Query 032500
Match_columns 139
No_of_seqs 140 out of 403
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 14:53:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032500.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032500hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0324 Uncharacterized conser 100.0 1.3E-30 2.8E-35 212.3 8.7 94 1-94 85-183 (214)
2 PF05903 Peptidase_C97: PPPDE 99.9 1.5E-23 3.2E-28 160.6 3.6 67 1-67 82-151 (151)
3 PF04970 LRAT: Lecithin retino 93.7 0.028 6E-07 41.1 0.9 31 6-36 88-119 (125)
4 PF13387 DUF4105: Domain of un 86.5 0.98 2.1E-05 35.0 3.7 47 1-47 105-155 (176)
5 PF05608 DUF778: Protein of un 84.8 1 2.2E-05 35.0 3.1 39 3-41 76-114 (136)
6 PF09601 DUF2459: Protein of u 82.6 1.9 4.2E-05 34.1 3.9 40 1-41 98-160 (173)
7 PF11931 DUF3449: Domain of un 73.6 1.1 2.3E-05 36.8 0.0 21 42-62 85-105 (196)
8 cd02998 PDI_a_ERp38 PDIa famil 66.0 3.5 7.6E-05 27.3 1.3 46 5-50 35-81 (105)
9 PF15643 Tox-PL-2: Papain fold 49.2 12 0.00026 28.0 1.7 44 2-52 1-44 (100)
10 KOG2636 Splicing factor 3a, su 46.5 9.3 0.0002 35.4 0.9 22 42-63 385-406 (497)
11 KOG3150 Uncharacterized conser 43.6 22 0.00047 29.0 2.5 39 3-41 92-130 (182)
12 TIGR02117 chp_urease_rgn conse 43.3 37 0.0008 27.8 3.9 38 1-39 128-189 (208)
13 PF04412 DUF521: Protein of un 42.6 23 0.0005 31.7 2.8 43 1-44 270-316 (400)
14 cd03003 PDI_a_ERdj5_N PDIa fam 40.1 41 0.00089 22.6 3.2 43 5-49 35-77 (101)
15 TIGR03544 DivI1A_domain DivIVA 37.4 34 0.00074 20.1 2.1 16 2-17 19-34 (34)
16 PF04046 PSP: PSP; InterPro: 36.5 47 0.001 21.7 2.8 30 33-68 6-37 (48)
17 cd01355 AcnX Putative Aconitas 35.3 54 0.0012 29.5 3.9 40 2-43 261-304 (389)
18 TIGR03015 pepcterm_ATPase puta 34.3 92 0.002 24.4 4.8 51 1-58 192-244 (269)
19 PF10138 vWA-TerF-like: vWA fo 33.3 26 0.00057 28.7 1.6 53 3-56 119-198 (200)
20 cd03004 PDI_a_ERdj5_C PDIa fam 32.9 74 0.0016 21.3 3.6 43 5-49 36-78 (104)
21 smart00581 PSP proline-rich do 32.1 63 0.0014 21.6 3.0 30 33-68 10-41 (54)
22 cd02947 TRX_family TRX family; 31.3 38 0.00082 20.9 1.8 42 5-49 27-68 (93)
23 PRK09381 trxA thioredoxin; Pro 30.1 42 0.00091 22.8 2.0 43 5-49 38-80 (109)
24 cd02961 PDI_a_family Protein D 30.1 93 0.002 19.6 3.5 41 6-47 33-74 (101)
25 COG5188 PRP9 Splicing factor 3 28.4 27 0.00059 31.9 1.0 23 42-64 358-380 (470)
26 PHA03308 transcriptional regul 27.9 66 0.0014 32.4 3.4 15 116-132 1293-1307(1463)
27 PF11022 DUF2611: Protein of u 27.6 50 0.0011 23.1 2.0 29 40-68 7-35 (71)
28 PF10523 BEN: BEN domain; Int 27.4 77 0.0017 20.6 2.8 38 1-40 38-75 (79)
29 PTZ00110 helicase; Provisional 27.0 62 0.0013 29.4 3.0 51 4-54 456-512 (545)
30 cd02956 ybbN ybbN protein fami 26.9 89 0.0019 20.5 3.1 42 6-49 30-71 (96)
31 smart00460 TGc Transglutaminas 25.8 43 0.00092 20.8 1.3 25 27-51 7-31 (68)
32 PF00085 Thioredoxin: Thioredo 25.8 1.2E+02 0.0027 19.5 3.6 44 5-50 34-77 (103)
33 KOG0335 ATP-dependent RNA heli 24.7 69 0.0015 29.8 2.9 52 3-54 415-472 (482)
34 PF13344 Hydrolase_6: Haloacid 23.5 1E+02 0.0022 21.6 3.0 39 6-46 19-57 (101)
35 PF14691 Fer4_20: Dihydroprymi 23.2 14 0.0003 27.3 -1.6 50 4-55 40-101 (111)
36 PF08671 SinI: Anti-repressor 23.0 80 0.0017 18.6 2.0 13 1-13 17-29 (30)
37 TIGR01126 pdi_dom protein disu 22.4 67 0.0015 20.9 1.8 42 6-48 31-73 (102)
38 TIGR01514 NAPRTase nicotinate 22.3 42 0.0009 30.2 1.0 42 4-45 46-88 (394)
39 TIGR00411 redox_disulf_1 small 22.1 1.3E+02 0.0029 18.9 3.1 43 5-49 16-58 (82)
40 cd02995 PDI_a_PDI_a'_C PDIa fa 22.0 1.3E+02 0.0027 19.7 3.1 42 6-49 36-78 (104)
41 PLN02172 flavin-containing mon 21.9 1.6E+02 0.0036 26.2 4.6 66 5-70 363-429 (461)
42 PF03246 Pneumo_ncap: Pneumovi 21.8 82 0.0018 28.3 2.7 32 5-38 286-326 (391)
43 PF13456 RVT_3: Reverse transc 21.0 1.5E+02 0.0033 18.7 3.3 29 11-39 55-83 (87)
44 KOG2673 Uncharacterized conser 20.9 57 0.0012 30.4 1.6 20 37-56 192-211 (485)
45 cd03001 PDI_a_P5 PDIa family, 20.8 1.6E+02 0.0034 19.3 3.3 41 5-47 35-75 (103)
46 PF04079 DUF387: Putative tran 20.7 1.9E+02 0.004 22.6 4.2 47 2-51 25-82 (159)
No 1
>KOG0324 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.97 E-value=1.3e-30 Score=212.26 Aligned_cols=94 Identities=50% Similarity=0.895 Sum_probs=84.3
Q ss_pred CCHHHHHHHHHHHHhcccCCcccccccccccHHHHHHHHhcCCCCChHHHHhhhhh--hhcccCCCcccccCccccccc-
Q 032500 1 MGPAEVRTVMEDLAEEYKGNAYNLITKNCNHFCNDACIRLTGNPIPSWVNRLARIG--FFCNCVLPATLNSTRVRHHRI- 77 (139)
Q Consensus 1 Lt~~ev~~~l~~L~~~f~g~tY~LL~kNCNHFs~~lc~~L~gk~IP~wVnrLA~iG--~~~~ClLP~~~~~tpvg~~~~- 77 (139)
+++++|++||++|+++|+|++||||.||||||||++|++|+||+||+||||||++| ++++|++|.....|++.+...
T Consensus 85 ~~~~~v~~~le~L~~ey~G~~YhL~~kNCNHFsn~la~~Ltgk~IP~winrLa~~~~~~~~~~~~p~~~~~t~~~~~~~~ 164 (214)
T KOG0324|consen 85 LTEDDVRRILEELSEEYRGNSYHLLTKNCNHFSNELALQLTGKKIPSWVNRLARAGLCSLCNCLLPMLQNLTPVVLASSV 164 (214)
T ss_pred CCHHHHHHHHHHHHhhcCCceehhhhhccchhHHHHHHHHcCCCccHHHHHHHHHhhhhHHhhcchhhhcCCcccccccc
Confidence 57899999999999999999999999999999999999999999999999999999 999999999999999987663
Q ss_pred ccc--cchhhhhhhccccc
Q 032500 78 EGK--ADEGEKKKLTSESN 94 (139)
Q Consensus 78 ~~~--~~e~ek~~~rS~~~ 94 (139)
.++ .++.++++++|..+
T Consensus 165 ~~~~~~~~~~~~~~~s~~s 183 (214)
T KOG0324|consen 165 VERFDEEENSKKKLASSGS 183 (214)
T ss_pred ccccCccccccccccccCC
Confidence 233 34455888888866
No 2
>PF05903 Peptidase_C97: PPPDE putative peptidase domain; InterPro: IPR008580 This domain consists of the N-terminal portion of several eukaryotic sequences. The function of this domain is unknown.; PDB: 2WP7_A 3EBQ_A.
Probab=99.88 E-value=1.5e-23 Score=160.64 Aligned_cols=67 Identities=43% Similarity=0.946 Sum_probs=53.6
Q ss_pred CCHHHHHHHHHHHHhcccCCcccccccccccHHHHHHHHhcCCCCChHHHHhhhhhh---hcccCCCccc
Q 032500 1 MGPAEVRTVMEDLAEEYKGNAYNLITKNCNHFCNDACIRLTGNPIPSWVNRLARIGF---FCNCVLPATL 67 (139)
Q Consensus 1 Lt~~ev~~~l~~L~~~f~g~tY~LL~kNCNHFs~~lc~~L~gk~IP~wVnrLA~iG~---~~~ClLP~~~ 67 (139)
+++++|+++|++|+++|.+++||||.||||||+|+||++|+|++||+||||+|+++. +..|++|..|
T Consensus 82 ~~~~~~~~~l~~l~~~~~~~~Y~Ll~~NCNhFs~~l~~~L~g~~iP~~i~~~a~~~~~~p~~~~l~p~~~ 151 (151)
T PF05903_consen 82 LSEEEFEEILRSLSREFTGDSYHLLNRNCNHFSDALCQFLTGKPIPSWINRLARIALSSPFGQMLLPMLW 151 (151)
T ss_dssp --HHHHHHHHHHHHTT-SGGG-BTTTBSHHHHHHHHHHHHHS----HHHHTHHHHHHTSHHHHHHCC---
T ss_pred CCHHHHHHHHHHHHhhccCCcchhhhhhhhHHHHHHHHHhCCCCCCHHHHhhhHHhcccchhhhhCcCCC
Confidence 578999999999999999999999999999999999999999999999999999997 5678888643
No 3
>PF04970 LRAT: Lecithin retinol acyltransferase; InterPro: IPR007053 This entry represents a conserved sequence region found in proteins from viruses, bacteria and eukaryotes. It contains a well-conserved NCEHF motif, though its function in these proteins is unknown.; PDB: 2KYT_A 4DOT_A 4FA0_A.
Probab=93.66 E-value=0.028 Score=41.05 Aligned_cols=31 Identities=26% Similarity=0.468 Sum_probs=17.8
Q ss_pred HHHHHHHHHhccc-CCcccccccccccHHHHH
Q 032500 6 VRTVMEDLAEEYK-GNAYNLITKNCNHFCNDA 36 (139)
Q Consensus 6 v~~~l~~L~~~f~-g~tY~LL~kNCNHFs~~l 36 (139)
.++++++...... ...|||+.+||=||+...
T Consensus 88 ~~~iv~rA~~~lg~~~~Y~l~~nNCEhFa~~c 119 (125)
T PF04970_consen 88 PEEIVERAESRLGKEFEYNLLFNNCEHFATWC 119 (125)
T ss_dssp HHHHHHHHHHTTT-EESS---HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCCccCCCcCCHHHHHHHH
Confidence 3445554443333 348999999999998753
No 4
>PF13387 DUF4105: Domain of unknown function (DUF4105)
Probab=86.47 E-value=0.98 Score=35.01 Aligned_cols=47 Identities=23% Similarity=0.393 Sum_probs=37.7
Q ss_pred CCHHHHHHHHHHHHhcc----cCCcccccccccccHHHHHHHHhcCCCCCh
Q 032500 1 MGPAEVRTVMEDLAEEY----KGNAYNLITKNCNHFCNDACIRLTGNPIPS 47 (139)
Q Consensus 1 Lt~~ev~~~l~~L~~~f----~g~tY~LL~kNCNHFs~~lc~~L~gk~IP~ 47 (139)
|+++|.+.++..|.+.- ..-.||.+..||=.-.-++.....++.++-
T Consensus 105 Ls~ee~~~l~~~l~e~~~~~~~~~~Y~f~~~NCat~i~~~l~~~~~~~l~~ 155 (176)
T PF13387_consen 105 LSPEEKQRLFRHLWENANPENRPYRYNFFTDNCATRIRDLLDKARPGSLPL 155 (176)
T ss_pred CCHHHHHHHHHHHHHhccccccceeehhhhcchHHHHHHHHHHHcCCCeec
Confidence 68999999988886443 445899999999999998888888765543
No 5
>PF05608 DUF778: Protein of unknown function (DUF778); InterPro: IPR008496 This family consists of several eukaryotic proteins of unknown function.
Probab=84.81 E-value=1 Score=34.97 Aligned_cols=39 Identities=33% Similarity=0.582 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHhcccCCcccccccccccHHHHHHHHhc
Q 032500 3 PAEVRTVMEDLAEEYKGNAYNLITKNCNHFCNDACIRLT 41 (139)
Q Consensus 3 ~~ev~~~l~~L~~~f~g~tY~LL~kNCNHFs~~lc~~L~ 41 (139)
.++.++.|.+-.++|....|+|+..||=+|.-.....+.
T Consensus 76 ~~~wD~Av~~a~~~y~~r~yNlf~~NCHSfVA~aLN~m~ 114 (136)
T PF05608_consen 76 AESWDDAVQKASEEYKHRMYNLFTDNCHSFVANALNRMR 114 (136)
T ss_pred HHHHHHHHHHHHHHHhhCceeeeccCcHHHHHHHHHhcc
Confidence 456667777778999999999999999999988887775
No 6
>PF09601 DUF2459: Protein of unknown function (DUF2459); InterPro: IPR011727 This conserved hypothetical protein of unknown function is predominantly found in proteobacteria. Its function is unknown and its genome context is not well-conserved. It is found amid urease genes in at least one species.
Probab=82.59 E-value=1.9 Score=34.11 Aligned_cols=40 Identities=18% Similarity=0.394 Sum_probs=30.8
Q ss_pred CCHHHHHHHHHHHHhcccCC-----------------------cccccccccccHHHHHHHHhc
Q 032500 1 MGPAEVRTVMEDLAEEYKGN-----------------------AYNLITKNCNHFCNDACIRLT 41 (139)
Q Consensus 1 Lt~~ev~~~l~~L~~~f~g~-----------------------tY~LL~kNCNHFs~~lc~~L~ 41 (139)
|+++|++++++.++..|.-+ .|||+ ++|||-+++..+...
T Consensus 98 ls~~~y~~L~~~I~~sf~~~~~g~~~~i~~~y~~~d~Fy~A~G~Y~l~-~TCNtWta~~L~aaG 160 (173)
T PF09601_consen 98 LSEAQYRRLVAFIRASFQRDADGRPIPIGPGYGPDDAFYEAKGRYSLF-NTCNTWTARALKAAG 160 (173)
T ss_pred cCHHHHHHHHHHHHHHhccCCCCCeEEeccccCCCCeeEeeccceEee-cCcHHHHHHHHHHcC
Confidence 57899999999998776643 46655 799999998766543
No 7
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=73.57 E-value=1.1 Score=36.80 Aligned_cols=21 Identities=38% Similarity=0.947 Sum_probs=0.0
Q ss_pred CCCCChHHHHhhhhhhhcccC
Q 032500 42 GNPIPSWVNRLARIGFFCNCV 62 (139)
Q Consensus 42 gk~IP~wVnrLA~iG~~~~Cl 62 (139)
||+||-|+-.|.-++..+.|=
T Consensus 85 GkPIPyWLYKLhGL~~ey~CE 105 (196)
T PF11931_consen 85 GKPIPYWLYKLHGLGVEYKCE 105 (196)
T ss_dssp ---------------------
T ss_pred CCcccHHHHHHhCCCCeeeeE
Confidence 899999999999999999883
No 8
>cd02998 PDI_a_ERp38 PDIa family, endoplasmic reticulum protein 38 (ERp38) subfamily; composed of proteins similar to the P5-like protein first isolated from alfalfa, which contains two redox active TRX (a) domains at the N-terminus, like human P5, and a C-terminal domain with homology to the C-terminal domain of ERp29, unlike human P5. The cDNA clone of this protein (named G1) was isolated from an alfalfa cDNA library by screening with human protein disulfide isomerase (PDI) cDNA. The G1 protein is constitutively expressed in all major organs of the plant and its expression is induced by treatment with tunicamycin, indicating that it may be a glucose-regulated protein. The G1 homolog in the eukaryotic social amoeba Dictyostelium discoideum is also described as a P5-like protein, which is located in the endoplasmic reticulum (ER) despite the absence of an ER-retrieval signal. G1 homologs from Aspergillus niger and Neurospora crassa have also been characterized, and are named TIGA and ER
Probab=66.03 E-value=3.5 Score=27.30 Aligned_cols=46 Identities=11% Similarity=0.139 Sum_probs=35.6
Q ss_pred HHHHHHHHHHhcccC-CcccccccccccHHHHHHHHhcCCCCChHHH
Q 032500 5 EVRTVMEDLAEEYKG-NAYNLITKNCNHFCNDACIRLTGNPIPSWVN 50 (139)
Q Consensus 5 ev~~~l~~L~~~f~g-~tY~LL~kNCNHFs~~lc~~L~gk~IP~wVn 50 (139)
++...++++...|.. +.+.++.=||+....++|+.+....+|.++.
T Consensus 35 ~~~~~~~~~~~~~~~~~~~~~~~id~~~~~~~~~~~~~i~~~P~~~~ 81 (105)
T cd02998 35 NLAPEYEKLAAVFANEDDVVIAKVDADEANKDLAKKYGVSGFPTLKF 81 (105)
T ss_pred hhChHHHHHHHHhCCCCCEEEEEEECCCcchhhHHhCCCCCcCEEEE
Confidence 445667777777763 4688889999997678899998888888664
No 9
>PF15643 Tox-PL-2: Papain fold toxin 2
Probab=49.21 E-value=12 Score=28.00 Aligned_cols=44 Identities=30% Similarity=0.405 Sum_probs=37.4
Q ss_pred CHHHHHHHHHHHHhcccCCcccccccccccHHHHHHHHhcCCCCChHHHHh
Q 032500 2 GPAEVRTVMEDLAEEYKGNAYNLITKNCNHFCNDACIRLTGNPIPSWVNRL 52 (139)
Q Consensus 2 t~~ev~~~l~~L~~~f~g~tY~LL~kNCNHFs~~lc~~L~gk~IP~wVnrL 52 (139)
++.+++..+..+...|. .-.|--|++++.++|..++||.-+-+|
T Consensus 1 ~~~~~~Q~I~~I~~~f~-------~~qC~~cA~Al~~~L~~~gI~Gk~i~l 44 (100)
T PF15643_consen 1 NPAEVRQQIGKIASRFK-------IFQCVECASALKQFLKQAGIPGKIIRL 44 (100)
T ss_pred CHHHHHHHHHHhhcccC-------ceehHHHHHHHHHHHHHCCCCceEEEE
Confidence 46788888899988874 346999999999999999999988884
No 10
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=46.46 E-value=9.3 Score=35.41 Aligned_cols=22 Identities=36% Similarity=0.907 Sum_probs=20.1
Q ss_pred CCCCChHHHHhhhhhhhcccCC
Q 032500 42 GNPIPSWVNRLARIGFFCNCVL 63 (139)
Q Consensus 42 gk~IP~wVnrLA~iG~~~~ClL 63 (139)
||+||-|+-.|.-++..++|=+
T Consensus 385 GkPiPyWLyKLHGL~~ey~CEI 406 (497)
T KOG2636|consen 385 GKPIPYWLYKLHGLDIEYNCEI 406 (497)
T ss_pred CCcCchHHHhhcCCCcccceee
Confidence 8999999999999999999843
No 11
>KOG3150 consensus Uncharacterized conserved protein [Function unknown]
Probab=43.55 E-value=22 Score=29.03 Aligned_cols=39 Identities=21% Similarity=0.368 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHhcccCCcccccccccccHHHHHHHHhc
Q 032500 3 PAEVRTVMEDLAEEYKGNAYNLITKNCNHFCNDACIRLT 41 (139)
Q Consensus 3 ~~ev~~~l~~L~~~f~g~tY~LL~kNCNHFs~~lc~~L~ 41 (139)
+...++.+.+-.++|...+|||+.-||-.|-.-...++.
T Consensus 92 ~~~wD~Av~~as~~y~hr~hNi~cdNCHShVA~aLn~mr 130 (182)
T KOG3150|consen 92 ARTWDNAVSKASREYKHRTHNIFCDNCHSHVANALNRMR 130 (182)
T ss_pred CchHHHHHHHHHHHhhhcccceeeccHHHHHHHHHHHhh
Confidence 445677888889999999999999999988765555554
No 12
>TIGR02117 chp_urease_rgn conserved hypothetical protein. This conserved hypothetical protein of unknown function is found in several Proteobacteria. Its function is unknown and its genome context is not well-conserved. It is found amid urease genes in at least one species.
Probab=43.26 E-value=37 Score=27.76 Aligned_cols=38 Identities=16% Similarity=0.377 Sum_probs=26.0
Q ss_pred CCHHHHHHHHHHHHhcccC------------------------CcccccccccccHHHHHHHH
Q 032500 1 MGPAEVRTVMEDLAEEYKG------------------------NAYNLITKNCNHFCNDACIR 39 (139)
Q Consensus 1 Lt~~ev~~~l~~L~~~f~g------------------------~tY~LL~kNCNHFs~~lc~~ 39 (139)
++++|++++++.+++.|.- +.|||| ++||+-+++..+.
T Consensus 128 vs~~qy~~L~~~I~~sf~~~~~g~~~~l~~~~yg~~d~Fy~A~G~Y~l~-~TCNtWta~aL~a 189 (208)
T TIGR02117 128 VSENQYNRLMDFISASFVRDAEGRVIPLPGGIYGDSDAFYAANGRYNAL-NTCNTWTAAALRS 189 (208)
T ss_pred cCHHHHHHHHHHHHHhcCcCCCCCceecCCCCCCCCceeEeeeeeEEee-ccchHHHHHHHHH
Confidence 5778888888877643321 235655 6899999886653
No 13
>PF04412 DUF521: Protein of unknown function (DUF521); InterPro: IPR007506 This is a group of hypothetical proteins.
Probab=42.62 E-value=23 Score=31.74 Aligned_cols=43 Identities=21% Similarity=0.405 Sum_probs=35.2
Q ss_pred CCHHHHHHHHHHHHhcccCCcccccccccccHH----HHHHHHhcCCC
Q 032500 1 MGPAEVRTVMEDLAEEYKGNAYNLITKNCNHFC----NDACIRLTGNP 44 (139)
Q Consensus 1 Lt~~ev~~~l~~L~~~f~g~tY~LL~kNCNHFs----~~lc~~L~gk~ 44 (139)
++.+|++++.+++. ....+.-|++.=-|+||+ .+++..|-|++
T Consensus 270 i~~~dl~~~~~~l~-~~~~~~~D~V~lGcPH~S~~El~~ia~ll~gr~ 316 (400)
T PF04412_consen 270 ITDADLEEVYEELN-TAGDEKVDLVALGCPHLSLEELREIAELLEGRK 316 (400)
T ss_pred eCHHHHHHHHHHhc-cCCCCCCCEEEECCCCCCHHHHHHHHHHHhCCC
Confidence 46788888888886 667788899999999999 56777887876
No 14
>cd03003 PDI_a_ERdj5_N PDIa family, N-terminal ERdj5 subfamily; ERdj5, also known as JPDI and macrothioredoxin, is a protein containing an N-terminal DnaJ domain and four redox active TRX domains. This subfamily is comprised of the first TRX domain of ERdj5 located after the DnaJ domain at the N-terminal half of the protein. ERdj5 is a ubiquitous protein localized in the endoplasmic reticulum (ER) and is abundant in secretory cells. It's transcription is induced during ER stress. It interacts with BiP through its DnaJ domain in an ATP-dependent manner. BiP, an ER-resident member of the Hsp70 chaperone family, functions in ER-associated degradation and protein translocation.
Probab=40.08 E-value=41 Score=22.60 Aligned_cols=43 Identities=21% Similarity=0.303 Sum_probs=32.1
Q ss_pred HHHHHHHHHHhcccCCcccccccccccHHHHHHHHhcCCCCChHH
Q 032500 5 EVRTVMEDLAEEYKGNAYNLITKNCNHFCNDACIRLTGNPIPSWV 49 (139)
Q Consensus 5 ev~~~l~~L~~~f~g~tY~LL~kNCNHFs~~lc~~L~gk~IP~wV 49 (139)
++...+++++.+|.+. ..+..=||... .++|+.+..+.+|..+
T Consensus 35 ~~~p~~~~~a~~~~~~-~~~~~vd~~~~-~~~~~~~~v~~~Pt~~ 77 (101)
T cd03003 35 DLAPTWREFAKEMDGV-IRIGAVNCGDD-RMLCRSQGVNSYPSLY 77 (101)
T ss_pred HhHHHHHHHHHHhcCc-eEEEEEeCCcc-HHHHHHcCCCccCEEE
Confidence 4556677788888654 77888899876 5688888888888743
No 15
>TIGR03544 DivI1A_domain DivIVA domain. This model describes a domain found in Bacillus subtilis cell division initiation protein DivIVA, and homologs, toward the N-terminus. It is also found as a repeated domain in certain other proteins, including family TIGR03543.
Probab=37.35 E-value=34 Score=20.08 Aligned_cols=16 Identities=25% Similarity=0.522 Sum_probs=13.2
Q ss_pred CHHHHHHHHHHHHhcc
Q 032500 2 GPAEVRTVMEDLAEEY 17 (139)
Q Consensus 2 t~~ev~~~l~~L~~~f 17 (139)
.++||++||+++..+|
T Consensus 19 ~~~eVD~fLd~v~~~~ 34 (34)
T TIGR03544 19 DAAEVDAFLDRVADDL 34 (34)
T ss_pred CHHHHHHHHHHHHHhC
Confidence 5789999999988764
No 16
>PF04046 PSP: PSP; InterPro: IPR006568 PSP is a proline-rich domain of unknown function found in spliceosome associated proteins.
Probab=36.54 E-value=47 Score=21.69 Aligned_cols=30 Identities=27% Similarity=0.561 Sum_probs=22.8
Q ss_pred HHHHHHHhc--CCCCChHHHHhhhhhhhcccCCCcccc
Q 032500 33 CNDACIRLT--GNPIPSWVNRLARIGFFCNCVLPATLN 68 (139)
Q Consensus 33 s~~lc~~L~--gk~IP~wVnrLA~iG~~~~ClLP~~~~ 68 (139)
++++-..|. ...+|.||.++.++| .|..+.
T Consensus 6 S~~LR~ALg~~~~~~PPwl~~M~~~G------~PP~y~ 37 (48)
T PF04046_consen 6 SDELREALGMQENDPPPWLYRMRRLG------YPPGYP 37 (48)
T ss_pred CHHHHHHcCCCCCCCChHHHHHHhcC------CCCCCc
Confidence 456666664 577999999999999 676663
No 17
>cd01355 AcnX Putative Aconitase X catalytic domain. Putative Aconitase X catalytic domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure prediction. The functions have not yet been experimentally characterized. Thus, the prediction should be treated with caution.
Probab=35.26 E-value=54 Score=29.49 Aligned_cols=40 Identities=20% Similarity=0.278 Sum_probs=26.5
Q ss_pred CHHHHHHHHHHHHhcccCCcccccccccccHHH----HHHHHhcCC
Q 032500 2 GPAEVRTVMEDLAEEYKGNAYNLITKNCNHFCN----DACIRLTGN 43 (139)
Q Consensus 2 t~~ev~~~l~~L~~~f~g~tY~LL~kNCNHFs~----~lc~~L~gk 43 (139)
+++|++++.+++.... ++-||+.=-|+||+- +++..|-|+
T Consensus 261 ~~~dl~~~~~~~~~~~--~~~dlv~lGcPH~Sl~E~~~la~ll~g~ 304 (389)
T cd01355 261 TRADLDEARENLNADG--SEPDLVVLGCPHASLEELRKLADLLAGR 304 (389)
T ss_pred cHHHHHHHHHhhcCcc--cCCCEEEecCCCCCHHHHHHHHHHhcCC
Confidence 5667777777763222 246889999999994 445555565
No 18
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=34.33 E-value=92 Score=24.41 Aligned_cols=51 Identities=24% Similarity=0.331 Sum_probs=33.0
Q ss_pred CCHHHHHHHHHHHHhcccCCcccccccccccHHHHHHHHhc--CCCCChHHHHhhhhhhh
Q 032500 1 MGPAEVRTVMEDLAEEYKGNAYNLITKNCNHFCNDACIRLT--GNPIPSWVNRLARIGFF 58 (139)
Q Consensus 1 Lt~~ev~~~l~~L~~~f~g~tY~LL~kNCNHFs~~lc~~L~--gk~IP~wVnrLA~iG~~ 58 (139)
|+.+|+.+++...-... +. .....|+++....|. .+++|.+||.+++....
T Consensus 192 l~~~e~~~~l~~~l~~~-g~------~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~ 244 (269)
T TIGR03015 192 LDREETREYIEHRLERA-GN------RDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLL 244 (269)
T ss_pred CCHHHHHHHHHHHHHHc-CC------CCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHH
Confidence 46677777776554322 11 111247888888875 58899999998887643
No 19
>PF10138 vWA-TerF-like: vWA found in TerF C terminus ; InterPro: IPR019303 This entry represents the N-terminal domain of a family of proteins that confer resistance to the metalloid element tellurium and its salts.
Probab=33.33 E-value=26 Score=28.74 Aligned_cols=53 Identities=15% Similarity=0.428 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHh--------cccCCccccccc----------ccccHH---------HHHHHHhcCCCCChHHHHhhhh
Q 032500 3 PAEVRTVMEDLAE--------EYKGNAYNLITK----------NCNHFC---------NDACIRLTGNPIPSWVNRLARI 55 (139)
Q Consensus 3 ~~ev~~~l~~L~~--------~f~g~tY~LL~k----------NCNHFs---------~~lc~~L~gk~IP~wVnrLA~i 55 (139)
+.++..+|.+-+. .+..+.|.+|++ ||+.|+ ++|-..|. ...|.|+..+-.-
T Consensus 119 ~~~~~~~i~~as~~pifwqFVgiG~~~f~fL~kLD~l~gR~vDNa~Ff~~~d~~~lsD~eLy~~LL-~Efp~Wl~~ar~~ 197 (200)
T PF10138_consen 119 RRAIEKLIREASDEPIFWQFVGIGDSNFGFLEKLDDLAGRVVDNAGFFAIDDIDELSDEELYDRLL-AEFPDWLKAARAK 197 (200)
T ss_pred hHHHHHHHHhccCCCeeEEEEEecCCcchHHHHhhccCCcccCCcCeEecCCcccCCHHHHHHHHH-HHHHHHHHHHHHc
Confidence 3455555555542 133455666553 999998 45677777 8899999864443
Q ss_pred h
Q 032500 56 G 56 (139)
Q Consensus 56 G 56 (139)
|
T Consensus 198 g 198 (200)
T PF10138_consen 198 G 198 (200)
T ss_pred C
Confidence 3
No 20
>cd03004 PDI_a_ERdj5_C PDIa family, C-terminal ERdj5 subfamily; ERdj5, also known as JPDI and macrothioredoxin, is a protein containing an N-terminal DnaJ domain and four redox active TRX domains. This subfamily is composed of the three TRX domains located at the C-terminal half of the protein. ERdj5 is a ubiquitous protein localized in the endoplasmic reticulum (ER) and is abundant in secretory cells. It's transcription is induced during ER stress. It interacts with BiP through its DnaJ domain in an ATP-dependent manner. BiP, an ER-resident member of the Hsp70 chaperone family, functions in ER-associated degradation and protein translocation. Also included in the alignment is the single complete TRX domain of an uncharacterized protein from Tetraodon nigroviridis, which also contains a DnaJ domain at its N-terminus.
Probab=32.88 E-value=74 Score=21.32 Aligned_cols=43 Identities=14% Similarity=0.317 Sum_probs=31.0
Q ss_pred HHHHHHHHHHhcccCCcccccccccccHHHHHHHHhcCCCCChHH
Q 032500 5 EVRTVMEDLAEEYKGNAYNLITKNCNHFCNDACIRLTGNPIPSWV 49 (139)
Q Consensus 5 ev~~~l~~L~~~f~g~tY~LL~kNCNHFs~~lc~~L~gk~IP~wV 49 (139)
.+...+++++.+|.+ ...+..=||... .++|+.+..+.+|..+
T Consensus 36 ~~~p~~~~~~~~~~~-~~~~~~vd~~~~-~~~~~~~~i~~~Pt~~ 78 (104)
T cd03004 36 ALLPELRKAARALKG-KVKVGSVDCQKY-ESLCQQANIRAYPTIR 78 (104)
T ss_pred HHHHHHHHHHHHhcC-CcEEEEEECCch-HHHHHHcCCCcccEEE
Confidence 345667777777754 477888899886 5688888888888743
No 21
>smart00581 PSP proline-rich domain in spliceosome associated proteins.
Probab=32.11 E-value=63 Score=21.63 Aligned_cols=30 Identities=23% Similarity=0.520 Sum_probs=22.7
Q ss_pred HHHHHHHhc--CCCCChHHHHhhhhhhhcccCCCcccc
Q 032500 33 CNDACIRLT--GNPIPSWVNRLARIGFFCNCVLPATLN 68 (139)
Q Consensus 33 s~~lc~~L~--gk~IP~wVnrLA~iG~~~~ClLP~~~~ 68 (139)
++++-..|. ...+|-|+.++.++| .|.++.
T Consensus 10 S~~LR~ALG~~~~~pPPWl~~Mq~~G------~PPsYp 41 (54)
T smart00581 10 SDELREALGLPPGQPPPWLYRMRRLG------YPPGYP 41 (54)
T ss_pred CHHHHHHcCCCCCCCChHHHHHHHHC------CCCCCc
Confidence 466767775 467999999999999 666553
No 22
>cd02947 TRX_family TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox state of target proteins via the reversible oxidation of an active site dithiol, present in a CXXC motif, partially exposed at the protein's surface. TRX reduces protein disulfide bonds, resulting in a disulfide bond at its active site. Oxidized TRX is converted to the active form by TRX reductase, using reducing equivalents derived from either NADPH or ferredoxins. By altering their redox state, TRX regulates the functions of at least 30 target proteins, some of which are enzymes and transcription factors. It also plays an important role in the defense against oxidative stress by directly reducing hydrogen peroxide and certain radicals, and by serving as a reductant for peroxiredoxins. At least two major types of functio
Probab=31.32 E-value=38 Score=20.88 Aligned_cols=42 Identities=19% Similarity=0.344 Sum_probs=27.1
Q ss_pred HHHHHHHHHHhcccCCcccccccccccHHHHHHHHhcCCCCChHH
Q 032500 5 EVRTVMEDLAEEYKGNAYNLITKNCNHFCNDACIRLTGNPIPSWV 49 (139)
Q Consensus 5 ev~~~l~~L~~~f~g~tY~LL~kNCNHFs~~lc~~L~gk~IP~wV 49 (139)
++...++++... ...++++.-||++ ..+++..+....+|.++
T Consensus 27 ~~~~~~~~~~~~--~~~~~~~~i~~~~-~~~~~~~~~v~~~P~~~ 68 (93)
T cd02947 27 AIAPVLEELAEE--YPKVKFVKVDVDE-NPELAEEYGVRSIPTFL 68 (93)
T ss_pred HhhHHHHHHHHH--CCCceEEEEECCC-ChhHHHhcCcccccEEE
Confidence 455566666655 4567778888887 44566666666677544
No 23
>PRK09381 trxA thioredoxin; Provisional
Probab=30.11 E-value=42 Score=22.82 Aligned_cols=43 Identities=16% Similarity=0.382 Sum_probs=29.2
Q ss_pred HHHHHHHHHHhcccCCcccccccccccHHHHHHHHhcCCCCChHH
Q 032500 5 EVRTVMEDLAEEYKGNAYNLITKNCNHFCNDACIRLTGNPIPSWV 49 (139)
Q Consensus 5 ev~~~l~~L~~~f~g~tY~LL~kNCNHFs~~lc~~L~gk~IP~wV 49 (139)
.+...+++|..+|.+ .+.+..=||.+. .++++.+..+.+|.++
T Consensus 38 ~~~p~~~~l~~~~~~-~~~~~~vd~~~~-~~~~~~~~v~~~Pt~~ 80 (109)
T PRK09381 38 MIAPILDEIADEYQG-KLTVAKLNIDQN-PGTAPKYGIRGIPTLL 80 (109)
T ss_pred HHhHHHHHHHHHhCC-CcEEEEEECCCC-hhHHHhCCCCcCCEEE
Confidence 345566777777765 477788888776 4556677777777644
No 24
>cd02961 PDI_a_family Protein Disulfide Isomerase (PDIa) family, redox active TRX domains; composed of eukaryotic proteins involved in oxidative protein folding in the endoplasmic reticulum (ER) by acting as catalysts and folding assistants. Members of this family include PDI and PDI-related proteins like ERp72, ERp57 (or ERp60), ERp44, P5, PDIR, ERp46 and the transmembrane PDIs. PDI, ERp57, ERp72, P5, PDIR and ERp46 are all oxidases, catalyzing the formation of disulfide bonds of newly synthesized polypeptides in the ER. They also exhibit reductase activity in acting as isomerases to correct any non-native disulfide bonds, as well as chaperone activity to prevent protein aggregation and facilitate the folding of newly synthesized proteins. These proteins usually contain multiple copies of a redox active TRX (a) domain containing a CXXC motif, and may also contain one or more redox inactive TRX-like (b) domains. Only one a domain is required for the oxidase function but multiple copies
Probab=30.06 E-value=93 Score=19.60 Aligned_cols=41 Identities=24% Similarity=0.372 Sum_probs=27.2
Q ss_pred HHHHHHHHHhccc-CCcccccccccccHHHHHHHHhcCCCCCh
Q 032500 6 VRTVMEDLAEEYK-GNAYNLITKNCNHFCNDACIRLTGNPIPS 47 (139)
Q Consensus 6 v~~~l~~L~~~f~-g~tY~LL~kNCNHFs~~lc~~L~gk~IP~ 47 (139)
+...++++...+. .+.+.+..=||-. -.+++..+....+|.
T Consensus 33 ~~~~~~~~~~~~~~~~~~~~~~v~~~~-~~~~~~~~~i~~~Pt 74 (101)
T cd02961 33 LAPEYEKLAKELKGDGKVVVAKVDCTA-NNDLCSEYGVRGYPT 74 (101)
T ss_pred hhHHHHHHHHHhccCCceEEEEeeccc-hHHHHHhCCCCCCCE
Confidence 4445566666664 5667777777776 567777777777776
No 25
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=28.42 E-value=27 Score=31.88 Aligned_cols=23 Identities=26% Similarity=0.719 Sum_probs=20.5
Q ss_pred CCCCChHHHHhhhhhhhcccCCC
Q 032500 42 GNPIPSWVNRLARIGFFCNCVLP 64 (139)
Q Consensus 42 gk~IP~wVnrLA~iG~~~~ClLP 64 (139)
|++||.|+-+|..++..|+|=+=
T Consensus 358 G~PmP~WL~klhgLd~ef~CEIC 380 (470)
T COG5188 358 GLPMPRWLCKLHGLDIEFECEIC 380 (470)
T ss_pred CCCCchHHHHhcCCCcceeeeec
Confidence 79999999999999999998543
No 26
>PHA03308 transcriptional regulator ICP4; Provisional
Probab=27.86 E-value=66 Score=32.40 Aligned_cols=15 Identities=33% Similarity=0.552 Sum_probs=7.6
Q ss_pred ccCccCCccccCCCCCc
Q 032500 116 GRSRTRSRRALAPASPL 132 (139)
Q Consensus 116 ~~~~~~~~~~~~~~~~~ 132 (139)
+++++|++ |||--.+
T Consensus 1293 ~KKRGRK~--LPpe~Ka 1307 (1463)
T PHA03308 1293 GKRRGRQR--LPIRDRV 1307 (1463)
T ss_pred ccccCCCC--CChHHhh
Confidence 34444444 8875433
No 27
>PF11022 DUF2611: Protein of unknown function (DUF2611); InterPro: IPR021278 This family is conserved in the Dikarya of Fungi. The function is not known.
Probab=27.59 E-value=50 Score=23.13 Aligned_cols=29 Identities=24% Similarity=0.244 Sum_probs=24.0
Q ss_pred hcCCCCChHHHHhhhhhhhcccCCCcccc
Q 032500 40 LTGNPIPSWVNRLARIGFFCNCVLPATLN 68 (139)
Q Consensus 40 L~gk~IP~wVnrLA~iG~~~~ClLP~~~~ 68 (139)
+.|+.||.++.-++.||.++-.+.+....
T Consensus 7 I~Gr~V~~H~LAi~tLg~~~~~~~~~~~g 35 (71)
T PF11022_consen 7 IFGRQVQSHYLAIATLGTVFGGVYLATSG 35 (71)
T ss_pred ecccccccchhHHHHHHHHHHHheeccCC
Confidence 55899999999999999888777775543
No 28
>PF10523 BEN: BEN domain; InterPro: IPR018379 The BEN domain is found in diverse proteins including: SMAR1 (Scaffold/Matrix attachment region-binding protein 1; also known as BANP), a tumour-suppressor MAR-binding protein that down-regulates Cyclin D1 expression by recruiting HDAC1-mSin3A co-repressor complex at Cyclin D1 promoter locus; SMAR1 is the target of prostaglandin A2 (PGA2) induced growth arrest [, ]. NAC1, a novel member of the POZ/BTB (Pox virus and Zinc finger/Bric-a-bracTramtrack Broad complex), but which varies from other proteins of this class in that it lacks the characteristic DNA-binding motif []. Mod(mdg4) isoform C, the modifier of the mdg4 locus in Drosophila melanogaster (Fruit fly), where mdg4 encodes chromatin proteins which are involved in position effect variegation, establishment of chromatin boundaries, nerve path finding, meiotic chromosome pairing and apoptosis []. Trans-splicing of Mod(mdg4) produces at least 26 transcripts. E5R protein from Chordopoxvirus virosomes, which is found in cytoplasmic sites of viral DNA replication []. Several proteins of polydnaviruses. The BEN domain is predicted to function as an adaptor for the higher-order structuring of chromatin, and recruitment of chromatin modifying factors in transcriptional regulation. It has been suggested to mediate protein-DNA and protein-protein interactions during chromatin organisation and transcription. The presence of BEN domains in a poxviral early virosomal protein and in polydnaviral proteins also suggests a possible role in the organisation of viral DNA during replication or transcription. They are generally linked to other globular domains with functions related to transcriptional regulation and chromatin structure, such as BTB, C4DM, and C2H2 fingers []. This domain is predicted to form an all-alpha fold with four conserved helices. Its conservation pattern revealed several conserved residues, most of which have hydrophobic side-chains and are likely to stabilise the fold through helix-helix packing [].
Probab=27.45 E-value=77 Score=20.64 Aligned_cols=38 Identities=13% Similarity=0.375 Sum_probs=30.3
Q ss_pred CCHHHHHHHHHHHHhcccCCcccccccccccHHHHHHHHh
Q 032500 1 MGPAEVRTVMEDLAEEYKGNAYNLITKNCNHFCNDACIRL 40 (139)
Q Consensus 1 Lt~~ev~~~l~~L~~~f~g~tY~LL~kNCNHFs~~lc~~L 40 (139)
|++..+..|.+-+...|.... +.+. .|..-.++.|...
T Consensus 38 Ld~~kl~~I~~~v~~~~~~~~-~~w~-~~~~~i~~~~~~~ 75 (79)
T PF10523_consen 38 LDPNKLSAIRNYVEERFPSEK-RKWR-ECRQSINNKCRDP 75 (79)
T ss_pred CCHHHHHHHHHHHHHHCCcch-hhHH-HHHHHHHHHHHHH
Confidence 688899999999999999888 4444 8888888877643
No 29
>PTZ00110 helicase; Provisional
Probab=26.98 E-value=62 Score=29.41 Aligned_cols=51 Identities=18% Similarity=0.399 Sum_probs=40.0
Q ss_pred HHHHHHHHHHH----hcccCCcccccccccccHHHHHHHHhc--CCCCChHHHHhhh
Q 032500 4 AEVRTVMEDLA----EEYKGNAYNLITKNCNHFCNDACIRLT--GNPIPSWVNRLAR 54 (139)
Q Consensus 4 ~ev~~~l~~L~----~~f~g~tY~LL~kNCNHFs~~lc~~L~--gk~IP~wVnrLA~ 54 (139)
..++.|+++.. ..=.|..|.++..+......++...|. +..||.|+..++.
T Consensus 456 ~s~~~yvqRiGRtGR~G~~G~ai~~~~~~~~~~~~~l~~~l~~~~q~vp~~l~~~~~ 512 (545)
T PTZ00110 456 NQIEDYVHRIGRTGRAGAKGASYTFLTPDKYRLARDLVKVLREAKQPVPPELEKLSN 512 (545)
T ss_pred CCHHHHHHHhcccccCCCCceEEEEECcchHHHHHHHHHHHHHccCCCCHHHHHHHH
Confidence 45677888775 223566799999998888999998885 7899999999765
No 30
>cd02956 ybbN ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria.
Probab=26.86 E-value=89 Score=20.51 Aligned_cols=42 Identities=26% Similarity=0.490 Sum_probs=31.0
Q ss_pred HHHHHHHHHhcccCCcccccccccccHHHHHHHHhcCCCCChHH
Q 032500 6 VRTVMEDLAEEYKGNAYNLITKNCNHFCNDACIRLTGNPIPSWV 49 (139)
Q Consensus 6 v~~~l~~L~~~f~g~tY~LL~kNCNHFs~~lc~~L~gk~IP~wV 49 (139)
+...++++...|.+ .+.++.=||.+. .+++..+..+.+|..|
T Consensus 30 ~~~~~~~~~~~~~~-~~~~~~vd~~~~-~~l~~~~~i~~~Pt~~ 71 (96)
T cd02956 30 LLPLLERLAEEYQG-QFVLAKVNCDAQ-PQIAQQFGVQALPTVY 71 (96)
T ss_pred HHHHHHHHHHHhCC-cEEEEEEeccCC-HHHHHHcCCCCCCEEE
Confidence 44567777777865 588888899885 5678888877777754
No 31
>smart00460 TGc Transglutaminase/protease-like homologues. Transglutaminases are enzymes that establish covalent links between proteins. A subset of transglutaminase homologues appear to catalyse the reverse reaction, the hydrolysis of peptide bonds. Proteins with this domain are both extracellular and intracellular, and it is likely that the eukaryotic intracellular proteins are involved in signalling events.
Probab=25.84 E-value=43 Score=20.83 Aligned_cols=25 Identities=24% Similarity=0.286 Sum_probs=21.2
Q ss_pred cccccHHHHHHHHhcCCCCChHHHH
Q 032500 27 KNCNHFCNDACIRLTGNPIPSWVNR 51 (139)
Q Consensus 27 kNCNHFs~~lc~~L~gk~IP~wVnr 51 (139)
-+|.+|++.++..|-..+||.-+-.
T Consensus 7 G~C~~~a~l~~~llr~~GIpar~v~ 31 (68)
T smart00460 7 GTCGEFAALFVALLRSLGIPARVVS 31 (68)
T ss_pred eeeHHHHHHHHHHHHHCCCCeEEEe
Confidence 3799999999999999999986653
No 32
>PF00085 Thioredoxin: Thioredoxin; InterPro: IPR013766 Thioredoxins [, , , ] are small disulphide-containing redox proteins that have been found in all the kingdoms of living organisms. Thioredoxin serves as a general protein disulphide oxidoreductase. It interacts with a broad range of proteins by a redox mechanism based on reversible oxidation of two cysteine thiol groups to a disulphide, accompanied by the transfer of two electrons and two protons. The net result is the covalent interconversion of a disulphide and a dithiol. In the NADPH-dependent protein disulphide reduction, thioredoxin reductase (TR) catalyses the reduction of oxidised thioredoxin (trx) by NADPH using FAD and its redox-active disulphide; reduced thioredoxin then directly reduces the disulphide in the substrate protein []. Thioredoxin is present in prokaryotes and eukaryotes and the sequence around the redox-active disulphide bond is well conserved. All thioredoxins contain a cis-proline located in a loop preceding beta-strand 4, which makes contact with the active site cysteines, and is important for stability and function []. Thioredoxin belongs to a structural family that includes glutaredoxin, glutathione peroxidase, bacterial protein disulphide isomerase DsbA, and the N-terminal domain of glutathione transferase []. Thioredoxins have a beta-alpha unit preceding the motif common to all these proteins. A number of eukaryotic proteins contain domains evolutionary related to thioredoxin, most of them are protein disulphide isomerases (PDI). PDI (5.3.4.1 from EC) [, , ] is an endoplasmic reticulum multi-functional enzyme that catalyses the formation and rearrangement of disulphide bonds during protein folding []. All PDI contains two or three (ERp72) copies of the thioredoxin domain, each of which contributes to disulphide isomerase activity, but which are functionally non-equivalent []. Moreover, PDI exhibits chaperone-like activity towards proteins that contain no disulphide bonds, i.e. behaving independently of its disulphide isomerase activity []. The various forms of PDI which are currently known are: PDI major isozyme; a multifunctional protein that also function as the beta subunit of prolyl 4-hydroxylase (1.14.11.2 from EC), as a component of oligosaccharyl transferase (2.4.1.119 from EC), as thyroxine deiodinase (3.8.1.4 from EC), as glutathione-insulin transhydrogenase (1.8.4.2 from EC) and as a thyroid hormone-binding protein ERp60 (ER-60; 58 Kd microsomal protein). ERp60 was originally thought to be a phosphoinositide-specific phospholipase C isozyme and later to be a protease. ERp72. ERp5. Bacterial proteins that act as thiol:disulphide interchange proteins that allows disulphide bond formation in some periplasmic proteins also contain a thioredoxin domain. These proteins include: Escherichia coli DsbA (or PrfA) and its orthologs in Vibrio cholerae (TtcpG) and Haemophilus influenzae (Por). E. coli DsbC (or XpRA) and its orthologues in Erwinia chrysanthemi and H. influenzae. E. coli DsbD (or DipZ) and its H. influenzae orthologue. E. coli DsbE (or CcmG) and orthologues in H. influenzae. Rhodobacter capsulatus (Rhodopseudomonas capsulata) (HelX), Rhiziobiacae (CycY and TlpA). This entry represents the thioredoxin domain.; GO: 0045454 cell redox homeostasis; PDB: 3ED3_B 1EP7_A 1EP8_B 1TOF_A 2OE3_B 2OE1_B 2OE0_B 1V98_A 3H79_A 3CXG_A ....
Probab=25.82 E-value=1.2e+02 Score=19.53 Aligned_cols=44 Identities=20% Similarity=0.524 Sum_probs=34.2
Q ss_pred HHHHHHHHHHhcccCCcccccccccccHHHHHHHHhcCCCCChHHH
Q 032500 5 EVRTVMEDLAEEYKGNAYNLITKNCNHFCNDACIRLTGNPIPSWVN 50 (139)
Q Consensus 5 ev~~~l~~L~~~f~g~tY~LL~kNCNHFs~~lc~~L~gk~IP~wVn 50 (139)
.+...+++++.+|.+ ...++.=||-.. .++|..+..+.+|..+.
T Consensus 34 ~~~~~~~~~~~~~~~-~v~~~~vd~~~~-~~l~~~~~v~~~Pt~~~ 77 (103)
T PF00085_consen 34 AFKPILEKLAKEYKD-NVKFAKVDCDEN-KELCKKYGVKSVPTIIF 77 (103)
T ss_dssp HHHHHHHHHHHHTTT-TSEEEEEETTTS-HHHHHHTTCSSSSEEEE
T ss_pred cccceeccccccccc-ccccchhhhhcc-chhhhccCCCCCCEEEE
Confidence 456778888888887 777888888744 67899999999988653
No 33
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=24.72 E-value=69 Score=29.77 Aligned_cols=52 Identities=19% Similarity=0.443 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHH----hcccCCcccccccccccHHHHHHHHhc--CCCCChHHHHhhh
Q 032500 3 PAEVRTVMEDLA----EEYKGNAYNLITKNCNHFCNDACIRLT--GNPIPSWVNRLAR 54 (139)
Q Consensus 3 ~~ev~~~l~~L~----~~f~g~tY~LL~kNCNHFs~~lc~~L~--gk~IP~wVnrLA~ 54 (139)
|..|.+||+++. ....|-.--++.-+=.+-.++|+..|+ ++.+|.|...+++
T Consensus 415 P~d~d~YvHRIGRTGR~Gn~G~atsf~n~~~~~i~~~L~~~l~ea~q~vP~wl~~~~~ 472 (482)
T KOG0335|consen 415 PADIDDYVHRIGRTGRVGNGGRATSFFNEKNQNIAKALVEILTEANQEVPQWLSELSR 472 (482)
T ss_pred CcchhhHHHhccccccCCCCceeEEEeccccchhHHHHHHHHHHhcccCcHHHHhhhh
Confidence 345889999986 455666666776555568999999997 7899999998443
No 34
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=23.46 E-value=1e+02 Score=21.62 Aligned_cols=39 Identities=21% Similarity=0.310 Sum_probs=28.6
Q ss_pred HHHHHHHHHhcccCCcccccccccccHHHHHHHHhcCCCCC
Q 032500 6 VRTVMEDLAEEYKGNAYNLITKNCNHFCNDACIRLTGNPIP 46 (139)
Q Consensus 6 v~~~l~~L~~~f~g~tY~LL~kNCNHFs~~lc~~L~gk~IP 46 (139)
..++|+.|++. |-.+-++++|...=..+++++|..-+|+
T Consensus 19 a~e~l~~L~~~--g~~~~~lTNns~~s~~~~~~~L~~~Gi~ 57 (101)
T PF13344_consen 19 AVEALDALRER--GKPVVFLTNNSSRSREEYAKKLKKLGIP 57 (101)
T ss_dssp HHHHHHHHHHT--TSEEEEEES-SSS-HHHHHHHHHHTTTT
T ss_pred HHHHHHHHHHc--CCCEEEEeCCCCCCHHHHHHHHHhcCcC
Confidence 35677788766 6788899999988888888887766666
No 35
>PF14691 Fer4_20: Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; PDB: 2VDC_G 1H7X_C 1H7W_A 1GT8_A 1GTE_B 1GTH_B.
Probab=23.17 E-value=14 Score=27.33 Aligned_cols=50 Identities=30% Similarity=0.566 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHhcccCCcccccccc----------cccH--HHHHHHHhcCCCCChHHHHhhhh
Q 032500 4 AEVRTVMEDLAEEYKGNAYNLITKN----------CNHF--CNDACIRLTGNPIPSWVNRLARI 55 (139)
Q Consensus 4 ~ev~~~l~~L~~~f~g~tY~LL~kN----------CNHF--s~~lc~~L~gk~IP~wVnrLA~i 55 (139)
.+|.+||+.++..=..+.|.++.+. |+|. |+..|.+-.++ |=-|..|.++
T Consensus 40 ~dip~~i~~i~~g~~~~A~~~i~~~np~p~vcGrvCp~p~~Ce~~C~r~~~~--pV~I~~l~r~ 101 (111)
T PF14691_consen 40 IDIPEYIRLIREGNFKEAYELIREDNPFPAVCGRVCPHPKQCESACRRGKGE--PVAIRALERF 101 (111)
T ss_dssp --HHHHHHHHHCT-HHHHHHHHHHH-TTHHHHHHH--GGGSGGGG-GGGST---S--HHHHHHH
T ss_pred CcHHHHHHHHHCCCHHHHHHHHHHhCCCcccccCCCCCcchHHHHccCCCCC--CCcHHHHHHH
Confidence 3678888888866666678877755 9999 99999986443 5556665554
No 36
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=23.02 E-value=80 Score=18.64 Aligned_cols=13 Identities=23% Similarity=0.332 Sum_probs=8.8
Q ss_pred CCHHHHHHHHHHH
Q 032500 1 MGPAEVRTVMEDL 13 (139)
Q Consensus 1 Lt~~ev~~~l~~L 13 (139)
|+.+||++|++..
T Consensus 17 ls~eeir~FL~~~ 29 (30)
T PF08671_consen 17 LSKEEIREFLEFN 29 (30)
T ss_dssp --HHHHHHHHHHH
T ss_pred CCHHHHHHHHHhC
Confidence 5788899888754
No 37
>TIGR01126 pdi_dom protein disulfide-isomerase domain. This model describes a domain of eukaryotic protein disulfide isomerases, generally found in two copies. The high cutoff for total score reflects the expectation of finding both copies. The domain is similar to thioredoxin but the redox-active disulfide region motif is APWCGHCK.
Probab=22.40 E-value=67 Score=20.86 Aligned_cols=42 Identities=24% Similarity=0.290 Sum_probs=25.9
Q ss_pred HHHHHHHHHhcccCC-cccccccccccHHHHHHHHhcCCCCChH
Q 032500 6 VRTVMEDLAEEYKGN-AYNLITKNCNHFCNDACIRLTGNPIPSW 48 (139)
Q Consensus 6 v~~~l~~L~~~f~g~-tY~LL~kNCNHFs~~lc~~L~gk~IP~w 48 (139)
+...+++++..|.++ ...+..-||.+. .++|..+....+|..
T Consensus 31 ~~~~~~~~~~~~~~~~~~~~~~~d~~~~-~~~~~~~~i~~~P~~ 73 (102)
T TIGR01126 31 LAPEYEKLAKELKGDPDIVLAKVDATAE-KDLASRFGVSGFPTI 73 (102)
T ss_pred hChHHHHHHHHhccCCceEEEEEEccch-HHHHHhCCCCcCCEE
Confidence 344556666666655 366666777664 456666766777764
No 38
>TIGR01514 NAPRTase nicotinate phosphoribosyltransferase. This model represents nicotinate phosphoribosyltransferase, the first enzyme in the salvage pathway of NAD biosynthesis from nicontinate (niacin). Members are primary proteobacterial but also include yeasts and Methanosarcina acetivorans. A related family, apparently non-overlapping in species distribution, is TIGR01513. Members of that family differ in substantially in sequence and have a long C-terminal extension missing from this family, but are proposed also to act as nicotinate phosphoribosyltransferase (see model TIGR01513).
Probab=22.33 E-value=42 Score=30.16 Aligned_cols=42 Identities=10% Similarity=0.117 Sum_probs=35.2
Q ss_pred HHHHHHHHHHH-hcccCCcccccccccccHHHHHHHHhcCCCC
Q 032500 4 AEVRTVMEDLA-EEYKGNAYNLITKNCNHFCNDACIRLTGNPI 45 (139)
Q Consensus 4 ~ev~~~l~~L~-~~f~g~tY~LL~kNCNHFs~~lc~~L~gk~I 45 (139)
.++++.|+.|. -.|..+.++-|.++|+.|..++..+|-+-+.
T Consensus 46 ~gl~~~i~~l~~l~ft~eel~yL~~~~~~~~~~fl~~L~~frf 88 (394)
T TIGR01514 46 EALREEISALGNLRFTDDEIEYLKQELPYLKSDYIDYLRNFRF 88 (394)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHhccCCCCHHHHHHHHhCCC
Confidence 46677777776 5799999999999999999999999987555
No 39
>TIGR00411 redox_disulf_1 small redox-active disulfide protein 1. This protein is homologous to a family of proteins that includes thioredoxins, glutaredoxins, protein-disulfide isomerases, and others, some of which have several such domains. The sequence of this protein at the redox-active disufide site, CPYC, matches glutaredoxins rather than thioredoxins, although its overall sequence seems closer to thioredoxins. It is suggested to be a ribonucleotide-reducing system component distinct from thioredoxin or glutaredoxin.
Probab=22.14 E-value=1.3e+02 Score=18.90 Aligned_cols=43 Identities=16% Similarity=0.170 Sum_probs=29.6
Q ss_pred HHHHHHHHHHhcccCCcccccccccccHHHHHHHHhcCCCCChHH
Q 032500 5 EVRTVMEDLAEEYKGNAYNLITKNCNHFCNDACIRLTGNPIPSWV 49 (139)
Q Consensus 5 ev~~~l~~L~~~f~g~tY~LL~kNCNHFs~~lc~~L~gk~IP~wV 49 (139)
++..+++++..+|.++ +.++.=|.+++-+ +++....+.+|.-+
T Consensus 16 ~~~~~l~~l~~~~~~~-~~~~~vd~~~~~~-~~~~~~v~~vPt~~ 58 (82)
T TIGR00411 16 AAKRVVEEVAKEMGDA-VEVEYINVMENPQ-KAMEYGIMAVPAIV 58 (82)
T ss_pred HHHHHHHHHHHHhcCc-eEEEEEeCccCHH-HHHHcCCccCCEEE
Confidence 4567788888888644 7788888887764 34555556677654
No 40
>cd02995 PDI_a_PDI_a'_C PDIa family, C-terminal TRX domain (a') subfamily; composed of the C-terminal redox active a' domains of PDI, ERp72, ERp57 (or ERp60) and EFP1. PDI, ERp72 and ERp57 are endoplasmic reticulum (ER)-resident eukaryotic proteins involved in oxidative protein folding. They are oxidases, catalyzing the formation of disulfide bonds of newly synthesized polypeptides in the ER. They also exhibit reductase activity in acting as isomerases to correct any non-native disulfide bonds, as well as chaperone activity to prevent protein aggregation and facilitate the folding of newly synthesized proteins. PDI and ERp57 have the abb'a' domain structure (where a and a' are redox active TRX domains while b and b' are redox inactive TRX-like domains). PDI also contains an acidic region (c domain) after the a' domain that is absent in ERp57. ERp72 has an additional a domain at the N-terminus (a"abb'a' domain structure). ERp57 interacts with the lectin chaperones, calnexin and calreticu
Probab=21.97 E-value=1.3e+02 Score=19.67 Aligned_cols=42 Identities=19% Similarity=0.317 Sum_probs=26.2
Q ss_pred HHHHHHHHHhcccC-CcccccccccccHHHHHHHHhcCCCCChHH
Q 032500 6 VRTVMEDLAEEYKG-NAYNLITKNCNHFCNDACIRLTGNPIPSWV 49 (139)
Q Consensus 6 v~~~l~~L~~~f~g-~tY~LL~kNCNHFs~~lc~~L~gk~IP~wV 49 (139)
+...+++++..|.+ ....+..-||... +++..+....+|..+
T Consensus 36 ~~~~~~~~~~~~~~~~~~~~~~id~~~~--~~~~~~~~~~~Pt~~ 78 (104)
T cd02995 36 LAPIYEELAEKLKGDDNVVIAKMDATAN--DVPSEFVVDGFPTIL 78 (104)
T ss_pred HhhHHHHHHHHhcCCCCEEEEEEeCcch--hhhhhccCCCCCEEE
Confidence 44556667777766 4566777788763 456655556666644
No 41
>PLN02172 flavin-containing monooxygenase FMO GS-OX
Probab=21.92 E-value=1.6e+02 Score=26.21 Aligned_cols=66 Identities=11% Similarity=0.050 Sum_probs=44.0
Q ss_pred HHHHHHHHHHhcccCCc-ccccccccccHHHHHHHHhcCCCCChHHHHhhhhhhhcccCCCcccccC
Q 032500 5 EVRTVMEDLAEEYKGNA-YNLITKNCNHFCNDACIRLTGNPIPSWVNRLARIGFFCNCVLPATLNST 70 (139)
Q Consensus 5 ev~~~l~~L~~~f~g~t-Y~LL~kNCNHFs~~lc~~L~gk~IP~wVnrLA~iG~~~~ClLP~~~~~t 70 (139)
+++++.+.+...-.+.. .|.+...--.|+|+++....-++++.|+..+-+......+--|......
T Consensus 363 ~~~~~~~~~~~~g~~~r~~h~~~~~~~~y~~~la~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~r~~ 429 (461)
T PLN02172 363 DINAWYASLEALGIPKRYTHKLGKIQSEYLNWIAEECGCPLVEHWRYQEVDRGYQRLVSQPETYRDE 429 (461)
T ss_pred HHHHHHHHHHhcCCCCceeEEcCccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhCHHhhccc
Confidence 34455555543222223 3666555667899999987789999999999887776666666665443
No 42
>PF03246 Pneumo_ncap: Pneumovirus nucleocapsid protein; InterPro: IPR004930 This family is the Pneumovirus nucleocapsid protein. It is the most abundant protein in the virion and an important element in conferring helical symmetry on the nucleoprotein core as well as interacting with the M protein during virion formation.; GO: 0019013 viral nucleocapsid; PDB: 2YHQ_D 2YHP_P 2WJ8_T 2YHM_D.
Probab=21.79 E-value=82 Score=28.34 Aligned_cols=32 Identities=22% Similarity=0.268 Sum_probs=19.9
Q ss_pred HHHHHHHHHHhcccCCcccccc---------cccccHHHHHHH
Q 032500 5 EVRTVMEDLAEEYKGNAYNLIT---------KNCNHFCNDACI 38 (139)
Q Consensus 5 ev~~~l~~L~~~f~g~tY~LL~---------kNCNHFs~~lc~ 38 (139)
||.++..+|..+ ..-|||+. -||+||+.-+..
T Consensus 286 evye~~~~~g~e--ag~~hi~~~pka~llslt~~p~f~svvlg 326 (391)
T PF03246_consen 286 EVYEYAQKLGGE--AGFYHIRNNPKASLLSLTQFPHFSSVVLG 326 (391)
T ss_dssp HHHHHHHHHGGG--GGGTTTTT-GGGGGG-STT-HHHHHHHHH
T ss_pred HHHHHHHHhCch--hhhHHHHhCchhhhhhhhcCCchhheeec
Confidence 566666777643 23467665 499999976544
No 43
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=21.05 E-value=1.5e+02 Score=18.70 Aligned_cols=29 Identities=10% Similarity=0.138 Sum_probs=21.3
Q ss_pred HHHHhcccCCcccccccccccHHHHHHHH
Q 032500 11 EDLAEEYKGNAYNLITKNCNHFCNDACIR 39 (139)
Q Consensus 11 ~~L~~~f~g~tY~LL~kNCNHFs~~lc~~ 39 (139)
..+...|..-.++.+.+..|-..+.+++.
T Consensus 55 ~~~~~~~~~~~~~~i~r~~N~~A~~LA~~ 83 (87)
T PF13456_consen 55 RSLLDRFWNVSVSHIPREQNKVADALAKF 83 (87)
T ss_dssp HHHHCCCSCEEEEE--GGGSHHHHHHHHH
T ss_pred hhhhccccceEEEEEChHHhHHHHHHHHH
Confidence 34456688888999999999999998764
No 44
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=20.89 E-value=57 Score=30.37 Aligned_cols=20 Identities=30% Similarity=0.720 Sum_probs=17.3
Q ss_pred HHHhcCCCCChHHHHhhhhh
Q 032500 37 CIRLTGNPIPSWVNRLARIG 56 (139)
Q Consensus 37 c~~L~gk~IP~wVnrLA~iG 56 (139)
+.-|.+..||.|++|+-++|
T Consensus 192 al~l~~~d~P~~~yRMR~lG 211 (485)
T KOG2673|consen 192 ALGLSPGDPPEWKYRMRRLG 211 (485)
T ss_pred hhcCCCCCchHHHHHHhhcc
Confidence 34566899999999999999
No 45
>cd03001 PDI_a_P5 PDIa family, P5 subfamily; composed of eukaryotic proteins similar to human P5, a PDI-related protein with a domain structure of aa'b (where a and a' are redox active TRX domains and b is a redox inactive TRX-like domain). Like PDI, P5 is located in the endoplasmic reticulum (ER) and displays both isomerase and chaperone activities, which are independent of each other. Compared to PDI, the isomerase and chaperone activities of P5 are lower. The first cysteine in the CXXC motif of both redox active domains in P5 is necessary for isomerase activity. The P5 gene was first isolated as an amplified gene from a hydroxyurea-resistant hamster cell line. The zebrafish P5 homolog has been implicated to play a critical role in establishing left/right asymmetries in the embryonic midline. Some members of this subfamily are P5-like proteins containing only one redox active TRX domain.
Probab=20.79 E-value=1.6e+02 Score=19.32 Aligned_cols=41 Identities=10% Similarity=0.129 Sum_probs=25.5
Q ss_pred HHHHHHHHHHhcccCCcccccccccccHHHHHHHHhcCCCCCh
Q 032500 5 EVRTVMEDLAEEYKGNAYNLITKNCNHFCNDACIRLTGNPIPS 47 (139)
Q Consensus 5 ev~~~l~~L~~~f~g~tY~LL~kNCNHFs~~lc~~L~gk~IP~ 47 (139)
++...++++..+|.+ .+.+..-||.+- .++++.+....+|.
T Consensus 35 ~~~~~~~~~~~~~~~-~~~~~~id~~~~-~~~~~~~~i~~~P~ 75 (103)
T cd03001 35 NLAPEWKKAAKALKG-IVKVGAVDADVH-QSLAQQYGVRGFPT 75 (103)
T ss_pred HHhHHHHHHHHHhcC-CceEEEEECcch-HHHHHHCCCCccCE
Confidence 344556666666654 477777777753 45667666666665
No 46
>PF04079 DUF387: Putative transcriptional regulators (Ypuh-like); InterPro: IPR005234 This family represents ScpB, which along with ScpA (IPR003768 from INTERPRO) interacts with SMC in vivo forming a complex that is required for chromosome condensation and segregation [, ]. The SMC-Scp complex appears to be similar to the MukB-MukE-Muk-F complex in Escherichia coli [], where MukB (IPR007406 from INTERPRO) is the homologue of SMC. ScpA and ScpB have little sequence similarity to MukE (IPR007385 from INTERPRO) or MukF (IPR005582 from INTERPRO), they are predicted to be structurally similar, being predominantly alpha-helical with coiled coil regions. In general scpA and scpB form an operon in most bacterial genomes. Flanking genes are highly variable suggesting that the operon has moved throughout evolution. Bacteria containing an smc gene also contain scpA or scpB but not necessarily both. An exception is found in Deinococcus radiodurans, which contains scpB but neither smc nor scpA. In the archaea the gene order SMC-ScpA is conserved in nearly all species, as is the very short distance between the two genes, indicating co-transcription of the both in different archaeal genera and arguing that interaction of the gene products is not confined to the homologues in Bacillus subtilis. It would seem probable that, in light of all the studies, SMC, ScpA and ScpB proteins or homologues act together in chromosome condensation and segregation in all prokaryotes []. ; GO: 0051304 chromosome separation; PDB: 1T6S_B 2Z99_A.
Probab=20.73 E-value=1.9e+02 Score=22.61 Aligned_cols=47 Identities=32% Similarity=0.477 Sum_probs=29.7
Q ss_pred CHHHHHHHHHHHHhcc-----------cCCcccccccccccHHHHHHHHhcCCCCChHHHH
Q 032500 2 GPAEVRTVMEDLAEEY-----------KGNAYNLITKNCNHFCNDACIRLTGNPIPSWVNR 51 (139)
Q Consensus 2 t~~ev~~~l~~L~~~f-----------~g~tY~LL~kNCNHFs~~lc~~L~gk~IP~wVnr 51 (139)
++.+++++|++|..+| .++.|.+..+.. |.+.+.. +.+..-+.-+.+
T Consensus 25 ~~~~v~~~l~~L~~~y~~~~~gl~l~~~~~~y~l~tk~~--~~~~v~~-~~~~~~~~~LS~ 82 (159)
T PF04079_consen 25 SEDEVEEALEELQEEYNEEDRGLELVEVGGGYRLQTKPE--YAEYVEK-LFKKPKPPKLSQ 82 (159)
T ss_dssp -HHHHHHHHHHHHHHHHHCT-SEEEEEETTEEEEEE-GG--GHHHHHH-HHCTCCCHHHHH
T ss_pred CHHHHHHHHHHHHHHhccCCCCEEEEEECCEEEEEEhHH--HHHHHHH-HhccCccCCCCH
Confidence 4688999999999988 456777777763 4444444 444444554444
Done!