Query 026516
Match_columns 237
No_of_seqs 25 out of 27
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 09:02:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026516.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026516hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF15384 DUF4610: Domain of un 97.1 0.0076 1.6E-07 53.6 10.9 110 26-146 13-127 (197)
2 PF06632 XRCC4: DNA double-str 95.0 0.53 1.1E-05 44.6 12.5 138 26-170 16-166 (342)
3 cd07694 Ig2_CD4 Second immunog 69.2 3.9 8.5E-05 32.4 2.3 44 13-61 31-75 (88)
4 KOG4552 Vitamin-D-receptor int 60.3 8.7 0.00019 35.7 3.0 56 144-200 57-126 (272)
5 PF05013 FGase: N-formylglutam 59.4 13 0.00028 32.1 3.8 84 39-126 130-218 (222)
6 cd07766 DHQ_Fe-ADH Dehydroquin 53.5 12 0.00025 33.6 2.7 28 104-131 92-120 (332)
7 KOG2430 Glycosyl hydrolase, fa 51.4 11 0.00023 37.6 2.2 77 35-128 222-300 (587)
8 PF14088 DUF4268: Domain of un 50.4 1.1E+02 0.0024 24.5 7.6 72 74-155 7-82 (140)
9 PF14147 Spore_YhaL: Sporulati 48.9 77 0.0017 23.3 5.8 41 134-174 8-52 (52)
10 PF02362 B3: B3 DNA binding do 46.6 8.6 0.00019 28.2 0.6 47 39-90 33-79 (100)
11 PF11740 KfrA_N: Plasmid repli 44.3 1.4E+02 0.0031 22.8 8.7 28 61-89 22-49 (120)
12 PF02731 SKIP_SNW: SKIP/SNW do 43.2 71 0.0015 27.9 5.7 37 111-150 77-122 (158)
13 KOG3919 Kinesin-associated fas 39.3 20 0.00043 35.0 2.0 35 57-91 40-78 (374)
14 smart00327 VWA von Willebrand 38.1 41 0.0009 25.6 3.3 45 37-83 105-156 (177)
15 cd00198 vWFA Von Willebrand fa 36.3 53 0.0012 23.9 3.5 49 34-83 98-153 (161)
16 PF02318 FYVE_2: FYVE-type zin 32.1 1.4E+02 0.003 23.7 5.5 36 145-180 14-49 (118)
17 cd06843 PLPDE_III_PvsE_like Ty 28.7 1.1E+02 0.0024 28.0 5.0 55 59-113 192-271 (377)
18 COG0219 CspR Predicted rRNA me 28.5 2.1E+02 0.0045 25.1 6.2 73 70-149 60-149 (155)
19 PF07889 DUF1664: Protein of u 27.3 1.3E+02 0.0028 25.2 4.7 53 125-180 35-90 (126)
20 cd00953 KDG_aldolase KDG (2-ke 24.6 2.3E+02 0.0049 25.4 6.1 94 54-168 135-235 (279)
21 PF12209 SAC3: Leucine permeas 24.4 73 0.0016 24.5 2.5 18 133-150 37-54 (79)
22 PF09314 DUF1972: Domain of un 24.1 3.2E+02 0.0069 23.9 6.7 67 72-147 17-84 (185)
23 smart00243 GAS2 Growth-Arrest- 23.7 46 0.001 25.9 1.3 16 67-82 49-64 (73)
24 cd08171 GlyDH-like2 Glycerol d 23.5 47 0.001 30.5 1.6 26 104-130 92-117 (345)
25 PF02187 GAS2: Growth-Arrest-S 23.1 24 0.00052 27.3 -0.3 18 66-83 48-65 (73)
26 cd08180 PDD 1,3-propanediol de 22.4 81 0.0018 28.7 2.8 19 113-131 107-125 (332)
27 KOG1369 Hexokinase [Carbohydra 22.4 43 0.00093 33.6 1.2 51 65-115 413-472 (474)
28 PF06670 Etmic-2: Microneme pr 22.3 95 0.0021 29.8 3.3 110 22-132 201-326 (379)
29 PRK03868 glucose-6-phosphate i 22.0 92 0.002 30.2 3.3 27 68-94 64-92 (410)
30 PF09260 DUF1966: Domain of un 21.7 66 0.0014 25.1 1.8 27 104-130 63-89 (91)
31 KOG0945 Alpha-aminoadipic semi 21.3 90 0.002 29.8 3.0 76 9-97 89-164 (289)
32 PF13580 SIS_2: SIS domain; PD 21.2 50 0.0011 26.4 1.1 48 74-122 88-137 (138)
33 PRK10722 hypothetical protein; 20.5 1.6E+02 0.0035 27.5 4.4 81 141-222 145-232 (247)
34 cd01464 vWA_subfamily VWA subf 20.4 97 0.0021 25.0 2.7 42 38-81 108-157 (176)
35 PRK02289 4-oxalocrotonate taut 20.2 2E+02 0.0043 20.0 3.9 30 116-148 1-30 (60)
36 PRK02220 4-oxalocrotonate taut 20.1 2.1E+02 0.0045 19.4 3.9 30 116-148 1-30 (61)
37 PRK00745 4-oxalocrotonate taut 20.0 2.1E+02 0.0045 19.5 3.9 30 116-148 1-30 (62)
No 1
>PF15384 DUF4610: Domain of unknown function (DUF4610)
Probab=97.06 E-value=0.0076 Score=53.62 Aligned_cols=110 Identities=17% Similarity=0.281 Sum_probs=94.6
Q ss_pred cceEEEEeCC-----CCCCeEEEEecccccchhhccccchhhhhHhhhcCCCChHHHHHHHHHhcccccceEeecCCCCC
Q 026516 26 GRFLFHVSAP-----DSSHLLIQVTDFRSNTWEAKRSVLQLDDMRDEIGIGGSWSEFIDYVVASIKSEDVKLILEGHSNA 100 (237)
Q Consensus 26 ~pfLFh~~a~-----ds~hL~v~vTDfHSntW~~slSv~~LeDlRD~VGIGGSwsdF~dYl~aslsS~~VkL~L~~~s~s 100 (237)
-+|+++-+-. +.+...|+|||--. -|...|+-++|+.+|+-.|.- +..||..-|.+.+..+.|.|-|-.+
T Consensus 13 ~ryvCyce~~~~~~~~~g~~~i~vTDg~d-vW~t~~t~dsL~~~k~~~~L~-~~Edy~~rfR~Ac~~~~vtvtlqed--- 87 (197)
T PF15384_consen 13 PRYVCYCEGEGSGDGDAGVWNIYVTDGAD-VWSTCFTPDSLAALKARFGLS-SAEDYFSRFRAACEQQAVTVTLQED--- 87 (197)
T ss_pred CcEEEEEeCCCCCCCCCCeeEEEecccHH-hhhhccCHHHHHHHHhhcccc-hHHHHHHHHHHHhhcCeeEEEEecC---
Confidence 3588888877 78889999999874 499999999999999999984 6889999999999999999999863
Q ss_pred CCcccceeeeeccCCCceeEEecccccchhHHHHHHHhhHHHHHHH
Q 026516 101 DGAAYAKIVAQKSKGMPRISISLTRLTGSAATEAMAKLSLELFTAF 146 (237)
Q Consensus 101 ~G~~~akLVAqKaKGmP~ItI~L~kl~~saa~D~manlsl~Lf~af 146 (237)
+++-+-++|-.-|++.|.++.+..+...+-.|-+.|.+..
T Consensus 88 ------~a~Ltls~g~s~L~~dL~k~p~~Ea~~~Lq~L~f~lAe~v 127 (197)
T PF15384_consen 88 ------RASLTLSGGPSALTFDLSKVPAPEAAPRLQALTFRLAERV 127 (197)
T ss_pred ------eEEEEecCCCccceEEhhhCCCchhhHHHHHHHHHHHHHH
Confidence 4445568999999999999999999888888877776555
No 2
>PF06632 XRCC4: DNA double-strand break repair and V(D)J recombination protein XRCC4; InterPro: IPR010585 This entry represents the DNA double-strand break repair and V(D)J recombination protein XRCC4, which is found in certain Metazoans, fungi and plants. XRCC4 binds to DNA, and to DNA ligase IV (LIG4) to form the LIG4-XRCC4 complex []. The LIG4-XRCC4 complex is responsible for the ligation step in the non-homologous end joining (NHEJ) pathway of DNA double-strand break repair. XRCC4 enhances the joining activity of LIG4. It is thought that XRCC4 and LIG4 are essential for alignment-based gap filling, as well as for final ligation of the breaks []. Binding of the LIG4-XRCC4 complex to DNA ends is dependent on the assembly of the DNA-dependent protein kinase complex DNA-PK to these DNA ends. ; GO: 0003677 DNA binding, 0006302 double-strand break repair, 0006310 DNA recombination, 0005634 nucleus; PDB: 3RWR_R 1IK9_B 3SR2_E 3Q4F_H 3II6_B 1FU1_A 3MUD_B.
Probab=94.96 E-value=0.53 Score=44.62 Aligned_cols=138 Identities=14% Similarity=0.209 Sum_probs=82.8
Q ss_pred cceEEEEeCCCC--CCeEEEEecccccchhhccccchhhhhHhhhcCCCChHHHHHHHHHhccccc-----ceEeecCCC
Q 026516 26 GRFLFHVSAPDS--SHLLIQVTDFRSNTWEAKRSVLQLDDMRDEIGIGGSWSEFIDYVVASIKSED-----VKLILEGHS 98 (237)
Q Consensus 26 ~pfLFh~~a~ds--~hL~v~vTDfHSntW~~slSv~~LeDlRD~VGIGGSwsdF~dYl~aslsS~~-----VkL~L~~~s 98 (237)
..++.++.-... +|+.|.+||-|+ +|.+..|-.++....++. ++++.+|++-+.-.|-.++ -.+.+-.
T Consensus 16 ~~yfL~~~W~~~~~~~F~i~lTDG~s-aW~g~vs~~ei~~~A~~~--~~~~~eYv~~l~kaL~~~~~~~~~y~f~~~~-- 90 (342)
T PF06632_consen 16 SIYFLQVSWEKDLGSGFDITLTDGQS-AWSGTVSEEEIRQRAKDW--DMEVEEYVQELKKALTGQQQPSSEYSFDLTE-- 90 (342)
T ss_dssp SEEEEEEEESSSGGGEEEEEEESSSS-EEEEEEEHHHHHHHHHHT--TS-HHHHHHHHHHHHTSSSSSSSEEEEEE----
T ss_pred ceEEEEEEeccCCCCceEEEEecCCC-ceeeecCHHHHHHHHHHh--cCCHHHHHHHHHHHHhcCCCCCCcceEEEee--
Confidence 445666655432 589999999995 899999999999988875 6889999999999996542 3444421
Q ss_pred CCCCcccceeeeeccCCCceeEEec-----ccccchhH-HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026516 99 NADGAAYAKIVAQKSKGMPRISISL-----TRLTGSAA-TEAMAKLSLELFTAFRSMQTLIVQEQERCLQLEKEAAAE 170 (237)
Q Consensus 99 ~s~G~~~akLVAqKaKGmP~ItI~L-----~kl~~saa-~D~manlsl~Lf~afrs~q~~~~~eqe~~s~L~~~L~sE 170 (237)
...|.....+-=. |-+.-|++-| ..+..-+. -.-|-++++.....+...-.++.+|-++..+-.+.+.++
T Consensus 91 ~~~~~~~l~~t~~--K~~~~it~rLGsv~L~~~~~p~e~i~el~d~~l~~~~~l~~~~~~L~~enerL~~e~~~~~~q 166 (342)
T PF06632_consen 91 DRESNKSLSFTIE--KRLKDITFRLGSVKLKQVDNPAEVIRELFDWCLDANSRLQAENEHLQKENERLESEANKLLKQ 166 (342)
T ss_dssp ---ETTTTEEEEE--EEESSEEEEEEEEE-EE-S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccCCCceEEEEEE--EecCCceEEEeeEECCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1223333333333 3355666654 33333221 112445667777777666666666665554433333333
No 3
>cd07694 Ig2_CD4 Second immunoglobulin (Ig) domain of CD4. Ig2_CD4; second immunoglobulin (Ig) domain of CD4. CD4 and CD8 are the two primary co-receptor proteins found on the surface of T cells, and the presence of either CD4 or CD8 determines the function of the T cell. CD4 is found on helper T cells, where it is required for the binding of MHC (major histocompatibility complex) class II molecules, while CD8 is found on cytotoxic T cells, where it is required for the binding of MHC class I molecules. CD4 contains four immunoglobulin domains, with the first three included in this hierarchy. The fourth domain has a general Ig architecture, but has slight topological changes in the arrangement of beta strands relative to the other structures in this family and is not specifically included in the hierarchy.
Probab=69.23 E-value=3.9 Score=32.36 Aligned_cols=44 Identities=27% Similarity=0.351 Sum_probs=33.0
Q ss_pred CcccccCCCCCCccceEEEEeCCCCCCeEE-EEecccccchhhccccchh
Q 026516 13 PKAEWADSRSDSLGRFLFHVSAPDSSHLLI-QVTDFRSNTWEAKRSVLQL 61 (237)
Q Consensus 13 ak~e~~~~~s~~~~pfLFh~~a~ds~hL~v-~vTDfHSntW~~slSv~~L 61 (237)
++.+|-+|.+-.- +...++...|.+ .++..||++|.+..++++-
T Consensus 31 ~~i~w~~P~n~~~-----~~~~~~~ktL~~~qv~~qdSG~WtC~V~~~~k 75 (88)
T cd07694 31 FKVEWRGPGNKSK-----QILNQDKKTLNLVQLGPNDSGTWDCIVSVNSS 75 (88)
T ss_pred ccEEEeCCCCccc-----eeccCCccEEEeceeCcccCCEEEEEEEECce
Confidence 3678888775532 556677677654 6999999999999998754
No 4
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=60.26 E-value=8.7 Score=35.66 Aligned_cols=56 Identities=27% Similarity=0.359 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hcccC-C--cch----------hHHHHhhhcCCCCCccc
Q 026516 144 TAFRSMQTLIVQEQERCLQLEKEAAAEKERN-ENIQN-Q--PLY----------SKRQKLQKMNFSDKTDI 200 (237)
Q Consensus 144 ~afrs~q~~~~~eqe~~s~L~~~L~sEKekn-e~iQ~-q--~~s----------s~~qKlqk~n~s~k~~~ 200 (237)
+.|+++.+ ++-||+...|+|..|.++-||. ++||. | .-+ --+|||.-|+.-+|--|
T Consensus 57 ~ef~~llk-la~eq~k~e~~m~~Lea~VEkrD~~IQqLqk~LK~aE~iLtta~fqA~qKLksi~~A~krpv 126 (272)
T KOG4552|consen 57 DEFKTLLK-LAPEQQKREQLMRTLEAHVEKRDEVIQQLQKNLKSAEVILTTACFQANQKLKSIKEAEKRPV 126 (272)
T ss_pred HHHHHHHH-HhHhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 45777664 5678999999999999998887 55542 2 111 45699999998888643
No 5
>PF05013 FGase: N-formylglutamate amidohydrolase; InterPro: IPR007709 Formylglutamate amidohydrolase (FGase) catalyzes the terminal reaction in the five-step pathway for histidine utilization in Pseudomonas putida. By this action, N-formyl-L-glutamate (FG) is hydrolyzed to produce L-glutamate plus formate [].; PDB: 2ODF_G 2Q7S_A.
Probab=59.36 E-value=13 Score=32.09 Aligned_cols=84 Identities=14% Similarity=0.143 Sum_probs=51.1
Q ss_pred CeEEEEecccccchhhccccchhhhhHh-hhcCCCC---hHHHHHHHHHhcc-cccceEeecCCCCCCCcccceeeeecc
Q 026516 39 HLLIQVTDFRSNTWEAKRSVLQLDDMRD-EIGIGGS---WSEFIDYVVASIK-SEDVKLILEGHSNADGAAYAKIVAQKS 113 (237)
Q Consensus 39 hL~v~vTDfHSntW~~slSv~~LeDlRD-~VGIGGS---wsdF~dYl~asls-S~~VkL~L~~~s~s~G~~~akLVAqKa 113 (237)
|-.+++-|+||-++...-.-.. ..+| +||+... +.++++.+.+.|. +.-.++....+=. |....+=..+.+
T Consensus 130 ~g~~illd~HS~~~~~~~~~~~--~~~~~~lG~~~~~s~~~~l~~~~~~~l~~~~g~~v~~N~Py~--Gg~~~~~~~~~~ 205 (222)
T PF05013_consen 130 FGKVILLDCHSMPPVPPGREDD--PRPDIVLGTLHGPSCDPELVDALAEALEASDGYSVRVNEPYS--GGYITRYYGRPA 205 (222)
T ss_dssp CS-EEEEEEEEE-TCCCCCCT------SECEECCTTTSS-HHHHHHHHHHCC-CTTS-EEETSS----GGHCCCHHHCCC
T ss_pred cCceEEEEeccCCCcccccccC--CCCCeEEEcCCCCCCCHHHHHHHHHHhhcccCcEEeeCCCCC--CcchhcEEecCC
Confidence 5678889999998875433322 3333 4676544 8899999999999 5555666655422 222222266667
Q ss_pred CCCceeEEecccc
Q 026516 114 KGMPRISISLTRL 126 (237)
Q Consensus 114 KGmP~ItI~L~kl 126 (237)
+|.|-|.|++.+-
T Consensus 206 ~~v~~iqiEi~~~ 218 (222)
T PF05013_consen 206 RGVHAIQIEINRD 218 (222)
T ss_dssp CTEEEEEEEEEGG
T ss_pred CCceEEEEEEEHh
Confidence 9999999988763
No 6
>cd07766 DHQ_Fe-ADH Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH). Dehydroquinate synthase-like. This superfamily divides into two subgroups: the dehydroquinate synthase-like, and a large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. Dehydroquinate synthase-like group includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. The alcohol dehydrogenases in this superfamily contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alc
Probab=53.48 E-value=12 Score=33.60 Aligned_cols=28 Identities=39% Similarity=0.451 Sum_probs=19.5
Q ss_pred ccceeeeecc-CCCceeEEecccccchhH
Q 026516 104 AYAKIVAQKS-KGMPRISISLTRLTGSAA 131 (237)
Q Consensus 104 ~~akLVAqKa-KGmP~ItI~L~kl~~saa 131 (237)
|.||.+|-.. +|+|.|.||-|-.+|++.
T Consensus 92 D~aK~ia~~~~~~~p~i~iPTt~~tgse~ 120 (332)
T cd07766 92 DTAKAVAALLNRGLPIIIVPTTAATGSEV 120 (332)
T ss_pred HHHHHHHHHhcCCCCEEEEeCCCchhhcc
Confidence 6677766554 478888888877777544
No 7
>KOG2430 consensus Glycosyl hydrolase, family 47 [Carbohydrate transport and metabolism]
Probab=51.39 E-value=11 Score=37.62 Aligned_cols=77 Identities=22% Similarity=0.390 Sum_probs=51.8
Q ss_pred CCCCCeEEEEecccccchhhccccchhhhhHhhhcCCCChHHHHHHHHHhcccccceEeecCCCCCC--Ccccceeeeec
Q 026516 35 PDSSHLLIQVTDFRSNTWEAKRSVLQLDDMRDEIGIGGSWSEFIDYVVASIKSEDVKLILEGHSNAD--GAAYAKIVAQK 112 (237)
Q Consensus 35 ~ds~hL~v~vTDfHSntW~~slSv~~LeDlRD~VGIGGSwsdF~dYl~aslsS~~VkL~L~~~s~s~--G~~~akLVAqK 112 (237)
+.++.|.=++-+.||+.|. |.+-|||.+...|.+|+.... ++|+.+|--+ ..-+--+.--+
T Consensus 222 ~rss~l~g~~inihsgdw~-----------rkdsgigagidsyyey~lkay------illgddsfldrfn~hydai~ryi 284 (587)
T KOG2430|consen 222 HRSSDLMGTTINIHSGDWT-----------RKDSGIGAGIDSYYEYLLKAY------ILLGDDSFLDRFNKHYDAIKRYI 284 (587)
T ss_pred cccccccceeEEeccCcce-----------ecccCcCcchHHHHHHHHHHh------heeccHHHHHHHHHHHHHHHHHh
Confidence 4567799999999999997 678899999999999987553 3444332100 01122345556
Q ss_pred cCCCceeEEecccccc
Q 026516 113 SKGMPRISISLTRLTG 128 (237)
Q Consensus 113 aKGmP~ItI~L~kl~~ 128 (237)
+||--.+.+-.+|-+-
T Consensus 285 ~k~pi~ldvhihkp~l 300 (587)
T KOG2430|consen 285 NKGPIFLDVHIHKPML 300 (587)
T ss_pred cCCCeEEEEecccchh
Confidence 7887667777766543
No 8
>PF14088 DUF4268: Domain of unknown function (DUF4268)
Probab=50.38 E-value=1.1e+02 Score=24.55 Aligned_cols=72 Identities=17% Similarity=0.221 Sum_probs=43.1
Q ss_pred hHHHHHHHHHhcccccceEeecCCCC----CCCcccceeeeeccCCCceeEEecccccchhHHHHHHHhhHHHHHHHHHH
Q 026516 74 WSEFIDYVVASIKSEDVKLILEGHSN----ADGAAYAKIVAQKSKGMPRISISLTRLTGSAATEAMAKLSLELFTAFRSM 149 (237)
Q Consensus 74 wsdF~dYl~aslsS~~VkL~L~~~s~----s~G~~~akLVAqKaKGmP~ItI~L~kl~~saa~D~manlsl~Lf~afrs~ 149 (237)
|+.|++|+...- ..++-.=+.+.+ +.|.+...|...-.+. .+.|.|.--.+. ....-.+|+.|...
T Consensus 7 Wt~f~~~~~~~~--~~~~~~~p~~~~W~~~~~G~sg~~~~~~~~~~--~~~V~l~I~~~d------~~~n~~~fe~L~~~ 76 (140)
T PF14088_consen 7 WTEFLEYLKEKP--PLFSNRKPSPDHWINYSTGISGVSLSFVFNKK--RARVELYIDRPD------KEENKEIFEQLKSQ 76 (140)
T ss_pred HHHHHHHHHhcc--cccccCCCCCCcceEecCCCCCEEEEEEEeCC--EEEEEEEEcCCC------HHHHHHHHHHHHHH
Confidence 888999987654 222222222222 6678888887777766 666666654443 34456678888776
Q ss_pred HHHHHH
Q 026516 150 QTLIVQ 155 (237)
Q Consensus 150 q~~~~~ 155 (237)
++.+..
T Consensus 77 k~~IE~ 82 (140)
T PF14088_consen 77 KEEIEE 82 (140)
T ss_pred HHHHHH
Confidence 644443
No 9
>PF14147 Spore_YhaL: Sporulation protein YhaL
Probab=48.88 E-value=77 Score=23.34 Aligned_cols=41 Identities=17% Similarity=0.187 Sum_probs=31.3
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHhhh
Q 026516 134 AMAKLSLELFTAFRSMQTLIVQEQERCLQ----LEKEAAAEKERN 174 (237)
Q Consensus 134 ~manlsl~Lf~afrs~q~~~~~eqe~~s~----L~~~L~sEKekn 174 (237)
+++-+-++-|-+.+++++--..||+.+.+ -|+.+..||||+
T Consensus 8 vi~gI~~S~ym~v~t~~eE~~~dq~~IEkEGevymeR~e~ererR 52 (52)
T PF14147_consen 8 VIAGIIFSGYMAVKTAKEEREIDQEFIEKEGEVYMERMEEERERR 52 (52)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHhHHHHHHHHHHHhccC
Confidence 45667788888899999888888888765 466777777763
No 10
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.
Probab=46.60 E-value=8.6 Score=28.16 Aligned_cols=47 Identities=19% Similarity=0.389 Sum_probs=33.2
Q ss_pred CeEEEEecccccchhhccccchhhhhHhhhcCCCChHHHHHHHHHhcccccc
Q 026516 39 HLLIQVTDFRSNTWEAKRSVLQLDDMRDEIGIGGSWSEFIDYVVASIKSEDV 90 (237)
Q Consensus 39 hL~v~vTDfHSntW~~slSv~~LeDlRD~VGIGGSwsdF~dYl~aslsS~~V 90 (237)
...|.+.|-....|...+++ ..=.....|+++|.+|+. ...|+-||+
T Consensus 33 ~~~v~l~~~~g~~W~v~~~~---~~~~~~~~l~~GW~~Fv~--~n~L~~GD~ 79 (100)
T PF02362_consen 33 SREVTLKDPDGRSWPVKLKY---RKNSGRYYLTGGWKKFVR--DNGLKEGDV 79 (100)
T ss_dssp -CEEEEEETTTEEEEEEEEE---ECCTTEEEEETTHHHHHH--HCT--TT-E
T ss_pred CeEEEEEeCCCCEEEEEEEE---EccCCeEEECCCHHHHHH--HcCCCCCCE
Confidence 45788899889999999866 222344889999999986 467777775
No 11
>PF11740 KfrA_N: Plasmid replication region DNA-binding N-term; InterPro: IPR021104 The KfrA family of protiens are encoded on plasmids, generally in or near gene clusters invloved in stable inheritance functions. These proteins are thought to form an all-helical structure, consisting of an N-terminal helix-turn-helix DNA binding domain and an extended coiled-coil tail. The best-characterised KfrA protein, encoded on the broad host-range Plasmid RK2, is a site-specific DNA-binding protein whose operator overlaps its own promoter. The DNA-binding domain is essential for function, while the coiled-coil domain is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning []. This entry represents the N-terminal DNA-binding domain.
Probab=44.25 E-value=1.4e+02 Score=22.81 Aligned_cols=28 Identities=21% Similarity=0.393 Sum_probs=22.2
Q ss_pred hhhhHhhhcCCCChHHHHHHHHHhccccc
Q 026516 61 LDDMRDEIGIGGSWSEFIDYVVASIKSED 89 (237)
Q Consensus 61 LeDlRD~VGIGGSwsdF~dYl~aslsS~~ 89 (237)
...+|..+| |||.++-..||..--....
T Consensus 22 ~~~Vr~~lG-~GS~~ti~~~l~~w~~~~~ 49 (120)
T PF11740_consen 22 VRAVRERLG-GGSMSTISKHLKEWREERE 49 (120)
T ss_pred HHHHHHHHC-CCCHHHHHHHHHHHHHhhh
Confidence 467899999 9999999888887655433
No 12
>PF02731 SKIP_SNW: SKIP/SNW domain; InterPro: IPR004015 SKIP (SKI-interacting protein) is an essential spliceosomal component and transcriptional coregulator, which may provide regulatory coupling of transcription initiation and splicing []. SKIP was identified in a yeast 2-hybrid screen, where it was shown to interact with both the cellular and viral forms of SKI through the highly conserved region on SKIP known as the SNW domain []. SKIP is now known to interact with a number of other proteins as well. SKIP potentiates the activity of important transcription factors, such as vitamin D receptor, CBF1 (RBP-Jkappa), Smad2/3, and MyoD. It works with Ski in overcoming pRb-mediated cell cycle arrest, and it is targeted by the viral transactivators EBNA2 and E7 []. This entry represents the SNW domain.; GO: 0000398 nuclear mRNA splicing, via spliceosome, 0005681 spliceosomal complex
Probab=43.16 E-value=71 Score=27.91 Aligned_cols=37 Identities=35% Similarity=0.459 Sum_probs=27.8
Q ss_pred ecc-CCCceeEEeccc--------ccchhHHHHHHHhhHHHHHHHHHHH
Q 026516 111 QKS-KGMPRISISLTR--------LTGSAATEAMAKLSLELFTAFRSMQ 150 (237)
Q Consensus 111 qKa-KGmP~ItI~L~k--------l~~saa~D~manlsl~Lf~afrs~q 150 (237)
||+ || .||+|++ +.+.-.||..+.||-+||.|=+..-
T Consensus 77 WKN~kG---ytIpLDKRlaadgr~l~~~~INd~Fa~LseAL~~Ad~~aR 122 (158)
T PF02731_consen 77 WKNPKG---YTIPLDKRLAADGRGLQDVEINDKFAKLSEALYIADRKAR 122 (158)
T ss_pred ccCCCC---CccCHHHHHhhcccccCCccccHHHHHHHHHHHHHHHHHH
Confidence 555 55 5788875 3445578999999999999987665
No 13
>KOG3919 consensus Kinesin-associated fasciculation and elongation protein involved in axonal transport [Intracellular trafficking, secretion, and vesicular transport]
Probab=39.31 E-value=20 Score=35.04 Aligned_cols=35 Identities=17% Similarity=0.284 Sum_probs=29.0
Q ss_pred ccchhhhhHhhhcCCCChHHHHHHH----HHhcccccce
Q 026516 57 SVLQLDDMRDEIGIGGSWSEFIDYV----VASIKSEDVK 91 (237)
Q Consensus 57 Sv~~LeDlRD~VGIGGSwsdF~dYl----~aslsS~~Vk 91 (237)
|++.||..+|+||-+||..|.|+-| -.||.-.++|
T Consensus 40 sls~lE~~s~ei~~~~SmEDLVn~FDEKi~vCf~ny~~~ 78 (374)
T KOG3919|consen 40 SLSGEERGSDELGAPGSLEDLVNLFDEKIPVCFPNYEGR 78 (374)
T ss_pred ccchhhhccchhcCCccHHHHHHhhhhhhhhcccccccc
Confidence 9999999999999999999998875 4566655544
No 14
>smart00327 VWA von Willebrand factor (vWF) type A domain. VWA domains in extracellular eukaryotic proteins mediate adhesion via metal ion-dependent adhesion sites (MIDAS). Intracellular VWA domains and homologues in prokaryotes have recently been identified. The proposed VWA domains in integrin beta subunits have recently been substantiated using sequence-based methods.
Probab=38.08 E-value=41 Score=25.60 Aligned_cols=45 Identities=20% Similarity=0.301 Sum_probs=28.8
Q ss_pred CCCeEEEEecccccchhhccccchhhhhHhh------hcCCCC-hHHHHHHHHH
Q 026516 37 SSHLLIQVTDFRSNTWEAKRSVLQLDDMRDE------IGIGGS-WSEFIDYVVA 83 (237)
Q Consensus 37 s~hL~v~vTDfHSntW~~slSv~~LeDlRD~------VGIGGS-wsdF~dYl~a 83 (237)
..++.|++||...+.+ ....+-++.++.. ||+|.. +.+++..+-.
T Consensus 105 ~~~~iviitDg~~~~~--~~~~~~~~~~~~~~i~i~~i~~~~~~~~~~l~~~~~ 156 (177)
T smart00327 105 APKVLILITDGESNDG--GDLLKAAKELKRSGVKVFVVGVGNDVDEEELKKLAS 156 (177)
T ss_pred CCeEEEEEcCCCCCCC--ccHHHHHHHHHHCCCEEEEEEccCccCHHHHHHHhC
Confidence 3679999999988755 2223444444443 677776 7777766543
No 15
>cd00198 vWFA Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains.
Probab=36.29 E-value=53 Score=23.93 Aligned_cols=49 Identities=20% Similarity=0.314 Sum_probs=31.5
Q ss_pred CCCCCCeEEEEecccccchhhccccchhhhhHh------hhcCCC-ChHHHHHHHHH
Q 026516 34 APDSSHLLIQVTDFRSNTWEAKRSVLQLDDMRD------EIGIGG-SWSEFIDYVVA 83 (237)
Q Consensus 34 a~ds~hL~v~vTDfHSntW~~slSv~~LeDlRD------~VGIGG-SwsdF~dYl~a 83 (237)
.++...+.|++||.+.+.+. .-....++.++. .||+|+ .=..+++.|..
T Consensus 98 ~~~~~~~lvvitDg~~~~~~-~~~~~~~~~~~~~~v~v~~v~~g~~~~~~~l~~l~~ 153 (161)
T cd00198 98 RPNARRVIILLTDGEPNDGP-ELLAEAARELRKLGITVYTIGIGDDANEDELKEIAD 153 (161)
T ss_pred CCCCceEEEEEeCCCCCCCc-chhHHHHHHHHHcCCEEEEEEcCCCCCHHHHHHHhc
Confidence 45678899999999976554 222334555555 678887 55555555544
No 16
>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=32.06 E-value=1.4e+02 Score=23.72 Aligned_cols=36 Identities=31% Similarity=0.396 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCC
Q 026516 145 AFRSMQTLIVQEQERCLQLEKEAAAEKERNENIQNQ 180 (237)
Q Consensus 145 afrs~q~~~~~eqe~~s~L~~~L~sEKekne~iQ~q 180 (237)
.++.....-.+|++|+.+|...|..|..|..++..+
T Consensus 14 Vl~R~~~l~~~E~~Ri~kLk~~L~~e~~r~~~~~~~ 49 (118)
T PF02318_consen 14 VLQRDEELRKKEEERIRKLKQELQKEKMRREALGNS 49 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSCS
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc
Confidence 445666677899999999999998888888777653
No 17
>cd06843 PLPDE_III_PvsE_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE. This subfamily is composed of PvsE from Vibrio parahaemolyticus and similar proteins. PvsE is a vibrioferrin biosynthesis protein which is homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC). ODC and DapDC are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. It has been suggested that PvsE may be involved in the biosynthesis of the polycarboxylate siderophore vibrioferrin. It may catalyze the decarboxylation of serine to yield ethanolamine. PvsE may require homodimer formation and the presence of the PLP cofactor for activity.
Probab=28.70 E-value=1.1e+02 Score=28.03 Aligned_cols=55 Identities=16% Similarity=0.177 Sum_probs=37.5
Q ss_pred chhhhhHhhhc-------CCCCh-------------HHHHHHHHHhccc--ccceEeecCCCC---CCCcccceeeeecc
Q 026516 59 LQLDDMRDEIG-------IGGSW-------------SEFIDYVVASIKS--EDVKLILEGHSN---ADGAAYAKIVAQKS 113 (237)
Q Consensus 59 ~~LeDlRD~VG-------IGGSw-------------sdF~dYl~aslsS--~~VkL~L~~~s~---s~G~~~akLVAqKa 113 (237)
..++++.+..| |||+| .+|.+.+...+.. .+++|.+|+-.. ..|.--+|.+..|.
T Consensus 192 ~~~~~l~~~~g~~~~~idiGGGf~~~y~~~~~~~~~~~~~~~i~~~~~~~~~~~~l~~EpGR~lva~ag~lv~~V~~~k~ 271 (377)
T cd06843 192 ETARQWAAEHGLDLDVVNVGGGIGVNYADPEEQFDWAGFCEGLDQLLAEYEPGLTLRFECGRYISAYCGYYVTEVLDLKR 271 (377)
T ss_pred HHHHHHHHHhCCCCcEEEecCccccccCCCCCCCCHHHHHHHHHHHHHhcCCCCEEEEccChhhhcCceEEEEEEEEEee
Confidence 34556655444 78888 4777878887765 479999996532 55666677777775
No 18
>COG0219 CspR Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]
Probab=28.49 E-value=2.1e+02 Score=25.08 Aligned_cols=73 Identities=18% Similarity=0.276 Sum_probs=41.4
Q ss_pred CCCChHHHHHHHHHhcccccceEeec---CCCC-CC---CcccceeeeeccCCCc----------eeEEecccccchhHH
Q 026516 70 IGGSWSEFIDYVVASIKSEDVKLILE---GHSN-AD---GAAYAKIVAQKSKGMP----------RISISLTRLTGSAAT 132 (237)
Q Consensus 70 IGGSwsdF~dYl~aslsS~~VkL~L~---~~s~-s~---G~~~akLVAqKaKGmP----------~ItI~L~kl~~saa~ 132 (237)
.=.||.+|++.... ..+|++- +... ++ -..-.-|-..-++|+| .|.||.. -..++.|
T Consensus 60 ~h~s~e~fl~~~~~-----~~rl~~~tt~~~~~~~~~~f~~~d~llFG~Es~GLP~~i~~~~~~~~irIPm~-~~~RSLN 133 (155)
T COG0219 60 EHDSLEAFLEAEPI-----GGRLFALTTKGTTTYTDVSFQKGDYLLFGPESRGLPEEILDAAPDRCIRIPMR-PGVRSLN 133 (155)
T ss_pred EeCCHHHHHhhccC-----CceEEEEEeccccccccccCCCCCEEEECCCCCCCCHHHHHhCccceEEeccC-CCCccch
Confidence 34689999876653 2333322 1111 11 1122556677788998 4999998 2224443
Q ss_pred HHHHHhhHHHHHHHHHH
Q 026516 133 EAMAKLSLELFTAFRSM 149 (237)
Q Consensus 133 D~manlsl~Lf~afrs~ 149 (237)
=+ .+.+.-+|+++|..
T Consensus 134 Ls-nsvavv~yEa~RQ~ 149 (155)
T COG0219 134 LS-NTVAVVLYEALRQL 149 (155)
T ss_pred HH-HHHHHHHHHHHHHh
Confidence 22 23567799999754
No 19
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=27.28 E-value=1.3e+02 Score=25.18 Aligned_cols=53 Identities=17% Similarity=0.287 Sum_probs=38.3
Q ss_pred cccchhHHHHHHHhhHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCC
Q 026516 125 RLTGSAATEAMAKLSLE---LFTAFRSMQTLIVQEQERCLQLEKEAAAEKERNENIQNQ 180 (237)
Q Consensus 125 kl~~saa~D~manlsl~---Lf~afrs~q~~~~~eqe~~s~L~~~L~sEKekne~iQ~q 180 (237)
=+|-+..+|+.+.++=. +++++..++.|+. +|+..|-..|..=+|-.+-|+.+
T Consensus 35 ~vTrr~m~~A~~~v~kql~~vs~~l~~tKkhLs---qRId~vd~klDe~~ei~~~i~~e 90 (126)
T PF07889_consen 35 FVTRRSMSDAVASVSKQLEQVSESLSSTKKHLS---QRIDRVDDKLDEQKEISKQIKDE 90 (126)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHhhHHHHHHHHHHHHHH
Confidence 35667788888888764 5888999999987 67777777776666666555544
No 20
>cd00953 KDG_aldolase KDG (2-keto-3-deoxygluconate) aldolases found in archaea. This subfamily of enzymes is adapted for high thermostability and shows specificity for non-phosphorylated substrates. The enzyme catalyses the reversible aldol cleavage of 2-keto-3-dexoygluconate to pyruvate and glyceraldehyde, the third step of a modified non-phosphorylated Entner-Doudoroff pathway of glucose oxidation. KDG aldolase shows no significant sequence similarity to microbial 2-keto-3-deoxyphosphogluconate (KDPG) aldolases, and the enzyme shows no activity with glyceraldehyde 3-phosphate as substrate. The enzyme is a tetramer and a member of the DHDPS family of Schiff-base-dependent class I aldolases.
Probab=24.58 E-value=2.3e+02 Score=25.43 Aligned_cols=94 Identities=11% Similarity=0.117 Sum_probs=52.8
Q ss_pred hccccchhhhhHh----hhcCCCChHH---HHHHHHHhcccccceEeecCCCCCCCcccceeeeeccCCCceeEEecccc
Q 026516 54 AKRSVLQLDDMRD----EIGIGGSWSE---FIDYVVASIKSEDVKLILEGHSNADGAAYAKIVAQKSKGMPRISISLTRL 126 (237)
Q Consensus 54 ~slSv~~LeDlRD----~VGIGGSwsd---F~dYl~aslsS~~VkL~L~~~s~s~G~~~akLVAqKaKGmP~ItI~L~kl 126 (237)
..++++.++.|-+ .|||..|-.+ |.+|... .+++.+.-+.+.- -. -....=++|. |
T Consensus 135 ~~l~~~~l~~L~~~~p~vvgiK~s~~d~~~~~~~~~~---~~~~~v~~G~d~~----~~-~~l~~Ga~G~--i------- 197 (279)
T cd00953 135 YDINARMAKEIKKAGGDIIGVKDTNEDISHMLEYKRL---VPDFKVYSGPDSL----IF-SALRSGLDGS--V------- 197 (279)
T ss_pred CCCCHHHHHHHHhcCCCEEEEEeCccCHHHHHHHHHh---CCCeEEEEccHHH----HH-HHHHcCCCeE--E-------
Confidence 3567777777753 4788766544 5554321 2367655443210 00 0001111221 1
Q ss_pred cchhHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026516 127 TGSAATEAMAKLSLELFTAFRSMQTLIVQEQERCLQLEKEAA 168 (237)
Q Consensus 127 ~~saa~D~manlsl~Lf~afrs~q~~~~~eqe~~s~L~~~L~ 168 (237)
++.+.++-.+..++|++|. .+.+.+.|.++..|+..+.
T Consensus 198 --~~~~n~~P~~~~~l~~a~~--~~~a~~~q~~~~~l~~~~~ 235 (279)
T cd00953 198 --AAASNYLPEVFVKIKDHVA--IEDAFKLQFLINEVLDASR 235 (279)
T ss_pred --echhhccHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHH
Confidence 3456778888999999996 4455566777878877653
No 21
>PF12209 SAC3: Leucine permease transcriptional regulator helical domain; InterPro: IPR024293 This domain is found in fungal proteins, including the nuclear mRNA export protein SAC3. It has been suggested this domain provides a scaffold within the yeast Sac3:Cdc31:Sus1:Thp1 (TREX-2) complex to integrate interactions between protein complexes to facilitate the coupling of transcription and mRNA export during gene expression [].; PDB: 3FWC_N 3FWB_B.
Probab=24.44 E-value=73 Score=24.47 Aligned_cols=18 Identities=39% Similarity=0.497 Sum_probs=15.0
Q ss_pred HHHHHhhHHHHHHHHHHH
Q 026516 133 EAMAKLSLELFTAFRSMQ 150 (237)
Q Consensus 133 D~manlsl~Lf~afrs~q 150 (237)
+.|.+||=+||.||-+-+
T Consensus 37 ~iI~sLs~ELy~AFi~E~ 54 (79)
T PF12209_consen 37 QIIDSLSEELYDAFIHEQ 54 (79)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 569999999999996643
No 22
>PF09314 DUF1972: Domain of unknown function (DUF1972); InterPro: IPR015393 This domain is functionally uncharacterised and found in bacterial glycosyltransferases and rhamnosyltransferases.
Probab=24.11 E-value=3.2e+02 Score=23.90 Aligned_cols=67 Identities=19% Similarity=0.311 Sum_probs=42.0
Q ss_pred CChHHHHHHHHHhcccccceEeecCCCCCCCcccceeeeecc-CCCceeEEecccccchhHHHHHHHhhHHHHHHHH
Q 026516 72 GSWSEFIDYVVASIKSEDVKLILEGHSNADGAAYAKIVAQKS-KGMPRISISLTRLTGSAATEAMAKLSLELFTAFR 147 (237)
Q Consensus 72 GSwsdF~dYl~aslsS~~VkL~L~~~s~s~G~~~akLVAqKa-KGmP~ItI~L~kl~~saa~D~manlsl~Lf~afr 147 (237)
|+|..|+++|..-+.+..+++..--.+...+. + ... +|+.++.|+..+. + ..+++.--.++|..+++
T Consensus 17 GGfET~ve~L~~~l~~~g~~v~Vyc~~~~~~~---~---~~~y~gv~l~~i~~~~~-g--~~~si~yd~~sl~~al~ 84 (185)
T PF09314_consen 17 GGFETFVEELAPRLVSKGIDVTVYCRSDYYPY---K---EFEYNGVRLVYIPAPKN-G--SAESIIYDFLSLLHALR 84 (185)
T ss_pred CcHHHHHHHHHHHHhcCCceEEEEEccCCCCC---C---CcccCCeEEEEeCCCCC-C--chHHHHHHHHHHHHHHH
Confidence 89999999999999988776655432221111 1 333 8899999987752 2 22445544455555553
No 23
>smart00243 GAS2 Growth-Arrest-Specific Protein 2 Domain. GROWTH-ARREST-SPECIFIC PROTEIN 2 Domain
Probab=23.75 E-value=46 Score=25.91 Aligned_cols=16 Identities=25% Similarity=0.904 Sum_probs=14.1
Q ss_pred hhcCCCChHHHHHHHH
Q 026516 67 EIGIGGSWSEFIDYVV 82 (237)
Q Consensus 67 ~VGIGGSwsdF~dYl~ 82 (237)
.|-+||+|.++=+||.
T Consensus 49 MVRVGGGW~tL~~fL~ 64 (73)
T smart00243 49 MVRVGGGWETLDEYLL 64 (73)
T ss_pred EEEECCcHHHHHHHHH
Confidence 5789999999999985
No 24
>cd08171 GlyDH-like2 Glycerol dehydrogenase-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=23.50 E-value=47 Score=30.45 Aligned_cols=26 Identities=23% Similarity=0.290 Sum_probs=17.4
Q ss_pred ccceeeeeccCCCceeEEecccccchh
Q 026516 104 AYAKIVAQKSKGMPRISISLTRLTGSA 130 (237)
Q Consensus 104 ~~akLVAqKaKGmP~ItI~L~kl~~sa 130 (237)
|+||.+|-.. |+|.|+||-|--+|+.
T Consensus 92 D~aK~ia~~~-~~p~i~VPTt~gtgse 117 (345)
T cd08171 92 DTVKVLADKL-GKPVFTFPTIASNCAA 117 (345)
T ss_pred HHHHHHHHHc-CCCEEEecCccccCcc
Confidence 6777776654 6777777776655553
No 25
>PF02187 GAS2: Growth-Arrest-Specific Protein 2 Domain; InterPro: IPR003108 The growth-arrest-specific protein 2 domain is found associated with the spectrin repeat, calponin homology domain and EF hand in many proteins. It is found among others in the growth arrest-specific protein 2 [].; GO: 0007050 cell cycle arrest; PDB: 1V5R_A.
Probab=23.07 E-value=24 Score=27.26 Aligned_cols=18 Identities=22% Similarity=0.682 Sum_probs=15.4
Q ss_pred hhhcCCCChHHHHHHHHH
Q 026516 66 DEIGIGGSWSEFIDYVVA 83 (237)
Q Consensus 66 D~VGIGGSwsdF~dYl~a 83 (237)
-.|-+||+|.++-.||..
T Consensus 48 vMVRVGGGW~tL~~~L~k 65 (73)
T PF02187_consen 48 VMVRVGGGWDTLEEYLDK 65 (73)
T ss_dssp EEEEETTEEEEHHHHHHH
T ss_pred EEEEeCCcHHHHHHHhhc
Confidence 468899999999999863
No 26
>cd08180 PDD 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism. 1,3-propanediol dehydrogenase (PPD) plays a role in glycerol metabolism of some bacteria in anaerobic conditions. In this degradation pathway, glycerol is converted in a two-step process to 1,3-propanediol (1,3-PD) which is then excreted into the extracellular medium. The first reaction involves the transformation of glycerol into 3-hydroxypropionaldehyde (3-HPA) by a coenzyme B-12-dependent dehydratase. The second reaction involves the dismutation of the 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol by the NADH-linked 1,3-propanediol dehydrogenase (PPD). The enzyme require iron ion for its function. Because many genes in this pathway are present in the pdu (propanediol utilisation) operon, they are also named pdu genes. PPD is a member of the iron-containing alcohol dehydrogenase superfamily. The PPD structure has a dehydroquinat
Probab=22.37 E-value=81 Score=28.71 Aligned_cols=19 Identities=37% Similarity=0.209 Sum_probs=12.0
Q ss_pred cCCCceeEEecccccchhH
Q 026516 113 SKGMPRISISLTRLTGSAA 131 (237)
Q Consensus 113 aKGmP~ItI~L~kl~~saa 131 (237)
.+|+|.|.||=|-.+|+.+
T Consensus 107 ~~~~p~i~VPTtagtgse~ 125 (332)
T cd08180 107 KKKPLFIAIPTTSGTGSEV 125 (332)
T ss_pred CCCCCEEEeCCCCcchHhh
Confidence 3566777777666666554
No 27
>KOG1369 consensus Hexokinase [Carbohydrate transport and metabolism]
Probab=22.36 E-value=43 Score=33.60 Aligned_cols=51 Identities=33% Similarity=0.511 Sum_probs=40.0
Q ss_pred HhhhcCCCCh----HHHHHHHHHhcc-----cccceEeecCCCCCCCcccceeeeeccCC
Q 026516 65 RDEIGIGGSW----SEFIDYVVASIK-----SEDVKLILEGHSNADGAAYAKIVAQKSKG 115 (237)
Q Consensus 65 RD~VGIGGSw----sdF~dYl~asls-----S~~VkL~L~~~s~s~G~~~akLVAqKaKG 115 (237)
|=.||.+||. +.|-+|++..++ +-.|++.+..+.++.||+-+-.|+.+.+-
T Consensus 413 ~~~VgvdGsly~~yP~f~~~m~~~l~eLlg~~~~v~i~~s~dgSg~GAAL~Aav~~~~~~ 472 (474)
T KOG1369|consen 413 RVTVGVDGSLYKNHPFFREYLKEALRELLGPSIHVKLVLSEDGSGRGAALIAAVASRLKQ 472 (474)
T ss_pred ceEEEeccchhHcCchHHHHHHHHHHHHhCCCceEEEEECCCCccccHHHHHHHHhhhhc
Confidence 4458999996 567888888887 46899999999899998877777766543
No 28
>PF06670 Etmic-2: Microneme protein Etmic-2; InterPro: IPR009556 This family consists of several Microneme protein Etmic-2 sequences from Eimeria tenella. Etmic-2 is a 50 kDa acidic protein, which is found within the microneme organelles of E. tenella sporozoites and merozoites [].
Probab=22.28 E-value=95 Score=29.84 Aligned_cols=110 Identities=19% Similarity=0.228 Sum_probs=75.1
Q ss_pred CCCccceEEEEeCCCCCCeEEEEecccccchhhc-------cccchhhh-hHhhhcCCCChHHHHHHHHHhcccccceEe
Q 026516 22 SDSLGRFLFHVSAPDSSHLLIQVTDFRSNTWEAK-------RSVLQLDD-MRDEIGIGGSWSEFIDYVVASIKSEDVKLI 93 (237)
Q Consensus 22 s~~~~pfLFh~~a~ds~hL~v~vTDfHSntW~~s-------lSv~~LeD-lRD~VGIGGSwsdF~dYl~aslsS~~VkL~ 93 (237)
.++-.||..-+.-.+.-...|.+--..+-.+-++ +-+++.=. -||.-|=.|||-|-.--+..+|+--||.++
T Consensus 201 agpttp~mv~i~q~~p~e~~vr~~~wi~teylcsrrgvsrifkysdfcslcrdas~G~GSW~E~~V~VG~~i~~RD~~V~ 280 (379)
T PF06670_consen 201 AGPTTPLMVLITQQNPKEVEVRVLAWISTEYLCSRRGVSRIFKYSDFCSLCRDASTGDGSWHENFVDVGSSINHRDVMVN 280 (379)
T ss_pred CCCCCceEEEEecCCCceEEEEEEEeecchhhhcccccchhhcccchhhhhccccCCCccceeeeEEecccccCceeEEE
Confidence 4566889998888888877777744443333222 33333333 378889999998866667899999999999
Q ss_pred ecC--CCC--CCCcccceeeeeccCCCcee----EEecccccchhHH
Q 026516 94 LEG--HSN--ADGAAYAKIVAQKSKGMPRI----SISLTRLTGSAAT 132 (237)
Q Consensus 94 L~~--~s~--s~G~~~akLVAqKaKGmP~I----tI~L~kl~~saa~ 132 (237)
+.. +++ ..|.++|-||+-|.| |=.- -|.||+--.++++
T Consensus 281 ~SDC~P~SLRiYGSsSADLVT~~E~-~C~A~~P~Li~LT~P~~~~~s 326 (379)
T PF06670_consen 281 VSDCVPHSLRIYGSSSADLVTVDEK-MCQADDPQLINLTSPHENRTS 326 (379)
T ss_pred ecccCccceEEecccccceEeeccc-cccCCChhheeccCCCcccCC
Confidence 983 333 789999999998874 3221 2556665555544
No 29
>PRK03868 glucose-6-phosphate isomerase; Provisional
Probab=21.97 E-value=92 Score=30.15 Aligned_cols=27 Identities=33% Similarity=0.388 Sum_probs=14.5
Q ss_pred hcCCCChH--HHHHHHHHhcccccceEee
Q 026516 68 IGIGGSWS--EFIDYVVASIKSEDVKLIL 94 (237)
Q Consensus 68 VGIGGSws--dF~dYl~aslsS~~VkL~L 94 (237)
||||||+- ..+.|.....+...+++.+
T Consensus 64 iGIGGS~LG~~~l~~al~~~~~~~~~i~f 92 (410)
T PRK03868 64 IGIGGSSLGVKAIYSFLKNEKNNKKELHF 92 (410)
T ss_pred EecChHHHHHHHHHHHHHhhccCCCcEEE
Confidence 79999986 3444432222222466643
No 30
>PF09260 DUF1966: Domain of unknown function (DUF1966); InterPro: IPR015340 Alpha-amylase is classified as family 13 of the glycosyl hydrolases and is present in archaea, bacteria, plants and animals. Alpha-amylase is an essential enzyme in alpha-glucan metabolism, acting to catalyse the hydrolysis of alpha-1,4-glucosidic bonds of glycogen, starch and related polysaccharides. Although all alpha-amylases possess the same catalytic function, they can vary with respect to sequence. In general, they are composed of three domains: a TIM barrel containing the active site residues and chloride ion-binding site (domain A), a long loop region inserted between the third beta strand and the alpha-helix of domain A that contains calcium-binding site(s) (domain B), and a C-terminal beta-sheet domain that appears to show some variability in sequence and length between amylases (domain C) []. Amylases have at least one conserved calcium-binding site, as calcium is essential for the stability of the enzyme. The chloride-binding functions to activate the enzyme, which acts by a two-step mechanism involving a catalytic nucleophile base (usually an Asp) and a catalytic proton donor (usually a Glu) that are responsible for the formation of the beta-linked glycosyl-enzyme intermediate. This domain is found in various fungal alpha-amylase proteins. Its exact function has not, as yet, been defined []. ; GO: 0004556 alpha-amylase activity, 0005509 calcium ion binding, 0016052 carbohydrate catabolic process; PDB: 2AAA_A 2GUY_A 2TAA_B 6TAA_A 2GVY_B 7TAA_A 3KWX_A.
Probab=21.65 E-value=66 Score=25.09 Aligned_cols=27 Identities=26% Similarity=0.434 Sum_probs=19.3
Q ss_pred ccceeeeeccCCCceeEEecccccchh
Q 026516 104 AYAKIVAQKSKGMPRISISLTRLTGSA 130 (237)
Q Consensus 104 ~~akLVAqKaKGmP~ItI~L~kl~~sa 130 (237)
+.+.|.....+|+|+|=+|-.+|.++.
T Consensus 63 ~~G~l~v~m~~G~P~Vl~P~~~l~gsG 89 (91)
T PF09260_consen 63 SNGTLTVPMSNGEPRVLYPASLLSGSG 89 (91)
T ss_dssp TTS-EEEEESTT--EEEEECHHHTTSS
T ss_pred CCCEEEEEEcCCceEEEEEHHHccCCc
Confidence 455677788889999999999888763
No 31
>KOG0945 consensus Alpha-aminoadipic semialdehyde dehydrogenase-phosphopantetheinyl transferase [Amino acid transport and metabolism; Coenzyme transport and metabolism]
Probab=21.33 E-value=90 Score=29.79 Aligned_cols=76 Identities=14% Similarity=0.173 Sum_probs=53.9
Q ss_pred ccCCCcccccCCCCCCccceEEEEeCCCCCCeEEEEecccccchhhccccchhhhhHhhhcCCCChHHHHHHHHHhcccc
Q 026516 9 IFGEPKAEWADSRSDSLGRFLFHVSAPDSSHLLIQVTDFRSNTWEAKRSVLQLDDMRDEIGIGGSWSEFIDYVVASIKSE 88 (237)
Q Consensus 9 IFgeak~e~~~~~s~~~~pfLFh~~a~ds~hL~v~vTDfHSntW~~slSv~~LeDlRD~VGIGGSwsdF~dYl~aslsS~ 88 (237)
-+|+| .-|-+...+...+|=|.+... +.|.+++|+.|.+.==..+.+. -.++=.||+.-+...|+-.
T Consensus 89 ~~GKP-~l~qn~~~p~~~~f~fNvSH~--gd~iv~at~~~~~VGIDIm~~~----------~r~~~~e~l~~~kr~fS~~ 155 (289)
T KOG0945|consen 89 EYGKP-VLWQNYSNPFSPTFGFNVSHQ--GDLIVVATTVHVPVGIDIMRPK----------ERKTAHEELELFKRVFSED 155 (289)
T ss_pred cCCCc-chhhcccCCCCCCccceeeee--ceEEEEeccCCcccceeeeecc----------cccchHHHHHHHHHhcCHH
Confidence 46777 667775555567777777766 5899999999876321111111 2355678999999999999
Q ss_pred cceEeecCC
Q 026516 89 DVKLILEGH 97 (237)
Q Consensus 89 ~VkL~L~~~ 97 (237)
++|++...+
T Consensus 156 E~k~l~s~~ 164 (289)
T KOG0945|consen 156 EWKMLKSAP 164 (289)
T ss_pred HHHHHHcCC
Confidence 999998863
No 32
>PF13580 SIS_2: SIS domain; PDB: 1TK9_C 2I22_B 2I2W_A 1X92_A 3BJZ_D 2XBL_B 2X3Y_F 2YVA_B 3CVJ_D 3TRJ_D ....
Probab=21.21 E-value=50 Score=26.36 Aligned_cols=48 Identities=23% Similarity=0.339 Sum_probs=27.3
Q ss_pred hHHHHHHHHHh--cccccceEeecCCCCCCCcccceeeeeccCCCceeEEe
Q 026516 74 WSEFIDYVVAS--IKSEDVKLILEGHSNADGAAYAKIVAQKSKGMPRISIS 122 (237)
Q Consensus 74 wsdF~dYl~as--lsS~~VkL~L~~~s~s~G~~~akLVAqKaKGmP~ItI~ 122 (237)
...|.+.+..- +..|||=+++...-++.-+=.| +-.-|.+||+.|.|.
T Consensus 88 ~~~~~~~~~~~~~~~~gDvli~iS~SG~s~~vi~a-~~~Ak~~G~~vIalT 137 (138)
T PF13580_consen 88 DEGFARQLLALYDIRPGDVLIVISNSGNSPNVIEA-AEEAKERGMKVIALT 137 (138)
T ss_dssp GGTHHHHHHHHTT--TT-EEEEEESSS-SHHHHHH-HHHHHHTT-EEEEEE
T ss_pred hhHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHH-HHHHHHCCCEEEEEe
Confidence 35688888877 9999999999875332211111 112266899998873
No 33
>PRK10722 hypothetical protein; Provisional
Probab=20.52 E-value=1.6e+02 Score=27.51 Aligned_cols=81 Identities=25% Similarity=0.339 Sum_probs=45.7
Q ss_pred HHHHHHHHHHH---HHHHHHHHHHHH----HHHHHHHHhhhhcccCCcchhHHHHhhhcCCCCCcccccccCCCCCCCCh
Q 026516 141 ELFTAFRSMQT---LIVQEQERCLQL----EKEAAAEKERNENIQNQPLYSKRQKLQKMNFSDKTDISASILSNGSQDSP 213 (237)
Q Consensus 141 ~Lf~afrs~q~---~~~~eqe~~s~L----~~~L~sEKekne~iQ~q~~ss~~qKlqk~n~s~k~~~~~~~~~ng~q~sp 213 (237)
-|+..|+..|- .++.||.|-.+| ...|..=++.+.-.|.+ +..-..||+.+.+=|+-=-+-....|...+.+
T Consensus 145 PL~qlwr~~Q~l~l~LaeEr~Ry~rLQq~sD~qlD~lrqq~~~Lq~~-L~~t~rKLEnLTdIERqLSsRk~~~~~~~~~~ 223 (247)
T PRK10722 145 PLYQLWRDGQALQLALAEERQRYQKLQQSSDSELDALRQQQQRLQYQ-LELTTRKLENLTDIERQLSSRKQAGNFSPDTP 223 (247)
T ss_pred HHHHHHHHhhHHHHhHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhccCCCCCCCCCCcc
Confidence 47777877654 677899999999 56666666666666665 22233677666443331111123444444444
Q ss_pred hhhhccCcc
Q 026516 214 DKQAAQSPV 222 (237)
Q Consensus 214 dk~aa~~~~ 222 (237)
+|.++.+.+
T Consensus 224 ~~~~~~~~~ 232 (247)
T PRK10722 224 EKPATSEES 232 (247)
T ss_pred ccccCCCcC
Confidence 444544433
No 34
>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=20.42 E-value=97 Score=25.00 Aligned_cols=42 Identities=14% Similarity=0.228 Sum_probs=26.2
Q ss_pred CCeEEEEecccccc-hhhccccchhhhhHh------hhcCCC-ChHHHHHHH
Q 026516 38 SHLLIQVTDFRSNT-WEAKRSVLQLDDMRD------EIGIGG-SWSEFIDYV 81 (237)
Q Consensus 38 ~hL~v~vTDfHSnt-W~~slSv~~LeDlRD------~VGIGG-SwsdF~dYl 81 (237)
....|+.||=+.+. |... .+.+.++++ .||||- ...+++..+
T Consensus 108 ~~~iillTDG~~~~~~~~~--~~~~~~~~~~~~~i~~igiG~~~~~~~L~~i 157 (176)
T cd01464 108 RPWVFLLTDGEPTDDLTAA--IERIKEARDSKGRIVACAVGPKADLDTLKQI 157 (176)
T ss_pred CcEEEEEcCCCCCchHHHH--HHHHHhhcccCCcEEEEEeccccCHHHHHHH
Confidence 45789999998752 4433 255666665 589995 444444443
No 35
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=20.22 E-value=2e+02 Score=19.98 Aligned_cols=30 Identities=27% Similarity=0.367 Sum_probs=21.0
Q ss_pred CceeEEecccccchhHHHHHHHhhHHHHHHHHH
Q 026516 116 MPRISISLTRLTGSAATEAMAKLSLELFTAFRS 148 (237)
Q Consensus 116 mP~ItI~L~kl~~saa~D~manlsl~Lf~afrs 148 (237)
||.|+|.+-. |+ -.|-...|+-++.+++..
T Consensus 1 MP~i~i~~~~--Gr-s~EqK~~L~~~it~a~~~ 30 (60)
T PRK02289 1 MPFVRIDLFE--GR-SQEQKNALAREVTEVVSR 30 (60)
T ss_pred CCEEEEEECC--CC-CHHHHHHHHHHHHHHHHH
Confidence 8999999876 44 346666666677666643
No 36
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=20.07 E-value=2.1e+02 Score=19.39 Aligned_cols=30 Identities=27% Similarity=0.439 Sum_probs=19.7
Q ss_pred CceeEEecccccchhHHHHHHHhhHHHHHHHHH
Q 026516 116 MPRISISLTRLTGSAATEAMAKLSLELFTAFRS 148 (237)
Q Consensus 116 mP~ItI~L~kl~~saa~D~manlsl~Lf~afrs 148 (237)
||.|+|.+-+ |+ --+....|+-++.+++..
T Consensus 1 MP~i~i~~~~--Gr-s~eqk~~l~~~it~~l~~ 30 (61)
T PRK02220 1 MPYVHIKLIE--GR-TEEQLKALVKDVTAAVSK 30 (61)
T ss_pred CCEEEEEEcC--CC-CHHHHHHHHHHHHHHHHH
Confidence 8999997655 43 345666666666666643
No 37
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=20.03 E-value=2.1e+02 Score=19.46 Aligned_cols=30 Identities=30% Similarity=0.344 Sum_probs=20.0
Q ss_pred CceeEEecccccchhHHHHHHHhhHHHHHHHHH
Q 026516 116 MPRISISLTRLTGSAATEAMAKLSLELFTAFRS 148 (237)
Q Consensus 116 mP~ItI~L~kl~~saa~D~manlsl~Lf~afrs 148 (237)
||.|+|.+.. |+ -.+....|+-.+.+++..
T Consensus 1 MP~i~I~~~~--gr-s~eqk~~l~~~it~~l~~ 30 (62)
T PRK00745 1 MPTFHIELFE--GR-TVEQKRKLVEEITRVTVE 30 (62)
T ss_pred CCEEEEEEcC--CC-CHHHHHHHHHHHHHHHHH
Confidence 8999999876 33 346666666666666633
Done!