Query 023115
Match_columns 287
No_of_seqs 115 out of 222
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 08:32:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023115.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023115hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14144 DOG1: Seed dormancy c 100.0 4.2E-35 9.1E-40 227.0 7.2 79 44-124 1-79 (80)
2 PF13801 Metal_resist: Heavy-m 96.9 0.025 5.4E-07 44.6 11.4 84 148-255 41-124 (125)
3 COG3678 CpxP P pilus assembly/ 96.1 0.072 1.6E-06 46.6 10.6 88 148-262 57-144 (160)
4 PRK12750 cpxP periplasmic repr 95.8 0.31 6.6E-06 43.0 13.2 103 145-272 50-160 (170)
5 PRK10363 cpxP periplasmic repr 94.3 0.74 1.6E-05 40.6 11.1 83 149-259 51-134 (166)
6 PRK10455 periplasmic protein; 94.0 0.56 1.2E-05 41.0 9.7 83 149-259 57-140 (161)
7 PRK12751 cpxP periplasmic stre 93.9 1.1 2.5E-05 39.2 11.5 94 149-270 57-151 (162)
8 PF07813 LTXXQ: LTXXQ motif fa 90.9 1.3 2.7E-05 34.1 7.2 82 145-257 12-96 (100)
9 COG3130 Rmf Ribosome modulatio 52.3 3.7 8E-05 29.5 -0.5 18 101-118 32-49 (55)
10 PRK14563 ribosome modulation f 49.7 7.1 0.00015 28.5 0.6 15 101-116 33-47 (55)
11 PF11459 DUF2893: Protein of u 42.0 63 0.0014 24.6 4.7 42 225-266 21-62 (69)
12 TIGR02889 spore_YpeB germinati 40.5 3.7E+02 0.0079 27.3 11.3 122 30-185 32-154 (435)
13 CHL00132 psaF photosystem I su 37.5 1.6E+02 0.0035 26.5 7.2 87 19-113 26-120 (185)
14 PF11239 DUF3040: Protein of u 35.7 33 0.00072 26.3 2.4 30 148-177 2-31 (82)
15 PLN03217 transcription factor 35.1 2E+02 0.0042 23.1 6.6 51 129-181 28-78 (93)
16 PF14620 YPEB: YpeB sporulatio 31.4 5.1E+02 0.011 25.4 11.1 122 31-186 23-145 (361)
17 PF13586 DDE_Tnp_1_2: Transpos 31.0 22 0.00048 27.2 0.7 19 97-115 44-62 (88)
18 PLN02796 D-glycerate 3-kinase 30.1 85 0.0018 30.9 4.8 43 35-83 278-320 (347)
19 COG3407 MVD1 Mevalonate pyroph 29.7 1.3E+02 0.0028 29.4 5.9 45 32-83 203-247 (329)
20 cd00068 GGL G protein gamma su 29.2 1.3E+02 0.0028 21.6 4.4 46 40-99 2-47 (57)
21 cd00223 TOPRIM_TopoIIB_SPO TOP 28.6 76 0.0016 27.0 3.7 39 106-165 89-127 (160)
22 PF04957 RMF: Ribosome modulat 27.8 12 0.00025 27.3 -1.2 14 102-115 33-46 (55)
23 PF12108 SF3a60_bindingd: Spli 27.6 44 0.00095 21.1 1.5 15 25-39 3-17 (28)
24 PF05227 CHASE3: CHASE3 domain 27.3 1.9E+02 0.004 22.9 5.7 50 26-81 35-84 (138)
25 PLN00078 photosystem I reactio 27.2 1.1E+02 0.0024 25.3 4.2 15 7-21 38-52 (122)
26 PF00589 Phage_integrase: Phag 25.8 30 0.00064 28.0 0.7 18 106-123 28-45 (173)
27 COG4240 Predicted kinase [Gene 24.8 2.2E+02 0.0048 27.1 6.2 51 36-92 231-281 (300)
28 PLN03046 D-glycerate 3-kinase; 24.1 1.1E+02 0.0024 31.3 4.4 41 37-83 392-432 (460)
29 PF06698 DUF1192: Protein of u 23.9 1.9E+02 0.004 21.4 4.5 34 144-177 16-50 (59)
30 PF03371 PRP38: PRP38 family; 23.7 77 0.0017 28.0 2.9 13 114-126 62-74 (172)
31 PF11897 DUF3417: Protein of u 21.8 63 0.0014 26.8 1.9 50 34-83 40-90 (118)
32 PF08006 DUF1700: Protein of u 21.7 1.6E+02 0.0035 25.4 4.6 34 43-84 4-37 (181)
33 PRK15354 type III secretion sy 21.5 4.7E+02 0.01 24.2 7.5 49 218-268 60-109 (224)
34 PF04678 DUF607: Protein of un 21.5 3.6E+02 0.0079 23.6 6.8 38 147-185 49-86 (180)
35 PF14644 DUF4456: Domain of un 21.3 92 0.002 28.0 3.0 40 29-71 95-134 (208)
36 COG4323 Predicted membrane pro 20.9 22 0.00048 28.5 -0.9 70 29-127 10-90 (105)
37 PF10552 ORF6C: ORF6C domain; 20.7 1.1E+02 0.0024 24.8 3.2 21 101-121 93-113 (116)
38 TIGR03319 YmdA_YtgF conserved 20.3 9.6E+02 0.021 24.7 13.1 47 218-264 111-159 (514)
39 PF10925 DUF2680: Protein of u 20.0 2.5E+02 0.0055 20.5 4.6 28 149-187 1-28 (59)
No 1
>PF14144 DOG1: Seed dormancy control
Probab=100.00 E-value=4.2e-35 Score=226.97 Aligned_cols=79 Identities=48% Similarity=0.907 Sum_probs=75.1
Q ss_pred HHHHHHHHHhhhhcCCCCCchHHHHHHHHHHhHHHHHHHHhhhhhcccccccCCCCCChhHHHHHHhcCCCchHHHHHHH
Q 023115 44 QHLQALISASKQQENNSSSSNFEEQVRVVVEHYEQYYRAKSRWVKLDVLGMLTPSWRSSLEDSFLWIGGWRPSMAFHLLY 123 (287)
Q Consensus 44 ~~l~eLr~Al~~~~~~~sd~eL~~LV~~~l~HY~~y~~~Ks~aA~~DV~~llsp~W~tplEr~fLWiGG~RPS~~l~Lly 123 (287)
|++.|||+|++++. .+|.+|+.||+++++||++||++|+.+|++|||++|+|+|+||+||||+||||||||++|||||
T Consensus 1 ~~l~eLr~al~~~~--~~~~~L~~lV~~~~~Hy~~y~~~K~~aa~~DV~~~~s~~W~sp~Er~flWiGG~RPS~~~~ll~ 78 (80)
T PF14144_consen 1 RQLNELRAALQSHA--DSDDELRSLVDKVMSHYDEYYRAKSAAAKADVFHLLSPPWKSPLERCFLWIGGWRPSELFKLLY 78 (80)
T ss_pred CcHHHHHHHHHhcC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHhCCCCCCHHHHHHHHHhcCCHHHHHHHHh
Confidence 57899999998665 4699999999999999999999999999999999999999999999999999999999999998
Q ss_pred h
Q 023115 124 S 124 (287)
Q Consensus 124 s 124 (287)
+
T Consensus 79 s 79 (80)
T PF14144_consen 79 S 79 (80)
T ss_pred c
Confidence 6
No 2
>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H.
Probab=96.85 E-value=0.025 Score=44.57 Aligned_cols=84 Identities=17% Similarity=0.218 Sum_probs=66.8
Q ss_pred CCcHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhccCCCCCCcchhhhhhHHHHHHHHHhHHHH
Q 023115 148 DLSPTQLTRVDGLQRVIIKEEKDLSEKLAKYQETVADSSLVELSHVVTELMSTNDDRQDSDRRLMDDQIESNFVTKEAKL 227 (287)
Q Consensus 148 ~LS~~Ql~~I~~Lq~~t~~~E~aLs~~ma~lQ~slad~~~~~~a~~~~~~~g~~~~~~~~~~~~~~~~m~~a~~~kl~~L 227 (287)
+||++|..+|..+......+-..+-+.+......+...... .++ .. .++...++.+
T Consensus 41 ~Lt~eQ~~~l~~~~~~~~~~~~~~r~~~~~~r~~l~~ll~~--------------~~~------D~----~~i~a~~~~~ 96 (125)
T PF13801_consen 41 NLTPEQQAKLRALMDEFRQEMRALRQELRAARQELRALLAA--------------PPP------DE----AAIEALLEEI 96 (125)
T ss_dssp -TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC--------------SSS-------H----HHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC--------------CCC------CH----HHHHHHHHHH
Confidence 49999999999999999999999999999999988777631 111 11 3345666777
Q ss_pred HHHHHHhhHHHHHHHHHHHhhcCHHHHH
Q 023115 228 EEIFHKADDLRLKTFKAVIDILTPIQAV 255 (287)
Q Consensus 228 ~~~l~qAD~LR~~TL~~l~~ILTp~QAA 255 (287)
...-.+.+..|.+++.++..+|||.|=+
T Consensus 97 ~~~~~~l~~~~~~~~~~~~~~LtpeQR~ 124 (125)
T PF13801_consen 97 REAQAELRQERLEHLLEIRAVLTPEQRA 124 (125)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTT-GGGHH
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCHHHhC
Confidence 7788888899999999999999999865
No 3
>COG3678 CpxP P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein [Intracellular trafficking and secretion / Cell motility and secretio / Signal transduction mechanisms / Inorganic ion transport and metabolism]
Probab=96.13 E-value=0.072 Score=46.61 Aligned_cols=88 Identities=22% Similarity=0.286 Sum_probs=60.1
Q ss_pred CCcHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhccCCCCCCcchhhhhhHHHHHHHHHhHHHH
Q 023115 148 DLSPTQLTRVDGLQRVIIKEEKDLSEKLAKYQETVADSSLVELSHVVTELMSTNDDRQDSDRRLMDDQIESNFVTKEAKL 227 (287)
Q Consensus 148 ~LS~~Ql~~I~~Lq~~t~~~E~aLs~~ma~lQ~slad~~~~~~a~~~~~~~g~~~~~~~~~~~~~~~~m~~a~~~kl~~L 227 (287)
+||++|..+|.++...-+ .+..+-+..-..++-+.+. . +. +| ++++..+.+.+
T Consensus 57 ~lT~~Qrqqi~~i~~~~~---~a~~~~~~~~r~~l~~li~-----------a--~~--------~D---~aka~a~~~~m 109 (160)
T COG3678 57 DLTRAQRQQIRDLMQAQR---RAQREQLRSKRRALHELIA-----------A--DQ--------FD---EAKARAQAEKM 109 (160)
T ss_pred cccHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHh-----------c--CC--------cC---HHHHHHHHHHH
Confidence 399999999999887766 3333333333334433321 1 11 11 13445677888
Q ss_pred HHHHHHhhHHHHHHHHHHHhhcCHHHHHHHHHHHH
Q 023115 228 EEIFHKADDLRLKTFKAVIDILTPIQAVHFLIAAA 262 (287)
Q Consensus 228 ~~~l~qAD~LR~~TL~~l~~ILTp~QAA~fL~A~~ 262 (287)
+..-.+.+.+|.++-.++.+||||.|.+.|=--.+
T Consensus 110 ~~~~~~~~~~r~k~~~~m~~vLTPEQr~~l~~~~~ 144 (160)
T COG3678 110 ENQRQALRELRVKSDNQMYQVLTPEQRAKLQELLA 144 (160)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence 88889999999999999999999999977644433
No 4
>PRK12750 cpxP periplasmic repressor CpxP; Reviewed
Probab=95.80 E-value=0.31 Score=42.95 Aligned_cols=103 Identities=17% Similarity=0.119 Sum_probs=61.0
Q ss_pred CCCCCcHHHHHHHHHHhHHHHHHHHH--------HHHHHHHHHHHhhhhhhhhhhhhhhhhccCCCCCCcchhhhhhHHH
Q 023115 145 DLGDLSPTQLTRVDGLQRVIIKEEKD--------LSEKLAKYQETVADSSLVELSHVVTELMSTNDDRQDSDRRLMDDQI 216 (287)
Q Consensus 145 ~l~~LS~~Ql~~I~~Lq~~t~~~E~a--------Ls~~ma~lQ~slad~~~~~~a~~~~~~~g~~~~~~~~~~~~~~~~m 216 (287)
.|+ ||++|..+|..++...+.+=.+ ..+.|....+.+.+.+.+ +++ ....+
T Consensus 50 ~L~-LTdeQk~qik~i~~~~r~~~k~~~~~~r~~~~~~m~a~~~~~~~Ll~a--------------~~F------Deaav 108 (170)
T PRK12750 50 QLD-LTDAQKEQLKEMREANRAEMKAKYSGNREQSHAEMKAHHAKVQALVLA--------------DDF------DEAAA 108 (170)
T ss_pred hCC-CCHHHHHHHHHHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHhc--------------CCC------CHHHH
Confidence 344 9999999999999887765444 334444444444444321 111 11122
Q ss_pred HHHHHHhHHHHHHHHHHhhHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHhch
Q 023115 217 ESNFVTKEAKLEEIFHKADDLRLKTFKAVIDILTPIQAVHFLIAAAELHLRLHDWG 272 (287)
Q Consensus 217 ~~a~~~kl~~L~~~l~qAD~LR~~TL~~l~~ILTp~QAA~fL~A~~e~~~~lr~~G 272 (287)
. ...+.+...-.+.---|.++.+++..||||-|=+.|-.-..+.....++-+
T Consensus 109 r----al~~~~~~~~~e~~v~~~~~~~~~~~vLTpEQRak~~e~~~~r~~~~~~~~ 160 (170)
T PRK12750 109 N----DLAKQMVEKQVERRVKMLEKRHQMLSILTPEQKAKFQELQQERMQECQDKM 160 (170)
T ss_pred H----HHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 1 222222222222223467889999999999999999888766665555554
No 5
>PRK10363 cpxP periplasmic repressor CpxP; Reviewed
Probab=94.29 E-value=0.74 Score=40.60 Aligned_cols=83 Identities=12% Similarity=0.099 Sum_probs=48.5
Q ss_pred CcHHHHHHHHHHhHHHHHHHHHHHH-HHHHHHHHhhhhhhhhhhhhhhhhccCCCCCCcchhhhhhHHHHHHHHHhHHHH
Q 023115 149 LSPTQLTRVDGLQRVIIKEEKDLSE-KLAKYQETVADSSLVELSHVVTELMSTNDDRQDSDRRLMDDQIESNFVTKEAKL 227 (287)
Q Consensus 149 LS~~Ql~~I~~Lq~~t~~~E~aLs~-~ma~lQ~slad~~~~~~a~~~~~~~g~~~~~~~~~~~~~~~~m~~a~~~kl~~L 227 (287)
||++|..+|.+|.+.-+.+.+.++. +++.++ +.+. . +.+ .+..+ ....+.+
T Consensus 51 LTdaQRqQmRdLm~~~r~~~~~~~~~er~amh----~LI~-----------a---d~F------DEaav----ra~a~km 102 (166)
T PRK10363 51 LTEHQRQQMRDLMQQARHEQPPVNVSEMETMH----RLVT-----------A---ENF------DENAV----RAQAEKM 102 (166)
T ss_pred CCHHHHHHHHHHHHHHHhcccccCHHHHHHHH----HHHh-----------c---CCC------CHHHH----HHHHHHH
Confidence 9999999999999888876555442 222222 1111 1 111 11122 2222222
Q ss_pred HHHHHHhhHHHHHHHHHHHhhcCHHHHHHHHH
Q 023115 228 EEIFHKADDLRLKTFKAVIDILTPIQAVHFLI 259 (287)
Q Consensus 228 ~~~l~qAD~LR~~TL~~l~~ILTp~QAA~fL~ 259 (287)
..-=.+.-=-|.++=++|..||||-|-+.|=-
T Consensus 103 a~~~~e~~Vem~k~~nqmy~lLTPEQKaq~~~ 134 (166)
T PRK10363 103 AQEQVARQVEMAKVRNQMYRLLTPEQQAVLNE 134 (166)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 22222222357788899999999999999943
No 6
>PRK10455 periplasmic protein; Reviewed
Probab=93.95 E-value=0.56 Score=41.00 Aligned_cols=83 Identities=18% Similarity=0.184 Sum_probs=49.5
Q ss_pred CcHHHHHHHHHHhHHHHHHHHHHH-HHHHHHHHHhhhhhhhhhhhhhhhhccCCCCCCcchhhhhhHHHHHHHHHhHHHH
Q 023115 149 LSPTQLTRVDGLQRVIIKEEKDLS-EKLAKYQETVADSSLVELSHVVTELMSTNDDRQDSDRRLMDDQIESNFVTKEAKL 227 (287)
Q Consensus 149 LS~~Ql~~I~~Lq~~t~~~E~aLs-~~ma~lQ~slad~~~~~~a~~~~~~~g~~~~~~~~~~~~~~~~m~~a~~~kl~~L 227 (287)
||++|..+|..|.+..+..-...+ ++.+.++ +.+. .+++ | ++++...++.+
T Consensus 57 LT~~Qrqqir~im~~~r~~~~~~~~~~r~~l~----~li~--------------ad~F-------D---eaavra~~~k~ 108 (161)
T PRK10455 57 LTDAQKQQIRDIMKAQRDQMKRPPLEERRAMH----DIIA--------------SDTF-------D---KAKAEAQITKM 108 (161)
T ss_pred CCHHHHHHHHHHHHHHHHhhccccHHHHHHHH----HHHc--------------cCcc-------C---HHHHHHHHHHH
Confidence 999999999999877665533322 1222222 1110 1111 1 12223334444
Q ss_pred HHHHHHhhHHHHHHHHHHHhhcCHHHHHHHHH
Q 023115 228 EEIFHKADDLRLKTFKAVIDILTPIQAVHFLI 259 (287)
Q Consensus 228 ~~~l~qAD~LR~~TL~~l~~ILTp~QAA~fL~ 259 (287)
...-.+.-..|.++-.+|..||||-|-+.|=.
T Consensus 109 ~~~~~~~~~~~~~~~~qiy~vLTPEQr~q~~~ 140 (161)
T PRK10455 109 EAQRKARMLAHMETQNKIYNVLTPEQKKQFNA 140 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 44444444578899999999999999998764
No 7
>PRK12751 cpxP periplasmic stress adaptor protein CpxP; Reviewed
Probab=93.86 E-value=1.1 Score=39.18 Aligned_cols=94 Identities=16% Similarity=0.107 Sum_probs=55.0
Q ss_pred CcHHHHHHHHHHhHHHHHHHHHHH-HHHHHHHHHhhhhhhhhhhhhhhhhccCCCCCCcchhhhhhHHHHHHHHHhHHHH
Q 023115 149 LSPTQLTRVDGLQRVIIKEEKDLS-EKLAKYQETVADSSLVELSHVVTELMSTNDDRQDSDRRLMDDQIESNFVTKEAKL 227 (287)
Q Consensus 149 LS~~Ql~~I~~Lq~~t~~~E~aLs-~~ma~lQ~slad~~~~~~a~~~~~~~g~~~~~~~~~~~~~~~~m~~a~~~kl~~L 227 (287)
||++|..+|-.+...-+....... .+++.+ -+.+. .+++ .. +++...++.+
T Consensus 57 LTd~QR~qmr~im~~~r~~~~~~~~~~~~~m----~~Li~--------------Ad~F------De----aAvra~~~km 108 (162)
T PRK12751 57 LTEQQRQQMRDLMRQSHQSQPRLDLEDREAM----HKLIT--------------ADKF------DE----AAVRAQAEKM 108 (162)
T ss_pred CCHHHHHHHHHHHHHhhhcccchhHHHHHHH----HHHHh--------------cCCC------CH----HHHHHHHHHH
Confidence 999999999998888776532111 112221 11111 1121 11 2223333344
Q ss_pred HHHHHHhhHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHh
Q 023115 228 EEIFHKADDLRLKTFKAVIDILTPIQAVHFLIAAAELHLRLHD 270 (287)
Q Consensus 228 ~~~l~qAD~LR~~TL~~l~~ILTp~QAA~fL~A~~e~~~~lr~ 270 (287)
...-.+----+.++..+++.+|||-|-+.|---.-+-...+|+
T Consensus 109 a~~~~e~~v~~~~~~~qmy~lLTPEQra~l~~~~e~r~~~~~~ 151 (162)
T PRK12751 109 SQNQIERHVEMAKVRNQMYNLLTPEQKEALNKKHQERIEKLQQ 151 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHh
Confidence 4333444446889999999999999999987666655555544
No 8
>PF07813 LTXXQ: LTXXQ motif family protein; InterPro: IPR012899 This five residue motif is found in a number of bacterial proteins bearing similarity to the protein CpxP (P32158 from SWISSPROT). This is a periplasmic protein that aids in combating extracytoplasmic protein-mediated toxicity, and may also be involved in the response to alkaline pH []. Another member of this family, Spy (P77754 from SWISSPROT) is also a periplasmic protein that may be involved in the response to stress []. The homology between CpxP and Spy may indicate that these two proteins are functionally related []. The motif is found repeated twice in many members of this entry. ; GO: 0042597 periplasmic space; PDB: 3ITF_B 3QZC_B 3OEO_D 3O39_A.
Probab=90.93 E-value=1.3 Score=34.06 Aligned_cols=82 Identities=23% Similarity=0.305 Sum_probs=44.7
Q ss_pred CCCCCcHHHHHHHHHHhHHHHHHHHHH---HHHHHHHHHHhhhhhhhhhhhhhhhhccCCCCCCcchhhhhhHHHHHHHH
Q 023115 145 DLGDLSPTQLTRVDGLQRVIIKEEKDL---SEKLAKYQETVADSSLVELSHVVTELMSTNDDRQDSDRRLMDDQIESNFV 221 (287)
Q Consensus 145 ~l~~LS~~Ql~~I~~Lq~~t~~~E~aL---s~~ma~lQ~slad~~~~~~a~~~~~~~g~~~~~~~~~~~~~~~~m~~a~~ 221 (287)
.|+ ||++|...+..|+...+..-..+ .+.+.++.+ . . .+ ...+ .++
T Consensus 12 ~L~-LT~eQ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~-----~------------~--~~---------~~~~-~~~- 60 (100)
T PF07813_consen 12 ELN-LTDEQKAKWRAIRQAMKAKMKPLKAMREQLRALRD-----P------------S--FD---------EAAP-EAL- 60 (100)
T ss_dssp TS---THHHHHHHHHHHHHHCTTS------HHHHHHHHH-----S------------S-------------HHHH-HHH-
T ss_pred hCC-CCHHHHHHHHHHHHHHHHHHHhhcccHHHHHHhcc-----c------------c--CC---------hhHH-HHH-
Confidence 444 99999999999988877666666 111221111 0 0 00 0011 111
Q ss_pred HhHHHHHHHHHHhhHHHHHHHHHHHhhcCHHHHHHH
Q 023115 222 TKEAKLEEIFHKADDLRLKTFKAVIDILTPIQAVHF 257 (287)
Q Consensus 222 ~kl~~L~~~l~qAD~LR~~TL~~l~~ILTp~QAA~f 257 (287)
...+.+...-.+.-..|..+...+..||||-|=..|
T Consensus 61 ~~~~~~~~~~~~~~~~~~~~~~~~~~vLt~eQk~~~ 96 (100)
T PF07813_consen 61 AAMAEMMELRAEMMEERAKAQHALYAVLTPEQKEKF 96 (100)
T ss_dssp H--HHCHHHHHHHHHHHHHHHHHHHTTS-HHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHH
Confidence 111344444555556788999999999999998776
No 9
>COG3130 Rmf Ribosome modulation factor [Translation, ribosomal structure and biogenesis]
Probab=52.27 E-value=3.7 Score=29.52 Aligned_cols=18 Identities=44% Similarity=1.097 Sum_probs=12.7
Q ss_pred ChhHHHHHHhcCCCchHH
Q 023115 101 SSLEDSFLWIGGWRPSMA 118 (287)
Q Consensus 101 tplEr~fLWiGG~RPS~~ 118 (287)
+.++.--.|+||||--.-
T Consensus 32 q~~~~Rs~WLgGWRea~~ 49 (55)
T COG3130 32 QTLNQRSQWLGGWREAMA 49 (55)
T ss_pred cCchHHHHHHHHHHHHhh
Confidence 445556689999997543
No 10
>PRK14563 ribosome modulation factor; Provisional
Probab=49.67 E-value=7.1 Score=28.49 Aligned_cols=15 Identities=40% Similarity=1.008 Sum_probs=10.7
Q ss_pred ChhHHHHHHhcCCCch
Q 023115 101 SSLEDSFLWIGGWRPS 116 (287)
Q Consensus 101 tplEr~fLWiGG~RPS 116 (287)
++--|+ .||||||--
T Consensus 33 ~~~~r~-~Wl~GWReg 47 (55)
T PRK14563 33 TLDARS-QWLGGWREA 47 (55)
T ss_pred CcHHHH-HHHHHHHHH
Confidence 444455 899999954
No 11
>PF11459 DUF2893: Protein of unknwon function (DUF2893); InterPro: IPR021561 This is a bacterial family of uncharacterised proteins.
Probab=42.04 E-value=63 Score=24.58 Aligned_cols=42 Identities=14% Similarity=0.283 Sum_probs=35.5
Q ss_pred HHHHHHHHHhhHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHH
Q 023115 225 AKLEEIFHKADDLRLKTFKAVIDILTPIQAVHFLIAAAELHL 266 (287)
Q Consensus 225 ~~L~~~l~qAD~LR~~TL~~l~~ILTp~QAA~fL~A~~e~~~ 266 (287)
+....++.-..+||-+.|+++.+--|-+++.+-++.+++.+.
T Consensus 21 e~a~~l~egL~nLrp~~lq~LL~~C~svKvkRLfl~lA~~~~ 62 (69)
T PF11459_consen 21 EEADELMEGLRNLRPRVLQELLEHCTSVKVKRLFLYLAERAG 62 (69)
T ss_pred HHHHHHHHHHhhcCHHHHHHHHHHCccHHHHHHHHHHHHHcC
Confidence 344556777778999999999999999999999999988763
No 12
>TIGR02889 spore_YpeB germination protein YpeB. Members of this family are YpeB, a protein usually encoded with the putative spore-cortex-lytic enzyme SleB and required, together with SleB, for normal germination. This family is retricted to endospore-forming species in the Firmicutes lineage of bacteria, and found in all such species to date except Clostridium perfringens. The matching phenotypes of mutants in SleB (called a lytic transglycosylase) and YpeB suggests that YpeB is necessary to allow SleB to function.
Probab=40.50 E-value=3.7e+02 Score=27.29 Aligned_cols=122 Identities=13% Similarity=0.126 Sum_probs=81.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHHHHHhHHHHHHHHhhhhhcccccc-cCCCCCChhHHHHH
Q 023115 30 SFQKFFESWLVEQNQHLQALISASKQQENNSSSSNFEEQVRVVVEHYEQYYRAKSRWVKLDVLGM-LTPSWRSSLEDSFL 108 (287)
Q Consensus 30 ~F~~~Y~~W~~eq~~~l~eLr~Al~~~~~~~sd~eL~~LV~~~l~HY~~y~~~Ks~aA~~DV~~l-lsp~W~tplEr~fL 108 (287)
..+-.|.|=+.+.-.++..|+..+.......|+..+.. ++.+.++. +.+|++|+-.+ ++.+=.+-.|+++-
T Consensus 32 ~~en~YqRaf~dL~~~vd~l~~~L~k~l~~~s~~q~~~-------~l~~vwr~-as~A~~~l~qLPl~~~~~~~T~kFLs 103 (435)
T TIGR02889 32 YLQAQYQRAFYELTYHVEQIEAQLGKTLAMGSQRQNTP-------VLADVWRH-ASAANESLSQLPLTQESLEKTSKFLS 103 (435)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhCCHHHHHH-------HHHHHHHH-HHHHHHHHhcCCCCCcchhhHHHHHH
Confidence 45667888888888888888777652222122333333 33444443 45567777766 34444566677888
Q ss_pred HhcCCCchHHHHHHHhhhhhhhhhhhhhhhhcCCCCCCCCCcHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhh
Q 023115 109 WIGGWRPSMAFHLLYSKSGLQLEGKLHDLIRGLSSGDLGDLSPTQLTRVDGLQRVIIKEEKDLSEKLAKYQETVADS 185 (287)
Q Consensus 109 WiGG~RPS~~l~Llys~~g~q~E~~l~~~l~g~~~~~l~~LS~~Ql~~I~~Lq~~t~~~E~aLs~~ma~lQ~slad~ 185 (287)
=+|+|-=+...+.+ .=+|||+++...|.+|+.... .|.+.|..+|..+..-
T Consensus 104 qiGDfsy~la~~~~----------------------~g~~lt~~e~~tL~~L~~~a~----~l~~~L~~~q~~v~~g 154 (435)
T TIGR02889 104 QVGDFTYTLSVKDA----------------------EGKSLSDKEYKTLTTLYNQAV----KLENQLRKVQNIVMQG 154 (435)
T ss_pred HHHHHHHHHHhhhc----------------------cCCCCCHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHcC
Confidence 88888777776655 345899999999999887775 6777788888877543
No 13
>CHL00132 psaF photosystem I subunit III; Validated
Probab=37.52 E-value=1.6e+02 Score=26.52 Aligned_cols=87 Identities=24% Similarity=0.404 Sum_probs=55.0
Q ss_pred cCCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCC-CchHHHHHHHHHHhHHHHHHHHhhhhhcc-ccccc-
Q 023115 19 RNGDNNNSDGESFQKFFESWLVEQNQHLQALISASKQQENNSS-SSNFEEQVRVVVEHYEQYYRAKSRWVKLD-VLGML- 95 (287)
Q Consensus 19 ~~g~~~~~~~~~F~~~Y~~W~~eq~~~l~eLr~Al~~~~~~~s-d~eL~~LV~~~l~HY~~y~~~Ks~aA~~D-V~~ll- 95 (287)
-.|-..++++..|.. ..++.+..|.+-++--+.... .-.|+.-|++.-..|+.|-.. ..+...| .+|++
T Consensus 26 ~agLtpCses~aF~k-------R~~~~~k~Le~rlk~Y~~~s~p~lal~~qi~~tk~RFe~Y~~~-~lLCG~DGLPHLI~ 97 (185)
T CHL00132 26 VAGLTPCSESPAFQK-------RLNNSVKKLENRLAKYEANSPPALALQQQIDKTKARFDKYGRS-GLLCGTDGLPHLIT 97 (185)
T ss_pred ccCCccCccCHHHHH-------HHHHHHHHHHhhhhccCCCCChHHHHHHHHHHHHHHHHHhccc-ccccCCCCCceeec
Confidence 346677889999984 344444555444442111111 246899999999999988653 2346556 45665
Q ss_pred CCCCCChhHH-----HHHHhcCC
Q 023115 96 TPSWRSSLED-----SFLWIGGW 113 (287)
Q Consensus 96 sp~W~tplEr-----~fLWiGG~ 113 (287)
.|.|.-.-|= .|++|.||
T Consensus 98 dG~~~HaGeF~IPgllFLYIAGw 120 (185)
T CHL00132 98 DGRWSHAGEFTIPGLLFLYITGW 120 (185)
T ss_pred CCCcccchhhhhhhHHHHHHhhh
Confidence 8999765453 57888877
No 14
>PF11239 DUF3040: Protein of unknown function (DUF3040); InterPro: IPR021401 Some members in this family of proteins with unknown function are annotated as membrane proteins however this cannot be confirmed.
Probab=35.65 E-value=33 Score=26.27 Aligned_cols=30 Identities=17% Similarity=0.385 Sum_probs=27.0
Q ss_pred CCcHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 023115 148 DLSPTQLTRVDGLQRVIIKEEKDLSEKLAK 177 (287)
Q Consensus 148 ~LS~~Ql~~I~~Lq~~t~~~E~aLs~~ma~ 177 (287)
||||+..+.++++++....+.+.+.+.|..
T Consensus 2 ~LSe~E~r~L~eiEr~L~~~DP~fa~~l~~ 31 (82)
T PF11239_consen 2 PLSEHEQRRLEEIERQLRADDPRFAARLRS 31 (82)
T ss_pred CCCHHHHHHHHHHHHHHHhcCcHHHHHhcc
Confidence 589999999999999999999998888877
No 15
>PLN03217 transcription factor ATBS1; Provisional
Probab=35.12 E-value=2e+02 Score=23.05 Aligned_cols=51 Identities=24% Similarity=0.267 Sum_probs=36.6
Q ss_pred hhhhhhhhhhhcCCCCCCCCCcHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 023115 129 QLEGKLHDLIRGLSSGDLGDLSPTQLTRVDGLQRVIIKEEKDLSEKLAKYQET 181 (287)
Q Consensus 129 q~E~~l~~~l~g~~~~~l~~LS~~Ql~~I~~Lq~~t~~~E~aLs~~ma~lQ~s 181 (287)
.+.+-+|++-.+.+.... -+.+-|..-|+--++..+|.|+|+++++.|-.+
T Consensus 28 KLq~llPe~r~~r~s~k~--saskvLqEtC~YIrsLhrEvDdLSerLs~LL~t 78 (93)
T PLN03217 28 KLQQLLPELRDSRRSDKV--SAARVLQDTCNYIRNLHREVDDLSERLSELLAN 78 (93)
T ss_pred HHHHHChHHHhhhccccc--cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 455556665433333333 356677788999999999999999999999877
No 16
>PF14620 YPEB: YpeB sporulation
Probab=31.37 E-value=5.1e+02 Score=25.40 Aligned_cols=122 Identities=15% Similarity=0.164 Sum_probs=76.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHHHHHhHHHHHHHHhhhhhcccccc-cCCCCCChhHHHHHH
Q 023115 31 FQKFFESWLVEQNQHLQALISASKQQENNSSSSNFEEQVRVVVEHYEQYYRAKSRWVKLDVLGM-LTPSWRSSLEDSFLW 109 (287)
Q Consensus 31 F~~~Y~~W~~eq~~~l~eLr~Al~~~~~~~sd~eL~~LV~~~l~HY~~y~~~Ks~aA~~DV~~l-lsp~W~tplEr~fLW 109 (287)
-+-.|.|=+.+...++..|+..+.......|+..+..+ +.+.++ .+..|++|+-.+ ++..=.+-.|.++-=
T Consensus 23 ~en~YqRaf~dL~~~v~~l~~~l~k~l~~~s~~q~~~~-------l~~vwr-~a~~A~~~l~qLPl~~~~~~~t~~FLsq 94 (361)
T PF14620_consen 23 LENQYQRAFHDLSYHVDNLEDELGKTLAANSPEQLSPL-------LAEVWR-QASEAQNDLGQLPLSQMPFNKTEKFLSQ 94 (361)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHH-------HHHHHH-HHHHHHHHHHhCCCCCcchhHHHHHHHH
Confidence 44567777777777777776665421111122233322 222332 356677777766 233334555667777
Q ss_pred hcCCCchHHHHHHHhhhhhhhhhhhhhhhhcCCCCCCCCCcHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhh
Q 023115 110 IGGWRPSMAFHLLYSKSGLQLEGKLHDLIRGLSSGDLGDLSPTQLTRVDGLQRVIIKEEKDLSEKLAKYQETVADSS 186 (287)
Q Consensus 110 iGG~RPS~~l~Llys~~g~q~E~~l~~~l~g~~~~~l~~LS~~Ql~~I~~Lq~~t~~~E~aLs~~ma~lQ~slad~~ 186 (287)
+|+|==+...+.+ .=+|||+++...|.+|+.... .|+++|..+|..+..--
T Consensus 95 vGdfsy~la~~~~----------------------~g~~Lt~~e~~tL~~L~~~s~----~l~~~L~~~~~~v~~~~ 145 (361)
T PF14620_consen 95 VGDFSYSLAVRDL----------------------DGEPLTDEEYKTLKELYEQSG----ELNKELQDVQNKVLSGN 145 (361)
T ss_pred HHHHHHHHHHhhc----------------------CCCCCCHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHhCC
Confidence 7777666666554 445899999999999988876 56777788888875543
No 17
>PF13586 DDE_Tnp_1_2: Transposase DDE domain
Probab=31.02 E-value=22 Score=27.17 Aligned_cols=19 Identities=26% Similarity=0.536 Sum_probs=15.4
Q ss_pred CCCCChhHHHHHHhcCCCc
Q 023115 97 PSWRSSLEDSFLWIGGWRP 115 (287)
Q Consensus 97 p~W~tplEr~fLWiGG~RP 115 (287)
.+.+.-.||+|-||.+||-
T Consensus 44 ~~~Rw~VEr~f~wlk~~Rr 62 (88)
T PF13586_consen 44 YKRRWVVERTFAWLKRFRR 62 (88)
T ss_pred hccceehhhhhHHHHHcCc
Confidence 4455569999999999984
No 18
>PLN02796 D-glycerate 3-kinase
Probab=30.08 E-value=85 Score=30.85 Aligned_cols=43 Identities=14% Similarity=0.283 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHHHHHhHHHHHHHH
Q 023115 35 FESWLVEQNQHLQALISASKQQENNSSSSNFEEQVRVVVEHYEQYYRAK 83 (287)
Q Consensus 35 Y~~W~~eq~~~l~eLr~Al~~~~~~~sd~eL~~LV~~~l~HY~~y~~~K 83 (287)
--+|..+|++.+. +.-. .-++|+++...|+.+|=-|+.||..-
T Consensus 278 v~~WR~qQE~~l~---~~~~---~gMsde~v~~FV~~~mP~y~~y~~~l 320 (347)
T PLN02796 278 VYEWRLQAEIAMR---AKGK---PGMSDEEVADFVSRYMPAYKAYLPGL 320 (347)
T ss_pred HHHHHHHHHHHHH---HhCC---CCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467777776544 2222 24789999999999999999998865
No 19
>COG3407 MVD1 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]
Probab=29.66 E-value=1.3e+02 Score=29.43 Aligned_cols=45 Identities=16% Similarity=0.361 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHHHHHhHHHHHHHH
Q 023115 32 QKFFESWLVEQNQHLQALISASKQQENNSSSSNFEEQVRVVVEHYEQYYRAK 83 (287)
Q Consensus 32 ~~~Y~~W~~eq~~~l~eLr~Al~~~~~~~sd~eL~~LV~~~l~HY~~y~~~K 83 (287)
..||+.|++....++++++.+.+ +.+...+.+..+.+..++...-
T Consensus 203 S~~y~~w~~~~~~~~~~m~~~~~-------~~Df~~i~~~~e~dsl~mHA~l 247 (329)
T COG3407 203 SPFYDAWLEHSEEDLEEMKEAIR-------EKDFEKIGELAENDSLEMHATL 247 (329)
T ss_pred ChHHHHHHHHHHHhHHHHHHHHh-------ccCHHHHHHHHHhhHHHHHHHH
Confidence 45999999999999999999986 4578888999999888887654
No 20
>cd00068 GGL G protein gamma subunit-like motifs, the alpha-helical G-gamma chain dimerizes with the G-beta propeller subunit as part of the heterotrimeric G-protein complex; involved in signal transduction via G-protein-coupled receptors
Probab=29.22 E-value=1.3e+02 Score=21.64 Aligned_cols=46 Identities=13% Similarity=0.088 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHhhhhcCCCCCchHHHHHHHHHHhHHHHHHHHhhhhhcccccccCCCC
Q 023115 40 VEQNQHLQALISASKQQENNSSSSNFEEQVRVVVEHYEQYYRAKSRWVKLDVLGMLTPSW 99 (287)
Q Consensus 40 ~eq~~~l~eLr~Al~~~~~~~sd~eL~~LV~~~l~HY~~y~~~Ks~aA~~DV~~llsp~W 99 (287)
+.+++.+..||..+. -=|.-|.++..-+..|++.. +..|. +++|.|
T Consensus 2 ~~~~~~veqLr~el~---------~~RikvS~a~~~l~~y~e~~---~~~Dp--ll~g~~ 47 (57)
T cd00068 2 DQLKKEVEQLRKELS---------RERLKVSKAAAELLKYCEQN---AENDP--LLTGPP 47 (57)
T ss_pred HHHHHHHHHHHHHHC---------CchhhHHHHHHHHHHHHHhc---CCCCC--CCCCCC
Confidence 356778888988875 12667888888888888876 67785 457877
No 21
>cd00223 TOPRIM_TopoIIB_SPO TOPRIM_TopoIIB_SPO: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11. This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI) and Saccharomyces cerevisiae meiotic recombination factor: Spo11. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. TopoVI enzymes are heterotetramers found in archaea and plants. Spo11 plays a role in generating the double strand breaks that initiate homologous recombination during meiosis. S. shibatae TopoVI relaxes both positive and negative supercoils, and in addition has a strong decatenase activity. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspart
Probab=28.62 E-value=76 Score=27.01 Aligned_cols=39 Identities=33% Similarity=0.403 Sum_probs=29.6
Q ss_pred HHHHhcCCCchHHHHHHHhhhhhhhhhhhhhhhhcCCCCCCCCCcHHHHHHHHHHhHHHH
Q 023115 106 SFLWIGGWRPSMAFHLLYSKSGLQLEGKLHDLIRGLSSGDLGDLSPTQLTRVDGLQRVII 165 (287)
Q Consensus 106 ~fLWiGG~RPS~~l~Llys~~g~q~E~~l~~~l~g~~~~~l~~LS~~Ql~~I~~Lq~~t~ 165 (287)
.+.|+ |.+||.+.+ ++ .....|||++.+..+.+|.++..
T Consensus 89 ~l~~~-G~~~~d~~~-~~-------------------~~~~~~Ls~~d~~~l~~ll~~~~ 127 (160)
T cd00223 89 DLRWL-GLRPSDIIR-LP-------------------DLPLLPLSERDLKRAKSLLRRPR 127 (160)
T ss_pred CcEEc-cCCHHHHhh-cc-------------------ccccCCCCHHHHHHHHHHHhccc
Confidence 45665 588998877 22 34677899999999999888754
No 22
>PF04957 RMF: Ribosome modulation factor; InterPro: IPR007040 This entry contains ribosome modulation factors (RMF). They associate with 70s ribosomes and converts them to a dimeric form (100S ribosomes) which appear during the transition from the exponential growth phase to the stationary phase of Escherichia colicells [, ]. It has been proposed that RMF mediates the formation of a 'storage ribosome', the 100S particle, in stationary phase by inactivating excess ribosomes to protect them from degradation and to maintain the required balance between the concentrations of ribosomes and protein synthesis factors in order to maintain translational elongation efficiency [, ]. ; PDB: 2JRM_A 3V24_V 3V22_V.
Probab=27.78 E-value=12 Score=27.34 Aligned_cols=14 Identities=36% Similarity=1.011 Sum_probs=10.3
Q ss_pred hhHHHHHHhcCCCc
Q 023115 102 SLEDSFLWIGGWRP 115 (287)
Q Consensus 102 plEr~fLWiGG~RP 115 (287)
..+-.-.||||||=
T Consensus 33 ~~~~r~~Wl~GWre 46 (55)
T PF04957_consen 33 DGDARSQWLGGWRE 46 (55)
T ss_dssp SCHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHH
Confidence 34457789999984
No 23
>PF12108 SF3a60_bindingd: Splicing factor SF3a60 binding domain; InterPro: IPR021966 This domain is found in eukaryotes. This domain is about 30 amino acids in length. This domain has a single completely conserved residue Y that may be functionally important. SF3a60 makes up the SF3a complex with SF3a66 and SF3a120. This domain is the binding site of SF3a60 for SF3a120. The SF3a complex is part of the spliceosome, a protein complex involved in splicing mRNA after transcription. ; PDB: 2DT7_A.
Probab=27.60 E-value=44 Score=21.12 Aligned_cols=15 Identities=33% Similarity=0.674 Sum_probs=9.1
Q ss_pred CCcchhHHHHHHHHH
Q 023115 25 NSDGESFQKFFESWL 39 (287)
Q Consensus 25 ~~~~~~F~~~Y~~W~ 39 (287)
+|+...|..||.+.-
T Consensus 3 is~~d~f~eFY~rlk 17 (28)
T PF12108_consen 3 ISGGDPFSEFYERLK 17 (28)
T ss_dssp --S--HHHHHHHHHH
T ss_pred CCCCChHHHHHHHHH
Confidence 566789999998763
No 24
>PF05227 CHASE3: CHASE3 domain; InterPro: IPR007891 CHASE3 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are upstream of signal transduction pathways in bacteria. Specifically, CHASE3 domains are found in histidine kinases, adenylate cyclases, methyl-accepting chemotaxis proteins and predicted diguanylate cyclases/phosphodiesterases. Environmental factors that are recognised by CHASE3 domains are not known at this time [].; PDB: 3VA9_A.
Probab=27.32 E-value=1.9e+02 Score=22.94 Aligned_cols=50 Identities=12% Similarity=0.179 Sum_probs=37.0
Q ss_pred CcchhHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHHHHHhHHHHHH
Q 023115 26 SDGESFQKFFESWLVEQNQHLQALISASKQQENNSSSSNFEEQVRVVVEHYEQYYR 81 (287)
Q Consensus 26 ~~~~~F~~~Y~~W~~eq~~~l~eLr~Al~~~~~~~sd~eL~~LV~~~l~HY~~y~~ 81 (287)
++...|-.-|..+...-...+.+|+.-.+ ++.+.+..++.+-.-+..|+.
T Consensus 35 tgd~~~l~~y~~~~~~~~~~l~~L~~l~~------~~p~q~~~l~~l~~~~~~~~~ 84 (138)
T PF05227_consen 35 TGDPEFLEPYQEARARLEKALAQLRQLVQ------DNPEQQERLDQLEELIDQWRE 84 (138)
T ss_dssp H--HHHHHHHHHHHHHHHHHHHHHHHHTT------T-HHHHHHHHHHHHHHHHHHH
T ss_pred cCCHhhhchHHHHHHHHHHHHHHHHHHhc------CCHHHHHHHHHHHHHHHHHHH
Confidence 34689999999999999999999997774 244666667777766666663
No 25
>PLN00078 photosystem I reaction center subunit N (PsaN); Provisional
Probab=27.20 E-value=1.1e+02 Score=25.33 Aligned_cols=15 Identities=47% Similarity=0.707 Sum_probs=12.8
Q ss_pred chhhhccccccccCC
Q 023115 7 SIVTFLSSAAAIRNG 21 (287)
Q Consensus 7 ~~~~~~~~~~~~~~g 21 (287)
.+.|||-|++||-+|
T Consensus 38 ~llt~l~staaip~~ 52 (122)
T PLN00078 38 CLLTFLTSTAAIPEA 52 (122)
T ss_pred HHHHHHHhhccCCCC
Confidence 467999999999877
No 26
>PF00589 Phage_integrase: Phage integrase family; InterPro: IPR002104 Phage integrase proteins cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment [, ]. The catalytic site residues in CRE recombinase (P06956 from SWISSPROT) are Arg-173, His-289, Arg-292 and Tyr-324.; GO: 0003677 DNA binding, 0006310 DNA recombination, 0015074 DNA integration; PDB: 1A0P_A 1Z1G_B 1Z19_A 1AE9_A 1Z1B_A 1P7D_B 2A3V_C 1Q3V_E 1Q3U_A 1OUQ_F ....
Probab=25.76 E-value=30 Score=28.04 Aligned_cols=18 Identities=33% Similarity=0.503 Sum_probs=12.5
Q ss_pred HHHHhcCCCchHHHHHHH
Q 023115 106 SFLWIGGWRPSMAFHLLY 123 (287)
Q Consensus 106 ~fLWiGG~RPS~~l~Lly 123 (287)
.+++.+|+||+++++|=+
T Consensus 28 ~l~~~tG~R~~El~~l~~ 45 (173)
T PF00589_consen 28 LLLLYTGLRPSELLRLRW 45 (173)
T ss_dssp HHHHHHT--HHHHHT-BG
T ss_pred HHHHHHccchhhhhhhhh
Confidence 578899999999998664
No 27
>COG4240 Predicted kinase [General function prediction only]
Probab=24.79 E-value=2.2e+02 Score=27.13 Aligned_cols=51 Identities=25% Similarity=0.457 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHHHHHhHHHHHHHHhhhhhcccc
Q 023115 36 ESWLVEQNQHLQALISASKQQENNSSSSNFEEQVRVVVEHYEQYYRAKSRWVKLDVL 92 (287)
Q Consensus 36 ~~W~~eq~~~l~eLr~Al~~~~~~~sd~eL~~LV~~~l~HY~~y~~~Ks~aA~~DV~ 92 (287)
-.|.-+|+ .+|++++. ..++|.+..+.|+..|..|.-|+..-+..+.-|..
T Consensus 231 y~WRlQqE---hkliAr~~---kgmsdeqv~efvn~ymrsl~lylq~ls~~~al~~~ 281 (300)
T COG4240 231 YAWRLQQE---HKLIARLA---KGMSDEQVSEFVNAYMRSLELYLQRLSEWIALDLP 281 (300)
T ss_pred HHHHHHHH---HHHHHHHh---ccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCc
Confidence 45777664 35566664 23679999999999999999999988877766633
No 28
>PLN03046 D-glycerate 3-kinase; Provisional
Probab=24.09 E-value=1.1e+02 Score=31.32 Aligned_cols=41 Identities=12% Similarity=0.289 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHHHHHhHHHHHHHH
Q 023115 37 SWLVEQNQHLQALISASKQQENNSSSSNFEEQVRVVVEHYEQYYRAK 83 (287)
Q Consensus 37 ~W~~eq~~~l~eLr~Al~~~~~~~sd~eL~~LV~~~l~HY~~y~~~K 83 (287)
+|..+|++.+. +.- ..-++|++++..|+..|=.|+.|+..-
T Consensus 392 ~WRlqQE~kLr---~~g---g~GMsdeqV~~FV~~YmPaY~~y~~~L 432 (460)
T PLN03046 392 QWRLQAEIAMR---ADG---KPGMSDEEVMDFVSRYLPAYKAYLPTL 432 (460)
T ss_pred HHHHHHHHHHH---HcC---CCCCCHHHHHHHHHHhhhHHHHHHHHH
Confidence 46666665443 221 124779999999999999999999866
No 29
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=23.93 E-value=1.9e+02 Score=21.38 Aligned_cols=34 Identities=32% Similarity=0.347 Sum_probs=26.8
Q ss_pred CCCCCCcHHHHH-HHHHHhHHHHHHHHHHHHHHHH
Q 023115 144 GDLGDLSPTQLT-RVDGLQRVIIKEEKDLSEKLAK 177 (287)
Q Consensus 144 ~~l~~LS~~Ql~-~I~~Lq~~t~~~E~aLs~~ma~ 177 (287)
-+|++||-..|. +|..|+.++.+.|.++...-+.
T Consensus 16 ~dLs~lSv~EL~~RIa~L~aEI~R~~~~~~~K~a~ 50 (59)
T PF06698_consen 16 EDLSLLSVEELEERIALLEAEIARLEAAIAKKSAS 50 (59)
T ss_pred CCchhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 468888888875 4999999999988888776543
No 30
>PF03371 PRP38: PRP38 family; InterPro: IPR005037 Members of this family are related to the pre mRNA splicing factor PRP38 from yeast [], therefore all the members of this family could be involved in splicing. This conserved region could be involved in RNA binding. The putative domain is about 180 amino acids in length. PRP38 is a unique component of the U4/U6.U5 tri-small nuclear ribonucleoprotein (snRNP) particle and is necessary for an essential step late in spliceosome maturation [].
Probab=23.69 E-value=77 Score=27.97 Aligned_cols=13 Identities=54% Similarity=0.697 Sum_probs=11.1
Q ss_pred CchHHHHHHHhhh
Q 023115 114 RPSMAFHLLYSKS 126 (287)
Q Consensus 114 RPS~~l~Llys~~ 126 (287)
|||.+|=|++.+.
T Consensus 62 ~Ps~f~CLL~KLl 74 (172)
T PF03371_consen 62 RPSPFFCLLYKLL 74 (172)
T ss_pred CCchHHHHHHHHH
Confidence 6999999998764
No 31
>PF11897 DUF3417: Protein of unknown function (DUF3417); InterPro: IPR024517 This domain of unknown function is found at the N terminus of members of the glycogen phosphorylase family.
Probab=21.75 E-value=63 Score=26.80 Aligned_cols=50 Identities=18% Similarity=0.257 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhcC-CCCCchHHHHHHHHHHhHHHHHHHH
Q 023115 34 FFESWLVEQNQHLQALISASKQQEN-NSSSSNFEEQVRVVVEHYEQYYRAK 83 (287)
Q Consensus 34 ~Y~~W~~eq~~~l~eLr~Al~~~~~-~~sd~eL~~LV~~~l~HY~~y~~~K 83 (287)
-.+.|-+..++-+.=|+...++... ...|.++...++++++.|++|...|
T Consensus 40 Dp~lW~~~~~NPv~~L~~vs~~rL~~la~D~~fl~~~~~v~~~f~~Ym~~~ 90 (118)
T PF11897_consen 40 DPELWEESGHNPVRLLQEVSQERLEELAQDPEFLARYDRVYARFEEYMSQK 90 (118)
T ss_pred CHHHHHHcCCCHHHHHHHCCHHHHHHHhCCHHHHHHHHHHHHHHHHHHcCC
Confidence 3678888666666666555332111 1238899999999999999999997
No 32
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=21.74 E-value=1.6e+02 Score=25.41 Aligned_cols=34 Identities=24% Similarity=0.379 Sum_probs=23.9
Q ss_pred HHHHHHHHHHhhhhcCCCCCchHHHHHHHHHHhHHHHHHHHh
Q 023115 43 NQHLQALISASKQQENNSSSSNFEEQVRVVVEHYEQYYRAKS 84 (287)
Q Consensus 43 ~~~l~eLr~Al~~~~~~~sd~eL~~LV~~~l~HY~~y~~~Ks 84 (287)
+..+++|+..++. .+ ++ -.+.+++.|++||+..-
T Consensus 4 ~efL~~L~~~L~~-lp---~~----e~~e~l~~Y~e~f~d~~ 37 (181)
T PF08006_consen 4 NEFLNELEKYLKK-LP---EE----EREEILEYYEEYFDDAG 37 (181)
T ss_pred HHHHHHHHHHHHc-CC---HH----HHHHHHHHHHHHHHHhh
Confidence 5678889888872 21 23 35677889999998763
No 33
>PRK15354 type III secretion system protein SsaK; Provisional
Probab=21.51 E-value=4.7e+02 Score=24.23 Aligned_cols=49 Identities=18% Similarity=0.176 Sum_probs=36.9
Q ss_pred HHHHHhHHHHHHHHHHhhHHHHHHHHHH-HhhcCHHHHHHHHHHHHHHHHHH
Q 023115 218 SNFVTKEAKLEEIFHKADDLRLKTFKAV-IDILTPIQAVHFLIAAAELHLRL 268 (287)
Q Consensus 218 ~a~~~kl~~L~~~l~qAD~LR~~TL~~l-~~ILTp~QAA~fL~A~~e~~~~l 268 (287)
.|-..+-.-+...-.+||+||.+|+.++ .++| -|=+.+|++..++...|
T Consensus 60 ~A~~~~~~ll~qaqqqad~L~~~~~~~~E~~~L--~qHV~wLve~e~lE~sL 109 (224)
T PRK15354 60 DAYRYQREQKVEQQQELACLRKNTLEKMEVEWL--EQHVKHLQEDENQFRSL 109 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHhhHHHHHHH
Confidence 3333455556777889999999999999 7777 46688888888877554
No 34
>PF04678 DUF607: Protein of unknown function, DUF607; InterPro: IPR006769 This entry represents the C-terminal domain of coiled-coil domain containing protein 109.
Probab=21.49 E-value=3.6e+02 Score=23.58 Aligned_cols=38 Identities=16% Similarity=0.247 Sum_probs=25.8
Q ss_pred CCCcHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhh
Q 023115 147 GDLSPTQLTRVDGLQRVIIKEEKDLSEKLAKYQETVADS 185 (287)
Q Consensus 147 ~~LS~~Ql~~I~~Lq~~t~~~E~aLs~~ma~lQ~slad~ 185 (287)
.+..+.|..+...|++.....+.+| +.|++.+..+...
T Consensus 49 ~~~~~~~~~~~~~l~~~l~~~~~el-~~le~~k~~id~~ 86 (180)
T PF04678_consen 49 LNVEEYQNSRERQLRKRLEELRQEL-APLEKIKQEIDEK 86 (180)
T ss_pred ccchhhhHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence 3356677777788888888777777 5566666665443
No 35
>PF14644 DUF4456: Domain of unknown function (DUF4456)
Probab=21.33 E-value=92 Score=27.96 Aligned_cols=40 Identities=20% Similarity=0.318 Sum_probs=32.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHH
Q 023115 29 ESFQKFFESWLVEQNQHLQALISASKQQENNSSSSNFEEQVRV 71 (287)
Q Consensus 29 ~~F~~~Y~~W~~eq~~~l~eLr~Al~~~~~~~sd~eL~~LV~~ 71 (287)
..|..+|..|...-+.+..+||-.|. |+ ....+|..|.+.
T Consensus 95 ~~f~~~~~~~~~~k~~h~~~LrP~Lg-hP--~~~~eL~~L~~~ 134 (208)
T PF14644_consen 95 EEFEQQQKQWEQQKDQHEQQLRPNLG-HP--DNRQELESLCER 134 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCcCC-CC--CCHHHHHHHHHH
Confidence 56999999999999999999999886 32 335788888764
No 36
>COG4323 Predicted membrane protein [Function unknown]
Probab=20.90 E-value=22 Score=28.48 Aligned_cols=70 Identities=27% Similarity=0.469 Sum_probs=43.8
Q ss_pred hhHHHHHHHHHHHHHHHHH-HHHHHhhhhcCCCCCchHHHHHHHHHHhHHHHHHHHhhhhhcccccccCCCCC----Chh
Q 023115 29 ESFQKFFESWLVEQNQHLQ-ALISASKQQENNSSSSNFEEQVRVVVEHYEQYYRAKSRWVKLDVLGMLTPSWR----SSL 103 (287)
Q Consensus 29 ~~F~~~Y~~W~~eq~~~l~-eLr~Al~~~~~~~sd~eL~~LV~~~l~HY~~y~~~Ks~aA~~DV~~llsp~W~----tpl 103 (287)
.+|..||.-.+.||.+.+. .|.-+-. .--|--||..+ ++|.|. .|+
T Consensus 10 ~SFAeFYPyYl~EH~N~vcRRLH~vGs-------~LvlvcL~~~V----------------------f~~~w~wllAapv 60 (105)
T COG4323 10 KSFAEFYPYYLTEHANPVCRRLHVVGS-------SLVLVCLVLGV----------------------FRGDWRWLLAAPV 60 (105)
T ss_pred hhHHHhchHHHHhccchhHhhhhhhhh-------HHHHHHHHHHH----------------------HhcchHHHHHhhh
Confidence 4899999999999965554 4432211 11233333322 233332 223
Q ss_pred HH-HHHHhcCC-----CchHHHHHHHhhhh
Q 023115 104 ED-SFLWIGGW-----RPSMAFHLLYSKSG 127 (287)
Q Consensus 104 Er-~fLWiGG~-----RPS~~l~Llys~~g 127 (287)
-- .|.|+|-| ||.++-.=+||+||
T Consensus 61 ~GYgFAWvGHFvFEKNRPATFkyPvySlMG 90 (105)
T COG4323 61 IGYGFAWVGHFVFEKNRPATFKYPVYSLMG 90 (105)
T ss_pred hcccceeeeeeeeecCCCccccccHHHhhc
Confidence 23 79999987 99999999999886
No 37
>PF10552 ORF6C: ORF6C domain; InterPro: IPR018878 This entry represents the carboxy-terminal domain from ORF6 (Q9B012 from SWISSPROT), an antirepressor protein from Lactococcus phage bIL285 [].
Probab=20.74 E-value=1.1e+02 Score=24.79 Aligned_cols=21 Identities=24% Similarity=0.767 Sum_probs=17.7
Q ss_pred ChhHHHHHHhcCCCchHHHHH
Q 023115 101 SSLEDSFLWIGGWRPSMAFHL 121 (287)
Q Consensus 101 tplEr~fLWiGG~RPS~~l~L 121 (287)
.-+|.++-+|-+|+|+..+..
T Consensus 93 kdfd~A~~~I~~W~p~~~l~~ 113 (116)
T PF10552_consen 93 KDFDEALEFINNWEPSTALKM 113 (116)
T ss_pred HHHHHHHHHHHHcCCCHHHHH
Confidence 348999999999999987753
No 38
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=20.25 E-value=9.6e+02 Score=24.72 Aligned_cols=47 Identities=23% Similarity=0.266 Sum_probs=38.2
Q ss_pred HHHHHhHHHHHHHHHHhhHHHHHHHHHHHhh--cCHHHHHHHHHHHHHH
Q 023115 218 SNFVTKEAKLEEIFHKADDLRLKTFKAVIDI--LTPIQAVHFLIAAAEL 264 (287)
Q Consensus 218 ~a~~~kl~~L~~~l~qAD~LR~~TL~~l~~I--LTp~QAA~fL~A~~e~ 264 (287)
..+..+.+.+.....+.+.++.+....+-+| ||.-||-..|+.-.+-
T Consensus 111 ~~L~~re~eLee~~~e~~~~~~~~~~~le~~a~lt~~eak~~l~~~~~~ 159 (514)
T TIGR03319 111 KELSNKEKNLDEKEEELEELIAEQREELERISGLTQEEAKEILLEEVEE 159 (514)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence 5567788888889999999999988888655 9999999988865543
No 39
>PF10925 DUF2680: Protein of unknown function (DUF2680); InterPro: IPR024485 Members in this family of proteins are annotated as YckD however currently no function is known.
Probab=20.04 E-value=2.5e+02 Score=20.47 Aligned_cols=28 Identities=14% Similarity=0.296 Sum_probs=20.8
Q ss_pred CcHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 023115 149 LSPTQLTRVDGLQRVIIKEEKDLSEKLAKYQETVADSSL 187 (287)
Q Consensus 149 LS~~Ql~~I~~Lq~~t~~~E~aLs~~ma~lQ~slad~~~ 187 (287)
||++|...|.+|... |-.++..+.|.-+
T Consensus 1 lT~~Qk~el~~l~~q-----------m~e~kK~~idk~V 28 (59)
T PF10925_consen 1 LTDQQKKELKALYKQ-----------MLELKKQIIDKYV 28 (59)
T ss_pred CCHHHHHHHHHHHHH-----------HHHHHHHHHHHHH
Confidence 789999999887654 6677777777653
Done!