECEDCGEPIPEARRE-ALPGVTRCVSCQEIL 62 (63)
T ss_pred cCCCCCeeccCCCcChHHHHh-hcCCcCCcHHHHhhc
Confidence 3456789999998533 232 233778899997654
No 30
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs. This subfamily is predominantly composed of plant proteins. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins via a redox active CXXC motif using a similar dithiol mechanism employed by TRXs. GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. Proteins containing only the C-terminal cysteine are generally redox inactive.
Probab=29.77 E-value=38 Score=33.19 Aligned_cols=43 Identities=19% Similarity=0.546 Sum_probs=30.4
Q ss_pred hhhHHHHHHHHHHhcCCCCCcccCCCCCCCCeeEccceeEEecccccccccC
Q 045661 6 KEDERIEGIIRGLLKLPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREF 57 (719)
Q Consensus 6 kedernekiLr~Llk~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsL 57 (719)
.++.+.+++|+.+....+...|.-||.. + -.+|..|.|-|+.+
T Consensus 81 ~e~G~L~~lL~~~~~~~~~~~C~~Cgg~--r-------fv~C~~C~Gs~k~~ 123 (147)
T cd03031 81 NESGELRKLLKGIRARAGGGVCEGCGGA--R-------FVPCSECNGSCKVF 123 (147)
T ss_pred HHcCCHHHHHhhcccccCCCCCCCCCCc--C-------eEECCCCCCcceEE
Confidence 3445566677766555667779999853 3 35899999998765
No 31
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=29.68 E-value=29 Score=32.49 Aligned_cols=44 Identities=23% Similarity=0.489 Sum_probs=30.3
Q ss_pred cCCCCCcccCCCCCCCCeeEccceeEEecccccccccC--C--ceeeecccC
Q 045661 20 KLPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREF--T--HRVKSISMA 67 (719)
Q Consensus 20 k~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsL--G--HRVKSITLD 67 (719)
..|.--+|.+||. +..+....|.|-.|.+..-.+ | -+|++|.++
T Consensus 66 ~~p~~~~C~~Cg~----~~~~~~~~~~CP~Cgs~~~~i~~G~El~I~~ie~~ 113 (115)
T TIGR00100 66 DEPVECECEDCSE----EVSPEIDLYRCPKCHGIMLQVRAGKELNLKSIEVE 113 (115)
T ss_pred eeCcEEEcccCCC----EEecCCcCccCcCCcCCCcEEecCCeEEEEEEEEE
Confidence 3577789999993 223322358899999876554 4 389988775
No 32
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=27.19 E-value=24 Score=35.37 Aligned_cols=34 Identities=29% Similarity=0.674 Sum_probs=27.7
Q ss_pred CCCCcccCCCCCCCCeeEccceeEEe-ccccccccc
Q 045661 22 PENRRCINCNCLGPQYVCTTFLTFVC-TNCSGVHRE 56 (719)
Q Consensus 22 PgNK~CADCGA~~PqWASvNfGVFVC-i~CSGIHRs 56 (719)
|--+.|+-|| -.--|.|++-|.-.| ..|-++|.+
T Consensus 116 P~r~fCaVCG-~~S~ysC~~CG~kyCsv~C~~~Hne 150 (156)
T KOG3362|consen 116 PLRKFCAVCG-YDSKYSCVNCGTKYCSVRCLKTHNE 150 (156)
T ss_pred CcchhhhhcC-CCchhHHHhcCCceeechhhhhccc
Confidence 4457899999 666789999999888 479899965
No 33
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=26.84 E-value=26 Score=32.76 Aligned_cols=44 Identities=16% Similarity=0.312 Sum_probs=30.7
Q ss_pred cCCCCCcccCCCCCCCCeeEccceeEEecccccccccC--C--ceeeeccc
Q 045661 20 KLPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREF--T--HRVKSISM 66 (719)
Q Consensus 20 k~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsL--G--HRVKSITL 66 (719)
..|..-+|-+||.. |....+..|.|-.|-+..-.+ | -+|++|.+
T Consensus 66 ~~p~~~~C~~Cg~~---~~~~~~~~~~CP~Cgs~~~~i~~G~El~i~~iEv 113 (114)
T PRK03681 66 EQEAECWCETCQQY---VTLLTQRVRRCPQCHGDMLRIVADDGLQIRRIEI 113 (114)
T ss_pred eeCcEEEcccCCCe---eecCCccCCcCcCcCCCCcEEccCCeEEEEEEEE
Confidence 35777899999952 222344557899999887666 3 38888765
No 34
>COG2158 Uncharacterized protein containing a Zn-finger-like domain [General function prediction only]
Probab=26.78 E-value=46 Score=31.87 Aligned_cols=23 Identities=17% Similarity=0.553 Sum_probs=21.0
Q ss_pred CeeEccce--eEEecccccccccCC
Q 045661 36 QYVCTTFL--TFVCTNCSGVHREFT 58 (719)
Q Consensus 36 qWASvNfG--VFVCi~CSGIHRsLG 58 (719)
.|++-.-| |+-|.+|--|||.=+
T Consensus 52 ewi~~~~G~~VwSC~dC~~iH~ke~ 76 (112)
T COG2158 52 EWISDSNGRKVWSCSDCHWIHRKEG 76 (112)
T ss_pred ceeEcCCCCEEeeccccceecccch
Confidence 89998889 999999999999854
No 35
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=26.73 E-value=1.4e+02 Score=27.87 Aligned_cols=51 Identities=27% Similarity=0.485 Sum_probs=33.1
Q ss_pred hhhhHHHHHHHHHH----h----cCC----CCCcccCCCCC-----CCCeeEccceeEEecccccccc
Q 045661 5 IKEDERIEGIIRGL----L----KLP----ENRRCINCNCL-----GPQYVCTTFLTFVCTNCSGVHR 55 (719)
Q Consensus 5 ~kedernekiLr~L----l----k~P----gNK~CADCGA~-----~PqWASvNfGVFVCi~CSGIHR 55 (719)
.+|+++..++...| . ... +.+.|+-|+.+ +..-+|..-.--||..|...++
T Consensus 23 ~~E~~Ri~kLk~~L~~e~~r~~~~~~~~~~~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~~ 90 (118)
T PF02318_consen 23 KKEEERIRKLKQELQKEKMRREALGNSQKYGERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYSK 90 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCSCSTTHCCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEETS
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccccccccCCcchhhhCCcccccCCCCCcCCcCCccccCccCCcCC
Confidence 34555555555555 1 123 66899999963 4556688888889999988854
No 36
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=26.36 E-value=38 Score=34.31 Aligned_cols=25 Identities=28% Similarity=0.624 Sum_probs=21.2
Q ss_pred CcccCCCCCCCCeeEccceeEEecccccc-ccc
Q 045661 25 RRCINCNCLGPQYVCTTFLTFVCTNCSGV-HRE 56 (719)
Q Consensus 25 K~CADCGA~~PqWASvNfGVFVCi~CSGI-HRs 56 (719)
+.|.-||. +.-..|.|..|... ||-
T Consensus 310 ~~C~~cg~-------~~~r~~~C~~cg~~~~rD 335 (364)
T COG0675 310 KTCPCCGH-------LSGRLFKCPRCGFVHDRD 335 (364)
T ss_pred ccccccCC-------ccceeEECCCCCCeehhh
Confidence 89999999 66799999999974 554
No 37
>smart00401 ZnF_GATA zinc finger binding to DNA consensus sequence [AT]GATA[AG].
Probab=25.65 E-value=52 Score=27.00 Aligned_cols=36 Identities=19% Similarity=0.395 Sum_probs=29.1
Q ss_pred CCCcccCCCC-CCCCeeEcccee-EEecccccccccCC
Q 045661 23 ENRRCINCNC-LGPQYVCTTFLT-FVCTNCSGVHREFT 58 (719)
Q Consensus 23 gNK~CADCGA-~~PqWASvNfGV-FVCi~CSGIHRsLG 58 (719)
..+.|..|+. .-|.|=....|- +||-.|.--.+..+
T Consensus 2 ~~~~C~~C~~~~T~~WR~g~~g~~~LCnaCgl~~~k~~ 39 (52)
T smart00401 2 SGRSCSNCGTTETPLWRRGPSGNKTLCNACGLYYKKHG 39 (52)
T ss_pred CCCCcCCCCCCCCCccccCCCCCCcEeecccHHHHHcC
Confidence 3578999996 568898888886 99999987766654
No 38
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=25.55 E-value=30 Score=32.54 Aligned_cols=44 Identities=18% Similarity=0.335 Sum_probs=28.4
Q ss_pred CCCCCcccCCCCCCCCeeEccceeEEecccccccccC--C--ceeeecccC
Q 045661 21 LPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREF--T--HRVKSISMA 67 (719)
Q Consensus 21 ~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsL--G--HRVKSITLD 67 (719)
.|.--+|.+||.. |-...+..+.|-.|.+..-.+ | -+|++|.++
T Consensus 68 vp~~~~C~~Cg~~---~~~~~~~~~~CP~Cgs~~~~i~~G~El~I~~iE~~ 115 (117)
T PRK00564 68 EKVELECKDCSHV---FKPNALDYGVCEKCHSKNVIITQGNEMRLLSLEML 115 (117)
T ss_pred cCCEEEhhhCCCc---cccCCccCCcCcCCCCCceEEecCCEEEEEEEEEE
Confidence 4555689999943 222234445699999876555 3 388888663
No 39
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=25.00 E-value=56 Score=35.11 Aligned_cols=34 Identities=21% Similarity=0.248 Sum_probs=24.4
Q ss_pred CCCCCcccCCCCCCCCeeEccceeEEecccccccc
Q 045661 21 LPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHR 55 (719)
Q Consensus 21 ~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHR 55 (719)
.....+|-+||... --....-|-.||.+|--|..
T Consensus 8 ~~~~~~Cp~Cg~~~-iv~d~~~Ge~vC~~CG~Vl~ 41 (310)
T PRK00423 8 EEEKLVCPECGSDK-LIYDYERGEIVCADCGLVIE 41 (310)
T ss_pred cccCCcCcCCCCCC-eeEECCCCeEeecccCCccc
Confidence 34457899999732 22345779999999998653
No 40
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=24.48 E-value=49 Score=27.55 Aligned_cols=30 Identities=23% Similarity=0.541 Sum_probs=24.0
Q ss_pred CCcccCCCCCCCCeeEccceeEEeccccc-ccc
Q 045661 24 NRRCINCNCLGPQYVCTTFLTFVCTNCSG-VHR 55 (719)
Q Consensus 24 NK~CADCGA~~PqWASvNfGVFVCi~CSG-IHR 55 (719)
-+.|..||..... ..+-.+|.|..|-- .||
T Consensus 28 Sq~C~~CG~~~~~--~~~~r~~~C~~Cg~~~~r 58 (69)
T PF07282_consen 28 SQTCPRCGHRNKK--RRSGRVFTCPNCGFEMDR 58 (69)
T ss_pred ccCccCccccccc--ccccceEEcCCCCCEECc
Confidence 4889999987776 67788999999965 344
No 41
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=22.74 E-value=43 Score=25.81 Aligned_cols=30 Identities=20% Similarity=0.375 Sum_probs=15.8
Q ss_pred CcccCCCCCCCCeeE---ccceeEEecccccccc
Q 045661 25 RRCINCNCLGPQYVC---TTFLTFVCTNCSGVHR 55 (719)
Q Consensus 25 K~CADCGA~~PqWAS---vNfGVFVCi~CSGIHR 55 (719)
|.|-.||.+- .+.. =+.-=++|..|..||-
T Consensus 1 kfC~~CG~~l-~~~ip~gd~r~R~vC~~Cg~IhY 33 (34)
T PF14803_consen 1 KFCPQCGGPL-ERRIPEGDDRERLVCPACGFIHY 33 (34)
T ss_dssp -B-TTT--B--EEE--TT-SS-EEEETTTTEEE-
T ss_pred CccccccChh-hhhcCCCCCccceECCCCCCEEe
Confidence 5789999762 2222 2455679999999984
No 42
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=22.02 E-value=91 Score=29.02 Aligned_cols=32 Identities=13% Similarity=0.257 Sum_probs=24.6
Q ss_pred CCCCcccCCCCCCCCeeEccceeEEecccccccc
Q 045661 22 PENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHR 55 (719)
Q Consensus 22 PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHR 55 (719)
..-..|-.|+.+ .---+..||+.|..|-..--
T Consensus 33 ~~~~~Cp~C~~~--~VkR~a~GIW~C~kCg~~fA 64 (89)
T COG1997 33 RAKHVCPFCGRT--TVKRIATGIWKCRKCGAKFA 64 (89)
T ss_pred hcCCcCCCCCCc--ceeeeccCeEEcCCCCCeec
Confidence 345789999988 44457899999999976543
No 43
>TIGR02890 spore_yteA sporulation protein, yteA family. Members of this predicted regulatory protein are found only in endospore-forming members of the Firmicutes group of bacteria, and in nearly every such species; Clostridium perfringens seems to be an exception. The member from Bacillus subtilis, the model system for the study of the sporulation program, has been designated both yteA and yzwB. Some (but not all) members of this family show a strong sequence match to PFAM family pfam01258 the C4-type zinc finger protein, DksA/TraR family, but only one of the four key Cys residues is conserved. All members of this protein family share an additional C-terminal domain. The function of proteins in this family is unknown. YteA was detected in mature spores of Bacillus subtilis by Kuwana, et al., and appears to be expressed under control of sigma-K.
Probab=21.94 E-value=34 Score=34.08 Aligned_cols=32 Identities=13% Similarity=0.228 Sum_probs=20.2
Q ss_pred CCCCcccCCCCCC--CCeeEccceeEEeccccccc
Q 045661 22 PENRRCINCNCLG--PQYVCTTFLTFVCTNCSGVH 54 (719)
Q Consensus 22 PgNK~CADCGA~~--PqWASvNfGVFVCi~CSGIH 54 (719)
..=-.|.+||.+= -++--+. ++-.|+.|...+
T Consensus 84 G~YG~Ce~CGe~I~~~RL~a~P-~a~~Ci~Cq~~~ 117 (159)
T TIGR02890 84 GTYGICEVCGKPIPYERLEAIP-TATTCVECQNRK 117 (159)
T ss_pred CCCCeecccCCcccHHHHhhCC-CcchhHHHHHHh
Confidence 3446899999741 2222222 456899998865
No 44
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=21.92 E-value=52 Score=30.77 Aligned_cols=43 Identities=26% Similarity=0.417 Sum_probs=28.8
Q ss_pred cCCCCCcccCCCCCCCCeeEccceeEEecccccccccC--C--ceeeeccc
Q 045661 20 KLPENRRCINCNCLGPQYVCTTFLTFVCTNCSGVHREF--T--HRVKSISM 66 (719)
Q Consensus 20 k~PgNK~CADCGA~~PqWASvNfGVFVCi~CSGIHRsL--G--HRVKSITL 66 (719)
..|..-+|-+||.. ..+....|.|-.|-+....+ | -+|++|.+
T Consensus 66 ~vp~~~~C~~Cg~~----~~~~~~~~~CP~Cgs~~~~i~~G~El~i~~iEv 112 (113)
T PRK12380 66 YKPAQAWCWDCSQV----VEIHQHDAQCPHCHGERLRVDTGDSLIVKSIEV 112 (113)
T ss_pred eeCcEEEcccCCCE----EecCCcCccCcCCCCCCcEEccCCeEEEEEEEE
Confidence 35777899999942 22223455699999865555 4 38888765
No 45
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=21.76 E-value=1.3e+02 Score=23.80 Aligned_cols=42 Identities=14% Similarity=0.228 Sum_probs=28.1
Q ss_pred hHHHHHHHHHHhcCCCCCcccCCCCCCCCeeEccceeEEecccc
Q 045661 8 DERIEGIIRGLLKLPENRRCINCNCLGPQYVCTTFLTFVCTNCS 51 (719)
Q Consensus 8 dernekiLr~Llk~PgNK~CADCGA~~PqWASvNfGVFVCi~CS 51 (719)
++.-.++|..+.=..| -+|--||....-++. +.+.|-|-.|.
T Consensus 3 e~~c~~~l~~~RW~~g-~~CP~Cg~~~~~~~~-~~~~~~C~~C~ 44 (46)
T PF12760_consen 3 EEACREYLEEIRWPDG-FVCPHCGSTKHYRLK-TRGRYRCKACR 44 (46)
T ss_pred HHHHHHHHHHhcCCCC-CCCCCCCCeeeEEeC-CCCeEECCCCC
Confidence 3445566666554444 779999998544443 36999999885
No 46
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=20.23 E-value=64 Score=31.10 Aligned_cols=25 Identities=16% Similarity=0.404 Sum_probs=17.5
Q ss_pred eeEEecccccccccC--Cc--eeeecccC
Q 045661 43 LTFVCTNCSGVHREF--TH--RVKSISMA 67 (719)
Q Consensus 43 GVFVCi~CSGIHRsL--GH--RVKSITLD 67 (719)
..+.|-.|-+.+-.+ |. +|++|.++
T Consensus 106 ~~~~CP~Cgs~~~~i~~G~el~i~~ie~e 134 (135)
T PRK03824 106 AFLKCPKCGSRDFEIVKGRGVYIEEIKIE 134 (135)
T ss_pred cCcCCcCCCCCCcEEecCceEEEEEEEEe
Confidence 446799998865443 43 88888765
No 47
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=20.08 E-value=39 Score=32.12 Aligned_cols=48 Identities=21% Similarity=0.412 Sum_probs=30.5
Q ss_pred cCCCCCcccCCCCCC-CCeeEccce--eEEecccccccccC--C--ceeeecccCC
Q 045661 20 KLPENRRCINCNCLG-PQYVCTTFL--TFVCTNCSGVHREF--T--HRVKSISMAK 68 (719)
Q Consensus 20 k~PgNK~CADCGA~~-PqWASvNfG--VFVCi~CSGIHRsL--G--HRVKSITLDt 68 (719)
..|.--+| +||... ..+..+..- .+.|-.|-+.+-.+ | -+|++|.+++
T Consensus 66 ~vp~~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~~G~El~i~~Ieve~ 120 (124)
T PRK00762 66 MIPVEIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRAHILGGRECNVKNIKIEK 120 (124)
T ss_pred ecCeeEEe-eCcCcccccccchhccccCCcCcCCCCCCCEEecCCeEEEEEEEEec
Confidence 45777899 999642 222222111 36799999776555 4 3899998763
Done!