Query 030353
Match_columns 179
No_of_seqs 111 out of 262
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 12:26:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030353.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030353hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14523 Syntaxin_2: Syntaxin- 99.9 3.1E-25 6.8E-30 162.6 12.7 102 40-141 1-102 (102)
2 KOG0811 SNARE protein PEP12/VA 99.8 1.3E-19 2.9E-24 154.6 14.7 114 30-145 16-129 (269)
3 smart00503 SynN Syntaxin N-ter 99.7 4E-16 8.7E-21 115.9 12.7 109 30-138 3-117 (117)
4 cd00179 SynN Syntaxin N-termin 99.7 4.5E-16 9.8E-21 120.7 11.7 113 31-143 2-121 (151)
5 PF00804 Syntaxin: Syntaxin; 98.0 7.6E-05 1.7E-09 53.3 9.8 93 31-123 3-103 (103)
6 KOG0810 SNARE protein Syntaxin 94.0 1.6 3.6E-05 38.2 12.7 113 30-142 35-155 (297)
7 COG5325 t-SNARE complex subuni 93.6 0.98 2.1E-05 39.2 10.2 111 30-147 33-145 (283)
8 KOG0809 SNARE protein TLG2/Syn 78.8 46 0.001 29.4 14.4 111 30-142 56-172 (305)
9 PF10498 IFT57: Intra-flagella 77.4 15 0.00033 33.0 8.3 86 54-142 200-291 (359)
10 PF14523 Syntaxin_2: Syntaxin- 74.4 28 0.0006 24.7 9.3 23 69-91 37-59 (102)
11 PRK15330 cell invasion protein 74.2 19 0.00042 32.1 7.9 75 33-127 131-206 (343)
12 TIGR02553 SipD_IpaD_SspD type 69.0 50 0.0011 29.2 9.2 76 33-128 103-179 (308)
13 PF07106 TBPIP: Tat binding pr 68.6 55 0.0012 25.7 10.4 91 32-138 76-166 (169)
14 PF05227 CHASE3: CHASE3 domain 62.7 53 0.0011 23.9 7.3 88 39-136 43-134 (138)
15 COG4575 ElaB Uncharacterized c 60.6 69 0.0015 24.0 7.5 55 39-93 9-65 (104)
16 PRK10807 paraquat-inducible pr 59.8 1.6E+02 0.0034 28.0 11.5 21 30-50 412-432 (547)
17 PF01017 STAT_alpha: STAT prot 58.3 46 0.00099 26.7 6.7 56 30-87 123-178 (182)
18 PF11593 Med3: Mediator comple 55.8 84 0.0018 28.6 8.4 63 70-132 27-94 (379)
19 PF14966 DNA_repr_REX1B: DNA r 55.5 78 0.0017 23.0 7.5 52 31-85 36-87 (97)
20 PF07730 HisKA_3: Histidine ki 55.4 54 0.0012 21.1 7.8 57 35-96 8-64 (68)
21 KOG1937 Uncharacterized conser 52.6 1.2E+02 0.0026 28.5 9.0 101 32-132 393-517 (521)
22 PF05739 SNARE: SNARE domain; 52.2 49 0.0011 21.2 5.0 54 43-96 5-59 (63)
23 COG4694 Uncharacterized protei 51.5 1.1E+02 0.0023 29.9 8.7 71 61-140 387-461 (758)
24 KOG3251 Golgi SNAP receptor co 50.1 1.5E+02 0.0034 24.9 10.8 91 36-137 4-96 (213)
25 cd07623 BAR_SNX1_2 The Bin/Amp 48.9 1.5E+02 0.0033 24.4 11.3 23 115-137 190-212 (224)
26 PF05597 Phasin: Poly(hydroxya 47.9 56 0.0012 25.3 5.4 53 33-85 74-129 (132)
27 PF06103 DUF948: Bacterial pro 47.9 93 0.002 21.7 7.0 25 72-96 47-71 (90)
28 PHA03172 UL37 tegument protein 44.9 3.6E+02 0.0077 27.5 12.6 66 34-100 779-865 (951)
29 KOG0972 Huntingtin interacting 44.1 1.3E+02 0.0029 26.8 7.6 84 54-140 207-296 (384)
30 PF15619 Lebercilin: Ciliary p 43.5 1.8E+02 0.004 23.8 11.9 98 37-139 91-193 (194)
31 TIGR02780 TrbJ_Ti P-type conju 42.8 1.8E+02 0.0038 24.5 8.1 54 35-90 43-96 (246)
32 TIGR01834 PHA_synth_III_E poly 42.6 95 0.0021 27.6 6.6 60 31-90 252-314 (320)
33 COG4847 Uncharacterized protei 42.1 1.4E+02 0.0031 22.1 7.1 47 48-94 56-102 (103)
34 PF04799 Fzo_mitofusin: fzo-li 40.6 2E+02 0.0043 23.4 8.5 30 32-61 110-139 (171)
35 COG5074 t-SNARE complex subuni 39.2 2.6E+02 0.0055 24.2 11.1 97 38-137 28-127 (280)
36 PF04728 LPP: Lipoprotein leuc 38.7 61 0.0013 21.6 3.7 25 37-61 5-29 (56)
37 PF05791 Bacillus_HBL: Bacillu 38.2 2.1E+02 0.0045 22.9 10.7 63 36-99 67-137 (184)
38 PF08066 PMC2NT: PMC2NT (NUC01 38.0 1.5E+02 0.0031 21.0 6.4 66 30-95 23-88 (91)
39 PF03961 DUF342: Protein of un 37.9 2.2E+02 0.0047 26.0 8.5 32 31-62 330-361 (451)
40 KOG3065 SNAP-25 (synaptosome-a 37.5 93 0.002 27.1 5.7 57 39-95 215-272 (273)
41 cd07596 BAR_SNX The Bin/Amphip 36.8 2E+02 0.0044 22.4 10.4 25 115-139 186-210 (218)
42 TIGR00634 recN DNA repair prot 36.4 3.7E+02 0.008 25.3 12.1 71 29-99 264-342 (563)
43 KOG1962 B-cell receptor-associ 36.4 2.4E+02 0.0052 23.8 7.8 58 74-134 153-210 (216)
44 PF10191 COG7: Golgi complex c 34.5 2.8E+02 0.0061 27.4 9.1 64 36-99 46-111 (766)
45 PF01763 Herpes_UL6: Herpesvir 34.1 2.3E+02 0.0049 27.3 8.1 28 30-57 350-382 (557)
46 cd00179 SynN Syntaxin N-termin 34.1 2E+02 0.0043 21.5 8.1 74 68-142 47-127 (151)
47 PLN03217 transcription factor 31.7 1.7E+02 0.0036 21.4 5.3 55 46-100 21-77 (93)
48 PF05478 Prominin: Prominin; 31.7 1.8E+02 0.0039 28.8 7.3 118 30-149 235-367 (806)
49 PRK06665 flgK flagellar hook-a 31.6 4.8E+02 0.01 25.1 11.8 54 70-123 169-222 (627)
50 TIGR01837 PHA_granule_1 poly(h 31.1 1.5E+02 0.0033 22.2 5.3 39 46-84 74-115 (118)
51 PHA03332 membrane glycoprotein 30.8 4.6E+02 0.01 27.5 9.8 60 38-97 894-962 (1328)
52 PF06511 IpaD: Invasion plasmi 30.7 2.6E+02 0.0056 25.1 7.5 75 33-127 130-205 (337)
53 PF06419 COG6: Conserved oligo 30.4 2.6E+02 0.0057 26.8 8.0 76 69-144 63-152 (618)
54 PRK12715 flgK flagellar hook-a 29.5 1.7E+02 0.0037 28.4 6.6 49 37-85 158-206 (649)
55 PF10498 IFT57: Intra-flagella 29.4 4.2E+02 0.0092 23.8 9.8 18 33-50 243-260 (359)
56 PF09141 Talin_middle: Talin, 29.3 80 0.0017 25.4 3.7 54 37-93 80-133 (161)
57 PF06156 DUF972: Protein of un 29.3 2.4E+02 0.0052 20.9 7.7 48 67-117 3-50 (107)
58 KOG1451 Oligophrenin-1 and rel 29.0 1.3E+02 0.0028 29.4 5.5 14 64-77 12-25 (812)
59 PRK07739 flgK flagellar hook-a 28.5 4.9E+02 0.011 24.2 11.7 54 70-123 169-222 (507)
60 COG4238 Murein lipoprotein [Ce 28.1 99 0.0021 21.9 3.5 26 35-60 25-50 (78)
61 PF03114 BAR: BAR domain; Int 27.6 1.9E+02 0.0041 22.5 5.7 14 30-43 25-38 (229)
62 PF10805 DUF2730: Protein of u 27.6 2.5E+02 0.0054 20.5 7.4 52 41-96 41-92 (106)
63 PRK07521 flgK flagellar hook-a 27.2 5E+02 0.011 24.0 11.8 54 70-123 152-205 (483)
64 PRK13848 conjugal transfer pro 26.9 2.6E+02 0.0057 20.6 6.8 71 65-139 3-73 (98)
65 PF04065 Not3: Not1 N-terminal 26.9 1.7E+02 0.0038 24.8 5.5 60 76-136 5-64 (233)
66 PF08649 DASH_Dad1: DASH compl 26.8 1.1E+02 0.0023 20.6 3.4 28 32-59 6-33 (58)
67 PF04899 MbeD_MobD: MbeD/MobD 26.7 2.2E+02 0.0047 19.6 6.5 54 33-88 12-65 (70)
68 PF13870 DUF4201: Domain of un 26.1 3.2E+02 0.007 21.4 10.3 67 32-98 43-110 (177)
69 TIGR03752 conj_TIGR03752 integ 25.4 5.8E+02 0.013 24.1 9.1 20 114-133 120-139 (472)
70 PF07432 Hc1: Histone H1-like 25.3 2.7E+02 0.0058 21.4 5.7 22 74-95 2-23 (123)
71 smart00503 SynN Syntaxin N-ter 25.3 2.5E+02 0.0054 19.8 10.8 94 41-142 7-114 (117)
72 PF05565 Sipho_Gp157: Siphovir 25.3 3.4E+02 0.0073 21.3 8.3 54 43-98 2-55 (162)
73 KOG2150 CCR4-NOT transcription 24.3 1.8E+02 0.004 27.9 5.6 58 76-134 5-62 (575)
74 PF11172 DUF2959: Protein of u 24.3 93 0.002 25.9 3.3 31 31-61 170-200 (201)
75 PRK13874 conjugal transfer pro 24.2 4.3E+02 0.0094 22.2 7.4 48 37-86 46-93 (230)
76 PF06013 WXG100: Proteins of 1 24.1 2.1E+02 0.0045 18.5 8.9 59 33-91 9-70 (86)
77 PF06015 Chordopox_A30L: Chord 24.0 1E+02 0.0022 21.5 3.0 30 30-59 22-51 (71)
78 PF09537 DUF2383: Domain of un 23.9 2.7E+02 0.0059 19.8 8.3 60 37-100 3-62 (111)
79 cd07610 FCH_F-BAR The Extended 23.6 3.5E+02 0.0075 20.9 10.2 48 51-98 34-83 (191)
80 KOG0994 Extracellular matrix g 23.5 4.5E+02 0.0097 28.1 8.3 102 27-144 1197-1301(1758)
81 cd07636 BAR_GRAF The Bin/Amphi 23.5 3.1E+02 0.0067 22.8 6.3 14 121-134 67-80 (207)
82 cd00193 t_SNARE Soluble NSF (N 23.2 1.9E+02 0.0041 17.7 5.1 19 44-62 8-26 (60)
83 PRK05683 flgK flagellar hook-a 22.9 7.2E+02 0.016 24.3 11.9 54 70-123 157-210 (676)
84 PF00489 IL6: Interleukin-6/G- 22.8 3.7E+02 0.0081 21.0 8.8 58 40-99 52-109 (154)
85 COG4467 Regulator of replicati 22.5 3.4E+02 0.0074 20.5 5.7 63 67-137 3-65 (114)
86 PF09177 Syntaxin-6_N: Syntaxi 22.3 2.9E+02 0.0063 19.5 8.1 30 33-62 3-32 (97)
87 PRK08471 flgK flagellar hook-a 22.3 7.1E+02 0.015 24.0 11.7 55 70-124 162-218 (613)
88 PRK07191 flgK flagellar hook-a 21.8 3E+02 0.0066 25.2 6.5 49 37-85 158-210 (456)
89 PF03670 UPF0184: Uncharacteri 21.5 2.9E+02 0.0063 19.8 5.0 55 30-93 20-75 (83)
90 PF07820 TraC: TraC-like prote 21.5 3.3E+02 0.0072 19.9 6.7 64 67-134 4-67 (92)
91 PF09712 PHA_synth_III_E: Poly 21.3 1.8E+02 0.0038 25.3 4.7 17 32-48 215-231 (293)
92 PF11430 EGL-1: Programmed cel 21.2 59 0.0013 17.4 1.0 15 155-169 2-16 (21)
93 cd07671 F-BAR_PSTPIP1 The F-BA 20.8 5.1E+02 0.011 21.7 8.6 35 62-96 150-184 (242)
94 PRK07191 flgK flagellar hook-a 20.8 6.6E+02 0.014 23.0 11.8 54 70-123 157-210 (456)
95 PRK11352 regulator protein Frm 20.5 3.3E+02 0.0072 19.5 7.3 49 36-87 7-55 (91)
96 cd07602 BAR_RhoGAP_OPHN1-like 20.5 3.8E+02 0.0083 22.3 6.3 15 121-135 67-81 (207)
97 COG1256 FlgK Flagellar hook-as 20.4 7.6E+02 0.016 23.6 11.7 50 72-121 163-212 (552)
98 KOG3251 Golgi SNAP receptor co 20.4 5.2E+02 0.011 21.7 7.5 52 33-85 31-82 (213)
99 PHA02892 hypothetical protein; 20.4 1.4E+02 0.003 20.9 3.0 30 30-59 28-57 (75)
100 PF05816 TelA: Toxic anion res 20.3 5.9E+02 0.013 22.3 7.8 73 69-141 242-315 (333)
No 1
>PF14523 Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A.
Probab=99.93 E-value=3.1e-25 Score=162.57 Aligned_cols=102 Identities=38% Similarity=0.597 Sum_probs=90.4
Q ss_pred HHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHHHHHHH
Q 030353 40 VAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAKLAKDF 119 (179)
Q Consensus 40 Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eKL~~dF 119 (179)
|+++||+||++|++|+++++.|||++|+++||++|+.++++|++|+++|+..|++|..+......++.++++.+||.+||
T Consensus 1 is~~l~~in~~v~~l~k~~~~lGt~~Ds~~lR~~i~~~~~~~~~l~k~~~~~l~~l~~~~~~~~~~~~~k~~~~KL~~df 80 (102)
T PF14523_consen 1 ISSNLFKINQNVSQLEKLVNQLGTPRDSQELREKIHQLIQKTNQLIKEISELLKKLNSLSSDRSNDRQQKLQREKLSRDF 80 (102)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHH-SSS--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSH----HHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHHHhCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHH
Confidence 78999999999999999999999999999999999999999999999999999999999222367888999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhhcC
Q 030353 120 QSVLKEFQKAQRLAAERETTYA 141 (179)
Q Consensus 120 ~~aL~~FQ~~Qr~~aekek~~~ 141 (179)
+.+|++||++|+.|++++++++
T Consensus 81 ~~~l~~fq~~q~~~~~~~k~~~ 102 (102)
T PF14523_consen 81 KEALQEFQKAQRRYAEKEKQTP 102 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHhhccC
Confidence 9999999999999999999864
No 2
>KOG0811 consensus SNARE protein PEP12/VAM3/Syntaxin 7/Syntaxin 17 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.83 E-value=1.3e-19 Score=154.57 Aligned_cols=114 Identities=44% Similarity=0.511 Sum_probs=106.3
Q ss_pred CCcchhHHHHHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHH
Q 030353 30 QSQSQDPSQAVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRK 109 (179)
Q Consensus 30 ~~eF~~L~~~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k 109 (179)
..+|..|...|+.+||.|+.++.+|.|++..|||+.|+++||++||.....++.++|+|+..|+++.++.. .+..+.++
T Consensus 16 ~~~~~~l~~~i~~~i~~i~~~~~~l~r~~~~lgt~~ds~~lr~kl~~~~~~~~~~vkdt~~~lke~~~~~~-~~~~~~~k 94 (269)
T KOG0811|consen 16 PFDFQQLAQEIAANIQRINQQVLSLLRFLNSLGTKSDSPELRDKLHQERLNANQLVKDTSALLKEIDTLRL-ESDLRQLK 94 (269)
T ss_pred CCcHhHHHHHHHHHHHHHhHHHHHHHHHHHHcCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-hhHHHHHH
Confidence 56899999999999999999999999999999999999999999999999999999999999999999987 35568899
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 030353 110 IADAKLAKDFQSVLKEFQKAQRLAAERETTYAPFVP 145 (179)
Q Consensus 110 ~~~eKL~~dF~~aL~~FQ~~Qr~~aekek~~~~~ar 145 (179)
++++||++||..+|++||.+|+++++++| ....|+
T Consensus 95 ~~~~kL~~ef~~~l~efq~vQrk~ae~ek-~~~~a~ 129 (269)
T KOG0811|consen 95 IQLDKLVDEFSAALKEFQKVQRKSAEREK-IPMVAR 129 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHhhc-cccccc
Confidence 99999999999999999999999999999 333444
No 3
>smart00503 SynN Syntaxin N-terminal domain. Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p
Probab=99.70 E-value=4e-16 Score=115.89 Aligned_cols=109 Identities=31% Similarity=0.428 Sum_probs=99.3
Q ss_pred CCcchhHHHHHHHHHHHHHhhHHHHHHHHHhcCCCCCc-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccC-----CC
Q 030353 30 QSQSQDPSQAVAAAIFQINTAVSSFYRLVNSLGTPKDT-LDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHH-----TE 103 (179)
Q Consensus 30 ~~eF~~L~~~Is~~If~In~nVs~L~klv~~LGT~kDt-~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~-----~~ 103 (179)
.|+|...++.|..+|+.|+++|..|+++...++++.|. +.++++|+.++..|+.++++|+..|+.|...... .+
T Consensus 3 ~~~F~~~v~~I~~~I~~i~~~v~~l~~l~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~lk~l~~~~~~~~~~~~~ 82 (117)
T smart00503 3 LDEFFEKVEEIRANIQKISQNVAELQKLHEELLTPPDADKELREKLERLIDDIKRLAKEIRAKLKELEKENLENRASGSA 82 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhcccCCH
Confidence 46899999999999999999999999999999999986 6899999999999999999999999999987531 13
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030353 104 VSPIRKIADAKLAKDFQSVLKEFQKAQRLAAERET 138 (179)
Q Consensus 104 ~~~~~k~~~eKL~~dF~~aL~~FQ~~Qr~~aekek 138 (179)
+++.++.+.++|.++|+.++.+||.+|+.|.++.|
T Consensus 83 ~~r~~~~q~~~L~~~f~~~m~~fq~~Q~~~~~~~k 117 (117)
T smart00503 83 SDRTRKAQTEKLRKKFKEVMNEFQRLQRKYREREK 117 (117)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 56789999999999999999999999999998764
No 4
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=99.68 E-value=4.5e-16 Score=120.71 Aligned_cols=113 Identities=28% Similarity=0.364 Sum_probs=103.9
Q ss_pred CcchhHHHHHHHHHHHHHhhHHHHHHHHHhcCCCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccC------CC
Q 030353 31 SQSQDPSQAVAAAIFQINTAVSSFYRLVNSLGTPKD-TLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHH------TE 103 (179)
Q Consensus 31 ~eF~~L~~~Is~~If~In~nVs~L~klv~~LGT~kD-t~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~------~~ 103 (179)
|+|..+++.|..+|+.|+.+|+.|+++...+||..| .+.+|.+|+.+...|+.+++.+...|+.|...... .+
T Consensus 2 ~~F~~~v~~I~~~i~~i~~~v~~l~~l~~~~~t~~~~~~~~~~~l~~~~~~~~~~~~~ik~~lk~l~~~~~~~~~~~~s~ 81 (151)
T cd00179 2 EEFFEEVEEIRGNIDKISEDVEELQKLHSQLLTAPDADPELKQELESLVQEIKKLAKEIKGKLKELEESNEQNEALNGSS 81 (151)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcH
Confidence 679999999999999999999999999999999998 88999999999999999999999999999986431 12
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q 030353 104 VSPIRKIADAKLAKDFQSVLKEFQKAQRLAAERETTYAPF 143 (179)
Q Consensus 104 ~~~~~k~~~eKL~~dF~~aL~~FQ~~Qr~~aekek~~~~~ 143 (179)
..+.++.+.++|.++|+.++++||.+|+.|.++.|..+.+
T Consensus 82 ~~r~~~~q~~~L~~~f~~~m~~fq~~Q~~~~~~~k~~i~R 121 (151)
T cd00179 82 VDRIRKTQHSGLSKKFVEVMTEFNKAQRKYRERYKERIQR 121 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4667899999999999999999999999999999888874
No 5
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=98.03 E-value=7.6e-05 Score=53.32 Aligned_cols=93 Identities=25% Similarity=0.314 Sum_probs=76.1
Q ss_pred CcchhHHHHHHHHHHHHHhhHHHHHHHHHhcCCCCCc-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc----c---CC
Q 030353 31 SQSQDPSQAVAAAIFQINTAVSSFYRLVNSLGTPKDT-LDLRDKLHKTRLHIGQLVKDTSSKLKQASEAD----H---HT 102 (179)
Q Consensus 31 ~eF~~L~~~Is~~If~In~nVs~L~klv~~LGT~kDt-~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~----~---~~ 102 (179)
|+|-.-++.|...|..|..+|..|.++-..+-+..+. ..++..|..+...|+.++..+...|+.|.... . ..
T Consensus 3 ~~f~~~v~~i~~~i~~i~~~~~~l~~l~~~~l~~~~~d~~~~~el~~l~~~i~~~~~~~~~~lk~l~~~~~~~~~~~~~~ 82 (103)
T PF00804_consen 3 PEFFDEVQEIREDIDKIKEKLNELRKLHKKILSSPDQDSELKRELDELTDEIKQLFQKIKKRLKQLSKDNEDSEGEEPSS 82 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT--S
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCc
Confidence 5689999999999999999999999998887766663 37999999999999999999999999999872 1 11
Q ss_pred CCchhHHHHHHHHHHHHHHHH
Q 030353 103 EVSPIRKIADAKLAKDFQSVL 123 (179)
Q Consensus 103 ~~~~~~k~~~eKL~~dF~~aL 123 (179)
.+.+.++.+..-|.+.|++++
T Consensus 83 ~~~ri~~nq~~~L~~kf~~~m 103 (103)
T PF00804_consen 83 NEVRIRKNQVQALSKKFQEVM 103 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHC
Confidence 233446666777888888764
No 6
>KOG0810 consensus SNARE protein Syntaxin 1 and related proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.01 E-value=1.6 Score=38.19 Aligned_cols=113 Identities=18% Similarity=0.260 Sum_probs=87.3
Q ss_pred CCcchhHHHHHHHHHHHHHhhHHHHHHHHH-hcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc-------C
Q 030353 30 QSQSQDPSQAVAAAIFQINTAVSSFYRLVN-SLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADH-------H 101 (179)
Q Consensus 30 ~~eF~~L~~~Is~~If~In~nVs~L~klv~-~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~-------~ 101 (179)
..+|-.=++.|-..|-.+...+..|+++-. .|-++.--+.++.+|......+..+.+.+-..|+.+..-.. .
T Consensus 35 l~~Ff~~ve~Ir~~i~~l~~~~~~l~~~hs~~l~~~~~~~~~k~~l~~~~~~~~~~a~~Ik~kL~~~e~~~~~~~~~~~~ 114 (297)
T KOG0810|consen 35 LEEFFEDVEEIRDDIEKLDEDVEKLQKLHSKSLHSPNADKELKRKLESLVDEIRRRARKIKTKLKALEKENEADETQNRS 114 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCC
Confidence 456777788888999999999888888653 35566666789999999999999999888888888766321 1
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 030353 102 TEVSPIRKIADAKLAKDFQSVLKEFQKAQRLAAERETTYAP 142 (179)
Q Consensus 102 ~~~~~~~k~~~eKL~~dF~~aL~~FQ~~Qr~~aekek~~~~ 142 (179)
.+..+..+.+..=+.+-|.+++.+|+.+|..|-++-|..+.
T Consensus 115 ~~~~r~rrtq~~~~~kkf~~~M~~f~~~~~~~r~~~k~~i~ 155 (297)
T KOG0810|consen 115 SAGLRTRRTQTSALSKKLKELMNEFNRTQSKYREEYKERIQ 155 (297)
T ss_pred CccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 23444566666668899999999999999988887665554
No 7
>COG5325 t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion]
Probab=93.58 E-value=0.98 Score=39.23 Aligned_cols=111 Identities=13% Similarity=0.076 Sum_probs=76.9
Q ss_pred CCcchhHHHHHHHHHHHHHhhHHHHHHHHHhc--CCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchh
Q 030353 30 QSQSQDPSQAVAAAIFQINTAVSSFYRLVNSL--GTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPI 107 (179)
Q Consensus 30 ~~eF~~L~~~Is~~If~In~nVs~L~klv~~L--GT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~ 107 (179)
.|-|......|...+..+-.+++.+.+....- -.+.|+ +. -...+.+|.+.++.+|++...+....-..-+
T Consensus 33 ~p~~i~~~~~v~~~l~~vrr~~~~l~~~y~k~~~p~f~~k---~~----k~~ei~~L~~kv~~~l~~~~ki~~~~~~~~~ 105 (283)
T COG5325 33 TPTFILSAASVDQELTAVRRSISRLGKVYAKHTEPSFSDK---SE----KEDEIDELSKKVNQDLQRCEKILKTKYKNLQ 105 (283)
T ss_pred chhHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhcCcchhh---HH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56677888999999999999988888743332 122222 11 1233566777777777776665432122335
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCc
Q 030353 108 RKIADAKLAKDFQSVLKEFQKAQRLAAERETTYAPFVPKE 147 (179)
Q Consensus 108 ~k~~~eKL~~dF~~aL~~FQ~~Qr~~aekek~~~~~ar~a 147 (179)
..+.++||.+|+...+..++++|++.+.-++..+..++..
T Consensus 106 s~~~~~kll~~~nt~~~~~~~iq~~~aq~r~~~~~~~k~l 145 (283)
T COG5325 106 SSFLQSKLLRDLNTECMEGQRIQQKSAQFRKYQVLQAKFL 145 (283)
T ss_pred HHHHHHHHhhcccchhhhHHHHHHHHHHHHHHHHHHhHHH
Confidence 6677899999999999999999999998877766654433
No 8
>KOG0809 consensus SNARE protein TLG2/Syntaxin 16 [Intracellular trafficking, secretion, and vesicular transport]
Probab=78.76 E-value=46 Score=29.37 Aligned_cols=111 Identities=14% Similarity=0.168 Sum_probs=83.9
Q ss_pred CCcchhHHHHHHHHHHHHHhhHHHHHHHHH-h-cCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchh
Q 030353 30 QSQSQDPSQAVAAAIFQINTAVSSFYRLVN-S-LGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPI 107 (179)
Q Consensus 30 ~~eF~~L~~~Is~~If~In~nVs~L~klv~-~-LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~ 107 (179)
+|-|-..++.|...|.++-..+..|.+.-. . +-+.-|..+=-..|..+...++++++.+-..|+.+.+..+. ..+.
T Consensus 56 pP~wvd~~~ev~~~l~rvrrk~~eLgk~~~Khl~PsF~Dk~ede~~IE~ltq~Itqll~~cqk~iq~~~a~~n~--~~~~ 133 (305)
T KOG0809|consen 56 PPAWVDVAEEVDYYLSRVRRKIDELGKAHAKHLRPSFSDKREDEHEIEELTQEITQLLQKCQKLIQRLSASLNQ--LSPS 133 (305)
T ss_pred CCcccchHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC--CChH
Confidence 567888999999999999999888877432 2 34455555557788999999999999999999999987753 2222
Q ss_pred HHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 030353 108 RKIAD----AKLAKDFQSVLKEFQKAQRLAAERETTYAP 142 (179)
Q Consensus 108 ~k~~~----eKL~~dF~~aL~~FQ~~Qr~~aekek~~~~ 142 (179)
....+ -=|.-+++....+|-..|..|..+.+..-.
T Consensus 134 e~~~~~n~~~~la~~LQ~~s~~fR~~Qs~YLK~l~~~ee 172 (305)
T KOG0809|consen 134 ERLLRKNAQGYLALQLQTLSREFRGLQSKYLKRLRNREE 172 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhh
Confidence 22222 237888899999999999999988765443
No 9
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=77.41 E-value=15 Score=33.01 Aligned_cols=86 Identities=19% Similarity=0.297 Sum_probs=57.8
Q ss_pred HHHHHHhc--CCCCCcHHHHHHH---HHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHH-HHHHHHHHHHHHH
Q 030353 54 FYRLVNSL--GTPKDTLDLRDKL---HKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAK-LAKDFQSVLKEFQ 127 (179)
Q Consensus 54 L~klv~~L--GT~kDt~~LR~kl---~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eK-L~~dF~~aL~~FQ 127 (179)
++|..-+| --+.|..+.|.+| +.....|.....++...|.+|..=... .-...-.++| |...|...+++|.
T Consensus 200 vERV~PqLKv~~~~d~kDWR~hleqm~~~~~~I~~~~~~~~~~L~kl~~~i~~---~lekI~sREk~iN~qle~l~~eYr 276 (359)
T PF10498_consen 200 VERVLPQLKVTIRADAKDWRSHLEQMKQHKKSIESALPETKSQLDKLQQDISK---TLEKIESREKYINNQLEPLIQEYR 276 (359)
T ss_pred HHHHhhhheeeccCCcchHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHhHHHHHHHH
Confidence 45555554 2345667788877 666667777778888888887763311 1123334566 7888888888888
Q ss_pred HHHHHHHHHHhhcCC
Q 030353 128 KAQRLAAERETTYAP 142 (179)
Q Consensus 128 ~~Qr~~aekek~~~~ 142 (179)
.+|.+.++.+..+..
T Consensus 277 ~~~~~ls~~~~~y~~ 291 (359)
T PF10498_consen 277 SAQDELSEVQEKYKQ 291 (359)
T ss_pred HHHHHHHHHHHHHHH
Confidence 888888887766654
No 10
>PF14523 Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A.
Probab=74.42 E-value=28 Score=24.65 Aligned_cols=23 Identities=26% Similarity=0.261 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 030353 69 DLRDKLHKTRLHIGQLVKDTSSK 91 (179)
Q Consensus 69 ~LR~kl~~~~~~t~~L~K~t~~~ 91 (179)
.+..++.++...|++.++..+..
T Consensus 37 ~~~~~~~~l~k~~~~~l~~l~~~ 59 (102)
T PF14523_consen 37 QLIQKTNQLIKEISELLKKLNSL 59 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 34555555555555555554443
No 11
>PRK15330 cell invasion protein SipD; Provisional
Probab=74.16 E-value=19 Score=32.14 Aligned_cols=75 Identities=13% Similarity=0.140 Sum_probs=57.7
Q ss_pred chhHHHHHHHHHHHHHhh-HHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHH
Q 030353 33 SQDPSQAVAAAIFQINTA-VSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIA 111 (179)
Q Consensus 33 F~~L~~~Is~~If~In~n-Vs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~ 111 (179)
+..|...|+..|-.|+.+ +.-+..+++ .-.+.++++++.|.++..+...-...+..++-
T Consensus 131 ~aELW~~Is~sIssIk~dYldvYa~vVk--------------------~YTd~yQsfne~lSkls~~IsaGsDGntIkFd 190 (343)
T PRK15330 131 DAEIWDMVSQNISAIGDSYLGVYENVVA--------------------VYTDFYQAFSDILSKMGGWLLPGKDGNTVKLD 190 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHHhhhcccCCCCCeeeec
Confidence 678999999999999987 555555544 45678888999999999887642223448888
Q ss_pred HHHHHHHHHHHHHHHH
Q 030353 112 DAKLAKDFQSVLKEFQ 127 (179)
Q Consensus 112 ~eKL~~dF~~aL~~FQ 127 (179)
...|.+++...++.|.
T Consensus 191 ~~slk~~i~~lidKY~ 206 (343)
T PRK15330 191 VTSLKNDLNSLVNKYN 206 (343)
T ss_pred HHHHHHHHHHHHHhcc
Confidence 8889999999888875
No 12
>TIGR02553 SipD_IpaD_SspD type III effector protein IpaD/SipD/SspD. These proteins are found within type III secretion operons and have been shown to be secreted by that system.
Probab=68.96 E-value=50 Score=29.24 Aligned_cols=76 Identities=12% Similarity=0.096 Sum_probs=57.6
Q ss_pred chhHHHHHHHHHHHHHhh-HHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHH
Q 030353 33 SQDPSQAVAAAIFQINTA-VSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIA 111 (179)
Q Consensus 33 F~~L~~~Is~~If~In~n-Vs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~ 111 (179)
...|+..|+..|-.|+.+ +.-+..+++ .-.+.++++++.|.++..+..........++-
T Consensus 103 ~aelw~~Is~~I~~Ik~dYldvYa~lvk--------------------~YTd~yQ~fn~~lSkls~~IsaG~DGn~VkFd 162 (308)
T TIGR02553 103 DDPIWDMLSDVIGKIGDSYLGVYENVVE--------------------GYTDFYQAFSDILSKMQDWISPGKDGNNVKLD 162 (308)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHH--------------------HHHHHHHHHHHHHHHHhhhcccCCCCCeeeeC
Confidence 467899999999988887 555554444 45678888889999998887642233358888
Q ss_pred HHHHHHHHHHHHHHHHH
Q 030353 112 DAKLAKDFQSVLKEFQK 128 (179)
Q Consensus 112 ~eKL~~dF~~aL~~FQ~ 128 (179)
..+|.+++...+..|..
T Consensus 163 ~~~lk~~l~~~~~Ky~~ 179 (308)
T TIGR02553 163 VGKLKALLQQLIDHLPN 179 (308)
T ss_pred HHHHHHHHHHHHHHhcc
Confidence 88899999999998883
No 13
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=68.58 E-value=55 Score=25.65 Aligned_cols=91 Identities=19% Similarity=0.291 Sum_probs=59.5
Q ss_pred cchhHHHHHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHH
Q 030353 32 QSQDPSQAVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIA 111 (179)
Q Consensus 32 eF~~L~~~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~ 111 (179)
+++.-...+...+..+...++.++.-+..|.+..-+.+|+..|..+...+..|- ..|..|.+-. ..++.
T Consensus 76 ~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~----~kL~~l~~~~--~~vs~----- 144 (169)
T PF07106_consen 76 ELDAEIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELE----EKLEKLRSGS--KPVSP----- 144 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHH----HHHHHHHhCC--CCCCH-----
Confidence 344446777788888888899999988999888888899999988888875554 3444444311 11222
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030353 112 DAKLAKDFQSVLKEFQKAQRLAAERET 138 (179)
Q Consensus 112 ~eKL~~dF~~aL~~FQ~~Qr~~aekek 138 (179)
.|...+...|..+.+.+..+.|
T Consensus 145 -----ee~~~~~~~~~~~~k~w~kRKr 166 (169)
T PF07106_consen 145 -----EEKEKLEKEYKKWRKEWKKRKR 166 (169)
T ss_pred -----HHHHHHHHHHHHHHHHHHHHHH
Confidence 2444555555555555555543
No 14
>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=62.71 E-value=53 Score=23.89 Aligned_cols=88 Identities=14% Similarity=0.240 Sum_probs=51.1
Q ss_pred HHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHH----HHH
Q 030353 39 AVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIA----DAK 114 (179)
Q Consensus 39 ~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~----~eK 114 (179)
........|...+..|..++ .|+|.-+.+|..+...+..-++.....|.-...-. ......+. -..
T Consensus 43 ~y~~~~~~~~~~l~~L~~l~------~~~p~q~~~l~~l~~~~~~~~~~~~~~i~~~~~~~----~~~a~~~~~~~~~~~ 112 (138)
T PF05227_consen 43 PYQEARARLEKALAQLRQLV------QDNPEQQERLDQLEELIDQWRELLEPQIALRKSGG----MEAARALVNSGEGKQ 112 (138)
T ss_dssp HHHHHHHHHHHHHHHHHHHT------TT-HHHHHHHHHHHHHHHHHHHHHHHHHHH-GG-G----HHHHHHHHHHHGGG-
T ss_pred hHHHHHHHHHHHHHHHHHHh------cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC----hHHHHHHHHhcccHH
Confidence 34444445555555555443 37788899998888888888855555554433311 11111111 123
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 030353 115 LAKDFQSVLKEFQKAQRLAAER 136 (179)
Q Consensus 115 L~~dF~~aL~~FQ~~Qr~~aek 136 (179)
+...|...+..|+.........
T Consensus 113 ~~~~i~~~~~~~~~~e~~~l~~ 134 (138)
T PF05227_consen 113 LMDQIRQLLEQIQAEEQRLLKQ 134 (138)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 8889999999998887765554
No 15
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=60.56 E-value=69 Score=23.98 Aligned_cols=55 Identities=15% Similarity=0.216 Sum_probs=41.3
Q ss_pred HHHHHHHHHHhhHHHHHHHHHhcCCCCCcH--HHHHHHHHHHHHHHHHHHHHHHHHH
Q 030353 39 AVAAAIFQINTAVSSFYRLVNSLGTPKDTL--DLRDKLHKTRLHIGQLVKDTSSKLK 93 (179)
Q Consensus 39 ~Is~~If~In~nVs~L~klv~~LGT~kDt~--~LR~kl~~~~~~t~~L~K~t~~~lk 93 (179)
.|....-.++.-+.+++.+++.-|+..+.. ++|.+++....+++.-+..+...+.
T Consensus 9 ~~~~l~~el~~L~d~lEevL~ssg~~a~~e~~~lR~r~~~~Lk~~r~rl~~~~d~v~ 65 (104)
T COG4575 9 AIDQLLAELQELLDTLEEVLKSSGSLAGDEAEELRSKAESALKEARDRLGDTGDAVV 65 (104)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhcccchhhHHHHHHHHHHHHHHHHHHHHHhhhhHHH
Confidence 345556677778889999999999877643 6888888888888877777765543
No 16
>PRK10807 paraquat-inducible protein B; Provisional
Probab=59.83 E-value=1.6e+02 Score=27.97 Aligned_cols=21 Identities=19% Similarity=0.137 Sum_probs=15.5
Q ss_pred CCcchhHHHHHHHHHHHHHhh
Q 030353 30 QSQSQDPSQAVAAAIFQINTA 50 (179)
Q Consensus 30 ~~eF~~L~~~Is~~If~In~n 50 (179)
...|+.|.+.+..-+-+||.-
T Consensus 412 ps~l~~l~~~~~~il~kin~l 432 (547)
T PRK10807 412 SGGLAQIQQKLMEALDKINNL 432 (547)
T ss_pred CCCHHHHHHHHHHHHHHHhcC
Confidence 456788888777777777766
No 17
>PF01017 STAT_alpha: STAT protein, all-alpha domain; InterPro: IPR013800 The STAT protein (Signal Transducers and Activators of Transcription) family contains transcription factors that are specifically activated to regulate gene transcription when cells encounter cytokines and growth factors, hence they act as signal transducers in the cytoplasm and transcription activators in the nucleus []. Binding of these factors to cell-surface receptors leads to receptor autophosphorylation at a tyrosine, the phosphotyrosine being recognised by the STAT SH2 domain, which mediates the recruitment of STAT proteins from the cytosol and their association with the activated receptor. The STAT proteins are then activated by phosphorylation via members of the JAK family of protein kinases, causing them to dimerise and translocated to the nucleus, where they bind to specific promoter sequences in target genes. In mammals, STATs comprise a family of seven structurally and functionally related proteins: Stat1, Stat2, Stat3, Stat4, Stat5a and Stat5b, Stat6. STAT proteins play a critical role in regulating innate and acquired host immune responses. Dysregulation of at least two STAT signalling cascades (i.e. Stat3 and Stat5) is associated with cellular transformation. Signalling through the JAK/STAT pathway is initiated when a cytokine binds to its corresponding receptor. This leads to conformational changes in the cytoplasmic portion of the receptor, initiating activation of receptor associated members of the JAK family of kinases. The JAKs, in turn, mediate phosphorylation at the specific receptor tyrosine residues, which then serve as docking sites for STATs and other signalling molecules. Once recruited to the receptor, STATs also become phosphorylated by JAKs, on a single tyrosine residue. Activated STATs dissociate from the receptor, dimerise, translocate to the nucleus and bind to members of the GAS (gamma activated site) family of enhancers. The seven STAT proteins identified in mammals range in size from 750 and 850 amino acids. The chromosomal distribution of these STATs, as well as the identification of STATs in more primitive eukaryotes, suggest that this family arose from a single primordial gene. STATs share structurally and functionally conserved domains including: an N-terminal domain that strengthens interactions between STAT dimers on adjacent DNA-binding sites; a coiled-coil STAT domain that is implicated in protein-protein interactions; a DNA-binding domain with an immunoglobulin-like fold similar to p53 tumour suppressor protein; an EF-hand-like linker domain connecting the DNA-binding and SH2 domains; an SH2 domain (IPR000980 from INTERPRO) that acts as a phosphorylation-dependent switch to control receptor recognition and DNA-binding; and a C-terminal transactivation domain []. The crystal structure of the N terminus of Stat4 reveals a dimer. The interface of this dimer is formed by a ring-shaped element consisting of five short helices. Several studies suggest that this N-terminal dimerisation promotes cooperativity of binding to tandem GAS elements and with the transcriptional coactivator CBP/p300. This entry represents the all-alpha helical domain, which consists of four long helices arranged in a bundle with a left-handed twist (coiled-coil), which in turn forms a right-handed superhelix.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0004871 signal transducer activity, 0006355 regulation of transcription, DNA-dependent, 0007165 signal transduction, 0005634 nucleus; PDB: 1YVL_A 1BF5_A 3CWG_B 1BG1_A 1Y1U_B.
Probab=58.27 E-value=46 Score=26.72 Aligned_cols=56 Identities=18% Similarity=0.259 Sum_probs=43.3
Q ss_pred CCcchhHHHHHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHH
Q 030353 30 QSQSQDPSQAVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKD 87 (179)
Q Consensus 30 ~~eF~~L~~~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~ 87 (179)
-...+.++..++..|+++...+..++.+...+- .+.+.+.+.+..+.+.++.|++.
T Consensus 123 LD~LQ~wfe~LAe~l~qlrqqlk~l~~l~~k~~--~~~d~~~~~~~~L~~~v~~ll~~ 178 (182)
T PF01017_consen 123 LDQLQNWFESLAEILWQLRQQLKKLEELQQKLT--YENDPIPDQLPQLNERVTELLKN 178 (182)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS----TT-THHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC--CCCCchhhhHHHHHHHHHHHHHH
Confidence 335778899999999999999999999999874 34445777888888777777753
No 18
>PF11593 Med3: Mediator complex subunit 3 fungal; InterPro: IPR020998 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents the subunit Med3, which is a physical target for Cyc8-Tup1, a yeast transcriptional co-repressor []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=55.76 E-value=84 Score=28.60 Aligned_cols=63 Identities=24% Similarity=0.293 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHH--HHH---HHHHHHHHHHHHHHHHHH
Q 030353 70 LRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIA--DAK---LAKDFQSVLKEFQKAQRL 132 (179)
Q Consensus 70 LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~--~eK---L~~dF~~aL~~FQ~~Qr~ 132 (179)
+-++|.+.+..|-=|==..++.|+-++.|+.-.+.++..||. |.| |...|+.....|+++|=.
T Consensus 27 V~~~I~ea~~sILPlRL~FNeFi~tma~Ie~~~~~s~qeKFl~IR~KlleL~~~lQ~lS~df~~LqPL 94 (379)
T PF11593_consen 27 VMDKISEAQDSILPLRLQFNEFIQTMANIEEMNNKSPQEKFLLIRSKLLELYNKLQELSSDFQKLQPL 94 (379)
T ss_pred HHHHHHHHHhccccHHHHHHHHHHHHHHhhcccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchH
Confidence 344444444443333345677777777776544566777766 455 677888888888888864
No 19
>PF14966 DNA_repr_REX1B: DNA repair REX1-B
Probab=55.53 E-value=78 Score=23.05 Aligned_cols=52 Identities=6% Similarity=0.101 Sum_probs=37.7
Q ss_pred CcchhHHHHHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHH
Q 030353 31 SQSQDPSQAVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLV 85 (179)
Q Consensus 31 ~eF~~L~~~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~ 85 (179)
+.|..++..|......|...|-.++..++. ..+.+++-..|..+++.=.+-.
T Consensus 36 ~~y~~~~~~iT~~f~~~S~ei~~ie~~L~~---~~~~~~la~~i~~lQ~~Ek~KL 87 (97)
T PF14966_consen 36 EAYRQLCHEITQEFSAISKEILAIEAELRD---EHERPDLAELIRELQEQEKEKL 87 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcc---ccCCHHHHHHHHHHHHHHHHHH
Confidence 568889999988888888888877775543 5666777777777775544333
No 20
>PF07730 HisKA_3: Histidine kinase; InterPro: IPR011712 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represetns the dimerisation and phosphoacceptor domain of a sub-family of histidine kinases. It shares sequence similarity with IPR003661 from INTERPRO and IPR011102 from INTERPRO.; GO: 0000155 two-component sensor activity, 0046983 protein dimerization activity, 0000160 two-component signal transduction system (phosphorelay), 0016021 integral to membrane; PDB: 3GIE_B 3GIG_A 3EHJ_B 3EHH_B 3GIF_B 3EHF_B 3EHG_A.
Probab=55.41 E-value=54 Score=21.11 Aligned_cols=57 Identities=12% Similarity=0.262 Sum_probs=40.8
Q ss_pred hHHHHHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030353 35 DPSQAVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQAS 96 (179)
Q Consensus 35 ~L~~~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~ 96 (179)
.|-+.|...|+-|.-.+..+...+ ..+.+.++..+..+.+.+.+.+.++...+..|.
T Consensus 8 eLHD~v~q~L~~i~~~l~~~~~~~-----~~~~~~~~~~l~~i~~~~~~~~~~~R~~~~~Lr 64 (68)
T PF07730_consen 8 ELHDGVGQSLTAIKMQLEALRRRL-----ADDPEEAREELEEIRELLREALQELRRIIHELR 64 (68)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHT-----TT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred HHhhHHHHHHHHHHHHHHHHHhhh-----cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467788888888877776666544 345557888888888888887777777776654
No 21
>KOG1937 consensus Uncharacterized conserved protein [Function unknown]
Probab=52.59 E-value=1.2e+02 Score=28.52 Aligned_cols=101 Identities=14% Similarity=0.160 Sum_probs=64.5
Q ss_pred cchhHHHHHHHHHHHHHhhHHHHHHHHHhcCCCCCc----------------H------HHHHHHHHHHHHHHHHHHHHH
Q 030353 32 QSQDPSQAVAAAIFQINTAVSSFYRLVNSLGTPKDT----------------L------DLRDKLHKTRLHIGQLVKDTS 89 (179)
Q Consensus 32 eF~~L~~~Is~~If~In~nVs~L~klv~~LGT~kDt----------------~------~LR~kl~~~~~~t~~L~K~t~ 89 (179)
||..-+.+-..-|++|-+-...|++..+.+|...+- + .+-.+||.....+-+.+.+|.
T Consensus 393 Ei~gniRKq~~DI~Kil~etreLqkq~ns~se~L~Rsfavtdellf~sakhddhvR~aykllt~iH~nc~ei~E~i~~tg 472 (521)
T KOG1937|consen 393 EIDGNIRKQEQDIVKILEETRELQKQENSESEALNRSFAVTDELLFMSAKHDDHVRLAYKLLTRIHLNCMEILEMIRETG 472 (521)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 666667777778888888888888888776544331 2 344566888888888888887
Q ss_pred HHHHHhhhhccCC--CCchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030353 90 SKLKQASEADHHT--EVSPIRKIADAKLAKDFQSVLKEFQKAQRL 132 (179)
Q Consensus 90 ~~lk~L~~~~~~~--~~~~~~k~~~eKL~~dF~~aL~~FQ~~Qr~ 132 (179)
...+++-.+...- +..+..-...+||..|++..=++-+.++.+
T Consensus 473 ~~~revrdlE~qI~~E~~k~~l~slEkl~~Dyqairqen~~L~~~ 517 (521)
T KOG1937|consen 473 ALKREVRDLESQIYVEEQKQYLKSLEKLHQDYQAIRQENDQLFSE 517 (521)
T ss_pred hHHHHHHHHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence 7766665553210 112334445566777766665555555543
No 22
>PF05739 SNARE: SNARE domain; InterPro: IPR000727 The process of vesicular fusion with target membranes depends on a set of SNAREs (SNAP-Receptors), which are associated with the fusing membranes [, ]. Target SNAREs (t-SNAREs) are localised on the target membrane and belong to two different families, the syntaxin-like family and the SNAP-25 like family. One member of each family, together with a v-SNARE localised on the vesicular membrane, are required for fusion. The Syntaxins are type-I transmembrane proteins that contain several regions with coiled-coil propensity in their cytosolic part, the SNARE motif. SNAP-25 (IPR000928 from INTERPRO) is a protein consisting of two coiled-coil regions, which is associated with the membrane by lipid anchors. SNARE motifs assemble into parallel four helix bundles stabilised by the burial of these hydrophobic helix faces in the bundle core. Monomeric SNARE motifs are disordered so this assembly reaction is accompanied by a dramatic increase in alpha-helical secondary structure []. The parallel arrangement of SNARE motifs within complexes bring the transmembrane anchors, and the two membranes, into close proximity. Recently, it was shown that the two coiled-coil regions of SNAP-25 and one of the coiled-coil regions of the syntaxins are related []. This domain is found in both Syntaxin and SNAP-25 families as well as in other proteins.; GO: 0005515 protein binding; PDB: 1URQ_B 3RL0_R 1HVV_B 1SFC_B 1N7S_B 3IPD_B 3C98_B 3HD7_F 3RK2_B 1KIL_B ....
Probab=52.16 E-value=49 Score=21.22 Aligned_cols=54 Identities=13% Similarity=0.294 Sum_probs=32.7
Q ss_pred HHHHHHhhHHHHHHHHHhcCCCCCcH-HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030353 43 AIFQINTAVSSFYRLVNSLGTPKDTL-DLRDKLHKTRLHIGQLVKDTSSKLKQAS 96 (179)
Q Consensus 43 ~If~In~nVs~L~klv~~LGT~kDt~-~LR~kl~~~~~~t~~L~K~t~~~lk~L~ 96 (179)
.|-.|...|..|..+...||+--+.+ .+=++|......+...++..+..|+++.
T Consensus 5 ~l~~l~~~i~~l~~~~~~i~~ev~~Q~~~ld~i~~~vd~~~~~l~~~~~~l~ka~ 59 (63)
T PF05739_consen 5 ELDELEQSIQELKQMFQDIGEEVEEQNEMLDRIEDNVDRANENLKKGNKKLKKAL 59 (63)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45556666666666666665444332 3666677777777777766666665554
No 23
>COG4694 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.50 E-value=1.1e+02 Score=29.86 Aligned_cols=71 Identities=20% Similarity=0.237 Sum_probs=47.1
Q ss_pred cCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHH-HHHHHHHHHHHHHHHH---HHHHHH
Q 030353 61 LGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAK-LAKDFQSVLKEFQKAQ---RLAAER 136 (179)
Q Consensus 61 LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eK-L~~dF~~aL~~FQ~~Q---r~~aek 136 (179)
||+.+|. -+.+.++..+++.++-+.|+.++....-. +.-+.+.++ |+++|.+.+++|-.+| +...+.
T Consensus 387 ~d~t~d~---id~i~~l~k~~na~V~~~N~ri~nf~k~~------~~sk~~le~~~v~~~~~~VQe~~~Y~g~ekk~n~L 457 (758)
T COG4694 387 LDSTKDE---IDAIKDLIKKANAQVVNHNERIKNFEKQK------KSSKEQLEKFLVNEFKSDVQEYNKYCGLEKKINNL 457 (758)
T ss_pred cccchhH---HHHHHHHHHHHHHHHHHHhhhhhhHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 5666653 45566777777777777777777666532 235667777 8999999999987544 444444
Q ss_pred Hhhc
Q 030353 137 ETTY 140 (179)
Q Consensus 137 ek~~ 140 (179)
|++.
T Consensus 458 E~e~ 461 (758)
T COG4694 458 EKEI 461 (758)
T ss_pred HHHH
Confidence 5443
No 24
>KOG3251 consensus Golgi SNAP receptor complex member [Intracellular trafficking, secretion, and vesicular transport]
Probab=50.11 E-value=1.5e+02 Score=24.85 Aligned_cols=91 Identities=9% Similarity=0.133 Sum_probs=51.0
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchh--HHHHHH
Q 030353 36 PSQAVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPI--RKIADA 113 (179)
Q Consensus 36 L~~~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~--~k~~~e 113 (179)
|.+.+-..+.++-..+..+++..+. ..++.+...+..-|..+...+.++.....+.+.+.. -++..+
T Consensus 4 ly~~t~~~~~k~q~~l~rlE~~~~~-----------~e~~~v~~~i~~sI~~~~s~~~rl~~~~~~epp~~rq~~rlr~d 72 (213)
T KOG3251|consen 4 LYQSTNRQLDKLQRGLIRLERTIKT-----------QEVSAVENSIQRSIDQYASRCQRLDVLVSKEPPKSRQAARLRVD 72 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHHccccc-----------cchHHHHHHHHHhHHHHHHHHHHHHhHhhcCCCCcHHHHHHHHH
Confidence 4444444444444444444443332 345566666777777777777777776554333332 334455
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 030353 114 KLAKDFQSVLKEFQKAQRLAAERE 137 (179)
Q Consensus 114 KL~~dF~~aL~~FQ~~Qr~~aeke 137 (179)
-|..||...=...+.+..+-..|+
T Consensus 73 Ql~~d~~~l~~~l~~~~~R~~~r~ 96 (213)
T KOG3251|consen 73 QLLEDVEHLQTSLRTSMNRNNRRE 96 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHH
Confidence 577777666666666555544444
No 25
>cd07623 BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 1 and 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX1, SNX2, and similar proteins. SNX1 and SNX2 are components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), wh
Probab=48.88 E-value=1.5e+02 Score=24.40 Aligned_cols=23 Identities=13% Similarity=0.286 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 030353 115 LAKDFQSVLKEFQKAQRLAAERE 137 (179)
Q Consensus 115 L~~dF~~aL~~FQ~~Qr~~aeke 137 (179)
-+.||+.+|..|=..|-.++...
T Consensus 190 rv~dfk~~l~~~le~~i~~q~~~ 212 (224)
T cd07623 190 RVKDFKDIIIKYLESLLNTQQQL 212 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 38899999999998888777654
No 26
>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material. PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.
Probab=47.88 E-value=56 Score=25.27 Aligned_cols=53 Identities=19% Similarity=0.298 Sum_probs=32.6
Q ss_pred chhHHHHHHHHHHHHHhhHHH-HHHHHHhcC--CCCCcHHHHHHHHHHHHHHHHHH
Q 030353 33 SQDPSQAVAAAIFQINTAVSS-FYRLVNSLG--TPKDTLDLRDKLHKTRLHIGQLV 85 (179)
Q Consensus 33 F~~L~~~Is~~If~In~nVs~-L~klv~~LG--T~kDt~~LR~kl~~~~~~t~~L~ 85 (179)
+..+...+..+.-++-+.+-. +.+.++.|| |..|-..|+.+|..+...+..|.
T Consensus 74 ~~~~~~~~~~~~dklE~~fd~rV~~aL~rLgvPs~~dv~~L~~rId~L~~~v~~l~ 129 (132)
T PF05597_consen 74 VDDVKERATGQWDKLEQAFDERVARALNRLGVPSRKDVEALSARIDQLTAQVERLA 129 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 344555566666666666544 777777787 44555567777766666655543
No 27
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=47.88 E-value=93 Score=21.68 Aligned_cols=25 Identities=16% Similarity=0.359 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 030353 72 DKLHKTRLHIGQLVKDTSSKLKQAS 96 (179)
Q Consensus 72 ~kl~~~~~~t~~L~K~t~~~lk~L~ 96 (179)
+.+.++.++++++..+++..+.+++
T Consensus 47 ~e~~~ll~~~n~l~~dv~~k~~~v~ 71 (90)
T PF06103_consen 47 KEINDLLHNTNELLEDVNEKLEKVD 71 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 3333344444444433333333333
No 28
>PHA03172 UL37 tegument protein; Provisional
Probab=44.93 E-value=3.6e+02 Score=27.53 Aligned_cols=66 Identities=11% Similarity=0.191 Sum_probs=55.1
Q ss_pred hhHHHHHHHHHHHHHhhHHHHHHHHHh---------------------cCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030353 34 QDPSQAVAAAIFQINTAVSSFYRLVNS---------------------LGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKL 92 (179)
Q Consensus 34 ~~L~~~Is~~If~In~nVs~L~klv~~---------------------LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~l 92 (179)
..+.+.|+..+..+-+.+..|++|... ||+.++ .++.+-|-.....++.++++|++.|
T Consensus 779 ~~l~~~is~av~~l~s~~~~lr~fFscrf~~~~~~aV~i~~~g~~~~~lG~Wrl-~dVm~Ai~~~~n~~e~~i~~T~~Al 857 (951)
T PHA03172 779 AKAAEEISKAVQDLLSKLANARDLFSQRANADDKGAVSFDAAGPDGKELGHWED-DSVMQAIWKAVNFAEAAIRHTEKAI 857 (951)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhceeecCCCCeEEEecCCCCCCCCCeeeh-hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445777888888888888888888764 788888 4688899999999999999999999
Q ss_pred HHhhhhcc
Q 030353 93 KQASEADH 100 (179)
Q Consensus 93 k~L~~~~~ 100 (179)
..+.++..
T Consensus 858 r~ceal~~ 865 (951)
T PHA03172 858 RALDATKR 865 (951)
T ss_pred HHHHHHHh
Confidence 99998764
No 29
>KOG0972 consensus Huntingtin interacting protein 1 (Hip1) interactor Hippi [Signal transduction mechanisms]
Probab=44.06 E-value=1.3e+02 Score=26.83 Aligned_cols=84 Identities=20% Similarity=0.271 Sum_probs=49.7
Q ss_pred HHHHHHhcC--CCCCcHHHHHHH---HHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHH-HHHHHHHHHHHHH
Q 030353 54 FYRLVNSLG--TPKDTLDLRDKL---HKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAK-LAKDFQSVLKEFQ 127 (179)
Q Consensus 54 L~klv~~LG--T~kDt~~LR~kl---~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eK-L~~dF~~aL~~FQ 127 (179)
++|.+-+|- -..|..+.|-.| +.+...|-+-++++...|++|..=+.. .-...--|+| |.+.+...+++|.
T Consensus 207 vERVlPQLKVt~k~DakDWR~H~~QM~s~~~nIe~~~~~~~~~Ldklh~eit~---~LEkI~SREK~lNnqL~~l~q~fr 283 (384)
T KOG0972|consen 207 VERVLPQLKVTLKQDAKDWRLHLEQMNSMHKNIEQKVGNVGPYLDKLHKEITK---ALEKIASREKSLNNQLASLMQKFR 283 (384)
T ss_pred HHHhhhhheehhccccHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555543 345666777665 555556666666777777776652210 1112233566 7788888888888
Q ss_pred HHHHHHHHHHhhc
Q 030353 128 KAQRLAAERETTY 140 (179)
Q Consensus 128 ~~Qr~~aekek~~ 140 (179)
+++-..++..-.+
T Consensus 284 ~a~~~lse~~e~y 296 (384)
T KOG0972|consen 284 RATDTLSELREKY 296 (384)
T ss_pred HHHHHHHHHHHHH
Confidence 8887666554333
No 30
>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease
Probab=43.50 E-value=1.8e+02 Score=23.77 Aligned_cols=98 Identities=13% Similarity=0.173 Sum_probs=63.9
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHH--hcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHH-
Q 030353 37 SQAVAAAIFQINTAVSSFYRLVN--SLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADA- 113 (179)
Q Consensus 37 ~~~Is~~If~In~nVs~L~klv~--~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~e- 113 (179)
.......|.+++..+..|++++. .|++ ...|-.+|..+......--+.+...-+++.-... ...+.......
T Consensus 91 lk~~~~el~k~~~~l~~L~~L~~dknL~e---ReeL~~kL~~~~~~l~~~~~ki~~Lek~leL~~k--~~~rql~~e~kK 165 (194)
T PF15619_consen 91 LKDKDEELLKTKDELKHLKKLSEDKNLAE---REELQRKLSQLEQKLQEKEKKIQELEKQLELENK--SFRRQLASEKKK 165 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCchh---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--HHHHHHHHHHHH
Confidence 44566778888888888888876 3433 3557777777777766666666666555554332 11222222222
Q ss_pred --HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030353 114 --KLAKDFQSVLKEFQKAQRLAAERETT 139 (179)
Q Consensus 114 --KL~~dF~~aL~~FQ~~Qr~~aekek~ 139 (179)
.+..+.+.+..+.+.+.....+|+|.
T Consensus 166 ~~~~~~~~~~l~~ei~~L~~klkEKer~ 193 (194)
T PF15619_consen 166 HKEAQEEVKSLQEEIQRLNQKLKEKERE 193 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 27888888899999999999998874
No 31
>TIGR02780 TrbJ_Ti P-type conjugative transfer protein TrbJ. The TrbJ protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbJ is a homolog of the F-type TraE protein (which is believed to be an inner membrane pore-forming protein, TIGR02761) as well as the vir system VirB5 protein.
Probab=42.82 E-value=1.8e+02 Score=24.53 Aligned_cols=54 Identities=6% Similarity=0.214 Sum_probs=38.3
Q ss_pred hHHHHHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 030353 35 DPSQAVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSS 90 (179)
Q Consensus 35 ~L~~~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~ 90 (179)
...+.|..+|.++.+.+..++.++..+-...+. +-+.+.....++..|++....
T Consensus 43 ~~~~q~~~Qi~qlqnQiq~y~nql~n~~~L~~~--~~~~~~~~l~~l~~L~~q~q~ 96 (246)
T TIGR02780 43 ESVEQLNNQIQQLQNQIQRYENQLKNTMSLPAN--IWNRLESSLQKLTNIISQAQA 96 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHH--HHHHHHHHHHHHHHHHHHHHH
Confidence 346667778888888888888888888777775 556666666666666655444
No 32
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=42.57 E-value=95 Score=27.65 Aligned_cols=60 Identities=12% Similarity=0.188 Sum_probs=32.3
Q ss_pred CcchhHHHHHHHHHHHHHhhHHH-HHHHHHhcC--CCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 030353 31 SQSQDPSQAVAAAIFQINTAVSS-FYRLVNSLG--TPKDTLDLRDKLHKTRLHIGQLVKDTSS 90 (179)
Q Consensus 31 ~eF~~L~~~Is~~If~In~nVs~-L~klv~~LG--T~kDt~~LR~kl~~~~~~t~~L~K~t~~ 90 (179)
+||......+.+..-.+-..... ++..+..|| |..|=.++-++|+++...+..|-|++.+
T Consensus 252 ~efak~~G~lvna~m~lr~~~qe~~e~~L~~LnlPTRsElDe~~krL~ELrR~vr~L~k~l~~ 314 (320)
T TIGR01834 252 EENAKVHGKFINALMRLRIQQQEIVEALLKMLNLPTRSELDEAHQRIQQLRREVKSLKKRLGD 314 (320)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555544444444444444332 444555565 5555556666666666666666655443
No 33
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=42.07 E-value=1.4e+02 Score=22.12 Aligned_cols=47 Identities=15% Similarity=0.315 Sum_probs=37.4
Q ss_pred HhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030353 48 NTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQ 94 (179)
Q Consensus 48 n~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~ 94 (179)
|--...+.-+++-++-..+++++.+.+.+.+..+..|+-+++..|.+
T Consensus 56 ~~ll~~~ivllkel~~~Aeseeake~irq~rq~~EklAg~lTkki~e 102 (103)
T COG4847 56 NLLLLYLIVLLKELAVIAESEEAKESIRQVRQEVEKLAGDLTKKIEE 102 (103)
T ss_pred HHHHHHHHHHHHHHhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33455677788999999999999999999999888888777766543
No 34
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=40.57 E-value=2e+02 Score=23.37 Aligned_cols=30 Identities=10% Similarity=0.123 Sum_probs=14.1
Q ss_pred cchhHHHHHHHHHHHHHhhHHHHHHHHHhc
Q 030353 32 QSQDPSQAVAAAIFQINTAVSSFYRLVNSL 61 (179)
Q Consensus 32 eF~~L~~~Is~~If~In~nVs~L~klv~~L 61 (179)
-|.+|++.|...-..+...|..|++-+..|
T Consensus 110 tf~rL~~~Vd~~~~eL~~eI~~L~~~i~~l 139 (171)
T PF04799_consen 110 TFARLCQQVDQTKNELEDEIKQLEKEIQRL 139 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444444443
No 35
>COG5074 t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion]
Probab=39.17 E-value=2.6e+02 Score=24.23 Aligned_cols=97 Identities=12% Similarity=0.159 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHhcCCCCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHH
Q 030353 38 QAVAAAIFQINTAVSSFYRLVNSLGTPKD---TLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAK 114 (179)
Q Consensus 38 ~~Is~~If~In~nVs~L~klv~~LGT~kD---t~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eK 114 (179)
..|-.++-.+-..+.++..+-+.+=|-.+ ...+|.+|..-.+.|..|-.....+++.+.+--- .....+.|-+-
T Consensus 28 ~si~~n~s~~e~~i~qi~~~h~d~L~Ev~e~~~~~~~~~ldnf~s~t~~Lq~~~k~di~~~e~~~i---hl~~k~aQae~ 104 (280)
T COG5074 28 LSINKNLSVYEKEINQIDNLHKDLLTEVFEEQSRKLRRSLDNFSSQTTDLQRNLKKDIKSAERDGI---HLANKQAQAEN 104 (280)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHhccc---chhhHHHHHHH
Confidence 33444444444444443333333322222 2357777777777787777777777766655210 11223444454
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 030353 115 LAKDFQSVLKEFQKAQRLAAERE 137 (179)
Q Consensus 115 L~~dF~~aL~~FQ~~Qr~~aeke 137 (179)
...-|-..++.|-.++..|-+-+
T Consensus 105 ~r~Kf~~~I~~yr~i~~~yree~ 127 (280)
T COG5074 105 VRQKFLKLIQDYRIIDSNYREEE 127 (280)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHH
Confidence 55677788888888888765544
No 36
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=38.74 E-value=61 Score=21.61 Aligned_cols=25 Identities=20% Similarity=0.309 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHhc
Q 030353 37 SQAVAAAIFQINTAVSSFYRLVNSL 61 (179)
Q Consensus 37 ~~~Is~~If~In~nVs~L~klv~~L 61 (179)
.+.+++.|+.+|+.|.+|...++.+
T Consensus 5 id~Ls~dVq~L~~kvdqLs~dv~~l 29 (56)
T PF04728_consen 5 IDQLSSDVQTLNSKVDQLSSDVNAL 29 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777777887777777777664
No 37
>PF05791 Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL); InterPro: IPR008414 This family consists of several Bacillus haemolytic enterotoxins (HblC, HblD, HblA, NheA, and NheB), which can cause food poisoning in humans []. Haemolysin BL (encoded by HBL) and non-haemolytic enterotoxin (encoded by NHE), represent the major enterotoxins produced by Bacillus cereus. Most of the cytotoxic activity of B. cereus isolates has been attributed to the level of Nhe, which may indicate a highly diarrheic potential []. The exact mechanism by which B. cereus causes diarrhoea is unknown. Hbl, cytotoxin K (CytK) and Nhe are all putative causes. Both Hbl and Nhe are three-component cytotoxins and maximal cytotoxicity of Nhe against epithelia is dependent on all three components. Nhe has haemolytic activity against erythrocytes from a variety of species. It is possible that the common structural and functional properties of these toxins indicate that the Hbl/Nhe and ClyA families of toxins constitute a superfamily of pore-forming cytotoxins []. The high virulence of some strains is thought to be due to the greater cytotoxic activity of CytK-1 compared to CytK-2, and to a high level of cytK expression []. Haemolysin BL and non-haemolytic enterotoxin production are both influenced by pH and micro []. This entry is found in cytotoxic proteins that form part of the enterotoxin complex and bind to erythrocytes. HblA is composed of a binding component, B, and two lytic components, L1 and L2. All three subunits act synergically to cause hemolysis.; GO: 0009405 pathogenesis, 0016020 membrane; PDB: 2NRJ_A.
Probab=38.20 E-value=2.1e+02 Score=22.94 Aligned_cols=63 Identities=14% Similarity=0.267 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHhhHHHH--------HHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 030353 36 PSQAVAAAIFQINTAVSSF--------YRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEAD 99 (179)
Q Consensus 36 L~~~Is~~If~In~nVs~L--------~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~ 99 (179)
|.+.+--.|-.++++|..+ ..++..+ ...|...+-+.|..++..+...-..+...+.+|..+.
T Consensus 67 w~d~~~P~ii~~~~~I~~Y~~~f~syY~~L~~~i-d~~~~~~~~~~i~~L~~~i~~~q~~~~~~i~~L~~f~ 137 (184)
T PF05791_consen 67 WLDTIKPQIIDLNQDIINYNTTFQSYYDTLVEAI-DQKDKEDLKEIIEDLQDQIQKNQDKVQALINELNDFK 137 (184)
T ss_dssp HHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHhcHHHHHHHHHHHHHHHHHHHHHHHHHHHH-CcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444555555554332 1233333 4567777888888888888888888888888888773
No 38
>PF08066 PMC2NT: PMC2NT (NUC016) domain; InterPro: IPR012588 Exosomes are nano-compartments that function in the degradation or processing of RNA (including mRNA, rRNA, snRNA and snoRNA) [, ]. Exosomes occur in both archaea and eukaryotes, and have a similar overall structure to each other and to bacterial/organelle PNPases (polynucleotide phosphorylases; 2.7.7.8 from EC) [], consisting of a barrel structure composed of a hexameric ring of PH domains that act as a degradation chamber, and an S1-domain/KH-domain containing cap that binds the RNA substrate (and sometimes accessory proteins) in order to regulate and restrict entry into the degradation chamber []. There are two types of exosomes in eukaryotes, cytoplasmic exosomes that are responsible for 3'-5' exoribonuclease degradation of mRNAs, and nuclear exosomes that degrade pre-mRNAs (such as nonsense transcripts) and degrade rRNAs, snRNAs and snoRNAs. Unstructured RNA substrates feed in through the pore made by the S1 domains, are degraded by the PH domain ring, and exit as nucleotides via the PH pore at the opposite end of the barrel [, ]. There are several accessory proteins that help degrade, unwind or polyadenylate RNA substrate before they enter the exosome. This entry represents the N-terminal domain of Rrp6 (exosome component 10 in humans), a nuclear exosome accessory factor that interacts with the bottom of the hexameric PH-ring opposite the cap. Rrp6 functions as a hydrolytic exonuclease, and is homologous to RNase-D in Escherichia coli. More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0006396 RNA processing, 0000176 nuclear exosome (RNase complex)
Probab=37.96 E-value=1.5e+02 Score=21.04 Aligned_cols=66 Identities=8% Similarity=0.130 Sum_probs=34.7
Q ss_pred CCcchhHHHHHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030353 30 QSQSQDPSQAVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQA 95 (179)
Q Consensus 30 ~~eF~~L~~~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L 95 (179)
+|+|....+..+..|-.+-+.+-........+..+.|...+.++...+.+-.-.|+..+...|-++
T Consensus 23 dp~f~~~ld~~s~rll~l~n~ll~~~~~~~~~~~~~~~~d~d~~~~~vvd~~D~LlEk~D~~LDe~ 88 (91)
T PF08066_consen 23 DPEFAESLDEQSQRLLSLINSLLKSAGSKSNISSPDDVDDVDERWDSVVDVNDSLLEKADISLDEL 88 (91)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhccccccccCCCccccHHHHHHHHHHHHHHHHHHHhHHHHhH
Confidence 467777666666666555444333222222233333334466666666666666666665555443
No 39
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=37.88 E-value=2.2e+02 Score=25.99 Aligned_cols=32 Identities=3% Similarity=0.173 Sum_probs=19.3
Q ss_pred CcchhHHHHHHHHHHHHHhhHHHHHHHHHhcC
Q 030353 31 SQSQDPSQAVAAAIFQINTAVSSFYRLVNSLG 62 (179)
Q Consensus 31 ~eF~~L~~~Is~~If~In~nVs~L~klv~~LG 62 (179)
|++....+.+...+..+...+..|++.+..+-
T Consensus 330 ~~l~~~~~~l~~~~~~~~~~l~~l~~~l~~l~ 361 (451)
T PF03961_consen 330 PELKEKLEELEEELEELKEELEKLKKNLKKLK 361 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 55556666666666666666666666555443
No 40
>KOG3065 consensus SNAP-25 (synaptosome-associated protein) component of SNARE complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=37.51 E-value=93 Score=27.05 Aligned_cols=57 Identities=9% Similarity=0.202 Sum_probs=47.1
Q ss_pred HHHHHHHHHHhhHHHHHHHHHhcCCCCCcHH-HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030353 39 AVAAAIFQINTAVSSFYRLVNSLGTPKDTLD-LRDKLHKTRLHIGQLVKDTSSKLKQA 95 (179)
Q Consensus 39 ~Is~~If~In~nVs~L~klv~~LGT~kDt~~-LR~kl~~~~~~t~~L~K~t~~~lk~L 95 (179)
.|..||.+|...+..|+.|.-.+|+--|.+. .-++|+...+...--|...+..+++|
T Consensus 215 eiD~NL~qis~~lg~LK~mA~dmg~Eie~Qn~~Ld~I~~k~d~~d~~v~~~n~R~~kL 272 (273)
T KOG3065|consen 215 EIDENLDQLSAILGRLKNMALDMGSEIESQNERLDRIEDKVDRLDLRVDKANKRAKKL 272 (273)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHhHHHHHHHhhhhHHHHHHHHHHhc
Confidence 8999999999999999999999999988764 55677777777777777777776665
No 41
>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=36.80 E-value=2e+02 Score=22.39 Aligned_cols=25 Identities=36% Similarity=0.465 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 030353 115 LAKDFQSVLKEFQKAQRLAAERETT 139 (179)
Q Consensus 115 L~~dF~~aL~~FQ~~Qr~~aekek~ 139 (179)
...||+.++..|-..|..+..+.-.
T Consensus 186 ~~~dlk~~l~~~~~~qi~~~~~~~~ 210 (218)
T cd07596 186 RARDLKAALKEFARLQVQYAEKIAE 210 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4788999999999999888877543
No 42
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=36.43 E-value=3.7e+02 Score=25.27 Aligned_cols=71 Identities=10% Similarity=0.244 Sum_probs=42.1
Q ss_pred CCCcchhHHHHHHHHHHHHHhhHHHHHHHHHhcCC-CCCcHHHHHHHHHHHH-------HHHHHHHHHHHHHHHhhhhc
Q 030353 29 NQSQSQDPSQAVAAAIFQINTAVSSFYRLVNSLGT-PKDTLDLRDKLHKTRL-------HIGQLVKDTSSKLKQASEAD 99 (179)
Q Consensus 29 ~~~eF~~L~~~Is~~If~In~nVs~L~klv~~LGT-~kDt~~LR~kl~~~~~-------~t~~L~K~t~~~lk~L~~~~ 99 (179)
+++.|..+.+.+.+....+.-....|+.....+.- |..-.++.+++..+.. .+.++.......-++|..+.
T Consensus 264 ~d~~~~~~~~~l~~~~~~l~d~~~~l~~~~~~l~~dp~~L~ele~RL~~l~~LkrKyg~s~e~l~~~~~~l~~eL~~l~ 342 (563)
T TIGR00634 264 IDGSLRELAEQVGNALTEVEEATRELQNYLDELEFDPERLNEIEERLAQIKRLKRKYGASVEEVLEYAEKIKEELDQLD 342 (563)
T ss_pred hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHh
Confidence 46677778888888888888778888887777732 1111345666654444 33344444444444555544
No 43
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=36.38 E-value=2.4e+02 Score=23.76 Aligned_cols=58 Identities=21% Similarity=0.298 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030353 74 LHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAKLAKDFQSVLKEFQKAQRLAA 134 (179)
Q Consensus 74 l~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eKL~~dF~~aL~~FQ~~Qr~~a 134 (179)
...+..+...|.++....-++|..... .+ ...+-+-+.+.++|-..+.+++++|.++.
T Consensus 153 ~~~~~~~~~kL~~el~~~~~~Le~~~~--~~-~al~Kq~e~~~~EydrLlee~~~Lq~~i~ 210 (216)
T KOG1962|consen 153 NDKLKADLEKLETELEKKQKKLEKAQK--KV-DALKKQSEGLQDEYDRLLEEYSKLQEQIE 210 (216)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHH--HH-HHHHHHHHHcccHHHHHHHHHHHHHHHHh
Confidence 334444444444444444455554432 11 12445567788888888888888887764
No 44
>PF10191 COG7: Golgi complex component 7 (COG7); InterPro: IPR019335 The conserved oligomeric Golgi (COG) complex is an eight-subunit (Cog1-8) peripheral Golgi protein involved in membrane trafficking and glycoconjugate synthesis []. COG7 is required for normal Golgi morphology and trafficking. Mutation in COG7 causes a congenital disorder of glycosylation [].
Probab=34.53 E-value=2.8e+02 Score=27.42 Aligned_cols=64 Identities=19% Similarity=0.299 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHHhh-HHHHHHHHHhcCCCC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 030353 36 PSQAVAAAIFQINTA-VSSFYRLVNSLGTPK-DTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEAD 99 (179)
Q Consensus 36 L~~~Is~~If~In~n-Vs~L~klv~~LGT~k-Dt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~ 99 (179)
.++.|+..|-++-+. +..+=+.+..++.-+ |...|++++..+.+.+...-.+|...|..|..++
T Consensus 46 ~~qe~~~~le~~~~q~l~~~Pr~~~ev~~l~~ea~~L~~~~~~v~~~~~~~e~~t~~s~~~L~~ld 111 (766)
T PF10191_consen 46 YSQEVNASLEETSQQALQRVPRVLREVDRLRQEAASLQEQMASVQEEIKAVEQDTAQSMAQLAELD 111 (766)
T ss_pred HHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHH
Confidence 344444444444444 333444444444333 3446999999999999999999999999888886
No 45
>PF01763 Herpes_UL6: Herpesvirus UL6 like; InterPro: IPR002660 This family consists of various proteins from the Herpesviridae that are similar to Human herpesvirus 1 (HHV-1) UL6 virion protein. UL6 is essential for cleavage and packaging of the viral genome [].; GO: 0006323 DNA packaging
Probab=34.14 E-value=2.3e+02 Score=27.25 Aligned_cols=28 Identities=21% Similarity=0.253 Sum_probs=20.3
Q ss_pred CCcchhHHHHHHHHHHH-----HHhhHHHHHHH
Q 030353 30 QSQSQDPSQAVAAAIFQ-----INTAVSSFYRL 57 (179)
Q Consensus 30 ~~eF~~L~~~Is~~If~-----In~nVs~L~kl 57 (179)
.+--+.+-+.++++|++ ||+.+.+|+.|
T Consensus 350 ~~~~~~~r~~v~nsI~kcLe~qIn~qf~tIe~L 382 (557)
T PF01763_consen 350 EPVQQAFRDSVSNSINKCLEGQINNQFDTIEDL 382 (557)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44456778899999997 57766666664
No 46
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=34.12 E-value=2e+02 Score=21.49 Aligned_cols=74 Identities=11% Similarity=0.157 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-----hccCCCCchhHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 030353 68 LDLRDKLHKTRLHIGQLVKDTSSKLKQASE-----ADHHTEVSPIRKI--ADAKLAKDFQSVLKEFQKAQRLAAERETTY 140 (179)
Q Consensus 68 ~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~-----~~~~~~~~~~~k~--~~eKL~~dF~~aL~~FQ~~Qr~~aekek~~ 140 (179)
..+.+.+..+...|+..+|........... .... -..-..++ .-..+..+|+.+=..|..-.|....++..+
T Consensus 47 ~~~~~~~~~~~~~ik~~lk~l~~~~~~~~~~~~s~~~r~-~~~q~~~L~~~f~~~m~~fq~~Q~~~~~~~k~~i~Rq~~i 125 (151)
T cd00179 47 ESLVQEIKKLAKEIKGKLKELEESNEQNEALNGSSVDRI-RKTQHSGLSKKFVEVMTEFNKAQRKYRERYKERIQRQLEI 125 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456777777777777777777666544320 0000 00011112 124578899999999999999888888766
Q ss_pred CC
Q 030353 141 AP 142 (179)
Q Consensus 141 ~~ 142 (179)
+.
T Consensus 126 ~~ 127 (151)
T cd00179 126 TG 127 (151)
T ss_pred cC
Confidence 55
No 47
>PLN03217 transcription factor ATBS1; Provisional
Probab=31.69 E-value=1.7e+02 Score=21.35 Aligned_cols=55 Identities=22% Similarity=0.226 Sum_probs=36.9
Q ss_pred HHHhhHHHHHHHHHhcCCCC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 030353 46 QINTAVSSFYRLVNSLGTPK--DTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADH 100 (179)
Q Consensus 46 ~In~nVs~L~klv~~LGT~k--Dt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~ 100 (179)
+||..|+.|+.++-.+...+ +..---.=|.+...+|+.|-+++...-.+|..+..
T Consensus 21 qi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~LL~ 77 (93)
T PLN03217 21 QINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSELLA 77 (93)
T ss_pred HHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 56777788888776665422 22223344578888899998888777777777654
No 48
>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane
Probab=31.65 E-value=1.8e+02 Score=28.78 Aligned_cols=118 Identities=9% Similarity=0.109 Sum_probs=61.3
Q ss_pred CCcchhHHH------HHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHH-HHH-HHHHHHHHHHHh------
Q 030353 30 QSQSQDPSQ------AVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLH-IGQ-LVKDTSSKLKQA------ 95 (179)
Q Consensus 30 ~~eF~~L~~------~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~-t~~-L~K~t~~~lk~L------ 95 (179)
.|.++++.+ .+...+..+|..+..|+....+|...- .++|..|...... +.. .+..+-..+..+
T Consensus 235 ~~~L~~i~~l~~~~~~~~~~L~~v~~~~~~L~~~~~qL~~~L--~~vK~~L~~~l~~~C~~~~C~~i~~~~~~l~l~~~~ 312 (806)
T PF05478_consen 235 YPALDSILDLAQAMQETKELLQNVNSSLKDLQEYQSQLRDGL--RGVKRDLNNTLQDLCTNRECNSILSSLDILQLDADF 312 (806)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHhhCCChhhHHHHHhccccccCCCc
Confidence 455555544 555666666777776666666653321 1234444443333 221 122221111111
Q ss_pred hhhccC-CCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCccc
Q 030353 96 SEADHH-TEVSPIRKIADAKLAKDFQSVLKEFQKAQRLAAERETTYAPFVPKESL 149 (179)
Q Consensus 96 ~~~~~~-~~~~~~~k~~~eKL~~dF~~aL~~FQ~~Qr~~aekek~~~~~ar~a~~ 149 (179)
+.+++- ...+.-..+....+..-.+.+...|..+...+.+..+..++.++..++
T Consensus 313 ~qLP~v~~~l~~l~~v~~~nl~~~v~~~~~~~~~ip~~v~~qt~~~v~~ik~~l~ 367 (806)
T PF05478_consen 313 SQLPNVTSQLNNLEEVIKTNLSSIVQEGNSRFNDIPEKVQNQTSDVVPPIKRDLD 367 (806)
T ss_pred ccCCChHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence 111110 001222344455677888888999999998888888877776555533
No 49
>PRK06665 flgK flagellar hook-associated protein FlgK; Validated
Probab=31.63 E-value=4.8e+02 Score=25.14 Aligned_cols=54 Identities=11% Similarity=0.099 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHHHHHHHHHHH
Q 030353 70 LRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAKLAKDFQSVL 123 (179)
Q Consensus 70 LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eKL~~dF~~aL 123 (179)
+..+|.....++|.+.+++.+.=+++..............=+|++|.+++...+
T Consensus 169 ~~~~i~~~V~~iN~ll~qIa~LN~qI~~~~~~g~~~ndLlDqRD~ll~eLS~~v 222 (627)
T PRK06665 169 ANDEIEITVEEINNILRNIADLNEQIVKSQAMGDNPNDLLDRRDLLVDKLSSLI 222 (627)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHHHHhhc
Confidence 455666666666666666655555554432210111224445666777766544
No 50
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=31.10 E-value=1.5e+02 Score=22.19 Aligned_cols=39 Identities=15% Similarity=0.314 Sum_probs=24.9
Q ss_pred HHHhhH-HHHHHHHHhcC--CCCCcHHHHHHHHHHHHHHHHH
Q 030353 46 QINTAV-SSFYRLVNSLG--TPKDTLDLRDKLHKTRLHIGQL 84 (179)
Q Consensus 46 ~In~nV-s~L~klv~~LG--T~kDt~~LR~kl~~~~~~t~~L 84 (179)
++...+ ..+.++++.|| |..|-..|+.+|..+...+.+|
T Consensus 74 ~le~~~~~~v~~~L~~lg~~tk~ev~~L~~RI~~Le~~l~~l 115 (118)
T TIGR01837 74 KLEKAFDERVEQALNRLNIPSREEIEALSAKIEQLAVQVEEL 115 (118)
T ss_pred HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 444442 23667777777 5566667777777777766655
No 51
>PHA03332 membrane glycoprotein; Provisional
Probab=30.77 E-value=4.6e+02 Score=27.52 Aligned_cols=60 Identities=12% Similarity=0.166 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHhcCCCCCc--HHHH-------HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 030353 38 QAVAAAIFQINTAVSSFYRLVNSLGTPKDT--LDLR-------DKLHKTRLHIGQLVKDTSSKLKQASE 97 (179)
Q Consensus 38 ~~Is~~If~In~nVs~L~klv~~LGT~kDt--~~LR-------~kl~~~~~~t~~L~K~t~~~lk~L~~ 97 (179)
.++.+.|...|..|..+..-+..+|..-+. ..|- .+|.++.+.+|.-+-.++..++.|.+
T Consensus 894 a~mksaIg~tNaAV~~lsDai~klGnti~kisatl~~nI~avNgRIs~Led~VN~r~~~v~~~intLA~ 962 (1328)
T PHA03332 894 AEMASKIGGLNARVDKTSDVITKLGDTIAKISATLDNNIRAVNGRVSDLEDQVNLRFLAVATNFNTLAT 962 (1328)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhHHHhcccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346677777777777777777777755442 2233 33444555555555555555544444
No 52
>PF06511 IpaD: Invasion plasmid antigen IpaD; InterPro: IPR009483 This family consists of several invasion plasmid antigen IpaD proteins. Entry of Shigella flexneri into epithelial cells and lysis of the phagosome involve the IpaB, IpaC, and IpaD proteins, which are secreted by type III secretion machinery, and appear to form a multi-protein complex capable of inducing the phagocytic event which internalizes the bacterium [].; GO: 0009405 pathogenesis; PDB: 3R9V_B 2JAA_B 2J0O_A 2J0N_B 2P7N_A 2YM9_A 3NZZ_A 3O02_A 3O00_A 2YM0_B ....
Probab=30.68 E-value=2.6e+02 Score=25.13 Aligned_cols=75 Identities=12% Similarity=0.113 Sum_probs=50.6
Q ss_pred chhHHHHHHHHHHHHHhh-HHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHH
Q 030353 33 SQDPSQAVAAAIFQINTA-VSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIA 111 (179)
Q Consensus 33 F~~L~~~Is~~If~In~n-Vs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~ 111 (179)
...+++.|+..|-.|..+ |.-+.+++ .+-.+.++++++.|.+++.|..........++-
T Consensus 130 ~~elw~~I~~~I~sIk~dYld~Ya~vv--------------------~kYTdyyq~fneilskms~~I~aG~DGn~VkfD 189 (337)
T PF06511_consen 130 YAELWAKIADLIKSIKDDYLDVYADVV--------------------KKYTDYYQDFNEILSKMSDWIKAGKDGNNVKFD 189 (337)
T ss_dssp HHHHHHHHHHHHHHHHHHTHHHHHHHH--------------------HHHHHHHHHHHHHHHHHGGGEEECSSCTEEEEE
T ss_pred hHHHHHHHHHHHHHHHhhHHHHHHHHH--------------------HHHHHHHHHHHHHHHHHHhhhhcCCCCCeeeec
Confidence 456788888888888665 55555544 445778899999999999988642333356666
Q ss_pred HHHHHHHHHHHHHHHH
Q 030353 112 DAKLAKDFQSVLKEFQ 127 (179)
Q Consensus 112 ~eKL~~dF~~aL~~FQ 127 (179)
..+|.+.+...+++|-
T Consensus 190 ~~~lk~al~~l~~kY~ 205 (337)
T PF06511_consen 190 AGALKNALEELKDKYS 205 (337)
T ss_dssp HHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHhc
Confidence 6666666666655555
No 53
>PF06419 COG6: Conserved oligomeric complex COG6; InterPro: IPR010490 COG6 is a component of the conserved oligomeric golgi complex, which is composed of eight different subunits and is required for normal golgi morphology and localisation.
Probab=30.39 E-value=2.6e+02 Score=26.80 Aligned_cols=76 Identities=14% Similarity=0.178 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCC------------CCchhHHHHHH--HHHHHHHHHHHHHHHHHHHHH
Q 030353 69 DLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHT------------EVSPIRKIADA--KLAKDFQSVLKEFQKAQRLAA 134 (179)
Q Consensus 69 ~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~------------~~~~~~k~~~e--KL~~dF~~aL~~FQ~~Qr~~a 134 (179)
++.++|......|..++.+++..-.+...+.... ...-...+.-. -+..+|..+|.+-+++...+.
T Consensus 63 ~~~~~l~~~~~~t~~ll~~~~~L~~~~~~~~~k~~ll~~f~~~f~Ls~~E~~~L~~~~~~v~~~FF~~L~r~~~I~~~c~ 142 (618)
T PF06419_consen 63 QMQDRLSAAKSETSDLLEEASELREQKEELELKKKLLDAFLERFTLSEEEEDALTSGEEPVDDEFFDALDRVQKIHEDCK 142 (618)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 4666666777777777777776665555442110 00000111111 255678899999998888887
Q ss_pred HHHhhcCCCC
Q 030353 135 ERETTYAPFV 144 (179)
Q Consensus 135 ekek~~~~~a 144 (179)
..-......|
T Consensus 143 ~LL~~~~~~a 152 (618)
T PF06419_consen 143 ILLSTENQRA 152 (618)
T ss_pred HHhCCCCchH
Confidence 7765554433
No 54
>PRK12715 flgK flagellar hook-associated protein FlgK; Provisional
Probab=29.51 E-value=1.7e+02 Score=28.42 Aligned_cols=49 Identities=12% Similarity=0.103 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHH
Q 030353 37 SQAVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLV 85 (179)
Q Consensus 37 ~~~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~ 85 (179)
-..|...|-+||+...+|..+-.+|-...+..+|+++=..+..+.++++
T Consensus 158 n~~I~~~V~~iN~l~~qIA~LN~qI~~~~~~ndLlDqRD~ll~eLS~~v 206 (649)
T PRK12715 158 TLQVTESVKIINRITKELAEVNGKLLGNNNIPELLDHRDELLKQLSGYT 206 (649)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchHhHHHHHHHHHHHHhhc
Confidence 3445555566666655555555444322333455555555555554444
No 55
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=29.37 E-value=4.2e+02 Score=23.81 Aligned_cols=18 Identities=11% Similarity=0.191 Sum_probs=9.0
Q ss_pred chhHHHHHHHHHHHHHhh
Q 030353 33 SQDPSQAVAAAIFQINTA 50 (179)
Q Consensus 33 F~~L~~~Is~~If~In~n 50 (179)
+..|.+.|+..+-+|.+-
T Consensus 243 L~kl~~~i~~~lekI~sR 260 (359)
T PF10498_consen 243 LDKLQQDISKTLEKIESR 260 (359)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 444555555555555443
No 56
>PF09141 Talin_middle: Talin, middle domain; InterPro: IPR015224 This domain adopts a structure consisting of five alpha helices that fold into a bundle. It contains a Vinculin binding site (VBS) composed of a hydrophobic surface spanning five turns of helix four. Activation of the VBS causes subsequent recruitment of Vinculin, which enables maturation of small integrin/talin complexes into more stable adhesions. Formation of the complex between VBS and Vinculin requires prior unfolding of this middle domain: once released from the talin hydrophobic core, the VBS helix is then available to induce the 'bundle conversion' conformational change within the vinculin head domain thereby displacing the intramolecular interaction with the vinculin tail, allowing vinculin to bind actin []. ; GO: 0005200 structural constituent of cytoskeleton, 0007016 cytoskeletal anchoring at plasma membrane, 0001726 ruffle, 0005925 focal adhesion; PDB: 1SJ8_A 1T01_B 1SJ7_A 1SYQ_B.
Probab=29.32 E-value=80 Score=25.38 Aligned_cols=54 Identities=26% Similarity=0.139 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030353 37 SQAVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLK 93 (179)
Q Consensus 37 ~~~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk 93 (179)
...|...|+.|.+|+..+-+-++.|.---|+.. .=..+.+-+++|+..++..|+
T Consensus 80 ~tavgaAittIssnl~em~k~vr~laaL~d~~~---~~~~Ll~Aar~L~~A~sdll~ 133 (161)
T PF09141_consen 80 YTAVGAAITTISSNLPEMAKGVRMLAALMDDEG---DGDKLLDAARKLCGAFSDLLK 133 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-----HHHHHHHHHHHHHHHHHHH
T ss_pred hhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCcc---cHHHHHHHHHHHHHHHHHHHH
No 57
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=29.28 E-value=2.4e+02 Score=20.93 Aligned_cols=48 Identities=25% Similarity=0.320 Sum_probs=27.3
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHHHHH
Q 030353 67 TLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAKLAK 117 (179)
Q Consensus 67 t~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eKL~~ 117 (179)
..+|=++|..+.+.+..|..++.+.=+.+..+. ..+...++.-++|..
T Consensus 3 k~~l~~~l~~le~~l~~l~~~~~~LK~~~~~l~---EEN~~L~~EN~~Lr~ 50 (107)
T PF06156_consen 3 KKELFDRLDQLEQQLGQLLEELEELKKQLQELL---EENARLRIENEHLRE 50 (107)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
Confidence 345666666777777777666666666666554 234444444444443
No 58
>KOG1451 consensus Oligophrenin-1 and related Rho GTPase-activating proteins [Signal transduction mechanisms]
Probab=28.95 E-value=1.3e+02 Score=29.40 Aligned_cols=14 Identities=29% Similarity=0.406 Sum_probs=10.3
Q ss_pred CCCcHHHHHHHHHH
Q 030353 64 PKDTLDLRDKLHKT 77 (179)
Q Consensus 64 ~kDt~~LR~kl~~~ 77 (179)
-.|+|+.|++|+.-
T Consensus 12 ~ldsp~fre~l~~h 25 (812)
T KOG1451|consen 12 YLDSPDFRERLKCH 25 (812)
T ss_pred ccCChHHHHHhhHH
Confidence 35888899988543
No 59
>PRK07739 flgK flagellar hook-associated protein FlgK; Validated
Probab=28.49 E-value=4.9e+02 Score=24.25 Aligned_cols=54 Identities=15% Similarity=0.135 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHHHHHHHHHHH
Q 030353 70 LRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAKLAKDFQSVL 123 (179)
Q Consensus 70 LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eKL~~dF~~aL 123 (179)
+...|.....++|.+.+++...=+++..............=+|+.|.+++...+
T Consensus 169 ~~~~i~~~V~~iN~ll~~Ia~LN~~I~~~~~~g~~~ndLlDqRD~ll~~LS~~v 222 (507)
T PRK07739 169 LKSEIDVTVKEINSLASQISDLNKQIAKVEPNGYLPNDLYDQRDLLLDELSKIV 222 (507)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCchhHHHHHHHHHHHHhhc
Confidence 455666666666666666655544444432110111223444566777665544
No 60
>COG4238 Murein lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=28.06 E-value=99 Score=21.91 Aligned_cols=26 Identities=15% Similarity=0.220 Sum_probs=21.5
Q ss_pred hHHHHHHHHHHHHHhhHHHHHHHHHh
Q 030353 35 DPSQAVAAAIFQINTAVSSFYRLVNS 60 (179)
Q Consensus 35 ~L~~~Is~~If~In~nVs~L~klv~~ 60 (179)
.=.+.++++++.+|..|.+|+..++.
T Consensus 25 aK~dqlss~vq~LnAkv~qLe~dv~a 50 (78)
T COG4238 25 AKIDQLSSDVQTLNAKVDQLENDVNA 50 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35678899999999999998887766
No 61
>PF03114 BAR: BAR domain; InterPro: IPR004148 Endocytosis and intracellular transport involve several mechanistic steps: (1) for the internalisation of cargo molecules, the membrane needs to bend to form a vesicular structure, which requires membrane curvature and a rearrangement of the cytoskeleton; (2) following its formation, the vesicle has to be pinched off the membrane; (3) the cargo has to be subsequently transported through the cell and the vesicle must fuse with the correct cellular compartment. Members of the Amphiphysin protein family are key regulators in the early steps of endocytosis, involved in the formation of clathrin-coated vesicles by promoting the assembly of a protein complex at the plasma membrane and directly assist in the induction of the high curvature of the membrane at the neck of the vesicle. Amphiphysins contain a characteristic domain, known as the BAR (Bin-Amphiphysin-Rvs)-domain, which is required for their in vivo function and their ability to tubulate membranes []. The crystal structure of these proteins suggest the domain forms a crescent-shaped dimer of a three-helix coiled coil with a characteristic set of conserved hydrophobic, aromatic and hydrophilic amino acids. Proteins containing this domain have been shown to homodimerise, heterodimerise or, in a few cases, interact with small GTPases. ; GO: 0005515 protein binding, 0005737 cytoplasm; PDB: 4AVM_A 2D4C_C 1X03_A 1X04_A 2RND_A 2RMY_A 2FIC_A 2C08_A 2Z0V_A 3SOG_A ....
Probab=27.64 E-value=1.9e+02 Score=22.46 Aligned_cols=14 Identities=0% Similarity=0.048 Sum_probs=8.5
Q ss_pred CCcchhHHHHHHHH
Q 030353 30 QSQSQDPSQAVAAA 43 (179)
Q Consensus 30 ~~eF~~L~~~Is~~ 43 (179)
+++|+.+...+...
T Consensus 25 D~~f~~~~~~~~~~ 38 (229)
T PF03114_consen 25 DEEFEELEEKFKQL 38 (229)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHH
Confidence 66777775554443
No 62
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=27.56 E-value=2.5e+02 Score=20.54 Aligned_cols=52 Identities=21% Similarity=0.257 Sum_probs=32.2
Q ss_pred HHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030353 41 AAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQAS 96 (179)
Q Consensus 41 s~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~ 96 (179)
...+...-.-++.++.-+..|=|..|-.+|+-.|.++...+ +.++..|+.++
T Consensus 41 ~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~----~~l~~~l~~v~ 92 (106)
T PF10805_consen 41 EERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGEL----KELSARLQGVS 92 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHH----HHHHHHHHHHH
Confidence 33344456678888888888888777666666555555444 44444444443
No 63
>PRK07521 flgK flagellar hook-associated protein FlgK; Validated
Probab=27.23 E-value=5e+02 Score=23.97 Aligned_cols=54 Identities=7% Similarity=0.034 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHHHHHHHHHHH
Q 030353 70 LRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAKLAKDFQSVL 123 (179)
Q Consensus 70 LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eKL~~dF~~aL 123 (179)
+...|......+|.+.+++...=+++..............=+|++|.+++...+
T Consensus 152 ~~~~i~~~V~~iN~l~~~Ia~LN~~I~~~~~~g~~~ndL~DqRD~ll~~LS~~v 205 (483)
T PRK07521 152 ADAEIADSVDTLNDLLAQFEDANNAVVSGTATGRDASDALDQRDKLLKQISQIV 205 (483)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCchhhHHHHHHHHHHHHhhc
Confidence 455666666667776666655555554432110111224445666777766544
No 64
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=26.89 E-value=2.6e+02 Score=20.60 Aligned_cols=71 Identities=15% Similarity=0.246 Sum_probs=51.7
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030353 65 KDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAKLAKDFQSVLKEFQKAQRLAAERETT 139 (179)
Q Consensus 65 kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eKL~~dF~~aL~~FQ~~Qr~~aekek~ 139 (179)
+-+.+++..|..++++...+.+.-.+-+-++..-.. =...-|-.+-|...|.....+|+.-+-...-+.+.
T Consensus 3 k~~s~I~~eI~kLqe~lk~~e~keAERigRiAlKAG----LgeieI~d~eL~~aFeeiAaRFR~g~~~~~g~~~~ 73 (98)
T PRK13848 3 KPSSKIREEIAKLQEQLKQAETREAERIGRIALKAG----LGEIEIEEAELQAAFEELAKRFRGGKGAATGKRNG 73 (98)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC----ccccccCHHHHHHHHHHHHHHHhcCCCcccccccC
Confidence 446789999999999999999999999888765321 11122345678999999999998866555555443
No 65
>PF04065 Not3: Not1 N-terminal domain, CCR4-Not complex component ; InterPro: IPR007207 The Ccr4-Not complex (Not1, Not2, Not3, Not4 and Not5) is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID []. This domain is the N-terminal region of the Not proteins.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=26.88 E-value=1.7e+02 Score=24.75 Aligned_cols=60 Identities=17% Similarity=0.201 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030353 76 KTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAKLAKDFQSVLKEFQKAQRLAAER 136 (179)
Q Consensus 76 ~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eKL~~dF~~aL~~FQ~~Qr~~aek 136 (179)
.++..|-.++|.+++.|.....+... -.+..---|++||-.|++--++..|+.-.++-..
T Consensus 5 KLQ~Eid~~lKkv~EG~~~F~~i~~K-~~~~~n~~QKEK~E~DLKkEIKKLQR~RdQIK~W 64 (233)
T PF04065_consen 5 KLQQEIDRTLKKVQEGVEEFDEIYEK-VESATNQNQKEKLEADLKKEIKKLQRLRDQIKTW 64 (233)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH-HHcccCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666666777777777776665321 0001122457888888888777777665544433
No 66
>PF08649 DASH_Dad1: DASH complex subunit Dad1; InterPro: IPR013958 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules []. Throughout the cell cycle Dad1 remains bound to kinetochores and its association is dependent on the Mis6 and Mal2 [].
Probab=26.76 E-value=1.1e+02 Score=20.57 Aligned_cols=28 Identities=11% Similarity=0.190 Sum_probs=22.7
Q ss_pred cchhHHHHHHHHHHHHHhhHHHHHHHHH
Q 030353 32 QSQDPSQAVAAAIFQINTAVSSFYRLVN 59 (179)
Q Consensus 32 eF~~L~~~Is~~If~In~nVs~L~klv~ 59 (179)
+.+.|.+.|+.++-.|-+++..|.+-+.
T Consensus 6 qR~~Li~eI~~~~e~vl~nlN~LNRsLE 33 (58)
T PF08649_consen 6 QRDRLIQEISESMESVLNNLNALNRSLE 33 (58)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 3467999999999999999888887443
No 67
>PF04899 MbeD_MobD: MbeD/MobD like ; InterPro: IPR006983 The MbeD and MobD proteins are plasmid encoded, and are involved in the plasmid mobilisation and transfer in the presence of conjugative plasmids [].
Probab=26.75 E-value=2.2e+02 Score=19.65 Aligned_cols=54 Identities=7% Similarity=0.186 Sum_probs=35.5
Q ss_pred chhHHHHHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHH
Q 030353 33 SQDPSQAVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDT 88 (179)
Q Consensus 33 F~~L~~~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t 88 (179)
|+.|-+..+.+...--...+.|+.+... |.++...|+.++..+...+..|...+
T Consensus 12 le~Lq~~y~~q~~~Wq~sy~~Lq~~~~~--t~~~~a~L~~qv~~Ls~qv~~Ls~ql 65 (70)
T PF04899_consen 12 LEELQQSYEKQQQEWQSSYADLQHMFEQ--TSQENAALSEQVNNLSQQVQRLSEQL 65 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH--hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666666777777666666666665544 55666677777777777766665443
No 68
>PF13870 DUF4201: Domain of unknown function (DUF4201)
Probab=26.07 E-value=3.2e+02 Score=21.39 Aligned_cols=67 Identities=12% Similarity=0.144 Sum_probs=32.8
Q ss_pred cchhHHHHHHHHHHHHHhhHHHHHHHHHhcC-CCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 030353 32 QSQDPSQAVAAAIFQINTAVSSFYRLVNSLG-TPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEA 98 (179)
Q Consensus 32 eF~~L~~~Is~~If~In~nVs~L~klv~~LG-T~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~ 98 (179)
+|..|.-....-.-+|----..|.++-..+| |..--..+|++++.+......+-.++...-..+..+
T Consensus 43 DFeqLkien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~keKl~~~~~~~~~l~~~l~~~~~~~~~~ 110 (177)
T PF13870_consen 43 DFEQLKIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVKEKLHFLSEELERLKQELKDREEELAKL 110 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4666655444444444333333444333333 122223466666666666666655555544444443
No 69
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=25.39 E-value=5.8e+02 Score=24.06 Aligned_cols=20 Identities=20% Similarity=0.170 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 030353 114 KLAKDFQSVLKEFQKAQRLA 133 (179)
Q Consensus 114 KL~~dF~~aL~~FQ~~Qr~~ 133 (179)
.|..+........+.+|++.
T Consensus 120 ql~~~~~~~~~~l~~l~~~l 139 (472)
T TIGR03752 120 QLKSERQQLQGLIDQLQRRL 139 (472)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444445444
No 70
>PF07432 Hc1: Histone H1-like protein Hc1; InterPro: IPR010886 This family consists of several bacterial histone H1-like Hc1 proteins, which are found in Chlamydiae and Bacteroidetes species. Chlamydiae are prokaryotic obligate intracellular parasites that undergo a biphasic life cycle involving an infectious, extracellular form known as elementary bodies and an intracellular, replicating form termed reticulate bodies. The gene coding for Hc1 is expressed only during the late stages of the chlamydial life cycle concomitant with the reorganisation of chlamydial reticulate bodies into elementary bodies, suggesting that the Hc1 protein plays a role in the condensation of chlamydial chromatin during intracellular differentiation [].; GO: 0003677 DNA binding
Probab=25.31 E-value=2.7e+02 Score=21.41 Aligned_cols=22 Identities=18% Similarity=0.259 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 030353 74 LHKTRLHIGQLVKDTSSKLKQA 95 (179)
Q Consensus 74 l~~~~~~t~~L~K~t~~~lk~L 95 (179)
|.++..++.+|+..+..++.++
T Consensus 2 lKdt~~kmkeL~e~~~~D~~K~ 23 (123)
T PF07432_consen 2 LKDTFKKMKELLESFEADAEKA 23 (123)
T ss_pred hHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777788888888877653
No 71
>smart00503 SynN Syntaxin N-terminal domain. Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p
Probab=25.28 E-value=2.5e+02 Score=19.82 Aligned_cols=94 Identities=14% Similarity=0.180 Sum_probs=52.4
Q ss_pred HHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHH-------HHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHH-H--
Q 030353 41 AAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKL-------HKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRK-I-- 110 (179)
Q Consensus 41 s~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl-------~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k-~-- 110 (179)
-..+..|..+|..|+..+..|+. +..++ ..+..+.+.++.+|+...+.+...... .+.... .
T Consensus 7 ~~~v~~I~~~I~~i~~~v~~l~~------l~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~lk~--l~~~~~~~~~ 78 (117)
T smart00503 7 FEKVEEIRANIQKISQNVAELQK------LHEELLTPPDADKELREKLERLIDDIKRLAKEIRAKLKE--LEKENLENRA 78 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH------HHHHHhccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHhHHhhcc
Confidence 34667778888888877777743 22222 344556677777777777776665431 111000 0
Q ss_pred ---HHHHH-HHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 030353 111 ---ADAKL-AKDFQSVLKEFQKAQRLAAERETTYAP 142 (179)
Q Consensus 111 ---~~eKL-~~dF~~aL~~FQ~~Qr~~aekek~~~~ 142 (179)
...|. ..-....-..|+.+-..|...++.+..
T Consensus 79 ~~~~~~r~~~~q~~~L~~~f~~~m~~fq~~Q~~~~~ 114 (117)
T smart00503 79 SGSASDRTRKAQTEKLRKKFKEVMNEFQRLQRKYRE 114 (117)
T ss_pred cCCHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 12232 233344455677777777777766543
No 72
>PF05565 Sipho_Gp157: Siphovirus Gp157; InterPro: IPR008840 This family contains both viral and bacterial proteins which are related to the Gp157 protein of the Streptococcus thermophilus SFi bacteriophage. It is thought that bacteria possessing the gene coding for this protein have an increased resistance to the bacteriophage [].
Probab=25.27 E-value=3.4e+02 Score=21.29 Aligned_cols=54 Identities=11% Similarity=0.196 Sum_probs=38.5
Q ss_pred HHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 030353 43 AIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEA 98 (179)
Q Consensus 43 ~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~ 98 (179)
+||.|+.....|..++..-+ -|...+-+.|..+......-+..+...|+.+..-
T Consensus 2 ~LYel~~~~~~l~~~~e~~~--~d~e~~~dtLe~i~~~~~~K~~~~~~~Ik~~ea~ 55 (162)
T PF05565_consen 2 KLYELTDEYLELLELLEEGD--LDEEAIADTLESIEDEIEEKADNIAKVIKNLEAD 55 (162)
T ss_pred CHHHHHHHHHHHHHHHhcCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence 57889998888887776654 6666677777777776666666666666666553
No 73
>KOG2150 consensus CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
Probab=24.29 E-value=1.8e+02 Score=27.93 Aligned_cols=58 Identities=17% Similarity=0.178 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030353 76 KTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAKLAKDFQSVLKEFQKAQRLAA 134 (179)
Q Consensus 76 ~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eKL~~dF~~aL~~FQ~~Qr~~a 134 (179)
.++..|-..+|.+++.|.-...+...- .+..-.-+++||-.|++.-++..|++--++-
T Consensus 5 KLq~eIdr~lkKv~Egve~Fd~i~ek~-~~~~n~sqkeK~e~DLKkEIKKLQRlRdQIK 62 (575)
T KOG2150|consen 5 KLQQEIDRCLKKVDEGVEIFDEIYEKL-HSANNVSQKEKLESDLKKEIKKLQRLRDQIK 62 (575)
T ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHH-HhcCChhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555666666665555543210 0000224567777777777777776655443
No 74
>PF11172 DUF2959: Protein of unknown function (DUF2959); InterPro: IPR021342 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=24.26 E-value=93 Score=25.94 Aligned_cols=31 Identities=10% Similarity=0.181 Sum_probs=0.0
Q ss_pred CcchhHHHHHHHHHHHHHhhHHHHHHHHHhc
Q 030353 31 SQSQDPSQAVAAAIFQINTAVSSFYRLVNSL 61 (179)
Q Consensus 31 ~eF~~L~~~Is~~If~In~nVs~L~klv~~L 61 (179)
+||..+...|+..|..+|..|..-++||..|
T Consensus 170 ~e~~~~~~di~~Li~~m~~sI~ead~FI~~l 200 (201)
T PF11172_consen 170 GEFSSIESDISQLIKEMERSIAEADAFIASL 200 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
No 75
>PRK13874 conjugal transfer protein TrbJ; Provisional
Probab=24.16 E-value=4.3e+02 Score=22.20 Aligned_cols=48 Identities=13% Similarity=0.146 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHH
Q 030353 37 SQAVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVK 86 (179)
Q Consensus 37 ~~~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K 86 (179)
.+.|..+|..|.+.+..|+.++..+-..... .-+.|...+.++..|+.
T Consensus 46 l~Qi~nQiqqlqnQ~qm~~Nq~~Nl~~Lp~~--~~~~i~~~i~~~~~L~~ 93 (230)
T PRK13874 46 LQQINNQITSLQNEAQMLINQARNLASLPYS--SLQQLQQSLARTQQLLA 93 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhCCCHH--HHHHHHHHHHHHHHHHH
Confidence 5566677777777788888888887665553 34445555555555543
No 76
>PF06013 WXG100: Proteins of 100 residues with WXG; InterPro: IPR010310 ESAT-6 is a small protein appears to be of fundamental importance in virulence and protective immunity in Mycobacterium tuberculosis. Homologues have been detected in other Gram-positive bacterial species. It may represent a novel secretion system potentially driven by the PF01580 from PFAM domains in the YukA-like proteins []. Members of this protein family include secretion targets for type main variants of type VII secretion systems (T7SS), one found in the Actinobacteria, one found in the Firmicutes. This model was derived through iteration from PF06013 from PFAM. The best characterised member of this family is ESAT-6 from Mycobacterium tuberculosis. Members of this family usually are ~100 amino acids in length but occasionally have long C-terminal extension. ; PDB: 3FAV_A 1WA8_A 3Q4H_B 2KG7_A 2VRZ_B 2VS0_B 3OGI_A 3H6P_B 3GVM_B 3GWK_C ....
Probab=24.09 E-value=2.1e+02 Score=18.46 Aligned_cols=59 Identities=14% Similarity=0.159 Sum_probs=31.4
Q ss_pred chhHHHHHHHHHHHHHhhHHHHHHHHHhcCCC---CCcHHHHHHHHHHHHHHHHHHHHHHHH
Q 030353 33 SQDPSQAVAAAIFQINTAVSSFYRLVNSLGTP---KDTLDLRDKLHKTRLHIGQLVKDTSSK 91 (179)
Q Consensus 33 F~~L~~~Is~~If~In~nVs~L~klv~~LGT~---kDt~~LR~kl~~~~~~t~~L~K~t~~~ 91 (179)
.......+......|...+..|+..+..|+.. ......+.....+.....++.......
T Consensus 9 l~~~a~~~~~~~~~l~~~~~~l~~~~~~l~~~W~G~a~~af~~~~~~~~~~~~~~~~~L~~~ 70 (86)
T PF06013_consen 9 LRAAAQQLQAQADELQSQLQQLESSIDSLQASWQGEAADAFQDKFEEWNQAFRQLNEALEEL 70 (86)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGBTSSTSHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666677777777777766666321 122234454444444444444333333
No 77
>PF06015 Chordopox_A30L: Chordopoxvirus A30L protein; InterPro: IPR009257 This family consists of several short Chordopoxvirus proteins which are homologous to the A30L protein of Vaccinia virus. The vaccinia virus A30L protein is required for the association of electron-dense, granular, proteinaceous material with the concave surfaces of crescent membranes, an early step in viral morphogenesis. A30L is known to interact with the G7L protein and it has been shown that the stability of each is dependent on its association with the other [].
Probab=23.96 E-value=1e+02 Score=21.48 Aligned_cols=30 Identities=20% Similarity=0.187 Sum_probs=26.3
Q ss_pred CCcchhHHHHHHHHHHHHHhhHHHHHHHHH
Q 030353 30 QSQSQDPSQAVAAAIFQINTAVSSFYRLVN 59 (179)
Q Consensus 30 ~~eF~~L~~~Is~~If~In~nVs~L~klv~ 59 (179)
++||......|..-|-.||.-|=.|.|--+
T Consensus 22 d~e~~atls~i~eli~~IN~kIl~lNKKsK 51 (71)
T PF06015_consen 22 DSEFAATLSAIKELISQINLKILALNKKSK 51 (71)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHhhHhh
Confidence 678999999999999999999988888544
No 78
>PF09537 DUF2383: Domain of unknown function (DUF2383); InterPro: IPR019052 This entry represents a functionally uncharacterised ferritin like domain.; PDB: 3FSE_B.
Probab=23.87 E-value=2.7e+02 Score=19.75 Aligned_cols=60 Identities=5% Similarity=0.139 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 030353 37 SQAVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADH 100 (179)
Q Consensus 37 ~~~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~ 100 (179)
.+.+...|...+-.+..+++.+..+. ++.|+.-+......-...+.++...|..+..-+.
T Consensus 3 i~~Ln~Ll~~~~d~~~~Y~~a~~~~~----~~~lk~~f~~~~~~~~~~~~~L~~~i~~~Gg~p~ 62 (111)
T PF09537_consen 3 IEALNDLLKGLHDGIEGYEKAAEKAE----DPELKSLFQEFAQERQQHAEELQAEIQELGGEPE 62 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH------SHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--H-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCC----CHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcC
Confidence 44556666666677888888888875 3788888888888888888888888888887653
No 79
>cd07610 FCH_F-BAR The Extended FES-CIP4 Homology (FCH) or F-BAR (FCH and Bin/Amphiphysin/Rvs) domain, a dimerization module that binds and bends membranes. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. F-BAR domain containing proteins, also known as Pombe Cdc15 homology (PCH) family proteins, include Fes and Fer tyrosine kinases, PACSINs/Syndapins, FCHO, PSTPIP, CIP4-like proteins and srGAPs. Many members also contain an SH3 domain and play roles in endocytosis. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules. These tubules have diameters larger than those observed with N-BARs. The F-BAR domains of some members such as NOSTRIN and Rgd1 are important for the subcellular localization of the protein.
Probab=23.62 E-value=3.5e+02 Score=20.88 Aligned_cols=48 Identities=8% Similarity=0.075 Sum_probs=25.2
Q ss_pred HHHHHHHHHhcCCCCCcH--HHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 030353 51 VSSFYRLVNSLGTPKDTL--DLRDKLHKTRLHIGQLVKDTSSKLKQASEA 98 (179)
Q Consensus 51 Vs~L~klv~~LGT~kDt~--~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~ 98 (179)
-..|.+|.+......... -+..-.+.+...+..+.+.-......|...
T Consensus 34 ak~L~kLak~~~~~~~~~~~t~~~~w~~~~~e~~~~a~~h~~~a~~l~~~ 83 (191)
T cd07610 34 AKNLQKLAKKFSKKPESGKTSLGTSWNSLREETESAATVHEELSEKLSQL 83 (191)
T ss_pred HHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555554322222 466666666666666665555554444443
No 80
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=23.54 E-value=4.5e+02 Score=28.13 Aligned_cols=102 Identities=14% Similarity=0.111 Sum_probs=0.0
Q ss_pred ccCCCcchhHHHHHHHHHHHH-HhhHHH--HHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCC
Q 030353 27 QQNQSQSQDPSQAVAAAIFQI-NTAVSS--FYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTE 103 (179)
Q Consensus 27 ~~~~~eF~~L~~~Is~~If~I-n~nVs~--L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~ 103 (179)
++|..+|..+-.+|..-=--+ +.+|+. +.++.+.+ ..||..|....+...++...++.....+......
T Consensus 1197 gay~s~f~~me~kl~~ir~il~~~svs~~~i~~l~~~~------~~lr~~l~~~~e~L~~~E~~Lsdi~~~~~~a~~~-- 1268 (1758)
T KOG0994|consen 1197 GAYASRFLDMEEKLEEIRAILSAPSVSAEDIAQLASAT------ESLRRQLQALTEDLPQEEETLSDITNSLPLAGKD-- 1268 (1758)
T ss_pred hhhHhHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHH------HHHHHHHHHHHhhhhhhhhhhhhhhhccchhhhh--
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 030353 104 VSPIRKIADAKLAKDFQSVLKEFQKAQRLAAERETTYAPFV 144 (179)
Q Consensus 104 ~~~~~k~~~eKL~~dF~~aL~~FQ~~Qr~~aekek~~~~~a 144 (179)
.+-|.++|..+++.++.+-..+.....+.+.-|
T Consensus 1269 --------LesLq~~~~~l~~~~keL~e~~~~ik~sdi~GA 1301 (1758)
T KOG0994|consen 1269 --------LESLQREFNGLLTTYKELREQLEKIKESDILGA 1301 (1758)
T ss_pred --------HHHHHHHHHHHHHHHHHHHHHHHHhhccCchhH
No 81
>cd07636 BAR_GRAF The Bin/Amphiphysin/Rvs (BAR) domain of GTPase Regulator Associated with Focal adhesion kinase. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. GTPase Regulator Associated with Focal adhesion kinase (GRAF), also called Rho GTPase activating protein 26 (ARHGAP26), is a GAP with activity towards RhoA and Cdc42 and is only weakly active towards Rac1. It influences Rho-mediated cytoskeletal rearrangements and binds focal adhesion kinase (FAK), which is a critical component of integrin signaling. GRAF contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, a Rho GAP domain, and a C-terminal SH3 domain. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. The BAR domain of GRAF directly interacts with its Rho GAP domain and inhibits its activity. Autoinhibited GRAF is capable o
Probab=23.49 E-value=3.1e+02 Score=22.83 Aligned_cols=14 Identities=29% Similarity=0.318 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHH
Q 030353 121 SVLKEFQKAQRLAA 134 (179)
Q Consensus 121 ~aL~~FQ~~Qr~~a 134 (179)
.+|.+|-.+=+...
T Consensus 67 ~~L~kF~~~L~ei~ 80 (207)
T cd07636 67 RSLQEFAAVLRNLE 80 (207)
T ss_pred HHHHHHHHHHHHHH
Confidence 44444444444333
No 82
>cd00193 t_SNARE Soluble NSF (N-ethylmaleimide-sensitive fusion protein)-Attachment protein (SNAP) REceptor domain; these alpha-helical motifs form twisted and parallel heterotetrameric helix bundles; the core complex contains one helix from a protein that is anchored in the vesicle membrane (synaptobrevin), one helix from a protein of the target membrane (syntaxin), and two helices from another protein anchored in the target membrane (SNAP-25); their interaction forms a core which is composed of a polar zero layer, a flanking leucine-zipper layer acts as a water tight shield to isolate ionic interactions in the zero layer from the surrounding solvent
Probab=23.18 E-value=1.9e+02 Score=17.67 Aligned_cols=19 Identities=16% Similarity=0.406 Sum_probs=8.0
Q ss_pred HHHHHhhHHHHHHHHHhcC
Q 030353 44 IFQINTAVSSFYRLVNSLG 62 (179)
Q Consensus 44 If~In~nVs~L~klv~~LG 62 (179)
|..|...|..|..+...+|
T Consensus 8 l~~l~~~i~~l~~l~~~i~ 26 (60)
T cd00193 8 LEQLEASIGELKQIFLDLG 26 (60)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444433
No 83
>PRK05683 flgK flagellar hook-associated protein FlgK; Validated
Probab=22.94 E-value=7.2e+02 Score=24.32 Aligned_cols=54 Identities=13% Similarity=0.123 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHHHHHHHHHHH
Q 030353 70 LRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAKLAKDFQSVL 123 (179)
Q Consensus 70 LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eKL~~dF~~aL 123 (179)
+..+|......+|.+.+.+...=+++..............=+|++|.+++...+
T Consensus 157 vn~qI~~~V~~IN~l~~qIA~LN~qI~~~~~~G~~~NdLlDqRD~Ll~eLS~~v 210 (676)
T PRK05683 157 INSQLSAMTDQVNNLTTSIASYNKQIAQASASGATPNDLLDARDEAVRQLNELV 210 (676)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCchHhHHHHHHHHHHHHhhc
Confidence 455666666666666666655444444332110111224445666777766544
No 84
>PF00489 IL6: Interleukin-6/G-CSF/MGF family; InterPro: IPR003573 Interleukin-6 (IL6), also refered to as B-cell stimulatory factor-2 (BSF-2) and interferon beta-2, is a cytokine involved in a wide variety of biological functions []. It plays an essential role in the final differentiation of B-cells into IG-secreting cells, as well as inducing myeloma/plasmacytoma growth, nerve cell differentiation and, in hepatocytes, acute phase reactants [, ]. A number of other cytokines may be grouped with IL6 on the basis of sequence similarity [, , ]: these include granulocyte colony-stimulating factor (GCSF) and myelomonocytic growth factor (MGF). GCSF acts in hematopoiesis by affecting the production, differentiation and function of 2 related white cell groups in the blood []. MGF also acts in hematopoiesis, stimulating proliferation and colony formation of normal and transformed avian cells of the myeloid lineage. Cytokines of the IL6/GCSF/MGF family are glycoproteins of about 170 to 180 amino acid residues that contains four conserved cysteine residues involved in two disulphide bonds []. They have a compact, globular fold (similar to other interleukins), stabilised by the 2 disulphide bonds. One half of the structure is dominated by a 4 alpha-helix bundle with a left-handed twist []: the helices are anti-parallel, with 2 overhand connections, which fall into a 2-stranded anti-parallel beta-sheet. The fourth alpha-helix is important to the biological activity of the molecule []. It has been said [] that this family can be extended by the adjunction of LIF and OSM (see the relevant entry IPR001581 from INTERPRO) which seem to be structurally related.; GO: 0005125 cytokine activity, 0006955 immune response, 0005576 extracellular region; PDB: 1P9M_B 2IL6_A 1IL6_A 1ALU_A 3QWR_B 3DUH_C 3D85_C 3D87_C 1BGC_A 2L3Y_A ....
Probab=22.83 E-value=3.7e+02 Score=20.97 Aligned_cols=58 Identities=16% Similarity=0.279 Sum_probs=45.9
Q ss_pred HHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 030353 40 VAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQASEAD 99 (179)
Q Consensus 40 Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~ 99 (179)
-...+.+|..-+..++.+++-|...-.. .-+.+..++..|..|+..+...++.+....
T Consensus 52 ~e~CL~ri~~GL~~yq~lL~~l~~~~~~--~~~~v~~Lq~~~~~L~~~i~~~~~~~~~~~ 109 (154)
T PF00489_consen 52 KETCLSRIHSGLQEYQILLKYLQGEFPG--LKENVESLQLDTKDLAQTIKQKMKNPDEVT 109 (154)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTTSSTT--THHHHHHHHHHHHHHHHHHHHHHHHHSTTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCcc--chhHHHHHHHHHHHHHHHHHHHhhcccccc
Confidence 3678888888888899999888654433 237889999999999999999999865543
No 85
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=22.47 E-value=3.4e+02 Score=20.55 Aligned_cols=63 Identities=13% Similarity=0.236 Sum_probs=40.8
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030353 67 TLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAKLAKDFQSVLKEFQKAQRLAAERE 137 (179)
Q Consensus 67 t~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eKL~~dF~~aL~~FQ~~Qr~~aeke 137 (179)
.-++=++|..+.+.++.+.++++..=+.|.++. +++....+.-+||.+-... ..+-+..+.|+
T Consensus 3 KkeiFd~v~~le~~l~~l~~el~~lK~~l~~lv---EEN~~L~lENe~LR~RL~~-----~~~e~~~~~k~ 65 (114)
T COG4467 3 KKEIFDQVDNLEEQLGVLLAELGGLKQHLGSLV---EENTALRLENEKLRERLGE-----PTLEKTAVKKE 65 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HhhHHHHhhHHHHHHHhCC-----ccccchhhhcc
Confidence 345667788888888888888888777777775 3455566666666554433 33444455555
No 86
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=22.31 E-value=2.9e+02 Score=19.53 Aligned_cols=30 Identities=10% Similarity=0.088 Sum_probs=23.1
Q ss_pred chhHHHHHHHHHHHHHhhHHHHHHHHHhcC
Q 030353 33 SQDPSQAVAAAIFQINTAVSSFYRLVNSLG 62 (179)
Q Consensus 33 F~~L~~~Is~~If~In~nVs~L~klv~~LG 62 (179)
|....+.|..+|-.+.+.......+...-.
T Consensus 3 F~~v~~ev~~sl~~l~~~~~~~~~~~~~~~ 32 (97)
T PF09177_consen 3 FFVVKDEVQSSLDRLESLYRRWQRLRSDTS 32 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTHCC
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhcccCC
Confidence 677788899999999888887777655543
No 87
>PRK08471 flgK flagellar hook-associated protein FlgK; Validated
Probab=22.29 E-value=7.1e+02 Score=23.97 Aligned_cols=55 Identities=16% Similarity=0.119 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCC--CchhHHHHHHHHHHHHHHHHH
Q 030353 70 LRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTE--VSPIRKIADAKLAKDFQSVLK 124 (179)
Q Consensus 70 LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~--~~~~~k~~~eKL~~dF~~aL~ 124 (179)
+..+|.....++|.+.+++.+.=+++........ ......=+|+.|.+++...+.
T Consensus 162 ~~~~i~~~V~~iN~ll~~Ia~LN~qI~~~~~~g~~~~~ndL~DqRD~ll~eLS~~v~ 218 (613)
T PRK08471 162 VNEELKVTVDEINSLGKQIAEINKQIKEVEAGKTLKHANELRDKRDELELTLSKLVG 218 (613)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCchhhHHHHHHHHHHHHhhcC
Confidence 4566777777777777766666555554322100 112344456668877766554
No 88
>PRK07191 flgK flagellar hook-associated protein FlgK; Validated
Probab=21.76 E-value=3e+02 Score=25.21 Aligned_cols=49 Identities=20% Similarity=0.202 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHhc----CCCCCcHHHHHHHHHHHHHHHHHH
Q 030353 37 SQAVAAAIFQINTAVSSFYRLVNSL----GTPKDTLDLRDKLHKTRLHIGQLV 85 (179)
Q Consensus 37 ~~~Is~~If~In~nVs~L~klv~~L----GT~kDt~~LR~kl~~~~~~t~~L~ 85 (179)
-..|...|-+||+.+.+|..+-.+| +...+..+|+++=..+..+..+++
T Consensus 158 ~~~i~~~V~~iN~ll~~Ia~LN~~I~~~~~~g~~~ndL~DqRD~ll~eLS~~v 210 (456)
T PRK07191 158 GQQRDATVKQINSLTRSIADYNQKILKNRSDGNNISDLLDQRDLQIKKLSGLI 210 (456)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHhhc
Confidence 3444566666666655555544444 112234456666555555555544
No 89
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=21.54 E-value=2.9e+02 Score=19.80 Aligned_cols=55 Identities=13% Similarity=0.155 Sum_probs=33.1
Q ss_pred CCcch-hHHHHHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030353 30 QSQSQ-DPSQAVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLK 93 (179)
Q Consensus 30 ~~eF~-~L~~~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk 93 (179)
..+|. .-...|-+.|-.||+-+-.|++ + +..|..+|+.+.+..++.-++..+...
T Consensus 20 ~~e~~~~E~~~ins~LD~Lns~LD~LE~-------r--nD~l~~~L~~LLesnrq~R~e~~~~~~ 75 (83)
T PF03670_consen 20 DDEFDEEEYAAINSMLDQLNSCLDHLEQ-------R--NDHLHAQLQELLESNRQIRLEFQEQLS 75 (83)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHHHH-------h--hhHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 44554 2234555555555555555544 3 335889999999888777766655543
No 90
>PF07820 TraC: TraC-like protein; InterPro: IPR012930 The members of this family are sequences that are similar to TraC (Q84HT8 from SWISSPROT) from Rhizobium etli. The gene encoding this protein is one of a group of genes found on plasmid p42a of Rhizobium etli (strain CFN 42/ATCC 51251) that are thought to be involved in the process of plasmid self-transmission. Mobilisation of plasmid p42a is of importance as it is required for transfer of plasmid p42d, the symbiotic plasmid which carries most of the genes required for nodulation and nitrogen fixation by this symbiotic bacterium. The predicted protein products of p42a are similar to known transfer proteins of Agrobacterium tumefaciens plasmid pTiC58 []. ; GO: 0000746 conjugation
Probab=21.53 E-value=3.3e+02 Score=19.90 Aligned_cols=64 Identities=16% Similarity=0.284 Sum_probs=46.6
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030353 67 TLDLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAKLAKDFQSVLKEFQKAQRLAA 134 (179)
Q Consensus 67 t~~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eKL~~dF~~aL~~FQ~~Qr~~a 134 (179)
..+++..|..++++...+.+.-++.|-++..-.. -...-+.-+-|...|..+..+|+.-.+...
T Consensus 4 ~s~I~~eIekLqe~lk~~e~keaERigr~AlKaG----L~eieI~d~eL~~~FeeIa~RFrk~~~~~~ 67 (92)
T PF07820_consen 4 SSKIREEIEKLQEQLKQAETKEAERIGRIALKAG----LGEIEISDAELQAAFEEIAARFRKGKKKQN 67 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc----cccccCCHHHHHHHHHHHHHHHhccccccC
Confidence 4578999999999999999988888888765321 111233456688899999999987665533
No 91
>PF09712 PHA_synth_III_E: Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
Probab=21.29 E-value=1.8e+02 Score=25.32 Aligned_cols=17 Identities=12% Similarity=-0.064 Sum_probs=7.9
Q ss_pred cchhHHHHHHHHHHHHH
Q 030353 32 QSQDPSQAVAAAIFQIN 48 (179)
Q Consensus 32 eF~~L~~~Is~~If~In 48 (179)
+|.++.-.+.+..|.-.
T Consensus 215 e~~d~Wi~~ae~~~~~~ 231 (293)
T PF09712_consen 215 EFYDIWIDAAEEAYEEL 231 (293)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 44444444444444433
No 92
>PF11430 EGL-1: Programmed cell death activator EGL-1; InterPro: IPR021543 Initiation of programmed cell death in C.elegans occurs by the binding of EGL-1 to CED-9 which disrupts a complex involving CED-4/CED-9 and allows CED-4 to activate CED-3, a caspase. It is the C-terminal domain of EGL-1 which is involved in the formation of the complex with CED-9. The formation of the complex induces structural rearrangements in CED-9 and EGL-1 adopts an extended alpha-helical conformation []. ; PDB: 1TY4_D.
Probab=21.25 E-value=59 Score=17.40 Aligned_cols=15 Identities=33% Similarity=0.505 Sum_probs=12.1
Q ss_pred hhhhhhhhhhhhhhh
Q 030353 155 LIHWNLAKKCDKYTH 169 (179)
Q Consensus 155 ~~~~~~~~~~~~~~~ 169 (179)
.|+.-||+-||.|.-
T Consensus 2 ~IG~kla~MCDdFD~ 16 (21)
T PF11430_consen 2 EIGTKLAAMCDDFDA 16 (21)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHH
Confidence 478889999998853
No 93
>cd07671 F-BAR_PSTPIP1 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Proline-Serine-Threonine Phosphatase-Interacting Protein 1. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Proline-Serine-Threonine Phosphatase-Interacting Protein 1 (PSTPIP1), also known as CD2 Binding Protein 1 (CD2BP1), is mainly expressed in hematopoietic cells. It is a binding partner of the cell surface receptor CD2 and PTP-PEST, a tyrosine phosphatase which functions in cell motility and Rac1 regulation. It also plays a role in the activation of the Wiskott-Aldrich syndrome protein (WASP), which couples actin rearrangement and T cell activation. Mutations in the gene encoding PSTPIP1 cause the autoinflammatory disorder known as PAPA (pyogenic sterile arthritis, pyoderma gangrenosum, and acne) syndrome. PSTPIP1 contains an N-terminal F-BAR domain, PEST motifs, and a C-terminal SH3 domain. F-BAR
Probab=20.84 E-value=5.1e+02 Score=21.75 Aligned_cols=35 Identities=17% Similarity=0.238 Sum_probs=15.1
Q ss_pred CCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030353 62 GTPKDTLDLRDKLHKTRLHIGQLVKDTSSKLKQAS 96 (179)
Q Consensus 62 GT~kDt~~LR~kl~~~~~~t~~L~K~t~~~lk~L~ 96 (179)
+|+++-..++.++....+.+..--.+....|+.|.
T Consensus 150 ~t~keleK~~~K~~k~~~~~~~a~~~Y~~~v~~l~ 184 (242)
T cd07671 150 GNPKQSEKSQNKAKQCRDAATEAERVYKQNIEQLD 184 (242)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444333344444444443
No 94
>PRK07191 flgK flagellar hook-associated protein FlgK; Validated
Probab=20.76 E-value=6.6e+02 Score=23.01 Aligned_cols=54 Identities=7% Similarity=0.003 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHHHHHHHHHHH
Q 030353 70 LRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAKLAKDFQSVL 123 (179)
Q Consensus 70 LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eKL~~dF~~aL 123 (179)
+...|......+|.+.+++...=+++..............=+|++|.++....+
T Consensus 157 ~~~~i~~~V~~iN~ll~~Ia~LN~~I~~~~~~g~~~ndL~DqRD~ll~eLS~~v 210 (456)
T PRK07191 157 IGQQRDATVKQINSLTRSIADYNQKILKNRSDGNNISDLLDQRDLQIKKLSGLI 210 (456)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHhhc
Confidence 345555666666666655554444443322110111223444666777766544
No 95
>PRK11352 regulator protein FrmR; Provisional
Probab=20.49 E-value=3.3e+02 Score=19.51 Aligned_cols=49 Identities=10% Similarity=0.180 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHH
Q 030353 36 PSQAVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLVKD 87 (179)
Q Consensus 36 L~~~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~K~ 87 (179)
-...+-.-|-+|.++|..+++++.. .+++.++-.+|.....-++.+...
T Consensus 7 ~k~~ll~RL~Ri~GQv~gi~~Mie~---~~~C~dil~Ql~Avr~Al~~~~~~ 55 (91)
T PRK11352 7 EKKKVLTRVRRIRGQIDALERSLEG---DAECRAILQQIAAVRGAANGLMAE 55 (91)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHHHHH
Confidence 3567888899999999999998874 679999998888887777665544
No 96
>cd07602 BAR_RhoGAP_OPHN1-like The Bin/Amphiphysin/Rvs (BAR) domain of Oligophrenin1-like Rho GTPase Activating Proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of Rho and Rac GTPase activating proteins (GAPs) with similarity to oligophrenin1 (OPHN1). Members contain an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, and a Rho GAP domain. Some members contain a C-terminal SH3 domain. Vertebrates harbor at least three Rho GAPs in this subfamily including OPHN1, GTPase Regulator Associated with Focal adhesion kinase (GRAF), GRAF2, and an uncharacterized protein called GAP10-like. OPHN1, GRAF and GRAF2 show GAP activity towards RhoA and Cdc42. In addition, OPHN1 is active towards Rac. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. The BAR domains of OPHN1
Probab=20.48 E-value=3.8e+02 Score=22.25 Aligned_cols=15 Identities=27% Similarity=0.390 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHH
Q 030353 121 SVLKEFQKAQRLAAE 135 (179)
Q Consensus 121 ~aL~~FQ~~Qr~~ae 135 (179)
.+|++|-.+=....+
T Consensus 67 ~~L~kF~~~l~ei~~ 81 (207)
T cd07602 67 ESLKEFGRLIETVED 81 (207)
T ss_pred HHHHHHHHHHHHHHH
Confidence 555555554444433
No 97
>COG1256 FlgK Flagellar hook-associated protein [Cell motility and secretion]
Probab=20.42 E-value=7.6e+02 Score=23.59 Aligned_cols=50 Identities=12% Similarity=0.062 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchhHHHHHHHHHHHHHH
Q 030353 72 DKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPIRKIADAKLAKDFQS 121 (179)
Q Consensus 72 ~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~~k~~~eKL~~dF~~ 121 (179)
..|.....++|.|++++...=+++......-.......=+|++|+.++..
T Consensus 163 ~~I~~~V~~vNsLl~qIa~lN~qI~~~~~~g~~~NdLlDqRD~Lv~eLs~ 212 (552)
T COG1256 163 AEIAATVDEVNSLLKQIADLNKQIRKVKAAGNDPNDLLDQRDQLVDELSQ 212 (552)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCchhHHHHHHHHHHHHHh
Confidence 34455555555555544444333333211001111233346666666554
No 98
>KOG3251 consensus Golgi SNAP receptor complex member [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.42 E-value=5.2e+02 Score=21.73 Aligned_cols=52 Identities=12% Similarity=0.072 Sum_probs=36.3
Q ss_pred chhHHHHHHHHHHHHHhhHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHH
Q 030353 33 SQDPSQAVAAAIFQINTAVSSFYRLVNSLGTPKDTLDLRDKLHKTRLHIGQLV 85 (179)
Q Consensus 33 F~~L~~~Is~~If~In~nVs~L~klv~~LGT~kDt~~LR~kl~~~~~~t~~L~ 85 (179)
-..+++.|...|-++..++..|+.+++..+-+.-- ..|-++.++..+...|-
T Consensus 31 ~~~v~~~i~~sI~~~~s~~~rl~~~~~~epp~~rq-~~rlr~dQl~~d~~~l~ 82 (213)
T KOG3251|consen 31 VSAVENSIQRSIDQYASRCQRLDVLVSKEPPKSRQ-AARLRVDQLLEDVEHLQ 82 (213)
T ss_pred hHHHHHHHHHhHHHHHHHHHHHHhHhhcCCCCcHH-HHHHHHHHHHHHHHHHH
Confidence 45789999999999999999999999998744332 22222555555444433
No 99
>PHA02892 hypothetical protein; Provisional
Probab=20.41 E-value=1.4e+02 Score=20.94 Aligned_cols=30 Identities=10% Similarity=0.069 Sum_probs=26.1
Q ss_pred CCcchhHHHHHHHHHHHHHhhHHHHHHHHH
Q 030353 30 QSQSQDPSQAVAAAIFQINTAVSSFYRLVN 59 (179)
Q Consensus 30 ~~eF~~L~~~Is~~If~In~nVs~L~klv~ 59 (179)
++||......|..-|-.||..|=.|.|--+
T Consensus 28 D~efsATls~vkElIs~IN~Kvl~INKKsK 57 (75)
T PHA02892 28 DPEFSASISLMQEIIKIINSKIIEIDKKYK 57 (75)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHhhhhhhh
Confidence 789999999999999999999988887544
No 100
>PF05816 TelA: Toxic anion resistance protein (TelA); InterPro: IPR008863 This family consists of several prokaryotic TelA like proteins. TelA and KlA are associated with tellurite resistance [] and plasmid fertility inhibition [].
Probab=20.31 E-value=5.9e+02 Score=22.28 Aligned_cols=73 Identities=15% Similarity=0.131 Sum_probs=40.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCchh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 030353 69 DLRDKLHKTRLHIGQLVKDTSSKLKQASEADHHTEVSPI-RKIADAKLAKDFQSVLKEFQKAQRLAAERETTYA 141 (179)
Q Consensus 69 ~LR~kl~~~~~~t~~L~K~t~~~lk~L~~~~~~~~~~~~-~k~~~eKL~~dF~~aL~~FQ~~Qr~~aekek~~~ 141 (179)
..-+.+..+...|++|++.+++.|++-..-.......+. -.=+.++-..+.-+++.+-..++++..++.++..
T Consensus 242 ~a~~~~~av~~tTnell~~nAe~lk~~~~~iak~~~~~~vdiEtL~~~~~~li~ti~e~~~i~~e~~~~r~~~~ 315 (333)
T PF05816_consen 242 KALDAQQAVNDTTNELLRRNAEMLKQNSVEIAKEAERPVVDIETLKKAFQNLIETIEETDQIQEEGREKRAQAE 315 (333)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445677777888888877777764432110000110 1112345566666777777777777777765544
Done!