Psyllid ID: psy9603

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150
Protein Sequence
MIKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVDKRGYGVDKRGYGVNKRGYRVIKDYMGSLAQNYG
Secondary Structure (PSIPRED)
cccccccHHHHcccccccHHHHHHHHHHHHHHcHHHHHHHHHHHHHcccHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHcHHHHHHcHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mikedmgsIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKediggygvdkrgygvdkrgygvdkrgygvdksgygvdksgygvdkrgygvdkrgygvdkrgygvdkrgygvnkrGYRVIKDYMGSLAQNYG
Flexible Loop (DISEMBL)
mikedmgsikedmaSIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASikediggygvdkrgygvdkrgygvdkrgygvdksgygvdksgygvdkrgygvdkrgygvdkrgygvdkrgygvnkrgyrvIKDYMGSLAQNYG
Low Complexity Region (SEG)
MIKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVDKRGYGVDKRGYGVNKRGYRVIKDYMGSLAQNYG
Disordered region (IsUnstruct)
***********************************************************EDIGGYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVDKRGYGVDKRGYGVNKRGYRVIKDYMG*******
Disordered Region (DISOPRED)
******************************************************************************************************************************************************
Disordered Region (DISEMBL)
MIKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVDKRGYGVDKRGYGVNKRGYRVIKDYMGSLAQNYG
Disordered Region (DISPRO)
MIKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVDKRGYGVDKRGYGVNKRGYRVIKDYM*S******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MIKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVDKRGYGVDKRGYGVNKRGYRVIKDYMGSLAQNYG
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	150	2.2.26 [Sep-21-2011]
Q9NL82	266	Orcokinin peptides type B	N/A	N/A	0.813	0.458	0.304	4e-10
Q9NL83	251	Orcokinin peptides type A	N/A	N/A	0.813	0.486	0.304	4e-10
P0CA12	1102	Putative helicase/primase	yes	N/A	0.393	0.053	0.474	1e-07
P52272	730	Heterogeneous nuclear rib	no	N/A	0.706	0.145	0.300	7e-07
Q6ICG8	309	Postacrosomal sheath WW d	yes	N/A	0.46	0.223	0.362	7e-07
Q9D529	359	Postacrosomal sheath WW d	yes	N/A	0.206	0.086	0.421	2e-06
Q62826	690	Heterogeneous nuclear rib	no	N/A	0.7	0.152	0.280	6e-06
Q9D0E1	729	Heterogeneous nuclear rib	no	N/A	0.6	0.123	0.294	2e-05
Q9Y7S2	375	UPF0612 protein C569.003	yes	N/A	0.36	0.144	0.448	0.0001

>sp|Q9NL82|ORCKB_PROCL Orcokinin peptides type B OS=Procambarus clarkii PE=1 SV=1

 Score = 63.9 bits (154), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 42/138 (30%), Positives = 74/138 (53%), Gaps = 16/138 (11%)

Query: 11  EDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSI-KDDMGSIKEDMASIKEDIGGYGVDK 69
           +D AS   D   +K    +     G  K +   I +   G  K++   I  D  G+G +K
Sbjct: 34  QDDASFPPDGAPVKR-FDAFTTGFGHSKRNFDEIDRSGFGFAKKNFDEI--DRSGFGFNK 90

Query: 70  RGYG-VDKRGYGVDKRGYG-VDKSGYG--------VDKSGYGVDKRGYG-VDKRGYGVDK 118
           R +  +D+ G+G +KR +  +D+SG+G        +D+SG+G +KR +  +D+ G+G +K
Sbjct: 91  RNFDEIDRSGFGFNKRNFDEIDRSGFGFNKRNFDEIDRSGFGFNKRNFDEIDRSGFGFNK 150

Query: 119 RGYG-VDKRGYGVNKRGY 135
           R +  +D+ G+G NKR +
Sbjct: 151 RNFDEIDRSGFGFNKRNF 168

Myotropic peptides that enhance both the frequency and amplitude of spontaneous hindgut contractions.
Procambarus clarkii (taxid: 6728)

>sp|Q9NL83|ORCKA_PROCL Orcokinin peptides type A OS=Procambarus clarkii PE=1 SV=1

 Score = 63.9 bits (154), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 42/138 (30%), Positives = 74/138 (53%), Gaps = 16/138 (11%)

Query: 11  EDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSI-KDDMGSIKEDMASIKEDIGGYGVDK 69
           +D AS   D   +K    +     G  K +   I +   G  K++   I  D  G+G +K
Sbjct: 34  QDDASFPPDGAPVKR-FDAFTTGFGHSKRNFDEIDRSGFGFAKKNFDEI--DRSGFGFNK 90

Query: 70  RGYG-VDKRGYGVDKRGYG-VDKSGYG--------VDKSGYGVDKRGYG-VDKRGYGVDK 118
           R +  +D+ G+G +KR +  +D+SG+G        +D+SG+G +KR +  +D+ G+G +K
Sbjct: 91  RNFDEIDRSGFGFNKRNFDEIDRSGFGFNKRNFDEIDRSGFGFNKRNFDEIDRSGFGFNK 150

Query: 119 RGYG-VDKRGYGVNKRGY 135
           R +  +D+ G+G NKR +
Sbjct: 151 RNFDEIDRSGFGFNKRNF 168

Myotropic peptides that enhance both the frequency and amplitude of spontaneous hindgut contractions.

Procambarus clarkii (taxid: 6728)

>sp|P0CA12|PRIM_ASFM2 Putative helicase/primase complex protein OS=African swine fever virus (isolate Tick/Malawi/Lil 20-1/1983) GN=Mal-055 PE=3 SV=1

 Score = 55.8 bits (133), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 28/59 (47%), Positives = 42/59 (71%)

Query: 3    KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED 61
            KE+  S KE+  S KE+  SIKE+++ IK +  SIKE++  IK++  SIKE+ +SIKE+
Sbjct: 1039 KEETYSTKEETYSTKEETCSIKEEISPIKEETCSIKEEISPIKEETCSIKEETSSIKEE 1097

May be involved in DNA replication.

Sus scrofa (taxid: 9823)

>sp|P52272|HNRPM_HUMAN Heterogeneous nuclear ribonucleoprotein M OS=Homo sapiens GN=HNRNPM PE=1 SV=3

 Score = 52.8 bits (125), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 34/113 (30%), Positives = 63/113 (55%), Gaps = 7/113 (6%)

Query: 35  GSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDKRGYGVDKRGYGVDKRGYGVDKSGYG 94
           GS  E MG + D MGS+ E M S  E +G  G+D     +++ G  +++ G GV++ G G
Sbjct: 431 GSEIERMGLVMDRMGSV-ERMGSGIERMGPLGLDHMASSIERMGQTMERIGSGVERMGAG 489

Query: 95  VDKSGYGVDKRGYGVDKRGYGVDKRGYGVDKRGYGVNKRGY---RVIKDYMGS 144
           +   G+G+++    +D+ G  +++ G GV++ G  + + G    R++   MG+
Sbjct: 490 M---GFGLERMAAPIDRVGQTIERMGSGVERMGPAIERMGLSMERMVPAGMGA 539

Pre-mRNA binding protein in vivo, binds avidly to poly(G) and poly(U) RNA homopolymers in vitro. Involved in splicing. Acts as a receptor for carcinoembryonic antigen in Kupffer cells, may initiate a series of signaling events leading to tyrosine phosphorylation of proteins and induction of IL-1 alpha, IL-6, IL-10 and tumor necrosis factor alpha cytokines.

Homo sapiens (taxid: 9606)

>sp|Q6ICG8|WBP2L_HUMAN Postacrosomal sheath WW domain-binding protein OS=Homo sapiens GN=WBP2NL PE=2 SV=1

 Score = 52.8 bits (125), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 25/69 (36%), Positives = 26/69 (37%)

Query: 65  YGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVDKRGYGVD 124
           YG    GYG    GYG    GYG    GYG    GYG    GYG    G      GY   
Sbjct: 217 YGAPPLGYGAPPAGYGAPPLGYGAPPLGYGTPPLGYGAPPLGYGAPPAGNEGPPAGYRAS 276

Query: 125 KRGYGVNKR 133
             G G   +
Sbjct: 277 PAGSGARPQ 285

May play a role in meotic resumption and pronuclear formation, mediated by a WW domain-signaling pathway during fertilization.

Homo sapiens (taxid: 9606)

>sp|Q9D529|WBP2L_MOUSE Postacrosomal sheath WW domain-binding protein OS=Mus musculus GN=Wbp2nl PE=2 SV=1

 Score = 51.2 bits (121), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/57 (42%), Positives = 27/57 (47%)

Query: 71  GYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVDKRGYGVDKRG 127
            YG    GYG    GYGV  +GYG   +GYG    GY     GY V   GYG  + G
Sbjct: 172 AYGAPPAGYGASPVGYGVPSAGYGAPPAGYGAPPVGYVAPSPGYDVLPPGYGAVRYG 228

May play a role in meotic resumption and pronuclear formation, mediated by a WW domain-signaling pathway during fertilization.

Mus musculus (taxid: 10090)

>sp|Q62826|HNRPM_RAT Heterogeneous nuclear ribonucleoprotein M OS=Rattus norvegicus GN=Hnrnpm PE=1 SV=4

 Score = 49.7 bits (117), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 32/114 (28%), Positives = 63/114 (55%), Gaps = 9/114 (7%)

Query: 35  GSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDKRGYGVDKRGYGVDKRGYGVDKSG-- 92
           GS  E MG + D MGS+ E M S  E +G  G+D     +++ G  +++ G GV++ G  
Sbjct: 391 GSEIERMGLVMDRMGSV-ERMGSGIERMGPLGLDHMASSIERMGQTMERIGSGVERMGAG 449

Query: 93  --YGVDKSGYGVDKRGYGVDKRGYGVDKRGYGVDKRGYGVNKRGYRVIKDYMGS 144
             +G+++    +D+ G  +++ G GV++ G  +++ G  ++    R++   MG+
Sbjct: 450 MGFGLERMAAPIDRVGQTIERMGSGVERMGPAIERMGLSMD----RMVPTGMGA 499

Pre-mRNA binding protein, binds avidly to poly(G) and poly(U) RNA homopolymers. Involved in splicing. Acts as a receptor for carcinoembryonic antigen in Kupffer cells, may initiate a series of signaling events leading to tyrosine phosphorylation of proteins and induction of IL-1 alpha, IL-6, IL-10 and tumor necrosis factor alpha cytokines.

Rattus norvegicus (taxid: 10116)

>sp|Q9D0E1|HNRPM_MOUSE Heterogeneous nuclear ribonucleoprotein M OS=Mus musculus GN=Hnrnpm PE=1 SV=3

 Score = 48.1 bits (113), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 30/102 (29%), Positives = 54/102 (52%), Gaps = 12/102 (11%)

Query: 35  GSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDKRGYGVDKRGYGVDKRGYGVDKSGYG 94
           GS  E MG + D MGS+ E M S  E +G  G+D     +++ G  +++ G GV++ G G
Sbjct: 430 GSEIERMGLVMDRMGSV-ERMGSSIERMGPLGLDHMASSIERMGQTMERIGSGVERMGAG 488

Query: 95  -----------VDKSGYGVDKRGYGVDKRGYGVDKRGYGVDK 125
                      +D+ G  +++ G GV++ G  +++ G  +D+
Sbjct: 489 MGFGLERMAAPIDRVGQTIERMGSGVERMGPAIERMGLSMDR 530

Pre-mRNA binding protein in vivo, binds avidly to poly(G) and poly(U) RNA homopolymers in vitro. Involved in splicing. Acts as a receptor for carcinoembryonic antigen in Kupffer cells, may initiate a series of signaling events leading to tyrosine phosphorylation of proteins and induction of IL-1 alpha, IL-6, IL-10 and tumor necrosis factor alpha cytokines.

Mus musculus (taxid: 10090)

>sp|Q9Y7S2|YQO3_SCHPO UPF0612 protein C569.003 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPCC569.03 PE=3 SV=2

 Score = 45.4 bits (106), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 26/58 (44%), Positives = 41/58 (70%)

Query: 2   IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK 59
           +K D+ SIK +MA +K +M  +K D+ASIK +M  +K +M  +K+D+ SIK +MA +K
Sbjct: 157 MKNDIASIKGEMAEMKGEMAVMKNDIASIKGEMAEMKGEMTVMKNDIASIKGEMAEMK 214

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	150
118355514	2757	conserved hypothetical protein [Tetrahym	0.913	0.049	0.366	1e-12
147799567	782	hypothetical protein VITISV_040413 [Viti	0.506	0.097	0.473	1e-11
302693346	531	hypothetical protein SCHCODRAFT_106320 [	0.406	0.114	0.444	2e-10
160932467	152	hypothetical protein CLOLEP_01305 [Clost	0.653	0.644	0.320	3e-10
147820318	1066	hypothetical protein VITISV_042921 [Viti	0.506	0.071	0.434	4e-10
156360707	179	predicted protein [Nematostella vectensi	0.566	0.474	0.367	5e-10
156392530	420	predicted protein [Nematostella vectensi	0.98	0.35	0.315	6e-10
156343049	172	hypothetical protein NEMVEDRAFT_v1g3588	0.573	0.5	0.386	8e-10
147765294	934	hypothetical protein VITISV_003778 [Viti	0.513	0.082	0.441	2e-09
449668631	165	PREDICTED: coiled-coil domain-containing	0.753	0.684	0.141	3e-09

>gi|118355514|ref|XP_001011016.1| conserved hypothetical protein [Tetrahymena thermophila] gi|89292783|gb|EAR90771.1| conserved hypothetical protein [Tetrahymena thermophila SB210]

 Score = 77.8 bits (190), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 51/139 (36%), Positives = 72/139 (51%), Gaps = 2/139 (1%)

Query: 2    IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED 61
            I +D   I +D   I +D   I +D   I  D   I +D   I  D   I +D   I +D
Sbjct: 1850 IDKDGNKIDKDGNKIDKDGNKIDKDGNRIDKDGNKIDKDGNRIDKDGNRIDKDGNRIDKD 1909

Query: 62   IGGYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVDKRGY 121
              G  +DK G+ +DK G  +DK G  +DK G  +DK+G  +DK G  +DK G  +DK G 
Sbjct: 1910 --GNRIDKDGHRIDKDGNRIDKDGNRIDKDGNKIDKNGNRIDKDGNRIDKDGNIIDKDGN 1967

Query: 122  GVDKRGYGVNKRGYRVIKD 140
             +DK G  ++K G R+ KD
Sbjct: 1968 RIDKDGNRIDKDGNRIDKD 1986

Source: Tetrahymena thermophila

Species: Tetrahymena thermophila

Genus: Tetrahymena

Family: Tetrahymenidae

Order: Hymenostomatida

Class: Oligohymenophorea

Superkingdom: Eukaryota

>gi|147799567|emb|CAN68463.1| hypothetical protein VITISV_040413 [Vitis vinifera]

 Score = 75.1 bits (183), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 36/76 (47%), Positives = 50/76 (65%)

Query: 64  GYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVDKRGYGV 123
           GY + KRGY + K GY + KR Y + K+GY + K+GY + K GY + K GY + K GY +
Sbjct: 32  GYEISKRGYELSKSGYELSKRWYELSKTGYELSKTGYELSKTGYELAKSGYELSKSGYEL 91

Query: 124 DKRGYGVNKRGYRVIK 139
            KRGY ++KRGY + K
Sbjct: 92  SKRGYELSKRGYELSK 107

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302693346|ref|XP_003036352.1| hypothetical protein SCHCODRAFT_106320 [Schizophyllum commune H4-8] gi|300110048|gb|EFJ01450.1| hypothetical protein SCHCODRAFT_106320, partial [Schizophyllum commune H4-8]

 Score = 70.5 bits (171), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 28/63 (44%), Positives = 47/63 (74%)

Query: 2   IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED 61
           ++ED GS++ED   ++ED   ++ED  S++ D GS++ED GS+++D GS++ED  S++ED
Sbjct: 350 LREDAGSLREDAGGLREDAGGLREDAGSLREDAGSLREDAGSLREDAGSLREDAGSLRED 409

Query: 62  IGG 64
            GG
Sbjct: 410 AGG 412

Source: Schizophyllum commune H4-8

Species: Schizophyllum commune

Genus: Schizophyllum

Family: Schizophyllaceae

Order: Agaricales

Class: Agaricomycetes

Phylum: Basidiomycota

Superkingdom: Eukaryota

>gi|160932467|ref|ZP_02079857.1| hypothetical protein CLOLEP_01305 [Clostridium leptum DSM 753] gi|156868426|gb|EDO61798.1| hypothetical protein CLOLEP_01305 [Clostridium leptum DSM 753]

 Score = 70.1 bits (170), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 33/103 (32%), Positives = 57/103 (55%)

Query: 1   MIKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE 60
           ++KE++  +KED++S+KED  ++K D+A++K D+  +KED  ++K D+ ++K D++S+KE
Sbjct: 13  IMKEELEPVKEDISSLKEDTAALKTDVAALKTDVSGLKEDTAALKTDVATLKTDVSSLKE 72

Query: 61  DIGGYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVD 103
           D      D      D  G   D      D +    D S    D
Sbjct: 73  DTAALKTDVATLKTDVSGLKEDTAALKTDVAILKTDVSSLKED 115

Source: Clostridium leptum DSM 753

Species: Clostridium leptum

Genus: Clostridium

Family: Clostridiaceae

Order: Clostridiales

Class: Clostridia

Phylum: Firmicutes

Superkingdom: Bacteria

>gi|147820318|emb|CAN78089.1| hypothetical protein VITISV_042921 [Vitis vinifera]

 Score = 69.7 bits (169), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 33/76 (43%), Positives = 49/76 (64%)

Query: 64  GYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVDKRGYGV 123
           G+ + KR Y + KRGY + K+GY + K+GY + K+GY + K GY + K GY + K  Y +
Sbjct: 106 GFELSKRWYELSKRGYELSKKGYELSKTGYKLSKTGYELSKTGYELCKIGYELSKGWYEL 165

Query: 124 DKRGYGVNKRGYRVIK 139
            K GY ++KRGY + K
Sbjct: 166 SKSGYELSKRGYELFK 181

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|156360707|ref|XP_001625167.1| predicted protein [Nematostella vectensis] gi|156211986|gb|EDO33067.1| predicted protein [Nematostella vectensis]

 Score = 69.3 bits (168), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 32/87 (36%), Positives = 46/87 (52%)

Query: 64  GYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVDKRGYGV 123
            YG+  R YG+  R YG+  R YG+    YG+    YG+  R YG+  R YG+  R YG+
Sbjct: 13  AYGIMTRAYGMMTRAYGMMTRAYGMMTRAYGMMTRAYGMMTRAYGIMTRAYGMMTRAYGM 72

Query: 124 DKRGYGVNKRGYRVIKDYMGSLAQNYG 150
             R YG+  R Y ++    G + + YG
Sbjct: 73  MTRAYGIMTRAYVMMTRAYGMMTRAYG 99

Source: Nematostella vectensis

Species: Nematostella vectensis

Genus: Nematostella

Family: Edwardsiidae

Order: Actiniaria

Class: Anthozoa

Phylum: Cnidaria

Superkingdom: Eukaryota

>gi|156392530|ref|XP_001636101.1| predicted protein [Nematostella vectensis] gi|156223201|gb|EDO44038.1| predicted protein [Nematostella vectensis]

 Score = 69.3 bits (168), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 47/149 (31%), Positives = 59/149 (39%), Gaps = 2/149 (1%)

Query: 2   IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED 61
           +  D  S+  D  S+  D  S+  D  S+  D  S+  D   +  D   +  D  S+  D
Sbjct: 176 VTTDKWSVTTDKWSVTTDKWSVTTDKWSVTTDKWSVTTDKWGVTTDKWGVITDKWSVTTD 235

Query: 62  IGGYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVDKRGY 121
                 DK G   DK G   DK G   DK G   DK G   DK G   DK G   DK G 
Sbjct: 236 KWRMTTDKWGVTTDKWGVTTDKWGVTTDKWGVTTDKWGVTTDKWGVTTDKWGTTTDKWGV 295

Query: 122 GVDKRGYGVNKRGYRVIKDYMGSLAQNYG 150
             DK G   +K G     D  G+    +G
Sbjct: 296 TTDKWGATTDKWG--ATTDKWGATTDKWG 322

Source: Nematostella vectensis

Species: Nematostella vectensis

Genus: Nematostella

Family: Edwardsiidae

Order: Actiniaria

Class: Anthozoa

Phylum: Cnidaria

Superkingdom: Eukaryota

>gi|156343049|ref|XP_001621022.1| hypothetical protein NEMVEDRAFT_v1g3588 [Nematostella vectensis] gi|156206583|gb|EDO28922.1| predicted protein [Nematostella vectensis]

 Score = 68.6 bits (166), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 34/88 (38%), Positives = 49/88 (55%), Gaps = 2/88 (2%)

Query: 64  GYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVDKRGYGV 123
            YG+  R YG+  R YG+  R YG+    YG+    YG+  R YG+  R YG+  R YG+
Sbjct: 83  AYGMMTRAYGIMIRAYGMMTRAYGMMTRAYGIMTRAYGMMTRAYGMMTRAYGMMTRAYGM 142

Query: 124 DKRGYGVNKRGY-RVIKDYMGSLAQNYG 150
             R YG+  R Y ++I+ Y G + + YG
Sbjct: 143 MTRAYGIMTRAYGKMIRAY-GMMTRAYG 169

Source: Nematostella vectensis

Species: Nematostella vectensis

Genus: Nematostella

Family: Edwardsiidae

Order: Actiniaria

Class: Anthozoa

Phylum: Cnidaria

Superkingdom: Eukaryota

>gi|147765294|emb|CAN77889.1| hypothetical protein VITISV_003778 [Vitis vinifera]

 Score = 67.4 bits (163), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 34/77 (44%), Positives = 46/77 (59%)

Query: 63  GGYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVDKRGYG 122
           G YG+ K GYG+ K GY + K GY + K GY + K GY + K GY + K GY + K GY 
Sbjct: 58  GEYGLSKGGYGLSKGGYELSKGGYALSKGGYELSKGGYELSKGGYELSKGGYQLSKGGYE 117

Query: 123 VDKRGYGVNKRGYRVIK 139
           + K GY ++K  Y + K
Sbjct: 118 LSKGGYXLSKGXYEJSK 134

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449668631|ref|XP_004206834.1| PREDICTED: coiled-coil domain-containing protein 70-like [Hydra magnipapillata]

 Score = 66.6 bits (161), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 16/113 (14%), Positives = 60/113 (53%)

Query: 2   IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED 61
            +E+M + +E+M + +E+M + +E+M + + +M + +E+M + +++M + +E+M + +E+
Sbjct: 11  FREEMNAFREEMNAFREEMNAFREEMNAFREEMNAFREEMNAFREEMNAFREEMNAFREE 70

Query: 62  IGGYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGY 114
           I  +  +   +  +   +  +   +  + + +  + + +  +   +  +   +
Sbjct: 71  INAFREEMNAFREEMNAFREEMNAFREEMNAFREEMNAFREEMNAFREEMNAF 123

Source: Hydra magnipapillata

Species: Hydra magnipapillata

Genus: Hydra

Family: Hydridae

Order: Hydroida

Class: Hydrozoa

Phylum: Cnidaria

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	150
RGD|1309595	554	Taf15 "TAF15 RNA polymerase II	0.48	0.129	0.545	1.6e-16
UNIPROTKB|Q92804	592	TAF15 "TATA-binding protein-as	0.56	0.141	0.473	2e-14
UNIPROTKB|A3KFF6	313	WBP2NL "Postacrosomal sheath W	0.48	0.230	0.5	4.4e-14
UNIPROTKB|D3ZZM1	558	Taf15 "Protein Taf15" [Rattus	0.486	0.130	0.524	1.3e-13
UNIPROTKB|F1S187	406	LOC100518332 "Uncharacterized	0.506	0.187	0.528	2.3e-13
UNIPROTKB|Q9NL82	266	Q9NL82 "Orcokinin peptides typ	0.813	0.458	0.304	2.7e-13
UNIPROTKB|K7EKB2	214	TAF15 "TATA-binding protein-as	0.506	0.355	0.516	5e-12
UNIPROTKB|Q9NL83	251	Q9NL83 "Orcokinin peptides typ	0.72	0.430	0.308	5e-12
UNIPROTKB|F1PB61	571	TAF15 "Uncharacterized protein	0.506	0.133	0.511	2e-11
TAIR|locus:2057140	671	AT2G38410 [Arabidopsis thalian	0.6	0.134	0.340	6.8e-11

RGD|1309595 Taf15 "TAF15 RNA polymerase II, TATA box binding protein (TBP)-associated factor" [Rattus norvegicus (taxid:10116)]

 Score = 213 (80.0 bits), Expect = 1.6e-16, P = 1.6e-16
 Identities = 42/77 (54%), Positives = 53/77 (68%)

Query:    63 GGYGVDKRG--YGVDKRG--YGVDKRGYGVDKSGYGVDKSG-YGVDKRGYGVDKRGYGVD 117
             GGYG D+ G  YG D+ G  YG D+ GYG D+ GYG D+ G YG D+ GYG D+ GYG D
Sbjct:   423 GGYGGDRSGGSYGADRSGGGYGGDRSGYGGDRGGYGGDRGGSYGGDRGGYGGDRGGYGGD 482

Query:   118 KRGYGVDKRGYGVNKRG 134
             + GYG D+ GYG ++RG
Sbjct:   483 RGGYGGDRGGYGGDRRG 499

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005622 "intracellular" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q92804 TAF15 "TATA-binding protein-associated factor 2N" [Homo sapiens (taxid:9606)]

 Score = 194 (73.4 bits), Expect = 2.0e-14, P = 2.0e-14
 Identities = 45/95 (47%), Positives = 56/95 (58%)

Query:    63 GGYGVDKRGYGVDKRG-YGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKR--GYGVDK- 118
             GGYG D+ GYG D+ G YG D+ GYG D+ GYG D+ GYG D+ GYG D+   GYG D+ 
Sbjct:   477 GGYGGDRGGYGGDRGGGYGGDRGGYGGDRGGYGGDRGGYGGDRGGYGGDRSRGGYGGDRG 536

Query:   119 --RGYGVDKRG-YGVNKRGYRVIKDYMGSLAQNYG 150
                GYG D+ G YG ++ G      Y G     YG
Sbjct:   537 GGSGYGGDRSGGYGGDRSG----GGYGGDRGGGYG 567

GO:0000166 "nucleotide binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=TAS

UNIPROTKB|A3KFF6 WBP2NL "Postacrosomal sheath WW domain-binding protein" [Bos taurus (taxid:9913)]

 Score = 184 (69.8 bits), Expect = 4.4e-14, P = 4.4e-14
 Identities = 36/72 (50%), Positives = 36/72 (50%)

Query:    64 GYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVDKRGYGV 123
             GYG    GYG    GYG    GYGV   GYGV   GYGV   GYG    GYGV   GYG 
Sbjct:   199 GYGAQPGGYGAPPMGYGAPPVGYGVPPGGYGVPPGGYGVPPGGYGAPPGGYGVPPGGYGA 258

Query:   124 DKRGYGVNKRGY 135
                GYG    GY
Sbjct:   259 PPGGYGAPPAGY 270

GO:0007343 "egg activation" evidence=IDA

GO:0050699 "WW domain binding" evidence=IDA

GO:0035039 "male pronucleus assembly" evidence=IDA

GO:0033011 "perinuclear theca" evidence=IDA

GO:0035038 "female pronucleus assembly" evidence=IDA

UNIPROTKB|D3ZZM1 Taf15 "Protein Taf15" [Rattus norvegicus (taxid:10116)]

 Score = 186 (70.5 bits), Expect = 1.3e-13, P = 1.3e-13
 Identities = 43/82 (52%), Positives = 54/82 (65%)

Query:    63 GGYGVDKRGYGVDKRG-YGVDKRGYGVDKSGYGVDKSGYGVDK-RG-YGVDKRG----YG 115
             GGYG D+ GYG D+ G YG D+ GYG D+ GYG D+ GYG D+ RG YG D+ G    YG
Sbjct:   458 GGYGGDRGGYGGDRGGSYGGDRGGYGGDRGGYGGDRGGYGGDRSRGAYGGDRGGGSGGYG 517

Query:   116 VDKRG-YGVDKRG-YGVNKRGY 135
              D+ G YG D+ G YG ++ GY
Sbjct:   518 GDRSGGYGGDRGGGYGGDRGGY 539

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1S187 LOC100518332 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 181 (68.8 bits), Expect = 2.3e-13, P = 2.3e-13
 Identities = 47/89 (52%), Positives = 56/89 (62%)

Query:    63 GGYGVDKRG-YGVDKRGYGVDKRGYGVDKSG--YGVDK---SGYGVDKRG-YGVDKRG-- 113
             GGYG D+ G YG D+ GYG D+ GYG D+SG  YG D+   SGYG D+ G YG D+ G  
Sbjct:   312 GGYGGDRGGGYGGDRGGYGGDRGGYGGDRSGGGYGGDRGSGSGYGGDRSGGYGGDRSGGG 371

Query:   114 YGVDKRG-YGVDKRGYGVNKRGYRVIKDY 141
             YG D+ G YG D+ GYG  K G R   DY
Sbjct:   372 YGGDRSGGYGGDRGGYG-GKMGGR--NDY 397

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q9NL82 Q9NL82 "Orcokinin peptides type B" [Procambarus clarkii (taxid:6728)]

 Score = 174 (66.3 bits), Expect = 2.7e-13, P = 2.7e-13
 Identities = 42/138 (30%), Positives = 74/138 (53%)

Query:    11 EDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSI-KDDMGSIKEDMASIKEDIGGYGVDK 69
             +D AS   D   +K    +     G  K +   I +   G  K++   I  D  G+G +K
Sbjct:    34 QDDASFPPDGAPVKR-FDAFTTGFGHSKRNFDEIDRSGFGFAKKNFDEI--DRSGFGFNK 90

Query:    70 RGYG-VDKRGYGVDKRGYG-VDKSGYG--------VDKSGYGVDKRGYG-VDKRGYGVDK 118
             R +  +D+ G+G +KR +  +D+SG+G        +D+SG+G +KR +  +D+ G+G +K
Sbjct:    91 RNFDEIDRSGFGFNKRNFDEIDRSGFGFNKRNFDEIDRSGFGFNKRNFDEIDRSGFGFNK 150

Query:   119 RGYG-VDKRGYGVNKRGY 135
             R +  +D+ G+G NKR +
Sbjct:   151 RNFDEIDRSGFGFNKRNF 168

GO:0005184 "neuropeptide hormone activity" evidence=NAS

GO:0005576 "extracellular region" evidence=IC

UNIPROTKB|K7EKB2 TAF15 "TATA-binding protein-associated factor 2N" [Homo sapiens (taxid:9606)]

 Score = 162 (62.1 bits), Expect = 5.0e-12, P = 5.0e-12
 Identities = 47/91 (51%), Positives = 56/91 (61%)

Query:    63 GGYGVDKRG-YGVDKRG-YGVDKRG-YGVDKS--GYGVDK---SGYGVDKRG-YGVDKRG 113
             GGYG D+ G YG D+ G YG D+ G YG D+S  GYG D+   SGYG D+ G YG D+ G
Sbjct:   118 GGYGGDRGGGYGGDRGGGYGGDRGGGYGGDRSRGGYGGDRGGGSGYGGDRSGGYGGDRSG 177

Query:   114 --YGVDKRG-YGVDKRGYGVNKRGYRVIKDY 141
               YG D+ G YG D+ GYG  K G R   DY
Sbjct:   178 GGYGGDRGGGYGGDRGGYG-GKMGGR--NDY 205

GO:0005622 "intracellular" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q9NL83 Q9NL83 "Orcokinin peptides type A" [Procambarus clarkii (taxid:6728)]

 Score = 162 (62.1 bits), Expect = 5.0e-12, P = 5.0e-12
 Identities = 38/123 (30%), Positives = 67/123 (54%)

Query:    25 EDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDKRGYG-VDKRGYGVDK 83
             +D AS   D   +K    +     G  K +   I  D  G+G  K+ +  +D+ G+G +K
Sbjct:    34 QDDASFPPDGAPVKR-FDAFTTGFGHSKRNFDEI--DRSGFGFAKKNFDEIDRSGFGFNK 90

Query:    84 RGYG-VDKSGYG--------VDKSGYGVDKRGYG-VDKRGYGVDKRGYG-VDKRGYGVNK 132
             R +  +D+SG+G        +D+SG+G +KR +  +D+ G+G +KR +  +D+ G+G NK
Sbjct:    91 RNFDEIDRSGFGFNKRNFDEIDRSGFGFNKRNFDEIDRSGFGFNKRNFDEIDRSGFGFNK 150

Query:   133 RGY 135
             R +
Sbjct:   151 RNF 153

GO:0005184 "neuropeptide hormone activity" evidence=NAS

GO:0005576 "extracellular region" evidence=IC

UNIPROTKB|F1PB61 TAF15 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 166 (63.5 bits), Expect = 2.0e-11, P = 2.0e-11
 Identities = 46/90 (51%), Positives = 55/90 (61%)

Query:    63 GGYGVDKRG-YGVDKRG-YGVDKRG-YGVDKSGYGVDKSG--YGVDKRG---YGVDKRG- 113
             GGYG D+ G YG D+ G YG D+ G YG D+ GYG D+SG  YG D+ G   YG D+ G 
Sbjct:   476 GGYGGDRGGGYGGDRGGGYGGDRGGGYGGDRGGYGGDRSGGGYGGDRGGGGGYGGDRGGG 535

Query:   114 YGVDKRG--YGVDKRGYGVNKRGYRVIKDY 141
             YG D+ G  YG D+ GYG  K G R   DY
Sbjct:   536 YGGDRSGGGYGGDRGGYG-GKMGGR--NDY 562

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

TAIR|locus:2057140 AT2G38410 [Arabidopsis thaliana (taxid:3702)]

 Score = 162 (62.1 bits), Expect = 6.8e-11, P = 6.8e-11
 Identities = 31/91 (34%), Positives = 50/91 (54%)

Query:    58 IKEDIGGYGVDKRGYGVDKRGYGVDKRGYGVDKSGYGVDKSGYGVDKRGYGVDKRGYGVD 117
             +++  GGYGV   GYGV + GYGV + GYG+ ++GYGV ++GYG+ + GYG+        
Sbjct:   163 LRQPQGGYGVPPAGYGVHQAGYGVPQAGYGIPQAGYGVPQAGYGIPQVGYGMPSGSSRRL 222

Query:   118 KRGYGVDKRGYGVNK-RGYRVIKDYMGSLAQ 147
                   +  G  ++     R + D +G + Q
Sbjct:   223 DEAMATEVEGLSLSSIESMRDVMDLLGDMLQ 253

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0005795 "Golgi stack" evidence=ISS

GO:0006886 "intracellular protein transport" evidence=IEA;ISS

GO:0006891 "intra-Golgi vesicle-mediated transport" evidence=ISS

GO:0008565 "protein transporter activity" evidence=ISS

GO:0005886 "plasma membrane" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

No hit with e-value below 0.005

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	150
PF04582	326	Reo_sigmaC: Reovirus sigma C capsid protein; Inter	97.59
PF04728	56	LPP: Lipoprotein leucine-zipper; InterPro: IPR0068	97.56
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	97.42
PF04728	56	LPP: Lipoprotein leucine-zipper; InterPro: IPR0068	97.38
PF04582	326	Reo_sigmaC: Reovirus sigma C capsid protein; Inter	97.33
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	97.31
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	97.01
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	96.95
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	96.95
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	96.91
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	96.91
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	96.88
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	96.81
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	96.8
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	96.79
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	96.77
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	96.72
PF06810	155	Phage_GP20: Phage minor structural protein GP20; I	96.69
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	96.69
PRK10884	206	SH3 domain-containing protein; Provisional	96.67
PF10779	71	XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemoly	96.64
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	96.61
PF06810	155	Phage_GP20: Phage minor structural protein GP20; I	96.61
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	96.56
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	96.56
PF07439	112	DUF1515: Protein of unknown function (DUF1515); In	96.44
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	96.36
PF06103	90	DUF948: Bacterial protein of unknown function (DUF	96.33
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	96.3
PRK15396	78	murein lipoprotein; Provisional	96.28
PRK15396	78	murein lipoprotein; Provisional	96.22
PF06103	90	DUF948: Bacterial protein of unknown function (DUF	96.2
PF10349	116	WWbp: WW-domain ligand protein; InterPro: IPR01882	96.17
PHA02607	454	wac fibritin; Provisional	96.04
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	96.03
PF10779	71	XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemoly	95.98
TIGR03545	555	conserved hypothetical protein TIGR03545. This mod	95.94
KOG2391|consensus	365		95.88
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	95.87
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	95.83
PF05377	55	FlaC_arch: Flagella accessory protein C (FlaC); In	95.77
PRK10884	206	SH3 domain-containing protein; Provisional	95.77
PRK13729	475	conjugal transfer pilus assembly protein TraB; Pro	95.76
PF10349	116	WWbp: WW-domain ligand protein; InterPro: IPR01882	95.64
PF05791	184	Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL	95.63
PF05377	55	FlaC_arch: Flagella accessory protein C (FlaC); In	95.53
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	95.5
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	95.42
PF02183	45	HALZ: Homeobox associated leucine zipper; InterPro	95.41
PHA02562	562	46 endonuclease subunit; Provisional	95.37
PF05791	184	Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL	95.32
TIGR03545	555	conserved hypothetical protein TIGR03545. This mod	95.29
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	95.27
PRK09973	85	putative outer membrane lipoprotein; Provisional	95.12
PHA02562	562	46 endonuclease subunit; Provisional	95.09
PRK09973	85	putative outer membrane lipoprotein; Provisional	95.09
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	95.08
smart00503	117	SynN Syntaxin N-terminal domain. Three-helix domai	95.06
PF05531	75	NPV_P10: Nucleopolyhedrovirus P10 protein; InterPr	95.05
COG3352	157	FlaC Putative archaeal flagellar protein C [Cell m	94.94
PF05008	79	V-SNARE: Vesicle transport v-SNARE protein N-termi	94.87
KOG1962|consensus	216		94.87
PF04977	80	DivIC: Septum formation initiator; InterPro: IPR00	94.86
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	94.86
PLN02678	448	seryl-tRNA synthetase	94.77
PF00170	64	bZIP_1: bZIP transcription factor cAMP response el	94.74
PF02183	45	HALZ: Homeobox associated leucine zipper; InterPro	94.65
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	94.61
PF04977	80	DivIC: Septum formation initiator; InterPro: IPR00	94.61
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	94.58
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	94.58
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	94.53
COG3352	157	FlaC Putative archaeal flagellar protein C [Cell m	94.53
PF07439	112	DUF1515: Protein of unknown function (DUF1515); In	94.49
COG4942	420	Membrane-bound metallopeptidase [Cell division and	94.46
PRK13169	110	DNA replication intiation control protein YabA; Re	94.43
PF06156	107	DUF972: Protein of unknown function (DUF972); Inte	94.39
PF00038	312	Filament: Intermediate filament protein; InterPro:	94.36
PF08700	87	Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT te	94.32
PF03915	424	AIP3: Actin interacting protein 3; InterPro: IPR02	94.32
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	94.31
KOG3156|consensus	220		94.29
KOG0250|consensus	1074		94.25
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	94.17
PRK05431	425	seryl-tRNA synthetase; Provisional	94.15
KOG4603|consensus	201		94.07
PF05278	269	PEARLI-4: Arabidopsis phospholipase-like protein (	93.98
TIGR00414	418	serS seryl-tRNA synthetase. This model represents	93.95
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	93.94
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	93.92
PF00038	312	Filament: Intermediate filament protein; InterPro:	93.89
PF15450	531	DUF4631: Domain of unknown function (DUF4631)	93.85
COG4942	420	Membrane-bound metallopeptidase [Cell division and	93.79
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	93.75
PLN02678	448	seryl-tRNA synthetase	93.74
PF00804	103	Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins	93.65
TIGR01554	378	major_cap_HK97 phage major capsid protein, HK97 fa	93.64
PF10267	395	Tmemb_cc2: Predicted transmembrane and coiled-coil	93.62
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	93.6
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	93.55
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	93.55
PF05529	192	Bap31: B-cell receptor-associated protein 31-like	93.54
PLN02320	502	seryl-tRNA synthetase	93.54
KOG2391|consensus	365		93.49
PF05529	192	Bap31: B-cell receptor-associated protein 31-like	93.49
PRK05431	425	seryl-tRNA synthetase; Provisional	93.49
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	93.48
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	93.47
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	93.41
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	93.41
PRK10803	263	tol-pal system protein YbgF; Provisional	93.37
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	93.28
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	93.19
PRK10803	263	tol-pal system protein YbgF; Provisional	93.08
PRK00888	105	ftsB cell division protein FtsB; Reviewed	93.05
smart00503	117	SynN Syntaxin N-terminal domain. Three-helix domai	92.99
TIGR01554	378	major_cap_HK97 phage major capsid protein, HK97 fa	92.91
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	92.9
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	92.79
KOG2264|consensus	907		92.64
TIGR00414	418	serS seryl-tRNA synthetase. This model represents	92.63
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	92.59
PF10211	189	Ax_dynein_light: Axonemal dynein light chain; Inte	92.56
COG4238	78	Murein lipoprotein [Cell envelope biogenesis, oute	92.48
PRK09039	343	hypothetical protein; Validated	92.45
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	92.38
PF03961	451	DUF342: Protein of unknown function (DUF342); Inte	92.31
PF05008	79	V-SNARE: Vesicle transport v-SNARE protein N-termi	92.3
PRK15422	79	septal ring assembly protein ZapB; Provisional	92.17
PF02994	370	Transposase_22: L1 transposable element; InterPro:	92.04
PHA02607	454	wac fibritin; Provisional	91.93
PLN02320	502	seryl-tRNA synthetase	91.8
KOG0250|consensus	1074		91.8
PRK00888	105	ftsB cell division protein FtsB; Reviewed	91.75
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	91.64
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	91.61
PRK13729	475	conjugal transfer pilus assembly protein TraB; Pro	91.56
PRK02119	73	hypothetical protein; Provisional	91.53
KOG1962|consensus	216		91.48
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	91.45
TIGR02132	189	phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR	91.35
PF02994	370	Transposase_22: L1 transposable element; InterPro:	91.26
PF01920	106	Prefoldin_2: Prefoldin subunit; InterPro: IPR00277	91.23
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	91.15
PRK15422	79	septal ring assembly protein ZapB; Provisional	91.06
COG3074	79	Uncharacterized protein conserved in bacteria [Fun	91.04
PF05278	269	PEARLI-4: Arabidopsis phospholipase-like protein (	90.99
PRK13169	110	DNA replication intiation control protein YabA; Re	90.96
KOG3850|consensus	455		90.93
PF03310	121	Cauli_DNA-bind: Caulimovirus DNA-binding protein;	90.91
PF10874	57	DUF2746: Protein of unknown function (DUF2746); In	90.86
COG0172	429	SerS Seryl-tRNA synthetase [Translation, ribosomal	90.83
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	90.75
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	90.73
PF06156	107	DUF972: Protein of unknown function (DUF972); Inte	90.57
PF05103	131	DivIVA: DivIVA protein; InterPro: IPR007793 The Ba	90.55
TIGR02894	161	DNA_bind_RsfA transcription factor, RsfA family. I	90.49
PRK04406	75	hypothetical protein; Provisional	90.49
smart00338	65	BRLZ basic region leucin zipper.	90.47
TIGR02894	161	DNA_bind_RsfA transcription factor, RsfA family. I	90.43
PF06148	133	COG2: COG (conserved oligomeric Golgi) complex com	90.41
PF07160	243	DUF1395: Protein of unknown function (DUF1395); In	90.39
COG0172	429	SerS Seryl-tRNA synthetase [Translation, ribosomal	90.38
PF14712	92	Snapin_Pallidin: Snapin/Pallidin	90.34
PF07989	75	Microtub_assoc: Microtubule associated; InterPro:	90.28
PF10874	57	DUF2746: Protein of unknown function (DUF2746); In	90.27
COG4238	78	Murein lipoprotein [Cell envelope biogenesis, oute	90.14
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	90.13
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	89.86
TIGR00998	334	8a0101 efflux pump membrane protein (multidrug res	89.77
KOG0971|consensus	1243		89.73
TIGR02209	85	ftsL_broad cell division protein FtsL. This model	89.72
PRK01156	895	chromosome segregation protein; Provisional	89.67
PF12732	74	YtxH: YtxH-like protein; InterPro: IPR024623 This	89.62
KOG2264|consensus	907		89.57
PF06148	133	COG2: COG (conserved oligomeric Golgi) complex com	89.55
PF07028	126	DUF1319: Protein of unknown function (DUF1319); In	89.42
PF04201	162	TPD52: Tumour protein D52 family; InterPro: IPR007	89.42
PF01166	59	TSC22: TSC-22/dip/bun family; InterPro: IPR000580	89.41
PF03915	424	AIP3: Actin interacting protein 3; InterPro: IPR02	89.41
PRK02793	72	phi X174 lysis protein; Provisional	89.39
PF04201	162	TPD52: Tumour protein D52 family; InterPro: IPR007	89.39
PF06120	301	Phage_HK97_TLTM: Tail length tape measure protein;	89.37
PRK04325	74	hypothetical protein; Provisional	89.33
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	89.25
PRK04778	569	septation ring formation regulator EzrA; Provision	89.23
PRK04778	569	septation ring formation regulator EzrA; Provision	89.23
PF10211	189	Ax_dynein_light: Axonemal dynein light chain; Inte	89.23
PF15397	258	DUF4618: Domain of unknown function (DUF4618)	89.22
PF07902	601	Gp58: gp58-like protein; InterPro: IPR012892 Seque	89.18
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	89.17
PF12732	74	YtxH: YtxH-like protein; InterPro: IPR024623 This	89.15
PF07200	150	Mod_r: Modifier of rudimentary (Mod(r)) protein; I	89.14
PF07160	243	DUF1395: Protein of unknown function (DUF1395); In	89.04
PF10224	80	DUF2205: Predicted coiled-coil protein (DUF2205);	88.99
PF07246	264	Phlebovirus_NSM: Phlebovirus nonstructural protein	88.97
PRK02224	880	chromosome segregation protein; Provisional	88.92
PHA03395	87	p10 fibrous body protein; Provisional	88.87
KOG0977|consensus	546		88.85
PF12761	195	End3: Actin cytoskeleton-regulatory complex protei	88.8
PF08700	87	Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT te	88.74
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	88.73
cd00179	151	SynN Syntaxin N-terminus domain; syntaxins are ner	88.67
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	88.67
PRK14160	211	heat shock protein GrpE; Provisional	88.63
PF13815	118	Dzip-like_N: Iguana/Dzip1-like DAZ-interacting pro	88.47
PF07200	150	Mod_r: Modifier of rudimentary (Mod(r)) protein; I	88.37
KOG2629|consensus	300		88.37
PF03961	451	DUF342: Protein of unknown function (DUF342); Inte	88.28
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	88.23
cd00179	151	SynN Syntaxin N-terminus domain; syntaxins are ner	88.22
KOG0971|consensus	1243		88.2
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	88.14
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	88.14
PF03310	121	Cauli_DNA-bind: Caulimovirus DNA-binding protein;	88.12
KOG3294|consensus	261		88.07
KOG0995|consensus	581		88.03
TIGR02209	85	ftsL_broad cell division protein FtsL. This model	88.02
PF15397	258	DUF4618: Domain of unknown function (DUF4618)	88.01
KOG3433|consensus	203		88.0
PF13815	118	Dzip-like_N: Iguana/Dzip1-like DAZ-interacting pro	87.97
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	87.95
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	87.89
PF07407	420	Seadorna_VP6: Seadornavirus VP6 protein; InterPro:	87.85
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	87.8
PF05055	336	DUF677: Protein of unknown function (DUF677); Inte	87.77
PF13166	712	AAA_13: AAA domain	87.71
PF14712	92	Snapin_Pallidin: Snapin/Pallidin	87.6
PF05852	146	DUF848: Gammaherpesvirus protein of unknown functi	87.47
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	87.44
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	87.43
COG2433	652	Uncharacterized conserved protein [Function unknow	87.38
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	87.35
PRK14549	69	50S ribosomal protein L29P; Provisional	87.2
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	87.2
KOG0946|consensus	970		87.15
PF05531	75	NPV_P10: Nucleopolyhedrovirus P10 protein; InterPr	87.14
KOG4010|consensus	208		87.11
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	87.07
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	87.0
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	86.96
PF07407	420	Seadorna_VP6: Seadornavirus VP6 protein; InterPro:	86.96
PRK04863	1486	mukB cell division protein MukB; Provisional	86.91
PF10359	475	Fmp27_WPPW: RNA pol II promoter Fmp27 protein doma	86.8
PRK00736	68	hypothetical protein; Provisional	86.79
KOG4674|consensus	1822		86.77
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	86.74
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	86.63
PRK02793	72	phi X174 lysis protein; Provisional	86.62
CHL00154	67	rpl29 ribosomal protein L29; Validated	86.58
KOG0996|consensus	1293		86.56
PF07989	75	Microtub_assoc: Microtubule associated; InterPro:	86.56
PRK00295	68	hypothetical protein; Provisional	86.54
KOG4603|consensus	201		86.51
PF07902	601	Gp58: gp58-like protein; InterPro: IPR012892 Seque	86.49
PF09177	97	Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IP	86.42
PF05615	139	THOC7: Tho complex subunit 7; InterPro: IPR008501	86.32
COG3074	79	Uncharacterized protein conserved in bacteria [Fun	86.25
TIGR02449	65	conserved hypothetical protein TIGR02449. Members	86.2
PRK04863	1486	mukB cell division protein MukB; Provisional	86.0
PRK04654	214	sec-independent translocase; Provisional	85.91
KOG0018|consensus	1141		85.9
KOG0998|consensus	847		85.88
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	85.82
PF02181	370	FH2: Formin Homology 2 Domain; InterPro: IPR015425	85.62
cd00890	129	Prefoldin Prefoldin is a hexameric molecular chape	85.61
cd00632	105	Prefoldin_beta Prefoldin beta; Prefoldin is a hexa	85.6
COG4026	290	Uncharacterized protein containing TOPRIM domain,	85.52
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	85.52
PRK11020	118	hypothetical protein; Provisional	85.45
TIGR00012	55	L29 ribosomal protein L29. called L29 in prokaryot	85.3
PF10267	395	Tmemb_cc2: Predicted transmembrane and coiled-coil	85.28
PF01166	59	TSC22: TSC-22/dip/bun family; InterPro: IPR000580	85.25
COG2433	652	Uncharacterized conserved protein [Function unknow	85.13
KOG1760|consensus	131		84.75
PRK14161	178	heat shock protein GrpE; Provisional	84.74
KOG4674|consensus	1822		84.74
TIGR01730	322	RND_mfp RND family efflux transporter, MFP subunit	84.73
PRK04325	74	hypothetical protein; Provisional	84.69
PF05103	131	DivIVA: DivIVA protein; InterPro: IPR007793 The Ba	84.63
PF11336	514	DUF3138: Protein of unknown function (DUF3138); In	84.61
PF05852	146	DUF848: Gammaherpesvirus protein of unknown functi	84.59
KOG0239|consensus	670		84.53
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	84.46
PF07028	126	DUF1319: Protein of unknown function (DUF1319); In	84.43
COG4980	115	GvpP Gas vesicle protein [General function predict	84.25
PRK10698	222	phage shock protein PspA; Provisional	84.24
PF06120	301	Phage_HK97_TLTM: Tail length tape measure protein;	84.21
PF03233	163	Cauli_AT: Aphid transmission protein; InterPro: IP	84.21
PF06216	389	RTBV_P46: Rice tungro bacilliform virus P46 protei	84.2
PF09177	97	Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IP	84.16
KOG4010|consensus	208		84.13
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	84.11
PRK00295	68	hypothetical protein; Provisional	84.05
PF00804	103	Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins	84.05
KOG0239|consensus	670		83.97
PRK02119	73	hypothetical protein; Provisional	83.95
PRK04406	75	hypothetical protein; Provisional	83.92
PF11853	489	DUF3373: Protein of unknown function (DUF3373); In	83.75
PF12761	195	End3: Actin cytoskeleton-regulatory complex protei	83.69
PRK14127	109	cell division protein GpsB; Provisional	83.57
PRK00736	68	hypothetical protein; Provisional	83.54
KOG4797|consensus	123		83.46
PRK10132	108	hypothetical protein; Provisional	83.45
PRK04654	214	sec-independent translocase; Provisional	83.44
COG3388	101	Predicted transcriptional regulator [Transcription	83.36
PF04912	388	Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamit	83.29
PRK14160	211	heat shock protein GrpE; Provisional	83.24
PF10224	80	DUF2205: Predicted coiled-coil protein (DUF2205);	82.96
cd00632	105	Prefoldin_beta Prefoldin beta; Prefoldin is a hexa	82.91
PF04880	166	NUDE_C: NUDE protein, C-terminal conserved region;	82.88
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	82.84
KOG3156|consensus	220		82.77
PF06013	86	WXG100: Proteins of 100 residues with WXG; InterPr	82.58
KOG4196|consensus	135		82.53
PRK03598	331	putative efflux pump membrane fusion protein; Prov	82.52
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	82.51
TIGR00998	334	8a0101 efflux pump membrane protein (multidrug res	82.42
KOG4687|consensus	389		82.37
KOG0995|consensus	581		82.24
cd00890	129	Prefoldin Prefoldin is a hexameric molecular chape	82.17
PF11336	514	DUF3138: Protein of unknown function (DUF3138); In	82.11
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	82.1
PF14282	106	FlxA: FlxA-like protein	81.96
PF08826	61	DMPK_coil: DMPK coiled coil domain like; InterPro:	81.96
PF04350	144	PilO: Pilus assembly protein, PilO; PDB: 2RJZ_B.	81.93
KOG0933|consensus	1174		81.87
PF02388	406	FemAB: FemAB family; InterPro: IPR003447 The femAB	81.76
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	81.64
PHA01750	75	hypothetical protein	81.64
COG3879	247	Uncharacterized protein conserved in bacteria [Fun	81.56
PF10073	74	DUF2312: Uncharacterized protein conserved in bact	81.47
PF10241	88	KxDL: Uncharacterized conserved protein; InterPro:	81.45
PF08581	79	Tup_N: Tup N-terminal; InterPro: IPR013890 The N-t	81.38
PRK00846	77	hypothetical protein; Provisional	81.28
cd07596	218	BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of So	81.16
KOG4797|consensus	123		81.13
PF09969	120	DUF2203: Uncharacterized conserved protein (DUF220	81.08
PF08826	61	DMPK_coil: DMPK coiled coil domain like; InterPro:	81.05
PF10191	766	COG7: Golgi complex component 7 (COG7); InterPro:	81.05
PF08702	146	Fib_alpha: Fibrinogen alpha/beta chain family; Int	80.93
PRK13922	276	rod shape-determining protein MreC; Provisional	80.88
PF13166	712	AAA_13: AAA domain	80.75
KOG3433|consensus	203		80.72
PF07851	330	TMPIT: TMPIT-like protein; InterPro: IPR012926 A n	80.66
smart00150	101	SPEC Spectrin repeats.	80.59
PF11598	45	COMP: Cartilage oligomeric matrix protein; InterPr	80.54
PF10552	116	ORF6C: ORF6C domain; InterPro: IPR018878 This entr	80.52
PF13514	1111	AAA_27: AAA domain	80.49
PF10359	475	Fmp27_WPPW: RNA pol II promoter Fmp27 protein doma	80.45
COG3750	85	Uncharacterized protein conserved in bacteria [Fun	80.28
smart00502	127	BBC B-Box C-terminal domain. Coiled coil region C-	80.13
KOG0946|consensus	970		80.05
KOG0964|consensus	1200		80.03
PF00831	58	Ribosomal_L29: Ribosomal L29 protein; InterPro: IP	80.02

>PF04582 Reo_sigmaC: Reovirus sigma C capsid protein; InterPro: IPR007662 Protein sigmaC in its native state was shown to be a homotrimer

Probab=97.59  E-value=3.3e-05  Score=67.93  Aligned_cols=23  Identities=13%  Similarity=0.433  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDM   27 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV   27 (150)
                      +|+.|+.+|..|+..|..|+++|
T Consensus        78 ~L~sLsstV~~lq~Sl~~lsssV  100 (326)
T PF04582_consen   78 ELNSLSSTVTSLQSSLSSLSSSV  100 (326)
T ss_dssp             -----------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhH
Confidence            33333333333333333333333

It was demonstrated that the sigmaC subunits are not covalently bound via disulphide linkages and the formation of an intrachain disulphide bond between the two cysteine residues of the sigmaC polypeptide may have a negative effect on oligomer stability. The susceptibility of the trimer to pH, temperature, ionic strength, chemical denaturants and detergents indicates that hydrophobic interactions contribute much more to oligomer stability than do ionic interactions and hydrogen bonding [].; PDB: 2VRS_C 2JJL_A 2BSF_A 2BT7_A 2BT8_A.

>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP

Probab=97.56  E-value=0.00072  Score=46.18  Aligned_cols=40  Identities=10%  Similarity=0.387  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          12 DMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSI   51 (150)
Q Consensus        12 dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~L   51 (150)
                      +|..|.+||.+|++.|..|..||..|+.||...|++-.--
T Consensus         4 kid~Ls~dVq~L~~kvdqLs~dv~~lr~~v~~ak~EAaRA   43 (56)
T PF04728_consen    4 KIDQLSSDVQTLNSKVDQLSSDVNALRADVQAAKEEAARA   43 (56)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555555555555555555555555555544433

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.

>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins

Probab=97.42  E-value=0.001  Score=49.34  Aligned_cols=57  Identities=7%  Similarity=0.383  Sum_probs=44.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASI--KVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~L--K~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      ++|++.|.++++.+..-+..|.+.|..|  ++||..|+-.|++|+.++..|...+..+.
T Consensus        34 ~~~~~~l~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~   92 (106)
T PF10805_consen   34 REDIEKLEERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVS   92 (106)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            6788888888777788888888888887  77888888888888877777777776553

The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.

>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP

Probab=97.38  E-value=0.00088  Score=45.75  Aligned_cols=35  Identities=14%  Similarity=0.446  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          20 MVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKED   54 (150)
Q Consensus        20 v~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~D   54 (150)
                      |..|.+||.+|+..|..|..||..|+.||...|++
T Consensus         5 id~Ls~dVq~L~~kvdqLs~dv~~lr~~v~~ak~E   39 (56)
T PF04728_consen    5 IDQLSSDVQTLNSKVDQLSSDVNALRADVQAAKEE   39 (56)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444444444444444

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.

>PF04582 Reo_sigmaC: Reovirus sigma C capsid protein; InterPro: IPR007662 Protein sigmaC in its native state was shown to be a homotrimer

Probab=97.33  E-value=0.00025  Score=62.53  Aligned_cols=56  Identities=9%  Similarity=0.350  Sum_probs=13.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      |..|..+|+.|.+++....+.|+.|+..|+.|+.||+.||.||+.+.-.|+.|++.
T Consensus        93 l~~lsssVs~lS~~ls~h~ssIS~Lqs~v~~lsTdvsNLksdVSt~aL~ItdLe~R  148 (326)
T PF04582_consen   93 LSSLSSSVSSLSSTLSDHSSSISDLQSSVSALSTDVSNLKSDVSTQALNITDLESR  148 (326)
T ss_dssp             -------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHhhhhhhhhhhhhHHHHHHhhhhhhhhhhhhhhhhhhhcchHhhHHHH
Confidence            33333333333333333333333444444444444444444444444444444433

It was demonstrated that the sigmaC subunits are not covalently bound via disulphide linkages and the formation of an intrachain disulphide bond between the two cysteine residues of the sigmaC polypeptide may have a negative effect on oligomer stability. The susceptibility of the trimer to pH, temperature, ionic strength, chemical denaturants and detergents indicates that hydrophobic interactions contribute much more to oligomer stability than do ionic interactions and hydrogen bonding [].; PDB: 2VRS_C 2JJL_A 2BSF_A 2BT7_A 2BT8_A.

>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function

Probab=97.31  E-value=0.0019  Score=50.04  Aligned_cols=56  Identities=16%  Similarity=0.397  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      +-|..|-..+.+.++=...+++||.+++.|++.++.||..+.+-|..|...|.++.
T Consensus        68 qRId~vd~klDe~~ei~~~i~~eV~~v~~dv~~i~~dv~~v~~~V~~Le~ki~~ie  123 (126)
T PF07889_consen   68 QRIDRVDDKLDEQKEISKQIKDEVTEVREDVSQIGDDVDSVQQMVEGLEGKIDEIE  123 (126)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44555555566666666666777777777777777777777777777766666654

The region featured in this family is approximately 100 amino acids long.

>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins

Probab=97.01  E-value=0.0049  Score=48.88  Aligned_cols=19  Identities=5%  Similarity=0.408  Sum_probs=7.5

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q psy9603          26 DMASIKVDMGSIKEDMGSI   44 (150)
Q Consensus        26 DV~~LK~DV~~LK~DV~~L   44 (150)
                      +++.|+.+.+.|+.|+..|
T Consensus        74 ~~~~lr~~~e~L~~eie~l   92 (177)
T PF07798_consen   74 EFAELRSENEKLQREIEKL   92 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444333

>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins

Probab=96.95  E-value=0.0063  Score=48.23  Aligned_cols=17  Identities=18%  Similarity=0.495  Sum_probs=9.5

Q ss_pred             HHHHHHHHHHHHhhhhc
Q psy9603          46 DDMGSIKEDMASIKEDI   62 (150)
Q Consensus        46 ~DV~~LK~Dvs~lK~Di   62 (150)
                      ++++.||.+|.++|.|+
T Consensus       138 ~ei~~lr~~iE~~K~~~  154 (177)
T PF07798_consen  138 TEIANLRTEIESLKWDT  154 (177)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            34455566666666554

>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch

Probab=96.95  E-value=0.0079  Score=46.01  Aligned_cols=58  Identities=17%  Similarity=0.425  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      .|+..++.++..|++.+..++..++.++.+...|+..+..+...+...|++++.+|..
T Consensus        66 ~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~kee~~klk~~  123 (151)
T PF11559_consen   66 SDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKEELQKLKNQ  123 (151)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555555555555555555555555555555555555555555555555543

pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.

>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function

Probab=96.91  E-value=0.006  Score=47.31  Aligned_cols=54  Identities=20%  Similarity=0.408  Sum_probs=35.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      |...|..|-.-+.+.++=...+|+||.++++|++.++.||..+..-|..|...|
T Consensus        66 LsqRId~vd~klDe~~ei~~~i~~eV~~v~~dv~~i~~dv~~v~~~V~~Le~ki  119 (126)
T PF07889_consen   66 LSQRIDRVDDKLDEQKEISKQIKDEVTEVREDVSQIGDDVDSVQQMVEGLEGKI  119 (126)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444445555555567777777777777777777777777777776655

The region featured in this family is approximately 100 amino acids long.

>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

Probab=96.91  E-value=0.0061  Score=47.53  Aligned_cols=57  Identities=14%  Similarity=0.533  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDM--GSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV--~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      +|..|++++.+|+.++..|++.++.|..-.  ..|+..|.+|++++..|.+.+..+++.
T Consensus        80 ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~~  138 (169)
T PF07106_consen   80 EIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRSG  138 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            344444444444444444444444444333  345666777777777777777777663

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 [].

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=96.88  E-value=0.0073  Score=51.95  Aligned_cols=56  Identities=14%  Similarity=0.453  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      .+|+.++++++.++.+|..+|.++.+|+..+..++.+|.++++....++..|++++
T Consensus       209 ~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~  264 (325)
T PF08317_consen  209 EELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAE  264 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45556666666666666666666666666666666666666555555555555544

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.81  E-value=0.0087  Score=51.59  Aligned_cols=40  Identities=10%  Similarity=0.456  Sum_probs=14.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDD   47 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~D   47 (150)
                      .|..+|.++..-+.+++.+|.+++++|..|+.+|.+|+++
T Consensus        56 ~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~   95 (265)
T COG3883          56 SLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKEN   95 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333333333

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.80  E-value=0.0071  Score=52.14  Aligned_cols=54  Identities=11%  Similarity=0.409  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      +...|+.+|..|-..|..+-.-+.+++.+|+.+++++..|+.+|..++++|.+-
T Consensus        46 ~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r   99 (265)
T COG3883          46 EKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVER   99 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444445555555555555555555555555555555555555555555443

>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation

Probab=96.79  E-value=0.02  Score=40.44  Aligned_cols=62  Identities=16%  Similarity=0.291  Sum_probs=50.2

Q ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603           1 MIKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus         1 ~ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      |+-+-++.|...|..+-+-|+.|+..|.+||...+.|++...+|++....||.+-+..++.|
T Consensus         1 M~~E~l~~LE~ki~~aveti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~e~~~~~~rl   62 (72)
T PF06005_consen    1 MSLELLEQLEEKIQQAVETIALLQMENEELKEKNNELKEENEELKEENEQLKQERNAWQERL   62 (72)
T ss_dssp             --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55667788889999999999999999999999888888888888888888888877766554

It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.

>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function

Probab=96.77  E-value=0.0069  Score=55.46  Aligned_cols=43  Identities=19%  Similarity=0.479  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV   48 (150)
                      |..++.++...|.++..+++|+..|+..|..|+.++...|.++
T Consensus       283 l~s~~~ELe~ak~~L~~~k~E~~~L~~~vesL~~ELe~~K~el  325 (522)
T PF05701_consen  283 LASAKKELEEAKKELEKAKEEASSLRASVESLRSELEKEKEEL  325 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333333333333

Several sequences in this family are described as being myosin heavy chain-like.

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6

Probab=96.72  E-value=0.013  Score=42.46  Aligned_cols=58  Identities=10%  Similarity=0.464  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKV---DMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~---DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      ....++.++.+|+...+.+...|..+|.   |+..|++.+.+||+.+..+...+..+.+.+
T Consensus        37 ~~r~l~~~~e~lr~~rN~~sk~I~~~~~~~~~~~~l~~e~~~lk~~i~~le~~~~~~e~~l   97 (108)
T PF02403_consen   37 ERRELQQELEELRAERNELSKEIGKLKKAGEDAEELKAEVKELKEEIKELEEQLKELEEEL   97 (108)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCHTTCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456666777777777777777776665   677777777777777777777666665543

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....

>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length

Probab=96.69  E-value=0.011  Score=46.74  Aligned_cols=16  Identities=13%  Similarity=0.298  Sum_probs=6.2

Q ss_pred             HHHHHHHHHHHHHHHH
Q psy9603          33 DMGSIKEDMGSIKDDM   48 (150)
Q Consensus        33 DV~~LK~DV~~LK~DV   48 (150)
                      |+..||+.+.+|+++.
T Consensus        52 d~eeLk~~i~~lq~~~   67 (155)
T PF06810_consen   52 DNEELKKQIEELQAKN   67 (155)
T ss_pred             CHHHHHHHHHHHHHHH
Confidence            3333333333333333

The function of this family is unknown.; GO: 0005198 structural molecule activity

>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function

Probab=96.69  E-value=0.0095  Score=54.53  Aligned_cols=45  Identities=20%  Similarity=0.474  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDD   47 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~D   47 (150)
                      +.+|+..+.+|..+++|+..|+..|..|+.++...|.++..|++.
T Consensus       287 ~~ELe~ak~~L~~~k~E~~~L~~~vesL~~ELe~~K~el~~lke~  331 (522)
T PF05701_consen  287 KKELEEAKKELEKAKEEASSLRASVESLRSELEKEKEELERLKER  331 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444444444444433

Several sequences in this family are described as being myosin heavy chain-like.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=96.67  E-value=0.013  Score=48.29  Aligned_cols=59  Identities=7%  Similarity=0.205  Sum_probs=28.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMA-----------SIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~-----------~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      +.++..++++++++.++..+.++++.           +|+++-..|++.+.++++.+..|+..+..+|.+
T Consensus        99 e~el~~l~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~~  168 (206)
T PRK10884         99 ENQVKTLTDKLNNIDNTWNQRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQRT  168 (206)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555554444333333332           255555555555555555555555555555544

>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes []

Probab=96.64  E-value=0.014  Score=40.26  Aligned_cols=50  Identities=16%  Similarity=0.315  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           7 GSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMA   56 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs   56 (150)
                      ..|+++|.++++++..+.+++..|++.-+.+.+++.++-.++..|++...
T Consensus         2 ~~i~e~l~~ie~~l~~~~~~i~~lE~~~~~~e~~i~~~~~~l~~I~~n~k   51 (71)
T PF10779_consen    2 QDIKEKLNRIETKLDNHEERIDKLEKRDAANEKDIKNLNKQLEKIKSNTK   51 (71)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556666666666666666666666666666666666666655555443

>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins

Probab=96.61  E-value=0.015  Score=43.13  Aligned_cols=51  Identities=4%  Similarity=0.385  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSI--KEDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~L--K~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      .+++..+...|..|.++|..|  +.||..|+-.|+.|+.|+.+|..-+..|..
T Consensus        41 ~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~~   93 (106)
T PF10805_consen   41 EERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVSH   93 (106)
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            445555555666666666666  666666666666666666666655555543

The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.

>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length

Probab=96.61  E-value=0.017  Score=45.54  Aligned_cols=52  Identities=15%  Similarity=0.320  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKE---DMGSIKDDMGSIKEDMA   56 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~---DV~~LK~DV~~LK~Dvs   56 (150)
                      ||...|.++..+++++..+|+++.+....|..||.   |+.+|++.+..|+++..
T Consensus        14 ~i~~~K~~~~~~~~e~~~~k~ql~~~d~~i~~Lk~~~~d~eeLk~~i~~lq~~~~   68 (155)
T PF06810_consen   14 DIEAPKAKVDKVKEERDNLKTQLKEADKQIKDLKKSAKDNEELKKQIEELQAKNK   68 (155)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444   44444444444444443

The function of this family is unknown.; GO: 0005198 structural molecule activity

>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch

Probab=96.56  E-value=0.025  Score=43.23  Aligned_cols=51  Identities=16%  Similarity=0.428  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      +++.|+++++.++..+..++++...|+..+..+.......|+|+.-+|..+
T Consensus        74 ~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~kee~~klk~~~  124 (151)
T PF11559_consen   74 DVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKEELQKLKNQL  124 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444443333333

pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.

>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

Probab=96.56  E-value=0.011  Score=46.17  Aligned_cols=62  Identities=11%  Similarity=0.518  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhhhhcCCC
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDM--GSIKDDMGSIKEDMASIKEDIGGY   65 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV--~~LK~DV~~LK~Dvs~lK~DigGy   65 (150)
                      +++..|..++.+|++++.+|+.++..|+...+.|..-.  .+|.+.|..|++++..+.+.+.-+
T Consensus        72 eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l  135 (169)
T PF07106_consen   72 EELAELDAEIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKL  135 (169)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56777777788888888888888888888888887776  577888888888888888776544

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 [].

>PF07439 DUF1515: Protein of unknown function (DUF1515); InterPro: IPR010889 This family consists of several hypothetical bacterial proteins of around 130 residues in length

Probab=96.44  E-value=0.021  Score=43.89  Aligned_cols=55  Identities=15%  Similarity=0.447  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHHHHHH--HHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603           5 DMGSIKEDMASIKEDMV--SIKEDMA--SIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~--~LK~DV~--~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      -+..|..+|.+|++|+.  +=|+|.+  .+-.=+.+|-+.|..|.+++..||+||+++|
T Consensus         9 q~~~l~~~v~~lRed~r~SEdrsa~SRa~mhrRlDElV~Rv~~lEs~~~~lk~dVsemK   67 (112)
T PF07439_consen    9 QLGTLNAEVKELREDIRRSEDRSAASRASMHRRLDELVERVTTLESSVSTLKADVSEMK   67 (112)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHhHHHHHHHHHHHHHHHHHHHhhHHhcc
Confidence            34555555555555553  2222222  1223334444444555555555555555444

Members of this family seem to be found exclusively in Rhizobium species. The function of this family is unknown.

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=96.36  E-value=0.025  Score=48.66  Aligned_cols=50  Identities=10%  Similarity=0.408  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIK   52 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK   52 (150)
                      |++|..++.+|+.++.++.+++..+..++.+|+.+++..+++++.+..++
T Consensus       215 r~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~  264 (325)
T PF08317_consen  215 RQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAE  264 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555555555555555555555555554444444444443

>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=96.33  E-value=0.049  Score=38.40  Aligned_cols=53  Identities=11%  Similarity=0.329  Sum_probs=25.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMA   56 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs   56 (150)
                      .-|+++..-+..+++++..++.++..+-..++.+.+||....+.+..+=+.++
T Consensus        26 ~~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~l~~dv~~k~~~v~~~~~~v~   78 (90)
T PF06103_consen   26 KTLDEVNKTIDTLQEQVDPITKEINDLLHNTNELLEDVNEKLEKVDPVFEAVA   78 (90)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            33444455555555555555555555555555555555444444444433333

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6

Probab=96.30  E-value=0.026  Score=40.81  Aligned_cols=58  Identities=10%  Similarity=0.437  Sum_probs=41.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKE---DMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~---DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      ...++.|+.+...+...|..++.   |+.+|+..+..||+.+.+|.+.+..+.+.+..+=.
T Consensus        42 ~~~~e~lr~~rN~~sk~I~~~~~~~~~~~~l~~e~~~lk~~i~~le~~~~~~e~~l~~~l~  102 (108)
T PF02403_consen   42 QQELEELRAERNELSKEIGKLKKAGEDAEELKAEVKELKEEIKELEEQLKELEEELNELLL  102 (108)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCHTTCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45667777777777777777765   67777777777777777777777777777766543

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....

>PRK15396 murein lipoprotein; Provisional

Probab=96.28  E-value=0.029  Score=40.42  Aligned_cols=33  Identities=12%  Similarity=0.406  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          13 MASIKEDMVSIKEDMASIKVDMGSIKEDMGSIK   45 (150)
Q Consensus        13 v~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK   45 (150)
                      |..|.+||..|++.|.+|++|+..++.|+..-|
T Consensus        27 vd~LssqV~~L~~kvdql~~dv~~~~~~~~~a~   59 (78)
T PRK15396         27 IDQLSSDVQTLNAKVDQLSNDVNAMRSDVQAAK   59 (78)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333334343333333333333333

>PRK15396 murein lipoprotein; Provisional

Probab=96.22  E-value=0.02  Score=41.23  Aligned_cols=37  Identities=14%  Similarity=0.451  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          19 DMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus        19 Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      +|..|.+||..|+..|..|+.|+..++.|+...|++-
T Consensus        26 kvd~LssqV~~L~~kvdql~~dv~~~~~~~~~a~~eA   62 (78)
T PRK15396         26 KIDQLSSDVQTLNAKVDQLSNDVNAMRSDVQAAKDDA   62 (78)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555555555555555555555555555443

>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=96.20  E-value=0.063  Score=37.83  Aligned_cols=54  Identities=11%  Similarity=0.327  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           7 GSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      ..++.-++++..-+..+.+++..++.+++.+-+.+.++.+||....+.++.+=+
T Consensus        22 ~~l~~~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~l~~dv~~k~~~v~~~~~   75 (90)
T PF06103_consen   22 KKLKKTLDEVNKTIDTLQEQVDPITKEINDLLHNTNELLEDVNEKLEKVDPVFE   75 (90)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence            344455555555555555555555555555555555555555555555544433

>PF10349 WWbp: WW-domain ligand protein; InterPro: IPR018826 This entry represents a sequence domain found in WW domain-binding protein that is characterised by several short PY and PT-like motifs of the PPPPY form

Probab=96.17  E-value=0.067  Score=40.39  Aligned_cols=38  Identities=21%  Similarity=0.212  Sum_probs=16.9

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccc
Q psy9603          99 GYGVDKRGYGVDKRGYGVDKRGYGVDKRGYGVNKRGYR  136 (150)
Q Consensus        99 gYg~p~~gYg~p~~gYg~p~~gyg~~~~gyg~~~~gY~  136 (150)
                      +|+.++..+..++..|..++..+.++...+..++.+|+
T Consensus        75 ~y~~pp~~~~~~~~~~~~~p~~~~~~~~~~~~pPP~Y~  112 (116)
T PF10349_consen   75 AYGPPPPGYPPPPAAYPPPPPPNSVPMPGPQEPPPPYP  112 (116)
T ss_pred             ccCCCCCCCCCCCCcCCCCCCCcCcCCCCCCCCccCCC
Confidence            33433333444444444444444444444444444444

These appear to bind directly to the WW domains of WWP1 and WWP2 and other such diverse proteins as dystrophin and YAP (Yes-associated protein). The presence of a phosphotyrosine residue in the pWBP-1 peptide abolishes WW domain binding which suggests a potential regulatory role for tyrosine phosphorylation in modulating WW domain-ligand interactions. Given the likelihood that WWP1 and WWP2 function as E3 ubiquitin-protein ligases, it is possible that initial substrate-specific recognition occurs via WW domain-substrate protein interaction followed by ubiquitin transfer and subsequent proteolysis []. This domain lies just downstream of IPR004182 from INTERPRO in many sequences.

>PHA02607 wac fibritin; Provisional

Probab=96.04  E-value=0.033  Score=51.23  Aligned_cols=68  Identities=19%  Similarity=0.446  Sum_probs=54.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCccC
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKED------------MASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDK   69 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~D------------V~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg~~~   69 (150)
                      +.+....+++.|.++-++|+.+++-            |...+.||..||++++++++.++.+-.++.++..||+-|.+..
T Consensus        57 ld~n~~~~~~kine~vd~vn~I~~~L~~~gD~~~i~qv~~n~~dI~~lk~~~~~~~~~l~~~~~~~~~~~~~iG~~~p~~  136 (454)
T PHA02607         57 LDENTKKTKDKINEVVDDVNTIQENLDVIGDISVIDQINQNVADIEVLKKDVSDTTDKLAGTTNEVDEIEADIGVFNPEA  136 (454)
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHHHhhccCcHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhcCCcCccc
Confidence            3456667777777777777777753            3467899999999999999999999999999999999888653

>smart00787 Spc7 Spc7 kinetochore protein

Probab=96.03  E-value=0.047  Score=47.57  Aligned_cols=54  Identities=6%  Similarity=0.311  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      ++.++++++.+..++...+.++.+++..+..++.+|.+.++....+.+.++++.
T Consensus       206 L~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae  259 (312)
T smart00787      206 LDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAEAE  259 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444444444444444444444444444444444433

This domain is found in cell division proteins which are required for kinetochore-spindle association.

>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes []

Probab=95.98  E-value=0.053  Score=37.39  Aligned_cols=50  Identities=20%  Similarity=0.342  Sum_probs=35.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSI   51 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~L   51 (150)
                      |+++|..++.++..+.+++..++..-+.+.+++..+-+++++|++...=+
T Consensus         4 i~e~l~~ie~~l~~~~~~i~~lE~~~~~~e~~i~~~~~~l~~I~~n~kW~   53 (71)
T PF10779_consen    4 IKEKLNRIETKLDNHEERIDKLEKRDAANEKDIKNLNKQLEKIKSNTKWI   53 (71)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56777777777777777777777777777777777777777777665433

>TIGR03545 conserved hypothetical protein TIGR03545

Probab=95.94  E-value=0.042  Score=51.31  Aligned_cols=45  Identities=29%  Similarity=0.479  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKE-------DMVSIKEDMASIKVDMGSIKEDMGSIKDD   47 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~-------Dv~~LK~DV~~LK~DV~~LK~DV~~LK~D   47 (150)
                      |++++++|+.|++|++       |+...|+++.+||.++...|+-+..+|+|
T Consensus       190 ~~~~~~yk~~v~~i~~~~ik~p~~i~~~~~e~d~lk~e~~~~~~~i~~~~~~  241 (555)
T TIGR03545       190 KQDLEEYKKRLEAIKKKDIKNPLELQKIKEEFDKLKKEGKADKQKIKSAKND  241 (555)
T ss_pred             chhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455555555555553       34455555555555554444444444333

This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair.

>KOG2391|consensus

Probab=95.88  E-value=0.053  Score=48.69  Aligned_cols=63  Identities=11%  Similarity=0.227  Sum_probs=51.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGG   64 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigG   64 (150)
                      +++.|+.+..++++||.-=.+|+++..+|+..+++|+..+..|++++.+||+.+.+.-+|...
T Consensus       223 ~eeeme~~~aeq~slkRt~EeL~~G~~kL~~~~etLEqq~~~L~~niDIL~~k~~eal~~~~n  285 (365)
T KOG2391|consen  223 REEEMERLQAEQESLKRTEEELNIGKQKLVAMKETLEQQLQSLQKNIDILKSKVREALEKAEN  285 (365)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcc
Confidence            466778888888888888888888888888888888888888888888888888886666544

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=95.87  E-value=0.091  Score=41.24  Aligned_cols=64  Identities=14%  Similarity=0.395  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCccC
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDK   69 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg~~~   69 (150)
                      |..+++.+..+.++...++.++...+..+..+++++..+|.+-..++.....++..-+-|..|.
T Consensus        79 L~h~keKl~~~~~~~~~l~~~l~~~~~~~~~~r~~l~~~k~~r~k~~~~~~~l~~~~~~~~~P~  142 (177)
T PF13870_consen   79 LTHVKEKLHFLSEELERLKQELKDREEELAKLREELYRVKKERDKLRKQNKKLRQQGGLLGVPA  142 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcH
Confidence            4567777888888888888888888888888888888888888888888888888888877764

>smart00787 Spc7 Spc7 kinetochore protein

Probab=95.83  E-value=0.057  Score=47.02  Aligned_cols=28  Identities=7%  Similarity=0.278  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          24 KEDMASIKVDMGSIKEDMGSIKDDMGSI   51 (150)
Q Consensus        24 K~DV~~LK~DV~~LK~DV~~LK~DV~~L   51 (150)
                      |+.+++++.++...+.++.++++.+..+
T Consensus       210 k~~l~~~~~ei~~~~~~l~e~~~~l~~l  237 (312)
T smart00787      210 KEKLKKLLQEIMIKVKKLEELEEELQEL  237 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333

This domain is found in cell division proteins which are required for kinetochore-spindle association.

>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []

Probab=95.77  E-value=0.085  Score=35.98  Aligned_cols=36  Identities=14%  Similarity=0.422  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDM   41 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV   41 (150)
                      |++|.++|..|+..|+.+|....+|+.+|..|++.|
T Consensus         2 i~elEn~~~~~~~~i~tvk~en~~i~~~ve~i~env   37 (55)
T PF05377_consen    2 IDELENELPRIESSINTVKKENEEISESVEKIEENV   37 (55)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455666666666666666666666665555555555

In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].

>PRK10884 SH3 domain-containing protein; Provisional

Probab=95.77  E-value=0.078  Score=43.80  Aligned_cols=58  Identities=5%  Similarity=0.235  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIK----VDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK----~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      ++-+..++.++++|++.++++.++..+.+    +.++..+.-+++|+++-..|++.++.+++
T Consensus        92 ~~rlp~le~el~~l~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~  153 (206)
T PRK10884         92 RTRVPDLENQVKTLTDKLNNIDNTWNQRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQK  153 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566777777777777777766654433    33333333334444444444444444433

>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional

Probab=95.76  E-value=0.42  Score=44.41  Aligned_cols=57  Identities=9%  Similarity=0.267  Sum_probs=43.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      -+.+.++..++|+..+..||+++..|+.....+.+.+.+|.+++..||+.+..+++.
T Consensus        70 ALteqQ~kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql~a~~~~  126 (475)
T PRK13729         70 ATTEMQVTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQVKALGAN  126 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhcC
Confidence            355566677788888888888888777888888888888888888888888665554

>PF10349 WWbp: WW-domain ligand protein; InterPro: IPR018826 This entry represents a sequence domain found in WW domain-binding protein that is characterised by several short PY and PT-like motifs of the PPPPY form

Probab=95.64  E-value=0.15  Score=38.55  Aligned_cols=47  Identities=21%  Similarity=0.243  Sum_probs=28.8

Q ss_pred             CCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q psy9603          85 GYGVDK-SGYGVDKSGYGVDKRGYGVDKRGYGVDKRGYGVDKRGYGVN  131 (150)
Q Consensus        85 GYg~~~-~gYg~p~~gYg~p~~gYg~p~~gYg~p~~gyg~~~~gyg~~  131 (150)
                      .|++|+ .+|+.++..+..++..|..++..+.++...+..+|.+|..+
T Consensus        67 ~y~~Pp~~~y~~pp~~~~~~~~~~~~~p~~~~~~~~~~~~pPP~Y~~~  114 (116)
T PF10349_consen   67 PYGAPPPPAYGPPPPGYPPPPAAYPPPPPPNSVPMPGPQEPPPPYPEP  114 (116)
T ss_pred             CCCCCCCcccCCCCCCCCCCCCcCCCCCCCcCcCCCCCCCCccCCCCC
Confidence            344454 56666655566666666666666666666666666666554

These appear to bind directly to the WW domains of WWP1 and WWP2 and other such diverse proteins as dystrophin and YAP (Yes-associated protein). The presence of a phosphotyrosine residue in the pWBP-1 peptide abolishes WW domain binding which suggests a potential regulatory role for tyrosine phosphorylation in modulating WW domain-ligand interactions. Given the likelihood that WWP1 and WWP2 function as E3 ubiquitin-protein ligases, it is possible that initial substrate-specific recognition occurs via WW domain-substrate protein interaction followed by ubiquitin transfer and subsequent proteolysis []. This domain lies just downstream of IPR004182 from INTERPRO in many sequences.

>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 []

Probab=95.63  E-value=0.1  Score=41.87  Aligned_cols=60  Identities=12%  Similarity=0.411  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH-------HHHHHHHHHHHHhhhhcC
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMAS----IKVDMGSIKEDMGSIK-------DDMGSIKEDMASIKEDIG   63 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~----LK~DV~~LK~DV~~LK-------~DV~~LK~Dvs~lK~Dig   63 (150)
                      +-|+.|+.++...++.+..+-+++..    |..|...||+|+.++.       .++..|+.++..+++.|.
T Consensus       110 ~~i~~L~~~i~~~q~~~~~~i~~L~~f~~~l~~D~~~l~~~~~~l~~~l~~~~g~I~~L~~~I~~~~~~I~  180 (184)
T PF05791_consen  110 EIIEDLQDQIQKNQDKVQALINELNDFKDKLQKDSRNLKTDVDELQSILAGENGDIPQLQKQIENLNEEIK  180 (184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHTGGG-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhcccCCHHHHHHHHHHHHHHHH
Confidence            34444455555555444444444433    2345555555555443       455666777776666553

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.

>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []

Probab=95.53  E-value=0.061  Score=36.68  Aligned_cols=37  Identities=14%  Similarity=0.403  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          13 MASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMG   49 (150)
Q Consensus        13 v~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~   49 (150)
                      |.+|.++|..+++-|+.+|.....|+++|..|++.|.
T Consensus         2 i~elEn~~~~~~~~i~tvk~en~~i~~~ve~i~envk   38 (55)
T PF05377_consen    2 IDELENELPRIESSINTVKKENEEISESVEKIEENVK   38 (55)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5677777777777777777777777777777776663

In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].

>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation

Probab=95.50  E-value=0.25  Score=34.89  Aligned_cols=55  Identities=20%  Similarity=0.315  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      .-|..+-+.|+.|+.++..||+...+|+.....|+.....||++-...++-+..|
T Consensus        11 ~ki~~aveti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~e~~~~~~rl~~L   65 (72)
T PF06005_consen   11 EKIQQAVETIALLQMENEELKEKNNELKEENEELKEENEQLKQERNAWQERLRSL   65 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455666677777777777777777777777777777777777777776666654

It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=95.42  E-value=0.13  Score=42.11  Aligned_cols=55  Identities=16%  Similarity=0.307  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      .|++||++|+++|..-...+..|.++..+...|++-+..+.+++..|+.++....
T Consensus        28 lIksLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~y~   82 (201)
T PF13851_consen   28 LIKSLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQLKNYE   82 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            4566666666666666666666666555555555555555555555555444433

>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []

Probab=95.41  E-value=0.054  Score=35.13  Aligned_cols=37  Identities=22%  Similarity=0.440  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          17 KEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus        17 K~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      ..|-..||++-..||.|-..|+.+...|+..|..|+.
T Consensus         4 E~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~~   40 (45)
T PF02183_consen    4 ERDYDALKASYDSLKAEYDSLKKENEKLRAEVQELKE   40 (45)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444444443

; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus

>PHA02562 46 endonuclease subunit; Provisional

Probab=95.37  E-value=0.065  Score=47.73  Aligned_cols=50  Identities=12%  Similarity=0.336  Sum_probs=19.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q psy9603          14 ASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIG   63 (150)
Q Consensus        14 ~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Dig   63 (150)
                      ..|++++..|++++..|+.++..+-+.++.++.++..++.++..++.++.
T Consensus       230 ~~l~~~l~~l~~~i~~l~~~i~~~~~~L~~l~~~~~~~~~~l~~~~~~~~  279 (562)
T PHA02562        230 KTIKAEIEELTDELLNLVMDIEDPSAALNKLNTAAAKIKSKIEQFQKVIK  279 (562)
T ss_pred             HHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333222233344444444444444444433

>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 []

Probab=95.32  E-value=0.1  Score=41.75  Aligned_cols=54  Identities=13%  Similarity=0.392  Sum_probs=32.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      .|.+.+++-|..|+..|...++.|..+-.++..+|.+   |.+|.+.|++++..+.+
T Consensus       103 ~~~~~~~~~i~~L~~~i~~~q~~~~~~i~~L~~f~~~---l~~D~~~l~~~~~~l~~  156 (184)
T PF05791_consen  103 KDKEDLKEIIEDLQDQIQKNQDKVQALINELNDFKDK---LQKDSRNLKTDVDELQS  156 (184)
T ss_dssp             T-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHhHHHHHH
Confidence            4566677777777777777777777777777666542   33445555555544443

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.

>TIGR03545 conserved hypothetical protein TIGR03545

Probab=95.29  E-value=0.068  Score=49.91  Aligned_cols=8  Identities=13%  Similarity=0.513  Sum_probs=3.3

Q ss_pred             HHHHhhhh
Q psy9603          54 DMASIKED   61 (150)
Q Consensus        54 Dvs~lK~D   61 (150)
                      |++.|++.
T Consensus       263 D~~~L~~~  270 (555)
T TIGR03545       263 DLKRLENK  270 (555)
T ss_pred             HHHHHHHH
Confidence            44444433

This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair.

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=95.27  E-value=0.13  Score=42.69  Aligned_cols=64  Identities=6%  Similarity=0.276  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCc
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGV   67 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg~   67 (150)
                      ..+..|..|+..|+.-++...++...+..++..+......|.++|..|..+|.++-+++..|+.
T Consensus        52 ~~l~~L~~d~~~L~~k~~~~~~~~~~l~~~t~~t~~~a~~L~~~i~~l~~~i~~l~~~~~~l~~  115 (264)
T PF06008_consen   52 KELESLEQDVENLQEKATKVSRKAQQLNNNTERTLQRAQDLEQFIQNLQDNIQELIEQVESLNE  115 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCc
Confidence            4466666666666666777777777788888888888888888999999999999999888886

Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex

>PRK09973 putative outer membrane lipoprotein; Provisional

Probab=95.12  E-value=0.071  Score=39.17  Aligned_cols=33  Identities=9%  Similarity=0.372  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          20 MVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIK   52 (150)
Q Consensus        20 v~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK   52 (150)
                      |.+|.+||+.|+.+|..|..||..+|.++..-|
T Consensus        26 vdqLss~V~~L~~kvdql~~dv~~a~aaa~aAk   58 (85)
T PRK09973         26 VNQLASNVQTLNAKIARLEQDMKALRPQIYAAK   58 (85)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333

>PHA02562 46 endonuclease subunit; Provisional

Probab=95.09  E-value=0.085  Score=47.01  Aligned_cols=14  Identities=7%  Similarity=0.503  Sum_probs=5.1

Q ss_pred             HHHHHHHHHHHHHh
Q psy9603          45 KDDMGSIKEDMASI   58 (150)
Q Consensus        45 K~DV~~LK~Dvs~l   58 (150)
                      +.++..|++++..+
T Consensus       233 ~~~l~~l~~~i~~l  246 (562)
T PHA02562        233 KAEIEELTDELLNL  246 (562)
T ss_pred             HHHHHHHHHHHHHH
Confidence            33333333333333

>PRK09973 putative outer membrane lipoprotein; Provisional

Probab=95.09  E-value=0.099  Score=38.40  Aligned_cols=37  Identities=11%  Similarity=0.354  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          12 DMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus        12 dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV   48 (150)
                      +|..|.+||..|+++|..+.+||..+|.++..-|++-
T Consensus        25 kvdqLss~V~~L~~kvdql~~dv~~a~aaa~aAk~EA   61 (85)
T PRK09973         25 KVNQLASNVQTLNAKIARLEQDMKALRPQIYAAKSEA   61 (85)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555556666666666666666666655555544

>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=95.08  E-value=0.21  Score=41.97  Aligned_cols=53  Identities=9%  Similarity=0.357  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603          10 KEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus        10 k~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      -++|..|.+||+.|-.-|.+.+++-...++.+..+-+++.-||+.|.++..+.
T Consensus        52 ~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~e~  104 (230)
T PF10146_consen   52 VEELRQINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRKEY  104 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455556666666666666666666666667666677777777777777773

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.

>smart00503 SynN Syntaxin N-terminal domain

Probab=95.06  E-value=0.14  Score=36.39  Aligned_cols=13  Identities=8%  Similarity=0.432  Sum_probs=5.9

Q ss_pred             HHHHHHHHHhhhh
Q psy9603          49 GSIKEDMASIKED   61 (150)
Q Consensus        49 ~~LK~Dvs~lK~D   61 (150)
                      ..+|.++..|+..
T Consensus        60 ~~i~~~lk~l~~~   72 (117)
T smart00503       60 KEIRAKLKELEKE   72 (117)
T ss_pred             HHHHHHHHHHHHh
Confidence            3444455544443

Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p

>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra []

Probab=95.05  E-value=0.13  Score=36.96  Aligned_cols=55  Identities=7%  Similarity=0.407  Sum_probs=35.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      |++||+.+.++|..|.+.|..|++.+    .||++|.+-+..+-+-+..|..-|+++-+
T Consensus         9 Ir~dIk~vd~KVdaLq~~V~~l~~~~----~~v~~l~~klDa~~~~l~~l~~~V~~I~~   63 (75)
T PF05531_consen    9 IRQDIKAVDDKVDALQTQVDDLESNL----PDVTELNKKLDAQSAQLTTLNTKVNEIQD   63 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcC----CchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56777777777777777776665544    45666666666666666666666665544

; GO: 0019028 viral capsid

>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]

Probab=94.94  E-value=0.13  Score=41.53  Aligned_cols=57  Identities=12%  Similarity=0.317  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHhhhhc
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKED--------MGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~D--------V~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      +..++++|..|++.|..|++-+..+-+|++.+++.        |.+|++.|..||.-++..+.|+
T Consensus        74 ~~~~~eelerLe~~iKdl~~lye~Vs~d~Npf~s~~~qes~~~veel~eqV~el~~i~emv~~d~  138 (157)
T COG3352          74 LQDIKEELERLEENIKDLVSLYELVSRDFNPFMSKTPQESRGIVEELEEQVNELKMIVEMVIKDL  138 (157)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            33444444444444444444444444444433332        4445555555555555555554

>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles

Probab=94.87  E-value=0.18  Score=34.39  Aligned_cols=50  Identities=14%  Similarity=0.351  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIK-VDMGSIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK-~DV~~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      |..++.+|.+..+-|.+|.-+|..+- ++-..+++.|...|+++..||.++
T Consensus        27 i~~~e~~l~ea~~~l~qMe~E~~~~p~s~r~~~~~kl~~yr~~l~~lk~~l   77 (79)
T PF05008_consen   27 IREIERDLDEAEELLKQMELEVRSLPPSERNQYKSKLRSYRSELKKLKKEL   77 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCTS-HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44444444444444454444444442 333444445555555555554443

The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.

>KOG1962|consensus

Probab=94.87  E-value=0.14  Score=43.14  Aligned_cols=61  Identities=13%  Similarity=0.388  Sum_probs=47.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIG   63 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Dig   63 (150)
                      ++.+..+++|...|++++.+.+.|.....+|+..||.-..++..+-..|.+|-+.|.+.|-
T Consensus       150 ~~~~~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~i~  210 (216)
T KOG1962|consen  150 EEENDKLKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQIE  210 (216)
T ss_pred             hhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHh
Confidence            3556777777788888888888888888888888888888888888888888888877654

>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []

Probab=94.86  E-value=0.1  Score=34.99  Aligned_cols=39  Identities=15%  Similarity=0.430  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          13 MASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSI   51 (150)
Q Consensus        13 v~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~L   51 (150)
                      +..++..+..|++.+..++++...|++++..|+.|-..+
T Consensus        19 ~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l~~~~~~i   57 (80)
T PF04977_consen   19 YYQLNQEIAELQKEIEELKKENEELKEEIERLKNDPDYI   57 (80)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHH
Confidence            344555555555555555555555555555554444443

These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=94.86  E-value=0.22  Score=40.73  Aligned_cols=20  Identities=15%  Similarity=0.506  Sum_probs=9.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhh
Q psy9603          40 DMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus        40 DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      +|+.||.++..|++++..++
T Consensus       160 ei~~lks~~~~l~~~~~~~e  179 (190)
T PF05266_consen  160 EISRLKSEAEALKEEIENAE  179 (190)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444443

>PLN02678 seryl-tRNA synthetase

Probab=94.77  E-value=0.16  Score=46.45  Aligned_cols=64  Identities=9%  Similarity=0.255  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCccC
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDM----------ASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDK   69 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV----------~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg~~~   69 (150)
                      .+.++.++..|+.+.+.+...|          ++|+..+..||+++..|.+++..+++++..+=..|+=.=.|.
T Consensus        42 ~r~l~~~~e~lr~erN~~sk~I~~~k~~~~~~~~l~~~~~~Lk~ei~~le~~~~~~~~~l~~~~~~iPNi~~~~  115 (448)
T PLN02678         42 WRQRQFELDSLRKEFNKLNKEVAKLKIAKEDATELIAETKELKKEITEKEAEVQEAKAALDAKLKTIGNLVHDS  115 (448)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcc
Confidence            3445555555555555544444          445555556666666666666666666666555555544443

>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization

Probab=94.74  E-value=0.17  Score=33.76  Aligned_cols=33  Identities=15%  Similarity=0.450  Sum_probs=13.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          13 MASIKEDMVSIKEDMASIKVDMGSIKEDMGSIK   45 (150)
Q Consensus        13 v~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK   45 (150)
                      |..|.+.|..|.++...|+..+..|+..+..|+
T Consensus        28 ~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~   60 (64)
T PF00170_consen   28 IEELEEKVEELESENEELKKELEQLKKEIQSLK   60 (64)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333344444444444444444444444443

; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....

>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []

Probab=94.65  E-value=0.13  Score=33.32  Aligned_cols=35  Identities=20%  Similarity=0.452  Sum_probs=14.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603          25 EDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus        25 ~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      .|-..||.+-..||.|-..|+.+...|+..|..++
T Consensus         5 ~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~   39 (45)
T PF02183_consen    5 RDYDALKASYDSLKAEYDSLKKENEKLRAEVQELK   39 (45)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444444444433

; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus

>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT)

Probab=94.61  E-value=0.43  Score=36.18  Aligned_cols=22  Identities=27%  Similarity=0.540  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDM   27 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV   27 (150)
                      +..+++.++...+.+..++.|+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~dl   33 (132)
T PF07926_consen   12 LQRLKEQEEDAEEQLQSLREDL   33 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333344444444

These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore

>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []

Probab=94.61  E-value=0.13  Score=34.52  Aligned_cols=39  Identities=15%  Similarity=0.392  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSI   44 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~L   44 (150)
                      +..++.+++.|++.+..+++....|+.++..||.|-+.+
T Consensus        19 ~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l~~~~~~i   57 (80)
T PF04977_consen   19 YYQLNQEIAELQKEIEELKKENEELKEEIERLKNDPDYI   57 (80)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHH
Confidence            334444444444444444444444444444443343333

These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=94.58  E-value=0.33  Score=39.70  Aligned_cols=15  Identities=20%  Similarity=0.601  Sum_probs=6.9

Q ss_pred             HHHHHHHHHHHhhhh
Q psy9603          47 DMGSIKEDMASIKED   61 (150)
Q Consensus        47 DV~~LK~Dvs~lK~D   61 (150)
                      ++..||.+++.++++
T Consensus       160 ei~~lks~~~~l~~~  174 (190)
T PF05266_consen  160 EISRLKSEAEALKEE  174 (190)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            344444444444443

>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []

Probab=94.58  E-value=0.42  Score=36.70  Aligned_cols=15  Identities=20%  Similarity=0.625  Sum_probs=9.5

Q ss_pred             HHHHHHHHHHHHhhh
Q psy9603          46 DDMGSIKEDMASIKE   60 (150)
Q Consensus        46 ~DV~~LK~Dvs~lK~   60 (150)
                      +.|..||.||..+|.
T Consensus        96 E~veEL~~Dv~DlK~  110 (120)
T PF12325_consen   96 EEVEELRADVQDLKE  110 (120)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            355666777776664

The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=94.53  E-value=0.34  Score=37.73  Aligned_cols=60  Identities=8%  Similarity=0.317  Sum_probs=41.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      ||.+-....+.+..++..+..+..+...+-.+|..|..-+..|-.||..+.+.+..+|+.
T Consensus         5 lk~E~d~a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~   64 (143)
T PF12718_consen    5 LKLEADNAQDRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEK   64 (143)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566666666667777777777777766666777777777777777776666666666654

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]

Probab=94.53  E-value=0.3  Score=39.51  Aligned_cols=60  Identities=13%  Similarity=0.224  Sum_probs=48.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIK--------VDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK--------~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      |++.|+.|++.++.|+.-+..+.+|+.-++        ..|..|++.|.+||.-+...+.|+..++-+
T Consensus        77 ~~eelerLe~~iKdl~~lye~Vs~d~Npf~s~~~qes~~~veel~eqV~el~~i~emv~~d~~~l~g~  144 (157)
T COG3352          77 IKEELERLEENIKDLVSLYELVSRDFNPFMSKTPQESRGIVEELEEQVNELKMIVEMVIKDLRELYGV  144 (157)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhcCC
Confidence            577888888888888888888888876443        358889999999999999999999888654

>PF07439 DUF1515: Protein of unknown function (DUF1515); InterPro: IPR010889 This family consists of several hypothetical bacterial proteins of around 130 residues in length

Probab=94.49  E-value=0.27  Score=37.88  Aligned_cols=14  Identities=14%  Similarity=0.537  Sum_probs=7.7

Q ss_pred             hHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMAS   15 (150)
Q Consensus         2 ik~Di~~Lk~dv~~   15 (150)
                      |.++|++|++|+.+
T Consensus        13 l~~~v~~lRed~r~   26 (112)
T PF07439_consen   13 LNAEVKELREDIRR   26 (112)
T ss_pred             HHHHHHHHHHHHHH
Confidence            34556666666543

Members of this family seem to be found exclusively in Rhizobium species. The function of this family is unknown.

>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

Probab=94.46  E-value=0.25  Score=45.18  Aligned_cols=55  Identities=9%  Similarity=0.422  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      .||+.++..|...++....|.+.+..+++||+.|...+.+...|+..++.+++.+
T Consensus        45 ~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~   99 (420)
T COG4942          45 KEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADL   99 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHH
Confidence            3444444444444444444444444444444444444444444444444444443

>PRK13169 DNA replication intiation control protein YabA; Reviewed

Probab=94.43  E-value=0.35  Score=36.79  Aligned_cols=54  Identities=7%  Similarity=0.323  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           7 GSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      +.|=+.|+.|.+.|..|-++|++||++|..|=+.-+.|+-+..-|++-++.+.+
T Consensus         4 ~elfd~l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~~~   57 (110)
T PRK13169          4 KEIFDALDDLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEELEA   57 (110)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            456677888888888888888888888888888888888888888888887644

>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication

Probab=94.39  E-value=0.38  Score=36.22  Aligned_cols=54  Identities=7%  Similarity=0.316  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           7 GSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      +.|=+.|..|.+.+..|-++|.+||..|..|=+.-++|+-...-|++-++.+.+
T Consensus         4 ~~l~~~l~~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~~~   57 (107)
T PF06156_consen    4 KELFDRLDQLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLRERLEELEQ   57 (107)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            456667778888888888888888888888888888888888888887777655

SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=94.36  E-value=0.4  Score=39.97  Aligned_cols=8  Identities=25%  Similarity=0.767  Sum_probs=2.9

Q ss_pred             HHHHHHhh
Q psy9603          52 KEDMASIK   59 (150)
Q Consensus        52 K~Dvs~lK   59 (150)
                      ...++.++
T Consensus       268 e~el~~l~  275 (312)
T PF00038_consen  268 EEELAELR  275 (312)
T ss_dssp             HHHHHHHH
T ss_pred             chhHHHHH
Confidence            33333333

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>PF08700 Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT tethering complex (also known as GARP complex, Golgi associated retrograde protein complex, Vps53 tethering complex) is a conserved eukaryotic docking complex which is involved in recycling of proteins from endosomes to the late Golgi

Probab=94.32  E-value=0.48  Score=32.55  Aligned_cols=56  Identities=11%  Similarity=0.388  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMAS-----------IKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~-----------LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      .+..|+.-...|..++....+++..           .-.+|..|+.++.+|++-+..|+..+..+.+
T Consensus        20 s~~~i~~~~~~L~~~i~~~~~eLr~~V~~nY~~fI~as~~I~~m~~~~~~l~~~l~~l~~~~~~l~~   86 (87)
T PF08700_consen   20 SIKEIRQLENKLRQEIEEKDEELRKLVYENYRDFIEASDEISSMENDLSELRNLLSELQQSIQSLQE   86 (87)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            4555555566666666665555542           3356677777777777777777777666543

Vps51 (also known as Vps67) is a subunit of VFT and interacts with the SNARE Tlg1 [].

>PF03915 AIP3: Actin interacting protein 3; InterPro: IPR022782 This entry represents a domain found in yeast actin interacting protein 3 and bud site selection protein 6

Probab=94.32  E-value=0.33  Score=44.29  Aligned_cols=56  Identities=9%  Similarity=0.285  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMAS-----IKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~-----LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      .++...|-++|..|++-|..|+.||..     .+..+..+..|++.++.++..|++=|..+
T Consensus       212 ~~~sd~Ll~kVdDLQD~VE~LRkDV~~RgvRp~~~qle~v~kdi~~a~~~L~~m~~~i~~~  272 (424)
T PF03915_consen  212 SEESDRLLTKVDDLQDLVEDLRKDVVQRGVRPSPKQLETVAKDISRASKELKKMKEYIKTE  272 (424)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            456666777777777777777777753     33444444444444444444444444333

In these proteins it is typically found towards the C terminus. It is also found in metazoan proteins, such as the mouse enhancer trap locus 4 protein. ; PDB: 3ONX_B 3OKQ_A.

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=94.31  E-value=0.37  Score=37.65  Aligned_cols=42  Identities=12%  Similarity=0.548  Sum_probs=17.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKD   46 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~   46 (150)
                      ++..+++-++.+.+++..+.+.+.++..+...+|.+...+.+
T Consensus        82 e~~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~  123 (191)
T PF04156_consen   82 ELSELQQQLQQLQEELDQLQERIQELESELEKLKEDLQELRE  123 (191)
T ss_pred             hHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            334444444444444444444444444444444333333333

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

>KOG3156|consensus

Probab=94.29  E-value=0.36  Score=40.93  Aligned_cols=16  Identities=19%  Similarity=0.493  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHHhhhh
Q psy9603          46 DDMGSIKEDMASIKED   61 (150)
Q Consensus        46 ~DV~~LK~Dvs~lK~D   61 (150)
                      ++|..||..|.++|..
T Consensus       181 ~Ev~~lk~qi~s~K~q  196 (220)
T KOG3156|consen  181 QEVTNLKTQIESVKTQ  196 (220)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            4555555555555543

>KOG0250|consensus

Probab=94.25  E-value=0.18  Score=50.70  Aligned_cols=58  Identities=12%  Similarity=0.477  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      +++|.++++.+..++.+++..++.+.++++|+..+|..+..+|..+.....+|..+|+
T Consensus       315 r~k~teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~re~~~~~~~~~~~~n~i~~~k~  372 (1074)
T KOG0250|consen  315 RQKLTEIEAKIGELKDEVDAQDEEIEEARKDLDDLRREVNDLKEEIREIENSIRKLKK  372 (1074)
T ss_pred             hhhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455666666666666666666666666666666666555555544444444444443

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=94.17  E-value=0.47  Score=37.96  Aligned_cols=53  Identities=8%  Similarity=0.370  Sum_probs=22.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      |..|+.+++.|++.+..++..|.++...+..|+.++..|.--.+.+.+.+..+
T Consensus       118 l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l  170 (194)
T PF08614_consen  118 LAELEAELAQLEEKIKDLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKL  170 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444444444444444444444443333

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.

>PRK05431 seryl-tRNA synthetase; Provisional

Probab=94.15  E-value=0.27  Score=44.11  Aligned_cols=68  Identities=12%  Similarity=0.331  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCccCCCCC
Q psy9603           6 MGSIKEDMASIKEDMVSIK---EDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDKRGYG   73 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK---~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg~~~~gYg   73 (150)
                      ++.|+.+...+...|..++   +|..+|+..+..||+++.+|++....+++++..+=.-|+=.=-+-.--|
T Consensus        44 ~~~lr~~rn~~sk~i~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~iPN~~~~~vP~g  114 (425)
T PRK05431         44 LEELQAERNALSKEIGQAKRKGEDAEALIAEVKELKEEIKALEAELDELEAELEELLLRIPNLPHDSVPVG  114 (425)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCccCCCC
Confidence            3444444444444443322   1344566666666666666666666666666666655555544444333

>KOG4603|consensus

Probab=94.07  E-value=0.48  Score=39.48  Aligned_cols=60  Identities=12%  Similarity=0.365  Sum_probs=38.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVD--MGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~D--V~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      |+.+|..|.+.+.+|++....+.++|.+|..-  +.+|.+.+++||..|+...+.+..+|+-
T Consensus        84 ld~~i~~l~ek~q~l~~t~s~veaEik~L~s~Lt~eemQe~i~~L~kev~~~~erl~~~k~g  145 (201)
T KOG4603|consen   84 LDGKIVALTEKVQSLQQTCSYVEAEIKELSSALTTEEMQEEIQELKKEVAGYRERLKNIKAG  145 (201)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34566666666667776666666666655543  3456666777777777776666666653

>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4

Probab=93.98  E-value=0.43  Score=41.45  Aligned_cols=59  Identities=17%  Similarity=0.388  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      .+|+..+.+++.+++++.....++.+++.=|..+|.-+++|+..-+.|...|..+|+.|
T Consensus       200 r~l~~~~~ELe~~~EeL~~~Eke~~e~~~~i~e~~~rl~~l~~~~~~l~k~~~~~~sKV  258 (269)
T PF05278_consen  200 RKLELKKEELEELEEELKQKEKEVKEIKERITEMKGRLGELEMESTRLSKTIKSIKSKV  258 (269)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555566666666666666666666666666666666666666666666666654

>TIGR00414 serS seryl-tRNA synthetase

Probab=93.95  E-value=0.34  Score=43.44  Aligned_cols=64  Identities=8%  Similarity=0.242  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCccCC
Q psy9603           7 GSIKEDMASIKEDMVSIKED-----------MASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDKR   70 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK~D-----------V~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg~~~~   70 (150)
                      +.++.++..|+.+.+.+...           .++|+..+..||+++.+|++.+..+++++..+=..|+=.=.+-.
T Consensus        40 r~~~~~~~~l~~erN~~sk~i~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~lPN~~~~~v  114 (418)
T TIGR00414        40 KKLLSEIEELQAKRNELSKQIGKAKGQKKDKIEEIKKELKELKEELTELSAALKALEAELQDKLLSIPNIPHESV  114 (418)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCccC
Confidence            34444444444444444443           44555555555556666666666666666665555555544433

This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.

>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT)

Probab=93.94  E-value=0.64  Score=35.26  Aligned_cols=34  Identities=21%  Similarity=0.445  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSI   37 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~L   37 (150)
                      ..+..|+.++..+++++....+.+..++.|+...
T Consensus         3 ~e~~~l~~e~~~~~~~~~~~~~~~~~~~~dl~~q   36 (132)
T PF07926_consen    3 SELSSLQSELQRLKEQEEDAEEQLQSLREDLESQ   36 (132)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555555555555555555555555433

These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=93.92  E-value=0.56  Score=38.74  Aligned_cols=53  Identities=8%  Similarity=0.319  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      ++.+.++-..|.+++..|+..+..|+.-+..|+.-|+.+++.+..|++++..+
T Consensus        44 id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~   96 (251)
T PF11932_consen   44 IDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQI   96 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444555555554444444444444444444444444444443

However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=93.89  E-value=0.6  Score=38.95  Aligned_cols=24  Identities=21%  Similarity=0.533  Sum_probs=8.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          22 SIKEDMASIKVDMGSIKEDMGSIK   45 (150)
Q Consensus        22 ~LK~DV~~LK~DV~~LK~DV~~LK   45 (150)
                      .+|+++..+|..|..|..++..|+
T Consensus       213 ~~~~E~~~~r~~~~~l~~el~~l~  236 (312)
T PF00038_consen  213 SAKEELKELRRQIQSLQAELESLR  236 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHhHHHHHHhhhhHhhhhhhccc
Confidence            333333333333333333333333

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>PF15450 DUF4631: Domain of unknown function (DUF4631)

Probab=93.85  E-value=0.31  Score=45.80  Aligned_cols=63  Identities=14%  Similarity=0.399  Sum_probs=41.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHhhhhcCC
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMG--------SIKEDMGSIKDDMGSIKEDMASIKEDIGG   64 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~--------~LK~DV~~LK~DV~~LK~Dvs~lK~DigG   64 (150)
                      ++..++.|++.|.+|.+||..|..-...+|.|++        ....||..++++++.+=+.++-+|.+-++
T Consensus       410 ~~~~l~~v~eKVd~LpqqI~~vs~Kc~~~Ksd~d~kIdtE~k~R~~eV~~vRqELa~lLssvQ~~~e~~~~  480 (531)
T PF15450_consen  410 MEKHLKEVQEKVDSLPQQIEEVSDKCDLHKSDSDTKIDTEGKAREREVGAVRQELATLLSSVQLLKEDNPG  480 (531)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChh
Confidence            3456677777777777777777666666666554        34556677777777766666666665543

>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

Probab=93.79  E-value=0.4  Score=43.95  Aligned_cols=59  Identities=12%  Similarity=0.406  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIG   63 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Dig   63 (150)
                      .++.++.|++.++..|+..+.--+.|...+..++++++.|...+.....|+..++.+|.
T Consensus        39 ~l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~   97 (420)
T COG4942          39 QLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIA   97 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHH
Confidence            36677777777777777777777777778888888888877777777777777777663

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=93.75  E-value=0.6  Score=38.14  Aligned_cols=48  Identities=15%  Similarity=0.332  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603          14 ASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus        14 ~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      .+||++|..||.--...+..|..+..+...|++-+..+..++.+|+.+
T Consensus        30 ksLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~   77 (201)
T PF13851_consen   30 KSLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQ   77 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            333333333333333333444444444444444444444444444433

>PLN02678 seryl-tRNA synthetase

Probab=93.74  E-value=0.36  Score=44.10  Aligned_cols=58  Identities=5%  Similarity=0.239  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDM----------GSIKEDMGSIKDDMGSIKEDMASIKEDIG   63 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV----------~~LK~DV~~LK~DV~~LK~Dvs~lK~Dig   63 (150)
                      |-.|-++..+++..+..|+.+...+-..|          +.|++.+.+||+++..|..++..+++.+-
T Consensus        35 il~ld~~~r~l~~~~e~lr~erN~~sk~I~~~k~~~~~~~~l~~~~~~Lk~ei~~le~~~~~~~~~l~  102 (448)
T PLN02678         35 VIALDKEWRQRQFELDSLRKEFNKLNKEVAKLKIAKEDATELIAETKELKKEITEKEAEVQEAKAALD  102 (448)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555666666666666666554433          34445555556666666666666665554

>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

Probab=93.65  E-value=1.1  Score=30.62  Aligned_cols=13  Identities=23%  Similarity=0.478  Sum_probs=6.9

Q ss_pred             HHHHHHHHHhhhh
Q psy9603          49 GSIKEDMASIKED   61 (150)
Q Consensus        49 ~~LK~Dvs~lK~D   61 (150)
                      ..++..+..|+++
T Consensus        59 ~~~~~~lk~l~~~   71 (103)
T PF00804_consen   59 QKIKKRLKQLSKD   71 (103)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            4445555555555

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.

>TIGR01554 major_cap_HK97 phage major capsid protein, HK97 family

Probab=93.64  E-value=0.3  Score=42.24  Aligned_cols=55  Identities=13%  Similarity=0.375  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMAS   57 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~   57 (150)
                      ++-+..+++++..|.++.....++++..+.++..|++++..+++....++.++..
T Consensus         5 ~~~~~~~~~~~r~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~   59 (378)
T TIGR01554         5 KEQREEIVAEIRSLLDKAEKLEKELTAAALEKEELETDVEKLKEEIKLLEDAIAD   59 (378)
T ss_pred             HHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444445555555544333333444445555555555555555555555544433

This family represents the major capsid protein component of the heads (capsids) of bacteriophage HK97, phi-105, P27, and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease.

>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans

Probab=93.62  E-value=0.39  Score=43.53  Aligned_cols=26  Identities=31%  Similarity=0.520  Sum_probs=15.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDM   27 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV   27 (150)
                      |+++|.+|++....|.+++..||+++
T Consensus       217 ~~~el~eik~~~~~L~~~~e~Lk~~~  242 (395)
T PF10267_consen  217 ILEELREIKESQSRLEESIEKLKEQY  242 (395)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566666666666666666666543

Its function is unknown.

>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []

Probab=93.60  E-value=0.44  Score=46.20  Aligned_cols=37  Identities=0%  Similarity=0.283  Sum_probs=16.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKED   40 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~D   40 (150)
                      ..|..|+.|++.++..++..+++...|.+-...|+++
T Consensus        34 ~~i~~l~~elk~~~~~~~~~~~e~~rl~~~~~~~~~~   70 (717)
T PF09730_consen   34 QRILELENELKQLRQELSNVQAENERLSQLNQELRKE   70 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555555444444444333333333333

Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus

>TIGR00606 rad50 rad50

Probab=93.55  E-value=0.43  Score=48.02  Aligned_cols=64  Identities=11%  Similarity=0.260  Sum_probs=36.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHH---HHHHHHHHHHHHHHHHhhhhcCCCCc
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDM---GSIKEDM---GSIKDDMGSIKEDMASIKEDIGGYGV   67 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV---~~LK~DV---~~LK~DV~~LK~Dvs~lK~DigGyg~   67 (150)
                      +.+..+.+++..++.++..++..+..++.++   ..|+.||   ..+..++..++..|..++++...++.
T Consensus       751 ~~l~~le~~l~~~~~~le~~~~~l~~~~~~~~~~esL~~~v~~i~r~~~ei~~l~~qie~l~~~l~~~~~  820 (1311)
T TIGR00606       751 NKLQKVNRDIQRLKNDIEEQETLLGTIMPEEESAKVCLTDVTIMERFQMELKDVERKIAQQAAKLQGSDL  820 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            3344444444444444444444444444444   3344444   33367778888888888888877765

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins

Probab=93.55  E-value=0.52  Score=39.97  Aligned_cols=55  Identities=9%  Similarity=0.280  Sum_probs=42.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      |..|...=..+|+-+.+|.+++..+++.|..|+.+|+.||.|-..|=+.|.-|.+
T Consensus        81 LpIVtsQRDRFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN~kLYEKiRylqS  135 (248)
T PF08172_consen   81 LPIVTSQRDRFRQRNAELEEELRKQQQTISSLRREVESLRADNVKLYEKIRYLQS  135 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3445566667788888888888888888888888888888888888888877754

These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane

>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8

Probab=93.54  E-value=0.5  Score=37.44  Aligned_cols=34  Identities=9%  Similarity=0.357  Sum_probs=18.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603          25 EDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus        25 ~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      ++...++++|..||+++++.+.|+..||+....+
T Consensus       154 ~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l  187 (192)
T PF05529_consen  154 EENKKLSEEIEKLKKELEKKEKEIEALKKQSEGL  187 (192)
T ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555555555555555555555555444

Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane

>PLN02320 seryl-tRNA synthetase

Probab=93.54  E-value=0.36  Score=44.94  Aligned_cols=64  Identities=9%  Similarity=0.275  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCccC
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDM---------ASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDK   69 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV---------~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg~~~   69 (150)
                      .+.++.++..|+.+.+.+...|         .+|+..+..||+++.+|++++..+++++..+=.-|+=+=-+.
T Consensus       102 ~r~~~~~~~~lr~ern~~sk~i~~~~~~~~~~~l~~~~k~lk~~i~~le~~~~~~~~~l~~~~l~iPN~~h~~  174 (502)
T PLN02320        102 MLALQKEVERLRAERNAVANKMKGKLEPSERQALVEEGKNLKEGLVTLEEDLVKLTDELQLEAQSIPNMTHPD  174 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcc
Confidence            4455555555555555544444         455556666666666666666666666666655555554443

>KOG2391|consensus

Probab=93.49  E-value=0.4  Score=43.19  Aligned_cols=56  Identities=11%  Similarity=0.290  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIG   63 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Dig   63 (150)
                      ..+++|.++...+++||.==.+||.+.+.|++-+.+|++.+.+|+.++..||+.+.
T Consensus       222 r~eeeme~~~aeq~slkRt~EeL~~G~~kL~~~~etLEqq~~~L~~niDIL~~k~~  277 (365)
T KOG2391|consen  222 RREEEMERLQAEQESLKRTEEELNIGKQKLVAMKETLEQQLQSLQKNIDILKSKVR  277 (365)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            35667777777777777777788888888888888888888888888888877653

>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8

Probab=93.49  E-value=0.5  Score=37.45  Aligned_cols=59  Identities=14%  Similarity=0.345  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMAS-IKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIG   63 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~-LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Dig   63 (150)
                      ++..++++++.++....+..+.... .+++.+.+++++.+||+++...+.|+..||.-..
T Consensus       126 ~l~~~~~~~~~~~kq~~~~~~~~~~~~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~  185 (192)
T PF05529_consen  126 ELIKLEEKLEALKKQAESASEAAEKLLKEENKKLSEEIEKLKKELEKKEKEIEALKKQSE  185 (192)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444443333333332 4567777888888888888888888888876543

Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane

>PRK05431 seryl-tRNA synthetase; Provisional

Probab=93.49  E-value=0.44  Score=42.81  Aligned_cols=62  Identities=6%  Similarity=0.367  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIK---VDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGY   65 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK---~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGy   65 (150)
                      ++.+.++.++..|+.+.+.+...|..+|   .|.+.|++.+.+||+++..|++.+..+++++--.
T Consensus        35 ~~~r~l~~~~~~lr~~rn~~sk~i~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~   99 (425)
T PRK05431         35 EERRELQTELEELQAERNALSKEIGQAKRKGEDAEALIAEVKELKEEIKALEAELDELEAELEEL   99 (425)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456677777788888888877787644   2567788888888888888888888888877543

>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=93.48  E-value=0.67  Score=39.00  Aligned_cols=46  Identities=9%  Similarity=0.346  Sum_probs=23.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDD   47 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~D   47 (150)
                      |.+||+.|..-|++.+++-...++.+..+-.++.-||..|.+++.+
T Consensus        58 I~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~e  103 (230)
T PF10146_consen   58 INQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRKE  103 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555555555555555555555555555555555555444

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=93.47  E-value=0.49  Score=44.12  Aligned_cols=45  Identities=9%  Similarity=0.401  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV   48 (150)
                      ++++.|.+++..++.++..++.++..+++.+..+++++..++..+
T Consensus       421 e~i~~l~e~l~~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~  465 (650)
T TIGR03185       421 EQIAQLLEELGEAQNELFRSEAEIEELLRQLETLKEAIEALRKTL  465 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444444444444444

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=93.41  E-value=0.61  Score=38.70  Aligned_cols=55  Identities=9%  Similarity=0.287  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      .|++.|+..+.....+...+..+...+.+....|..+|..|...|..|-+++..+
T Consensus        59 ~d~~~L~~k~~~~~~~~~~l~~~t~~t~~~a~~L~~~i~~l~~~i~~l~~~~~~l  113 (264)
T PF06008_consen   59 QDVENLQEKATKVSRKAQQLNNNTERTLQRAQDLEQFIQNLQDNIQELIEQVESL  113 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3444444444444444444444444444444444444444444444444444333

Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex

>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function

Probab=93.41  E-value=0.45  Score=32.76  Aligned_cols=52  Identities=6%  Similarity=0.299  Sum_probs=33.0

Q ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           1 MIKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIK   52 (150)
Q Consensus         1 ~ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK   52 (150)
                      |+.+.|..|+..|+-...-|.+|-.=|.....+|..|+..+..|++-+..+.
T Consensus         1 ~le~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~   52 (69)
T PF04102_consen    1 MLEERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRELE   52 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4666777777777777777777777777777766666666666666655554

It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=93.37  E-value=0.56  Score=39.57  Aligned_cols=43  Identities=9%  Similarity=0.225  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          15 SIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMAS   57 (150)
Q Consensus        15 ~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~   57 (150)
                      +|.+-|..|+.||.+|+..|+++.-++.+|++.-..+-.|+..
T Consensus        58 ~l~~ql~~lq~ev~~LrG~~E~~~~~l~~~~~rq~~~y~dld~  100 (263)
T PRK10803         58 QLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQKQIYLQIDS  100 (263)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444444444444444444

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=93.28  E-value=0.4  Score=44.71  Aligned_cols=35  Identities=9%  Similarity=0.340  Sum_probs=13.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603          25 EDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus        25 ~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      +.+.+++.++..++.++..+++.+..+++++..++
T Consensus       428 e~l~~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~  462 (650)
T TIGR03185       428 EELGEAQNELFRSEAEIEELLRQLETLKEAIEALR  462 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334444444444444444444444443333

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=93.19  E-value=0.44  Score=38.14  Aligned_cols=49  Identities=4%  Similarity=0.346  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMAS   57 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~   57 (150)
                      ++..+.....-|..|+..++.|+..+..|++.+.++...+..|++++..
T Consensus       107 l~~~~~~~~~~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~DE~~~  155 (194)
T PF08614_consen  107 LEKELSEKERRLAELEAELAQLEEKIKDLEEELKEKNKANEILQDELQA  155 (194)
T ss_dssp             -------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333344444444444444444444444444444444444333

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=93.08  E-value=0.42  Score=40.29  Aligned_cols=44  Identities=11%  Similarity=0.275  Sum_probs=22.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSI   51 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~L   51 (150)
                      +|...|..|++||..|+..|.++.-++..|++.-.+|-.|+..+
T Consensus        58 ~l~~ql~~lq~ev~~LrG~~E~~~~~l~~~~~rq~~~y~dld~r  101 (263)
T PRK10803         58 QLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQKQIYLQIDSL  101 (263)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555555555555555555555555555555443

>PRK00888 ftsB cell division protein FtsB; Reviewed

Probab=93.05  E-value=0.36  Score=35.89  Aligned_cols=58  Identities=10%  Similarity=0.219  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHhhhhcCCCCccCC
Q psy9603          13 MASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSI----KEDMASIKEDIGGYGVDKR   70 (150)
Q Consensus        13 v~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~L----K~Dvs~lK~DigGyg~~~~   70 (150)
                      ...+++.+..+++.+..|++....|+++|..||+|-..+    ++++.-+|.+-.-|-..++
T Consensus        29 ~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~~dyiEe~AR~~Lg~vk~gEivy~~~~~   90 (105)
T PRK00888         29 YWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGGQEAIEERARNELGMVKPGETFYRIVPD   90 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHHHHHHHHcCCCCCCCEEEEeCCC
Confidence            444555555555555555555555555555555543333    3344445555555544443

>smart00503 SynN Syntaxin N-terminal domain

Probab=92.99  E-value=0.75  Score=32.65  Aligned_cols=19  Identities=21%  Similarity=0.433  Sum_probs=7.2

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q psy9603          10 KEDMASIKEDMVSIKEDMA   28 (150)
Q Consensus        10 k~dv~~LK~Dv~~LK~DV~   28 (150)
                      -+++.+|+.+|..|+++|.
T Consensus         7 ~~~v~~I~~~I~~i~~~v~   25 (117)
T smart00503        7 FEKVEEIRANIQKISQNVA   25 (117)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333

Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p

>TIGR01554 major_cap_HK97 phage major capsid protein, HK97 family

Probab=92.91  E-value=0.73  Score=39.86  Aligned_cols=55  Identities=13%  Similarity=0.325  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           7 GSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      ++|++.+..+++++..|.++.+....+++.+++++.+|++++..+++....++.+
T Consensus         2 ~el~~~~~~~~~~~r~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~   56 (378)
T TIGR01554         2 SELKEQREEIVAEIRSLLDKAEKLEKELTAAALEKEELETDVEKLKEEIKLLEDA   56 (378)
T ss_pred             hhHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555555555555444444555555555555555555555555555443

This family represents the major capsid protein component of the heads (capsids) of bacteriophage HK97, phi-105, P27, and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease.

>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes

Probab=92.90  E-value=0.34  Score=46.56  Aligned_cols=56  Identities=9%  Similarity=0.385  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      +.||+.|+.||...++-=.+|+..|..|-.+=..+|.++..||.|...|+..+..|
T Consensus       424 E~dvkkLraeLq~~Rq~E~ELRsqis~l~~~Er~lk~eL~qlr~ene~Lq~Kl~~L  479 (697)
T PF09726_consen  424 EADVKKLRAELQSSRQSEQELRSQISSLTNNERSLKSELSQLRQENEQLQNKLQNL  479 (697)
T ss_pred             HHHHHHHHHHHHhhhhhHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444445555554444444455555555555555555555444

; GO: 0016021 integral to membrane

>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function

Probab=92.79  E-value=0.73  Score=43.60  Aligned_cols=54  Identities=7%  Similarity=0.396  Sum_probs=35.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMA   56 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs   56 (150)
                      .+++.+|++.|..|++++..+.++|..|+..+..|.+.+.+.+.....|.+.+.
T Consensus       327 ~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~  380 (594)
T PF05667_consen  327 EQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELK  380 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345666777777777777777777777776666666666666666666655554

>KOG2264|consensus

Probab=92.64  E-value=0.62  Score=45.10  Aligned_cols=48  Identities=6%  Similarity=0.228  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSI   51 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~L   51 (150)
                      .++.+|+.+-.+|.+||+++.+-|.+||+.|..-|.|.+.||..|..-
T Consensus        93 ~EL~ele~krqel~seI~~~n~kiEelk~~i~~~q~eL~~Lk~~ieqa  140 (907)
T KOG2264|consen   93 LELTELEVKRQELNSEIEEINTKIEELKRLIPQKQLELSALKGEIEQA  140 (907)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHHH
Confidence            344444455555555555555555566655555556666666555443

>TIGR00414 serS seryl-tRNA synthetase

Probab=92.63  E-value=0.76  Score=41.19  Aligned_cols=25  Identities=0%  Similarity=0.221  Sum_probs=12.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKV   32 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~   32 (150)
                      .|-++..++++.+..|+.+-..+-.
T Consensus        34 ~ld~~~r~~~~~~~~l~~erN~~sk   58 (418)
T TIGR00414        34 ALDDERKKLLSEIEELQAKRNELSK   58 (418)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444555555555555544433

This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=92.59  E-value=0.87  Score=37.60  Aligned_cols=8  Identities=13%  Similarity=0.368  Sum_probs=2.8

Q ss_pred             HHHHHHHH
Q psy9603          30 IKVDMGSI   37 (150)
Q Consensus        30 LK~DV~~L   37 (150)
                      +++.++.|
T Consensus        82 q~~el~~L   89 (251)
T PF11932_consen   82 QEQELASL   89 (251)
T ss_pred             HHHHHHHH
Confidence            33333333

However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.

>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility

Probab=92.56  E-value=1.2  Score=36.01  Aligned_cols=56  Identities=9%  Similarity=0.288  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHhhhh
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGS--------IKDDMGSIKEDMASIKED   61 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~--------LK~DV~~LK~Dvs~lK~D   61 (150)
                      +..++.+++.|++++..|+.-+..|+.....++....+        +++.|..||.....||+.
T Consensus       122 ~~~l~~~i~~L~~e~~~L~~~~~~l~~~~e~~ek~~~e~~~~~~k~~~~ei~~lk~~~~ql~~~  185 (189)
T PF10211_consen  122 KQELEEEIEELEEEKEELEKQVQELKNKCEQLEKREEELRQEEEKKHQEEIDFLKKQNQQLKAQ  185 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555555555555555555554444443        344555566655555544

Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].

>COG4238 Murein lipoprotein [Cell envelope biogenesis, outer membrane]

Probab=92.48  E-value=0.81  Score=33.26  Aligned_cols=45  Identities=11%  Similarity=0.393  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          11 EDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus        11 ~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      .+|.+|.++|..|-.-|..|..||+.+.+|+..-|.|-+.-++.+
T Consensus        25 aK~dqlss~vq~LnAkv~qLe~dv~a~~~~~qAAk~eaarAn~rl   69 (78)
T COG4238          25 AKIDQLSSDVQTLNAKVDQLENDVNAMRSDVQAAKDEAARANQRL   69 (78)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHH
Confidence            345555555555555555555555555555555555554444433

>PRK09039 hypothetical protein; Validated

Probab=92.45  E-value=0.89  Score=39.86  Aligned_cols=53  Identities=2%  Similarity=0.247  Sum_probs=25.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKD----DMGSIKEDM   55 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~----DV~~LK~Dv   55 (150)
                      +++|..|+..++.|.+.|...++-..+.+.-+..|++.+..+..    ++..+|+++
T Consensus       143 ~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~~~~~~~l~~~~~~~  199 (343)
T PRK09039        143 NQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVALAQRVQELNRYRSEF  199 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            44444444445555555544444445555555555555555432    334445555

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=92.38  E-value=1.3  Score=35.51  Aligned_cols=48  Identities=8%  Similarity=0.290  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      +..+.+.+..++..+..+...+..||..+..|+..+.++|.-...|+.
T Consensus        93 k~~~e~~~~~l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k~k~~~l~a  140 (221)
T PF04012_consen   93 KADLEEQAERLEQQLDQAEAQVEKLKEQLEELEAKLEELKSKREELKA  140 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555666666666666666666666666655554444443

The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].

>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function

Probab=92.31  E-value=0.94  Score=40.49  Aligned_cols=59  Identities=24%  Similarity=0.584  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKV-------------DMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~-------------DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      ++.++.|++++.++++.+..|+.-+..++.             -...|++...+|++.+..|++.+..|++.
T Consensus       333 ~~~~~~l~~~~~~~~~~l~~l~~~l~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~l~~~  404 (451)
T PF03961_consen  333 KEKLEELEEELEELKEELEKLKKNLKKLKKLKKQGKLPPEKKEQLKKLKEKKKELKEELKELKEELKELKEE  404 (451)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555555544333             22334444444444445555444444443

The proteins are in the region of 500-600 amino acid residues in length.

>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles

Probab=92.30  E-value=0.71  Score=31.47  Aligned_cols=53  Identities=15%  Similarity=0.360  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603          10 KEDMASIKEDMVSIKEDMASIKVDMGSIK-EDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus        10 k~dv~~LK~Dv~~LK~DV~~LK~DV~~LK-~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      +.-|..++.++.+..+-|.+|.-+|..+= ++-..+++.|...|.++..+|.++
T Consensus        24 ~~~i~~~e~~l~ea~~~l~qMe~E~~~~p~s~r~~~~~kl~~yr~~l~~lk~~l   77 (79)
T PF05008_consen   24 KSLIREIERDLDEAEELLKQMELEVRSLPPSERNQYKSKLRSYRSELKKLKKEL   77 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCTS-HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34455666666666666666666666664 555677778888888888887764

The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=92.17  E-value=1.5  Score=31.94  Aligned_cols=38  Identities=5%  Similarity=0.254  Sum_probs=19.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGS   43 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~   43 (150)
                      ++.|.+.|..--+-|.-|+-.|.+||..-..|.+++.+
T Consensus         6 leqLE~KIqqAvdtI~LLqmEieELKekn~~L~~e~~~   43 (79)
T PRK15422          6 FEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQN   43 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555555555555555555555554444

>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition

Probab=92.04  E-value=0.15  Score=45.07  Aligned_cols=29  Identities=3%  Similarity=0.312  Sum_probs=10.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          29 SIKVDMGSIKEDMGSIKDDMGSIKEDMAS   57 (150)
Q Consensus        29 ~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~   57 (150)
                      .|...+..+.+.+..+...+..|++.+.+
T Consensus       155 ~lEd~~~~i~~~~~~~~k~i~~l~~kl~D  183 (370)
T PF02994_consen  155 ELEDRIEEIEQAIKELEKRIKKLEDKLDD  183 (370)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333334443333

Some of these have been shown to exhibit reverse transcriptase (RT) activity [] although the function of many are, as yet, unknown. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 2LDY_A 3SOO_A 2YKQ_A 2YKO_C 2YKP_B 2W7A_B 2JRB_A.

>PHA02607 wac fibritin; Provisional

Probab=91.93  E-value=0.46  Score=43.92  Aligned_cols=55  Identities=20%  Similarity=0.442  Sum_probs=41.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHhhhhcCCCC
Q psy9603          12 DMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDM-----------GSIKEDMASIKEDIGGYG   66 (150)
Q Consensus        12 dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV-----------~~LK~Dvs~lK~DigGyg   66 (150)
                      .|...+.||..||.++.+.+..++.+-..+.++.+|+           ..+..|+.-+|..++-|-
T Consensus        93 qv~~n~~dI~~lk~~~~~~~~~l~~~~~~~~~~~~~iG~~~p~~d~~~rTVr~di~~IK~elG~y~  158 (454)
T PHA02607         93 QINQNVADIEVLKKDVSDTTDKLAGTTNEVDEIEADIGVFNPEADPVTRTIRNDILWIKTELGAYP  158 (454)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhcCCcCcccCCCccchhhhHHHHHHHhccCC
Confidence            4556666777777777777777777777777777777           347889999999999883

>PLN02320 seryl-tRNA synthetase

Probab=91.80  E-value=0.85  Score=42.52  Aligned_cols=57  Identities=12%  Similarity=0.401  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDM---------GSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV---------~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      |-.+-++...+++.+..|+.+-..+-..|         ..|++.+.+||+++..|++++..+.+++
T Consensus        95 l~~ld~~~r~~~~~~~~lr~ern~~sk~i~~~~~~~~~~~l~~~~k~lk~~i~~le~~~~~~~~~l  160 (502)
T PLN02320         95 VLELYENMLALQKEVERLRAERNAVANKMKGKLEPSERQALVEEGKNLKEGLVTLEEDLVKLTDEL  160 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455555556666666555443333         3444445555555555555555554444

>KOG0250|consensus

Probab=91.80  E-value=0.68  Score=46.74  Aligned_cols=56  Identities=11%  Similarity=0.408  Sum_probs=28.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      |+.....+.++.+++++++.-+.+++..++..++.+.++++||..+|..++.+|..
T Consensus       304 i~~~~~k~~~~r~k~teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~re~~~~~~~  359 (1074)
T KOG0250|consen  304 IEEKQGKIEEARQKLTEIEAKIGELKDEVDAQDEEIEEARKDLDDLRREVNDLKEE  359 (1074)
T ss_pred             HHHHHHHHHHHhhhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444445555555555555555555555555555555555555443

>PRK00888 ftsB cell division protein FtsB; Reviewed

Probab=91.75  E-value=0.62  Score=34.62  Aligned_cols=36  Identities=11%  Similarity=0.232  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          19 DMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKED   54 (150)
Q Consensus        19 Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~D   54 (150)
                      ....+++.+.++++.+..||.....|+.+|..||+|
T Consensus        28 ~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~   63 (105)
T PRK00888         28 DYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGG   63 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCc
Confidence            344555555555555555555555555555555554

>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold)

Probab=91.64  E-value=2.6  Score=32.25  Aligned_cols=55  Identities=7%  Similarity=0.227  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      .+..|...|...|....+|..+=.+|+.=+..|+..-..+-+.++.|+..|+++.
T Consensus        17 ~La~Le~slE~~K~S~~eL~kqkd~L~~~l~~L~~q~~s~~qr~~eLqaki~ea~   71 (107)
T PF09304_consen   17 RLASLERSLEDEKTSQGELAKQKDQLRNALQSLQAQNASRNQRIAELQAKIDEAR   71 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444333333333333333333333344444444444443

The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.

>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins

Probab=91.61  E-value=0.93  Score=38.48  Aligned_cols=46  Identities=11%  Similarity=0.331  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           7 GSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIK   52 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK   52 (150)
                      +.++..+.+|.+++..+++.|..|+.+|+.||.|-..|=+-|.-|.
T Consensus        89 DRFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN~kLYEKiRylq  134 (248)
T PF08172_consen   89 DRFRQRNAELEEELRKQQQTISSLRREVESLRADNVKLYEKIRYLQ  134 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4566777777777777777777777777777777777777776653

These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane

>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional

Probab=91.56  E-value=4.5  Score=37.80  Aligned_cols=58  Identities=10%  Similarity=0.314  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCc
Q psy9603          10 KEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGV   67 (150)
Q Consensus        10 k~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg~   67 (150)
                      +..+++-++-.++|+..++.||+++..|+....++.+.+..|+++++.|++-+...+.
T Consensus        68 qSALteqQ~kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql~a~~~  125 (475)
T PRK13729         68 QHATTEMQVTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQVKALGA  125 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            4556777777889999999999999999999999999999999999999999855443

>PRK02119 hypothetical protein; Provisional

Probab=91.53  E-value=3.4  Score=28.99  Aligned_cols=56  Identities=2%  Similarity=0.085  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      .++.+.+.|..|..-++....=|.+|..=|.....++..|+..+..|++.+.++..
T Consensus         3 ~~~~~e~Ri~~LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~~L~~rl~~~~~   58 (73)
T PRK02119          3 IQQNLENRIAELEMKIAFQENLLEELNQALIEQQFVIDKMQVQLRYMANKLKDMQP   58 (73)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            35556667777777777777777777777777777777777777777777766543

>KOG1962|consensus

Probab=91.48  E-value=0.9  Score=38.34  Aligned_cols=43  Identities=5%  Similarity=0.328  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDD   47 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~D   47 (150)
                      |++.|++++.+.+.+.....+|+.+||.-.+.+...-..|.+|
T Consensus       159 ~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee  201 (216)
T KOG1962|consen  159 DLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEE  201 (216)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHH
Confidence            3333333333333333333333333333333333333333333

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=91.45  E-value=1.9  Score=37.45  Aligned_cols=40  Identities=5%  Similarity=0.401  Sum_probs=14.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSI   44 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~L   44 (150)
                      ++..+++++..|+.+..++.+.+.+|..+-..|.+++.+|
T Consensus        44 ~~~~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~l   83 (314)
T PF04111_consen   44 DIEELEEELEKLEQEEEELLQELEELEKEREELDQELEEL   83 (314)
T ss_dssp             --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444333333333333333333333

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit

Probab=91.35  E-value=1.8  Score=36.03  Aligned_cols=19  Identities=21%  Similarity=0.401  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMV   21 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~   21 (150)
                      |.||..+-+-|-.|.+-|.
T Consensus        71 r~DiarvA~lvinlE~kvD   89 (189)
T TIGR02132        71 KEDIANVASLVINLEEKVD   89 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3455554444444444333

This model describes a protein, PhaR, localized to polyhydroxyalkanoic acid (PHA) inclusion granules in Bacillus cereus and related species. PhaR is required for PHA biosynthesis along with PhaC and may be a regulatory subunit.

>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition

Probab=91.26  E-value=0.48  Score=41.95  Aligned_cols=8  Identities=0%  Similarity=0.376  Sum_probs=2.9

Q ss_pred             HHHHHHHH
Q psy9603          48 MGSIKEDM   55 (150)
Q Consensus        48 V~~LK~Dv   55 (150)
                      +..+...+
T Consensus       167 ~~~~~k~i  174 (370)
T PF02994_consen  167 IKELEKRI  174 (370)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            33333333

Some of these have been shown to exhibit reverse transcriptase (RT) activity [] although the function of many are, as yet, unknown. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 2LDY_A 3SOO_A 2YKQ_A 2YKO_C 2YKP_B 2W7A_B 2JRB_A.

>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea

Probab=91.23  E-value=3.7  Score=28.72  Aligned_cols=33  Identities=3%  Similarity=0.349  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603          29 SIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus        29 ~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      .|+.++..++.++..|+.-...+...+.+++..
T Consensus        66 ~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~   98 (106)
T PF01920_consen   66 ELEERIEKLEKEIKKLEKQLKYLEKKLKELKKK   98 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555666666666666666666666666666554

Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=91.15  E-value=1.8  Score=37.55  Aligned_cols=46  Identities=4%  Similarity=0.398  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV   48 (150)
                      .++++.|+.+.+++.+++..|..+-.+|.+++..|++...+|++.-
T Consensus        49 ~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~eE   94 (314)
T PF04111_consen   49 EEELEKLEQEEEELLQELEELEKEREELDQELEELEEELEELDEEE   94 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555555555555554444444444444444444444433

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=91.06  E-value=3.1  Score=30.37  Aligned_cols=53  Identities=9%  Similarity=0.290  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      |.-|+-+|.+||+.-..|.+++..++.-=..|-+.-..||++-..-++.+..|
T Consensus        20 I~LLqmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~~~WqerLr~L   72 (79)
T PRK15422         20 ITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQAL   72 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444445555555555555554444443

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.04  E-value=2.3  Score=30.79  Aligned_cols=52  Identities=6%  Similarity=0.256  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      .|..+|..--+-|+-|.-+|.+||..-+.|..+++++......|...-..||
T Consensus         8 kLE~KiqqAvdTI~LLQmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk   59 (79)
T COG3074           8 KLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREALERENEQLK   59 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444444444433333333333333

>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4

Probab=90.99  E-value=1.8  Score=37.70  Aligned_cols=49  Identities=18%  Similarity=0.413  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKED   54 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~D   54 (150)
                      |+.++++++....++.++++=|.++|.-+..|+..-+.|..-|..+|+.
T Consensus       209 Le~~~EeL~~~Eke~~e~~~~i~e~~~rl~~l~~~~~~l~k~~~~~~sK  257 (269)
T PF05278_consen  209 LEELEEELKQKEKEVKEIKERITEMKGRLGELEMESTRLSKTIKSIKSK  257 (269)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333333333333333333

>PRK13169 DNA replication intiation control protein YabA; Reviewed

Probab=90.96  E-value=1.5  Score=33.39  Aligned_cols=47  Identities=4%  Similarity=0.339  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSI   51 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~L   51 (150)
                      -|..|.+.|..|-++|..||.+|.+|=+.-+.|+-...-|++-+..+
T Consensus         9 ~l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~   55 (110)
T PRK13169          9 ALDDLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEEL   55 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            35566666666666666666666666666666666666666666655

>KOG3850|consensus

Probab=90.93  E-value=1.5  Score=40.46  Aligned_cols=27  Identities=33%  Similarity=0.479  Sum_probs=21.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMA   28 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~   28 (150)
                      |.++|++||+-...|.+++..||+++.
T Consensus       265 ileeL~eIk~~q~~Leesye~Lke~~k  291 (455)
T KOG3850|consen  265 ILEELREIKETQALLEESYERLKEQIK  291 (455)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            677888888888888888888888764

>PF03310 Cauli_DNA-bind: Caulimovirus DNA-binding protein; InterPro: IPR004986 The gene III product (P15) of cauliflower mosaic virus (CaMV) is a DNA binding protein in which the DNA binding activity is located on its C-terminal part

Probab=90.91  E-value=1.5  Score=34.17  Aligned_cols=23  Identities=17%  Similarity=0.504  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASI   30 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~L   30 (150)
                      .+..+|++|.+++..+++||..|
T Consensus         3 ~~~kEi~~l~~~lk~~~~~i~ai   25 (121)
T PF03310_consen    3 TIIKEISELIQELKKIESDIKAI   25 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555555444

A family of related proteins is expressed by other members of the Caulimoviridae.; GO: 0003677 DNA binding; PDB: 3F6N_A 3K4T_D.

>PF10874 DUF2746: Protein of unknown function (DUF2746); InterPro: IPR022704 The proteins in this entry are uncharacterised

Probab=90.86  E-value=0.95  Score=31.13  Aligned_cols=7  Identities=43%  Similarity=1.108  Sum_probs=2.5

Q ss_pred             HHHHHHH
Q psy9603          33 DMGSIKE   39 (150)
Q Consensus        33 DV~~LK~   39 (150)
                      ||..|.+
T Consensus        34 DigglRe   40 (57)
T PF10874_consen   34 DIGGLRE   40 (57)
T ss_pred             HHHHHHH
Confidence            3333333

>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=90.83  E-value=1.4  Score=40.55  Aligned_cols=63  Identities=8%  Similarity=0.306  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHHHHHHHH-HHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCc
Q psy9603           5 DMGSIKEDMASIKEDMV-SIKE---DMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGV   67 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~-~LK~---DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg~   67 (150)
                      .++.|+..-..+...|. .++.   |+.+|+.++..||+++..++.....++.++..+=..++=.-.
T Consensus        44 ~~e~l~~~rn~~sk~ig~~~~~~~~~~~~l~~e~~~l~~~l~~~e~~~~~~~~~l~~~ll~ipNi~~  110 (429)
T COG0172          44 ELEELQAERNELSKEIGRALKRGEDDAEELIAEVKELKEKLKELEAALDELEAELDTLLLTIPNIPH  110 (429)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhCCCCCc
Confidence            33444444444444443 1221   345566666666666666666666666666665555544433

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=90.75  E-value=2  Score=36.34  Aligned_cols=25  Identities=4%  Similarity=0.331  Sum_probs=14.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhcCC
Q psy9603          40 DMGSIKDDMGSIKEDMASIKEDIGG   64 (150)
Q Consensus        40 DV~~LK~DV~~LK~Dvs~lK~DigG   64 (150)
                      ++.++++++..++..+..++.++.-
T Consensus       247 ~l~~~~~~l~~~~~~l~~~~~~l~~  271 (423)
T TIGR01843       247 ELTEAQARLAELRERLNKARDRLQR  271 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3444555556666666666665543

Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.

>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold)

Probab=90.73  E-value=2.4  Score=32.48  Aligned_cols=54  Identities=11%  Similarity=0.280  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      +|.+.++.|...|...|+...+|..+=..|+.=+.+|++--.++-..+++|+..
T Consensus        13 el~n~La~Le~slE~~K~S~~eL~kqkd~L~~~l~~L~~q~~s~~qr~~eLqak   66 (107)
T PF09304_consen   13 ELQNRLASLERSLEDEKTSQGELAKQKDQLRNALQSLQAQNASRNQRIAELQAK   66 (107)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555555555555555555555555555555555555555555543

The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.

>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication

Probab=90.57  E-value=1.7  Score=32.63  Aligned_cols=49  Identities=4%  Similarity=0.339  Sum_probs=33.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      -|..|.+.|..|-++|..||..|.+|-.+-+.|+-....|++=+..+..
T Consensus         9 ~l~~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~~~   57 (107)
T PF06156_consen    9 RLDQLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLRERLEELEQ   57 (107)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4566777777777777777777777777777777777777766665544

SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.

>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []

Probab=90.55  E-value=0.19  Score=36.78  Aligned_cols=43  Identities=12%  Similarity=0.467  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV   48 (150)
                      |..|..++..|..++..|+..|..|+..+..+++....|+.-+
T Consensus        27 l~~l~~~~~~l~~e~~~L~~~~~~l~~~l~~~~~~~~~l~~~l   69 (131)
T PF05103_consen   27 LDELAEELERLQRENAELKEEIEELQAQLEELREEEESLQRAL   69 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHCCCCT---------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHhh
Confidence            3444555555555555555555555555555555554444433

Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.

>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family

Probab=90.49  E-value=1.9  Score=35.07  Aligned_cols=43  Identities=9%  Similarity=0.355  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          11 EDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus        11 ~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      .+...|+.++..|++-+..|...+..|+++...+++|-..|-.
T Consensus       104 ~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~eDY~~L~~  146 (161)
T TIGR02894       104 KENERLKNQNESLQKRNEELEKELEKLRQRLSTIEEDYQTLID  146 (161)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444444444444444433

In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.

>PRK04406 hypothetical protein; Provisional

Probab=90.49  E-value=4.7  Score=28.51  Aligned_cols=57  Identities=5%  Similarity=0.202  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      .-++.|.+.|..|..-++..-.=|.+|..=|.....+|..|+..+..|++.+.++..
T Consensus         4 ~~~~~le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~~~~   60 (75)
T PRK04406          4 KTIEQLEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVGKVKNMDS   60 (75)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            345566777777777777777777777777777777777777777777777766653

>smart00338 BRLZ basic region leucin zipper

Probab=90.47  E-value=1.4  Score=29.36  Aligned_cols=13  Identities=8%  Similarity=0.491  Sum_probs=4.6

Q ss_pred             HHHHHHHHHHHHH
Q psy9603          30 IKVDMGSIKEDMG   42 (150)
Q Consensus        30 LK~DV~~LK~DV~   42 (150)
                      |+..|+.|+..+.
T Consensus        45 L~~~~~~l~~e~~   57 (65)
T smart00338       45 LKKEIERLRRELE   57 (65)
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family

Probab=90.43  E-value=2.3  Score=34.57  Aligned_cols=44  Identities=11%  Similarity=0.384  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603          15 SIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus        15 ~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      .++.+...|+..+.+|++-+..|.+.+..|+++...+++|-..|
T Consensus       101 ~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~eDY~~L  144 (161)
T TIGR02894       101 ALQKENERLKNQNESLQKRNEELEKELEKLRQRLSTIEEDYQTL  144 (161)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444445555555555555555555555555555555554444

In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.

>PF06148 COG2: COG (conserved oligomeric Golgi) complex component, COG2; InterPro: IPR024602 This entry represents the uncharacterised N-terminal domain of subunit 2 of the COG complex

Probab=90.41  E-value=0.59  Score=35.12  Aligned_cols=36  Identities=6%  Similarity=0.488  Sum_probs=11.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          13 MASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus        13 v~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV   48 (150)
                      +..+.+-|..|+.++..++.+|..+++++....+.|
T Consensus        64 L~g~~~~i~~l~~~L~~~~~~v~~~~~~l~~~~~~i   99 (133)
T PF06148_consen   64 LVGMDEKIEELRKPLSQFREEVESVRDELDNTQEEI   99 (133)
T ss_dssp             ----------HHHHHHHHHHHHHHHHHS-STTHHHH
T ss_pred             HccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444444444444444444444433

The COG complex comprises eight proteins COG1-8 and plays critical roles in Golgi structure and function [].; PDB: 2JQQ_A.

>PF07160 DUF1395: Protein of unknown function (DUF1395); InterPro: IPR009829 This family consists of several hypothetical eukaryotic proteins of around 250 residues in length

Probab=90.39  E-value=2.5  Score=35.68  Aligned_cols=58  Identities=21%  Similarity=0.397  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHhhhhcCCC
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKE---DMASIKEDIGGY   65 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~---Dvs~lK~DigGy   65 (150)
                      .|++.++.|-.+|..|..-+..++..|...++-+..+|+-+..+++   ++.-+++.++..
T Consensus        19 ~~~~~L~~i~~~~~~i~~~l~~~~~~l~~~~~~~~~lk~l~~~~~~~~~~l~hl~~nvP~~   79 (243)
T PF07160_consen   19 NLKDTLSKIDQEVSAIEELLNDIEQELQREEEALPKLKELMESSEEQQKKLQHLKENVPPH   79 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc
Confidence            3455555555556666666666666555555566666666655544   455566666643

The function of this family is unknown.; PDB: 4AJ5_G.

>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=90.38  E-value=1.3  Score=40.61  Aligned_cols=59  Identities=7%  Similarity=0.359  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH-HHHH---HHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMA-SIKV---DMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~-~LK~---DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      .....++.++.+|+...+.+...|. .++.   |+..|++++..||+++..++....+++.++
T Consensus        36 ~~~r~~~~~~e~l~~~rn~~sk~ig~~~~~~~~~~~~l~~e~~~l~~~l~~~e~~~~~~~~~l   98 (429)
T COG0172          36 EERRKLLRELEELQAERNELSKEIGRALKRGEDDAEELIAEVKELKEKLKELEAALDELEAEL   98 (429)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            3445666666677777777777776 3332   457777777777777777777777777665

>PF14712 Snapin_Pallidin: Snapin/Pallidin

Probab=90.34  E-value=3.4  Score=28.92  Aligned_cols=37  Identities=5%  Similarity=0.347  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKE   39 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~   39 (150)
                      +-+|+.+++.|.++.+--..|.+.|..+.+....+++
T Consensus        13 ~P~l~~~~~~l~el~~sQ~~L~~~i~~~~~~L~~~~~   49 (92)
T PF14712_consen   13 EPDLDRLDQQLQELRQSQEELLQQIDRLNEKLKELNE   49 (92)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455666666666655555555555555544444443

>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division []

Probab=90.28  E-value=2  Score=30.44  Aligned_cols=21  Identities=19%  Similarity=0.336  Sum_probs=8.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q psy9603          37 IKEDMGSIKDDMGSIKEDMAS   57 (150)
Q Consensus        37 LK~DV~~LK~DV~~LK~Dvs~   57 (150)
                      ||.++.+|+.++..++.-+..
T Consensus        48 LKve~~~L~~el~~~~~~l~~   68 (75)
T PF07989_consen   48 LKVEVESLKRELQEKKKLLKE   68 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444443333

>PF10874 DUF2746: Protein of unknown function (DUF2746); InterPro: IPR022704 The proteins in this entry are uncharacterised

Probab=90.27  E-value=1  Score=30.99  Aligned_cols=18  Identities=11%  Similarity=0.652  Sum_probs=7.8

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q psy9603          31 KVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus        31 K~DV~~LK~DV~~LK~DV   48 (150)
                      .+++..+++||..|.+|+
T Consensus        25 ~~~~~~~~rDigglReel   42 (57)
T PF10874_consen   25 REGFREMRRDIGGLREEL   42 (57)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            334444444444444444

>COG4238 Murein lipoprotein [Cell envelope biogenesis, outer membrane]

Probab=90.14  E-value=1.7  Score=31.66  Aligned_cols=38  Identities=13%  Similarity=0.446  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          20 MVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMAS   57 (150)
Q Consensus        20 v~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~   57 (150)
                      |.+|.+||.+|-.-|..|-.||..+..|+..-|++-+.
T Consensus        27 ~dqlss~vq~LnAkv~qLe~dv~a~~~~~qAAk~eaar   64 (78)
T COG4238          27 IDQLSSDVQTLNAKVDQLENDVNAMRSDVQAAKDEAAR   64 (78)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHH
Confidence            34444444444444444444444444444444444433

>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

Probab=90.13  E-value=2.3  Score=37.98  Aligned_cols=36  Identities=17%  Similarity=0.407  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDM   41 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV   41 (150)
                      ++.+++...++...|+++....++|.++...+|.+|
T Consensus       282 ls~~~~~y~~~s~~V~~~t~~L~~IseeLe~vK~em  317 (359)
T PF10498_consen  282 LSEVQEKYKQASEGVSERTRELAEISEELEQVKQEM  317 (359)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444444444444444

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.

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=89.86  E-value=2.8  Score=33.62  Aligned_cols=41  Identities=10%  Similarity=0.329  Sum_probs=19.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIK   45 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK   45 (150)
                      .+..++..+..+...+..|++.+..|+..+..||.-...|+
T Consensus        99 ~~~~l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k~k~~~l~  139 (221)
T PF04012_consen   99 QAERLEQQLDQAEAQVEKLKEQLEELEAKLEELKSKREELK  139 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444

The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].

>TIGR00998 8a0101 efflux pump membrane protein (multidrug resistance protein A)

Probab=89.77  E-value=3.2  Score=34.55  Aligned_cols=48  Identities=6%  Similarity=0.232  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIK   52 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK   52 (150)
                      .++..+..++.++..+..+..++..++.++..++..+...+.++...+
T Consensus        81 ~l~~a~a~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~a~~~l~~a~  128 (334)
T TIGR00998        81 ALAKAEANLAALVRQTKQLEITVQQLQAKVESLKIKLEQAREKLLQAE  128 (334)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            344444444444444444444444444444444444444444333333

>KOG0971|consensus

Probab=89.73  E-value=1.7  Score=43.97  Aligned_cols=31  Identities=19%  Similarity=0.440  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603          28 ASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus        28 ~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      ..|..||..+|+-+.+|..|+.+||.+|.+-
T Consensus       328 esLQ~eve~lkEr~deletdlEILKaEmeek  358 (1243)
T KOG0971|consen  328 ESLQQEVEALKERVDELETDLEILKAEMEEK  358 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3688899999999999999999999999875

>TIGR02209 ftsL_broad cell division protein FtsL

Probab=89.72  E-value=1.7  Score=29.88  Aligned_cols=33  Identities=0%  Similarity=0.277  Sum_probs=13.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          13 MASIKEDMVSIKEDMASIKVDMGSIKEDMGSIK   45 (150)
Q Consensus        13 v~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK   45 (150)
                      +..+..++..+++.+..++++.+.|+.+++.|.
T Consensus        26 ~~~~~~~~~~~~~~~~~l~~en~~L~~ei~~l~   58 (85)
T TIGR02209        26 TRQLNNELQKLQLEIDKLQKEWRDLQLEVAELS   58 (85)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            333444444444444444444444444444443

This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.

>PRK01156 chromosome segregation protein; Provisional

Probab=89.67  E-value=2.2  Score=40.84  Aligned_cols=29  Identities=3%  Similarity=0.295  Sum_probs=11.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          11 EDMASIKEDMVSIKEDMASIKVDMGSIKE   39 (150)
Q Consensus        11 ~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~   39 (150)
                      ..+..|+.++..++.-+.+++.+|..|++
T Consensus       688 ~~l~~l~~~~~~l~~~i~~l~~~~~~l~e  716 (895)
T PRK01156        688 KALDDAKANRARLESTIEILRTRINELSD  716 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            33333333333333333333333333333

>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria

Probab=89.62  E-value=3.1  Score=28.50  Aligned_cols=36  Identities=19%  Similarity=0.361  Sum_probs=15.1

Q ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603          22 SIKEDMASIKVDMGS-IKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus        22 ~LK~DV~~LK~DV~~-LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      .+++.+.++.+++.. +|+-+.+++++   +|+.++++++
T Consensus        37 ~~~~~~~~~~~~~~~~~k~~~~~~~~~---~~e~~~e~~d   73 (74)
T PF12732_consen   37 DLKDKAKDLYEEAKEKVKEKAEETADE---AKEKAKELKD   73 (74)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHhhh
Confidence            334444444444443 44444443322   4444444443

Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.

>KOG2264|consensus

Probab=89.57  E-value=1.6  Score=42.42  Aligned_cols=46  Identities=7%  Similarity=0.283  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          12 DMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMAS   57 (150)
Q Consensus        12 dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~   57 (150)
                      ++.+|..--.+|.+||+++.+-|++||..+-.-++|+..||..|+.
T Consensus        94 EL~ele~krqel~seI~~~n~kiEelk~~i~~~q~eL~~Lk~~ieq  139 (907)
T KOG2264|consen   94 ELTELEVKRQELNSEIEEINTKIEELKRLIPQKQLELSALKGEIEQ  139 (907)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHH
Confidence            3444444445555666666666666666666666666666666543

>PF06148 COG2: COG (conserved oligomeric Golgi) complex component, COG2; InterPro: IPR024602 This entry represents the uncharacterised N-terminal domain of subunit 2 of the COG complex

Probab=89.55  E-value=0.64  Score=34.92  Aligned_cols=41  Identities=10%  Similarity=0.398  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKD   46 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~   46 (150)
                      +..+.+.|..|+.++..++++|..++.++....+.|...-+
T Consensus        64 L~g~~~~i~~l~~~L~~~~~~v~~~~~~l~~~~~~i~~~l~  104 (133)
T PF06148_consen   64 LVGMDEKIEELRKPLSQFREEVESVRDELDNTQEEIEDKLE  104 (133)
T ss_dssp             ----------HHHHHHHHHHHHHHHHHS-STTHHHHHHHHH
T ss_pred             HccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555566666666666666666555555555554433

The COG complex comprises eight proteins COG1-8 and plays critical roles in Golgi structure and function [].; PDB: 2JQQ_A.

>PF07028 DUF1319: Protein of unknown function (DUF1319); InterPro: IPR010746 This entry is represented by Commelina yellow mottle virus, Orf1

Probab=89.42  E-value=3.2  Score=32.55  Aligned_cols=38  Identities=8%  Similarity=0.377  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          11 EDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus        11 ~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV   48 (150)
                      +.+..+..=+.+-++|+..++..+..|++.+..|++|+
T Consensus        46 ~~lk~~~ki~~~Qr~~l~~l~~~l~~l~~eL~~Lr~~~   83 (126)
T PF07028_consen   46 EELKNLSKIQESQRSELKELKQELDVLSKELQALRKEY   83 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333433344444444444444444444444444444

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family contains a number of viral proteins of unknown function approximately 200 residues long. Family members seem to be restricted to badnaviruses.

>PF04201 TPD52: Tumour protein D52 family; InterPro: IPR007327 The hD52 gene was originally identified through its elevated expression level in human breast carcinoma

Probab=89.42  E-value=2.6  Score=34.32  Aligned_cols=50  Identities=8%  Similarity=0.356  Sum_probs=25.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHhhhhc
Q psy9603          13 MASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDD-----MGSIKEDMASIKEDI   62 (150)
Q Consensus        13 v~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~D-----V~~LK~Dvs~lK~Di   62 (150)
                      -.+|+.+++.+.++|..|++=+..-..-..+||.-     +..||+|++.-..||
T Consensus        31 ~eeLr~EL~KvEeEI~TLrqvL~aKer~~~eLKrkLGit~l~elkqnlskg~~~v   85 (162)
T PF04201_consen   31 REELRSELAKVEEEIQTLRQVLAAKERHCAELKRKLGITPLSELKQNLSKGWHDV   85 (162)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHCCchHHHHHHHHHHHhHhh
Confidence            34555555555555555555554444444455544     244555555544444

Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family []. These proteins have an N-terminal coiled-coil that allows members to form homo- and heterodimers with each other [].

>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation

Probab=89.41  E-value=0.64  Score=32.22  Aligned_cols=29  Identities=14%  Similarity=0.375  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603          32 VDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus        32 ~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      ++|..||+-|++|.+.++.|+.+-+.||+
T Consensus        14 EEVevLK~~I~eL~~~n~~Le~EN~~Lk~   42 (59)
T PF01166_consen   14 EEVEVLKEQIAELEERNSQLEEENNLLKQ   42 (59)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33444444444444444444444444443

These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.

>PF03915 AIP3: Actin interacting protein 3; InterPro: IPR022782 This entry represents a domain found in yeast actin interacting protein 3 and bud site selection protein 6

Probab=89.41  E-value=3  Score=38.19  Aligned_cols=18  Identities=11%  Similarity=0.422  Sum_probs=7.7

Q ss_pred             HHHHHHHHHHHHHHHHhh
Q psy9603          42 GSIKDDMGSIKEDMASIK   59 (150)
Q Consensus        42 ~~LK~DV~~LK~Dvs~lK   59 (150)
                      ..+..|+..++.+++.++
T Consensus       249 e~v~kdi~~a~~~L~~m~  266 (424)
T PF03915_consen  249 ETVAKDISRASKELKKMK  266 (424)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333344444444444444

In these proteins it is typically found towards the C terminus. It is also found in metazoan proteins, such as the mouse enhancer trap locus 4 protein. ; PDB: 3ONX_B 3OKQ_A.

>PRK02793 phi X174 lysis protein; Provisional

Probab=89.39  E-value=5.6  Score=27.77  Aligned_cols=52  Identities=10%  Similarity=0.294  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      +.+.|..|..-++....=|.+|..=|.....+|..|+..+..|++.+.++.+
T Consensus         6 ~e~Ri~~LE~~lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~~   57 (72)
T PRK02793          6 LEARLAELESRLAFQEITIEELNVTVTAHEMEMAKLRDHLRLLTEKLKASQP   57 (72)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            4455555555555555555555555566666666666666666666666544

>PF04201 TPD52: Tumour protein D52 family; InterPro: IPR007327 The hD52 gene was originally identified through its elevated expression level in human breast carcinoma

Probab=89.39  E-value=2.8  Score=34.14  Aligned_cols=54  Identities=13%  Similarity=0.379  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKED-----MGSIKDDMGSIKEDMA   56 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~D-----V~~LK~DV~~LK~Dvs   56 (150)
                      .++=++|+.+|+.+.++|..|++=+..-..-...||.-     ..+||+|++.=..||.
T Consensus        28 EeE~eeLr~EL~KvEeEI~TLrqvL~aKer~~~eLKrkLGit~l~elkqnlskg~~~vq   86 (162)
T PF04201_consen   28 EEEREELRSELAKVEEEIQTLRQVLAAKERHCAELKRKLGITPLSELKQNLSKGWHDVQ   86 (162)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHCCchHHHHHHHHHHHhHhhh
Confidence            34557788888888888888888887777777777776     4677777766555554

Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family []. These proteins have an N-terminal coiled-coil that allows members to form homo- and heterodimers with each other [].

>PF06120 Phage_HK97_TLTM: Tail length tape measure protein; InterPro: IPR009302 This entry consists of the tail length tape measure protein from Bacteriophage HK97 and related sequences from Escherichia coli (strain K12)

Probab=89.37  E-value=3  Score=36.63  Aligned_cols=49  Identities=10%  Similarity=0.389  Sum_probs=26.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCccC
Q psy9603          21 VSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDK   69 (150)
Q Consensus        21 ~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg~~~   69 (150)
                      .+|+.-+..++..|...|++|++|+..|..|+..++..+.-+..++...
T Consensus        70 ~ql~~~~~k~~~si~~q~~~i~~l~~~i~~l~~~i~~y~~~~~~~~~~~  118 (301)
T PF06120_consen   70 TQLRANIAKAEESIAAQKRAIEDLQKKIDSLKDQIKNYQQQLAEKGITE  118 (301)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCc
Confidence            3455555555555666666666666666666555554444434444333

>PRK04325 hypothetical protein; Provisional

Probab=89.33  E-value=5.3  Score=28.04  Aligned_cols=57  Identities=4%  Similarity=0.217  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      +++.+.+.|..|..-++....=|.+|..=|..-..+|..|+.-+..|.+.+.++...
T Consensus         3 ~~~~~e~Ri~~LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~~~~~   59 (74)
T PRK04325          3 AVQEMEDRITELEIQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLLYQQMRDANPD   59 (74)
T ss_pred             cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            455666777777777777777777777777777777777777777777777776544

>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

Probab=89.25  E-value=2.9  Score=37.29  Aligned_cols=58  Identities=19%  Similarity=0.432  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHhhhhcC
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDM-------------GSIKEDMASIKEDIG   63 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV-------------~~LK~Dvs~lK~Dig   63 (150)
                      .+.++..++++++-..+...-|+++....+.|.++...+|++|             ..+|+=|..||++|.
T Consensus       275 Yr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~IseeLe~vK~emeerg~~mtD~sPlv~IKqAl~kLk~EI~  345 (359)
T PF10498_consen  275 YRSAQDELSEVQEKYKQASEGVSERTRELAEISEELEQVKQEMEERGSSMTDGSPLVKIKQALTKLKQEIK  345 (359)
T ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHH
Confidence            4445555555555556666666666666666666666666665             244555555555553

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.

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=89.23  E-value=2.5  Score=39.14  Aligned_cols=51  Identities=12%  Similarity=0.341  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      +++.+..+++.+..++.+..+++..+..|+.|-.+.++.+..++..++.+|
T Consensus       381 l~e~leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L~~ik  431 (569)
T PRK04778        381 LQEELEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERYRNKLHEIK  431 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444444444444444444444444444444444444444

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=89.23  E-value=2.4  Score=39.29  Aligned_cols=42  Identities=12%  Similarity=0.294  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDD   47 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~D   47 (150)
                      ++.|.+.++.|+.+...+++.+..|+.|-...++.+..+++.
T Consensus       385 leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~  426 (569)
T PRK04778        385 LEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERYRNK  426 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333333333

>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility

Probab=89.23  E-value=3.1  Score=33.71  Aligned_cols=27  Identities=7%  Similarity=0.380  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          22 SIKEDMASIKVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus        22 ~LK~DV~~LK~DV~~LK~DV~~LK~DV   48 (150)
                      .++..|..|+++...|+.-+..|+...
T Consensus       124 ~l~~~i~~L~~e~~~L~~~~~~l~~~~  150 (189)
T PF10211_consen  124 ELEEEIEELEEEKEELEKQVQELKNKC  150 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333

Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].

>PF15397 DUF4618: Domain of unknown function (DUF4618)

Probab=89.22  E-value=1.7  Score=37.52  Aligned_cols=23  Identities=4%  Similarity=0.463  Sum_probs=8.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          30 IKVDMGSIKEDMGSIKDDMGSIK   52 (150)
Q Consensus        30 LK~DV~~LK~DV~~LK~DV~~LK   52 (150)
                      .|..|+.|+++|..||.+|..|.
T Consensus       198 ~re~i~el~e~I~~L~~eV~~L~  220 (258)
T PF15397_consen  198 FREEIDELEEEIPQLRAEVEQLQ  220 (258)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333

>PF07902 Gp58: gp58-like protein; InterPro: IPR012892 Sequences found in this entry are derived from a number of bacteriophage and prophage proteins

Probab=89.18  E-value=1.2  Score=42.51  Aligned_cols=43  Identities=5%  Similarity=0.208  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV   48 (150)
                      |..-+.+|+++++++.++...|.+++.+++.|.+-|..|+++|
T Consensus       263 i~~~~gaVS~vqQtads~~~rLq~aE~n~SSL~QTV~GLqs~V  305 (601)
T PF07902_consen  263 ISNREGAVSRVQQTADSYQRRLQDAEGNYSSLTQTVRGLQSTV  305 (601)
T ss_pred             hhhhhhHHHHHHHHHHHHHhHHHHhHhHHHHHHHHHHHHHhhh
Confidence            3333344444444444444444444444444444444444433

They are similar to gp58 (Q38355 from SWISSPROT), a minor structural protein of Lactococcus delbrueckii bacteriophage LL-H [].

>PF09738 DUF2051: Double stranded RNA binding protein (DUF2051); InterPro: IPR019139 This entry represents transcriptional repressors which preferentially bind to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA

Probab=89.17  E-value=2.9  Score=36.64  Aligned_cols=62  Identities=13%  Similarity=0.333  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCC
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYG   66 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg   66 (150)
                      .|..||..|.+|.+.+..++..+.+...|...+|.-...|+.++..||+.+...++=|.--|
T Consensus       113 qvd~Lkd~lee~eE~~~~~~re~~eK~~elEr~K~~~d~L~~e~~~Lre~L~~rdeli~khG  174 (302)
T PF09738_consen  113 QVDLLKDKLEELEETLAQLQREYREKIRELERQKRAHDSLREELDELREQLKQRDELIEKHG  174 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Confidence            35566666666666677776666666667777777777777777777777766655554444

They may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. They interact with the leucine-rich repeat domain of human flightless-I (FliI) protein.

>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria

Probab=89.15  E-value=1.8  Score=29.65  Aligned_cols=30  Identities=13%  Similarity=0.285  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHH
Q psy9603           8 SIKEDMASIKEDMVSIKEDMAS-IKVDMGSI   37 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~-LK~DV~~L   37 (150)
                      .|++.+..+++.+..+.+++.+ +|+-+..+
T Consensus        30 ~l~~~~~~~~~~~~~~~~~~~~~~k~~~~~~   60 (74)
T PF12732_consen   30 KLKDKAEDLKDKAKDLYEEAKEKVKEKAEET   60 (74)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555556666666666655 55555553

Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.

>PF07200 Mod_r: Modifier of rudimentary (Mod(r)) protein; InterPro: IPR009851 This entry represents a conserved region approximately 150 residues long within a number of eukaryotic proteins that show homology with Drosophila melanogaster Modifier of rudimentary (Mod(r)) proteins

Probab=89.14  E-value=4.2  Score=30.81  Aligned_cols=46  Identities=4%  Similarity=0.295  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      .++.++..+......|-+..-.++..+..+|..+.++.+....|+.
T Consensus        31 ~~~~~~~~l~~~n~~lAe~nL~~~~~l~~~r~~l~~~~~~~~~L~~   76 (150)
T PF07200_consen   31 ELQQEREELLAENEELAEQNLSLEPELEELRSQLQELYEELKELES   76 (150)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444333333333333444444444433333333333

The N-terminal half of Mod(r) proteins is acidic, whereas the C-terminal half is basic [], and both of these regions are represented in this family.; PDB: 2CAZ_F 2P22_C 2F66_F.

>PF07160 DUF1395: Protein of unknown function (DUF1395); InterPro: IPR009829 This family consists of several hypothetical eukaryotic proteins of around 250 residues in length

Probab=89.04  E-value=3.4  Score=34.88  Aligned_cols=46  Identities=20%  Similarity=0.369  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV   48 (150)
                      +.+|+.|-.+|..|..-+..++..|...++-+..+|+-+..++++.
T Consensus        21 ~~~L~~i~~~~~~i~~~l~~~~~~l~~~~~~~~~lk~l~~~~~~~~   66 (243)
T PF07160_consen   21 KDTLSKIDQEVSAIEELLNDIEQELQREEEALPKLKELMESSEEQQ   66 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456666666666666666666666666666666666665555443

The function of this family is unknown.; PDB: 4AJ5_G.

>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure

Probab=88.99  E-value=5.7  Score=28.74  Aligned_cols=57  Identities=9%  Similarity=0.362  Sum_probs=37.8

Q ss_pred             HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           4 EDMGSIK-EDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         4 ~Di~~Lk-~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      +|++.+. +.-+.|..++..|+..+..|-.-|..+|++...|+++-..|..=|..|-+
T Consensus         8 ~d~e~~~~e~k~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nLm~   65 (80)
T PF10224_consen    8 EDIEKLEKEEKEELIQEILELQDSLEALSDRVEEVKEENEKLESENEYLQQYIGNLMS   65 (80)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555333 33556777777777777777777777777777777777777776666644

The exact function is unknown.

>PF07246 Phlebovirus_NSM: Phlebovirus nonstructural protein NS-M; InterPro: IPR009879 This entry consists of several Phlebovirus nonstructural NS-M proteins, which represent the N-terminal region of the M polyprotein precursor

Probab=88.97  E-value=1.8  Score=37.69  Aligned_cols=61  Identities=13%  Similarity=0.417  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHHHHHHH--H----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q psy9603           5 DMGSIKEDMASIKEDM--V----SIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGY   65 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv--~----~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGy   65 (150)
                      .++.++..+..++.|+  .    .++.-..++-.+++.|++....|+.+...+|+|+..++.++.-+
T Consensus       176 ~i~~l~~~l~~~~~~~~~~~~~~~~~~~~~e~~~r~~~lr~~~~~l~~el~~aK~~~~~~~~~~~~~  242 (264)
T PF07246_consen  176 EISNLTNELSNLRNDIDKFQEREDEKILHEELEARESGLRNESKWLEHELSDAKEDMIRLRNDISDF  242 (264)
T ss_pred             HHHHhhhhHHHhhchhhhhhhhhhHHHHHHHHHHhHhhhHHHHHHHHHHHHHHHHHHHHHHhcccch
Confidence            3445555555555552  1    12222234444555666666677777777777777777776543

The function of this family is unknown.

>PRK02224 chromosome segregation protein; Provisional

Probab=88.92  E-value=2.7  Score=39.96  Aligned_cols=39  Identities=10%  Similarity=0.421  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603          20 MVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus        20 v~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      +..++++++.++.++..+...+..+..++..++.++.++
T Consensus       358 ~~~l~~~~~~l~~~~~~~~~~l~~~~~~l~~l~~el~el  396 (880)
T PRK02224        358 AEELREEAAELESELEEAREAVEDRREEIEELEEEIEEL  396 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333333

>PHA03395 p10 fibrous body protein; Provisional

Probab=88.87  E-value=3  Score=30.90  Aligned_cols=56  Identities=13%  Similarity=0.400  Sum_probs=33.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      |+.||+.+.++|..|.+-|+.+++.+    .||++|.+-+..+-+-+..+-+-|+.+-+-
T Consensus         9 Ir~dIkavd~KVdalQ~~V~~l~~nl----pdv~~l~~kLdaq~~~Ltti~tkv~~I~di   64 (87)
T PHA03395          9 IRQDIKAVSDKVDALQAAVDDVRANL----PDVTEINEKLDAQSASLDTISSAVDNITDI   64 (87)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHhcC----CcHHHHHHHHHhHHHHHHHHHHHHHHHHHc
Confidence            55666666666666666555554322    356666666666666666666666655443

>KOG0977|consensus

Probab=88.85  E-value=2.1  Score=40.57  Aligned_cols=37  Identities=8%  Similarity=0.484  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIK   45 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK   45 (150)
                      |+.+++.+|.++..|.+|+..||.++..|..++..+|
T Consensus       153 leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r  189 (546)
T KOG0977|consen  153 LEAEINTLKRRIKALEDELKRLKAENSRLREELARAR  189 (546)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            3333333333333333333334433333333333333

>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3

Probab=88.80  E-value=0.61  Score=38.82  Aligned_cols=21  Identities=14%  Similarity=0.477  Sum_probs=13.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVS   22 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~   22 (150)
                      +|.+|..|.+.|+.+++....
T Consensus       101 LkrELa~Le~~l~~~~~~~~~  121 (195)
T PF12761_consen  101 LKRELAELEEKLSKVEQAAES  121 (195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHh
Confidence            566667777766666665544

>PF08700 Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT tethering complex (also known as GARP complex, Golgi associated retrograde protein complex, Vps53 tethering complex) is a conserved eukaryotic docking complex which is involved in recycling of proteins from endosomes to the late Golgi

Probab=88.74  E-value=3.1  Score=28.46  Aligned_cols=30  Identities=10%  Similarity=0.441  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          23 IKEDMASIKVDMGSIKEDMGSIKDDMGSIK   52 (150)
Q Consensus        23 LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK   52 (150)
                      .-..|..|+.++..|+.-+.+|++.+..|.
T Consensus        56 as~~I~~m~~~~~~l~~~l~~l~~~~~~l~   85 (87)
T PF08700_consen   56 ASDEISSMENDLSELRNLLSELQQSIQSLQ   85 (87)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            344555555555555555555555555543

Vps51 (also known as Vps67) is a subunit of VFT and interacts with the SNARE Tlg1 [].

>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function

Probab=88.73  E-value=3.7  Score=28.21  Aligned_cols=54  Identities=4%  Similarity=0.239  Sum_probs=41.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      |.+.|..|..-++-.-.-|.+|..=|.....+|..|+..+..|.+.+.++....
T Consensus         2 le~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~~~~   55 (69)
T PF04102_consen    2 LEERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRELEDPS   55 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT--------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            677888999999999999999999999999999999999999999988887543

It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.

>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=88.67  E-value=3.8  Score=30.48  Aligned_cols=27  Identities=15%  Similarity=0.354  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIK   31 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK   31 (150)
                      .+..|+.+|..|.+.|..|+.-...+.
T Consensus         7 ~v~~I~~~i~~i~~~v~~l~~l~~~~~   33 (151)
T cd00179           7 EVEEIRGNIDKISEDVEELQKLHSQLL   33 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444333

>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function

Probab=88.67  E-value=2.7  Score=39.89  Aligned_cols=53  Identities=6%  Similarity=0.366  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      .-+.++.+|++.|..|+++|.++..+|..|+..+..+.+.+..++.....+.+
T Consensus       325 ~~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~  377 (594)
T PF05667_consen  325 EQEQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEE  377 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555666666666666666666666666666666666666666655555544

>PRK14160 heat shock protein GrpE; Provisional

Probab=88.63  E-value=1.9  Score=36.06  Aligned_cols=51  Identities=16%  Similarity=0.317  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603          12 DMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus        12 dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      .++.|+..+..|++.+..|+..+..||....-+..|...+|..+..=++++
T Consensus        55 ~~~~l~~e~~~l~~~l~~l~~e~~elkd~~lR~~AefeN~RKR~~kE~e~~  105 (211)
T PRK14160         55 KIEELKDENNKLKEENKKLENELEALKDRLLRTVAEYDNYRKRTAKEKEGI  105 (211)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555555555555555555555555555555555555555554444443

>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal

Probab=88.47  E-value=2.1  Score=31.92  Aligned_cols=37  Identities=11%  Similarity=0.408  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          17 KEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus        17 K~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      .+.+..+++.+.++..++..||..+.++++.+..||+
T Consensus        79 ~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~k~lk~  115 (118)
T PF13815_consen   79 SSQLEQLEERLQELQQEIEKLKQKLKKQKEEIKKLKK  115 (118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444444444444

>PF07200 Mod_r: Modifier of rudimentary (Mod(r)) protein; InterPro: IPR009851 This entry represents a conserved region approximately 150 residues long within a number of eukaryotic proteins that show homology with Drosophila melanogaster Modifier of rudimentary (Mod(r)) proteins

Probab=88.37  E-value=4.1  Score=30.87  Aligned_cols=57  Identities=5%  Similarity=0.303  Sum_probs=35.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      ++.++..+......|-+..-.++..+.++|..|..+.+....|++....++..+..+
T Consensus        32 ~~~~~~~l~~~n~~lAe~nL~~~~~l~~~r~~l~~~~~~~~~L~~~~~~k~~~~~~l   88 (150)
T PF07200_consen   32 LQQEREELLAENEELAEQNLSLEPELEELRSQLQELYEELKELESEYQEKEQQQDEL   88 (150)
T ss_dssp             HHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455666666676777666666667777777777777777777766666666655544

The N-terminal half of Mod(r) proteins is acidic, whereas the C-terminal half is basic [], and both of these regions are represented in this family.; PDB: 2CAZ_F 2P22_C 2F66_F.

>KOG2629|consensus

Probab=88.37  E-value=2.6  Score=37.25  Aligned_cols=34  Identities=12%  Similarity=0.375  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603          29 SIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus        29 ~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      +|-.+++.||.=...|+.++..|+.+++.+|+++
T Consensus       158 Els~~L~~l~~~~~~~s~~~~k~esei~~Ik~lv  191 (300)
T KOG2629|consen  158 ELSRALASLKNTLVQLSRNIEKLESEINTIKQLV  191 (300)
T ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence            3444555555555555566666666666666554

>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function

Probab=88.28  E-value=3.3  Score=37.04  Aligned_cols=57  Identities=19%  Similarity=0.538  Sum_probs=41.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKE-------------DMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~-------------DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      +++.++.+++++..|+..+..++.             -+..|+.....|++.+++|++....|++.+..+
T Consensus       339 l~~~~~~~~~~l~~l~~~l~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~l~~~l~~~  408 (451)
T PF03961_consen  339 LEEELEELKEELEKLKKNLKKLKKLKKQGKLPPEKKEQLKKLKEKKKELKEELKELKEELKELKEELERS  408 (451)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhcccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            466777777777777777766654             345677777788888888888888888877776

The proteins are in the region of 500-600 amino acid residues in length.

>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures

Probab=88.23  E-value=7  Score=27.38  Aligned_cols=55  Identities=7%  Similarity=0.388  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      |..|.++-..|..-...+.+=|..|+..+..+-..+..|+..+..+-.++..+++
T Consensus        14 Ia~L~eEGekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~   68 (74)
T PF12329_consen   14 IAQLMEEGEKLSKKELKLNNTIKKLRAKIKELEKQIKELKKKLEELEKELESLEE   68 (74)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555444444444444444444444444444455555444444444444443

The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.

>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=88.22  E-value=2.5  Score=31.47  Aligned_cols=25  Identities=16%  Similarity=0.331  Sum_probs=14.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKED   26 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~D   26 (150)
                      |+.+|..|...|..|+.-...+.+-
T Consensus        11 I~~~i~~i~~~v~~l~~l~~~~~t~   35 (151)
T cd00179          11 IRGNIDKISEDVEELQKLHSQLLTA   35 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            5566666666666666655555543

>KOG0971|consensus

Probab=88.20  E-value=2.7  Score=42.59  Aligned_cols=23  Identities=22%  Similarity=0.524  Sum_probs=9.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDM   27 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV   27 (150)
                      |+..+|+.+.+|..|+..||++|
T Consensus       333 eve~lkEr~deletdlEILKaEm  355 (1243)
T KOG0971|consen  333 EVEALKERVDELETDLEILKAEM  355 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444444443

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=88.14  E-value=5.2  Score=31.13  Aligned_cols=40  Identities=8%  Similarity=0.332  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIK   45 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK   45 (150)
                      ++.+..+...+.++|.+|..=+..|..||..+.+.+.++|
T Consensus        23 ~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k   62 (143)
T PF12718_consen   23 VKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAK   62 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333344444444444444333

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site

Probab=88.14  E-value=3.3  Score=38.40  Aligned_cols=55  Identities=25%  Similarity=0.499  Sum_probs=33.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMA   56 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs   56 (150)
                      |.+.++.+.+.+..+++....+++.+..|..|=..-|+.+..++.++..+|.-|.
T Consensus       377 i~~~l~~~~~~l~~ie~~q~~~~~~l~~L~~dE~~Ar~~l~~~~~~l~~ikR~le  431 (560)
T PF06160_consen  377 IQEELEEIEEQLEEIEEEQEEINESLQSLRKDEKEAREKLQKLKQKLREIKRRLE  431 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455556666666666666666666666666666666666666666666665554

EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane

>PF03310 Cauli_DNA-bind: Caulimovirus DNA-binding protein; InterPro: IPR004986 The gene III product (P15) of cauliflower mosaic virus (CaMV) is a DNA binding protein in which the DNA binding activity is located on its C-terminal part

Probab=88.12  E-value=2.2  Score=33.31  Aligned_cols=47  Identities=17%  Similarity=0.364  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGS   50 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~   50 (150)
                      .+|..|.+++..+++||..|-+-.....+|.+.|..=.+.+=.||+.
T Consensus         6 kEi~~l~~~lk~~~~~i~ailek~~s~~~~~e~lEsiAAKIIkDisd   52 (121)
T PF03310_consen    6 KEISELIQELKKIESDIKAILEKLQSTEQDQENLESIAAKIIKDISD   52 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTS--HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHH
Confidence            46777777777777777777555555555555555555555555543

A family of related proteins is expressed by other members of the Caulimoviridae.; GO: 0003677 DNA binding; PDB: 3F6N_A 3K4T_D.

>KOG3294|consensus

Probab=88.07  E-value=1.2  Score=38.68  Aligned_cols=9  Identities=11%  Similarity=0.139  Sum_probs=3.8

Q ss_pred             CCCCCCCCC
Q psy9603         125 KRGYGVNKR  133 (150)
Q Consensus       125 ~~gyg~~~~  133 (150)
                      ++++.+++.
T Consensus       227 ~~~~~a~p~  235 (261)
T KOG3294|consen  227 AAGAAASPA  235 (261)
T ss_pred             ccccccCcc
Confidence            334444443

>KOG0995|consensus

Probab=88.03  E-value=2.9  Score=39.92  Aligned_cols=12  Identities=8%  Similarity=0.340  Sum_probs=4.3

Q ss_pred             HHHHHHHHHHHH
Q psy9603          11 EDMASIKEDMVS   22 (150)
Q Consensus        11 ~dv~~LK~Dv~~   22 (150)
                      +++..|+..+.+
T Consensus       308 eE~e~lq~~~d~  319 (581)
T KOG0995|consen  308 EEIEKLQKENDE  319 (581)
T ss_pred             HHHHHHHHHHHH
Confidence            333333333333

>TIGR02209 ftsL_broad cell division protein FtsL

Probab=88.02  E-value=2.5  Score=29.02  Aligned_cols=35  Identities=0%  Similarity=0.337  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          18 EDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIK   52 (150)
Q Consensus        18 ~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK   52 (150)
                      ..+..+..+++.+++.+..++++.+.|+.++..|.
T Consensus        24 ~~~~~~~~~~~~~~~~~~~l~~en~~L~~ei~~l~   58 (85)
T TIGR02209        24 HQTRQLNNELQKLQLEIDKLQKEWRDLQLEVAELS   58 (85)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            34444444444455444444444444444444443

This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.

>PF15397 DUF4618: Domain of unknown function (DUF4618)

Probab=88.01  E-value=1.4  Score=38.09  Aligned_cols=32  Identities=3%  Similarity=0.448  Sum_probs=14.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603          30 IKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus        30 LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      |+..|...|+.+.+|+++|..||.+|..|..+
T Consensus       191 m~kei~~~re~i~el~e~I~~L~~eV~~L~~~  222 (258)
T PF15397_consen  191 MQKEIVQFREEIDELEEEIPQLRAEVEQLQAQ  222 (258)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44444444444444444444444444444433

>KOG3433|consensus

Probab=88.00  E-value=3.4  Score=34.68  Aligned_cols=61  Identities=13%  Similarity=0.268  Sum_probs=39.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIG   63 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Dig   63 (150)
                      +.=+.+|.+++++.+++..+|.+-+...|.+-..-+++..+|+....+||.++..+|.++.
T Consensus        80 ks~~qeLe~~L~~~~qk~~tl~e~~en~K~~~e~tEer~~el~kklnslkk~~e~lr~el~  140 (203)
T KOG3433|consen   80 KSVLQELESQLATGSQKKATLGESIENRKAGREETEERTDELTKKLNSLKKILESLRWELA  140 (203)
T ss_pred             HHHHHHHHHHHHHhhhhHhHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445667777777777777777777666666666666666666666666666666665543

>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal

Probab=87.97  E-value=2.4  Score=31.64  Aligned_cols=39  Identities=10%  Similarity=0.430  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603          23 IKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus        23 LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      |-+-+..|++.+..+.+++..|++.+..+++.+..+|.+
T Consensus        78 L~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~k~lk~E  116 (118)
T PF13815_consen   78 LSSQLEQLEERLQELQQEIEKLKQKLKKQKEEIKKLKKE  116 (118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            444455555555555555555555555555555555543

>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast)

Probab=87.95  E-value=5.3  Score=32.38  Aligned_cols=24  Identities=4%  Similarity=0.426  Sum_probs=10.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMA   28 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~   28 (150)
                      .++.|+.++..++..+..|+..+.
T Consensus        70 ~~~~l~~~~~~~~~~i~~l~~~i~   93 (188)
T PF03962_consen   70 KLEKLQKEIEELEKKIEELEEKIE   93 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444443

The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].

>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []

Probab=87.89  E-value=6.8  Score=30.05  Aligned_cols=9  Identities=11%  Similarity=0.660  Sum_probs=3.8

Q ss_pred             HHHHhhhhc
Q psy9603          54 DMASIKEDI   62 (150)
Q Consensus        54 Dvs~lK~Di   62 (150)
                      .|.+|+.||
T Consensus        97 ~veEL~~Dv  105 (120)
T PF12325_consen   97 EVEELRADV  105 (120)
T ss_pred             HHHHHHHHH
Confidence            344444443

The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].

>PF07407 Seadorna_VP6: Seadornavirus VP6 protein; InterPro: IPR009982 This family consists of several VP6 proteins from the Banna virus as well as a related protein VP5 from the Kadipiro virus

Probab=87.85  E-value=2.9  Score=38.02  Aligned_cols=17  Identities=18%  Similarity=0.347  Sum_probs=6.1

Q ss_pred             HHHHHHHHHHHHHHHHH
Q psy9603          14 ASIKEDMVSIKEDMASI   30 (150)
Q Consensus        14 ~~LK~Dv~~LK~DV~~L   30 (150)
                      +.||.+++.||..|..|
T Consensus        42 ~~LKkEN~~Lk~eVerL   58 (420)
T PF07407_consen   42 HSLKKENNDLKIEVERL   58 (420)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33333333333333333

Members of this family are typically of around 420 residues in length. The function of this family is unknown.

>PF09738 DUF2051: Double stranded RNA binding protein (DUF2051); InterPro: IPR019139 This entry represents transcriptional repressors which preferentially bind to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA

Probab=87.80  E-value=4.2  Score=35.63  Aligned_cols=62  Identities=11%  Similarity=0.260  Sum_probs=45.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIG   63 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Dig   63 (150)
                      +|..|..+.+.+++++.++..-..|+.-+|.-...|+.++..||+-+....+=|..+--=|.
T Consensus       117 Lkd~lee~eE~~~~~~re~~eK~~elEr~K~~~d~L~~e~~~Lre~L~~rdeli~khGlVlv  178 (302)
T PF09738_consen  117 LKDKLEELEETLAQLQREYREKIRELERQKRAHDSLREELDELREQLKQRDELIEKHGLVLV  178 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCeeeC
Confidence            56777777777888877777777777777777777777777777777776666655443333

They may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. They interact with the leucine-rich repeat domain of human flightless-I (FliI) protein.

>PF05055 DUF677: Protein of unknown function (DUF677); InterPro: IPR007749 This entry contains proteins belonging to the UPF0496 family, found in plants

Probab=87.77  E-value=2.2  Score=37.77  Aligned_cols=59  Identities=17%  Similarity=0.320  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMA---SIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~---~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      .+||+.|+.-|+.|.++|..+|.=|.   +-+.|-..+|+-|.+||..+..+.+.+.+|.+.
T Consensus       256 ~~DldTIsrLV~RL~deIE~~~~~v~fave~~~d~~~vk~vv~el~k~~~~f~~qleELeeh  317 (336)
T PF05055_consen  256 IKDLDTISRLVDRLEDEIEHMKALVDFAVERGEDEEAVKEVVKELKKNVESFTEQLEELEEH  317 (336)
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            57888888888888888877776553   222333456666666666666666666655443

This family includes AT14A like proteins from Arabidopsis thaliana. At14a contains a small domain that has sequence similarities to integrins from fungi, insects and humans. Transcripts of At14a are found in all Arabidopsis tissues and the protein localises partly to the plasma membrane [].

>PF13166 AAA_13: AAA domain

Probab=87.71  E-value=3  Score=38.55  Aligned_cols=63  Identities=13%  Similarity=0.400  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCC
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYG   66 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg   66 (150)
                      .++..++.++..++..+..++..+..++..+..++.++.+|++.+...+.-+..+-+...-+|
T Consensus       410 ~~i~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~iN~~L~~~g  472 (712)
T PF13166_consen  410 EDIEEYQKEIKELEKEINSLEKKLKKAKEEIKKIEKEIKELEAQLKNTEPAADRINEELKRLG  472 (712)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            334444444444444455555555555555555555555555544433333333333333443

>PF14712 Snapin_Pallidin: Snapin/Pallidin

Probab=87.60  E-value=7.7  Score=27.13  Aligned_cols=30  Identities=3%  Similarity=0.298  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKV   32 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~   32 (150)
                      ++-+.++...-..|.+.|..+.+...+++.
T Consensus        20 ~~~l~el~~sQ~~L~~~i~~~~~~L~~~~~   49 (92)
T PF14712_consen   20 DQQLQELRQSQEELLQQIDRLNEKLKELNE   49 (92)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555555554444

>PF05852 DUF848: Gammaherpesvirus protein of unknown function (DUF848); InterPro: IPR008566 This family consists of several uncharacterised proteins from the Gammaherpesvirinae

Probab=87.47  E-value=3.4  Score=33.06  Aligned_cols=53  Identities=23%  Similarity=0.413  Sum_probs=26.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHhhh
Q psy9603           7 GSIKEDMASIKEDMVSIKEDMASIKVDMGSIK-EDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK-~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      ..+++.|..++..|..-++.++.||. ++--| +++..|-+.|..||+++..-=+
T Consensus        57 ~~~~~~v~~~~~~i~~k~~El~~L~~-~d~~kv~~~E~L~d~v~eLkeel~~el~  110 (146)
T PF05852_consen   57 CEIKNKVSSLETEISEKKKELSHLKK-FDRKKVEDLEKLTDRVEELKEELEFELE  110 (146)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh-cCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555666666666666666666653 22221 2334444444444444443333

>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function

Probab=87.44  E-value=3.3  Score=36.72  Aligned_cols=16  Identities=13%  Similarity=0.349  Sum_probs=5.9

Q ss_pred             HHHHHHHHHHHHHHHH
Q psy9603          42 GSIKDDMGSIKEDMAS   57 (150)
Q Consensus        42 ~~LK~DV~~LK~Dvs~   57 (150)
                      ..|..|+.++-++-.+
T Consensus       143 ~qLe~d~qs~lDEkeE  158 (319)
T PF09789_consen  143 EQLERDLQSLLDEKEE  158 (319)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333333333333333

>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes

Probab=87.43  E-value=1.7  Score=41.96  Aligned_cols=57  Identities=9%  Similarity=0.412  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      +..|..||+.||.|+...++==.+|+..|..|-.+=..+|.++..||.|...|.+.+
T Consensus       420 ~~rLE~dvkkLraeLq~~Rq~E~ELRsqis~l~~~Er~lk~eL~qlr~ene~Lq~Kl  476 (697)
T PF09726_consen  420 ISRLEADVKKLRAELQSSRQSEQELRSQISSLTNNERSLKSELSQLRQENEQLQNKL  476 (697)
T ss_pred             HHHHHHHHHHHHHHHHhhhhhHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555555666666665555667777777777777776654

; GO: 0016021 integral to membrane

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=87.38  E-value=2.7  Score=40.50  Aligned_cols=42  Identities=10%  Similarity=0.412  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIK   45 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK   45 (150)
                      .+|..+.+.|..|+.++..||..+.+||..|..|++..++++
T Consensus       422 ~~i~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~  463 (652)
T COG2433         422 KRIKKLEETVERLEEENSELKRELEELKREIEKLESELERFR  463 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444555555555555555555544444444444443

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=87.35  E-value=6.4  Score=36.78  Aligned_cols=22  Identities=5%  Similarity=0.268  Sum_probs=11.3

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhh
Q psy9603          40 DMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus        40 DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      +...|++++..++.-+..|...
T Consensus       117 ~~~ql~~~~~~~~~~l~~l~~~  138 (472)
T TIGR03752       117 EIEQLKSERQQLQGLIDQLQRR  138 (472)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555555555555443

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.

>PRK14549 50S ribosomal protein L29P; Provisional

Probab=87.20  E-value=3.4  Score=28.68  Aligned_cols=18  Identities=11%  Similarity=0.296  Sum_probs=8.8

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q psy9603           7 GSIKEDMASIKEDMVSIK   24 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK   24 (150)
                      ++|++.+.+++.++..|+
T Consensus        15 ~eL~~~l~elk~eLf~LR   32 (69)
T PRK14549         15 EEREEKLEELKLELLKER   32 (69)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            444444555555544444

>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast)

Probab=87.20  E-value=6.3  Score=31.91  Aligned_cols=31  Identities=3%  Similarity=0.301  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIK   38 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK   38 (150)
                      .++..+..|+.++..++..+.+|+..+..+|
T Consensus        66 ~~~~~~~~l~~~~~~~~~~i~~l~~~i~~~~   96 (188)
T PF03962_consen   66 KRQNKLEKLQKEIEELEKKIEELEEKIEEAK   96 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444443

The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].

>KOG0946|consensus

Probab=87.15  E-value=3.3  Score=41.36  Aligned_cols=56  Identities=13%  Similarity=0.317  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIG   63 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Dig   63 (150)
                      .+|+.+.++..++.++|++..+|+.....|++.|..+-+..+.||+.++.||...+
T Consensus       661 kyK~lI~~lD~~~e~lkQ~~~~l~~e~eeL~~~vq~~~s~hsql~~q~~~Lk~qLg  716 (970)
T KOG0946|consen  661 KYKGLIRELDYQIENLKQMEKELQVENEELEEEVQDFISEHSQLKDQLDLLKNQLG  716 (970)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            34555555555666666666666666666666666666666677777777776544

>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra []

Probab=87.14  E-value=3  Score=29.99  Aligned_cols=49  Identities=6%  Similarity=0.395  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      .|++||+.+.+-|..|.+.|..|++.+    .+|++|.+-+..+-.-+..+-+
T Consensus         8 ~Ir~dIk~vd~KVdaLq~~V~~l~~~~----~~v~~l~~klDa~~~~l~~l~~   56 (75)
T PF05531_consen    8 VIRQDIKAVDDKVDALQTQVDDLESNL----PDVTELNKKLDAQSAQLTTLNT   56 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcC----CchHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444443333    3566677777666666655544

; GO: 0019028 viral capsid

>KOG4010|consensus

Probab=87.11  E-value=4.8  Score=33.91  Aligned_cols=21  Identities=5%  Similarity=0.484  Sum_probs=9.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q psy9603          15 SIKEDMVSIKEDMASIKVDMG   35 (150)
Q Consensus        15 ~LK~Dv~~LK~DV~~LK~DV~   35 (150)
                      +|++++..+.++|..||+=.+
T Consensus        48 elr~EL~kvEeEI~TLrqVLa   68 (208)
T KOG4010|consen   48 ELRTELAKVEEEIVTLRQVLA   68 (208)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444333

>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional

Probab=87.07  E-value=3.8  Score=40.27  Aligned_cols=18  Identities=11%  Similarity=0.272  Sum_probs=12.2

Q ss_pred             HHHHHHHHHhhhhcCCCC
Q psy9603          49 GSIKEDMASIKEDIGGYG   66 (150)
Q Consensus        49 ~~LK~Dvs~lK~DigGyg   66 (150)
                      +.||+-+..||.++.=.|
T Consensus       669 s~LK~k~E~Lk~Evaka~  686 (762)
T PLN03229        669 SDLKSKIELLKLEVAKAS  686 (762)
T ss_pred             hhHHHHHHHHHHHHHhcC
Confidence            567777888887774333

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=87.00  E-value=4.2  Score=36.25  Aligned_cols=25  Identities=20%  Similarity=0.527  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603          37 IKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus        37 LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      +.+++.++++.+..++..+...+..
T Consensus       289 ~~~~l~~~~~~l~~~~~~l~~a~~~  313 (457)
T TIGR01000       289 VKQEITDLNQKLLELESKIKSLKED  313 (457)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444445555555555555444443

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>TIGR02977 phageshock_pspA phage shock protein A

Probab=86.96  E-value=6.4  Score=32.09  Aligned_cols=39  Identities=10%  Similarity=0.384  Sum_probs=19.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDD   47 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~D   47 (150)
                      ..+.+..|+..+..++.-|..|++.+..|+..+.++|.-
T Consensus        97 ~~~~~~~l~~~~~~~~~~v~~l~~~l~~L~~ki~~~k~k  135 (219)
T TIGR02977        97 AQELAEALERELAAVEETLAKLQEDIAKLQAKLAEARAR  135 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555555555555555555555555555555443

Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.

>PF07407 Seadorna_VP6: Seadornavirus VP6 protein; InterPro: IPR009982 This family consists of several VP6 proteins from the Banna virus as well as a related protein VP5 from the Kadipiro virus

Probab=86.96  E-value=3.1  Score=37.89  Aligned_cols=39  Identities=13%  Similarity=0.306  Sum_probs=19.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHH
Q psy9603          13 MASIKEDMVSIKEDMASIKVDMGSIKEDMGS--IKDDMGSI   51 (150)
Q Consensus        13 v~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~--LK~DV~~L   51 (150)
                      ...|+++-..||.+.++||..|+.|++++..  +-+||..+
T Consensus        34 ~~aLr~EN~~LKkEN~~Lk~eVerLE~e~l~s~V~E~vet~   74 (420)
T PF07407_consen   34 NFALRMENHSLKKENNDLKIEVERLENEMLRSHVCEDVETN   74 (420)
T ss_pred             hhhHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHH
Confidence            3445555555555555555555555555543  33444433

Members of this family are typically of around 420 residues in length. The function of this family is unknown.

>PRK04863 mukB cell division protein MukB; Provisional

Probab=86.91  E-value=2.7  Score=43.78  Aligned_cols=44  Identities=14%  Similarity=0.280  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV   48 (150)
                      +++.|++.+.++.+.+.++++.+.++..++..+.+.+.+|++.+
T Consensus       356 ~LeELee~Lee~eeeLeeleeeleeleeEleelEeeLeeLqeqL  399 (1486)
T PRK04863        356 DLEELEERLEEQNEVVEEADEQQEENEARAEAAEEEVDELKSQL  399 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444333333333333333333333

>PF10359 Fmp27_WPPW: RNA pol II promoter Fmp27 protein domain; InterPro: IPR019449 The function of the FMP27 protein is not known

Probab=86.80  E-value=2.4  Score=38.66  Aligned_cols=63  Identities=13%  Similarity=0.339  Sum_probs=42.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCc
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMAS---------IKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGV   67 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~---------LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg~   67 (150)
                      -++.|++.+.+|++.|..+++-+.+         ++.++..|.+.+..|++-+..|+..+..++.....-..
T Consensus       164 Q~~L~~~Rl~~L~~qi~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~~~~  235 (475)
T PF10359_consen  164 QIELIQERLDELEEQIEKHEEKLGELELNPDDPELKSDIEELERHISSLKERIEFLENMLEDLEDSESSSDQ  235 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccCC
Confidence            3445555555555555555555554         57788888888888888888888888887776554443

FMP27 is the product of a nuclear encoded gene but it is detected in highly purified mitochondria in high-throughput studies []. This entry represents a domain within FMP27 that contains characteristic HQR and WPPW sequence motifs.

>PRK00736 hypothetical protein; Provisional

Probab=86.79  E-value=8.2  Score=26.65  Aligned_cols=50  Identities=10%  Similarity=0.280  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      .+.|..|+..|+....-|.+|-.-|..-..+|       ..|+.-+..|.+.+.++.
T Consensus         4 e~Ri~~LE~klafqe~tie~Ln~~v~~Qq~~i-------~~L~~ql~~L~~rl~~~~   53 (68)
T PRK00736          4 EERLTELEIRVAEQEKTIEELSDQLAEQWKTV-------EQMRKKLDALTERFLSLE   53 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHhc
Confidence            34455555555555555555555555554444       444445555555555443

>KOG4674|consensus

Probab=86.77  E-value=2.8  Score=44.60  Aligned_cols=55  Identities=9%  Similarity=0.314  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMAS   57 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~   57 (150)
                      +++.+...+++.+|...|..++.|+..|..+..+||+.+.....++..|+.++..
T Consensus      1235 Ree~~~~~~k~qEl~~~i~kl~~el~plq~~l~el~~e~~~~~ael~~l~~e~~~ 1289 (1822)
T KOG4674|consen 1235 REENEANLEKIQELRDKIEKLNFELAPLQNELKELKAELQEKVAELKKLEEENDR 1289 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444455555555555555444444444444444444444444444433

>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site

Probab=86.74  E-value=5  Score=37.28  Aligned_cols=57  Identities=16%  Similarity=0.387  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      +..|+.+.+.|..+.+++..|.+.+.+|..==..-+..|.+||+.-..||..+....
T Consensus       100 ~~~i~~~~~~l~~~e~~i~~i~~~l~~L~~~e~~nr~~i~~l~~~y~~lrk~ll~~~  156 (560)
T PF06160_consen  100 KQAIKEIEEQLDEIEEDIKEILDELDELLESEEKNREEIEELKEKYRELRKELLAHS  156 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            455666666666666666666666666655555555555555555555555555444

EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane

>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures

Probab=86.63  E-value=8.7  Score=26.90  Aligned_cols=52  Identities=6%  Similarity=0.319  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMA   56 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs   56 (150)
                      ....|......+.+=|..|+..+.++-..+..|+..++.+-.++..|++.++
T Consensus        20 EGekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~~l~   71 (74)
T PF12329_consen   20 EGEKLSKKELKLNNTIKKLRAKIKELEKQIKELKKKLEELEKELESLEERLK   71 (74)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3444555555555556666666666666666666666666666666665544

The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.

>PRK02793 phi X174 lysis protein; Provisional

Probab=86.62  E-value=5.8  Score=27.69  Aligned_cols=53  Identities=4%  Similarity=0.260  Sum_probs=41.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKED   54 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~D   54 (150)
                      +.+.|..|+..|+-...-|.+|-.=|.+...+|..|+..+..|++-+..+...
T Consensus         6 ~e~Ri~~LE~~lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~~~   58 (72)
T PRK02793          6 LEARLAELESRLAFQEITIEELNVTVTAHEMEMAKLRDHLRLLTEKLKASQPS   58 (72)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence            45678888888888888888888888888888888888888887777666543

>CHL00154 rpl29 ribosomal protein L29; Validated

Probab=86.58  E-value=3  Score=29.04  Aligned_cols=19  Identities=16%  Similarity=0.443  Sum_probs=10.9

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIK   24 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK   24 (150)
                      .++|++.+.+|+.+.-.|+
T Consensus        14 ~~eL~~~l~elk~elf~LR   32 (67)
T CHL00154         14 DSEISEEIIKTKKELFDLR   32 (67)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4455555666666655555

>KOG0996|consensus

Probab=86.56  E-value=3.2  Score=42.74  Aligned_cols=49  Identities=12%  Similarity=0.443  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603          12 DMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus        12 dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      .|..++.++..+|..+.+...++..++..+..|+.++..+.+.+.++|+
T Consensus       543 ~l~~~k~~l~~~k~e~~~~~k~l~~~~~e~~~~~~~~~~~rqrveE~ks  591 (1293)
T KOG0996|consen  543 ELDDLKEELPSLKQELKEKEKELPKLRKEERNLKSQLNKLRQRVEEAKS  591 (1293)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333344444444444444444444444444444

>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division []

Probab=86.56  E-value=7.8  Score=27.39  Aligned_cols=27  Identities=19%  Similarity=0.368  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          29 SIKVDMGSIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus        29 ~LK~DV~~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      +||.++.+|+.++.+++.-+..+..++
T Consensus        47 eLKve~~~L~~el~~~~~~l~~a~~~~   73 (75)
T PF07989_consen   47 ELKVEVESLKRELQEKKKLLKEAEKAI   73 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            466666666666666666666555544

>PRK00295 hypothetical protein; Provisional

Probab=86.54  E-value=7.8  Score=26.77  Aligned_cols=44  Identities=7%  Similarity=0.179  Sum_probs=23.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKD   46 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~   46 (150)
                      .+.|..|+..++-...-|.+|-.=|.....+|..|+..+..|.+
T Consensus         4 e~Ri~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~   47 (68)
T PRK00295          4 EERVTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAALIK   47 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555566666555555555555555555555555544444433

>KOG4603|consensus

Probab=86.51  E-value=2.7  Score=35.10  Aligned_cols=13  Identities=15%  Similarity=0.532  Sum_probs=5.2

Q ss_pred             HHHHHHHHHHHHh
Q psy9603          46 DDMGSIKEDMASI   58 (150)
Q Consensus        46 ~DV~~LK~Dvs~l   58 (150)
                      +.++.||..|+.+
T Consensus       123 e~i~~L~kev~~~  135 (201)
T KOG4603|consen  123 EEIQELKKEVAGY  135 (201)
T ss_pred             HHHHHHHHHHHHH
Confidence            3334444444333

>PF07902 Gp58: gp58-like protein; InterPro: IPR012892 Sequences found in this entry are derived from a number of bacteriophage and prophage proteins

Probab=86.49  E-value=1.3  Score=42.28  Aligned_cols=39  Identities=5%  Similarity=0.224  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGS   43 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~   43 (150)
                      +++.++.+++++...|..++.+++.|++-|..|+++|..
T Consensus       269 aVS~vqQtads~~~rLq~aE~n~SSL~QTV~GLqs~Vs~  307 (601)
T PF07902_consen  269 AVSRVQQTADSYQRRLQDAEGNYSSLTQTVRGLQSTVSD  307 (601)
T ss_pred             HHHHHHHHHHHHHhHHHHhHhHHHHHHHHHHHHHhhhhc
Confidence            344444444444444444444444444444444444433

They are similar to gp58 (Q38355 from SWISSPROT), a minor structural protein of Lactococcus delbrueckii bacteriophage LL-H [].

>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

Probab=86.42  E-value=8.7  Score=27.50  Aligned_cols=14  Identities=7%  Similarity=0.370  Sum_probs=5.5

Q ss_pred             HHHHHHHHHHHHHh
Q psy9603          45 KDDMGSIKEDMASI   58 (150)
Q Consensus        45 K~DV~~LK~Dvs~l   58 (150)
                      |+=|..++..|+.+
T Consensus        83 r~fv~~~~~~i~~~   96 (97)
T PF09177_consen   83 RQFVSAIRNQIKQM   96 (97)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc
Confidence            33334444444433

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.

>PF05615 THOC7: Tho complex subunit 7; InterPro: IPR008501 The Tho complex (THOC) is involved in transcription elongation and mRNA export from the nucleus []

Probab=86.32  E-value=9.3  Score=28.81  Aligned_cols=30  Identities=13%  Similarity=0.285  Sum_probs=12.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          27 MASIKVDMGSIKEDMGSIKDDMGSIKEDMA   56 (150)
Q Consensus        27 V~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs   56 (150)
                      +..-.+.-..+...|..+|++|..||..+.
T Consensus        76 ~e~Y~~~~~~i~~~i~~~k~~ie~lk~~L~  105 (139)
T PF05615_consen   76 RENYEQLNEEIEQEIEQAKKEIEELKEELE  105 (139)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333344444444444444444333

This entry represents the subunit THOC7, which is found in higher eukaryotes, and the non-homologous subunit Mft1p found in yeast. The funtions of these subunits are unknown, and it is not known if these subunits are functionally equivalent.

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=86.25  E-value=7.9  Score=28.09  Aligned_cols=53  Identities=9%  Similarity=0.299  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      |.-|+-+|.+||+.-++|..++.++..-...|.+.-..||+.-..-.+.+.+|
T Consensus        20 I~LLQmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk~e~~~WQerlrsL   72 (79)
T COG3074          20 ITLLQMEIEELKEKNNSLSQEVQNAQHQREALERENEQLKEEQNGWQERLRAL   72 (79)
T ss_pred             HHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566777777777777777777777777777777777777666666655554

>TIGR02449 conserved hypothetical protein TIGR02449

Probab=86.20  E-value=9.4  Score=26.71  Aligned_cols=56  Identities=5%  Similarity=0.215  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      |+..|.+.|..|-.-...|+++=..|++.+..+..+=+.|++-+..-++.|..+=+
T Consensus         1 ~L~~Le~kle~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekne~Ar~rvEamI~   56 (65)
T TIGR02449         1 ELQALAAQVEHLLEYLERLKSENRLLRAQEKTWREERAQLLEKNEQARQKVEAMIT   56 (65)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46677777887777777777777777777777777777777777666666555433

Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.

>PRK04863 mukB cell division protein MukB; Provisional

Probab=86.00  E-value=4.3  Score=42.36  Aligned_cols=45  Identities=9%  Similarity=0.214  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          10 KEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKED   54 (150)
Q Consensus        10 k~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~D   54 (150)
                      ..++.+|...+.+..+.+.+++..+..+.+++..+.+.+..|++.
T Consensus       354 ~~~LeELee~Lee~eeeLeeleeeleeleeEleelEeeLeeLqeq  398 (1486)
T PRK04863        354 QADLEELEERLEEQNEVVEEADEQQEENEARAEAAEEEVDELKSQ  398 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333344444444444444333

>PRK04654 sec-independent translocase; Provisional

Probab=85.91  E-value=5.1  Score=33.95  Aligned_cols=11  Identities=9%  Similarity=0.453  Sum_probs=4.0

Q ss_pred             HHHHHHHHHHH
Q psy9603          22 SIKEDMASIKV   32 (150)
Q Consensus        22 ~LK~DV~~LK~   32 (150)
                      +||..+..++.
T Consensus        58 ELrk~l~~~~~   68 (214)
T PRK04654         58 ELKRSLQDVQA   68 (214)
T ss_pred             HHHHHHHHHHH
Confidence            33333333333

>KOG0018|consensus

Probab=85.90  E-value=2.9  Score=42.54  Aligned_cols=41  Identities=12%  Similarity=0.343  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603          21 VSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus        21 ~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      ..+-+.|.++.-.++.++.++......|..|++.|..+-+.
T Consensus       714 ~~~~~~i~~~~p~i~~i~r~l~~~e~~~~~L~~~~n~ved~  754 (1141)
T KOG0018|consen  714 QRTESEIDEFGPEISEIKRKLQNREGEMKELEERMNKVEDR  754 (1141)
T ss_pred             HHHHHHHHhhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333344444555555555555555666655555443

>KOG0998|consensus

Probab=85.88  E-value=0.74  Score=45.12  Aligned_cols=30  Identities=7%  Similarity=0.355  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDM   34 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV   34 (150)
                      |++.|...+...+.+|++++.++.++++.+
T Consensus       492 ~~~~~~~~~~~~~~ei~~~~~~ln~~~qq~  521 (847)
T KOG0998|consen  492 DLNLLPLQLSNDNREISSLEKELNELQQQL  521 (847)
T ss_pred             hhhhcccccccchhhHHHHHHHHhhhHHHH
Confidence            333333333333333333333333333333

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=85.82  E-value=5.2  Score=35.69  Aligned_cols=25  Identities=20%  Similarity=0.431  Sum_probs=11.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          31 KVDMGSIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus        31 K~DV~~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      .+++..++..+.++++.+..++..+
T Consensus       290 ~~~l~~~~~~l~~~~~~l~~a~~~l  314 (457)
T TIGR01000       290 KQEITDLNQKLLELESKIKSLKEDS  314 (457)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444455555554444444443

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>PF02181 FH2: Formin Homology 2 Domain; InterPro: IPR015425 Formin homology (FH) proteins play a crucial role in the reorganisation of the actin cytoskeleton, which mediates various functions of the cell cortex including motility, adhesion, and cytokinesis []

Probab=85.62  E-value=3.7  Score=35.13  Aligned_cols=56  Identities=14%  Similarity=0.341  Sum_probs=25.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKV-------DMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~-------DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      |++.|.++|.+|+..+..+++.+.....       -...|++=+.+..+.+..|+++...+++
T Consensus       275 ~~~~l~~~i~~l~~~~~~~~~~l~~~~~~~~~~~~f~~~~~~f~~~~~~~~~~l~~~~~~~~~  337 (370)
T PF02181_consen  275 SLDELEQDIKELEKGLEKIKKELEAIEKDEEDDDKFKEKMKEFLEEAETKLDELQELYEELEE  337 (370)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHHHCCTTSSTT-THHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhccccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555555555555555433322       1233333344444444444444444443

Formins are multidomain proteins that interact with diverse signalling molecules and cytoskeletal proteins, although some formins have been assigned functions within the nucleus. Formins are characterised by the presence of three FH domains (FH1, FH2 and FH3), although members of the formin family do not necessarily contain all three domains []. The proline-rich FH1 domain mediates interactions with a variety of proteins, including the actin-binding protein profilin, SH3 (Src homology 3) domain proteins, and WW domain proteins. The FH2 domain is required for the self-association of formin proteins through the ability of FH2 domains to directly bind each other [], and may also act to inhibit actin polymerisation []. The FH3 domain (IPR010472 from INTERPRO) is less well conserved and may be important for determining intracellular localisation of formin family proteins. In addition, some formins can contain a GTPase-binding domain (GBD) (IPR010473 from INTERPRO) required for binding to Rho small GTPases, and a C-terminal conserved Dia-autoregulatory domain (DAD). This entry represents the FH2 domain, which was shown by X-ray crystallography to have an elongated, crescent shape containing three helical subdomains [].; PDB: 1Y64_B 1UX4_A 1UX5_A 3O4X_H 3OBV_E 1V9D_D 2Z6E_B 2J1D_G.

>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly

Probab=85.61  E-value=3.6  Score=29.76  Aligned_cols=28  Identities=0%  Similarity=0.372  Sum_probs=10.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          18 EDMVSIKEDMASIKVDMGSIKEDMGSIK   45 (150)
Q Consensus        18 ~Dv~~LK~DV~~LK~DV~~LK~DV~~LK   45 (150)
                      ..+..|+.-+..|..++..+++.+++|+
T Consensus        94 ~r~~~l~~~~~~l~~~~~~~~~~~~~l~  121 (129)
T cd00890          94 KRLETLEKQIEKLEKQLEKLQDQITELQ  121 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333

The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.

>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea

Probab=85.60  E-value=3.8  Score=29.73  Aligned_cols=22  Identities=5%  Similarity=0.330  Sum_probs=7.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q psy9603          33 DMGSIKEDMGSIKDDMGSIKED   54 (150)
Q Consensus        33 DV~~LK~DV~~LK~DV~~LK~D   54 (150)
                      .|..|.+.+..+.+.+..+|..
T Consensus        78 ~i~~l~~~~~~l~~~~~elk~~   99 (105)
T cd00632          78 RIKRLERQEEDLQEKLKELQEK   99 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333

Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=85.52  E-value=6.8  Score=34.17  Aligned_cols=50  Identities=12%  Similarity=0.397  Sum_probs=32.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSI   51 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~L   51 (150)
                      ||+|...+|+.+.++..+-.+|.....+|...++.+.+.+..|.-+.+.|
T Consensus       133 ~ke~~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~L  182 (290)
T COG4026         133 LKEDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRL  182 (290)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            67777777777777776666666666666666666666665555444443

>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin

Probab=85.52  E-value=6  Score=34.28  Aligned_cols=52  Identities=10%  Similarity=0.356  Sum_probs=34.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      |++-|+.+.+.+..++..+..|+.|-+.|-..|..-|.++.-.+..+++|++
T Consensus       167 l~~ai~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~  218 (267)
T PF10234_consen  167 LKEAIKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQS  218 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4455566666666666666666666666666666667777666666666654

Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].

>PRK11020 hypothetical protein; Provisional

Probab=85.45  E-value=7.4  Score=30.31  Aligned_cols=65  Identities=14%  Similarity=0.414  Sum_probs=38.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHH-----------HHHHH----------HHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIK-----EDMASIKVDMGSIKEDMGSIKD-----------DMGSI----------KEDM   55 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK-----~DV~~LK~DV~~LK~DV~~LK~-----------DV~~L----------K~Dv   55 (150)
                      +|++|..|.+.+..++.-+..++     +=|++++.+++.|-..|+.||.           ++..|          ..||
T Consensus         3 ~K~Eiq~L~drLD~~~~Klaaa~~rgd~~~i~qf~~E~~~l~k~I~~lk~~~~~~lske~~~l~~lpF~R~iTK~EQADM   82 (118)
T PRK11020          3 EKNEIKRLSDRLDAIRHKLAAASLRGDAEKYAQFEKEKATLEAEIARLKEVQSQKLSKEAQKLMKLPFSRAITKKEQADM   82 (118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcchhccHHHHHhH
Confidence            57888888888777766554433     2244555555555555555542           22222          4578


Q ss_pred             HHhhhhcCCCC
Q psy9603          56 ASIKEDIGGYG   66 (150)
Q Consensus        56 s~lK~DigGyg   66 (150)
                      -.||..|.|+=
T Consensus        83 GkLKKSVrGLV   93 (118)
T PRK11020         83 GKLKKSVRGLV   93 (118)
T ss_pred             HHHhhccccee
Confidence            88888777753

>TIGR00012 L29 ribosomal protein L29

Probab=85.30  E-value=3.1  Score=27.47  Aligned_cols=20  Identities=5%  Similarity=0.398  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIK   24 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK   24 (150)
                      +.++|++.+.+++.++..|+
T Consensus         6 s~~EL~~~l~~lr~eLf~Lr   25 (55)
T TIGR00012         6 SKEELAKKLDELKKELFELR   25 (55)
T ss_pred             CHHHHHHHHHHHHHHHHHHH
Confidence            45667777777777776666

called L29 in prokaryotic (50S) large subunits and L35 in eukaryotic (60S) large subunits.

>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans

Probab=85.28  E-value=5.4  Score=36.27  Aligned_cols=29  Identities=24%  Similarity=0.431  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVD   33 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~D   33 (150)
                      .+..|+++|.++|+....|.+++..||.+
T Consensus       213 ~l~~~~~el~eik~~~~~L~~~~e~Lk~~  241 (395)
T PF10267_consen  213 GLQKILEELREIKESQSRLEESIEKLKEQ  241 (395)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46677778888888888888888777763

Its function is unknown.

>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation

Probab=85.25  E-value=1.8  Score=30.02  Aligned_cols=29  Identities=14%  Similarity=0.392  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          25 EDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus        25 ~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      ++|..||+-|..|.+.++.|+.+-+.||.
T Consensus        14 EEVevLK~~I~eL~~~n~~Le~EN~~Lk~   42 (59)
T PF01166_consen   14 EEVEVLKEQIAELEERNSQLEEENNLLKQ   42 (59)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33444444444444444444444444443

These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=85.13  E-value=3.9  Score=39.53  Aligned_cols=24  Identities=8%  Similarity=0.390  Sum_probs=11.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603          36 SIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus        36 ~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      .|+....+=|+-+..||..++.++
T Consensus       485 ~L~~~L~e~~~~ve~L~~~l~~l~  508 (652)
T COG2433         485 RLEKELEEKKKRVEELERKLAELR  508 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333444555555555554

>KOG1760|consensus

Probab=84.75  E-value=10  Score=29.96  Aligned_cols=32  Identities=13%  Similarity=0.402  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603          29 SIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus        29 ~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      .|++.=..|-..|++|.+.+..++.+|..||.
T Consensus        85 ~LEe~ke~l~k~i~~les~~e~I~~~m~~LK~  116 (131)
T KOG1760|consen   85 QLEEKKETLEKEIEELESELESISARMDELKK  116 (131)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46666667777788888888888888888885

>PRK14161 heat shock protein GrpE; Provisional

Probab=84.74  E-value=6.6  Score=31.91  Aligned_cols=37  Identities=8%  Similarity=0.272  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIK   45 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK   45 (150)
                      ++++|+++.+.+..|++.+.++|.....++.|...+|
T Consensus        17 ~~~~~~~~~~ei~~l~~e~~elkd~~lR~~AefeN~r   53 (178)
T PRK14161         17 AEEIVETANPEITALKAEIEELKDKLIRTTAEIDNTR   53 (178)
T ss_pred             HHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444444433

>KOG4674|consensus

Probab=84.74  E-value=5.1  Score=42.80  Aligned_cols=56  Identities=11%  Similarity=0.437  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHhh
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIK----EDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK----~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      +|++.|++++..||..+...+.-+++|+.+...||    .++.+|+.++..+.+.+..++
T Consensus      1307 ~~~~kL~~ei~~Lk~el~~ke~~~~el~~~~~~~q~~~k~qld~l~~e~~~lt~~~~ql~ 1366 (1822)
T KOG4674|consen 1307 NDYEKLKSEISRLKEELEEKENLIAELKKELNRLQEKIKKQLDELNNEKANLTKELEQLE 1366 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666666666666666666666666666665555    666666666666655555544

>TIGR01730 RND_mfp RND family efflux transporter, MFP subunit

Probab=84.73  E-value=10  Score=30.78  Aligned_cols=60  Identities=12%  Similarity=0.227  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASI----------KVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIG   63 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~L----------K~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Dig   63 (150)
                      ..++.++.++..++..+..++.+...+          +.|+...+..+..++..+..++..+..++.++.
T Consensus        64 ~~~~~~~~~~~~~~~~~~~~~~~~~r~~~L~~~~~~s~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~  133 (322)
T TIGR01730        64 LALQAALAQLAAAEAQLELAQRSFERAERLVKRNAVSQADLDDAKAAVEAAQADLEAAKASLASAQLNLR  133 (322)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            344445555555555555555544432          234555556666666666666666666666554

This model represents the MFP (membrane fusion protein) component of the RND family of transporters. RND refers to Resistance, Nodulation, and cell Division. It is, in part, a subfamily of pfam00529 (Pfam release 7.5) but hits substantial numbers of proteins missed by that model. The related HlyD secretion protein, for which pfam00529 is named, is outside the scope of this model. Attributed functions imply outward transport. These functions include nodulation, acriflavin resistance, heavy metal efflux, and multidrug resistance proteins. Most members of this family are found in Gram-negative bacteria. The proposed function of MFP proteins is to bring the inner and outer membranes together and enable transport to the outside of the outer membrane. Note, however, that a few members of this family are found in Gram-positive bacteria, where there is no outer membrane.

>PRK04325 hypothetical protein; Provisional

Probab=84.69  E-value=9.8  Score=26.70  Aligned_cols=52  Identities=6%  Similarity=0.177  Sum_probs=37.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      |.+.|..|+..|+-...-|.+|-.=|.+-..+|..|+..+..|.+-+..+..
T Consensus         7 ~e~Ri~~LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~~~~   58 (74)
T PRK04325          7 MEDRITELEIQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLLYQQMRDANP   58 (74)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            4566777777777777777777777777777777777777777666655543

>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []

Probab=84.63  E-value=0.78  Score=33.58  Aligned_cols=43  Identities=9%  Similarity=0.383  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          11 EDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus        11 ~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      +=|..|-.++..|...+.+|+..|..|+..+..+++....|+.
T Consensus        25 ~fl~~l~~~~~~l~~e~~~L~~~~~~l~~~l~~~~~~~~~l~~   67 (131)
T PF05103_consen   25 DFLDELAEELERLQRENAELKEEIEELQAQLEELREEEESLQR   67 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCT-------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHH
Confidence            3344555555555555555555555555555555555444444

Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.

>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria

Probab=84.61  E-value=3.1  Score=38.96  Aligned_cols=25  Identities=4%  Similarity=0.450  Sum_probs=19.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMA   28 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~   28 (150)
                      .+|+.|+.+|..|+..|++|+.-++
T Consensus        25 ~~i~~L~~ql~aLq~~v~eL~~~la   49 (514)
T PF11336_consen   25 DQIKALQAQLQALQDQVNELRAKLA   49 (514)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4678888888888888888887775

>PF05852 DUF848: Gammaherpesvirus protein of unknown function (DUF848); InterPro: IPR008566 This family consists of several uncharacterised proteins from the Gammaherpesvirinae

Probab=84.59  E-value=4.3  Score=32.46  Aligned_cols=45  Identities=16%  Similarity=0.450  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIK-VDMGSIKEDMGSIKDDM   48 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK-~DV~~LK~DV~~LK~DV   48 (150)
                      ++-|..++..|+.-+.++..|+. +.--| .++..|-+.|.+||+|+
T Consensus        60 ~~~v~~~~~~i~~k~~El~~L~~-~d~~kv~~~E~L~d~v~eLkeel  105 (146)
T PF05852_consen   60 KNKVSSLETEISEKKKELSHLKK-FDRKKVEDLEKLTDRVEELKEEL  105 (146)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHh-cCHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555555555555555555 33333 34444555555555443

>KOG0239|consensus

Probab=84.53  E-value=4.6  Score=38.86  Aligned_cols=64  Identities=9%  Similarity=0.426  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHH----------HHHHHHHHHHHHhhhhcCCC
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMG-------SIKEDMGSIK----------DDMGSIKEDMASIKEDIGGY   65 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~-------~LK~DV~~LK----------~DV~~LK~Dvs~lK~DigGy   65 (150)
                      ++.|..|+..|..||.....++.++..+..++.       .+..+++++.          +-...|+.+|.+||--|..|
T Consensus       240 ~~~i~~l~~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~~~e~~~r~kL~N~i~eLkGnIRV~  319 (670)
T KOG0239|consen  240 KKKIQALQQELEELKAELKELNDQVSLLTREVQEALKESNTLQSDLESLEENLVEKKKEKEERRKLHNEILELKGNIRVF  319 (670)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCceEE
Confidence            344555555555555555555555444333333       3333333333          33346677888888877776


Q ss_pred             C
Q psy9603          66 G   66 (150)
Q Consensus        66 g   66 (150)
                      -
T Consensus       320 C  320 (670)
T KOG0239|consen  320 C  320 (670)
T ss_pred             E
Confidence            5

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=84.46  E-value=5.4  Score=37.26  Aligned_cols=31  Identities=6%  Similarity=0.288  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603          29 SIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus        29 ~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      +|.++...||+++..++.-+..|++.+..++
T Consensus       113 ~~~~~~~ql~~~~~~~~~~l~~l~~~l~~~~  143 (472)
T TIGR03752       113 ELTKEIEQLKSERQQLQGLIDQLQRRLAGVL  143 (472)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            3444888888888888888888887775543

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.

>PF07028 DUF1319: Protein of unknown function (DUF1319); InterPro: IPR010746 This entry is represented by Commelina yellow mottle virus, Orf1

Probab=84.43  E-value=9.5  Score=29.96  Aligned_cols=39  Identities=5%  Similarity=0.262  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSI   44 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~L   44 (150)
                      |+.+..=+.+-+.++..+++-+..|+.++..|+.|+-+.
T Consensus        48 lk~~~ki~~~Qr~~l~~l~~~l~~l~~eL~~Lr~~~l~r   86 (126)
T PF07028_consen   48 LKNLSKIQESQRSELKELKQELDVLSKELQALRKEYLER   86 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            333333344444455555555555555555555555444

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family contains a number of viral proteins of unknown function approximately 200 residues long. Family members seem to be restricted to badnaviruses.

>COG4980 GvpP Gas vesicle protein [General function prediction only]

Probab=84.25  E-value=9  Score=29.54  Aligned_cols=23  Identities=17%  Similarity=0.177  Sum_probs=10.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKE   25 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~   25 (150)
                      |.-.+.+.+...++.+|+..++.
T Consensus        38 K~~~~~~~~~ae~~~~~~~~~a~   60 (115)
T COG4980          38 KKSGDALFELAEDKGTDILMIAD   60 (115)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHH
Confidence            33444444444444444444433

>PRK10698 phage shock protein PspA; Provisional

Probab=84.24  E-value=8.5  Score=31.86  Aligned_cols=42  Identities=12%  Similarity=0.415  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          10 KEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSI   51 (150)
Q Consensus        10 k~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~L   51 (150)
                      .+.++.|++.+...+.-+..|+.++..|+..+.++|.-=..|
T Consensus        98 ~~~~~~l~~~~~~~~~~~~~L~~~l~~L~~ki~eak~k~~~L  139 (222)
T PRK10698         98 TDLIATLEHEVTLVDETLARMKKEIGELENKLSETRARQQAL  139 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555555555555555555555555555554433333

>PF06120 Phage_HK97_TLTM: Tail length tape measure protein; InterPro: IPR009302 This entry consists of the tail length tape measure protein from Bacteriophage HK97 and related sequences from Escherichia coli (strain K12)

Probab=84.21  E-value=3.8  Score=36.04  Aligned_cols=38  Identities=16%  Similarity=0.463  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCC
Q psy9603          29 SIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYG   66 (150)
Q Consensus        29 ~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg   66 (150)
                      +|+.-++.+.+.+.+.|.+|..++..|.+++..|..|-
T Consensus        71 ql~~~~~k~~~si~~q~~~i~~l~~~i~~l~~~i~~y~  108 (301)
T PF06120_consen   71 QLRANIAKAEESIAAQKRAIEDLQKKIDSLKDQIKNYQ  108 (301)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444455555555555555555555554444443

>PF03233 Cauli_AT: Aphid transmission protein; InterPro: IPR004917 This protein is found in various caulimoviruses

Probab=84.21  E-value=3.5  Score=33.61  Aligned_cols=43  Identities=12%  Similarity=0.373  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
Q psy9603          13 MASIKEDMVSIKEDMASIKVDMGS---IKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus        13 v~~LK~Dv~~LK~DV~~LK~DV~~---LK~DV~~LK~DV~~LK~Dv   55 (150)
                      +.++++-+..|.+-+..|+.||..   ++++|..+.+++..+++.+
T Consensus       113 L~e~snki~kLe~~~k~L~d~Iv~~~~i~e~IKd~de~L~~I~d~i  158 (163)
T PF03233_consen  113 LEEISNKIRKLETEVKKLKDNIVTEKLIEELIKDFDERLKEIRDKI  158 (163)
T ss_pred             HHHHHHHHHHHHHHHHhHhhhccccHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444455555555555433   3344444444444444443

It codes for an 18 kDa protein (PII), which is dispensable for infection but which is required for aphid transmission of the virus []. This protein interacts with the PIII protein []. ; GO: 0019089 transmission of virus

>PF06216 RTBV_P46: Rice tungro bacilliform virus P46 protein; InterPro: IPR009347 This family consists of several Rice tungro bacilliform virus P46 proteins

Probab=84.20  E-value=6.5  Score=35.02  Aligned_cols=52  Identities=10%  Similarity=0.221  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      |.+-+-.+..++.+-|.+-..|+.-|+.||..++++++-++.+|+.+..|++
T Consensus        62 ~~~~~y~~e~e~~sy~~e~~~l~~qvs~l~~~~~~~r~~~~~~~~~~eglre  113 (389)
T PF06216_consen   62 ISDYIYNKEFERQSYSNEWISLNDQVSHLQHQNSEQRQQIREMREIIEGLRE  113 (389)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            3333444444455555555555555555555555555555555555555544

The function of this family is unknown.

>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

Probab=84.16  E-value=6.2  Score=28.27  Aligned_cols=21  Identities=14%  Similarity=0.253  Sum_probs=9.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSI   23 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~L   23 (150)
                      ++|+..--..+..+-+.-..+
T Consensus         7 ~~ev~~sl~~l~~~~~~~~~~   27 (97)
T PF09177_consen    7 KDEVQSSLDRLESLYRRWQRL   27 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHh
Confidence            444444444444444444333

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.

>KOG4010|consensus

Probab=84.13  E-value=6.6  Score=33.10  Aligned_cols=52  Identities=13%  Similarity=0.406  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDM-----GSIKDDMGSIKEDMA   56 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV-----~~LK~DV~~LK~Dvs   56 (150)
                      +=++|+.+++.+.++|..||+=.+.-..-..+||+..     .+||+|++.=..||.
T Consensus        45 Ekeelr~EL~kvEeEI~TLrqVLaAKerH~~ELKRKLGlt~~~EL~qnisksw~d~q  101 (208)
T KOG4010|consen   45 EKEELRTELAKVEEEIVTLRQVLAAKERHAAELKRKLGLTVLKELKQNISKSWKDVQ  101 (208)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchHHHHHHHHHHHHhhhh
Confidence            3457888888888888888887777666777777654     677777765555554

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=84.11  E-value=12  Score=26.11  Aligned_cols=30  Identities=3%  Similarity=0.208  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKV   32 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~   32 (150)
                      +..+..|++++..+...+.........|..
T Consensus         4 ea~~~~Lr~rLd~~~rk~~~~~~~~k~L~~   33 (69)
T PF14197_consen    4 EAEIATLRNRLDSLTRKNSVHEIENKRLRR   33 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555555544444443

>PRK00295 hypothetical protein; Provisional

Probab=84.05  E-value=12  Score=25.92  Aligned_cols=52  Identities=6%  Similarity=0.141  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      ++.+.|..|..-++....=|.+|..=|.....+|..|+..+..|.+.+.++.
T Consensus         2 ~~e~Ri~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~~~   53 (68)
T PRK00295          2 SLEERVTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAALIKRQEEMV   53 (68)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3677899999999999999999999999999999999999999988888875

>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

Probab=84.05  E-value=4.4  Score=27.62  Aligned_cols=14  Identities=21%  Similarity=0.359  Sum_probs=7.5

Q ss_pred             HHHHHHHHHHHHHH
Q psy9603          42 GSIKDDMGSIKEDM   55 (150)
Q Consensus        42 ~~LK~DV~~LK~Dv   55 (150)
                      ..++..+..|+.+.
T Consensus        59 ~~~~~~lk~l~~~~   72 (103)
T PF00804_consen   59 QKIKKRLKQLSKDN   72 (103)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            44455555565554

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.

>KOG0239|consensus

Probab=83.97  E-value=6.9  Score=37.72  Aligned_cols=48  Identities=8%  Similarity=0.367  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          10 KEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMAS   57 (150)
Q Consensus        10 k~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~   57 (150)
                      ++.+..|++.|..||.....|+.++..+.+.+.+...-+..+..++++
T Consensus       240 ~~~i~~l~~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~L~~  287 (670)
T KOG0239|consen  240 KKKIQALQQELEELKAELKELNDQVSLLTREVQEALKESNTLQSDLES  287 (670)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444445555554444444444444444444433

>PRK02119 hypothetical protein; Provisional

Probab=83.95  E-value=10  Score=26.61  Aligned_cols=51  Identities=2%  Similarity=0.200  Sum_probs=31.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIK   52 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK   52 (150)
                      +.+.|..|+..|+-...-|.+|-.=|.....+|..|+..+..|++-+..+.
T Consensus         7 ~e~Ri~~LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~~L~~rl~~~~   57 (73)
T PRK02119          7 LENRIAELEMKIAFQENLLEELNQALIEQQFVIDKMQVQLRYMANKLKDMQ   57 (73)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            345566666666666666666666666666666666666666665555544

>PRK04406 hypothetical protein; Provisional

Probab=83.92  E-value=9.5  Score=26.95  Aligned_cols=51  Identities=6%  Similarity=0.270  Sum_probs=29.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIK   52 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK   52 (150)
                      +.+.|..|+..|+-...-|.+|-.=|.....+|..|+..+..|++-+..+.
T Consensus         9 le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~~~   59 (75)
T PRK04406          9 LEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVGKVKNMD   59 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            345556666666666666666666666666666666666666655544443

>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised

Probab=83.75  E-value=1.6  Score=40.73  Aligned_cols=23  Identities=13%  Similarity=0.401  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          26 DMASIKVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus        26 DV~~LK~DV~~LK~DV~~LK~DV   48 (150)
                      -|++||..+++||+++.+|++.|
T Consensus        32 kie~L~kql~~Lk~q~~~l~~~v   54 (489)
T PF11853_consen   32 KIEALKKQLEELKAQQDDLNDRV   54 (489)
T ss_pred             HHHHHHHHHHHHHHhhccccccc
Confidence            44444444444444444444333

This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.

>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3

Probab=83.69  E-value=5.1  Score=33.41  Aligned_cols=21  Identities=14%  Similarity=0.466  Sum_probs=10.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q psy9603           8 SIKEDMASIKEDMVSIKEDMA   28 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~   28 (150)
                      .|+.++++|.+-|..++....
T Consensus       100 rLkrELa~Le~~l~~~~~~~~  120 (195)
T PF12761_consen  100 RLKRELAELEEKLSKVEQAAE  120 (195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            355555555555555555444

>PRK14127 cell division protein GpsB; Provisional

Probab=83.57  E-value=4.7  Score=30.66  Aligned_cols=31  Identities=6%  Similarity=0.367  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          26 DMASIKVDMGSIKEDMGSIKDDMGSIKEDMA   56 (150)
Q Consensus        26 DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs   56 (150)
                      |+..|-.++..||+.+..|++-+..++..++
T Consensus        38 dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~   68 (109)
T PRK14127         38 DYEAFQKEIEELQQENARLKAQVDELTKQVS   68 (109)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            3333333333344444444444433333333

>PRK00736 hypothetical protein; Provisional

Probab=83.54  E-value=9.9  Score=26.26  Aligned_cols=51  Identities=6%  Similarity=0.201  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCC
Q psy9603          16 IKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYG   66 (150)
Q Consensus        16 LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg   66 (150)
                      +.+.|..|.+-++-.-.=|..|-.=|...-.++..|+..+..|.+.+....
T Consensus         3 ~e~Ri~~LE~klafqe~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~~~   53 (68)
T PRK00736          3 AEERLTELEIRVAEQEKTIEELSDQLAEQWKTVEQMRKKLDALTERFLSLE   53 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            345566666677777777777777888888888888888888877776543

>KOG4797|consensus

Probab=83.46  E-value=7.8  Score=30.20  Aligned_cols=45  Identities=18%  Similarity=0.409  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           9 IKEDMASIKED-MVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus         9 Lk~dv~~LK~D-v~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      |..-|.-+|+- |-.++++|..||+-|..|-+-++.|.++-+.||+
T Consensus        50 IeQAMDLVKtHLmfAVREEVe~Lk~qI~eL~er~~~Le~EN~lLk~   95 (123)
T KOG4797|consen   50 IEQAMDLVKTHLMFAVREEVEVLKEQIRELEERNSALERENSLLKT   95 (123)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33344444444 2345556666666666666666666666555554

>PRK10132 hypothetical protein; Provisional

Probab=83.45  E-value=4.4  Score=30.57  Aligned_cols=22  Identities=14%  Similarity=0.457  Sum_probs=10.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q psy9603           8 SIKEDMASIKEDMVSIKEDMAS   29 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~   29 (150)
                      .|..++..|++||..|-+|+.+
T Consensus         9 ~~~~q~e~L~~Dl~~L~~~le~   30 (108)
T PRK10132          9 DVDDGVQDIQNDVNQLADSLES   30 (108)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHH
Confidence            3444444555555555555443

>PRK04654 sec-independent translocase; Provisional

Probab=83.44  E-value=8.1  Score=32.78  Aligned_cols=21  Identities=10%  Similarity=0.365  Sum_probs=11.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q psy9603          28 ASIKVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus        28 ~~LK~DV~~LK~DV~~LK~DV   48 (150)
                      .+||..+..++..+..++..+
T Consensus        57 ~ELrk~l~~~~~~i~~~~~~l   77 (214)
T PRK04654         57 EELKRSLQDVQASLREAEDQL   77 (214)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            456666666655555544443

>COG3388 Predicted transcriptional regulator [Transcription]

Probab=83.36  E-value=12  Score=28.52  Aligned_cols=26  Identities=27%  Similarity=0.470  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603          33 DMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus        33 DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      =+..++.|++++++.+..|++|++.+
T Consensus        74 ~ie~i~~dl~ei~e~~~~i~e~~~~l   99 (101)
T COG3388          74 FIEEIIGDLSEINEEAENIEEDVAKL   99 (101)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            35677777777777777777777765

>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []

Probab=83.29  E-value=2  Score=37.88  Aligned_cols=26  Identities=15%  Similarity=0.376  Sum_probs=14.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           7 GSIKEDMASIKEDMVSIKEDMASIKV   32 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK~DV~~LK~   32 (150)
                      +.+...+..|+.+|.+|+++|..+|.
T Consensus        90 Es~~~kl~RL~~Ev~EL~eEl~~~~~  115 (388)
T PF04912_consen   90 ESPEQKLQRLRREVEELKEELEKRKA  115 (388)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            34455555555555555555555543

It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex

>PRK14160 heat shock protein GrpE; Provisional

Probab=83.24  E-value=10  Score=31.78  Aligned_cols=41  Identities=10%  Similarity=0.291  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKD   46 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~   46 (150)
                      +..+++++..|++.+..|++.+.+||.....++.|...+|.
T Consensus        56 ~~~l~~e~~~l~~~l~~l~~e~~elkd~~lR~~AefeN~RK   96 (211)
T PRK14160         56 IEELKDENNKLKEENKKLENELEALKDRLLRTVAEYDNYRK   96 (211)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555555555555555555555555555543

>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure

Probab=82.96  E-value=10  Score=27.44  Aligned_cols=39  Identities=8%  Similarity=0.362  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSI   44 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~L   44 (150)
                      +..|++.+..|.+-|..+|++...|+.+-..|+.=|..|
T Consensus        25 i~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nL   63 (80)
T PF10224_consen   25 ILELQDSLEALSDRVEEVKEENEKLESENEYLQQYIGNL   63 (80)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444444444444333333

The exact function is unknown.

>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea

Probab=82.91  E-value=7.3  Score=28.23  Aligned_cols=34  Identities=15%  Similarity=0.359  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603          29 SIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus        29 ~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      .|+..+..|...+..|...+..+.+.++++|+.+
T Consensus        67 ~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l  100 (105)
T cd00632          67 ELKERLETIELRIKRLERQEEDLQEKLKELQEKI  100 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555555555555555555543

Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st

>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins

Probab=82.88  E-value=2.7  Score=34.12  Aligned_cols=48  Identities=8%  Similarity=0.378  Sum_probs=13.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           7 GSIKEDMASIKEDMVSIKEDMA---SIKVDMGSIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK~DV~---~LK~DV~~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      +.|+..+..--+.-+-|.++|.   .|+..+..||.++..||+++ ++++..
T Consensus         3 eD~EsklN~AIERnalLE~ELdEKE~L~~~~QRLkDE~RDLKqEl-~V~ek~   53 (166)
T PF04880_consen    3 EDFESKLNQAIERNALLESELDEKENLREEVQRLKDELRDLKQEL-IVQEKL   53 (166)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH---------------------
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHh
Confidence            3344444444444444444443   46667777777777777777 555443

Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.

>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

Probab=82.84  E-value=12  Score=31.47  Aligned_cols=48  Identities=8%  Similarity=0.327  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      +..+.+.++.+++-+..+.+=+..||..|..|.+.|+++|+-...||.
T Consensus        94 ~~~le~~~~~~~~~~~~~~~~~~~l~~~~~~Le~Ki~e~~~~~~~l~a  141 (225)
T COG1842          94 KQSLEDLAKALEAELQQAEEQVEKLKKQLAALEQKIAELRAKKEALKA  141 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555555666666666666666666666666666666655555543

>KOG3156|consensus

Probab=82.77  E-value=9.3  Score=32.54  Aligned_cols=23  Identities=17%  Similarity=0.492  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          25 EDMASIKVDMGSIKEDMGSIKDD   47 (150)
Q Consensus        25 ~DV~~LK~DV~~LK~DV~~LK~D   47 (150)
                      +++..|..+.+.||.|+..+|++
T Consensus       116 sEF~~lr~e~EklkndlEk~ks~  138 (220)
T KOG3156|consen  116 SEFANLRAENEKLKNDLEKLKSS  138 (220)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444443

>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

Probab=82.58  E-value=11  Score=24.39  Aligned_cols=18  Identities=0%  Similarity=0.340  Sum_probs=6.8

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q psy9603          38 KEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus        38 K~DV~~LK~DV~~LK~Dv   55 (150)
                      ...+..|.+.+..+.+-+
T Consensus        57 ~~~~~~~~~~L~~~~~~l   74 (86)
T PF06013_consen   57 NQAFRQLNEALEELSQAL   74 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333333333333333333

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 ....

>KOG4196|consensus

Probab=82.53  E-value=14  Score=29.40  Aligned_cols=59  Identities=12%  Similarity=0.356  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           3 KEDMGSIKEDMASIKED-------------MVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~D-------------v~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      ++++-.||..-.+||+-             -.+|..+=++|.++|..||++++.|..++..+|..-..|-+-
T Consensus        46 reEVvrlKQrRRTLKNRGYA~sCR~KRv~Qk~eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k~k~e~l~~~  117 (135)
T KOG4196|consen   46 REEVVRLKQRRRTLKNRGYAQSCRVKRVQQKHELEKEKAELQQQVEKLKEENSRLRRELDAYKSKYEALQNS  117 (135)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            34555555555555543             245555666677777777777777777777777666655543

>PRK03598 putative efflux pump membrane fusion protein; Provisional

Probab=82.52  E-value=7.8  Score=32.65  Aligned_cols=23  Identities=4%  Similarity=0.226  Sum_probs=9.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMA   28 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~   28 (150)
                      ++..+.++...+..+...+.++.
T Consensus       147 ~~~~~~~~~~a~~~~~~a~~~~~  169 (331)
T PRK03598        147 LENARSSRDQAQATLKSAQDKLS  169 (331)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333334444444443333

>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=82.51  E-value=18  Score=29.82  Aligned_cols=61  Identities=7%  Similarity=0.289  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGG   64 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigG   64 (150)
                      .-|..|...+.....-......-|..|-..|..|..++...|.....++.+|...=+++..
T Consensus       176 ~~i~~L~~~lkeaE~Rae~aE~~v~~Le~~id~le~eL~~~k~~~~~~~~eld~~l~el~~  236 (237)
T PF00261_consen  176 EKIRDLEEKLKEAENRAEFAERRVKKLEKEIDRLEDELEKEKEKYKKVQEELDQTLNELNE  236 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            4456666666666666666666667777777777777777777777777777665555554

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>TIGR00998 8a0101 efflux pump membrane protein (multidrug resistance protein A)

Probab=82.42  E-value=8.7  Score=31.94  Aligned_cols=35  Identities=9%  Similarity=0.341  Sum_probs=13.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKE   39 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~   39 (150)
                      .+..++..+..++.++..+++++..++..+...+.
T Consensus        88 ~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~a~~  122 (334)
T TIGR00998        88 NLAALVRQTKQLEITVQQLQAKVESLKIKLEQARE  122 (334)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444443333333333333333333

>KOG4687|consensus

Probab=82.37  E-value=4.1  Score=36.55  Aligned_cols=50  Identities=14%  Similarity=0.262  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC
Q psy9603          15 SIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGG   64 (150)
Q Consensus        15 ~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigG   64 (150)
                      .|-.||.+-|+.-..|++|+..|....++|+.|+..+++-.+.+++.+.+
T Consensus        87 dLaa~i~etkeeNlkLrTd~eaL~dq~adLhgD~elfReTeAq~ese~~a  136 (389)
T KOG4687|consen   87 DLAADIEETKEENLKLRTDREALLDQKADLHGDCELFRETEAQFESEKMA  136 (389)
T ss_pred             HHHHHHHHHHHHhHhhhHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHhc
Confidence            34445555555555566666666666666666666666666666666544

>KOG0995|consensus

Probab=82.24  E-value=8.3  Score=36.92  Aligned_cols=25  Identities=16%  Similarity=0.349  Sum_probs=10.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASI   30 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~L   30 (150)
                      ++.|++..+.|+.|++-+++=|++|
T Consensus       261 ~eslre~~~~L~~D~nK~~~y~~~~  285 (581)
T KOG0995|consen  261 EESLREKKARLQDDVNKFQAYVSQM  285 (581)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            3444444444444444444444333

>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly

Probab=82.17  E-value=7.5  Score=28.10  Aligned_cols=33  Identities=6%  Similarity=0.449  Sum_probs=13.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKEDM   41 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV   41 (150)
                      |+..++.|+..+..|..++..+++.++.|+..+
T Consensus        92 l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l  124 (129)
T cd00890          92 LKKRLETLEKQIEKLEKQLEKLQDQITELQEEL  124 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444444444433

The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.

>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria

Probab=82.11  E-value=3.7  Score=38.47  Aligned_cols=51  Identities=4%  Similarity=0.382  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH------------------------------HHHHHHHHHHHHHHHHHHHHhhh
Q psy9603          11 EDMASIKEDMVSIKEDMASIKVDMGSI------------------------------KEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus        11 ~dv~~LK~Dv~~LK~DV~~LK~DV~~L------------------------------K~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      ++|+.|+..|..||..|.+|+.-++.-                              .+|++++|++|+.....|..|++
T Consensus        25 ~~i~~L~~ql~aLq~~v~eL~~~laa~~~aa~~gA~~~~~~~a~~~aP~~~a~~~~T~d~~~~~~qqiAn~~lKv~~l~d  104 (514)
T PF11336_consen   25 DQIKALQAQLQALQDQVNELRAKLAAKPAAAPGGAAIGPAATAAAAAPSSDAQAGLTNDDATEMRQQIANAQLKVESLED  104 (514)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCccccccccccccccCCCcccccccChHHHHHHHHHHHhhhhhHHHHhh
Confidence            467788888888888888888765431                              56778888888777666777765


Q ss_pred             h
Q psy9603          61 D   61 (150)
Q Consensus        61 D   61 (150)
                      .
T Consensus       105 a  105 (514)
T PF11336_consen  105 A  105 (514)
T ss_pred             H
Confidence            4

>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function

Probab=82.10  E-value=7.9  Score=34.40  Aligned_cols=37  Identities=14%  Similarity=0.380  Sum_probs=17.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603          23 IKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus        23 LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      .|+....|+.||..|+.-+.+++.|+..|++-++..+
T Consensus        77 sre~Nk~L~~Ev~~Lrqkl~E~qGD~KlLR~~la~~r  113 (319)
T PF09789_consen   77 SREQNKKLKEEVEELRQKLNEAQGDIKLLREKLARQR  113 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHhhh
Confidence            3333344444444444444444445555544444443

>PF14282 FlxA: FlxA-like protein

Probab=81.96  E-value=12  Score=27.65  Aligned_cols=52  Identities=4%  Similarity=0.312  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKED----MASIKVDMGSIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~D----V~~LK~DV~~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      ..|+.|+..|..|++.|..|+.|    -.+-+.=+..|...|..|..-+..|....
T Consensus        19 ~~I~~L~~Qi~~Lq~ql~~l~~~~~~~~e~k~~q~q~Lq~QI~~LqaQI~qlq~q~   74 (106)
T PF14282_consen   19 SQIEQLQKQIKQLQEQLQELSQDSDLDAEQKQQQIQLLQAQIQQLQAQIAQLQSQQ   74 (106)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56777777777777777777773    23334444555555555555555554433

>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure

Probab=81.96  E-value=13  Score=25.61  Aligned_cols=45  Identities=11%  Similarity=0.370  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603          16 IKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus        16 LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      |.++++.+|++--.++.-...--.-..+|.+.|..|+..|.++++
T Consensus        16 ~~eEL~kvk~~n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~r~   60 (61)
T PF08826_consen   16 IQEELTKVKSANLAFESKLQEAEKRNRELEQEIERLKKEMEELRS   60 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            444445555555544444444444455555555555555555543

It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.

>PF04350 PilO: Pilus assembly protein, PilO; PDB: 2RJZ_B

Probab=81.93  E-value=3.3  Score=30.42  Aligned_cols=51  Identities=12%  Similarity=0.493  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHh
Q psy9603           8 SIKEDMASIKEDMVSIKE---DMASIKVDMGSIKEDMGSIK------DDMGSIKEDMASI   58 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~---DV~~LK~DV~~LK~DV~~LK------~DV~~LK~Dvs~l   58 (150)
                      .+++++.+|++++...+.   .+..+++++..++....+++      .|+..|-.+++.+
T Consensus         3 ~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~lP~~~~~~~ll~~l~~~   62 (144)
T PF04350_consen    3 TLQAQIQQLQQELAQLKEKVANLEELKKQLEQLEQQLEELLKKLPAEEEIPSLLEDLNRL   62 (144)
T ss_dssp             ---------HHHHHHTGGG-SSHHHHHHHHHHHHHHHHHHHHCTTGGGHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhCCCchhHHHHHHHHHHH
Confidence            344444455554444433   33344444444444444443      2444444444443

>KOG0933|consensus

Probab=81.87  E-value=8.1  Score=39.50  Aligned_cols=47  Identities=13%  Similarity=0.496  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKED   54 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~D   54 (150)
                      .|+-++.+|+..+...|+-+.+++.-+..||+++..|+..|.....|
T Consensus       819 ~l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~~l~~kv~~~~~~  865 (1174)
T KOG0933|consen  819 RLQLEHEELEKEISSLKQQLEQLEKQISSLKSELGNLEAKVDKVEKD  865 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhH
Confidence            33333344444443333333334444444444443333333333333

>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []

Probab=81.76  E-value=5.6  Score=35.30  Aligned_cols=55  Identities=15%  Similarity=0.370  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      ++-++.|++++..|+.++..|++.+.+-+    ..+.-+.++++-+.++...++++++-
T Consensus       241 ~~~~~~l~~~~~~~~~~i~~l~~~l~~~~----k~~~k~~~~~~q~~~~~k~~~~~~~~  295 (406)
T PF02388_consen  241 KEYLESLQEKLEKLEKEIEKLEEKLEKNP----KKKNKLKELEEQLASLEKRIEEAEEL  295 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH-T----HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCc----chhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            45567777777777777777777766554    33333444444455555555554443

These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.

>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

Probab=81.64  E-value=12  Score=31.46  Aligned_cols=51  Identities=8%  Similarity=0.315  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      .-+.+..|.+.+..+++-+.++.+=+..||..+..|.+.|..+|.-+..++
T Consensus        90 al~~~~~le~~~~~~~~~~~~~~~~~~~l~~~~~~Le~Ki~e~~~~~~~l~  140 (225)
T COG1842          90 ALEEKQSLEDLAKALEAELQQAEEQVEKLKKQLAALEQKIAELRAKKEALK  140 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444555555555555555555555555555555555555555554444

>PHA01750 hypothetical protein

Probab=81.64  E-value=10  Score=27.31  Aligned_cols=32  Identities=13%  Similarity=0.378  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          24 KEDMASIKVDMGSIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus        24 K~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      +++...|+.+++.+|..+.+|.+-|..||..+
T Consensus        41 ~~ELdNL~~ei~~~kikqDnl~~qv~eik~k~   72 (75)
T PHA01750         41 NSELDNLKTEIEELKIKQDELSRQVEEIKRKL   72 (75)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Confidence            34444444444444444444444444444433

>COG3879 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=81.56  E-value=12  Score=32.25  Aligned_cols=67  Identities=13%  Similarity=0.414  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHhhhhcCCCCccCCCC--CCCCCCCCC
Q psy9603          15 SIKEDMVSIKEDMASIKVDMGSIKEDMGSIK----DDMGSIKEDMASIKEDIGGYGVDKRGY--GVDKRGYGV   81 (150)
Q Consensus        15 ~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK----~DV~~LK~Dvs~lK~DigGyg~~~~gY--g~p~~gYg~   81 (150)
                      .|.+++.++.+++.+|++.|..+-+-++..+    ++-+.|.+.+..|+--++--++..+|-  ....++|.+
T Consensus        54 ~L~~e~~s~Q~~~~~L~~ev~~~~~~~~s~~~~~~t~~~~ie~~l~~l~~~aG~v~V~G~Gl~ITi~d~~~~~  126 (247)
T COG3879          54 DLVKELRSLQKKVNTLAAEVEDLENKLDSVRRSVLTDDAALEDRLEKLRMLAGSVPVTGPGLVITIDDPGYSP  126 (247)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHHhccCCCcCCcEEEEecCCCCCc
Confidence            4444444455555555555555555555555    666777778888888777777666653  224444443

>PF10073 DUF2312: Uncharacterized protein conserved in bacteria (DUF2312); InterPro: IPR018753 This entry is represented by Azospirillum phage Cd, Gp10

Probab=81.47  E-value=5.1  Score=28.82  Aligned_cols=50  Identities=14%  Similarity=0.242  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      +.|+.+-+.|..|.++...|.+||..+-.+...--=|+..|++=|..-|.
T Consensus         4 ~~Lr~~ieRiErLEeEk~~i~~dikdVyaEAK~~GfD~K~lr~ii~lRk~   53 (74)
T PF10073_consen    4 EQLRQFIERIERLEEEKKAISDDIKDVYAEAKGNGFDTKALRQIIRLRKK   53 (74)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHcC
Confidence            34555556666666666666666665555544444455555554444333

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family of hypothetical bacterial proteins have no known function.

>PF10241 KxDL: Uncharacterized conserved protein; InterPro: IPR019371 This entry represents a conserved region of 80 residues which defines a family of short proteins

Probab=81.45  E-value=17  Score=26.02  Aligned_cols=33  Identities=18%  Similarity=0.252  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603          28 ASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus        28 ~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      ..++.|...=...+.++|.|+..+...|..||.
T Consensus        46 ~~~~~~f~~~~~~l~~mK~DLd~i~krir~lk~   78 (88)
T PF10241_consen   46 AEARERFARHTKLLKEMKKDLDYIFKRIRSLKA   78 (88)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444

There is a characteristic KxDL motif towards the C terminus. The function is unknown.

>PF08581 Tup_N: Tup N-terminal; InterPro: IPR013890 The N-terminal region of the Tup protein has been shown to interact with the Ssn6 transcriptional co-repressor []

Probab=81.38  E-value=17  Score=26.04  Aligned_cols=61  Identities=13%  Similarity=0.345  Sum_probs=0.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHhhhhc
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKE----DMASIKEDI   62 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~----Dvs~lK~Di   62 (150)
                      ||.+++.+..++..+|.--..+...|+.==++|..|+.-|.+|-.--..||+    +|+.||..+
T Consensus         9 ir~Ef~~~~~e~~~~k~~~~e~e~ki~~Qi~Em~~ir~~v~eLE~~h~kmK~~YEeEI~rLr~eL   73 (79)
T PF08581_consen    9 IRQEFENLSQEANSYKHQKDEYEHKINSQIQEMQQIRQKVYELEQAHRKMKQQYEEEIARLRREL   73 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH

; PDB: 3VP9_B 3VP8_B.

>PRK00846 hypothetical protein; Provisional

Probab=81.28  E-value=18  Score=26.06  Aligned_cols=54  Identities=4%  Similarity=0.190  Sum_probs=35.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      .+.+.|..|..-++....=|.+|..=|......|..|+.-+..|++.+.++.+.
T Consensus        10 ~le~Ri~~LE~rlAfQe~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~~s   63 (77)
T PRK00846         10 ALEARLVELETRLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVRST   63 (77)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            345566666666666666666677777777777777777777777777776643

>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins

Probab=81.16  E-value=17  Score=27.85  Aligned_cols=8  Identities=50%  Similarity=0.717  Sum_probs=2.9

Q ss_pred             HHHHHHHH
Q psy9603           9 IKEDMASI   16 (150)
Q Consensus         9 Lk~dv~~L   16 (150)
                      ++.++...
T Consensus       122 ~~~~l~~k  129 (218)
T cd07596         122 LKKDLASK  129 (218)
T ss_pred             HHHHHHHH
Confidence            33333333

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.

>KOG4797|consensus

Probab=81.13  E-value=9.7  Score=29.70  Aligned_cols=43  Identities=12%  Similarity=0.335  Sum_probs=21.5

Q ss_pred             HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603          18 EDMVSIKEDM-ASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus        18 ~Dv~~LK~DV-~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      +-|.-+|+-. =.++++|+.||+.|.+|-+-++.|.++-+-||+
T Consensus        52 QAMDLVKtHLmfAVREEVe~Lk~qI~eL~er~~~Le~EN~lLk~   95 (123)
T KOG4797|consen   52 QAMDLVKTHLMFAVREEVEVLKEQIRELEERNSALERENSLLKT   95 (123)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3344444432 245555555555555555555555555555554

>PF09969 DUF2203: Uncharacterized conserved protein (DUF2203); InterPro: IPR018699 This family has no known function

Probab=81.08  E-value=11  Score=28.73  Aligned_cols=53  Identities=8%  Similarity=0.393  Sum_probs=24.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVD--MGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~D--V~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      |+.+-+++..++.++.++.+.+.+++..  +..+++.+..+.+-+..+-+.+.++
T Consensus        15 l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~   69 (120)
T PF09969_consen   15 LRPILEEIRELKAELEELEERLQELEDSLEVNGLEAELEELEARLRELIDEIEEL   69 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHHHHHHc
Confidence            4444555555555555555555555443  3334444444333333333334433

>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure

Probab=81.05  E-value=15  Score=25.24  Aligned_cols=45  Identities=11%  Similarity=0.392  Sum_probs=25.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIK   52 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK   52 (150)
                      .|++++..+|++--.++.-..+-..=...|...|..|+..|..++
T Consensus        15 ~~~eEL~kvk~~n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~r   59 (61)
T PF08826_consen   15 AIQEELTKVKSANLAFESKLQEAEKRNRELEQEIERLKKEMEELR   59 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            355666666666666666665555555555555555555554444

It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.

>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 []

Probab=81.05  E-value=6.5  Score=38.07  Aligned_cols=23  Identities=22%  Similarity=0.562  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          19 DMVSIKEDMASIKVDMGSIKEDM   41 (150)
Q Consensus        19 Dv~~LK~DV~~LK~DV~~LK~DV   41 (150)
                      ||..|+.|+..||++|..+++++
T Consensus        71 ev~~l~~ea~~L~~~~~~v~~~~   93 (766)
T PF10191_consen   71 EVDRLRQEAASLQEQMASVQEEI   93 (766)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333

COG7 is required for normal Golgi morphology and trafficking. Mutation in COG7 causes a congenital disorder of glycosylation [].

>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation

Probab=80.93  E-value=21  Score=27.93  Aligned_cols=61  Identities=15%  Similarity=0.315  Sum_probs=0.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHH-----HHHHHHH---------------HHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIK-------------VDM-----GSIKEDM---------------GSIKDDM   48 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK-------------~DV-----~~LK~DV---------------~~LK~DV   48 (150)
                      ++.||+.|+..|.++.+--++.++=|..|+             +-+     ..|++=+               ..|+.-+
T Consensus        34 v~~~i~~L~~~L~~~~n~t~~~~~~v~~i~~~~~~~q~~~~~n~~i~~~~s~~l~~~~~~~~e~~i~~~~~~I~~Lq~~~  113 (146)
T PF08702_consen   34 VDKDIQELENLLDQISNSTSEAFEYVKNIKDSLRPRQKQAKPNDNIYNQYSKSLRKMIIYILETKIINQPSNIRVLQNIL  113 (146)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhccccccCCcccHHHHHHHHHHHHHHHHHHHHHhhhHhHHHHHHHHH


Q ss_pred             HHHHHHHHHhhhhc
Q psy9603          49 GSIKEDMASIKEDI   62 (150)
Q Consensus        49 ~~LK~Dvs~lK~Di   62 (150)
                      ..+..+|..||+||
T Consensus       114 ~~~~~ki~~Le~~i  127 (146)
T PF08702_consen  114 RSNRQKIQRLEQDI  127 (146)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH

During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin alpha(IIb)-beta(3) to the C-terminal D domain of fibrinogen []. In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction. Fibrinogen occurs as a dimer, where each monomer is composed of three non-identical chains, alpha, beta and gamma, linked together by several disulphide bonds []. The N-terminals of all six chains come together to form the centre of the molecule (E domain), from which the monomers extend in opposite directions as coiled coils, followed by C-terminal globular domains (D domains). Therefore, the domain composition is: D-coil-E-coil-D. At each end, the C-terminal of the alpha chain extends beyond the D domain as a protuberance that is important for cross-linking the molecule. During clot formation, the N-terminal fragments of the alpha and beta chains (within the E domain) in fibrinogen are cleaved by thrombin, releasing fibrinopeptides A and B, respectively, and producing fibrin. This cleavage results in the exposure of four binding sites on the E domain, each of which can bind to a D domain from different fibrin molecules. The binding of fibrin molecules produces a polymer consisting of a lattice network of fibrins that form a long, branching, flexible fibre [, ]. Fibrin fibres interact with platelets to increase the size of the clot, as well as with several different proteins and cells, thereby promoting the inflammatory response and concentrating the cells required for wound repair at the site of damage. This entry represents the coiled-coil domain and part of the N-terminal E domain found in all three fibrinogen polypeptides, namely the alpha, beta and gamma chains. More information about these proteins can be found at Protein of the Month: Fibrinogen [].; GO: 0005102 receptor binding, 0030674 protein binding, bridging, 0007165 signal transduction, 0030168 platelet activation, 0051258 protein polymerization, 0005577 fibrinogen complex; PDB: 1LWU_D 1N73_D 1M1J_B 1JY2_R 1JY3_R 1RF0_A 2H43_D 1RE4_D 2XNY_D 2HPC_D ....

>PRK13922 rod shape-determining protein MreC; Provisional

Probab=80.88  E-value=17  Score=30.15  Aligned_cols=32  Identities=9%  Similarity=0.361  Sum_probs=14.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhhh
Q psy9603          29 SIKVDMGSIKEDMGSIKDDMG---SIKEDMASIKE   60 (150)
Q Consensus        29 ~LK~DV~~LK~DV~~LK~DV~---~LK~Dvs~lK~   60 (150)
                      +|+++...||+.+++|+..+.   .++++...||+
T Consensus        73 ~l~~en~~L~~e~~~l~~~~~~~~~l~~en~~L~~  107 (276)
T PRK13922         73 DLREENEELKKELLELESRLQELEQLEAENARLRE  107 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444333   33444444444

>PF13166 AAA_13: AAA domain

Probab=80.75  E-value=9.7  Score=35.25  Aligned_cols=26  Identities=12%  Similarity=0.479  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603          34 MGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus        34 V~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      +..++..+..+++.+..++.++.+++
T Consensus       426 i~~~~~~~~~~~~~~~~~~~~i~~l~  451 (712)
T PF13166_consen  426 INSLEKKLKKAKEEIKKIEKEIKELE  451 (712)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333444444444444443

>KOG3433|consensus

Probab=80.72  E-value=13  Score=31.37  Aligned_cols=55  Identities=13%  Similarity=0.234  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMAS   57 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~   57 (150)
                      ..++...+.+.++|.+-+...|.+-.+-+.+-++|+.....||.+...||.+++.
T Consensus        87 e~~L~~~~qk~~tl~e~~en~K~~~e~tEer~~el~kklnslkk~~e~lr~el~k  141 (203)
T KOG3433|consen   87 ESQLATGSQKKATLGESIENRKAGREETEERTDELTKKLNSLKKILESLRWELAK  141 (203)
T ss_pred             HHHHHHhhhhHhHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455555566666655555555554444444444444444444444444444443

>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this

Probab=80.66  E-value=14  Score=33.07  Aligned_cols=28  Identities=14%  Similarity=0.348  Sum_probs=18.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMAS   29 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~   29 (150)
                      +.+|.++|++|-.+|++--...|+-.++
T Consensus         2 ~~eEW~eL~~efq~Lqethr~Y~qKlee   29 (330)
T PF07851_consen    2 CEEEWEELQKEFQELQETHRSYKQKLEE   29 (330)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5677777777777777665555544443

; GO: 0016021 integral to membrane

>smart00150 SPEC Spectrin repeats

Probab=80.59  E-value=12  Score=24.58  Aligned_cols=20  Identities=5%  Similarity=0.295  Sum_probs=7.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q psy9603          12 DMASIKEDMVSIKEDMASIK   31 (150)
Q Consensus        12 dv~~LK~Dv~~LK~DV~~LK   31 (150)
                      +...|+.||...+..|..+.
T Consensus        39 ~~~~~~~e~~~~~~~v~~~~   58 (101)
T smart00150       39 KHEALEAELEAHEERVEALN   58 (101)
T ss_pred             HHHHHHHHHHHhHHHHHHHH
Confidence            33333334333333333333

>PF11598 COMP: Cartilage oligomeric matrix protein; InterPro: IPR024665 Thrombospondins are adhesive glycoproteins that mediate cell-to-cell and cell-to-matrix interactions

Probab=80.54  E-value=9.1  Score=25.04  Aligned_cols=32  Identities=6%  Similarity=0.186  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKED   40 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~D   40 (150)
                      |-..|.+|.+-+.+||+||..--.+++-||.=
T Consensus         6 l~~ql~~l~~~l~elk~~l~~Q~kE~~~LRnt   37 (45)
T PF11598_consen    6 LIKQLSELNQMLQELKELLRQQIKETRFLRNT   37 (45)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445555555556666655555555555543

Cartilage oligomeric matrix protein may play a role in the structural integrity of cartilage via its interaction with other extracellular matrix proteins such as collagen and fibronectin [, ]. Thrombospondin 3 and 4 and cartilage oligomeric matrix proteins contain a five-stranded coiled-coil domain represented by this entry. This domain has a binding site between two internal rings formed by Leu37 and Thr40 [].; PDB: 1MZ9_D 1FBM_A 1VDF_E.

>PF10552 ORF6C: ORF6C domain; InterPro: IPR018878 This entry represents the carboxy-terminal domain from ORF6 (Q9B012 from SWISSPROT), an antirepressor protein from Lactococcus phage bIL285 []

Probab=80.52  E-value=5  Score=29.76  Aligned_cols=42  Identities=7%  Similarity=0.127  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           7 GSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV   48 (150)
                      ..+-+.+.++++.|..++++|..|+..+..--.+..+|+.-|
T Consensus         4 ~l~~~~~~~~~~ki~~ve~~V~~l~~~~~i~~~q~~~i~~~v   45 (116)
T PF10552_consen    4 KLLMQATEEHNEKIEEVENRVDDLEENMPIDPGQQKEIQKAV   45 (116)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            334444555555555555555555555544444444444433

>PF13514 AAA_27: AAA domain

Probab=80.49  E-value=9.2  Score=38.06  Aligned_cols=34  Identities=6%  Similarity=0.490  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDM   41 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV   41 (150)
                      .|+.++..+++++..+...+.+|...+..++..+
T Consensus       893 ~l~~~l~~l~~~l~~l~~~~~~l~~~~~~~~~~l  926 (1111)
T PF13514_consen  893 ELEAELEELEEELEELEEELEELQEERAELEQEL  926 (1111)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333

>PF10359 Fmp27_WPPW: RNA pol II promoter Fmp27 protein domain; InterPro: IPR019449 The function of the FMP27 protein is not known

Probab=80.45  E-value=6.5  Score=35.83  Aligned_cols=56  Identities=18%  Similarity=0.414  Sum_probs=38.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVS---------IKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMAS   57 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~---------LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~   57 (150)
                      |++-++.|++.|+.+++.+..         ++.++..|...+..||+-+.-|...+..|+.....
T Consensus       168 ~~~Rl~~L~~qi~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~  232 (475)
T PF10359_consen  168 IQERLDELEEQIEKHEEKLGELELNPDDPELKSDIEELERHISSLKERIEFLENMLEDLEDSESS  232 (475)
T ss_pred             HHHHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence            456667777777777766665         46677777777777777777777777777665443

FMP27 is the product of a nuclear encoded gene but it is detected in highly purified mitochondria in high-throughput studies []. This entry represents a domain within FMP27 that contains characteristic HQR and WPPW sequence motifs.

>COG3750 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=80.28  E-value=11  Score=27.90  Aligned_cols=49  Identities=14%  Similarity=0.242  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKED   54 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~D   54 (150)
                      |+.+-+.|..|.++...|-.||.++=.|....==||..+|+-|..-|.|
T Consensus        16 LrafIerIERlEeEk~~i~~dikdvy~eakg~GFDvKa~r~iirlrK~D   64 (85)
T COG3750          16 LRAFIERIERLEEEKKTIADDIKDVYAEAKGHGFDVKAVRTIIRLRKLD   64 (85)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHhhh
Confidence            4444445555555555555555444333333333444444444333333

>smart00502 BBC B-Box C-terminal domain

Probab=80.13  E-value=17  Score=25.39  Aligned_cols=40  Identities=5%  Similarity=0.256  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMG   42 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~   42 (150)
                      ..-|..++..+..+..-+..|.+-+..|+.-+...|++|.
T Consensus         6 ~~~l~~l~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~I~   45 (127)
T smart00502        6 EELLTKLRKKAAELEDALKQLISIIQEVEENAADVEAQIK   45 (127)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555555556666666666666666666666655553

Coiled coil region C-terminal to (some) B-Box domains

>KOG0946|consensus

Probab=80.05  E-value=11  Score=37.88  Aligned_cols=51  Identities=8%  Similarity=0.220  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKED   54 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~D   54 (150)
                      .-|.++..+++.+|++..+|+-...+|++.|..+-+..+.||..+..||..
T Consensus       664 ~lI~~lD~~~e~lkQ~~~~l~~e~eeL~~~vq~~~s~hsql~~q~~~Lk~q  714 (970)
T KOG0946|consen  664 GLIRELDYQIENLKQMEKELQVENEELEEEVQDFISEHSQLKDQLDLLKNQ  714 (970)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444445555555555555555555555544444444444444444443

>KOG0964|consensus

Probab=80.03  E-value=9.6  Score=38.98  Aligned_cols=53  Identities=13%  Similarity=0.448  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      +..|++.+++++.+|..+-+.|..|..+|..+-.|....+.++..|++.+..+
T Consensus       680 ~~~l~~~L~~~r~~i~~~~~~i~q~~~~~qk~e~~~~~~~~~~~~l~~e~~~~  732 (1200)
T KOG0964|consen  680 LKELQESLDEVRNEIEDIDQKIDQLNNNMQKVENDRNAFKREHEKLKRELNTI  732 (1200)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHh
Confidence            44444444444444444444444444444433333333333333333333333

>PF00831 Ribosomal_L29: Ribosomal L29 protein; InterPro: IPR001854 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=80.02  E-value=12  Score=24.88  Aligned_cols=24  Identities=13%  Similarity=0.356  Sum_probs=14.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMA   28 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~   28 (150)
                      +.++|++.+.+++.++..|+---+
T Consensus         8 s~~eL~~~l~elk~eL~~Lr~q~~   31 (58)
T PF00831_consen    8 SDEELQEKLEELKKELFNLRFQKA   31 (58)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445666666666666666655443

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L29 is one of the proteins from the large ribosomal subunit. L29 belongs to a family of ribosomal proteins of 63 to 138 amino-acid residues which, on the basis of sequence similarities [], groups: Red algal L29. Bacterial L29. Mammalian L35 Caenorhabditis elegans L35 (ZK652.4). Yeast L35. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1VSP_W 3MS1_Y 3MRZ_Y 3F1H_2 3PYT_Y 3PYO_Y 3D5D_2 3D5B_2 3PYR_Y 1VSA_W ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	150
2qih_A	157	Protein USPA1; trimeric, parallel alpha-helical co	7e-06

>2qih_A Protein USPA1; trimeric, parallel alpha-helical coiled-coil, cell adhesion; 1.90A {Moraxella catarrhalis} Length = 157

 Score = 42.7 bits (99), Expect = 7e-06
 Identities = 10/61 (16%), Positives = 24/61 (39%)

Query: 3  KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI 62
          K+D    K      K+ +   + D+      + ++      +   +G+  + +A+ K DI
Sbjct: 32 KKDAQIAKAQANENKDGIAKNQADIQLHDKKITNLGILHSMVARAVGNNTQGVATNKADI 91

Query: 63 G 63
           
Sbjct: 92 A 92

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	150
2qih_A	157	Protein USPA1; trimeric, parallel alpha-helical co	97.68
2qih_A	157	Protein USPA1; trimeric, parallel alpha-helical co	97.55
1jcd_A	52	Major outer membrane lipoprotein; protein folding,	97.37
3htk_A	60	Structural maintenance of chromosomes protein 5; S	97.23
1jcd_A	52	Major outer membrane lipoprotein; protein folding,	97.21
4dzn_A	33	Coiled-coil peptide CC-PIL; de novo protein; HET:	97.02
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	96.93
2z73_A	448	Rhodopsin; visual pigment, GQ-type, G-protein coup	96.9
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	96.78
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	96.75
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	96.67
3htk_A	60	Structural maintenance of chromosomes protein 5; S	96.63
3v86_A	27	De novo design helix; computational design of A pr	96.51
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	96.16
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	96.14
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	96.11
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	96.1
3tq2_A	36	KE1; parallel three helix bundle, de novo protein;	96.09
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	95.93
1avy_A	74	Fibritin, gpwac M; bacteriophage T4, structural pr	95.63
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	95.6
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	95.42
1wle_A	501	Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bo	95.28
3he4_A	56	Synzip6; heterodimeric coiled-coil, de novo protei	95.28
1avy_A	74	Fibritin, gpwac M; bacteriophage T4, structural pr	95.19
4etp_A	403	Kinesin-like protein KAR3; kinesin motor protein,	95.19
4h22_A	103	Leucine-rich repeat flightless-interacting protei;	95.16
3qne_A	485	Seryl-tRNA synthetase, cytoplasmic; amino acid bio	95.05
1wle_A	501	Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bo	94.97
3tq2_A	36	KE1; parallel three helix bundle, de novo protein;	94.91
2nrj_A	346	HBL B protein; enterotoxin, hemolysis, transmembra	94.89
3he4_A	56	Synzip6; heterodimeric coiled-coil, de novo protei	94.85
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	94.8
2dq0_A	455	Seryl-tRNA synthetase; coiled-coil, homodimer, str	94.8
1t2k_D	61	Cyclic-AMP-dependent transcription factor ATF-2; p	94.73
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	94.63
1ez3_A	127	Syntaxin-1A; three helix bundle, endocytosis/exocy	94.45
3qne_A	485	Seryl-tRNA synthetase, cytoplasmic; amino acid bio	94.44
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	94.24
4h22_A	103	Leucine-rich repeat flightless-interacting protei;	94.21
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	94.16
2dq0_A	455	Seryl-tRNA synthetase; coiled-coil, homodimer, str	94.08
2wt7_B	90	Transcription factor MAFB; transcription, transcri	94.06
1ci6_A	63	Transcription factor ATF-4; BZIP; 2.60A {Homo sapi	94.05
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	94.04
3f6n_A	129	Virion-associated protein; coiled-coil, viral prot	94.04
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	93.99
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	93.93
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	93.93
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	93.86
2xdj_A	83	Uncharacterized protein YBGF; unknown function; 1.	93.84
2nrj_A	346	HBL B protein; enterotoxin, hemolysis, transmembra	93.79
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	93.79
2wt7_A	63	Proto-oncogene protein C-FOS; transcription, trans	93.74
3okq_A	141	BUD site selection protein 6; coiled-coil, protein	93.69
2bsg_A	487	Fibritin; viral protein, attachment protein, bacte	93.57
1lwu_C	323	Fibrinogen gamma chain; heterotrimer, protein-pept	93.56
3jsv_C	94	NF-kappa-B essential modulator; ubiquitin, coiled-	93.52
3f6n_A	129	Virion-associated protein; coiled-coil, viral prot	93.46
3trt_A	77	Vimentin; cytoskeleton, intermediate filament, alp	93.42
1aa0_A	113	Fibritin, gpwac E; bacteriophage T4, structural pr	93.41
2wt7_A	63	Proto-oncogene protein C-FOS; transcription, trans	93.35
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	93.29
1gd2_E	70	Transcription factor PAP1; basic leucine zipper, p	93.29
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	93.26
3he5_B	52	Synzip2; heterodimeric coiled-coil, de novo protei	93.14
2yy0_A	53	C-MYC-binding protein; conserved hypothetical prot	93.04
3he5_B	52	Synzip2; heterodimeric coiled-coil, de novo protei	93.04
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	93.0
1jnm_A	62	Proto-oncogene C-JUN; BZIP, protein-DNA complex, t	93.0
3c9i_A	242	Tail needle protein GP26; xenon, coiled-coil, prot	92.95
3a7o_A	75	Autophagy protein 16; coiled-coil, coiled coil, cy	92.85
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	92.85
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	92.7
3iv1_A	78	Tumor susceptibility gene 101 protein; coiled_COIL	92.69
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	92.5
2yy0_A	53	C-MYC-binding protein; conserved hypothetical prot	92.49
3lss_A	484	Seryl-tRNA synthetase; aminoacyl-tRNA synthetase,	92.45
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	92.44
1lwu_C	323	Fibrinogen gamma chain; heterotrimer, protein-pept	92.42
1aa0_A	113	Fibritin, gpwac E; bacteriophage T4, structural pr	92.41
1ses_A	421	Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A	92.41
2dq3_A	425	Seryl-tRNA synthetase; coiled-coil, homodimer, str	92.4
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	92.37
3jsv_C	94	NF-kappa-B essential modulator; ubiquitin, coiled-	92.13
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	92.13
1go4_E	100	MAD1 (mitotic arrest deficient)-like 1; mitotic sp	92.12
1ses_A	421	Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A	91.94
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	91.9
3trt_A	77	Vimentin; cytoskeleton, intermediate filament, alp	91.9
3c9i_A	242	Tail needle protein GP26; xenon, coiled-coil, prot	91.67
1gd2_E	70	Transcription factor PAP1; basic leucine zipper, p	91.56
3lss_A	484	Seryl-tRNA synthetase; aminoacyl-tRNA synthetase,	91.44
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	91.38
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	91.26
4dnd_A	130	Syntaxin-10, SYN10; structural genomics, protein s	91.05
4emc_A	190	Monopolin complex subunit CSM1; RWD domain, kineto	90.84
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	90.71
2dq3_A	425	Seryl-tRNA synthetase; coiled-coil, homodimer, str	90.63
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	90.53
2wt7_B	90	Transcription factor MAFB; transcription, transcri	90.44
1fxk_A	107	Prefoldin; archaeal protein, chaperone; 2.30A {Met	90.43
4dnd_A	130	Syntaxin-10, SYN10; structural genomics, protein s	90.38
3hhm_B	373	NISH2 P85alpha; PI3KCA, PI3K, PIK3R1, phosphatidil	90.29
2c5k_T	95	Syntaxin TLG1, T-snare affecting A late golgi comp	90.18
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	90.14
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	89.93
2zqm_A	117	Prefoldin beta subunit 1; chaperone; HET: CIT; 1.9	89.78
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	89.77
1ez3_A	127	Syntaxin-1A; three helix bundle, endocytosis/exocy	89.61
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	89.54
2xdj_A	83	Uncharacterized protein YBGF; unknown function; 1.	89.44
4emc_A	190	Monopolin complex subunit CSM1; RWD domain, kineto	89.3
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	89.21
3ghg_C	411	Fibrinogen gamma chain; triple-stranded coiled coi	89.2
3m9b_A	251	Proteasome-associated ATPase; coil COIL with 5 bet	89.03
3u06_A	412	Protein claret segregational; motor domain, stalk	88.92
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	88.83
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	88.74
3hhm_B	373	NISH2 P85alpha; PI3KCA, PI3K, PIK3R1, phosphatidil	88.58
1m1j_C	409	Fibrinogen gamma chain; coiled coils, disulfide ri	88.54
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	88.33
1g6u_A	48	Domain swapped dimer; designed three helix bundle,	88.14
1fio_A	196	SSO1 protein; four helix bundle, alpha helix, memb	87.78
1gmj_A	84	ATPase inhibitor; coiled-coil structure, P depende	87.49
3l4q_C	170	Phosphatidylinositol 3-kinase regulatory subunit b	87.47
1bb1_B	36	Designed, thermostable heterotrimeric coiled coil;	87.4
4e61_A	106	Protein BIM1; EB1-like motif, coiled-coil, spindle	87.12
1kd8_B	36	GABH BLL, GCN4 acid base heterodimer base-D12LA16L	87.05
4etp_A	403	Kinesin-like protein KAR3; kinesin motor protein,	87.04
2bsg_A	487	Fibritin; viral protein, attachment protein, bacte	87.01
1gk4_A	84	Vimentin; intermediate filament, dimer, parallel c	86.94
4e61_A	106	Protein BIM1; EB1-like motif, coiled-coil, spindle	86.87
1x8y_A	86	Lamin A/C; structural protein, intermediate filame	86.66
1joc_A	125	EEA1, early endosomal autoantigen 1; FYVE domain,	86.64
4i0x_B	103	ESAT-6-like protein MAB_3113; structural genomics,	86.57
3kqg_A	182	Langerin, C-type lectin domain family 4 member K;	86.36
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	86.29
3he5_A	49	Synzip1; heterodimeric coiled-coil, de novo protei	86.15
3l4q_C	170	Phosphatidylinositol 3-kinase regulatory subunit b	86.11
3m9b_A	251	Proteasome-associated ATPase; coil COIL with 5 bet	86.01
1fzc_C	319	Fibrin; blood coagulation, plasma protein, crossli	85.91
2vrs_A	211	Sigma-C capsid protein; alpha-helical coiled coil,	85.85
1dx0_A	219	Prion protein; brain, repeat; NMR {Bos taurus} SCO	85.84
3s84_A	273	Apolipoprotein A-IV; four helix bundle, transport	85.58
1s94_A	180	S-syntaxin; three helix bundle, structural plastic	85.23
1wt6_A	81	Myotonin-protein kinase; coiled-coil, kinase activ	85.2
1wt6_A	81	Myotonin-protein kinase; coiled-coil, kinase activ	85.1
2c5k_T	95	Syntaxin TLG1, T-snare affecting A late golgi comp	85.08
2ve7_C	250	Kinetochore protein NUF2, kinetochore protein SPC;	85.08
1s94_A	180	S-syntaxin; three helix bundle, structural plastic	84.79
3iv1_A	78	Tumor susceptibility gene 101 protein; coiled_COIL	84.54
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	84.52
3okq_A	141	BUD site selection protein 6; coiled-coil, protein	84.49
2wps_A	107	Trimeric autotransporter adhesin fragment; membran	84.38
3he5_A	49	Synzip1; heterodimeric coiled-coil, de novo protei	84.21
2ynz_A	154	General control protein GCN4, putative inner MEMB	84.17
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	84.11
3qh9_A	81	Liprin-beta-2; coiled-coil, dimerization, structur	84.09
1fzc_C	319	Fibrin; blood coagulation, plasma protein, crossli	83.79
1hjb_A	87	Ccaat/enhancer binding protein beta; transcription	83.78
3efg_A	78	Protein SLYX homolog; xanthomonas campestris PV. c	83.63
1m1j_C	409	Fibrinogen gamma chain; coiled coils, disulfide ri	83.52
1g6u_A	48	Domain swapped dimer; designed three helix bundle,	83.42
2ynz_A	154	General control protein GCN4, putative inner MEMB	83.37
3kqg_A	182	Langerin, C-type lectin domain family 4 member K;	83.33
3m48_A	33	General control protein GCN4; leucine zipper, synt	83.05
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	82.8
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	82.79
1go4_E	100	MAD1 (mitotic arrest deficient)-like 1; mitotic sp	82.76
1dip_A	78	Delta-sleep-inducing peptide immunoreactive peptid	82.47
3ghg_B	461	Fibrinogen beta chain; triple-stranded coiled coil	82.39
2j1d_G	483	DAAM1, disheveled-associated activator of morphoge	82.37
1use_A	45	VAsp, vasodilator-stimulated phosphoprotein; signa	82.33
1hjb_A	87	Ccaat/enhancer binding protein beta; transcription	81.99
2f1m_A	277	Acriflavine resistance protein A; helical hairpin,	81.92
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	81.88
1v9d_A	340	Diaphanous protein homolog 1; helix bundle, protei	81.66
1dx0_A	219	Prion protein; brain, repeat; NMR {Bos taurus} SCO	81.63
3uul_A	118	Utrophin; spectrin repeat, structural protein, cyt	81.3
2yny_A	106	General control protein GCN4, putative inner MEMB	81.18
1fio_A	196	SSO1 protein; four helix bundle, alpha helix, memb	80.65
2k48_A	107	Nucleoprotein; viral protein; NMR {Andes virus}	80.57
1gmj_A	84	ATPase inhibitor; coiled-coil structure, P depende	80.32
3uun_A	119	Dystrophin; triple helical, cell structure and sta	80.1

>2qih_A Protein USPA1; trimeric, parallel alpha-helical coiled-coil, cell adhesion; 1.90A {Moraxella catarrhalis}

Probab=97.68  E-value=0.00024  Score=55.67  Aligned_cols=59  Identities=15%  Similarity=0.179  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      .|-...+.+|.+++.+|..-+.||.+|+.||..|-..|..+-.||.+|-.||..++.||
T Consensus        33 ~~~~i~~~qi~en~~~iakNqadI~~L~~dI~dLd~~v~l~~RdIgsL~ddVa~NqaDI   91 (157)
T 2qih_A           33 KDAQIAKAQANENKDGIAKNQADIQLHDKKITNLGILHSMVARAVGNNTQGVATNKADI   91 (157)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhhhhhhhhhcchhhHHHhhHHHH
Confidence            34444455555555555555555555555555555544444455555544444444443

>2qih_A Protein USPA1; trimeric, parallel alpha-helical coiled-coil, cell adhesion; 1.90A {Moraxella catarrhalis}

Probab=97.55  E-value=0.00047  Score=53.96  Aligned_cols=62  Identities=16%  Similarity=0.260  Sum_probs=54.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIG   63 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Dig   63 (150)
                      .|.+|.+++.+|+.-+.||..|+.||..|-..|..+-+||..|-.||..=+.|+..++.||.
T Consensus        38 ~~~qi~en~~~iakNqadI~~L~~dI~dLd~~v~l~~RdIgsL~ddVa~NqaDIakNqADId   99 (157)
T 2qih_A           38 AKAQANENKDGIAKNQADIQLHDKKITNLGILHSMVARAVGNNTQGVATNKADIAKNQADIA   99 (157)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhhhhhhhhhcchhhHHHhhHHHHHHhHHHHH
Confidence            36789999999999999999999999999999999999999999999888888888888763

>1jcd_A Major outer membrane lipoprotein; protein folding, coiled coil, helix capping, alanine-zipper, membrane protein; 1.30A {Escherichia coli} SCOP: h.1.16.1 PDB: 1eq7_A 1t8z_A* 2guv_A 2gus_A 1jcc_A 1kfn_A 1kfm_A

Probab=97.37  E-value=0.00049  Score=45.28  Aligned_cols=36  Identities=17%  Similarity=0.220  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          12 DMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDD   47 (150)
Q Consensus        12 dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~D   47 (150)
                      .|.+|.++|.+|...|..|+.||..||.||..-|++
T Consensus         5 ki~~Lss~V~~L~~kVdqLssdV~al~~~v~~ak~e   40 (52)
T 1jcd_A            5 KADQASSDAQTANAKADQASNDANAARSDAQAAKDD   40 (52)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444443

>3htk_A Structural maintenance of chromosomes protein 5; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=97.23  E-value=0.0027  Score=41.02  Aligned_cols=56  Identities=13%  Similarity=0.222  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      .+.+..++.++.++++.+..+++-+.++|+.+..+.+++..+.++|..+|..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~l~~~~~~I~~~k~qi~~y   59 (60)
T 3htk_A            4 ANTKKTLENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKKKNQNEYY   59 (60)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            34566666667777666666777777777777777777777777766666665543

>1jcd_A Major outer membrane lipoprotein; protein folding, coiled coil, helix capping, alanine-zipper, membrane protein; 1.30A {Escherichia coli} SCOP: h.1.16.1 PDB: 1eq7_A 1t8z_A* 2guv_A 2gus_A 1jcc_A 1kfn_A 1kfm_A

Probab=97.21  E-value=0.00091  Score=43.98  Aligned_cols=35  Identities=14%  Similarity=0.227  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          20 MVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKED   54 (150)
Q Consensus        20 v~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~D   54 (150)
                      |.+|.++|.+|...|..|+.||..|+.||...|++
T Consensus         6 i~~Lss~V~~L~~kVdqLssdV~al~~~v~~ak~e   40 (52)
T 1jcd_A            6 ADQASSDAQTANAKADQASNDANAARSDAQAAKDD   40 (52)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444455555555544444444444444444444

>4dzn_A Coiled-coil peptide CC-PIL; de novo protein; HET: PHI; 1.59A {Synthetic} PDB: 4dzm_A* 4dzl_A* 4dzk_A 1u0i_A 1u0i_B

Probab=97.02  E-value=0.0011  Score=39.63  Aligned_cols=26  Identities=19%  Similarity=0.585  Sum_probs=10.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          27 MASIKVDMGSIKEDMGSIKDDMGSIK   52 (150)
Q Consensus        27 V~~LK~DV~~LK~DV~~LK~DV~~LK   52 (150)
                      |+.||++|+.||.+++.||-+++.||
T Consensus         4 iaalkqeiaalkkeiaalkfeiaalk   29 (33)
T 4dzn_A            4 IAALKQEIAALKKEIAALKFEIAALK   29 (33)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444443333

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=96.93  E-value=0.0063  Score=45.24  Aligned_cols=53  Identities=13%  Similarity=0.246  Sum_probs=25.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKED   54 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~D   54 (150)
                      ||..|..|+.++..+...+..++.++..++..+..+...+..++..+..++..
T Consensus         4 ~~~~~~~l~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~   56 (284)
T 1c1g_A            4 IKKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDE   56 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555555555555555444444444444444444444444433333

>2z73_A Rhodopsin; visual pigment, GQ-type, G-protein coupled receptor, chromophore, glycoprotein, lipoprotein, membrane, palmitate phosphorylation; HET: BOG RET PLM TWT PC1; 2.50A {Todarodes pacificus} PDB: 3aym_A* 3ayn_A* 2ziy_A*

Probab=96.90  E-value=0.00014  Score=59.38  Aligned_cols=11  Identities=36%  Similarity=0.866  Sum_probs=0.0

Q ss_pred             CCCCCCCCCCC
Q psy9603          69 KRGYGVDKRGY   79 (150)
Q Consensus        69 ~~gYg~p~~gY   79 (150)
                      +++|..|+++|
T Consensus       390 ~~~~~~~~~~~  400 (448)
T 2z73_A          390 PQGYAPPPQGY  400 (448)
T ss_dssp             -----------
T ss_pred             CCCCCCCcCCC
Confidence            33444444443

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=96.78  E-value=0.0056  Score=45.52  Aligned_cols=45  Identities=11%  Similarity=0.217  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDD   47 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~D   47 (150)
                      +.++..+...+..|..++..++..+..+...+..++..+..++..
T Consensus        12 ~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~   56 (284)
T 1c1g_A           12 KLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDE   56 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444433333333333

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=96.75  E-value=0.011  Score=44.98  Aligned_cols=53  Identities=9%  Similarity=0.320  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMAS   57 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~   57 (150)
                      ....|+.++..++.++..||.+..+++.....++..+.+|++++..|...+..
T Consensus        76 ~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~~~  128 (138)
T 3hnw_A           76 MADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNIVK  128 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444444444444444444444444444433

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=96.67  E-value=0.012  Score=44.66  Aligned_cols=59  Identities=14%  Similarity=0.231  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      .|+-.++.+...|++++..++..+..||.+...++....++++.+..|++++..|...+
T Consensus        68 dEl~k~~~~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~  126 (138)
T 3hnw_A           68 DDYFKAKKMADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNI  126 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45556666666666666666666666666666666666666677777777666665543

>3htk_A Structural maintenance of chromosomes protein 5; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=96.63  E-value=0.01  Score=38.25  Aligned_cols=55  Identities=11%  Similarity=0.230  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIG   63 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Dig   63 (150)
                      |.+.+..+.+++.++++.+..++.-+..+|+.+..+.+++..+.++|..+|+.|.
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~l~~~~~~I~~~k~qi~   57 (60)
T 3htk_A            3 FANTKKTLENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKKKNQNE   57 (60)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556777777777777777777777777788887878888888888877776653

>3v86_A De novo design helix; computational design of A protein crystal, helical coil, DE designed helix, de novo protein; 2.91A {Synthetic}

Probab=96.51  E-value=0.0036  Score=35.96  Aligned_cols=22  Identities=18%  Similarity=0.700  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHh
Q psy9603          37 IKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus        37 LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      ||.+|.+||-+|..||++|..|
T Consensus         5 lkdevgelkgevralkdevkdl   26 (27)
T 3v86_A            5 LKDEVGELKGEVRALKDEVKDL   26 (27)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHhHHHHHHHHHhcc
Confidence            4444444444444444444444

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=96.16  E-value=0.028  Score=48.57  Aligned_cols=51  Identities=0%  Similarity=0.195  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q psy9603          13 MASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIG   63 (150)
Q Consensus        13 v~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Dig   63 (150)
                      +...+++...++.++.+|+..+...|+.+.+||++++.++.++..+.+.+.
T Consensus       532 ~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l~~~~~  582 (597)
T 3oja_B          532 ADAKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQLEAKKN  582 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             hhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            333333344444555555555566666666666677777777766666554

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=96.14  E-value=0.026  Score=45.60  Aligned_cols=45  Identities=7%  Similarity=0.147  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      |..+|..|.+++..+++.+..+++.+..++.++..++.|+..++.
T Consensus        30 lp~el~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~e~~i~~~~~   74 (256)
T 3na7_A           30 KRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNA   74 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333444444444444444444444444444444433333

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=96.11  E-value=0.035  Score=44.81  Aligned_cols=55  Identities=9%  Similarity=0.154  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      |..|+..+..|...|..|..++..+++.+..+++.+..++.++..++.|+..+++
T Consensus        20 i~~l~~~~~~lp~el~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~e~~i~~~~~   74 (256)
T 3na7_A           20 IDSLEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNA   74 (256)
T ss_dssp             HHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444555555555555555555555554443

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=96.10  E-value=0.046  Score=38.78  Aligned_cols=38  Identities=5%  Similarity=0.254  Sum_probs=18.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGS   43 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~   43 (150)
                      ++.|.+.|..+-+-|.-|+..|.+||..-+.|.+++.+
T Consensus         8 leqLE~KIq~avdtI~lLqmEieELKekN~~L~~e~~e   45 (81)
T 2jee_A            8 FEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQN   45 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555554444444444444444444444444

>3tq2_A KE1; parallel three helix bundle, de novo protein; 1.10A {Synthetic}

Probab=96.09  E-value=0.013  Score=35.55  Aligned_cols=32  Identities=19%  Similarity=0.383  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603          28 ASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus        28 ~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      +.||+-|+.||+..--|.-.|+.||+.|+.||
T Consensus         4 salkekvsalkeqflmlmfkvsalkekvsalk   35 (36)
T 3tq2_A            4 SALKEKVSALKEQFLMLMFKVSALKEKVSALK   35 (36)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            44444444444444444445555555555554

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=95.93  E-value=0.036  Score=47.91  Aligned_cols=46  Identities=0%  Similarity=0.221  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603          17 KEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus        17 K~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      ++++...++....+++++..|+..+.+.|+-+..||++++.+++++
T Consensus       529 ~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~  574 (597)
T 3oja_B          529 RTEADAKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKV  574 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Confidence            3333333333344445555555555555556666666666665554

>1avy_A Fibritin, gpwac M; bacteriophage T4, structural protein, chaperone, bacteriopha assembly, protein folding; 1.85A {Enterobacteria phage T4} SCOP: h.1.17.1

Probab=95.63  E-value=0.016  Score=40.65  Aligned_cols=20  Identities=25%  Similarity=0.566  Sum_probs=7.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q psy9603          25 EDMASIKVDMGSIKEDMGSI   44 (150)
Q Consensus        25 ~DV~~LK~DV~~LK~DV~~L   44 (150)
                      ++|+.++++|+.+|.+++++
T Consensus        15 T~iaa~~~ev~t~~~~l~~~   34 (74)
T 1avy_A           15 TDIASVRQEVNTAKGNISSL   34 (74)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhheeeccccchhhhh
Confidence            33333333333333333333

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=95.60  E-value=0.11  Score=36.92  Aligned_cols=53  Identities=9%  Similarity=0.290  Sum_probs=31.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      |..|+.+|.+||+.-..|.+++.+++.....|..+...||++-...++.+..|
T Consensus        22 I~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~~L   74 (81)
T 2jee_A           22 ITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQAL   74 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555555555555555555556666666666666666655554

>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled coil, alanine, symmetry, axial stagger, BEND, contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1

Probab=95.42  E-value=0.071  Score=36.63  Aligned_cols=46  Identities=9%  Similarity=0.250  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          12 DMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMAS   57 (150)
Q Consensus        12 dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~   57 (150)
                      .+..+.+++.....-...+-.+|..|+.-|..|.+|+....+.+..
T Consensus        21 ~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l~~   66 (81)
T 1ic2_A           21 RAEQAEADKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESLKD   66 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333344455555555555555555444444433

>1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus}

Probab=95.28  E-value=0.081  Score=47.40  Aligned_cols=55  Identities=15%  Similarity=0.302  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           7 GSIKEDMASIKEDMVSIKEDMASIK-----------VDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK~DV~~LK-----------~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      +.++.++.+|+...+.+...|..+|           .|++.|++.+.+||+++..|++.+.++++.
T Consensus        80 r~~~~~~~~l~~~rn~~sk~i~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~~~~~  145 (501)
T 1wle_A           80 RQLREQIRSLEEEKEAVTEAVRALVVNQDNSQVQQDPQYQSLRARGREIRKQLTLLYPKEAQLEEQ  145 (501)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCTTGGGCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444455544444444444433           134444555555555554444444444443

>3he4_A Synzip6; heterodimeric coiled-coil, de novo protein; 2.46A {Artificial gene}

Probab=95.28  E-value=0.045  Score=35.95  Aligned_cols=30  Identities=17%  Similarity=0.482  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          26 DMASIKVDMGSIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus        26 DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      -|+.|..|-+.|..||+.|..|++.|..||
T Consensus        25 ivarlendnanlekdianlekdianlerdv   54 (56)
T 3he4_A           25 IVARLENDNANLEKDIANLEKDIANLERDV   54 (56)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcccchHHHHHHHHHHHHHHHHHhh
Confidence            333444444444444444444444444443

>1avy_A Fibritin, gpwac M; bacteriophage T4, structural protein, chaperone, bacteriopha assembly, protein folding; 1.85A {Enterobacteria phage T4} SCOP: h.1.17.1

Probab=95.19  E-value=0.044  Score=38.34  Aligned_cols=34  Identities=18%  Similarity=0.510  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          12 DMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIK   45 (150)
Q Consensus        12 dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK   45 (150)
                      .|+.+.++|+.++..|..+|.+++++..||+.|+
T Consensus         9 sVk~~eT~iaa~~~ev~t~~~~l~~~e~~vqaL~   42 (74)
T 1avy_A            9 KIKAIETDIASVRQEVNTAKGNISSLQGDVQALQ   42 (74)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhcccccchhhhheeeccccchhhhhhhhhHHHH
Confidence            3444444444444444444444444444444443

>4etp_A Kinesin-like protein KAR3; kinesin motor protein, kinesin motor homology domain, karyog mitosis, microtubules; HET: ADP EBC; 2.30A {Saccharomyces cerevisiae}

Probab=95.19  E-value=0.051  Score=47.06  Aligned_cols=63  Identities=17%  Similarity=0.368  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCC
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYG   66 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg   66 (150)
                      .+|..|+++|..|++++.+|+++|.+++..+..|++...+..+--..|-.++.++|..|..|=
T Consensus         3 ~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~rr~l~n~~~elkgnIrV~v   65 (403)
T 4etp_A            3 SKIAALKEKIAALKEKIAALKEKIKDTELGMKELNEILIKEETVRRTLHNELQELRGNIRVYL   65 (403)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSEEEEE
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEEEE
Confidence            467889999999999999999999999999999998888877788889999999999988874

>4h22_A Leucine-rich repeat flightless-interacting protei; nucleic acid sensor, transcription; 2.89A {Homo sapiens}

Probab=95.16  E-value=0.12  Score=38.12  Aligned_cols=50  Identities=10%  Similarity=0.256  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      |..||+.+.++.+.+.+++.+-.+...|+..+|...+.|+.++..||.-+
T Consensus        32 VdlLKD~LEe~eE~~aql~Re~~eK~re~e~~Kr~~~~L~~~~~~lk~~L   81 (103)
T 4h22_A           32 VDTLKDMLLELEEQLAESRRQYEEKNKEFEREKHAHSILQFQFAEVKEAL   81 (103)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444555555555555555555544433

>3qne_A Seryl-tRNA synthetase, cytoplasmic; amino acid biosynthesis, CTG-clade, codon ambiguity, pathoge II aminoacyl-tRNA synthetase family; 2.00A {Candida albicans} PDB: 3qo7_A* 3qo8_A* 3qo5_A

Probab=95.05  E-value=0.074  Score=47.68  Aligned_cols=57  Identities=11%  Similarity=0.204  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIK---VDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK---~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      -+.++.++.+|+...+.+...|..+|   +|++.|++.+.+||+++..|++.+.++.+.+
T Consensus        42 ~r~~~~~~~~l~~~rn~~sk~i~~~k~~~~~~~~l~~~~~~l~~~i~~le~~~~~~~~~~  101 (485)
T 3qne_A           42 WVKLRFDLDEHNKKLNSVQKEIGKRFKAKEDAKDLIAEKEKLSNEKKEIIEKEAEADKNL  101 (485)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555666666666666666665544   2445555555555555555555555444443

>1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus}

Probab=94.97  E-value=0.13  Score=46.04  Aligned_cols=67  Identities=10%  Similarity=0.195  Sum_probs=55.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcc
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIK-----------EDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVD   68 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK-----------~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg~~   68 (150)
                      +...++.|+.+...+...|..+|           +|+++|+..+..||+++.+|++.+..+++.+..+=.-|+=.=-+
T Consensus        82 ~~~~~~~l~~~rn~~sk~i~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~~~~~l~~~l~~iPN~~~~  159 (501)
T 1wle_A           82 LREQIRSLEEEKEAVTEAVRALVVNQDNSQVQQDPQYQSLRARGREIRKQLTLLYPKEAQLEEQFYLRALRLPNQTHP  159 (501)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCTTGGGCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCCCCT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCC
Confidence            45678888888888888888876           47889999999999999999999999999998877666555433

>3tq2_A KE1; parallel three helix bundle, de novo protein; 1.10A {Synthetic}

Probab=94.91  E-value=0.048  Score=33.05  Aligned_cols=31  Identities=23%  Similarity=0.503  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          15 SIKEDMVSIKEDMASIKVDMGSIKEDMGSIK   45 (150)
Q Consensus        15 ~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK   45 (150)
                      .||+.|+.||+..-.|---|+.||+.|+.||
T Consensus         5 alkekvsalkeqflmlmfkvsalkekvsalk   35 (36)
T 3tq2_A            5 ALKEKVSALKEQFLMLMFKVSALKEKVSALK   35 (36)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3344444444444333334444444444443

>2nrj_A HBL B protein; enterotoxin, hemolysis, transmembrane, structural genomics, PSI-2, protein structure initiative; 2.03A {Bacillus cereus} SCOP: h.4.4.2

Probab=94.89  E-value=0.088  Score=44.78  Aligned_cols=61  Identities=8%  Similarity=0.272  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHH-------HHHHHHHHHHHHhhhhcC
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIK----VDMGSIKEDMGSIK-------DDMGSIKEDMASIKEDIG   63 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK----~DV~~LK~DV~~LK-------~DV~~LK~Dvs~lK~Dig   63 (150)
                      ++.|+.|+.++...++.+..+.+++..+|    .|...||+++..|.       .|+..|+.++..++.+|.
T Consensus       122 ~~~L~~L~~~i~~~q~~~~~~~~~L~~F~~~l~~d~~~f~~~~~~l~~~L~~~~~~I~~Lq~eI~~l~~~I~  193 (346)
T 2nrj_A          122 KEGITDLRGEIQQNQKYAQQLIEELTKLRDSIGHDVRAFGSNKELLQSILKNQGADVDADQKRLEEVLGSVN  193 (346)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHTGGGC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhHHhHHHHHHHHHhcccccHHHHHHHHHHHHHHHH
Confidence            44556666666666666665555555433    33445555555443       356788888888888876

>3he4_A Synzip6; heterodimeric coiled-coil, de novo protein; 2.46A {Artificial gene}

Probab=94.85  E-value=0.0089  Score=39.32  Aligned_cols=33  Identities=18%  Similarity=0.512  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKEDM   41 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV   41 (150)
                      |.+-|+.|.+|-+.|..||+.|..||+.|..||
T Consensus        22 lenivarlendnanlekdianlekdianlerdv   54 (56)
T 3he4_A           22 LENIVARLENDNANLEKDIANLEKDIANLERDV   54 (56)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcccchHHHHHHHHHHHHHHHHHhh
Confidence            333444455555554444444444444444444

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}

Probab=94.80  E-value=0.2  Score=37.15  Aligned_cols=53  Identities=9%  Similarity=0.240  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVD----MGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~D----V~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      .+.|+..+..|+.++.++|+-....+++    ++.|..++++|++.-..|+..+..|
T Consensus         5 ~rdL~~~~~~L~~E~e~~k~K~~~~~~e~~~~~~~Lq~El~~lr~~~~~l~~~iReL   61 (111)
T 2v66_B            5 NRDLQADNQRLKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQLHKYVREL   61 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566677777777777777666666654    6666666666666666666665554

>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: SSA; 2.60A {Pyrococcus horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A

Probab=94.80  E-value=0.088  Score=46.33  Aligned_cols=57  Identities=9%  Similarity=0.265  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIK---VDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK---~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      -+.++.++.+|+...+.+...|..+|   +|.+.|++.+.+||+++..|++.+.++.+.+
T Consensus        40 ~r~~~~~~~~l~~~~n~~sk~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   99 (455)
T 2dq0_A           40 WRTKLKEINRLRHERNKIAVEIGKRRKKGEPVDELLAKSREIVKRIGELENEVEELKKKI   99 (455)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTSCCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555566666666666666665543   3345555555555555555555555544443

>1t2k_D Cyclic-AMP-dependent transcription factor ATF-2; protein DNA complex, transcription/DNA complex; 3.00A {Homo sapiens} SCOP: h.1.3.1

Probab=94.73  E-value=0.11  Score=33.85  Aligned_cols=33  Identities=6%  Similarity=0.270  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          13 MASIKEDMVSIKEDMASIKVDMGSIKEDMGSIK   45 (150)
Q Consensus        13 v~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK   45 (150)
                      +.+|...+..|.++-..|+..|+.|++.+..||
T Consensus        24 ~~~Le~~~~~L~~~n~~L~~~i~~L~~e~~~Lk   56 (61)
T 1t2k_D           24 VQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLK   56 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444444444444444444444444

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=94.63  E-value=0.22  Score=39.94  Aligned_cols=53  Identities=8%  Similarity=0.225  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HH----HHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIK-------VD----MGSIKEDMGSIKDDMGSIKEDMA   56 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK-------~D----V~~LK~DV~~LK~DV~~LK~Dvs   56 (150)
                      .+|..+....+.|++.+..|+.++..+|       ++    |+.|..+++.|++....|+..+.
T Consensus        49 ~eL~~~Ek~~~~L~~~~~~L~~E~e~~k~K~~~~~~e~~~~~~~Lq~el~~l~~~~~~l~~~ir  112 (189)
T 2v71_A           49 AQLVQAEQRNRDLQADNQRLKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQLHKYVR  112 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444333       33    44444444444444444444443

>1ez3_A Syntaxin-1A; three helix bundle, endocytosis/exocytosis complex; 1.90A {Rattus norvegicus} SCOP: a.47.2.1 PDB: 1br0_A 3lg7_A*

Probab=94.45  E-value=0.18  Score=35.78  Aligned_cols=27  Identities=22%  Similarity=0.282  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIK   31 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK   31 (150)
                      .|..+-++|.+|+.+|..|+.+|.+|+
T Consensus         6 ~m~~F~~~v~~I~~~i~~i~~~v~~l~   32 (127)
T 1ez3_A            6 FMDEFFEQVEEIRGFIDKIAENVEEVK   32 (127)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555566666666666666555443

>3qne_A Seryl-tRNA synthetase, cytoplasmic; amino acid biosynthesis, CTG-clade, codon ambiguity, pathoge II aminoacyl-tRNA synthetase family; 2.00A {Candida albicans} PDB: 3qo7_A* 3qo8_A* 3qo5_A

Probab=94.44  E-value=0.094  Score=47.04  Aligned_cols=64  Identities=11%  Similarity=0.252  Sum_probs=54.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIK---EDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGY   65 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK---~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGy   65 (150)
                      +...++.|+.+...+...|..+|   +|+.+|+..+..||+++.+|++.+..+.+++..+=.-|+=.
T Consensus        45 ~~~~~~~l~~~rn~~sk~i~~~k~~~~~~~~l~~~~~~l~~~i~~le~~~~~~~~~~~~~l~~iPN~  111 (485)
T 3qne_A           45 LRFDLDEHNKKLNSVQKEIGKRFKAKEDAKDLIAEKEKLSNEKKEIIEKEAEADKNLRSKINQVGNI  111 (485)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence            45778889999999999998886   46889999999999999999999999999998776665544

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=94.24  E-value=0.35  Score=34.57  Aligned_cols=28  Identities=11%  Similarity=0.310  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          30 IKVDMGSIKEDMGSIKDDMGSIKEDMAS   57 (150)
Q Consensus        30 LK~DV~~LK~DV~~LK~DV~~LK~Dvs~   57 (150)
                      +-.+|..|..-+..|..|+..+++.+..
T Consensus        42 ~E~Ei~sL~kk~~~lE~eld~~ee~L~e   69 (101)
T 3u1c_A           42 LEDDIVQLEKQLRVTEDSRDQVLEELHK   69 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444433

>4h22_A Leucine-rich repeat flightless-interacting protei; nucleic acid sensor, transcription; 2.89A {Homo sapiens}

Probab=94.21  E-value=0.42  Score=35.24  Aligned_cols=59  Identities=12%  Similarity=0.256  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      +|=+.|.=.|..||+.+.++.+.+++++.+-.....|+..+|-....|+.+++.++.-+
T Consensus        23 NEKsal~YqVdlLKD~LEe~eE~~aql~Re~~eK~re~e~~Kr~~~~L~~~~~~lk~~L   81 (103)
T 4h22_A           23 NEKTNFMYQVDTLKDMLLELEEQLAESRRQYEEKNKEFEREKHAHSILQFQFAEVKEAL   81 (103)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445556688888888888888888888888888888888888888888888887643

>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled coil, alanine, symmetry, axial stagger, BEND, contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1

Probab=94.16  E-value=0.41  Score=32.73  Aligned_cols=55  Identities=15%  Similarity=0.300  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           7 GSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      ..||..|..|+.|.....+....+..++.....-...+-++|.+|+..|+.+..|
T Consensus         2 ~~ikkKm~~lk~e~d~a~~~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~e   56 (81)
T 1ic2_A            2 DAIKKKMQMLKLDKENALDRAEQAEADKKAAEERSKQLEDELVALQKKLKGTEDE   56 (81)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            3556666666666666555555555555555555555555555555555554443

>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: SSA; 2.60A {Pyrococcus horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A

Probab=94.08  E-value=0.14  Score=45.05  Aligned_cols=67  Identities=7%  Similarity=0.185  Sum_probs=54.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcc
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIK---EDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVD   68 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK---~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg~~   68 (150)
                      +...++.|+.+...+...|..+|   +|..+|+..+..||+++.+|++.+..+.+++..+=.-|+=.=-+
T Consensus        43 ~~~~~~~l~~~~n~~sk~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ipN~~~~  112 (455)
T 2dq0_A           43 KLKEINRLRHERNKIAVEIGKRRKKGEPVDELLAKSREIVKRIGELENEVEELKKKIDYYLWRLPNITHP  112 (455)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTSCCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCCCCT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCc
Confidence            45678888888888888888775   56889999999999999999999999999998877666655433

>2wt7_B Transcription factor MAFB; transcription, transcription regulation, nucleus, activator, repressor, DNA-binding, phosphoprotein, differentiation; 2.30A {Mus musculus} PDB: 2wty_A* 1k1v_A

Probab=94.06  E-value=0.39  Score=34.47  Aligned_cols=56  Identities=9%  Similarity=0.258  Sum_probs=33.7

Q ss_pred             HHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           3 KEDMGSIKEDMASIKED-------------MVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~D-------------v~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      ++++..||..=-+||+-             +..|..++..|..++..|+.+.+.++.++..+|.....|
T Consensus        20 ~eev~~lKq~RRtlKNRgyAq~CR~Kr~~q~~~LE~e~~~L~~e~~~L~~e~~~~~~e~d~~k~k~~~L   88 (90)
T 2wt7_B           20 KDEVIRLKQKRRTLKNRGYAQSCRYKRVQQKHHLENEKTQLIQQVEQLKQEVSRLARERDAYKVKSEKL   88 (90)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34555666665555554             355566666666666666666666666666666655544

>1ci6_A Transcription factor ATF-4; BZIP; 2.60A {Homo sapiens} SCOP: h.1.3.1

Probab=94.05  E-value=0.2  Score=33.21  Aligned_cols=34  Identities=12%  Similarity=0.275  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKE   39 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~   39 (150)
                      +..|...+..|+++...|+..|+.|+.++..||+
T Consensus        25 ~~~le~~~~~L~~~N~~L~~~i~~L~~E~~~Lk~   58 (63)
T 1ci6_A           25 QEALTGECKELEKKNEALKERADSLAKEIQYLKD   58 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444443

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=94.04  E-value=0.41  Score=33.96  Aligned_cols=22  Identities=9%  Similarity=0.293  Sum_probs=9.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q psy9603          32 VDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus        32 ~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      .+|..|+.-+..|..|+....+
T Consensus        44 ~ei~sL~kKiq~lE~eld~~~e   65 (101)
T 3u59_A           44 EEQQGLQKKLKGTEDEVEKYSE   65 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444433333

>3f6n_A Virion-associated protein; coiled-coil, viral protein, tetramer, DNA-binding, D binding protein; 3.10A {Cauliflower mosaic virus}

Probab=94.04  E-value=0.098  Score=39.95  Aligned_cols=31  Identities=29%  Similarity=0.465  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGS   36 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~   36 (150)
                      |+.|+.+|+++++++.+|++||..|..|+..
T Consensus         4 l~~i~~ei~e~~~~i~~l~~~Ik~il~~~~s   34 (129)
T 3f6n_A            4 LNQIQKEVSEILSDQKSMKADIKAILELLGS   34 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            5566666666666666666666666665554

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=93.99  E-value=0.39  Score=33.61  Aligned_cols=29  Identities=21%  Similarity=0.479  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHHH-------HHHHHHHHHHHHHHhhh
Q psy9603          32 VDMGSIKEDMGS-------IKDDMGSIKEDMASIKE   60 (150)
Q Consensus        32 ~DV~~LK~DV~~-------LK~DV~~LK~Dvs~lK~   60 (150)
                      .|+..||.||..       |..-|.+|++++.-||.
T Consensus        49 ~d~~~LrkdvD~a~l~r~dLE~kvesL~eEl~fLkk   84 (86)
T 3swk_A           49 NTLQSFRQDVDNASLARLDLERKVESLQEEIAFLKK   84 (86)
T ss_dssp             HHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            455555555533       34445566666666553

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=93.93  E-value=0.5  Score=33.05  Aligned_cols=34  Identities=12%  Similarity=0.353  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKE   39 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~   39 (150)
                      |+.|+..|..+..|-+.|-.++..++.++..+|.
T Consensus         2 i~eLr~qi~~l~~e~~~l~~e~dn~~~~~edfk~   35 (86)
T 3swk_A            2 MRELRRQVDQLTNDKARVEVERDNLAEDIMRLRE   35 (86)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Confidence            4566666667766666666666666666666553

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=93.86  E-value=0.41  Score=38.36  Aligned_cols=22  Identities=18%  Similarity=0.382  Sum_probs=8.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q psy9603          20 MVSIKEDMASIKVDMGSIKEDM   41 (150)
Q Consensus        20 v~~LK~DV~~LK~DV~~LK~DV   41 (150)
                      ...|++.+..|+.++..+|+-.
T Consensus        58 ~~~L~~~~~~L~~E~e~~k~K~   79 (189)
T 2v71_A           58 NRDLQADNQRLKYEVEALKEKL   79 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444443333

>2xdj_A Uncharacterized protein YBGF; unknown function; 1.82A {Escherichia coli} PDB: 2wz7_A

Probab=93.84  E-value=0.63  Score=32.66  Aligned_cols=41  Identities=7%  Similarity=0.221  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          15 SIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus        15 ~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      .|.+-+..|+.||..|+..|..+--++..|++--..+=.|+
T Consensus        24 ~Lq~Ql~~Lq~Ev~~LRGqiE~~~~~l~ql~~rQrd~Y~dL   64 (83)
T 2xdj_A           24 QLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQKQILLQI   64 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444444444333333333

>2nrj_A HBL B protein; enterotoxin, hemolysis, transmembrane, structural genomics, PSI-2, protein structure initiative; 2.03A {Bacillus cereus} SCOP: h.4.4.2

Probab=93.79  E-value=0.13  Score=43.75  Aligned_cols=54  Identities=4%  Similarity=0.219  Sum_probs=25.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHH-------HHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDM----ASIKVDMGSIKE-------DMGSIKDDMGSIKEDMA   56 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV----~~LK~DV~~LK~-------DV~~LK~DV~~LK~Dvs   56 (150)
                      +.+|..++.++..+.+++..+|..+    ..|+++++.|..       |+..|++++..++.+++
T Consensus       129 ~~~i~~~q~~~~~~~~~L~~F~~~l~~d~~~f~~~~~~l~~~L~~~~~~I~~Lq~eI~~l~~~I~  193 (346)
T 2nrj_A          129 RGEIQQNQKYAQQLIEELTKLRDSIGHDVRAFGSNKELLQSILKNQGADVDADQKRLEEVLGSVN  193 (346)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHTGGGC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhHHhHHHHHHHHHhcccccHHHHHHHHHHHHHHHH
Confidence            4455555555555555544433332    244444443332       44455555555555555

>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A

Probab=93.79  E-value=0.45  Score=35.48  Aligned_cols=53  Identities=11%  Similarity=0.395  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHh
Q psy9603           6 MGSIKEDMASIKEDMVSIKED----MASIKVDMGSIKEDMGSIK-------DDMGSIKEDMASI   58 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~D----V~~LK~DV~~LK~DV~~LK-------~DV~~LK~Dvs~l   58 (150)
                      |..|+.+|..|+.++..||.+    |..||.=|+.|..+.++-+       .|...|+.++..+
T Consensus        17 Ie~Lkreie~lk~ele~l~~E~q~~v~ql~~~i~~Le~eL~e~r~~~q~a~~e~e~Lr~e~~~l   80 (120)
T 3i00_A           17 IERLYREISGLKAQLENMKTESQRVVLQLKGHVSELEADLAEQQHLRQQAADDCEFLRAELDEL   80 (120)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555666666666666655544    3455555555555555443       3444555555544

>2wt7_A Proto-oncogene protein C-FOS; transcription, transcription regulation, nucleus, activator, repressor, DNA-binding, phosphoprotein, differentiation; 2.30A {Mus musculus} PDB: 1fos_E* 1a02_F* 1s9k_D

Probab=93.74  E-value=0.23  Score=32.72  Aligned_cols=32  Identities=0%  Similarity=0.266  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          21 VSIKEDMASIKVDMGSIKEDMGSIKDDMGSIK   52 (150)
Q Consensus        21 ~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK   52 (150)
                      ..|...|..|+.+-..|+..|+.|++.+..||
T Consensus        26 ~~Le~~v~~L~~~n~~L~~ei~~L~~e~~~Lk   57 (63)
T 2wt7_A           26 DTLQAETDQLEDEKSALQTEIANLLKEKEKLE   57 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333444444444444444444444443

>3okq_A BUD site selection protein 6; coiled-coil, protein binding; 2.04A {Saccharomyces cerevisiae} PDB: 3onx_A

Probab=93.69  E-value=0.44  Score=36.86  Aligned_cols=26  Identities=8%  Similarity=0.245  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMA   28 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~   28 (150)
                      ..+...|-+.|..|.+=|..||.||.
T Consensus        20 ~~~sd~LvtkVDDLQD~VE~LRkDV~   45 (141)
T 3okq_A           20 GDLSDTLLSKVDDLQDVIEIMRKDVA   45 (141)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            45666777777777777777777776

>1lwu_C Fibrinogen gamma chain; heterotrimer, protein-peptide complex, blood clotting; HET: NDG MAN NAG BMA GAL; 2.80A {Petromyzon marinus} SCOP: d.171.1.1 h.1.8.1 PDB: 1n73_C*

Probab=93.56  E-value=0.22  Score=42.53  Aligned_cols=53  Identities=9%  Similarity=0.134  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMA   56 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs   56 (150)
                      +.++.|++++..|+..|....+-|..|++.+..+++.|.+|++.|..|++.+.
T Consensus         5 ~~~~~~~~~~~~~e~~i~~~~~~i~~L~~~l~~~~~~i~~l~~~i~~l~~~~~   57 (323)
T 1lwu_C            5 KTVQKILEEVRILEQIGVSHDAQIQELSEMWRVNQQFVTRLQQQLVDIRQTCS   57 (323)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45667777777777777777777777777777777777777777777766544

>3jsv_C NF-kappa-B essential modulator; ubiquitin, coiled-coil, cellular signaling, cytoplasm, isopeptide bond, nucleus, phosphoprotein, UBL conjugation; 2.70A {Mus musculus} PDB: 3f89_A 2zvo_B 2zvn_B

Probab=93.52  E-value=0.53  Score=34.19  Aligned_cols=8  Identities=13%  Similarity=0.609  Sum_probs=2.9

Q ss_pred             HHHHHHHh
Q psy9603          51 IKEDMASI   58 (150)
Q Consensus        51 LK~Dvs~l   58 (150)
                      |+.++..+
T Consensus        73 L~~ql~~l   80 (94)
T 3jsv_C           73 LQEQLEQL   80 (94)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            33333333

>3f6n_A Virion-associated protein; coiled-coil, viral protein, tetramer, DNA-binding, D binding protein; 3.10A {Cauliflower mosaic virus}

Probab=93.46  E-value=0.21  Score=38.14  Aligned_cols=31  Identities=32%  Similarity=0.502  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          13 MASIKEDMVSIKEDMASIKVDMGSIKEDMGS   43 (150)
Q Consensus        13 v~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~   43 (150)
                      |++|+..|.+++++|.+|++||..|.+|...
T Consensus         4 l~~i~~ei~e~~~~i~~l~~~Ik~il~~~~s   34 (129)
T 3f6n_A            4 LNQIQKEVSEILSDQKSMKADIKAILELLGS   34 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            3444455555555555555555555444433

>3trt_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural protein; 2.30A {Homo sapiens} PDB: 3klt_A*

Probab=93.42  E-value=0.6  Score=31.13  Aligned_cols=39  Identities=10%  Similarity=0.210  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603          21 VSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus        21 ~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      .+|+.-+..--.++...|+++++|+.-|..|..++..+|
T Consensus        38 eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~slk   76 (77)
T 3trt_A           38 ADLSEAANRNNDALRQAKQESTEYRRQVQSLTMEVDALK   76 (77)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            344444444445566666666666666666666666665

>1aa0_A Fibritin, gpwac E; bacteriophage T4, structural protein, bacteriophag assembly, attachment protein; 2.20A {Enterobacteria phage T4} SCOP: h.1.17.1

Probab=93.41  E-value=0.15  Score=38.10  Aligned_cols=32  Identities=13%  Similarity=0.443  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603          28 ASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus        28 ~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      ..+.++|..++..|.++|.++++|..+|+.|+
T Consensus        53 k~~et~i~~~t~~v~t~k~~i~~~e~~vqalq   84 (113)
T 1aa0_A           53 KANETNIASVTQEVNTAKGNISSLQGDVQALQ   84 (113)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccccchhhhheeecccccchhhhhhhhHHHH
Confidence            34556666666666666666666666666665

>2wt7_A Proto-oncogene protein C-FOS; transcription, transcription regulation, nucleus, activator, repressor, DNA-binding, phosphoprotein, differentiation; 2.30A {Mus musculus} PDB: 1fos_E* 1a02_F* 1s9k_D

Probab=93.35  E-value=0.31  Score=32.05  Aligned_cols=32  Identities=0%  Similarity=0.340  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          14 ASIKEDMVSIKEDMASIKVDMGSIKEDMGSIK   45 (150)
Q Consensus        14 ~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK   45 (150)
                      .+|.+.+..|+.+-..|+..|..|++.+..||
T Consensus        26 ~~Le~~v~~L~~~n~~L~~ei~~L~~e~~~Lk   57 (63)
T 2wt7_A           26 DTLQAETDQLEDEKSALQTEIANLLKEKEKLE   57 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333344444444444444444444444443

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=93.29  E-value=0.2  Score=45.97  Aligned_cols=19  Identities=21%  Similarity=0.387  Sum_probs=7.3

Q ss_pred             HHHHHHHHHHHHHHhhhhc
Q psy9603          44 IKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus        44 LK~DV~~LK~Dvs~lK~Di   62 (150)
                      |+.-|..+..+|+.|..||
T Consensus       136 LQsnLedq~~kIQRLEvDI  154 (562)
T 3ghg_A          136 LQKNVRAQLVDMKRLEVDI  154 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333333444444333

>1gd2_E Transcription factor PAP1; basic leucine zipper, protein-DNA complex, transcription/DNA complex; HET: DNA; 2.00A {Schizosaccharomyces pombe} SCOP: h.1.3.1

Probab=93.29  E-value=0.21  Score=34.23  Aligned_cols=34  Identities=12%  Similarity=0.260  Sum_probs=14.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKE   39 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~   39 (150)
                      |+.|...|..|......|..+...|+..|..|..
T Consensus        31 i~~LE~~v~~le~~~~~l~~en~~Lr~~i~~L~~   64 (70)
T 1gd2_E           31 LKALETQVVTLKELHSSTTLENDQLRQKVRQLEE   64 (70)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444433333333333333333

>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1

Probab=93.26  E-value=0.19  Score=35.31  Aligned_cols=27  Identities=15%  Similarity=0.320  Sum_probs=10.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIK   31 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK   31 (150)
                      .+..+++.+.+++..+..|+++...++
T Consensus         4 ~~~~~~~~~~~~~~~l~~L~~~~~~l~   30 (112)
T 1l8d_A            4 LLEELETKKTTIEEERNEITQRIGELK   30 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444433333333333

>3he5_B Synzip2; heterodimeric coiled-coil, de novo protein; 1.75A {Artificial gene}

Probab=93.14  E-value=0.34  Score=31.30  Aligned_cols=16  Identities=6%  Similarity=0.522  Sum_probs=6.0

Q ss_pred             HHHHHHHHHHHHHHHH
Q psy9603          40 DMGSIKDDMGSIKEDM   55 (150)
Q Consensus        40 DV~~LK~DV~~LK~Dv   55 (150)
                      =|+.|+.+++.|..+|
T Consensus        32 iianlrdeiarlenev   47 (52)
T 3he5_B           32 IIANLRDEIARLENEV   47 (52)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333333333333333

>2yy0_A C-MYC-binding protein; conserved hypothetical protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.40A {Homo sapiens}

Probab=93.04  E-value=0.19  Score=32.58  Aligned_cols=29  Identities=14%  Similarity=0.421  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          25 EDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus        25 ~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      +||..||.+++.||..+.+|++-+..|+.
T Consensus        19 ~d~eaLk~E~~eLk~k~~~L~~~~~el~~   47 (53)
T 2yy0_A           19 PEIELLRLELAEMKEKYEAIVEENKKLKA   47 (53)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444443

>3he5_B Synzip2; heterodimeric coiled-coil, de novo protein; 1.75A {Artificial gene}

Probab=93.04  E-value=0.38  Score=31.09  Aligned_cols=40  Identities=10%  Similarity=0.465  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          10 KEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMG   49 (150)
Q Consensus        10 k~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~   49 (150)
                      ...|+.||.|--+|..|-..|..=|+.|+.+|+.|..+|+
T Consensus         9 rkkiarlkkdnlqlerdeqnlekiianlrdeiarleneva   48 (52)
T 3he5_B            9 RKKIARLKKDNLQLERDEQNLEKIIANLRDEIARLENEVA   48 (52)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHh
Confidence            3444444444444444444444444444444444444443

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae}

Probab=93.00  E-value=0.63  Score=36.34  Aligned_cols=56  Identities=11%  Similarity=0.233  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      -|+.|+.+++.+++.|..+++++.+-...+..|+.++..|.-....+.+.+..++.
T Consensus        69 ~I~~L~~El~~l~~ki~dLeeel~eK~K~~e~l~DEl~aLqlq~n~lE~kl~kLq~  124 (152)
T 3a7p_A           69 TLAILQKELKSKEQEIRRLKEVIALKNKNTERLNAALISGTIENNVLQQKLSDLKK  124 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35555556666666666666555555555666666666666555555555555543

>1jnm_A Proto-oncogene C-JUN; BZIP, protein-DNA complex, transcription/DNA complex; 2.20A {Homo sapiens} SCOP: h.1.3.1 PDB: 1fos_F 2h7h_A 1t2k_C 1a02_J* 1s9k_E 1jun_A

Probab=93.00  E-value=0.17  Score=33.14  Aligned_cols=33  Identities=15%  Similarity=0.387  Sum_probs=13.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          13 MASIKEDMVSIKEDMASIKVDMGSIKEDMGSIK   45 (150)
Q Consensus        13 v~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK   45 (150)
                      +.+|...+..|.++-..|+..|+.|++.+..||
T Consensus        24 ~~~Le~~v~~L~~~n~~L~~~v~~L~~e~~~Lk   56 (62)
T 1jnm_A           24 IARLEEKVKTLKAQNSELASTANMLREQVAQLK   56 (62)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444444444444444444444433

>3c9i_A Tail needle protein GP26; xenon, coiled-coil, protein fiber, coiled coil, late protein, viral protein; 1.95A {Bacteriophage P22} PDB: 2poh_A

Probab=92.95  E-value=0.69  Score=38.28  Aligned_cols=55  Identities=4%  Similarity=0.257  Sum_probs=38.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q psy9603          11 EDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGY   65 (150)
Q Consensus        11 ~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGy   65 (150)
                      +.|..-...++.++.-|.+...||..|+.+|+.|-..|....++|+.|..|-.-.
T Consensus        98 ~RIt~~~~~ia~~e~Rit~~e~~i~~l~~~v~~ld~~vt~~et~Isal~~DyVS~  152 (242)
T 3c9i_A           98 SRITANTKAITALNVRVTTAEGEIASLQTNVSALDGRVTTAENNISALQADYVSK  152 (242)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHBCBS
T ss_pred             HHhhhhhhhhhhhhheeecccccchhhhhhhhhhcccccccccchhhhhhhhhhh
Confidence            3344444555666666667777777888888888888888888888888886533

>3a7o_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.50A {Saccharomyces cerevisiae}

Probab=92.85  E-value=0.61  Score=32.63  Aligned_cols=57  Identities=11%  Similarity=0.267  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      .-+..|++++.+-..+|..||+-+.-=-.|...|-.++-+|.=+-..|.+.++.+|+
T Consensus        18 ~~l~~Lr~eL~~Ke~eI~~L~e~i~lk~kd~ErLNDEiislNIENNlL~~rl~~l~~   74 (75)
T 3a7o_A           18 NTLAILQKELKSKEQEIRRLKEVIALKNKNTERLNDELISGTIENNVLQQKLSDLKK   74 (75)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHhhHHHHHhHHHHHHHHHHHHHHhc
Confidence            345566666666666666666666555566677777766666666777777766664

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=92.85  E-value=0.71  Score=34.38  Aligned_cols=34  Identities=15%  Similarity=0.291  Sum_probs=13.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKE   39 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~   39 (150)
                      |+.|+..|....+-+.....||.+||+.+..+++
T Consensus        26 i~~L~~~L~~AEeaL~~Kq~~idelk~ei~q~~~   59 (110)
T 2v4h_A           26 LEDLRQQLQQAEEALVAKQELIDKLKEEAEQHKI   59 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444333333344444433333333

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=92.70  E-value=0.86  Score=32.48  Aligned_cols=47  Identities=21%  Similarity=0.311  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIK   52 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK   52 (150)
                      |..||..|..||.|.......+..++.++..+...-..+-++|.+|.
T Consensus         4 MdaIKkKm~~lk~e~e~a~drae~~e~~~k~~e~~~~~~E~Ei~sL~   50 (101)
T 3u1c_A            4 MDAIKKKMQMLKLDKENALDRAEQAEADKKAAEERSKQLEDDIVQLE   50 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            34444444444444444433333333333333333333333333333

>3iv1_A Tumor susceptibility gene 101 protein; coiled_COIL, tumorigenesis, CELL_cycle regulation, alternative splicing, cell cycle, cell division; HET: MSE; 2.50A {Homo sapiens}

Probab=92.69  E-value=1.4  Score=30.95  Aligned_cols=60  Identities=10%  Similarity=0.308  Sum_probs=44.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      +++-|..-+.+|.+|+.==.+|++==..|+.=|+.|+.+.++|.+.|..||..-++|.+-
T Consensus        16 l~E~~~q~qaEl~sLrrT~~EL~~G~~KL~~mi~~l~~E~~~l~~ni~~lk~K~~EL~~~   75 (78)
T 3iv1_A           16 MKEEMDRAQAELNALKRTEEDLKKGHQKLEEMVTRLDQEVAEVDKNIELLKKKDEELSSA   75 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566666677777766666766667777778888888888888888888887777653

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=92.50  E-value=1.1  Score=32.90  Aligned_cols=19  Identities=0%  Similarity=0.359  Sum_probs=7.1

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSI   23 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~L   23 (150)
                      +|.+++..|..|..++..+
T Consensus        37 Ei~elrr~iq~L~~el~~l   55 (129)
T 3tnu_B           37 EISEMNRMIQRLRAEIDNV   55 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333

>2yy0_A C-MYC-binding protein; conserved hypothetical protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.40A {Homo sapiens}

Probab=92.49  E-value=0.2  Score=32.49  Aligned_cols=29  Identities=14%  Similarity=0.352  Sum_probs=13.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603          32 VDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus        32 ~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      .||..||.++++||+-+..|+..++++++
T Consensus        19 ~d~eaLk~E~~eLk~k~~~L~~~~~el~~   47 (53)
T 2yy0_A           19 PEIELLRLELAEMKEKYEAIVEENKKLKA   47 (53)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444

>3lss_A Seryl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase, AARS, serrs, translation, ATP-binding, nucleotide-binding, structural genomics; HET: ATP; 1.95A {Trypanosoma brucei} PDB: 3lsq_A*

Probab=92.45  E-value=0.47  Score=42.47  Aligned_cols=25  Identities=4%  Similarity=0.299  Sum_probs=11.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603          34 MGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus        34 V~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      +..||+++.+|++.+..+.+.+..+
T Consensus       113 ~~~l~~~i~~le~~~~~~~~~~~~~  137 (484)
T 3lss_A          113 SKDLSDQVAGLAKEAQQLEEERDKL  137 (484)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444433

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=92.44  E-value=0.61  Score=39.62  Aligned_cols=49  Identities=14%  Similarity=0.067  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603          10 KEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus        10 k~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      ++-.+++..+...+++|+..+++++..||+.-+.+|..+..+...+++.
T Consensus       420 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  468 (487)
T 3oja_A          420 EEMYVEQQSVQNNAIRDWDMYQHKETQLAEENARLKKLNGEADLALASA  468 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcchhhhhhhhhHHHHHHHHhhhhhhhhhhhhhhhHhc
Confidence            3334444444444555555555555555555555555555544444443

>1lwu_C Fibrinogen gamma chain; heterotrimer, protein-peptide complex, blood clotting; HET: NDG MAN NAG BMA GAL; 2.80A {Petromyzon marinus} SCOP: d.171.1.1 h.1.8.1 PDB: 1n73_C*

Probab=92.42  E-value=0.35  Score=41.33  Aligned_cols=52  Identities=10%  Similarity=0.155  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603          11 EDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus        11 ~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      .+++.|.+++..|...|....+-|..|++.+.++++.|..|+..|..|++..
T Consensus         5 ~~~~~~~~~~~~~e~~i~~~~~~i~~L~~~l~~~~~~i~~l~~~i~~l~~~~   56 (323)
T 1lwu_C            5 KTVQKILEEVRILEQIGVSHDAQIQELSEMWRVNQQFVTRLQQQLVDIRQTC   56 (323)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555666666666666566666666666666666666666665555543

>1aa0_A Fibritin, gpwac E; bacteriophage T4, structural protein, bacteriophag assembly, attachment protein; 2.20A {Enterobacteria phage T4} SCOP: h.1.17.1

Probab=92.41  E-value=0.32  Score=36.32  Aligned_cols=32  Identities=13%  Similarity=0.412  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC
Q psy9603          33 DMGSIKEDMGSIKDDMGSIKEDMASIKEDIGG   64 (150)
Q Consensus        33 DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigG   64 (150)
                      -|..+-++|+.+.+.|..+|.+++++..+|..
T Consensus        51 sVk~~et~i~~~t~~v~t~k~~i~~~e~~vqa   82 (113)
T 1aa0_A           51 SIKANETNIASVTQEVNTAKGNISSLQGDVQA   82 (113)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhccccchhhhheeecccccchhhhhhhhHH
Confidence            34444444444455555555555555444443

>1ses_A Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A {Thermus thermophilus} SCOP: a.2.7.1 d.104.1.1 PDB: 1ser_A* 1set_A* 1sry_A

Probab=92.41  E-value=0.26  Score=42.79  Aligned_cols=59  Identities=5%  Similarity=0.187  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC
Q psy9603           6 MGSIKEDMASIKEDMVSIK--------EDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGG   64 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK--------~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigG   64 (150)
                      -+.++.++.+|+...+.+.        +|..+|+..+..||+++.+|++.+..+++++..+=.-|+=
T Consensus        37 ~r~~~~~~~~l~~~~n~~sk~i~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ipN  103 (421)
T 1ses_A           37 VQELKKRLQEVQTERNQVAKRVPKAPPEEKEALIARGKALGEEAKRLEEALREKEARLEALLLQVPL  103 (421)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence            3444555555555555544        4445566666666666666666666666666555444433

>2dq3_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, nationa on protein structural and functional analyses; HET: SSA; 3.00A {Aquifex aeolicus}

Probab=92.40  E-value=0.098  Score=45.46  Aligned_cols=58  Identities=10%  Similarity=0.312  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMAS----------IKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIG   63 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~----------LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Dig   63 (150)
                      -+.++.++.+|+...+.+...|..          |+..+..||+++.+|++.+..+.+++..+=.-|+
T Consensus        39 ~r~~~~~~~~l~~~~n~~sk~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ip  106 (425)
T 2dq3_A           39 RREIIKRLEALRSERNKLSKEIGKLKREGKDTTEIQNRVKELKEEIDRLEEELRKVEEELKNTLLWIP  106 (425)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTGGGSSCSCTTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            345555666666666666655554          3444555555555555555555555554444443

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=92.37  E-value=1  Score=31.85  Aligned_cols=51  Identities=14%  Similarity=0.268  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMA   56 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs   56 (150)
                      |..||..|..||.+......-+..+..++..+...-..+-++|.+|+..+.
T Consensus         4 md~iKkKm~~lk~e~e~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq   54 (101)
T 3u59_A            4 MEAIKKKMQMLKLDKENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLK   54 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            444555555555544444444444444444444333333333333333333

>3jsv_C NF-kappa-B essential modulator; ubiquitin, coiled-coil, cellular signaling, cytoplasm, isopeptide bond, nucleus, phosphoprotein, UBL conjugation; 2.70A {Mus musculus} PDB: 3f89_A 2zvo_B 2zvn_B

Probab=92.13  E-value=0.99  Score=32.76  Aligned_cols=19  Identities=5%  Similarity=0.357  Sum_probs=6.8

Q ss_pred             HHHHHHHHHHHHHHHHhhh
Q psy9603          42 GSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus        42 ~~LK~DV~~LK~Dvs~lK~   60 (150)
                      .+|.+++..|+..++.|++
T Consensus        71 e~L~~ql~~lq~q~~~L~~   89 (94)
T 3jsv_C           71 EYLQEQLEQLQREFNKLKV   89 (94)
T ss_dssp             SHHHHHHHHHHHTTC----
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444443

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}

Probab=92.13  E-value=1.4  Score=32.68  Aligned_cols=49  Identities=10%  Similarity=0.213  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKED----MASIKVDMGSIKEDMGSIKDDMGSI   51 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~D----V~~LK~DV~~LK~DV~~LK~DV~~L   51 (150)
                      +.....|+.++.++|+-....+++    ++.|..+++.|+..-.+|+..+..|
T Consensus         9 ~~~~~~L~~E~e~~k~K~~~~~~e~~~~~~~Lq~El~~lr~~~~~l~~~iReL   61 (111)
T 2v66_B            9 QADNQRLKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQLHKYVREL   61 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555554443    4445555555555555555555444

>1go4_E MAD1 (mitotic arrest deficient)-like 1; mitotic spindle checkpoint, cell cycle, mitosis, nuclear Pro; 2.05A {Homo sapiens} SCOP: h.1.22.1

Probab=92.12  E-value=0.85  Score=33.29  Aligned_cols=30  Identities=7%  Similarity=0.323  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKV   32 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~   32 (150)
                      .+.+..|+.+|++|..+...|++.+..|..
T Consensus        11 ~e~~~~lr~ei~~Le~E~~rLr~~~~~LE~   40 (100)
T 1go4_E           11 REEADTLRLKVEELEGERSRLEEEKRMLEA   40 (100)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456778888888888888888888876653

>1ses_A Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A {Thermus thermophilus} SCOP: a.2.7.1 d.104.1.1 PDB: 1ser_A* 1set_A* 1sry_A

Probab=91.94  E-value=0.35  Score=42.02  Aligned_cols=59  Identities=3%  Similarity=0.205  Sum_probs=40.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIK--------VDMGSIKEDMGSIKDDMGSIKEDMASIKEDIG   63 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK--------~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Dig   63 (150)
                      .|-.|-++-..++..+..|+..-.++.        +|.+.|++.+.+||+++..|++.+..+.+.+-
T Consensus        29 ~~~~~~~~~r~~~~~~~~l~~~~n~~sk~i~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (421)
T 1ses_A           29 ALLALDREVQELKKRLQEVQTERNQVAKRVPKAPPEEKEALIARGKALGEEAKRLEEALREKEARLE   95 (421)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555666677777777777776554        45567777777777777777777777777664

>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A

Probab=91.90  E-value=1.1  Score=33.27  Aligned_cols=17  Identities=12%  Similarity=0.429  Sum_probs=6.6

Q ss_pred             HHHHHHHHHHHHHHHHH
Q psy9603          15 SIKEDMVSIKEDMASIK   31 (150)
Q Consensus        15 ~LK~Dv~~LK~DV~~LK   31 (150)
                      .|+.+|..||..+..||
T Consensus        19 ~Lkreie~lk~ele~l~   35 (120)
T 3i00_A           19 RLYREISGLKAQLENMK   35 (120)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33334444443333333

>3trt_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural protein; 2.30A {Homo sapiens} PDB: 3klt_A*

Probab=91.90  E-value=0.62  Score=31.08  Aligned_cols=33  Identities=6%  Similarity=0.177  Sum_probs=13.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603          29 SIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus        29 ~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      +|++-+..=-+++...|++++.|+..|+.|..+
T Consensus        39 el~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~e   71 (77)
T 3trt_A           39 DLSEAANRNNDALRQAKQESTEYRRQVQSLTME   71 (77)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333344444444444444444444433

>3c9i_A Tail needle protein GP26; xenon, coiled-coil, protein fiber, coiled coil, late protein, viral protein; 1.95A {Bacteriophage P22} PDB: 2poh_A

Probab=91.67  E-value=0.91  Score=37.58  Aligned_cols=51  Identities=6%  Similarity=0.330  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMA   56 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs   56 (150)
                      |..-.+.|+.++.-|.....||..|+.+|..|-.+|+.+.+.|+.|+.|--
T Consensus       100 It~~~~~ia~~e~Rit~~e~~i~~l~~~v~~ld~~vt~~et~Isal~~DyV  150 (242)
T 3c9i_A          100 ITANTKAITALNVRVTTAEGEIASLQTNVSALDGRVTTAENNISALQADYV  150 (242)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHBC
T ss_pred             hhhhhhhhhhhhheeecccccchhhhhhhhhhcccccccccchhhhhhhhh
Confidence            344455666666666666666666666666666666666666666666643

>1gd2_E Transcription factor PAP1; basic leucine zipper, protein-DNA complex, transcription/DNA complex; HET: DNA; 2.00A {Schizosaccharomyces pombe} SCOP: h.1.3.1

Probab=91.56  E-value=0.35  Score=33.06  Aligned_cols=41  Identities=10%  Similarity=0.394  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          11 EDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSI   51 (150)
Q Consensus        11 ~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~L   51 (150)
                      .-|.+|.+-|..|......|..++..|+.+|..|...+..+
T Consensus        29 ~~i~~LE~~v~~le~~~~~l~~en~~Lr~~i~~L~~El~~l   69 (70)
T 1gd2_E           29 DHLKALETQVVTLKELHSSTTLENDQLRQKVRQLEEELRIL   69 (70)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            34566666666666555555555555555555555544433

>3lss_A Seryl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase, AARS, serrs, translation, ATP-binding, nucleotide-binding, structural genomics; HET: ATP; 1.95A {Trypanosoma brucei} PDB: 3lsq_A*

Probab=91.44  E-value=0.82  Score=40.91  Aligned_cols=58  Identities=7%  Similarity=0.107  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------------HHHHH----HHH-HHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKV---------------------------DMGSI----KED-MGSIKDDMGSIKE   53 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~---------------------------DV~~L----K~D-V~~LK~DV~~LK~   53 (150)
                      -+.++.++.+|+...+.+...|..+|.                           |.+.|    ++. +.+||+++..|++
T Consensus        46 ~r~~~~~~~~l~~~rN~~sk~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~~~i~~le~  125 (484)
T 3lss_A           46 WRRTQFLTEASKKLINICSKAVGAKKKAKEADGDTSEIPPQVKEAYENGTLKGEQVEQLCVLQLKQLSKDLSDQVAGLAK  125 (484)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTTCC----------------------------CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccccccccchhhHHHhhHHHHHHHHHHHHHHHHHHHH
Confidence            345566666666666666666666544                           56667    777 8888888888888


Q ss_pred             HHHHhhhhcC
Q psy9603          54 DMASIKEDIG   63 (150)
Q Consensus        54 Dvs~lK~Dig   63 (150)
                      .+..+.+.+-
T Consensus       126 ~~~~~~~~~~  135 (484)
T 3lss_A          126 EAQQLEEERD  135 (484)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8888777763

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=91.38  E-value=1  Score=33.09  Aligned_cols=13  Identities=15%  Similarity=0.593  Sum_probs=5.0

Q ss_pred             HHHHHHHHHHHHH
Q psy9603          43 SIKDDMGSIKEDM   55 (150)
Q Consensus        43 ~LK~DV~~LK~Dv   55 (150)
                      .|...+..+|.||
T Consensus        88 ~lE~eL~~~r~em  100 (131)
T 3tnu_A           88 SVEEQLAQLRCEM  100 (131)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=91.26  E-value=1.1  Score=33.29  Aligned_cols=15  Identities=7%  Similarity=0.348  Sum_probs=6.8

Q ss_pred             HHHHHHHHHHHHhhh
Q psy9603          46 DDMGSIKEDMASIKE   60 (150)
Q Consensus        46 ~DV~~LK~Dvs~lK~   60 (150)
                      ++...|+.+++.|+.
T Consensus        90 ~eKe~L~~ql~~Lq~  104 (110)
T 2v4h_A           90 EKKEYLQEQLEQLQR  104 (110)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHH
Confidence            333444444444443

>4dnd_A Syntaxin-10, SYN10; structural genomics, protein structure initiative, nysgrc, P biology, NEW YORK structural genomics research consortium; HET: MSE; 1.40A {Homo sapiens} PDB: 1lvf_A

Probab=91.05  E-value=0.78  Score=34.31  Aligned_cols=22  Identities=14%  Similarity=0.265  Sum_probs=13.3

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhc
Q psy9603          41 MGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus        41 V~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      ++.-|+=|+.++..|..+|+.+
T Consensus       107 i~~Rr~fV~~~r~~I~~mk~~l  128 (130)
T 4dnd_A          107 LQERKVFVERMREAVQEMKDHM  128 (130)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHh
Confidence            4444555666666666666654

>4emc_A Monopolin complex subunit CSM1; RWD domain, kinetochore-binding, kinetoch replication-replication complex; 3.05A {Saccharomyces cerevisiae} PDB: 3n7n_A 3n4x_A

Probab=90.84  E-value=0.72  Score=37.21  Aligned_cols=35  Identities=6%  Similarity=0.232  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMG   42 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~   42 (150)
                      .|..++..|.+.+....+.|..||+-++.+|+++.
T Consensus        24 ~L~~En~~L~~ql~~k~~ei~~L~~ql~sl~~~~~   58 (190)
T 4emc_A           24 NLVNENFVLSEKLDTKATEIKQLQKQIDSLNAQVK   58 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            34444444444444433444444444444444443

>2dq3_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, nationa on protein structural and functional analyses; HET: SSA; 3.00A {Aquifex aeolicus}

Probab=90.63  E-value=0.15  Score=44.25  Aligned_cols=58  Identities=9%  Similarity=0.402  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSI----------KEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~L----------K~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      .|-.|-++-.+++..+.+|+..-.++...|..+          ++.+.+||+++..|++.+..+.+.+
T Consensus        31 ~~~~~~~~~r~~~~~~~~l~~~~n~~sk~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   98 (425)
T 2dq3_A           31 KVLELDKRRREIIKRLEALRSERNKLSKEIGKLKREGKDTTEIQNRVKELKEEIDRLEEELRKVEEEL   98 (425)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTGGGSSCSCTTTSTTHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555566667777777777777776666644          3344445555555555555554444

>3mq7_A Bone marrow stromal antigen 2; HIV, antiviral protein; 2.28A {Homo sapiens} PDB: 3mqc_A 3mqb_A 3mkx_A 3nwh_A 2xg7_A* 2x7a_A

Probab=90.53  E-value=1.2  Score=33.67  Aligned_cols=39  Identities=3%  Similarity=0.221  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q psy9603          27 MASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGY   65 (150)
Q Consensus        27 V~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGy   65 (150)
                      |.+|+.+|..|+..+.....+|..|+.+...++.+|.--
T Consensus        73 vqeLqgEI~~Lnq~Lq~a~ae~erlr~~~~~~~~r~~~~  111 (121)
T 3mq7_A           73 VEELEGEITTLNHKLQDASAEVERLRRENQVLSVRIADK  111 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhhHhhhc
Confidence            666777777777777777777777777777777666543

>2wt7_B Transcription factor MAFB; transcription, transcription regulation, nucleus, activator, repressor, DNA-binding, phosphoprotein, differentiation; 2.30A {Mus musculus} PDB: 2wty_A* 1k1v_A

Probab=90.44  E-value=0.73  Score=33.03  Aligned_cols=32  Identities=6%  Similarity=0.240  Sum_probs=14.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603          29 SIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus        29 ~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      +|..++..|..++..|+++.+.++.++..+|+
T Consensus        52 ~LE~e~~~L~~e~~~L~~e~~~~~~e~d~~k~   83 (90)
T 2wt7_B           52 HLENEKTQLIQQVEQLKQEVSRLARERDAYKV   83 (90)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444443

>1fxk_A Prefoldin; archaeal protein, chaperone; 2.30A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: a.2.5.1 PDB: 1fxk_B

Probab=90.43  E-value=2.7  Score=28.86  Aligned_cols=34  Identities=6%  Similarity=0.232  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603          29 SIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus        29 ~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      .|+..+..|+..|..|...+..+.+.+.++|..+
T Consensus        69 ~L~~~~e~i~~~i~~le~~~~~~~~~l~~lk~~l  102 (107)
T 1fxk_A           69 ELQEKLETLQLREKTIERQEERVMKKLQEMQVNI  102 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666666666666666666666666666543

>4dnd_A Syntaxin-10, SYN10; structural genomics, protein structure initiative, nysgrc, P biology, NEW YORK structural genomics research consortium; HET: MSE; 1.40A {Homo sapiens} PDB: 1lvf_A

Probab=90.38  E-value=1.6  Score=32.62  Aligned_cols=22  Identities=14%  Similarity=0.282  Sum_probs=9.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q psy9603          34 MGSIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus        34 V~~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      |+.=|.=|++++..|..||+.|
T Consensus       107 i~~Rr~fV~~~r~~I~~mk~~l  128 (130)
T 4dnd_A          107 LQERKVFVERMREAVQEMKDHM  128 (130)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHh
Confidence            3333444444444444444443

>3hhm_B NISH2 P85alpha; PI3KCA, PI3K, PIK3R1, phosphatidilynositol 3,4,5- triphosphate, wortmannin, H1047R, ATP-binding, disease mutation, kinase; HET: KWT; 2.80A {Homo sapiens} PDB: 3hiz_B 2rd0_B 4a55_B* 3mtt_A

Probab=90.29  E-value=1.4  Score=37.92  Aligned_cols=54  Identities=19%  Similarity=0.341  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      +..|.+.-..||+-|.+|++-...|.+|+..-+.|.-+|..+|+.||-|+-.|+
T Consensus       200 ~~~~~~n~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~lkp~l~ql~  253 (373)
T 3hhm_B          200 IQRIMHNYDKLKSRISEIIDSRRRLEEDLKKQAAEYREIDKRMNSIKPDLIQLR  253 (373)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccChHHHHHH
Confidence            344444445555555555554455555555544444444444444444444443

>2c5k_T Syntaxin TLG1, T-snare affecting A late golgi compartment protein 1; protein transport/complex, snare, VFT complex, protein transport, phosphorylation; 2.05A {Saccharomyces cerevisiae} PDB: 2c5j_A 2c5i_T

Probab=90.18  E-value=0.48  Score=33.75  Aligned_cols=20  Identities=15%  Similarity=0.318  Sum_probs=8.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q psy9603          36 SIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus        36 ~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      .=|.=|++|+..+..||.++
T Consensus        72 ~Rk~~v~~l~~~i~~lk~~~   91 (95)
T 2c5k_T           72 GREAQVKNIKQQLDALKLRF   91 (95)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444433

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=90.14  E-value=0.49  Score=34.71  Aligned_cols=33  Identities=9%  Similarity=0.390  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSI   37 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~L   37 (150)
                      ++...|++|.+++.-|..|..++..||.=.+.|
T Consensus        30 ~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~~L   62 (129)
T 3tnu_B           30 DLRNTKHEISEMNRMIQRLRAEIDNVKKQCANL   62 (129)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence            344445555555555555555555554433333

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=89.93  E-value=2.2  Score=33.73  Aligned_cols=49  Identities=10%  Similarity=0.367  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKED   54 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~D   54 (150)
                      +.+|+..|..|.+|+..+|+=.+.+..|...|-+.|+.|...-++|..|
T Consensus        92 ~~elq~ri~~L~~El~~~k~~~~k~~~e~r~L~Ekl~~lEKe~a~~eid  140 (168)
T 3o0z_A           92 IGDLQARITSLQEEVKHLKHNLEKVEGERKEAQDMLNHSEKEKNNLEID  140 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            3444445555555555555555555555555555555555544444444

>2zqm_A Prefoldin beta subunit 1; chaperone; HET: CIT; 1.90A {Thermococcus SP} PDB: 2zdi_A

Probab=89.78  E-value=3.1  Score=28.89  Aligned_cols=34  Identities=9%  Similarity=0.333  Sum_probs=20.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603          29 SIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus        29 ~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      .|+..+..|...+..|...+..+.+.+.++|..+
T Consensus        74 ~L~~~~e~ie~~i~~le~~~~~l~~~l~~lk~~l  107 (117)
T 2zqm_A           74 ELKEKIETLEVRLNALERQEKKLNEKLKELTAQI  107 (117)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555566666666666666666666666554

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=89.77  E-value=3.2  Score=30.44  Aligned_cols=13  Identities=31%  Similarity=0.723  Sum_probs=5.2

Q ss_pred             HHHHHHHHHhhhh
Q psy9603          49 GSIKEDMASIKED   61 (150)
Q Consensus        49 ~~LK~Dvs~lK~D   61 (150)
                      ..|...++.+|.|
T Consensus        87 ~~lE~eL~~~r~e   99 (131)
T 3tnu_A           87 GSVEEQLAQLRCE   99 (131)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            3334444444433

>1ez3_A Syntaxin-1A; three helix bundle, endocytosis/exocytosis complex; 1.90A {Rattus norvegicus} SCOP: a.47.2.1 PDB: 1br0_A 3lg7_A*

Probab=89.61  E-value=4  Score=28.65  Aligned_cols=23  Identities=22%  Similarity=0.374  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKED   26 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~D   26 (150)
                      .+++.|+.+|..|+++|..|+.-
T Consensus        12 ~~v~~I~~~i~~i~~~v~~l~~~   34 (127)
T 1ez3_A           12 EQVEEIRGFIDKIAENVEEVKRK   34 (127)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666777777777766666543

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=89.54  E-value=2.1  Score=36.26  Aligned_cols=52  Identities=8%  Similarity=0.044  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           7 GSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      .+++.+...+++|+..+++++..||++-+.+|..+.++...+...+....++
T Consensus       424 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  475 (487)
T 3oja_A          424 VEQQSVQNNAIRDWDMYQHKETQLAEENARLKKLNGEADLALASANATLQEL  475 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcchhhhhhhhhHHHHHHHHhhhhhhhhhhhhhhhHhcccHHHHH
Confidence            3444455555566666666666666666666666666666665555544444

>2xdj_A Uncharacterized protein YBGF; unknown function; 1.82A {Escherichia coli} PDB: 2wz7_A

Probab=89.44  E-value=3.6  Score=28.71  Aligned_cols=47  Identities=11%  Similarity=0.229  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603          16 IKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus        16 LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      ...-+..|-.-+..|+.||..|+-.|.++--++..|++...++=.|+
T Consensus        18 ~~q~~~~Lq~Ql~~Lq~Ev~~LRGqiE~~~~~l~ql~~rQrd~Y~dL   64 (83)
T 2xdj_A           18 HSQLLTQLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQKQILLQI   64 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hchHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445566666667777777777777777777777766666555544

>4emc_A Monopolin complex subunit CSM1; RWD domain, kinetochore-binding, kinetoch replication-replication complex; 3.05A {Saccharomyces cerevisiae} PDB: 3n7n_A 3n4x_A

Probab=89.30  E-value=2.3  Score=34.24  Aligned_cols=41  Identities=10%  Similarity=0.306  Sum_probs=23.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          12 DMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIK   52 (150)
Q Consensus        12 dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK   52 (150)
                      -|+.|..++..|.+.+....+.|..||+.++.||+++...+
T Consensus        21 LV~~L~~En~~L~~ql~~k~~ei~~L~~ql~sl~~~~~~~~   61 (190)
T 4emc_A           21 LVANLVNENFVLSEKLDTKATEIKQLQKQIDSLNAQVKELK   61 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Confidence            35555555555555555555555555555555555554443

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=89.21  E-value=1.2  Score=40.98  Aligned_cols=41  Identities=10%  Similarity=0.225  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          15 SIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus        15 ~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      +|+.-|..||..|.+..+-|..|+.-|.++..+|.-|..||
T Consensus       114 ELRRrIqyLKekVdnQlsnIrvLQsnLedq~~kIQRLEvDI  154 (562)
T 3ghg_A          114 DLRSRIEVLKRKVIEKVQHIQLLQKNVRAQLVDMKRLEVDI  154 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444433444444444444444444444443

>3ghg_C Fibrinogen gamma chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 1deq_C

Probab=89.20  E-value=2.4  Score=37.49  Aligned_cols=19  Identities=11%  Similarity=0.417  Sum_probs=12.8

Q ss_pred             hHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDM   20 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv   20 (150)
                      |+.||.+|+..|.+|.+--
T Consensus        36 V~~~l~~L~~~l~~isn~T   54 (411)
T 3ghg_C           36 VDKDLQSLEDILHQVENKT   54 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHhhh
Confidence            5677777777777774443

>3m9b_A Proteasome-associated ATPase; coil COIL with 5 beta-strand barrel inter domain, chaperone; 3.94A {Mycobacterium tuberculosis} PDB: 3m9d_A

Probab=89.03  E-value=0.51  Score=39.42  Aligned_cols=48  Identities=15%  Similarity=0.407  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCC
Q psy9603          19 DMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYG   66 (150)
Q Consensus        19 Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg   66 (150)
                      ++.+|+..+..|..-...|++...++++.+..||+++..|++-...||
T Consensus        55 ~l~eL~~ql~~L~arNe~L~~~Lk~ar~El~~LkeElerL~sPPL~iG  102 (251)
T 3m9b_A           55 DIHQLEARIDSLAARNSKLMETLKEARQQLLALREEVDRLGQPPSGYG  102 (251)
T ss_dssp             HHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHSCCEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceEE
Confidence            355666666666666666777777777777777777777776554444

>3u06_A Protein claret segregational; motor domain, stalk rotation, power stroke, kinesin-14, MICR binding, NCD, transport, molecular motor; HET: ADP GOL; 2.35A {Drosophila melanogaster} PDB: 2ncd_A* 1n6m_A* 1cz7_A* 3l1c_A*

Probab=88.92  E-value=1.3  Score=38.44  Aligned_cols=62  Identities=5%  Similarity=0.154  Sum_probs=50.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCC
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYG   66 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg   66 (150)
                      ....|++++.+|++.+.+|++.+.+++.++..+++.+.+....-..|-..+.++|.-|..|=
T Consensus         4 ~~~~l~~el~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~rr~l~n~~~~l~gnIrV~v   65 (412)
T 3u06_A            4 MHAALSTEVVHLRQRTEELLRCNEQQAAELETCKEQLFQSNMERKELHNTVMDLRDNIRVFC   65 (412)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSEEEEE
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCEEEEE
Confidence            34678888888888888888888888888888888877666666788889999998887774

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae}

Probab=88.83  E-value=3.4  Score=32.19  Aligned_cols=50  Identities=8%  Similarity=0.145  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603          10 KEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus        10 k~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      ...|..|+.+++.++..|..|+.++..-...+..|+.++.+|....+.+.
T Consensus        67 ~~~I~~L~~El~~l~~ki~dLeeel~eK~K~~e~l~DEl~aLqlq~n~lE  116 (152)
T 3a7p_A           67 LNTLAILQKELKSKEQEIRRLKEVIALKNKNTERLNAALISGTIENNVLQ  116 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33455555555555555555555555555555555555555555554443

>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1

Probab=88.74  E-value=1.2  Score=31.14  Aligned_cols=32  Identities=16%  Similarity=0.365  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSI   37 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~L   37 (150)
                      +..+++++..|+++...+++.+.+++.-+..|
T Consensus        12 ~~~~~~~l~~L~~~~~~l~~~i~~l~~~l~~l   43 (112)
T 1l8d_A           12 KTTIEEERNEITQRIGELKNKIGDLKTAIEEL   43 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33344444444444444444444444333333

>3hhm_B NISH2 P85alpha; PI3KCA, PI3K, PIK3R1, phosphatidilynositol 3,4,5- triphosphate, wortmannin, H1047R, ATP-binding, disease mutation, kinase; HET: KWT; 2.80A {Homo sapiens} PDB: 3hiz_B 2rd0_B 4a55_B* 3mtt_A

Probab=88.58  E-value=1.9  Score=37.16  Aligned_cols=51  Identities=20%  Similarity=0.361  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      .+.-+.||..|++|++-...|.+|+..-+.|.-+|..+|..||-|+..|+.
T Consensus       204 ~~n~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~lkp~l~ql~k  254 (373)
T 3hhm_B          204 MHNYDKLKSRISEIIDSRRRLEEDLKKQAAEYREIDKRMNSIKPDLIQLRK  254 (373)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccChHHHHHHH
Confidence            344455666666666666666666665555555555555555555555544

>1m1j_C Fibrinogen gamma chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_C

Probab=88.54  E-value=2.1  Score=37.55  Aligned_cols=29  Identities=7%  Similarity=0.193  Sum_probs=15.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603          33 DMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus        33 DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      -|..|++.+.++++-|..|+..|..|.+-
T Consensus       106 ~i~~l~~~~~~~~~~i~~l~~~i~~l~~~  134 (409)
T 1m1j_C          106 TIQQLTDMHIMNSNKITQLKQKIAQLESH  134 (409)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            44444444445555555555555555543

>3mq7_A Bone marrow stromal antigen 2; HIV, antiviral protein; 2.28A {Homo sapiens} PDB: 3mqc_A 3mqb_A 3mkx_A 3nwh_A 2xg7_A* 2x7a_A

Probab=88.33  E-value=1.9  Score=32.58  Aligned_cols=40  Identities=5%  Similarity=0.238  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603          20 MVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus        20 v~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      |.+|+.+|..|++-+...-.+|..|+.+...|+.++..-|
T Consensus        73 vqeLqgEI~~Lnq~Lq~a~ae~erlr~~~~~~~~r~~~~~  112 (121)
T 3mq7_A           73 VEELEGEITTLNHKLQDASAEVERLRRENQVLSVRIADKK  112 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhhHhhhcc
Confidence            5555555555555555555555555555555555555444

>1g6u_A Domain swapped dimer; designed three helix bundle, de novo protein; 1.48A {Synthetic} SCOP: k.9.1.1

Probab=88.14  E-value=2.1  Score=27.21  Aligned_cols=26  Identities=8%  Similarity=0.514  Sum_probs=12.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy9603          34 MGSIKEDMGSIKDDMGSIKEDMASIK   59 (150)
Q Consensus        34 V~~LK~DV~~LK~DV~~LK~Dvs~lK   59 (150)
                      .+.|.++...|...++.||+.++.+|
T Consensus        22 laaleselqalekklaalksklqalk   47 (48)
T 1g6u_A           22 LAALESELQALEKKLAALKSKLQALK   47 (48)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            34444444444444444444444443

>1fio_A SSO1 protein; four helix bundle, alpha helix, membrane protein; 2.10A {Saccharomyces cerevisiae} SCOP: a.47.2.1

Probab=87.78  E-value=2.6  Score=31.65  Aligned_cols=26  Identities=8%  Similarity=0.253  Sum_probs=11.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIK   31 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK   31 (150)
                      +..+-+.+.+|+.+|..|++.|.+|+
T Consensus         4 ~~~f~~~~~~i~~~i~~i~~~v~~L~   29 (196)
T 1fio_A            4 FVGFMNKISQINRDLDKYDHTINQVD   29 (196)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444433

>1gmj_A ATPase inhibitor; coiled-coil structure, P dependent oligomerization, ATP hydrolysis; 2.2A {Bos taurus} SCOP: h.4.8.1 PDB: 1ohh_H* 1hf9_A

Probab=87.49  E-value=2.2  Score=30.29  Aligned_cols=20  Identities=5%  Similarity=0.290  Sum_probs=7.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q psy9603          24 KEDMASIKVDMGSIKEDMGS   43 (150)
Q Consensus        24 K~DV~~LK~DV~~LK~DV~~   43 (150)
                      +..|..|..-|..+|.-|.+
T Consensus        57 ~~ei~~le~~i~rhk~~i~~   76 (84)
T 1gmj_A           57 AKEIERLQKEIERHKQSIKK   76 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333

>3l4q_C Phosphatidylinositol 3-kinase regulatory subunit beta; PI3K, phosphoinositide-3-kinase, influenza virus, NS1; 2.30A {Bos taurus} PDB: 2v1y_B

Probab=87.47  E-value=2.9  Score=32.92  Aligned_cols=46  Identities=22%  Similarity=0.367  Sum_probs=22.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSI   51 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~L   51 (150)
                      .+.|+.-|.+|.+-...|.+|+...+.|.-+|-..|..||-|+..|
T Consensus        98 ~e~LksRL~~l~~sk~~L~e~L~~q~~~~relERemnsLKPeL~qL  143 (170)
T 3l4q_C           98 SERLKSRIAEIHESRTKLEQELRAQASDNREIDKRMNSLKPDLMQL  143 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            3344555555555555555555555555444444444444444444

>1bb1_B Designed, thermostable heterotrimeric coiled coil; de novo protein design; 1.80A {Synthetic construct} SCOP: k.7.1.1

Probab=87.40  E-value=1.1  Score=26.97  Aligned_cols=25  Identities=48%  Similarity=0.772  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           7 GSIKEDMASIKEDMVSIKEDMASIK   31 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK~DV~~LK   31 (150)
                      ..||++-+.+.+++..+|++|+.+|
T Consensus         5 aaikeeqaaieeeiqaikeeiaaik   29 (36)
T 1bb1_B            5 AAIKEEQAAIEEEIQAIKEEIAAIK   29 (36)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444333

>4e61_A Protein BIM1; EB1-like motif, coiled-coil, spindle orientation, mitosis, K phosphorylation, mitotic spindle, microtubules, cell cycle; 2.45A {Saccharomyces cerevisiae}

Probab=87.12  E-value=3  Score=30.71  Aligned_cols=33  Identities=15%  Similarity=0.368  Sum_probs=17.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIK   38 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK   38 (150)
                      +..++.+++..++.+..|++.|.+||.-|..|.
T Consensus         6 ~~al~~eL~~~~~ei~~L~~ei~eLk~~ve~lE   38 (106)
T 4e61_A            6 LVAIQAELTKSQETIGSLNEEIEQYKGTVSTLE   38 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555555555554444

>1kd8_B GABH BLL, GCN4 acid base heterodimer base-D12LA16L; coiled coil heterodimer, de novo protein; 1.90A {Synthetic} SCOP: h.1.3.1 PDB: 1kd9_B 1kdd_B

Probab=87.05  E-value=1.8  Score=26.52  Aligned_cols=22  Identities=14%  Similarity=0.282  Sum_probs=7.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q psy9603          15 SIKEDMVSIKEDMASIKVDMGS   36 (150)
Q Consensus        15 ~LK~Dv~~LK~DV~~LK~DV~~   36 (150)
                      +|++-|.+|...-++|+..|+.
T Consensus         5 QLE~KVEeLl~~~~~Le~eV~R   26 (36)
T 1kd8_B            5 QLKAKVEELKSKLWHLKNKVAR   26 (36)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhHHHHHHHHH
Confidence            3333333333333333333333

>4etp_A Kinesin-like protein KAR3; kinesin motor protein, kinesin motor homology domain, karyog mitosis, microtubules; HET: ADP EBC; 2.30A {Saccharomyces cerevisiae}

Probab=87.04  E-value=2.5  Score=36.47  Aligned_cols=53  Identities=15%  Similarity=0.325  Sum_probs=30.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKED   54 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~D   54 (150)
                      +++.|+.|++++.+|++++..++..+.+|++-......--..|-.++..||..
T Consensus         8 ~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~rr~l~n~~~elkgn   60 (403)
T 4etp_A            8 LKEKIAALKEKIAALKEKIKDTELGMKELNEILIKEETVRRTLHNELQELRGN   60 (403)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence            35566666666666666666666666666655544444444455555555443

>1gk4_A Vimentin; intermediate filament, dimer, parallel coiled coil, heptad repeat, stutter; 2.3A {Homo sapiens} SCOP: h.1.20.1

Probab=86.94  E-value=5.7  Score=27.20  Aligned_cols=45  Identities=18%  Similarity=0.485  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKED----MASIKVDMGSIKEDMGSIKDDMG   49 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~D----V~~LK~DV~~LK~DV~~LK~DV~   49 (150)
                      +|.+++...+.|..-+..+..-    +..++.-|..|...+..+|+||.
T Consensus         2 el~~l~~~~~sLE~~l~e~e~~~~~~~~~~q~~i~~lE~eL~~~r~e~~   50 (84)
T 1gk4_A            2 EVDALKGTNESLERQMREMEENFAVEAANYQDTIGRLQDEIQNMKEEMA   50 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555666555555555444332    23334444444444444444443

>4e61_A Protein BIM1; EB1-like motif, coiled-coil, spindle orientation, mitosis, K phosphorylation, mitotic spindle, microtubules, cell cycle; 2.45A {Saccharomyces cerevisiae}

Probab=86.87  E-value=3.3  Score=30.47  Aligned_cols=34  Identities=12%  Similarity=0.347  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          13 MASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKD   46 (150)
Q Consensus        13 v~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~   46 (150)
                      +..+..+++..|+.|.+|++.|+.||.-|..|..
T Consensus         6 ~~al~~eL~~~~~ei~~L~~ei~eLk~~ve~lEk   39 (106)
T 4e61_A            6 LVAIQAELTKSQETIGSLNEEIEQYKGTVSTLEI   39 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455666666666666666666666666666653

>1x8y_A Lamin A/C; structural protein, intermediate filament protein; 2.20A {Homo sapiens} SCOP: h.1.20.1 PDB: 3v5b_A 3v4w_A 3v4q_A

Probab=86.66  E-value=1.4  Score=30.58  Aligned_cols=13  Identities=8%  Similarity=0.284  Sum_probs=2.2

Q ss_pred             HHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKE   18 (150)
Q Consensus         6 i~~Lk~dv~~LK~   18 (150)
                      |+.|+...+.|..
T Consensus         5 ie~L~~q~~~Le~   17 (86)
T 1x8y_A            5 LSQLQCQLAAKEA   17 (86)
T ss_dssp             -------CTTHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol 3-phosphate binding, membrane protein; HET: ITP; 2.20A {Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A* 1hyj_A

Probab=86.64  E-value=5.3  Score=29.18  Aligned_cols=51  Identities=4%  Similarity=0.121  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      |-..|.+.....++||..|++.+.+|+..+...-.=+.+|......|+.+.
T Consensus         5 e~~~~~~~~~~~e~e~~~l~~~~~el~~~l~~~~~~~~e~g~~~~~lq~~~   55 (125)
T 1joc_A            5 ERRALLERCLKGEGEIEKLQTKVLELQRKLDNTTAAVQELGRENQSLQIKH   55 (125)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccccc
Confidence            344555555566667777777777777666554444445544444555443

>4i0x_B ESAT-6-like protein MAB_3113; structural genomics, PSI-2, protein structure initiative, in center for structure and function innovation; HET: BME GOL; 1.96A {Mycobacterium abscessus}

Probab=86.57  E-value=6  Score=27.09  Aligned_cols=39  Identities=8%  Similarity=0.135  Sum_probs=29.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKED   40 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~D   40 (150)
                      |+.|...|..-...|..-...|.+.+..|+..|+.|..-
T Consensus         9 i~v~~~~l~~~a~~~~~~~~~i~~~l~~L~~~v~~L~~~   47 (103)
T 4i0x_B            9 FSFDLDHIEQVTSRARGFKEFVTENLDQLESRAQKLVQS   47 (103)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             eeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            566777777777777777777777777777777777665

>3kqg_A Langerin, C-type lectin domain family 4 member K; trimer, NECK and CRD, coiled coil, immune system; 2.30A {Homo sapiens}

Probab=86.36  E-value=1.2  Score=32.62  Aligned_cols=34  Identities=6%  Similarity=0.374  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           9 IKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKD   46 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~   46 (150)
                      |+.+|..||+|+.    .++.|++.|..|++++..|++
T Consensus         4 l~~~~~~l~~~~~----~~~~l~~~~~~l~~~l~~~~~   37 (182)
T 3kqg_A            4 LNAQIPELKSDLE----KASALNTKIRALQGSLENMSK   37 (182)
T ss_dssp             ---------CHHH----HHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555544    334455555555555555554

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=86.29  E-value=4.3  Score=31.98  Aligned_cols=11  Identities=9%  Similarity=0.157  Sum_probs=4.3

Q ss_pred             HHHHHHHHHHH
Q psy9603           5 DMGSIKEDMAS   15 (150)
Q Consensus         5 Di~~Lk~dv~~   15 (150)
                      |+..|+..+.+
T Consensus        70 e~~~LQa~L~q   80 (168)
T 3o0z_A           70 DYYQLQAILEA   80 (168)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            33334433333

>3he5_A Synzip1; heterodimeric coiled-coil, de novo protein; 1.75A {Artificial gene}

Probab=86.15  E-value=3.1  Score=26.48  Aligned_cols=11  Identities=9%  Similarity=0.540  Sum_probs=4.6

Q ss_pred             HHHHHHHHHhh
Q psy9603          49 GSIKEDMASIK   59 (150)
Q Consensus        49 ~~LK~Dvs~lK   59 (150)
                      +-|..+++.|+
T Consensus        34 aylekeianlr   44 (49)
T 3he5_A           34 AYLEKEIANLR   44 (49)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            34444444443

>3l4q_C Phosphatidylinositol 3-kinase regulatory subunit beta; PI3K, phosphoinositide-3-kinase, influenza virus, NS1; 2.30A {Bos taurus} PDB: 2v1y_B

Probab=86.11  E-value=1.7  Score=34.33  Aligned_cols=52  Identities=19%  Similarity=0.319  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           7 GSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         7 ~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      ..|.+.-..|++-+.+|++=...|.+|+...+.|.-+|-..|++||-|+..|
T Consensus        92 ~~l~~N~e~LksRL~~l~~sk~~L~e~L~~q~~~~relERemnsLKPeL~qL  143 (170)
T 3l4q_C           92 QRILLNSERLKSRIAEIHESRTKLEQELRAQASDNREIDKRMNSLKPDLMQL  143 (170)
T ss_dssp             TTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            3344444455555555555555555555555555555555555555555444

>3m9b_A Proteasome-associated ATPase; coil COIL with 5 beta-strand barrel inter domain, chaperone; 3.94A {Mycobacterium tuberculosis} PDB: 3m9d_A

Probab=86.01  E-value=0.85  Score=38.06  Aligned_cols=49  Identities=16%  Similarity=0.483  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCccCCCCCC
Q psy9603          26 DMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDKRGYGV   74 (150)
Q Consensus        26 DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg~~~~gYg~   74 (150)
                      ++.+|+..+..|.+...-|++....+++++..||+.+--+..||-.||.
T Consensus        55 ~l~eL~~ql~~L~arNe~L~~~Lk~ar~El~~LkeElerL~sPPL~iGt  103 (251)
T 3m9b_A           55 DIHQLEARIDSLAARNSKLMETLKEARQQLLALREEVDRLGQPPSGYGV  103 (251)
T ss_dssp             HHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHSCCEEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEE
Confidence            4667777777887777778888888888888888888888888877764

>1fzc_C Fibrin; blood coagulation, plasma protein, crosslinking; HET: NAG MAN; 2.30A {Homo sapiens} SCOP: d.171.1.1 h.1.8.1 PDB: 1fzb_C* 1fza_C* 1fze_C* 1fzf_C* 1fzg_C* 2xnx_C 2xny_C 3e1i_C* 2hlo_C* 1n8e_C 1n86_C* 2q9i_C* 2z4e_C* 2h43_C* 2hod_C* 2hpc_C* 3h32_C* 1re3_C* 1ltj_C* 1lt9_C* ...

Probab=85.91  E-value=0.41  Score=40.82  Aligned_cols=45  Identities=7%  Similarity=0.230  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          11 EDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDM   55 (150)
Q Consensus        11 ~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dv   55 (150)
                      ++|..|+.-|..+.+-|..|++.+..+++.|.+|++.|..|...+
T Consensus         4 ~~~~~lE~~Il~~~~~i~~L~~~l~~~~~ki~~L~~~i~~l~~~~   48 (319)
T 1fzc_C            4 EEIMKYEASILTHDSSIRYLQEIYNSNNQKIVNLKEKVAQLEAQC   48 (319)
T ss_dssp             ------CTTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            344444444444444444444444444555555555555554443

>2vrs_A Sigma-C capsid protein; alpha-helical coiled coil, receptor-binding, triple beta-spiral, viral protein, virion, coiled coil, beta-barrel; 1.75A {Avian reovirus} PDB: 2jjl_A 2bsf_A 2bt7_A 2bt8_A

Probab=85.85  E-value=0.82  Score=37.43  Aligned_cols=37  Identities=11%  Similarity=0.253  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603          24 KEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus        24 K~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      ...++.|-+||..||.||+.+---|+.|.+.|+.|.+
T Consensus         3 ~~~v~~~st~v~NlkssVS~~~l~ls~L~~Rv~~le~   39 (211)
T 2vrs_A            3 QTTVDGNSTAISNLKSDISSNGLAITDLQDRVKSLES   39 (211)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             eehhhhchhhhhhhhhhhhhhhhhhhhHHHHHHHHhc
Confidence            3445555566666666666666666666666666653

>1dx0_A Prion protein; brain, repeat; NMR {Bos taurus} SCOP: d.6.1.1 PDB: 1dx1_A 1qlx_A 1qlz_A

Probab=85.84  E-value=0.15  Score=41.97  Aligned_cols=6  Identities=17%  Similarity=0.451  Sum_probs=0.0

Q ss_pred             CCCCCC
Q psy9603         114 YGVDKR  119 (150)
Q Consensus       114 Yg~p~~  119 (150)
                      ||.|..
T Consensus        70 yg~p~~   75 (219)
T 1dx0_A           70 WGQPHG   75 (219)
T ss_dssp             ------
T ss_pred             CCCCCC
Confidence            443333

>3s84_A Apolipoprotein A-IV; four helix bundle, transport protein; 2.40A {Homo sapiens}

Probab=85.58  E-value=5.2  Score=32.89  Aligned_cols=7  Identities=0%  Similarity=0.487  Sum_probs=2.6

Q ss_pred             HHHHHHH
Q psy9603           5 DMGSIKE   11 (150)
Q Consensus         5 Di~~Lk~   11 (150)
                      ||+.++.
T Consensus        45 ~le~lr~   51 (273)
T 3s84_A           45 NLRELQQ   51 (273)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            3333333

>1s94_A S-syntaxin; three helix bundle, structural plasticity, endocytosis-exocy complex; 3.34A {Loligo pealei} SCOP: a.47.2.1

Probab=85.23  E-value=2  Score=32.40  Aligned_cols=26  Identities=19%  Similarity=0.371  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIK   31 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK   31 (150)
                      |..+-++|..|+++|..|+++|..|+
T Consensus        38 m~~F~~~v~~I~~~i~~i~~~v~~l~   63 (180)
T 1s94_A           38 MEEFFEQVEEIRAMIDKISDNVDAVK   63 (180)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555555555555443

>1wt6_A Myotonin-protein kinase; coiled-coil, kinase activation, DMPK, molecular replacement, transferase; 1.60A {Homo sapiens}

Probab=85.20  E-value=3.8  Score=28.97  Aligned_cols=47  Identities=13%  Similarity=0.307  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603          15 SIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus        15 ~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      .|.++++.+|++--.+......-+.-..+|-.+|..||+.|.+|+++
T Consensus        28 ~i~EELs~vr~~ni~~eskL~eae~rn~eL~~e~~~l~~~~eelq~~   74 (81)
T 1wt6_A           28 SLSREMEAIRTDNQNFASQLREAEARNRDLEAHVRQLQERMELLQAE   74 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            35555566666665555555555666666667777777777776654

>1wt6_A Myotonin-protein kinase; coiled-coil, kinase activation, DMPK, molecular replacement, transferase; 1.60A {Homo sapiens}

Probab=85.10  E-value=3.5  Score=29.19  Aligned_cols=47  Identities=11%  Similarity=0.314  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKED   54 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~D   54 (150)
                      .|.++++.++++.-.+.+.+.+-+.-...|-.+|..|++.+..|+.+
T Consensus        28 ~i~EELs~vr~~ni~~eskL~eae~rn~eL~~e~~~l~~~~eelq~~   74 (81)
T 1wt6_A           28 SLSREMEAIRTDNQNFASQLREAEARNRDLEAHVRQLQERMELLQAE   74 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            45666666666666666666555555555555555555555555443

>2c5k_T Syntaxin TLG1, T-snare affecting A late golgi compartment protein 1; protein transport/complex, snare, VFT complex, protein transport, phosphorylation; 2.05A {Saccharomyces cerevisiae} PDB: 2c5j_A 2c5i_T

Probab=85.08  E-value=2.4  Score=30.04  Aligned_cols=23  Identities=17%  Similarity=0.367  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhc
Q psy9603          40 DMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus        40 DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      ||+.=|.=|+.++..+..||++.
T Consensus        69 EI~~Rk~~v~~l~~~i~~lk~~~   91 (95)
T 2c5k_T           69 DVSGREAQVKNIKQQLDALKLRF   91 (95)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444566666777777776653

>2ve7_C Kinetochore protein NUF2, kinetochore protein SPC; mitosis, centromere, cell cycle, microtubule, C division, calponin homology; 2.88A {Homo sapiens} PDB: 3iz0_D*

Probab=85.08  E-value=0.3  Score=39.97  Aligned_cols=57  Identities=5%  Similarity=0.083  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHhhhhc
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDD-------MGSIKEDMASIKEDI   62 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~D-------V~~LK~Dvs~lK~Di   62 (150)
                      ++++.++.+++++.+..+.++..+|++.++.||+++.+..++       +.+|...|+.+|=++
T Consensus       143 ~~e~~~~~e~~~~~i~ql~~En~~le~~Ie~Lk~e~~e~~te~~p~~k~~~qly~~vt~i~w~~  206 (250)
T 2ve7_C          143 YMEFLWQYKSSADKMQQLNAAHQEALMKLERLEKEVDEDTTVTIPSAVYVAQLYHQVSKIEWEY  206 (250)
T ss_dssp             HHHHHHHTTHHHHHHHHHHHHHHHHHHSCC-------------CTTTHHHHHHHHHHHCCEECS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhceeec
Confidence            444445555555555555555555555555555555555444       466777777776554

>1s94_A S-syntaxin; three helix bundle, structural plasticity, endocytosis-exocy complex; 3.34A {Loligo pealei} SCOP: a.47.2.1

Probab=84.79  E-value=2.2  Score=32.16  Aligned_cols=23  Identities=17%  Similarity=0.411  Sum_probs=13.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKED   26 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~D   26 (150)
                      ++++.|+++|..|++.|..|+.=
T Consensus        43 ~~v~~I~~~i~~i~~~v~~l~~~   65 (180)
T 1s94_A           43 EQVEEIRAMIDKISDNVDAVKKK   65 (180)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566666666666666555443

>3iv1_A Tumor susceptibility gene 101 protein; coiled_COIL, tumorigenesis, CELL_cycle regulation, alternative splicing, cell cycle, cell division; HET: MSE; 2.50A {Homo sapiens}

Probab=84.54  E-value=8.3  Score=26.93  Aligned_cols=54  Identities=13%  Similarity=0.353  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      .|++.+..-+.+|..||.==.+||.-=+-|++=|+.|+++.+.|...|..+|..
T Consensus        15 rl~E~~~q~qaEl~sLrrT~~EL~~G~~KL~~mi~~l~~E~~~l~~ni~~lk~K   68 (78)
T 3iv1_A           15 RMKEEMDRAQAELNALKRTEEDLKKGHQKLEEMVTRLDQEVAEVDKNIELLKKK   68 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            466777777777777777777777777788888888888888888888877753

>3s4r_A Vimentin; alpha-helix, cytoskeleton, intermediate filament, structural; 2.45A {Homo sapiens} PDB: 3ssu_A

Probab=84.52  E-value=6.5  Score=27.65  Aligned_cols=35  Identities=14%  Similarity=0.431  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603          26 DMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus        26 DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      .|..|+.-|..+..|-+.|.-++..|..|+..+|.
T Consensus        57 ~i~~Lr~~i~~~~~ek~~l~~e~dnl~~~~~~~k~   91 (93)
T 3s4r_A           57 EMRELRRQVDQLTNDKARVEVERDNLAEDIMRLRE   91 (93)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34445555555555555555555555666655554

>3okq_A BUD site selection protein 6; coiled-coil, protein binding; 2.04A {Saccharomyces cerevisiae} PDB: 3onx_A

Probab=84.49  E-value=4.9  Score=30.98  Aligned_cols=22  Identities=5%  Similarity=0.229  Sum_probs=8.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q psy9603          13 MASIKEDMVSIKEDMASIKVDM   34 (150)
Q Consensus        13 v~~LK~Dv~~LK~DV~~LK~DV   34 (150)
                      ...|=+.|.-|..=|..||.||
T Consensus        23 sd~LvtkVDDLQD~VE~LRkDV   44 (141)
T 3okq_A           23 SDTLLSKVDDLQDVIEIMRKDV   44 (141)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhHHHHHHHHHHHHH
Confidence            3333333444444444444443

>2wps_A Trimeric autotransporter adhesin fragment; membrane protein, ION coordination, hydrophobic core, TAA, stutter, stammer, coiled coil; 2.60A {Salmonella enterica subsp} PDB: 2wpr_A

Probab=84.38  E-value=10  Score=27.96  Aligned_cols=23  Identities=22%  Similarity=0.456  Sum_probs=13.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIK   24 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK   24 (150)
                      |+.-|++|...+--+..+|++||
T Consensus         4 ~~~~~~~~~~~~~~~~~~~sQLk   26 (107)
T 2wps_A            4 IEDKIEEILSKIYHIENEIARIK   26 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            44456666666666666665555

>3he5_A Synzip1; heterodimeric coiled-coil, de novo protein; 1.75A {Artificial gene}

Probab=84.21  E-value=4.9  Score=25.58  Aligned_cols=41  Identities=10%  Similarity=0.312  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          14 ASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKED   54 (150)
Q Consensus        14 ~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~D   54 (150)
                      ++|.++|++|..+-..||.-----|.=|+-|..+++.|+..
T Consensus         6 aqlenevaslenenetlkkknlhkkdliaylekeianlrkk   46 (49)
T 3he5_A            6 AQLENEVASLENENETLKKKNLHKKDLIAYLEKEIANLRKK   46 (49)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccHHHHHhcccHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444433322233334444444444443

>2ynz_A General control protein GCN4, putative inner MEMB protein; membrane protein, DALL domain, DALL2, trimeric autotransport adhesin, TAA; 1.40A {Saccharomyces cerevisiae} PDB: 1uo2_A 1gcl_A 2ccn_A 1uo0_A 1unz_A 1uny_A 2bni_A* 1u9h_A*

Probab=84.17  E-value=7.1  Score=30.52  Aligned_cols=52  Identities=12%  Similarity=0.259  Sum_probs=32.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      |+.-|++|..+|--|...|..+.+-+-....-|+..-.+++.+.+.|..|..
T Consensus         4 ~~~~~~~~~~~~~~~~~~i~~~GSQL~~tn~~Va~nt~~ia~vn~~i~~l~~   55 (154)
T 2ynz_A            4 IEDKIEEILSKIYHIENEIARIKKLIYETNQKVDQNTSAIADINTSITNLGT   55 (154)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHhhHHHHHHhccchhhhhhhhhcccC
Confidence            4555666666666666666666666666666666666666666555555543

>2eqb_B RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 2.70A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=84.11  E-value=6.8  Score=28.41  Aligned_cols=29  Identities=17%  Similarity=0.488  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDM   34 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV   34 (150)
                      ++.+++.+..|+..+..+...+..|+.+.
T Consensus         7 ~e~lre~l~~le~~~~~~~~e~~~L~~~l   35 (97)
T 2eqb_B            7 YNQLKEDYNTLKRELSDRDDEVKRLREDI   35 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            44455555555555555555444444333

>3qh9_A Liprin-beta-2; coiled-coil, dimerization, structural protein; 2.01A {Homo sapiens}

Probab=84.09  E-value=9.1  Score=27.04  Aligned_cols=20  Identities=5%  Similarity=0.257  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q psy9603          12 DMASIKEDMVSIKEDMASIK   31 (150)
Q Consensus        12 dv~~LK~Dv~~LK~DV~~LK   31 (150)
                      |-..|.++|+.||--|++|-
T Consensus        20 ~~E~L~qEi~~Lr~kv~elE   39 (81)
T 3qh9_A           20 KAEELLQELRHLKIKVEELE   39 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444443

>1fzc_C Fibrin; blood coagulation, plasma protein, crosslinking; HET: NAG MAN; 2.30A {Homo sapiens} SCOP: d.171.1.1 h.1.8.1 PDB: 1fzb_C* 1fza_C* 1fze_C* 1fzf_C* 1fzg_C* 2xnx_C 2xny_C 3e1i_C* 2hlo_C* 1n8e_C 1n86_C* 2q9i_C* 2z4e_C* 2h43_C* 2hod_C* 2hpc_C* 3h32_C* 1re3_C* 1ltj_C* 1lt9_C* ...

Probab=83.79  E-value=0.63  Score=39.70  Aligned_cols=47  Identities=11%  Similarity=0.188  Sum_probs=27.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV   48 (150)
                      |-++|..|++.|..+.+.|..|++.+.++++.|..|++.|.+|..-+
T Consensus         2 ~~~~~~~lE~~Il~~~~~i~~L~~~l~~~~~ki~~L~~~i~~l~~~~   48 (319)
T 1fzc_C            2 MLEEIMKYEASILTHDSSIRYLQEIYNSNNQKIVNLKEKVAQLEAQC   48 (319)
T ss_dssp             --------CTTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44566667777777777777777777777777777777777666543

>1hjb_A Ccaat/enhancer binding protein beta; transcription/DNA, protein-DNA complex; HET: DNA; 3.0A {Homo sapiens} SCOP: h.1.3.1

Probab=83.78  E-value=3.3  Score=29.26  Aligned_cols=36  Identities=0%  Similarity=0.242  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          22 SIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMAS   57 (150)
Q Consensus        22 ~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~   57 (150)
                      ++..-+.+|..+-..|+..|..|+.++..||.=+..
T Consensus        40 e~~~r~~~Le~EN~~Lr~~v~~L~~E~~~Lr~ll~~   75 (87)
T 1hjb_A           40 ETQHKVLELTAENERLQKKVEQLSRELSTLRNLFKQ   75 (87)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444455555555555555555555555544443

>3efg_A Protein SLYX homolog; xanthomonas campestris PV. campestris, coiled-coil, structur genomics, PSI-2, protein structure initiative; 2.00A {Xanthomonas campestris PV}

Probab=83.63  E-value=4.1  Score=28.03  Aligned_cols=53  Identities=4%  Similarity=0.188  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      .|.+.|..|..-++..-.-|.+|..=|..-...|..|+.-+..|.+.+.++..
T Consensus        11 ~le~Ri~~LE~klAfqE~tIeeLn~~v~~Qq~~Id~L~~ql~~L~~rl~~~~~   63 (78)
T 3efg_A           11 ELEARLVELETRLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVRS   63 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            34455555555555555555555555555555555555555555555555543

>1m1j_C Fibrinogen gamma chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_C

Probab=83.52  E-value=4.6  Score=35.44  Aligned_cols=23  Identities=13%  Similarity=0.202  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhcC
Q psy9603          41 MGSIKDDMGSIKEDMASIKEDIG   63 (150)
Q Consensus        41 V~~LK~DV~~LK~Dvs~lK~Dig   63 (150)
                      |..|.+.+..++..|..|++.|.
T Consensus       107 i~~l~~~~~~~~~~i~~l~~~i~  129 (409)
T 1m1j_C          107 IQQLTDMHIMNSNKITQLKQKIA  129 (409)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHH
Confidence            33344444444445555555443

>1g6u_A Domain swapped dimer; designed three helix bundle, de novo protein; 1.48A {Synthetic} SCOP: k.9.1.1

Probab=83.42  E-value=4  Score=25.91  Aligned_cols=19  Identities=5%  Similarity=0.501  Sum_probs=7.2

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q psy9603          30 IKVDMGSIKEDMGSIKDDM   48 (150)
Q Consensus        30 LK~DV~~LK~DV~~LK~DV   48 (150)
                      |..+...|....+.||..+
T Consensus        25 leselqalekklaalkskl   43 (48)
T 1g6u_A           25 LESELQALEKKLAALKSKL   43 (48)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333

>2ynz_A General control protein GCN4, putative inner MEMB protein; membrane protein, DALL domain, DALL2, trimeric autotransport adhesin, TAA; 1.40A {Saccharomyces cerevisiae} PDB: 1uo2_A 1gcl_A 2ccn_A 1uo0_A 1unz_A 1uny_A 2bni_A* 1u9h_A*

Probab=83.37  E-value=5.3  Score=31.23  Aligned_cols=64  Identities=14%  Similarity=0.279  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCccC
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDIGGYGVDK   69 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~DigGyg~~~   69 (150)
                      |+.|+++|++|-..|--+...|+.+..-+-....-|+..-++++.+...|..|.+|---|--..
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~i~~~GSQL~~tn~~Va~nt~~ia~vn~~i~~l~~dAL~wd~~~   64 (154)
T 2ynz_A            1 MKQIEDKIEEILSKIYHIENEIARIKKLIYETNQKVDQNTSAIADINTSITNLGTDALSWDDEE   64 (154)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHBCEEETTT
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHhhhHHHhhHHHHHHhccchhhhhhhhhcccCCceEeeCCC
Confidence            5678889999999999999999999999999999999999999999999999988876665443

>3kqg_A Langerin, C-type lectin domain family 4 member K; trimer, NECK and CRD, coiled coil, immune system; 2.30A {Homo sapiens}

Probab=83.33  E-value=1.3  Score=32.32  Aligned_cols=19  Identities=0%  Similarity=0.347  Sum_probs=9.2

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q psy9603          35 GSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus        35 ~~LK~DV~~LK~DV~~LK~   53 (150)
                      ..|+..|..|+..+..|+.
T Consensus        19 ~~l~~~~~~l~~~l~~~~~   37 (182)
T 3kqg_A           19 SALNTKIRALQGSLENMSK   37 (182)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3445555555555544444

>3m48_A General control protein GCN4; leucine zipper, synthetic peptide, alpha helix, activa amino-acid biosynthesis, DNA-binding, nucleus; 1.45A {Synthetic} PDB: 3i1g_A 2ahp_A* 2o7h_A

Probab=83.05  E-value=1.8  Score=26.04  Aligned_cols=26  Identities=12%  Similarity=0.337  Sum_probs=11.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           6 MGSIKEDMASIKEDMVSIKEDMASIK   31 (150)
Q Consensus         6 i~~Lk~dv~~LK~Dv~~LK~DV~~LK   31 (150)
                      |+.|.+.|.+|-..-+.|..+|..||
T Consensus         2 M~QLE~kVEeLl~~n~~Le~EV~RLk   27 (33)
T 3m48_A            2 MAQLEAKVEELLSKNWNLENEVARLK   27 (33)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            33444444444444444444444433

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=82.80  E-value=4.3  Score=43.83  Aligned_cols=56  Identities=13%  Similarity=0.316  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      |+.++.++++++..++.+..+++.+.+|..-++.||++-+++.++...||.++...
T Consensus      2013 r~~l~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~ 2068 (3245)
T 3vkg_A         2013 REEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKV 2068 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555555555555555555555555555555555555555555443

>1go4_E MAD1 (mitotic arrest deficient)-like 1; mitotic spindle checkpoint, cell cycle, mitosis, nuclear Pro; 2.05A {Homo sapiens} SCOP: h.1.22.1

Probab=82.76  E-value=7.7  Score=28.16  Aligned_cols=25  Identities=4%  Similarity=0.264  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           3 KEDMGSIKEDMASIKEDMVSIKEDM   27 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~LK~DV   27 (150)
                      +..|+.|..+-..|++.+..|...+
T Consensus        18 r~ei~~Le~E~~rLr~~~~~LE~~L   42 (100)
T 1go4_E           18 RLKVEELEGERSRLEEEKRMLEAQL   42 (100)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444

>1dip_A Delta-sleep-inducing peptide immunoreactive peptide; structure, leucine zipper, PIG, acetylation; NMR {Sus scrofa} SCOP: h.1.12.1

Probab=82.47  E-value=0.86  Score=32.08  Aligned_cols=32  Identities=9%  Similarity=0.230  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603          31 KVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus        31 K~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      +++|..||+-|.+|-+.++.|+.+-+.||+-.
T Consensus        14 REEVevLKe~I~EL~e~~~qLE~EN~~Lk~~a   45 (78)
T 1dip_A           14 REEVEILKEQIRELVEKNSQLERENTLLKTLA   45 (78)
T ss_dssp             TTSCHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            45555666666666666666666666666543

>3ghg_B Fibrinogen beta chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_B* 1deq_B 2a45_H*

Probab=82.39  E-value=5.2  Score=35.97  Aligned_cols=24  Identities=8%  Similarity=0.289  Sum_probs=16.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKE   25 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~   25 (150)
                      |+.||++|+..|.+|.+--++.++
T Consensus        93 V~~dl~~Le~~l~~isn~Ts~a~~  116 (461)
T 3ghg_B           93 IRNSVDELNNNVEAVSQTSSSSFQ  116 (461)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             hhhHHHHHHHHHHHHHhhhHHHHH
Confidence            577888888888877555443333

>2j1d_G DAAM1, disheveled-associated activator of morphogenesis; actin assembly, protein binding; 2.55A {Homo sapiens} PDB: 2z6e_A

Probab=82.37  E-value=3.9  Score=35.81  Aligned_cols=28  Identities=7%  Similarity=0.395  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIK   31 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK   31 (150)
                      .+++.|..||..|+..+..++.++...+
T Consensus       292 v~~~~l~~~~~~L~~~l~~v~~~l~~~~  319 (483)
T 2j1d_G          292 VNMTELDKEISTLRSGLKAVETELEYQK  319 (483)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3455666666666666666666655544

>1use_A VAsp, vasodilator-stimulated phosphoprotein; signaling protein, null; 1.3A {Homo sapiens} SCOP: h.1.29.1 PDB: 1usd_A

Probab=82.33  E-value=1.9  Score=27.50  Aligned_cols=8  Identities=25%  Similarity=0.709  Sum_probs=3.1

Q ss_pred             HHHHHHHH
Q psy9603           5 DMGSIKED   12 (150)
Q Consensus         5 Di~~Lk~d   12 (150)
                      ||+.+|++
T Consensus         8 dle~~KqE   15 (45)
T 1use_A            8 DLQRVKQE   15 (45)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            34433333

>1hjb_A Ccaat/enhancer binding protein beta; transcription/DNA, protein-DNA complex; HET: DNA; 3.0A {Homo sapiens} SCOP: h.1.3.1

Probab=81.99  E-value=4.2  Score=28.67  Aligned_cols=29  Identities=0%  Similarity=0.349  Sum_probs=11.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          18 EDMVSIKEDMASIKVDMGSIKEDMGSIKD   46 (150)
Q Consensus        18 ~Dv~~LK~DV~~LK~DV~~LK~DV~~LK~   46 (150)
                      ..+..|..+=..|+..|..|+.++..||+
T Consensus        43 ~r~~~Le~EN~~Lr~~v~~L~~E~~~Lr~   71 (87)
T 1hjb_A           43 HKVLELTAENERLQKKVEQLSRELSTLRN   71 (87)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333334444444444444444443

>2f1m_A Acriflavine resistance protein A; helical hairpin, lipoyl domain, beta barrel, transport prote; 2.71A {Escherichia coli}

Probab=81.92  E-value=11  Score=29.26  Aligned_cols=58  Identities=10%  Similarity=0.108  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIK----------VDMGSIKEDMGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK----------~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      .++..++.++...+.++...+.+...++          +++...+.++...+..+..++..+..++.+
T Consensus        60 ~~l~~a~a~l~~a~a~l~~a~~~~~r~~~L~~~g~~s~~~~~~a~~~~~~a~a~l~~a~a~l~~a~~~  127 (277)
T 2f1m_A           60 ATYDSAKGDLAKAQAAANIAQLTVNRYQKLLGTQYISKQEYDQALADAQQANAAVTAAKAAVETARIN  127 (277)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTSTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555555555555555443322          344444555555555555555555444443

>1m1j_B Fibrinogen beta chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_B*

Probab=81.88  E-value=7.5  Score=34.77  Aligned_cols=17  Identities=18%  Similarity=0.423  Sum_probs=11.0

Q ss_pred             hHHHHHHHHHHHHHHHH
Q psy9603           2 IKEDMGSIKEDMASIKE   18 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~   18 (150)
                      |+.||++|+..|.+|.+
T Consensus        98 V~~~LqeLe~~l~~lsn  114 (464)
T 1m1j_B           98 VKPVLRDLKDRVAKFSD  114 (464)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             hHhHHHHHHHHHHHHhh
Confidence            56667777776666653

>1v9d_A Diaphanous protein homolog 1; helix bundle, protein binding; 2.60A {Mus musculus} SCOP: a.207.1.1

Probab=81.66  E-value=6.5  Score=32.63  Aligned_cols=25  Identities=8%  Similarity=0.380  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMA   28 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~   28 (150)
                      .+++.|..+|..|+.++..++.++.
T Consensus       210 vs~~~l~~~l~~l~~~~~~~~~~l~  234 (340)
T 1v9d_A          210 VSAENLQKSLDQMKKQIADVERDVQ  234 (340)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3556666666666666666666654

>1dx0_A Prion protein; brain, repeat; NMR {Bos taurus} SCOP: d.6.1.1 PDB: 1dx1_A 1qlx_A 1qlz_A

Probab=81.63  E-value=0.29  Score=40.30  Aligned_cols=8  Identities=38%  Similarity=0.887  Sum_probs=0.0

Q ss_pred             CCCCCCCC
Q psy9603         120 GYGVDKRG  127 (150)
Q Consensus       120 gyg~~~~g  127 (150)
                      |||-|..|
T Consensus        69 Gyg~p~~G   76 (219)
T 1dx0_A           69 GWGQPHGG   76 (219)
T ss_dssp             --------
T ss_pred             CCCCCCCC
Confidence            44444433

>3uul_A Utrophin; spectrin repeat, structural protein, cytoskeletal, helical bundle; 1.95A {Rattus norvegicus} PDB: 3uum_A

Probab=81.30  E-value=9.8  Score=25.41  Aligned_cols=24  Identities=4%  Similarity=0.052  Sum_probs=11.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          10 KEDMASIKEDMVSIKEDMASIKVD   33 (150)
Q Consensus        10 k~dv~~LK~Dv~~LK~DV~~LK~D   33 (150)
                      ..+...|..||..-+..|..+..-
T Consensus        42 l~~h~~l~~ei~~~~~~v~~v~~~   65 (118)
T 3uul_A           42 FATHETFMMELSAHQSSVGSVLQA   65 (118)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444555555555555544433

>2yny_A General control protein GCN4, putative inner MEMB protein; FGG domain, trimeric autotransporter adhesin, TAA, membrane chimera; 1.35A {Saccharomyces cerevisiae} PDB: 1w5i_A

Probab=81.18  E-value=3.5  Score=30.45  Aligned_cols=31  Identities=19%  Similarity=0.397  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           8 SIKEDMASIKEDMVSIKEDMASIKVDMGSIK   38 (150)
Q Consensus         8 ~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK   38 (150)
                      .|...|..+.++|+.|..+|..++.+++.+|
T Consensus        73 ald~svt~i~~~I~~lt~~i~~~~~~i~~~~  103 (106)
T 2yny_A           73 ALNTSMKQIEDKIEEILSKIYHIENEIARIK  103 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444443333

>1fio_A SSO1 protein; four helix bundle, alpha helix, membrane protein; 2.10A {Saccharomyces cerevisiae} SCOP: a.47.2.1

Probab=80.65  E-value=6.2  Score=29.55  Aligned_cols=58  Identities=9%  Similarity=0.236  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHH----HHHHHHHHHhhhh
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKEDMASIKV-----DMGSIKEDMGSIKDDM----GSIKEDMASIKED   61 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~-----DV~~LK~DV~~LK~DV----~~LK~Dvs~lK~D   61 (150)
                      ..++.|+.+|..|++.|..|+.=...+..     |...++.++..|-+++    ..++..+..|++.
T Consensus         9 ~~~~~i~~~i~~i~~~v~~L~~l~~~~l~~~~~~~~~~~~~~i~~l~~~i~~~~~~~~~~lk~l~~~   75 (196)
T 1fio_A            9 NKISQINRDLDKYDHTINQVDSLHKRLLTEVNEEQASHLRHSLDNFVAQATDLQFKLKNEIKSAQRD   75 (196)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            34566666666666666666655554332     2234444444443333    4445555655554

>2k48_A Nucleoprotein; viral protein; NMR {Andes virus}

Probab=80.57  E-value=13  Score=27.39  Aligned_cols=57  Identities=11%  Similarity=0.427  Sum_probs=30.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHH----HHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy9603           2 IKEDMGSIKEDMASIKEDMVSIKEDM----ASI--------KVDMGSIKEDMGSIKDDMGSIKEDMASI   58 (150)
Q Consensus         2 ik~Di~~Lk~dv~~LK~Dv~~LK~DV----~~L--------K~DV~~LK~DV~~LK~DV~~LK~Dvs~l   58 (150)
                      +.+||++|+++++....-+..-+.-+    ...        |+=+..=+..|+.|++-++.||.-|++.
T Consensus        33 tM~~ieeLQ~Ei~~~E~QL~iArQKLkdAe~~~E~DPDevNK~tl~~R~~~Vsalq~KiaeLKrqLAd~  101 (107)
T 2k48_A           33 TMSTLQELQENITAHEQQLVTARQKLKDAEKAVEVDPDDVNKSTLQNRRAAVSTLETKLGELKRQLADL  101 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46788889888887777665433332    222        2222333444555555555555555443

>1gmj_A ATPase inhibitor; coiled-coil structure, P dependent oligomerization, ATP hydrolysis; 2.2A {Bos taurus} SCOP: h.4.8.1 PDB: 1ohh_H* 1hf9_A

Probab=80.32  E-value=7.3  Score=27.63  Aligned_cols=29  Identities=7%  Similarity=0.326  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          25 EDMASIKVDMGSIKEDMGSIKDDMGSIKE   53 (150)
Q Consensus        25 ~DV~~LK~DV~~LK~DV~~LK~DV~~LK~   53 (150)
                      ++|..-+..|..|.+-|..+|.-|..||.
T Consensus        51 ~el~~h~~ei~~le~~i~rhk~~i~~l~~   79 (84)
T 1gmj_A           51 NEISHHAKEIERLQKEIERHKQSIKKLKQ   79 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            33444444444444444444444444444

>3uun_A Dystrophin; triple helical, cell structure and stability, cytoskeletal, structural protein; 2.30A {Homo sapiens}

Probab=80.10  E-value=11  Score=25.09  Aligned_cols=21  Identities=10%  Similarity=0.115  Sum_probs=9.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q psy9603          11 EDMASIKEDMVSIKEDMASIK   31 (150)
Q Consensus        11 ~dv~~LK~Dv~~LK~DV~~LK   31 (150)
                      .+...|..||..-+..|..+.
T Consensus        43 ~~h~~l~~ei~~~~~~v~~~~   63 (119)
T 3uun_A           43 HTHEGYMMDLTAHQGRVGNIL   63 (119)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhHHHHHHHH
Confidence            333444444444444444443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	150
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	95.37
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	95.16
d1ez3a_	124	Syntaxin 1A N-terminal domain {Rat (Rattus norvegi	93.67
d1fioa_	196	Sso1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	93.36
d1ez3a_	124	Syntaxin 1A N-terminal domain {Rat (Rattus norvegi	92.08
d1fioa_	196	Sso1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	88.16
d1lvfa_	106	Syntaxin 6, SNAP-25 homolog {Rat (Rattus norvegicu	86.88
d1lvfa_	106	Syntaxin 6, SNAP-25 homolog {Rat (Rattus norvegicu	83.24
d1gs9a_	144	Apolipoprotein E {Human (Homo sapiens), E4 [TaxId:	81.31
d1fxkc_	133	Prefoldin alpha subunit {Archaeon Methanobacterium	80.72
d1fxkc_	133	Prefoldin alpha subunit {Archaeon Methanobacterium	80.31

>d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: tRNA-binding arm
family: Seryl-tRNA synthetase (SerRS)
domain: Seryl-tRNA synthetase (SerRS)
species: Thermus thermophilus, strain hb27 [TaxId: 274]

Probab=95.37  E-value=0.027  Score=38.37  Aligned_cols=56  Identities=4%  Similarity=0.189  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASI-KVDMGSIKEDMGSIKDDMGSIKEDMASIKE   60 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~L-K~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~   60 (150)
                      ..+.++.++..|+.+.+.+-..|... ++|...|++.+.+||+++..|.+.+..+.+
T Consensus        36 ~rr~l~~~~e~l~~~rN~~sk~i~k~~~~~~~~l~~~~k~lk~~i~~le~~~~~~~~   92 (110)
T d1seta1          36 EVQELKKRLQEVQTERNQVAKRVPKAPPEEKEALIARGKALGEEAKRLEEALREKEA   92 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555556666555555555322 234444444455555555444444444443

>d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: tRNA-binding arm
family: Seryl-tRNA synthetase (SerRS)
domain: Seryl-tRNA synthetase (SerRS)
species: Thermus thermophilus, strain hb27 [TaxId: 274]

Probab=95.16  E-value=0.038  Score=37.60  Aligned_cols=60  Identities=5%  Similarity=0.190  Sum_probs=41.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy9603           3 KEDMGSIKEDMASIKEDMVS-IKEDMASIKVDMGSIKEDMGSIKDDMGSIKEDMASIKEDI   62 (150)
Q Consensus         3 k~Di~~Lk~dv~~LK~Dv~~-LK~DV~~LK~DV~~LK~DV~~LK~DV~~LK~Dvs~lK~Di   62 (150)
                      ...++.|+.+...+...|.. -++|..+|+..+..||+++.+|.+....+.+++..+=..|
T Consensus        41 ~~~~e~l~~~rN~~sk~i~k~~~~~~~~l~~~~k~lk~~i~~le~~~~~~~~~l~~~ll~i  101 (110)
T d1seta1          41 KKRLQEVQTERNQVAKRVPKAPPEEKEALIARGKALGEEAKRLEEALREKEARLEALLLQV  101 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            45666777777777777644 3456677777777777777777777777777777665444

>d1ez3a_ a.47.2.1 (A:) Syntaxin 1A N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: STAT-like
superfamily: t-snare proteins
family: t-snare proteins
domain: Syntaxin 1A N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.67  E-value=0.23  Score=33.81  Aligned_cols=20  Identities=20%  Similarity=0.270  Sum_probs=8.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q psy9603           9 IKEDMASIKEDMVSIKEDMA   28 (150)
Q Consensus         9 Lk~dv~~LK~Dv~~LK~DV~   28 (150)
                      +-++|..|+.+|..|+.+|.
T Consensus         8 Ff~eV~~Ir~~I~~i~~~v~   27 (124)
T d1ez3a_           8 FFEQVEEIRGFIDKIAENVE   27 (124)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444433

>d1fioa_ a.47.2.1 (A:) Sso1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: STAT-like
superfamily: t-snare proteins
family: t-snare proteins
domain: Sso1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.36  E-value=0.28  Score=34.02  Aligned_cols=27  Identities=11%  Similarity=0.302  Sum_probs=14.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIK   31 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK   31 (150)
                      |+..+-+++.+|+.+|..|+..|..|.
T Consensus         3 d~~~f~~~v~~I~~~i~~i~~~i~~L~   29 (196)
T d1fioa_           3 DFVGFMNKISQINRDLDKYDHTINQVD   29 (196)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555555555555555555554443

>d1ez3a_ a.47.2.1 (A:) Syntaxin 1A N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: STAT-like
superfamily: t-snare proteins
family: t-snare proteins
domain: Syntaxin 1A N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=92.08  E-value=0.78  Score=31.02  Aligned_cols=23  Identities=22%  Similarity=0.374  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKED   26 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~D   26 (150)
                      +++..|+.+|..|+.+|..|+.-
T Consensus        10 ~eV~~Ir~~I~~i~~~v~~i~~~   32 (124)
T d1ez3a_          10 EQVEEIRGFIDKIAENVEEVKRK   32 (124)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666777777777776666543

>d1fioa_ a.47.2.1 (A:) Sso1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: STAT-like
superfamily: t-snare proteins
family: t-snare proteins
domain: Sso1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.16  E-value=1.6  Score=29.87  Aligned_cols=22  Identities=9%  Similarity=0.327  Sum_probs=13.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q psy9603           4 EDMGSIKEDMASIKEDMVSIKE   25 (150)
Q Consensus         4 ~Di~~Lk~dv~~LK~Dv~~LK~   25 (150)
                      ++++.|+.+|..|+..|..|..
T Consensus         9 ~~v~~I~~~i~~i~~~i~~L~~   30 (196)
T d1fioa_           9 NKISQINRDLDKYDHTINQVDS   30 (196)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3556666666666666665554

>d1lvfa_ a.47.2.1 (A:) Syntaxin 6, SNAP-25 homolog {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: STAT-like
superfamily: t-snare proteins
family: t-snare proteins
domain: Syntaxin 6, SNAP-25 homolog
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=86.88  E-value=1.6  Score=29.46  Aligned_cols=21  Identities=14%  Similarity=0.189  Sum_probs=10.2

Q ss_pred             HHHHHHHHHHHHHHHHHhhhh
Q psy9603          41 MGSIKDDMGSIKEDMASIKED   61 (150)
Q Consensus        41 V~~LK~DV~~LK~Dvs~lK~D   61 (150)
                      ++.-|+=|..++..|+.+|+.
T Consensus        82 i~~Rr~fi~~~~~~I~~~~~~  102 (106)
T d1lvfa_          82 LSIRKAFITSTRQIVRDMKDQ  102 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333344445555555555544

>d1lvfa_ a.47.2.1 (A:) Syntaxin 6, SNAP-25 homolog {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: STAT-like
superfamily: t-snare proteins
family: t-snare proteins
domain: Syntaxin 6, SNAP-25 homolog
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=83.24  E-value=2.6  Score=28.29  Aligned_cols=23  Identities=17%  Similarity=0.238  Sum_probs=11.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          34 MGSIKEDMGSIKDDMGSIKEDMA   56 (150)
Q Consensus        34 V~~LK~DV~~LK~DV~~LK~Dvs   56 (150)
                      |+.=|.=|+.++.-|..||+.|+
T Consensus        82 i~~Rr~fi~~~~~~I~~~~~~l~  104 (106)
T d1lvfa_          82 LSIRKAFITSTRQIVRDMKDQMS  104 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Confidence            44444555555555555555554

>d1gs9a_ a.24.1.1 (A:) Apolipoprotein E {Human (Homo sapiens), E4 [TaxId: 9606]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Apolipoprotein
family: Apolipoprotein
domain: Apolipoprotein E
species: Human (Homo sapiens), E4 [TaxId: 9606]

Probab=81.31  E-value=1.5  Score=30.46  Aligned_cols=31  Identities=10%  Similarity=0.257  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHHHH-HHHHHHHHHhhhhcCCCC
Q psy9603          36 SIKEDMGSIKDDM-GSIKEDMASIKEDIGGYG   66 (150)
Q Consensus        36 ~LK~DV~~LK~DV-~~LK~Dvs~lK~DigGyg   66 (150)
                      .+|+.+...-+++ ..|..++.+|+..+.=||
T Consensus       111 e~r~~l~p~~eel~~~l~~~~eel~~kL~py~  142 (144)
T d1gs9a_         111 ELRVRLASHLRKLRKRLLRDADDLQKRLAVYQ  142 (144)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcc
Confidence            4444444332222 234556666666665555

>d1fxkc_ a.2.5.1 (C:) Prefoldin alpha subunit {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Prefoldin
family: Prefoldin
domain: Prefoldin alpha subunit
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=80.72  E-value=2.4  Score=28.64  Aligned_cols=32  Identities=13%  Similarity=0.297  Sum_probs=14.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603          14 ASIKEDMVSIKEDMASIKVDMGSIKEDMGSIK   45 (150)
Q Consensus        14 ~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~LK   45 (150)
                      .+|..-+..+++++..|.+-+..|+..++++.
T Consensus         4 ~eL~~~~~~l~~~l~~l~~~i~~l~~~~~e~~   35 (133)
T d1fxkc_           4 AEIVAQLNIYQSQVELIQQQMEAVRATISELE   35 (133)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444443

>d1fxkc_ a.2.5.1 (C:) Prefoldin alpha subunit {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Prefoldin
family: Prefoldin
domain: Prefoldin alpha subunit
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=80.31  E-value=2.7  Score=28.33  Aligned_cols=40  Identities=8%  Similarity=0.232  Sum_probs=25.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy9603           5 DMGSIKEDMASIKEDMVSIKEDMASIKVDMGSIKEDMGSI   44 (150)
Q Consensus         5 Di~~Lk~dv~~LK~Dv~~LK~DV~~LK~DV~~LK~DV~~L   44 (150)
                      +|..|...+..|++++..|.+-+..|+..++.+..=...|
T Consensus         2 ~L~eL~~~~~~l~~~l~~l~~~i~~l~~~~~e~~~~~~~L   41 (133)
T d1fxkc_           2 ALAEIVAQLNIYQSQVELIQQQMEAVRATISELEILEKTL   41 (133)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566777777777777777777777766666555433333