Query 038975
Match_columns 398
No_of_seqs 81 out of 83
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 05:08:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038975.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038975hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00353 HLH helix loop heli 98.1 4.6E-06 9.9E-11 59.7 5.2 45 247-291 5-52 (53)
2 cd00083 HLH Helix-loop-helix d 98.0 9.6E-06 2.1E-10 58.7 5.1 43 248-290 14-59 (60)
3 PF00010 HLH: Helix-loop-helix 97.8 2.7E-05 5.9E-10 56.8 4.4 40 248-287 11-55 (55)
4 KOG1319 bHLHZip transcription 96.2 0.0016 3.5E-08 61.9 0.9 86 224-309 48-145 (229)
5 KOG1318 Helix loop helix trans 95.4 0.019 4.1E-07 59.0 4.8 50 247-296 242-295 (411)
6 KOG4304 Transcriptional repres 95.3 0.01 2.3E-07 56.9 2.2 45 248-292 42-94 (250)
7 KOG2483 Upstream transcription 91.4 0.85 1.8E-05 44.0 7.8 45 247-291 68-115 (232)
8 KOG3561 Aryl-hydrocarbon recep 88.8 0.39 8.5E-06 53.2 3.7 59 232-290 14-76 (803)
9 KOG2588 Predicted DNA-binding 86.8 0.82 1.8E-05 51.6 4.7 63 231-293 264-332 (953)
10 cd04927 ACT_ACR-like_2 Second 77.6 1.7 3.7E-05 34.0 2.0 44 354-397 2-47 (76)
11 cd04926 ACT_ACR_4 C-terminal 77.5 2.9 6.3E-05 32.0 3.3 38 360-397 10-47 (72)
12 cd04900 ACT_UUR-like_1 ACT dom 69.7 5.9 0.00013 30.2 3.3 37 361-397 11-48 (73)
13 KOG3560 Aryl-hydrocarbon recep 64.5 5.9 0.00013 43.3 3.1 63 230-292 7-86 (712)
14 KOG4029 Transcription factor H 63.5 11 0.00024 35.1 4.4 51 241-292 113-167 (228)
15 cd04873 ACT_UUR-ACR-like ACT d 63.5 10 0.00022 27.1 3.4 37 361-397 10-46 (70)
16 cd04899 ACT_ACR-UUR-like_2 C-t 63.1 8.8 0.00019 28.0 3.0 37 361-397 10-46 (70)
17 cd04925 ACT_ACR_2 ACT domain-c 60.1 12 0.00025 29.0 3.3 43 355-397 3-46 (74)
18 PLN03217 transcription factor 57.7 26 0.00056 30.3 5.2 49 250-298 19-74 (93)
19 cd02116 ACT ACT domains are co 57.1 16 0.00035 22.8 3.1 36 361-396 8-43 (60)
20 KOG0561 bHLH transcription fac 54.6 10 0.00022 39.0 2.8 70 232-303 54-125 (373)
21 COG3226 Uncharacterized protei 50.3 28 0.00061 33.6 4.8 43 242-284 6-69 (204)
22 PRK05092 PII uridylyl-transfer 44.6 19 0.0004 40.2 3.1 54 344-397 835-889 (931)
23 cd04894 ACT_ACR-like_1 ACT dom 43.1 24 0.00052 29.2 2.7 34 361-397 10-43 (69)
24 PF04281 Tom22: Mitochondrial 41.5 26 0.00055 31.8 2.9 38 249-286 49-86 (137)
25 PF01842 ACT: ACT domain; Int 38.8 45 0.00098 23.5 3.3 38 360-397 9-46 (66)
26 COG5053 CDC33 Translation init 38.0 8.6 0.00019 37.3 -0.6 87 278-369 69-165 (217)
27 PF00808 CBFD_NFYB_HMF: Histon 36.3 77 0.0017 23.9 4.4 51 255-305 6-56 (65)
28 TIGR00986 3a0801s05tom22 mitoc 34.6 36 0.00078 31.4 2.8 38 250-287 48-85 (145)
29 TIGR01693 UTase_glnD [Protein- 32.5 2.4E+02 0.0052 31.3 9.0 44 354-397 670-715 (850)
30 COG5002 VicK Signal transducti 32.1 12 0.00027 39.3 -0.6 21 374-394 413-433 (459)
31 cd04895 ACT_ACR_1 ACT domain-c 31.9 59 0.0013 26.2 3.3 43 355-397 4-47 (72)
32 PF02845 CUE: CUE domain; Int 31.5 86 0.0019 22.1 3.7 32 255-286 3-41 (42)
33 PRK00275 glnD PII uridylyl-tra 30.9 42 0.00091 37.7 3.1 53 345-397 807-860 (895)
34 PRK01759 glnD PII uridylyl-tra 29.3 46 0.001 37.1 3.0 44 354-397 679-724 (854)
35 cd04887 ACT_MalLac-Enz ACT_Mal 29.1 69 0.0015 23.6 3.1 28 360-387 8-35 (74)
36 TIGR01558 sm_term_P27 phage te 28.5 30 0.00064 29.1 1.1 34 347-380 27-60 (116)
37 COG3696 Putative silver efflux 28.3 68 0.0015 37.3 4.1 36 248-283 297-336 (1027)
38 TIGR02938 nifL_nitrog nitrogen 26.3 20 0.00044 33.6 -0.2 21 373-393 458-478 (494)
39 PRK13560 hypothetical protein; 25.6 22 0.00047 36.3 -0.2 22 372-393 768-789 (807)
40 PRK05007 PII uridylyl-transfer 25.5 60 0.0013 36.4 3.1 50 348-397 697-748 (884)
41 cd03420 SirA_RHOD_Pry_redox Si 25.0 48 0.001 25.5 1.6 55 336-395 5-66 (69)
42 PRK05092 PII uridylyl-transfer 25.0 1.1E+02 0.0024 34.3 5.0 44 354-397 734-779 (931)
43 PF14679 FANCI_HD1: FANCI heli 23.9 64 0.0014 27.2 2.3 28 253-282 59-86 (87)
44 cd04896 ACT_ACR-like_3 ACT dom 23.3 59 0.0013 26.4 1.9 44 354-397 2-48 (75)
45 PRK00299 sulfur transfer prote 22.1 73 0.0016 25.5 2.2 60 331-395 10-76 (81)
46 COG0642 BaeS Signal transducti 21.7 28 0.00061 29.8 -0.2 21 373-393 293-313 (336)
47 COG2205 KdpD Osmosensitive K+ 21.5 27 0.00059 39.8 -0.4 20 374-393 844-863 (890)
48 PRK04374 PII uridylyl-transfer 20.9 81 0.0018 35.5 3.0 54 344-397 788-842 (869)
49 KOG4111 Translocase of outer m 20.2 99 0.0021 28.5 2.9 38 249-286 40-77 (136)
50 PF05119 Terminase_4: Phage te 20.2 65 0.0014 25.5 1.6 33 347-379 18-50 (100)
51 PF09383 NIL: NIL domain; Int 20.1 89 0.0019 24.0 2.3 31 368-398 19-51 (76)
52 PRK11073 glnL nitrogen regulat 20.1 30 0.00065 31.9 -0.4 22 373-394 312-333 (348)
No 1
>smart00353 HLH helix loop helix domain.
Probab=98.14 E-value=4.6e-06 Score=59.71 Aligned_cols=45 Identities=31% Similarity=0.467 Sum_probs=40.7
Q ss_pred chhhhHHHHHHHHHhhcCC---CCcccchhhhHHHHHHHHHHHHHhhh
Q 038975 247 PKDRQQIQDRLKELRDIIP---NGAKCSIDCLLDLTIKHMIFLKSITQ 291 (398)
Q Consensus 247 pkdRq~IqdR~KeLr~lVP---NG~KcsId~lLe~tI~~m~FLq~~~k 291 (398)
.+||+.|++++.+|+.+|| .+.|.|-.++|++||+|+++||...+
T Consensus 5 r~RR~~~n~~~~~L~~lip~~~~~~k~~k~~iL~~ai~yi~~L~~~~~ 52 (53)
T smart00353 5 RRRRRKINEAFDELRSLLPTLPNNKKLSKAEILRLAIEYIKSLQEELQ 52 (53)
T ss_pred HHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 3799999999999999999 57789999999999999999997653
No 2
>cd00083 HLH Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, dimerization creates a parallel, left-handed, four helix bundle; the basic region N-terminal to the first amphipathic helix mediates high-affinity DNA-binding; there are several groups of HLH proteins: those (E12/E47) which bind specific hexanucleotide sequences such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3), those lacking the basic domain (Emc, Id) function as negative regulators since they fail to bind DNA, those (hairy, E(spl), deadpan) which repress transcription although they can bind specific hexanucleotide sequences such as N-box (5-CACGc/aG-3), those which have a COE domain (Collier/Olf-1/EBF) which is involved in both in dimerization and in DNA binding, and those which bind pentanucleotides ACGTG or GCGTG and
Probab=98.03 E-value=9.6e-06 Score=58.73 Aligned_cols=43 Identities=26% Similarity=0.412 Sum_probs=40.8
Q ss_pred hhhhHHHHHHHHHhhcCCCC---cccchhhhHHHHHHHHHHHHHhh
Q 038975 248 KDRQQIQDRLKELRDIIPNG---AKCSIDCLLDLTIKHMIFLKSIT 290 (398)
Q Consensus 248 kdRq~IqdR~KeLr~lVPNG---~KcsId~lLe~tI~~m~FLq~~~ 290 (398)
+||+.|++++.+|+.+||.. .|.|-.++|+.||.|+.+||...
T Consensus 14 ~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~ 59 (60)
T cd00083 14 RRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELL 59 (60)
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 79999999999999999999 88999999999999999999764
No 3
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=97.82 E-value=2.7e-05 Score=56.82 Aligned_cols=40 Identities=30% Similarity=0.493 Sum_probs=37.7
Q ss_pred hhhhHHHHHHHHHhhcCCCC-----cccchhhhHHHHHHHHHHHH
Q 038975 248 KDRQQIQDRLKELRDIIPNG-----AKCSIDCLLDLTIKHMIFLK 287 (398)
Q Consensus 248 kdRq~IqdR~KeLr~lVPNG-----~KcsId~lLe~tI~~m~FLq 287 (398)
+||..|++.+.+|+++||.. .|.|-.++|+.||.|+++||
T Consensus 11 ~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 11 RRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 78999999999999999986 67899999999999999998
No 4
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=96.22 E-value=0.0016 Score=61.85 Aligned_cols=86 Identities=24% Similarity=0.318 Sum_probs=60.3
Q ss_pred CCcccccccccccCCCCCCCCCCchhhhHHHHHHHHHhhcCCC-------CcccchhhhHHHHHHHHHHHHHhhhhhhhh
Q 038975 224 QKPEKHMKLSKKRARPGESTRPRPKDRQQIQDRLKELRDIIPN-------GAKCSIDCLLDLTIKHMIFLKSITQCADKI 296 (398)
Q Consensus 224 k~~~~~~k~~kkRar~Ge~~rPrpkdRq~IqdR~KeLr~lVPN-------G~KcsId~lLe~tI~~m~FLq~~~k~adKl 296 (398)
.++.+..|-.-|-.|+..-++--.|||+.|+.--.-|++|||- |-|.+-..+|-++|.||.||-...+.+|+=
T Consensus 48 ~~hS~a~k~syk~rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e 127 (229)
T KOG1319|consen 48 DYHSEAYKESYKDRRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEE 127 (229)
T ss_pred cchhHHHHhhHHHHHHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444333433344444455666679999999999999999994 446788899999999999999888887762
Q ss_pred -----hhccccchhcccc
Q 038975 297 -----KEAEEPKLIDKEN 309 (398)
Q Consensus 297 -----k~~~e~k~~~~~~ 309 (398)
|+..--+||..+-
T Consensus 128 ~s~L~k~vtAL~iIk~~Y 145 (229)
T KOG1319|consen 128 VSTLRKDVTALKIIKVNY 145 (229)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 3333445555443
No 5
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=95.42 E-value=0.019 Score=59.02 Aligned_cols=50 Identities=28% Similarity=0.413 Sum_probs=41.3
Q ss_pred chhhhHHHHHHHHHhhcCCCC----cccchhhhHHHHHHHHHHHHHhhhhhhhh
Q 038975 247 PKDRQQIQDRLKELRDIIPNG----AKCSIDCLLDLTIKHMIFLKSITQCADKI 296 (398)
Q Consensus 247 pkdRq~IqdR~KeLr~lVPNG----~KcsId~lLe~tI~~m~FLq~~~k~adKl 296 (398)
+|||+.|++|||||-+|||.- .|-.+-+.|-+++.|..-||.--..|-++
T Consensus 242 RRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~~~E~ 295 (411)
T KOG1318|consen 242 RRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQRAREL 295 (411)
T ss_pred HHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHHHHHH
Confidence 489999999999999999965 24468899999999999998766654443
No 6
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=95.25 E-value=0.01 Score=56.94 Aligned_cols=45 Identities=36% Similarity=0.524 Sum_probs=39.3
Q ss_pred hhhhHHHHHHHHHhhcCCCCccc--------chhhhHHHHHHHHHHHHHhhhh
Q 038975 248 KDRQQIQDRLKELRDIIPNGAKC--------SIDCLLDLTIKHMIFLKSITQC 292 (398)
Q Consensus 248 kdRq~IqdR~KeLr~lVPNG~Kc--------sId~lLe~tI~~m~FLq~~~k~ 292 (398)
|||-|||..|-||+.|||.-.|- .-..+||-||+||+-||.....
T Consensus 42 kRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~ 94 (250)
T KOG4304|consen 42 KRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQA 94 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccccc
Confidence 99999999999999999986654 4578899999999999987654
No 7
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=91.41 E-value=0.85 Score=43.97 Aligned_cols=45 Identities=20% Similarity=0.336 Sum_probs=38.9
Q ss_pred chhhhHHHHHHHHHhhcCCCCcccc---hhhhHHHHHHHHHHHHHhhh
Q 038975 247 PKDRQQIQDRLKELRDIIPNGAKCS---IDCLLDLTIKHMIFLKSITQ 291 (398)
Q Consensus 247 pkdRq~IqdR~KeLr~lVPNG~Kcs---Id~lLe~tI~~m~FLq~~~k 291 (398)
.+||-.|.+++..|+.+||+|.-|. --++|++|+.|+.-||....
T Consensus 68 k~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~ 115 (232)
T KOG2483|consen 68 KRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSA 115 (232)
T ss_pred HHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHH
Confidence 4899999999999999999988764 45799999999999986543
No 8
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=88.83 E-value=0.39 Score=53.23 Aligned_cols=59 Identities=22% Similarity=0.393 Sum_probs=47.9
Q ss_pred cccccCCCCCCCCCCchhhhHHHHHHHHHhhcCCCCc----ccchhhhHHHHHHHHHHHHHhh
Q 038975 232 LSKKRARPGESTRPRPKDRQQIQDRLKELRDIIPNGA----KCSIDCLLDLTIKHMIFLKSIT 290 (398)
Q Consensus 232 ~~kkRar~Ge~~rPrpkdRq~IqdR~KeLr~lVPNG~----KcsId~lLe~tI~~m~FLq~~~ 290 (398)
-.|+|++|.....--.|||++.+-=|+||-+|||--+ |-|--|.|.+||+||+=+.-++
T Consensus 14 d~k~r~~Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~~ 76 (803)
T KOG3561|consen 14 DSKDRKKRENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQE 76 (803)
T ss_pred cchhhhccccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhhh
Confidence 3455555554444456999999999999999999776 8999999999999999887764
No 9
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=86.82 E-value=0.82 Score=51.56 Aligned_cols=63 Identities=30% Similarity=0.409 Sum_probs=46.4
Q ss_pred ccccccCCCCCCCCCC-----chhhhHHHHHHHHHhhcCC-CCcccchhhhHHHHHHHHHHHHHhhhhh
Q 038975 231 KLSKKRARPGESTRPR-----PKDRQQIQDRLKELRDIIP-NGAKCSIDCLLDLTIKHMIFLKSITQCA 293 (398)
Q Consensus 231 k~~kkRar~Ge~~rPr-----pkdRq~IqdR~KeLr~lVP-NG~KcsId~lLe~tI~~m~FLq~~~k~a 293 (398)
|+..+|..+|+..|-- .|=|--|||||-|||.+|| --+|-.-++-|.+||+|..|||-.-..+
T Consensus 264 k~Pi~rl~~G~~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~l 332 (953)
T KOG2588|consen 264 KKPIKRLLPGGEKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKL 332 (953)
T ss_pred cCchhhcCCCCcccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhcccccc
Confidence 5667788888222221 1678889999999999999 3345556678999999999999764443
No 10
>cd04927 ACT_ACR-like_2 Second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=77.55 E-value=1.7 Score=34.00 Aligned_cols=44 Identities=20% Similarity=0.560 Sum_probs=37.2
Q ss_pred hHhhhhhcc-chhHHHHHhhhcccceeeehhhhe-eCCceEEEeee
Q 038975 354 LIEMVCEDR-GFFLEITDMIRGFGLNIWKGVMER-REDKIWARFIV 397 (398)
Q Consensus 354 LiEMlCee~-g~FLEIAd~IrglgLtILKGvmE~-r~~k~Wa~F~V 397 (398)
++|-.|.+| |+|--|+.++..+||+|+...+-+ .++...--|.|
T Consensus 2 ~~ei~~~Dr~gLfa~i~~~l~~~~l~I~~A~I~Tt~~~~v~D~F~V 47 (76)
T cd04927 2 LLKLFCSDRKGLLHDVTEVLYELELTIERVKVSTTPDGRVLDLFFI 47 (76)
T ss_pred EEEEEECCCCCHHHHHHHHHHHCCCeEEEEEEEECCCCEEEEEEEE
Confidence 456666554 899999999999999999998885 88888888887
No 11
>cd04926 ACT_ACR_4 C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=77.53 E-value=2.9 Score=32.04 Aligned_cols=38 Identities=21% Similarity=0.377 Sum_probs=32.1
Q ss_pred hccchhHHHHHhhhcccceeeehhhheeCCceEEEeee
Q 038975 360 EDRGFFLEITDMIRGFGLNIWKGVMERREDKIWARFIV 397 (398)
Q Consensus 360 ee~g~FLEIAd~IrglgLtILKGvmE~r~~k~Wa~F~V 397 (398)
+.-|+|.+|+.+|..+|++|+...+-..+++...-|.|
T Consensus 10 D~~Gll~~i~~~l~~~~lnI~sa~i~t~~~~~~d~f~v 47 (72)
T cd04926 10 DRVGLLSDVTRVFRENGLTVTRAEISTQGDMAVNVFYV 47 (72)
T ss_pred CccCHHHHHHHHHHHCCcEEEEEEEecCCCeEEEEEEE
Confidence 45689999999999999999988777777777777766
No 12
>cd04900 ACT_UUR-like_1 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD is the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted tyrosine kinase. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=69.69 E-value=5.9 Score=30.15 Aligned_cols=37 Identities=24% Similarity=0.435 Sum_probs=32.7
Q ss_pred ccchhHHHHHhhhcccceeeehhhhee-CCceEEEeee
Q 038975 361 DRGFFLEITDMIRGFGLNIWKGVMERR-EDKIWARFIV 397 (398)
Q Consensus 361 e~g~FLEIAd~IrglgLtILKGvmE~r-~~k~Wa~F~V 397 (398)
..|+|..|+.++..+||+|+...+.+. ++...--|.|
T Consensus 11 r~gLl~~i~~~l~~~~l~I~~A~i~T~~~~~v~D~F~v 48 (73)
T cd04900 11 RPGLFARIAGALDQLGLNILDARIFTTRDGYALDTFVV 48 (73)
T ss_pred CCCHHHHHHHHHHHCCCCeEEeEEEEeCCCeEEEEEEE
Confidence 458999999999999999999998877 5788888876
No 13
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=64.46 E-value=5.9 Score=43.32 Aligned_cols=63 Identities=25% Similarity=0.459 Sum_probs=44.7
Q ss_pred cccccccCCCCCCCCCCc----------hhhhHHHHHHHHHhhcCCCCc----ccchhhhHHHHHHHHH---HHHHhhhh
Q 038975 230 MKLSKKRARPGESTRPRP----------KDRQQIQDRLKELRDIIPNGA----KCSIDCLLDLTIKHMI---FLKSITQC 292 (398)
Q Consensus 230 ~k~~kkRar~Ge~~rPrp----------kdRq~IqdR~KeLr~lVPNG~----KcsId~lLe~tI~~m~---FLq~~~k~ 292 (398)
.-.+|||.|++..+||-| |-|+|.|--|..|-.|.|=-. |-|-=+.|.-.|-|+. |.|-+.++
T Consensus 7 tYAsrkRrrp~qk~rpp~~a~tkSNPSKRHRdRLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr~KSfFqvvl~~ 86 (712)
T KOG3560|consen 7 TYASRKRRRPLQKQRPPPKALTKSNPSKRHRDRLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLRVKSFFQVVLHQ 86 (712)
T ss_pred eehhhhccCCccccCCCccccccCCcchhHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHHHHHHHHHHHhc
Confidence 456788888888888876 459999999999999998643 3344455666666654 55555444
No 14
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=63.51 E-value=11 Score=35.06 Aligned_cols=51 Identities=22% Similarity=0.322 Sum_probs=39.2
Q ss_pred CCCCCCchhhhHHHHHHHHHhhcCCCCc----ccchhhhHHHHHHHHHHHHHhhhh
Q 038975 241 ESTRPRPKDRQQIQDRLKELRDIIPNGA----KCSIDCLLDLTIKHMIFLKSITQC 292 (398)
Q Consensus 241 e~~rPrpkdRq~IqdR~KeLr~lVPNG~----KcsId~lLe~tI~~m~FLq~~~k~ 292 (398)
.+.| -+.|=+.++..--+||.++|..- |-|--.-|--||.|+.|||.+...
T Consensus 113 ~n~R-ER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~ 167 (228)
T KOG4029|consen 113 RNAR-ERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLAT 167 (228)
T ss_pred hhhh-hhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcc
Confidence 3444 33445689999999999999753 447777789999999999987654
No 15
>cd04873 ACT_UUR-ACR-like ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD. This ACT domain family, ACT_UUR_ACR-like, includes the two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the four ACT domains of a novel protein composed almost entirely of ACT domain repeats (the ACR protein) and like proteins. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. This CD also includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein and related domains, as well as, the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted t
Probab=63.49 E-value=10 Score=27.12 Aligned_cols=37 Identities=24% Similarity=0.473 Sum_probs=31.0
Q ss_pred ccchhHHHHHhhhcccceeeehhhheeCCceEEEeee
Q 038975 361 DRGFFLEITDMIRGFGLNIWKGVMERREDKIWARFIV 397 (398)
Q Consensus 361 e~g~FLEIAd~IrglgLtILKGvmE~r~~k~Wa~F~V 397 (398)
..|+|-+|+.+|...|++|+...+...+++....|.|
T Consensus 10 ~~g~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~~~v 46 (70)
T cd04873 10 RPGLLADITRVLADLGLNIHDARISTTGERALDVFYV 46 (70)
T ss_pred CCCHHHHHHHHHHHCCCeEEEEEEeecCCEEEEEEEE
Confidence 3578999999999999999999988877766666665
No 16
>cd04899 ACT_ACR-UUR-like_2 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_ACR-UUR-like_2, includes the second of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the second and fourth ACT domains of a novel protein composed almost entirely of ACT domain repeats, the ACR protein. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=63.14 E-value=8.8 Score=27.97 Aligned_cols=37 Identities=22% Similarity=0.404 Sum_probs=29.6
Q ss_pred ccchhHHHHHhhhcccceeeehhhheeCCceEEEeee
Q 038975 361 DRGFFLEITDMIRGFGLNIWKGVMERREDKIWARFIV 397 (398)
Q Consensus 361 e~g~FLEIAd~IrglgLtILKGvmE~r~~k~Wa~F~V 397 (398)
..|+|.+|+.+|...|++|.+..+...++..-.-|.|
T Consensus 10 ~~gll~~i~~~l~~~~~~I~~~~~~~~~~~~~~~f~i 46 (70)
T cd04899 10 RPGLLADVTRVLAELGLNIHSAKIATLGERAEDVFYV 46 (70)
T ss_pred CccHHHHHHHHHHHCCCeEEEEEEEecCCEEEEEEEE
Confidence 4578999999999999999999988766654445544
No 17
>cd04925 ACT_ACR_2 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=60.10 E-value=12 Score=28.97 Aligned_cols=43 Identities=14% Similarity=0.214 Sum_probs=35.9
Q ss_pred Hhhhhh-ccchhHHHHHhhhcccceeeehhhheeCCceEEEeee
Q 038975 355 IEMVCE-DRGFFLEITDMIRGFGLNIWKGVMERREDKIWARFIV 397 (398)
Q Consensus 355 iEMlCe-e~g~FLEIAd~IrglgLtILKGvmE~r~~k~Wa~F~V 397 (398)
||-.|. .-|+|..|+.++...|++|+...+-+.++....-|.|
T Consensus 3 ~~v~~~Dr~gLl~~i~~~l~~~~lnI~~A~i~t~~~~~~d~f~V 46 (74)
T cd04925 3 IELTGTDRPGLLSEVFAVLADLHCNVVEARAWTHNGRLACVIYV 46 (74)
T ss_pred EEEEECCCCCHHHHHHHHHHHCCCcEEEEEEEEECCEEEEEEEE
Confidence 344443 3489999999999999999999888888888888887
No 18
>PLN03217 transcription factor ATBS1; Provisional
Probab=57.72 E-value=26 Score=30.32 Aligned_cols=49 Identities=22% Similarity=0.339 Sum_probs=39.8
Q ss_pred hhHHHHHHHHHhhcCCC------CcccchhhhHHHHHHHHHHHHHhh-hhhhhhhh
Q 038975 250 RQQIQDRLKELRDIIPN------GAKCSIDCLLDLTIKHMIFLKSIT-QCADKIKE 298 (398)
Q Consensus 250 Rq~IqdR~KeLr~lVPN------G~KcsId~lLe~tI~~m~FLq~~~-k~adKlk~ 298 (398)
-++|+|=+-.||.|+|. +.|++-.-+|.+|-.|++-|+.-. .-.|+|-+
T Consensus 19 ddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~ 74 (93)
T PLN03217 19 EDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSE 74 (93)
T ss_pred HHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46799999999999995 568999999999999999987543 34555554
No 19
>cd02116 ACT ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. Members of this CD belong to the superfamily of ACT regulatory domains. Pairs of ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. The ACT domain has been detected in a number of diverse proteins; some of these proteins are involved in amino acid and purine biosynthesis, phenylalanine hydroxylation, regulation of bacterial metabolism and transcription, and many remain to be characterized. ACT domain-containing enzymes involved in amino acid and purine synthesis are in many cases allosteric enzymes with complex regulation enforced by the binding of ligands. The ACT domain is commonly involved in the binding of a small regulatory molecule, such as the amino acids L-Ser and L-Phe in the case of D-3-phosphoglycerate dehydrogenase and the bifunctional chorismate mutase-p
Probab=57.10 E-value=16 Score=22.77 Aligned_cols=36 Identities=17% Similarity=0.159 Sum_probs=26.9
Q ss_pred ccchhHHHHHhhhcccceeeehhhheeCCceEEEee
Q 038975 361 DRGFFLEITDMIRGFGLNIWKGVMERREDKIWARFI 396 (398)
Q Consensus 361 e~g~FLEIAd~IrglgLtILKGvmE~r~~k~Wa~F~ 396 (398)
+.|.|.+|.+++...|+.|.+-........-+++|.
T Consensus 8 ~~~~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~ 43 (60)
T cd02116 8 RPGLLAKVLSVLAEAGINITSIEQRTSGDGGEADIF 43 (60)
T ss_pred CCchHHHHHHHHHHCCCcEEEEEeEEcCCCCeEEEE
Confidence 467899999999999999998776554433345543
No 20
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=54.63 E-value=10 Score=38.98 Aligned_cols=70 Identities=21% Similarity=0.293 Sum_probs=53.4
Q ss_pred cccccCCCCCCCCCCchhhhHHHHHHHHHhhcCC--CCcccchhhhHHHHHHHHHHHHHhhhhhhhhhhccccc
Q 038975 232 LSKKRARPGESTRPRPKDRQQIQDRLKELRDIIP--NGAKCSIDCLLDLTIKHMIFLKSITQCADKIKEAEEPK 303 (398)
Q Consensus 232 ~~kkRar~Ge~~rPrpkdRq~IqdR~KeLr~lVP--NG~KcsId~lLe~tI~~m~FLq~~~k~adKlk~~~e~k 303 (398)
-.-||-||--+----+||-|-||--..-||.|+| .|.|-|-.++|..|.+|+--|- ..+-+-|.|..|.|
T Consensus 54 D~erRmRReIANsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le--~~Kt~ll~qn~elK 125 (373)
T KOG0561|consen 54 DPERRMRREIANSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLE--GHKTELLPQNGELK 125 (373)
T ss_pred CHHHHHHHHhhcchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHH--hcccccccccchHH
Confidence 3445555555555556777999999999999999 6999999999999999986554 34455667777776
No 21
>COG3226 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=50.33 E-value=28 Score=33.65 Aligned_cols=43 Identities=30% Similarity=0.505 Sum_probs=31.3
Q ss_pred CCCCC-chhhhHHHHHHHHH----------------hhcCCCCccc----chhhhHHHHHHHHH
Q 038975 242 STRPR-PKDRQQIQDRLKEL----------------RDIIPNGAKC----SIDCLLDLTIKHMI 284 (398)
Q Consensus 242 ~~rPr-pkdRq~IqdR~KeL----------------r~lVPNG~Kc----sId~lLe~tI~~m~ 284 (398)
..+|+ |+|||.|-+---|| +-=||=|+.. |||.|+.+|+.|.-
T Consensus 6 ~rr~~dp~RRqaIv~Aa~eli~~~Gv~aV~HR~VAa~A~vPLgStTYYF~~lDdLi~~Afa~f~ 69 (204)
T COG3226 6 ARRPNDPRRRQAIVQAALELIKRYGVHAVRHRAVAAEAGVPLGSTTYYFSDLDDLIAEAFAHFT 69 (204)
T ss_pred ccCCCChHHHHHHHHHHHHHHHhcchhhhhHHHHHHHhCCCccceeeecccHHHHHHHHHHHHH
Confidence 33444 57999987654444 2348999985 99999999999863
No 22
>PRK05092 PII uridylyl-transferase; Provisional
Probab=44.61 E-value=19 Score=40.22 Aligned_cols=54 Identities=22% Similarity=0.383 Sum_probs=46.4
Q ss_pred eecCCCCchhhHhhhhhcc-chhHHHHHhhhcccceeeehhhheeCCceEEEeee
Q 038975 344 VQDLSTPRQMLIEMVCEDR-GFFLEITDMIRGFGLNIWKGVMERREDKIWARFIV 397 (398)
Q Consensus 344 VEdL~~pgqMLiEMlCee~-g~FLEIAd~IrglgLtILKGvmE~r~~k~Wa~F~V 397 (398)
+.+-..++...||..|.++ |+|-+|+.++..+|++|....+.+.++...--|.|
T Consensus 835 ~~~~~s~~~t~i~I~~~DrpGLl~~I~~~l~~~gl~I~~A~I~T~~~~~~D~F~v 889 (931)
T PRK05092 835 IDNEASNRFTVIEVNGRDRPGLLYDLTRALSDLNLNIASAHIATYGERAVDVFYV 889 (931)
T ss_pred EeeCCCCCeEEEEEEECCcCcHHHHHHHHHHHCCceEEEEEEEEcCCEEEEEEEE
Confidence 3444556678899999886 99999999999999999999999998888888877
No 23
>cd04894 ACT_ACR-like_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the N-terminal ACT domain of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=43.11 E-value=24 Score=29.16 Aligned_cols=34 Identities=32% Similarity=0.577 Sum_probs=26.0
Q ss_pred ccchhHHHHHhhhcccceeeehhhheeCCceEEEeee
Q 038975 361 DRGFFLEITDMIRGFGLNIWKGVMERREDKIWARFIV 397 (398)
Q Consensus 361 e~g~FLEIAd~IrglgLtILKGvmE~r~~k~Wa~F~V 397 (398)
.-|+=-.|+.+|--|||.|.||-+-.-+- | ||||
T Consensus 10 ktGLgcdlcr~il~fGl~i~rgd~sTDGk--W-Cyiv 43 (69)
T cd04894 10 KTGLGCDLCRIILEFGLNITRGDDSTDGR--W-CYIV 43 (69)
T ss_pred ccCcccHHHHHHHHhceEEEecccccCCc--E-EEEE
Confidence 34555678899999999999999977654 6 4554
No 24
>PF04281 Tom22: Mitochondrial import receptor subunit Tom22 ; InterPro: IPR005683 The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins []. The N-terminal region of Tom22 has been shown to have chaperone-like activity, and the C-terminal region faces the intermembrane face []. ; GO: 0006886 intracellular protein transport, 0005741 mitochondrial outer membrane
Probab=41.50 E-value=26 Score=31.75 Aligned_cols=38 Identities=24% Similarity=0.347 Sum_probs=32.4
Q ss_pred hhhHHHHHHHHHhhcCCCCcccchhhhHHHHHHHHHHH
Q 038975 249 DRQQIQDRLKELRDIIPNGAKCSIDCLLDLTIKHMIFL 286 (398)
Q Consensus 249 dRq~IqdR~KeLr~lVPNG~KcsId~lLe~tI~~m~FL 286 (398)
.-+-|-|||-.|+++||......|...+..+...++-+
T Consensus 49 ~dETl~ERl~aLkdi~P~~~R~~i~~~~~~~~~~~k~~ 86 (137)
T PF04281_consen 49 EDETLLERLWALKDIFPPSVRNWISSTVSTTSSAVKSL 86 (137)
T ss_pred ccccHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHH
Confidence 45679999999999999999999999998887766544
No 25
>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. The archetypical ACT domain is the C-terminal regulatory domain of 3-phosphoglycerate dehydrogenase (3PGDH), which folds with a ferredoxin-like topology. A pair of ACT domains form an eight-stranded antiparallel sheet with two molecules of allosteric inhibitor serine bound in the interface. Biochemical exploration of a few other proteins containing ACT domains supports the suggestions that these domains contain the archetypical ACT structure [].; GO: 0016597 amino acid binding, 0008152 metabolic process; PDB: 3L76_B 2F06_B 3NRB_C 1Y7P_C 2QMX_A 2DT9_A 2ZHO_D 3K5P_A 3TVI_K 3C1M_C ....
Probab=38.82 E-value=45 Score=23.49 Aligned_cols=38 Identities=24% Similarity=0.408 Sum_probs=30.9
Q ss_pred hccchhHHHHHhhhcccceeeehhhheeCCceEEEeee
Q 038975 360 EDRGFFLEITDMIRGFGLNIWKGVMERREDKIWARFIV 397 (398)
Q Consensus 360 ee~g~FLEIAd~IrglgLtILKGvmE~r~~k~Wa~F~V 397 (398)
+.-|.+.+|+.++...|++|..=.....++..|..|++
T Consensus 9 drpG~l~~v~~~la~~~inI~~~~~~~~~~~~~~~~~~ 46 (66)
T PF01842_consen 9 DRPGILADVTEILADHGINIDSISQSSDKDGVGIVFIV 46 (66)
T ss_dssp TSTTHHHHHHHHHHHTTEEEEEEEEEEESSTTEEEEEE
T ss_pred CCCCHHHHHHHHHHHcCCCHHHeEEEecCCCceEEEEE
Confidence 34588999999999999999998887777766666654
No 26
>COG5053 CDC33 Translation initiation factor 4E (eIF-4E) [Translation, ribosomal structure and biogenesis]
Probab=37.97 E-value=8.6 Score=37.26 Aligned_cols=87 Identities=11% Similarity=0.167 Sum_probs=64.0
Q ss_pred HHHHHHHHHHHhhhhhhhhhhccccchhccccceeeccCCCCCCCCCCCCceeEecCCCc----------cccceEeecC
Q 038975 278 LTIKHMIFLKSITQCADKIKEAEEPKLIDKENEVVLKDNSTGGHSGGGCATWACEVEGPT----------LSCPIIVQDL 347 (398)
Q Consensus 278 ~tI~~m~FLq~~~k~adKlk~~~e~k~~~~~~~~~~kd~~~~~~~~~~GatWA~Evg~~~----------~vcpIiVEdL 347 (398)
+|+.|+.||-..++.|+.|-..-.--+.-++=.++|.|.. +-+|-.|+|.+.+.. ++|--|-|-|
T Consensus 69 ~Tveefwyi~~~I~~a~~lprksdynvFreGIrPeWEDea-----N~~Ggkws~qlk~~g~d~~dElwl~tlla~igeT~ 143 (217)
T COG5053 69 ETVEEFWYILHNISDASRLPRKSDYNVFREGIRPEWEDEA-----NMNGGKWSFQLKGKGCDRLDELWLRTLLAAIGETL 143 (217)
T ss_pred ecHHHHHHHHhcCCcccccchhhhHHHHHcCCCccccccc-----cCCCCeEEEEcccccchhHHHHHHHHHHHHHhhcc
Confidence 5789999999999999988332233345566688888873 347788999987654 3577788888
Q ss_pred CCCchhhHhhhhhccchhHHHH
Q 038975 348 STPRQMLIEMVCEDRGFFLEIT 369 (398)
Q Consensus 348 ~~pgqMLiEMlCee~g~FLEIA 369 (398)
++-|+-.-=|+|.+|.-|--||
T Consensus 144 Dp~~~ei~GvV~n~rkgfyKlA 165 (217)
T COG5053 144 DPTGSEIGGVVGNMRKGFYKLA 165 (217)
T ss_pred CCCCCeeccEEEEeecCceEEE
Confidence 8888877778887777766555
No 27
>PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin. The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding [, ]. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The A subunit can be split into 3 domains on the basis of sequence similarity, a non-conserved N-terminal 'A domain'; a highly-conserved central 'B domain' involved in DNA-binding; and a C-terminal 'C domain', which contains a number of glutamine and acidic residues involved in protein-protein interactions []. The A subunit shows striking similarity to the HAP3 subunit of the yeast CCAAT-binding heterotrimeric transcription factor [, ]. The Kluyveromyces lactis HAP3 protein has been predicted to contain a 4-cysteine zinc finger, which is thought to be present in similar HAP3 and CBF subunit A proteins, in which the third cysteine is replaced by a serine []. This domain is found in the CCAAT transcription factor and archaeal histones.; GO: 0043565 sequence-specific DNA binding, 0005622 intracellular; PDB: 1F1E_A 2BYM_D 2BYK_D 1HTA_A 1B67_A 1JFI_B 1KU5_B 1N1J_A 1BFM_A 1B6W_A ....
Probab=36.29 E-value=77 Score=23.90 Aligned_cols=51 Identities=18% Similarity=0.279 Sum_probs=40.1
Q ss_pred HHHHHHhhcCCCCcccchhhhHHHHHHHHHHHHHhhhhhhhhhhccccchh
Q 038975 255 DRLKELRDIIPNGAKCSIDCLLDLTIKHMIFLKSITQCADKIKEAEEPKLI 305 (398)
Q Consensus 255 dR~KeLr~lVPNG~KcsId~lLe~tI~~m~FLq~~~k~adKlk~~~e~k~~ 305 (398)
-|||.+=...|+..+++=++...=+----.|++.+++.|...-+....|.+
T Consensus 6 a~vkri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti 56 (65)
T PF00808_consen 6 ARVKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTI 56 (65)
T ss_dssp HHHHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE
T ss_pred HHHHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcc
Confidence 367777667799999999998888888889999999999887776555544
No 28
>TIGR00986 3a0801s05tom22 mitochondrial import receptor subunit Tom22. translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family is specific for the Tom22 proteins.
Probab=34.56 E-value=36 Score=31.43 Aligned_cols=38 Identities=21% Similarity=0.249 Sum_probs=32.8
Q ss_pred hhHHHHHHHHHhhcCCCCcccchhhhHHHHHHHHHHHH
Q 038975 250 RQQIQDRLKELRDIIPNGAKCSIDCLLDLTIKHMIFLK 287 (398)
Q Consensus 250 Rq~IqdR~KeLr~lVPNG~KcsId~lLe~tI~~m~FLq 287 (398)
-+-|-|||-.|+++||...+-.|.....-+....+-+-
T Consensus 48 ~ETl~ERi~ALkDm~Pp~~R~~i~~~~s~t~s~~ks~~ 85 (145)
T TIGR00986 48 EETFTDRIYALKDIVPPTTRGWIYHKYSTTTNFVKSTL 85 (145)
T ss_pred cCcHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 36799999999999999999999999988887776543
No 29
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family.
Probab=32.53 E-value=2.4e+02 Score=31.33 Aligned_cols=44 Identities=14% Similarity=0.366 Sum_probs=34.8
Q ss_pred hHhhhhhcc-chhHHHHHhhhcccceeeehhhh-eeCCceEEEeee
Q 038975 354 LIEMVCEDR-GFFLEITDMIRGFGLNIWKGVME-RREDKIWARFIV 397 (398)
Q Consensus 354 LiEMlCee~-g~FLEIAd~IrglgLtILKGvmE-~r~~k~Wa~F~V 397 (398)
.|+..+.++ |+|-.||.++-.+||+|+....- +.++...--|.|
T Consensus 670 ~i~V~~~DrpgLla~i~~~L~~~~l~I~~A~I~tt~~g~~lD~F~V 715 (850)
T TIGR01693 670 EVFIYAPDQPGLFAKVAGALAMLSLSVHDAQVNTTKDGVALDTFVV 715 (850)
T ss_pred EEEEEeCCCCcHHHHHHHHHHHCCCeEEEEEEEEecCCEEEEEEEE
Confidence 444444443 78999999999999999999776 677777778877
No 30
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=32.11 E-value=12 Score=39.35 Aligned_cols=21 Identities=38% Similarity=0.811 Sum_probs=20.2
Q ss_pred cccceeeehhhheeCCceEEE
Q 038975 374 GFGLNIWKGVMERREDKIWAR 394 (398)
Q Consensus 374 glgLtILKGvmE~r~~k~Wa~ 394 (398)
||||.|.|-+.+.+++.|||.
T Consensus 413 GLGLaIakeiV~~hgG~iWA~ 433 (459)
T COG5002 413 GLGLAIAKEIVQAHGGRIWAE 433 (459)
T ss_pred chhHHHHHHHHHHhCCeEEEe
Confidence 899999999999999999995
No 31
>cd04895 ACT_ACR_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the N-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=31.87 E-value=59 Score=26.18 Aligned_cols=43 Identities=19% Similarity=0.299 Sum_probs=35.3
Q ss_pred Hhhhhhcc-chhHHHHHhhhcccceeeehhhheeCCceEEEeee
Q 038975 355 IEMVCEDR-GFFLEITDMIRGFGLNIWKGVMERREDKIWARFIV 397 (398)
Q Consensus 355 iEMlCee~-g~FLEIAd~IrglgLtILKGvmE~r~~k~Wa~F~V 397 (398)
||..+.+| |+-.+|+.++..+||.|-+....+.+++.---|.|
T Consensus 4 iev~a~DRpGLL~~i~~~l~~~gl~I~~AkIsT~Gerv~DvFyV 47 (72)
T cd04895 4 VKVDSARKPGILLEAVQVLTDLDLCITKAYISSDGGWFMDVFHV 47 (72)
T ss_pred EEEEECCcCCHHHHHHHHHHHCCcEEEEEEEeecCCeEEEEEEE
Confidence 44444443 67789999999999999999999999988877876
No 32
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=31.49 E-value=86 Score=22.09 Aligned_cols=32 Identities=16% Similarity=0.468 Sum_probs=23.4
Q ss_pred HHHHHHhhcCCCCcccchhhhH-------HHHHHHHHHH
Q 038975 255 DRLKELRDIIPNGAKCSIDCLL-------DLTIKHMIFL 286 (398)
Q Consensus 255 dR~KeLr~lVPNG~KcsId~lL-------e~tI~~m~FL 286 (398)
+-|+.|+++.|+=..-.|...| |.||.+++-+
T Consensus 3 ~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 3 EMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLEM 41 (42)
T ss_dssp HHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 5578999999998888887777 5666666543
No 33
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=30.91 E-value=42 Score=37.66 Aligned_cols=53 Identities=15% Similarity=0.352 Sum_probs=44.6
Q ss_pred ecCCCCchhhHhhhhhcc-chhHHHHHhhhcccceeeehhhheeCCceEEEeee
Q 038975 345 QDLSTPRQMLIEMVCEDR-GFFLEITDMIRGFGLNIWKGVMERREDKIWARFIV 397 (398)
Q Consensus 345 EdL~~pgqMLiEMlCee~-g~FLEIAd~IrglgLtILKGvmE~r~~k~Wa~F~V 397 (398)
.+-..++...||..+.+| |+|-.|+.++..+||+|+...+-+.++...--|.|
T Consensus 807 ~~~~~~~~T~i~V~a~DrpGLLa~I~~~L~~~~l~I~~AkI~T~g~~v~D~F~V 860 (895)
T PRK00275 807 SNDAQRPVTVLEIIAPDRPGLLARIGRIFLEFDLSLQNAKIATLGERVEDVFFI 860 (895)
T ss_pred EECCCCCeEEEEEEECCCCCHHHHHHHHHHHCCCEEEEeEEEecCCEEEEEEEE
Confidence 333445667788888775 89999999999999999999999999999999987
No 34
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=29.27 E-value=46 Score=37.12 Aligned_cols=44 Identities=25% Similarity=0.443 Sum_probs=35.7
Q ss_pred hHhhhhhc-cchhHHHHHhhhcccceeeehhhhe-eCCceEEEeee
Q 038975 354 LIEMVCED-RGFFLEITDMIRGFGLNIWKGVMER-REDKIWARFIV 397 (398)
Q Consensus 354 LiEMlCee-~g~FLEIAd~IrglgLtILKGvmE~-r~~k~Wa~F~V 397 (398)
.|+..|.+ -|+|-.||.++-.+||+|+.+.+-+ .++-...-|.|
T Consensus 679 ~V~V~~~DrpGLfa~Ia~~L~~~~L~I~~A~I~T~~~g~alD~F~V 724 (854)
T PRK01759 679 EIFIYCQDQANLFLKVVSTIGAKKLSIHDAQIITSQDGYVLDSFIV 724 (854)
T ss_pred EEEEEecCCccHHHHHHHHHHHCCCeEEEEEEEEccCCEEEEEEEE
Confidence 44444443 4899999999999999999998766 78888888887
No 35
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=29.09 E-value=69 Score=23.57 Aligned_cols=28 Identities=18% Similarity=0.122 Sum_probs=22.0
Q ss_pred hccchhHHHHHhhhcccceeeehhhhee
Q 038975 360 EDRGFFLEITDMIRGFGLNIWKGVMERR 387 (398)
Q Consensus 360 ee~g~FLEIAd~IrglgLtILKGvmE~r 387 (398)
+..|.+.+|+.+|...|.+|+.=-++..
T Consensus 8 d~~g~L~~i~~~i~~~~~nI~~v~~~~~ 35 (74)
T cd04887 8 NRPGMLGRVTTAIGEAGGDIGAIDLVEQ 35 (74)
T ss_pred CCCchHHHHHHHHHHcCCcEEEEEEEEe
Confidence 4567789999999999999986555443
No 36
>TIGR01558 sm_term_P27 phage terminase, small subunit, putative, P27 family. Members tend to be adjacent to the phage terminase large subunit gene.
Probab=28.53 E-value=30 Score=29.06 Aligned_cols=34 Identities=21% Similarity=0.245 Sum_probs=29.6
Q ss_pred CCCCchhhHhhhhhccchhHHHHHhhhcccceee
Q 038975 347 LSTPRQMLIEMVCEDRGFFLEITDMIRGFGLNIW 380 (398)
Q Consensus 347 L~~pgqMLiEMlCee~g~FLEIAd~IrglgLtIL 380 (398)
|+.-.-.++|++|+-+..|.+..+.|+.-|++|-
T Consensus 27 l~~~D~~~l~~yc~a~~~~~~a~~~i~~~G~~~~ 60 (116)
T TIGR01558 27 LTNLDRDALLRYCEAYDRYREATDDLEATGITAT 60 (116)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHcCeeEE
Confidence 4555568999999999999999999999998874
No 37
>COG3696 Putative silver efflux pump [Inorganic ion transport and metabolism]
Probab=28.25 E-value=68 Score=37.28 Aligned_cols=36 Identities=25% Similarity=0.475 Sum_probs=31.5
Q ss_pred hhhhHHHHHHHHHhhcCCCCccc----chhhhHHHHHHHH
Q 038975 248 KDRQQIQDRLKELRDIIPNGAKC----SIDCLLDLTIKHM 283 (398)
Q Consensus 248 kdRq~IqdR~KeLr~lVPNG~Kc----sId~lLe~tI~~m 283 (398)
+==+.+.+||+||+.-.|+|-|. |=+.|.|+||+.+
T Consensus 297 ~V~~aV~~kl~elk~~LP~gVki~~~ydRs~lid~AI~tv 336 (1027)
T COG3696 297 EVIAAVKEKLEELKKSLPEGVKIVTTYDRSELIDKAIDTV 336 (1027)
T ss_pred HHHHHHHHHHHHHHhhCCCCcEEEEEeeHHHHHHHHHHHH
Confidence 45578999999999999999996 7789999998875
No 38
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL. NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes.
Probab=26.28 E-value=20 Score=33.62 Aligned_cols=21 Identities=19% Similarity=0.276 Sum_probs=19.7
Q ss_pred hcccceeeehhhheeCCceEE
Q 038975 373 RGFGLNIWKGVMERREDKIWA 393 (398)
Q Consensus 373 rglgLtILKGvmE~r~~k~Wa 393 (398)
.||||.|.|.++|..+++||.
T Consensus 458 ~GlGL~i~~~iv~~~gG~i~~ 478 (494)
T TIGR02938 458 IGMGLSVAQEIVADHGGIIDL 478 (494)
T ss_pred CcccHHHHHHHHHHcCCEEEE
Confidence 479999999999999999997
No 39
>PRK13560 hypothetical protein; Provisional
Probab=25.62 E-value=22 Score=36.26 Aligned_cols=22 Identities=14% Similarity=0.256 Sum_probs=20.3
Q ss_pred hhcccceeeehhhheeCCceEE
Q 038975 372 IRGFGLNIWKGVMERREDKIWA 393 (398)
Q Consensus 372 IrglgLtILKGvmE~r~~k~Wa 393 (398)
-.||||.|.|+++|.++++||.
T Consensus 768 ~~gLGLai~~~iv~~~gG~I~v 789 (807)
T PRK13560 768 AETLGLQLVCALVKQLDGEIAL 789 (807)
T ss_pred cCCccHHHHHHHHHHcCCEEEE
Confidence 3589999999999999999996
No 40
>PRK05007 PII uridylyl-transferase; Provisional
Probab=25.54 E-value=60 Score=36.38 Aligned_cols=50 Identities=20% Similarity=0.201 Sum_probs=38.5
Q ss_pred CCCchhhHhhhhhcc-chhHHHHHhhhcccceeeehhhheeCC-ceEEEeee
Q 038975 348 STPRQMLIEMVCEDR-GFFLEITDMIRGFGLNIWKGVMERRED-KIWARFIV 397 (398)
Q Consensus 348 ~~pgqMLiEMlCee~-g~FLEIAd~IrglgLtILKGvmE~r~~-k~Wa~F~V 397 (398)
..+|...|+..|.++ |+|..||.++-.+||+|+...+-+..+ ...--|.|
T Consensus 697 ~~~~~t~V~V~a~DrpGLfa~Ia~~La~~~L~I~~A~I~T~~dg~alD~F~V 748 (884)
T PRK05007 697 ATRGGTEIFIWSPDRPYLFAAVCAELDRRNLSVHDAQIFTSRDGMAMDTFIV 748 (884)
T ss_pred CCCCeEEEEEEecCCcCHHHHHHHHHHHCCCEEEEEEEEEcCCCeEEEEEEE
Confidence 334555667777655 789999999999999999998665544 77777877
No 41
>cd03420 SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that corresponds to COG2210. This fold is referred to as a two-layered alpha/beta sandwich, structurally similar to that of translation initiation factor 3.
Probab=24.99 E-value=48 Score=25.54 Aligned_cols=55 Identities=20% Similarity=0.286 Sum_probs=41.2
Q ss_pred CccccceE-------eecCCCCchhhHhhhhhccchhHHHHHhhhcccceeeehhhheeCCceEEEe
Q 038975 336 PTLSCPII-------VQDLSTPRQMLIEMVCEDRGFFLEITDMIRGFGLNIWKGVMERREDKIWARF 395 (398)
Q Consensus 336 ~~~vcpIi-------VEdL~~pgqMLiEMlCee~g~FLEIAd~IrglgLtILKGvmE~r~~k~Wa~F 395 (398)
..+.||+- +++| ++|+ .+|.++.+-+..-.|..+.+..|-+++ ..+. .+..|.-+
T Consensus 5 rG~~CP~Pvl~~kkal~~l-~~G~-~l~V~~d~~~a~~di~~~~~~~G~~~~--~~~~-~~~~~~~~ 66 (69)
T cd03420 5 CGLQCPGPILKLKKEIDKL-QDGE-QLEVKASDPGFARDAQAWCKSTGNTLI--SLET-EKGKVKAV 66 (69)
T ss_pred CCCcCCHHHHHHHHHHHcC-CCCC-EEEEEECCccHHHHHHHHHHHcCCEEE--EEEe-cCCEEEEE
Confidence 45789984 3445 3677 678999999999999999999999998 2232 46677544
No 42
>PRK05092 PII uridylyl-transferase; Provisional
Probab=24.99 E-value=1.1e+02 Score=34.33 Aligned_cols=44 Identities=18% Similarity=0.319 Sum_probs=33.5
Q ss_pred hHhhhhhc-cchhHHHHHhhhcccceeeehhhhe-eCCceEEEeee
Q 038975 354 LIEMVCED-RGFFLEITDMIRGFGLNIWKGVMER-REDKIWARFIV 397 (398)
Q Consensus 354 LiEMlCee-~g~FLEIAd~IrglgLtILKGvmE~-r~~k~Wa~F~V 397 (398)
.|...|.+ -|+|-.|+.++-.+|++|+...+-+ .++....-|.|
T Consensus 734 ~v~I~~~Dr~GLfa~i~~~L~~~glnI~~A~I~t~~dg~alD~F~V 779 (931)
T PRK05092 734 EVTVLAADHPGLFSRIAGACAAAGANIVDARIFTTTDGRALDTFWI 779 (931)
T ss_pred EEEEEeCCCCcHHHHHHHHHHHCCCcEEEEEEEEecCCeEEEEEEE
Confidence 34444444 4789999999999999999998765 66666666876
No 43
>PF14679 FANCI_HD1: FANCI helical domain 1; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=23.89 E-value=64 Score=27.16 Aligned_cols=28 Identities=25% Similarity=0.514 Sum_probs=17.6
Q ss_pred HHHHHHHHhhcCCCCcccchhhhHHHHHHH
Q 038975 253 IQDRLKELRDIIPNGAKCSIDCLLDLTIKH 282 (398)
Q Consensus 253 IqdR~KeLr~lVPNG~KcsId~lLe~tI~~ 282 (398)
.+.+=|=||+++|+. |+|.+++.++|+.
T Consensus 59 ~~~~SkwL~~l~p~~--~~v~~~ilevv~n 86 (87)
T PF14679_consen 59 KQQGSKWLQDLVPQS--CCVSTIILEVVKN 86 (87)
T ss_dssp HHTT-HHHHHHS-------HHHHHHHHHHH
T ss_pred HHhCChhhHHhcCCc--chHHHHHHHHHhc
Confidence 344557799999986 8999999998863
No 44
>cd04896 ACT_ACR-like_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the third ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=23.25 E-value=59 Score=26.43 Aligned_cols=44 Identities=23% Similarity=0.421 Sum_probs=36.2
Q ss_pred hHhhhhhcc-chhHHHHHhhhcccceeeehhhh--eeCCceEEEeee
Q 038975 354 LIEMVCEDR-GFFLEITDMIRGFGLNIWKGVME--RREDKIWARFIV 397 (398)
Q Consensus 354 LiEMlCee~-g~FLEIAd~IrglgLtILKGvmE--~r~~k~Wa~F~V 397 (398)
+||+.|.+| |+--.||.++..+||.|-.+... +-++..=--|.|
T Consensus 2 vlev~a~DRpGLL~~i~~~l~~~~l~i~~AkI~~~T~Gerv~D~Fyv 48 (75)
T cd04896 2 LLQIRCVDQKGLLYDILRTSKDCNIQISYGRFSSKVKGYREVDLFIV 48 (75)
T ss_pred EEEEEeCCcccHHHHHHHHHHHCCeEEEEEEEecCcccCEEEEEEEE
Confidence 456667665 67779999999999999999998 888887777765
No 45
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=22.06 E-value=73 Score=25.51 Aligned_cols=60 Identities=17% Similarity=0.328 Sum_probs=43.4
Q ss_pred EecCCCccccce-------EeecCCCCchhhHhhhhhccchhHHHHHhhhcccceeeehhhheeCCceEEEe
Q 038975 331 CEVEGPTLSCPI-------IVQDLSTPRQMLIEMVCEDRGFFLEITDMIRGFGLNIWKGVMERREDKIWARF 395 (398)
Q Consensus 331 ~Evg~~~~vcpI-------iVEdL~~pgqMLiEMlCee~g~FLEIAd~IrglgLtILKGvmE~r~~k~Wa~F 395 (398)
+++.-....||. -++.| ++|+ .+|.++.+-+..--|..+.+..|.+++. .+ ..+..|.-+
T Consensus 10 ~~lD~~Gl~CP~Pll~~kk~l~~l-~~G~-~l~V~~dd~~~~~di~~~~~~~G~~~~~--~~-~~~g~~~~~ 76 (81)
T PRK00299 10 HTLDALGLRCPEPVMMVRKTVRNM-QPGE-TLLIIADDPATTRDIPSFCRFMDHELLA--QE-TEQLPYRYL 76 (81)
T ss_pred eEEecCCCCCCHHHHHHHHHHHcC-CCCC-EEEEEeCCccHHHHHHHHHHHcCCEEEE--EE-ecCCEEEEE
Confidence 345556688998 34566 4565 4567999999999999999999999985 33 345666443
No 46
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=21.65 E-value=28 Score=29.83 Aligned_cols=21 Identities=33% Similarity=0.464 Sum_probs=18.3
Q ss_pred hcccceeeehhhheeCCceEE
Q 038975 373 RGFGLNIWKGVMERREDKIWA 393 (398)
Q Consensus 373 rglgLtILKGvmE~r~~k~Wa 393 (398)
-||||.|.|.+++.++++++.
T Consensus 293 ~GlGL~i~~~~~~~~~g~i~~ 313 (336)
T COG0642 293 TGLGLAIVKRIVELHGGTISV 313 (336)
T ss_pred CCccHHHHHHHHHHcCCEEEE
Confidence 489999999988999988765
No 47
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=21.50 E-value=27 Score=39.82 Aligned_cols=20 Identities=40% Similarity=0.700 Sum_probs=19.2
Q ss_pred cccceeeehhhheeCCceEE
Q 038975 374 GFGLNIWKGVMERREDKIWA 393 (398)
Q Consensus 374 glgLtILKGvmE~r~~k~Wa 393 (398)
||||.|-||++|++++.|||
T Consensus 844 GLGLsIc~~iv~ahgG~I~a 863 (890)
T COG2205 844 GLGLAICRGIVEAHGGTISA 863 (890)
T ss_pred cccHHHHHHHHHHcCCeEEE
Confidence 79999999999999999997
No 48
>PRK04374 PII uridylyl-transferase; Provisional
Probab=20.94 E-value=81 Score=35.53 Aligned_cols=54 Identities=17% Similarity=0.334 Sum_probs=46.9
Q ss_pred eecCCCCchhhHhhhhhcc-chhHHHHHhhhcccceeeehhhheeCCceEEEeee
Q 038975 344 VQDLSTPRQMLIEMVCEDR-GFFLEITDMIRGFGLNIWKGVMERREDKIWARFIV 397 (398)
Q Consensus 344 VEdL~~pgqMLiEMlCee~-g~FLEIAd~IrglgLtILKGvmE~r~~k~Wa~F~V 397 (398)
+.+-..++...||..+.+| |+|-.||.++..+||+|+....-+.++...--|.|
T Consensus 788 ~~~~~~~~~t~leI~a~DrpGLLa~Ia~~l~~~~l~I~~AkI~T~g~~a~D~F~V 842 (869)
T PRK04374 788 FSESAGGRRTRISLVAPDRPGLLADVAHVLRMQHLRVHDARIATFGERAEDQFQI 842 (869)
T ss_pred EeecCCCCeEEEEEEeCCcCcHHHHHHHHHHHCCCeEEEeEEEecCCEEEEEEEE
Confidence 3444556778899999876 99999999999999999999999999999999987
No 49
>KOG4111 consensus Translocase of outer mitochondrial membrane complex, subunit TOM22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.22 E-value=99 Score=28.48 Aligned_cols=38 Identities=21% Similarity=0.386 Sum_probs=30.8
Q ss_pred hhhHHHHHHHHHhhcCCCCcccchhhhHHHHHHHHHHH
Q 038975 249 DRQQIQDRLKELRDIIPNGAKCSIDCLLDLTIKHMIFL 286 (398)
Q Consensus 249 dRq~IqdR~KeLr~lVPNG~KcsId~lLe~tI~~m~FL 286 (398)
--+-|-|||--|.|+||.|...-|.+.-.-|+.-++=|
T Consensus 40 ~dETi~eRi~gLkEivp~g~R~~i~~~~~~av~~~kk~ 77 (136)
T KOG4111|consen 40 EDETILERIWGLKEIVPQGRRSAIGATAGDAVFVVKKL 77 (136)
T ss_pred cchhHHHHHHhhHhhcchhhhhhhhhcchhHHHHHHHH
Confidence 34679999999999999999988888777777655433
No 50
>PF05119 Terminase_4: Phage terminase, small subunit; InterPro: IPR006448 This entry is represented by Streptococcus phage 7201, Orf21. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This group of sequences describe the distinct family of phage (and integrated prophage) putative terminase small subunit sequnces. Members tend to be encoded by the gene adjacent to the phage terminase large subunit gene.
Probab=20.18 E-value=65 Score=25.52 Aligned_cols=33 Identities=24% Similarity=0.326 Sum_probs=28.4
Q ss_pred CCCCchhhHhhhhhccchhHHHHHhhhccccee
Q 038975 347 LSTPRQMLIEMVCEDRGFFLEITDMIRGFGLNI 379 (398)
Q Consensus 347 L~~pgqMLiEMlCee~g~FLEIAd~IrglgLtI 379 (398)
|+.--..+||++|+-+..|.+....|+.-|+++
T Consensus 18 l~~~D~~~l~~yc~~~~~~~~~~~~l~~~G~~~ 50 (100)
T PF05119_consen 18 LSNLDVPLLERYCEAYSRYREAEKELKKEGFVV 50 (100)
T ss_pred CcHhHHHHHHHHHHHHHHHHHHHHHHHHcCcee
Confidence 344445899999999999999999999999984
No 51
>PF09383 NIL: NIL domain; InterPro: IPR018449 This domain is found at the C terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins. This domain is likely to act as a substrate binding domain. The domain has been named after a conserved sequence in some members of the family. ; PDB: 2QRR_A 3CED_A 2QSW_A 3TUZ_D 3TUJ_D 3DHX_B 3TUI_H 3DHW_D.
Probab=20.13 E-value=89 Score=23.97 Aligned_cols=31 Identities=29% Similarity=0.514 Sum_probs=23.6
Q ss_pred HHHhhhc--ccceeeehhhheeCCceEEEeeeC
Q 038975 368 ITDMIRG--FGLNIWKGVMERREDKIWARFIVE 398 (398)
Q Consensus 368 IAd~Irg--lgLtILKGvmE~r~~k~Wa~F~VE 398 (398)
|++++|. +..+||.|-++.=.++.--.|+||
T Consensus 19 is~l~~~~~v~~nIl~g~i~~i~~~~~G~l~l~ 51 (76)
T PF09383_consen 19 ISQLIREFGVDVNILHGNIEEIQGTPFGILILE 51 (76)
T ss_dssp HHHHHHHHT-EEEEEEEEEEEETTEEEEEEEEE
T ss_pred HHHHHHHhCCCEEEEEEEeEEcCCeeEEEEEEE
Confidence 5666665 456899999999888888887764
No 52
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=20.11 E-value=30 Score=31.87 Aligned_cols=22 Identities=27% Similarity=0.504 Sum_probs=20.1
Q ss_pred hcccceeeehhhheeCCceEEE
Q 038975 373 RGFGLNIWKGVMERREDKIWAR 394 (398)
Q Consensus 373 rglgLtILKGvmE~r~~k~Wa~ 394 (398)
.||||.|.|.+++.++++||+.
T Consensus 312 ~GlGL~i~~~iv~~~gG~i~~~ 333 (348)
T PRK11073 312 TGLGLSIARNLIDQHSGKIEFT 333 (348)
T ss_pred ccCCHHHHHHHHHHcCCeEEEE
Confidence 4999999999999999999974
Done!