Citrus Sinensis ID: 045403

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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----
Protein Sequence
MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFMRKFFIF
Secondary Structure (PSIPRED)
ccHHccccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEHHHHHHHHHccccHHHHHHHHHHHHHHHHccccccEEEEEcc
Secondary Structure Prediction (SSPRO)
cHHHHHccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHccc
Coil and Loop (DISEMBL)
misafcrggcFEEAKQLARDFEAKYDKYDVVLLNSMLCaycrtgdmESVIHVMRKLDelaispdyntFHILIKYFRKEKMYMLAYRTMVDmhkkghqpeeELCSSLIFHLGKMRAHSEALCLQHVKDIAkdrcampfmrkffif
Flexible Loop (DISEMBL)
misafcrggcFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDelaispdyntFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFMRKFFIF
Low Complexity Region (SEG)
MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFMRKFFIF
Disordered region (IsUnstruct)
***AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKG****EELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFMRKFFI*
Disordered Region (DISOPRED)
MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFMRKFFIF
Disordered Region (DISEMBL)
MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFMRKFFIF
Disordered Region (DISPRO)
MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFMRKFFIF
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFMRKFFIF
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	144	2.2.26 [Sep-21-2011]
Q0WVV0	664	Pentatricopeptide repeat-	yes	no	0.847	0.183	0.663	7e-45
Q9LPX2	644	Pentatricopeptide repeat-	no	no	0.583	0.130	0.275	6e-08
Q0WVK7	741	Pentatricopeptide repeat-	no	no	0.722	0.140	0.261	1e-07
Q5G1S8	1440	Pentatricopeptide repeat-	no	no	0.819	0.081	0.260	3e-07
Q9ZQF1	627	Pentatricopeptide repeat-	no	no	0.722	0.165	0.261	6e-07
Q9LUD6	405	Pentatricopeptide repeat-	no	no	0.826	0.293	0.243	7e-07
Q9T0D6	566	Pentatricopeptide repeat-	no	no	0.916	0.233	0.253	1e-06
Q9FMF6	730	Pentatricopeptide repeat-	no	no	0.527	0.104	0.324	1e-06
Q9ASZ8	621	Pentatricopeptide repeat-	no	no	0.979	0.227	0.25	1e-06
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.812	0.156	0.277	2e-06

>sp|Q0WVV0|PPR31_ARATH Pentatricopeptide repeat-containing protein At1g10910, chloroplastic OS=Arabidopsis thaliana GN=At1g10910 PE=2 SV=1

 Score =  179 bits (453), Expect = 7e-45,   Method: Compositional matrix adjust.
 Identities = 81/122 (66%), Positives = 104/122 (85%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           MISA CR   F+EAK+L+RD E  Y+K D+V+LN+MLCAYCR G+MESV+ +M+K+DE A
Sbjct: 383 MISALCRSKRFKEAKELSRDSETTYEKCDLVMLNTMLCAYCRAGEMESVMRMMKKMDEQA 442

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           +SPDYNTFHILIKYF KEK+++LAY+T +DMH KGH+ EEELCSSLI+HLGK+RA +EA 
Sbjct: 443 VSPDYNTFHILIKYFIKEKLHLLAYQTTLDMHSKGHRLEEELCSSLIYHLGKIRAQAEAF 502

Query: 121 CL 122
            +
Sbjct: 503 SV 504

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LPX2|PPR39_ARATH Pentatricopeptide repeat-containing protein At1g12775, mitochondrial OS=Arabidopsis thaliana GN=At1g12775 PE=2 SV=1

 Score = 56.2 bits (134), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 33/120 (27%), Positives = 57/120 (47%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           +I   C+ G  + A  L  + E K  K D++  N+++  +C  G  +    ++R + +  
Sbjct: 269 IIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGAKLLRDMIKRK 328

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISP+  TF +LI  F KE     A + + +M ++G  P     +SLI    K     EA+
Sbjct: 329 ISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAPNTITYNSLIDGFCKENRLEEAI 388

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WVK7|PPR12_ARATH Pentatricopeptide repeat-containing protein At1g05670, mitochondrial OS=Arabidopsis thaliana GN=At1g05670 PE=2 SV=1

 Score = 55.1 bits (131), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/107 (26%), Positives = 54/107 (50%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           +++  C+ G  EEA +L  +FEA     D V   +++ AYC++G+M+    +++++    
Sbjct: 497 IVNGLCKSGNIEEAVKLVGEFEAAGLNADTVTYTTLMDAYCKSGEMDKAQEILKEMLGKG 556

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLI 107
           + P   TF++L+  F    M     + +  M  KG  P     +SL+
Sbjct: 557 LQPTIVTFNVLMNGFCLHGMLEDGEKLLNWMLAKGIAPNATTFNSLV 603

Arabidopsis thaliana (taxid: 3702)

>sp|Q5G1S8|PP241_ARATH Pentatricopeptide repeat-containing protein At3g18110, chloroplastic OS=Arabidopsis thaliana GN=EMB1270 PE=2 SV=2

 Score = 53.9 bits (128), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 31/119 (26%), Positives = 55/119 (46%)

Query: 1    MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
            MI   C+G    +A+ +  + E    K ++ + NSML  Y    D +  + V +++ E  
Sbjct: 898  MIELLCKGKRVRDAEIMVSEMEEANFKVELAIWNSMLKMYTAIEDYKKTVQVYQRIKETG 957

Query: 61   ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEA 119
            + PD  T++ LI  + +++     Y  M  M   G  P+ +   SLI   GK +   +A
Sbjct: 958  LEPDETTYNTLIIMYCRDRRPEEGYLLMQQMRNLGLDPKLDTYKSLISAFGKQKCLEQA 1016

May play a role in embryogenesis.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZQF1|PP152_ARATH Pentatricopeptide repeat-containing protein At2g15630, mitochondrial OS=Arabidopsis thaliana GN=At2g15630 PE=3 SV=1

 Score = 52.8 bits (125), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 28/107 (26%), Positives = 59/107 (55%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           +I   CR     EA +L      K  K D+V++N+++  +C  G+M+    +++++D ++
Sbjct: 438 LIYVLCRKNKTREADELFEKVVGKGMKPDLVMMNTLMDGHCAIGNMDRAFSLLKEMDMMS 497

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLI 107
           I+PD  T++ L++    E  +  A   M +M ++G +P+    ++LI
Sbjct: 498 INPDDVTYNCLMRGLCGEGKFEEARELMGEMKRRGIKPDHISYNTLI 544

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LUD6|PP230_ARATH Pentatricopeptide repeat-containing protein At3g14580, mitochondrial OS=Arabidopsis thaliana GN=At3g14580 PE=2 SV=1

 Score = 52.8 bits (125), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 29/119 (24%), Positives = 54/119 (45%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           +I   C  G  E A QL  +F  +  + +V+  + ++  +C  G  E    ++ ++++  
Sbjct: 208 LIKGLCESGNLEAALQLLDEFPQQKSRPNVMTFSPLIRGFCNKGKFEEAFKLLERMEKER 267

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEA 119
           I PD  TF+ILI   RK+         +  M  KG +P       +++ L   + + EA
Sbjct: 268 IEPDTITFNILISGLRKKGRVEEGIDLLERMKVKGCEPNPGTYQEVLYGLLDKKRNLEA 326

Arabidopsis thaliana (taxid: 3702)

>sp|Q9T0D6|PP306_ARATH Pentatricopeptide repeat-containing protein At4g11690 OS=Arabidopsis thaliana GN=At4g11690 PE=2 SV=1

 Score = 52.0 bits (123), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 34/134 (25%), Positives = 66/134 (49%), Gaps = 2/134 (1%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           ++S FCR G    A ++ ++ E +  K   V    ++  + R+ +ME  I +   ++EL 
Sbjct: 379 LVSGFCRKGDTSGAAKMVKEMEERGIKPSKVTYTILIDTFARSDNMEKAIQLRLSMEELG 438

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           + PD +T+ +LI  F  +     A R    M +K  +P E + +++I  LG  +  S   
Sbjct: 439 LVPDVHTYSVLIHGFCIKGQMNEASRLFKSMVEKNCEPNEVIYNTMI--LGYCKEGSSYR 496

Query: 121 CLQHVKDIAKDRCA 134
            L+ +K++ +   A
Sbjct: 497 ALKLLKEMEEKELA 510

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FMF6|PP444_ARATH Pentatricopeptide repeat-containing protein At5g64320, mitochondrial OS=Arabidopsis thaliana GN=At5g64320 PE=2 SV=1

 Score = 52.0 bits (123), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/77 (32%), Positives = 40/77 (51%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           +I+  CR G  EEA +  ++   +    D+V  NS++   CR G +E  + + RKL    
Sbjct: 605 LINGLCRSGMVEEAVEFQKEMVLRGSTPDIVTFNSLINGLCRAGRIEDGLTMFRKLQAEG 664

Query: 61  ISPDYNTFHILIKYFRK 77
           I PD  TF+ L+ +  K
Sbjct: 665 IPPDTVTFNTLMSWLCK 681

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ASZ8|PPR37_ARATH Pentatricopeptide repeat-containing protein At1g12620 OS=Arabidopsis thaliana GN=At1g12620 PE=2 SV=1

 Score = 51.6 bits (122), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 36/144 (25%), Positives = 63/144 (43%), Gaps = 3/144 (2%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           +I   C+ G  + A  L  + E K  K D+++  +++  +C  G  +    ++R + +  
Sbjct: 253 IIDGLCKDGSLDNAFNLFNEMEIKGFKADIIIYTTLIRGFCYAGRWDDGAKLLRDMIKRK 312

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           I+PD   F  LI  F KE     A     +M ++G  P+    +SLI    K     +A 
Sbjct: 313 ITPDVVAFSALIDCFVKEGKLREAEELHKEMIQRGISPDTVTYTSLIDGFCKENQLDKA- 371

Query: 121 CLQHVKDIAKDRCAMPFMRKFFIF 144
              H+ D+   +   P +R F I 
Sbjct: 372 --NHMLDLMVSKGCGPNIRTFNIL 393

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIX3|PP407_ARATH Pentatricopeptide repeat-containing protein At5g39710 OS=Arabidopsis thaliana GN=EMB2745 PE=2 SV=1

 Score = 51.6 bits (122), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 33/119 (27%), Positives = 56/119 (47%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           ++  F + G   EA ++ R+         VV  N+++  +C TG ME  I V+  + E  
Sbjct: 386 LVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAIAVLEDMKEKG 445

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEA 119
           +SPD  ++  ++  F +      A R   +M +KG +P+    SSLI    + R   EA
Sbjct: 446 LSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTITYSSLIQGFCEQRRTKEA 504

Arabidopsis thaliana (taxid: 3702)

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	144
359486048	659	PREDICTED: pentatricopeptide repeat-cont	0.847	0.185	0.786	1e-52
224058965	562	predicted protein [Populus trichocarpa]	0.847	0.217	0.778	3e-52
224073298	378	predicted protein [Populus trichocarpa]	0.847	0.322	0.770	1e-51
449446895	668	PREDICTED: pentatricopeptide repeat-cont	0.868	0.187	0.72	4e-50
255576798	672	pentatricopeptide repeat-containing prot	0.847	0.181	0.754	6e-50
357445509	627	Pentatricopeptide repeat-containing prot	0.805	0.185	0.688	7e-46
356525958	630	PREDICTED: pentatricopeptide repeat-cont	0.847	0.193	0.696	2e-45
145335386	664	pentatricopeptide repeat-containing prot	0.847	0.183	0.663	5e-43
297843920	665	hypothetical protein ARALYDRAFT_888388 [	0.847	0.183	0.680	8e-43
1931651	652	membrane-associated salt-inducible prote	0.694	0.153	0.66	2e-33

>gi|359486048|ref|XP_002270184.2| PREDICTED: pentatricopeptide repeat-containing protein At1g10910, chloroplastic [Vitis vinifera] gi|298204537|emb|CBI23812.3| unnamed protein product [Vitis vinifera]

 Score =  210 bits (535), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 96/122 (78%), Positives = 110/122 (90%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           MISAFCR G  +EAKQLARDFEA YDKYD+V+LN+MLCAYCR G+MESV+ +MRK+DELA
Sbjct: 387 MISAFCRSGLLKEAKQLARDFEATYDKYDLVMLNTMLCAYCRAGEMESVMQMMRKMDELA 446

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISPD+NTFHILIKYF KEK+Y+LAYRTM DMH KGHQPEEELCSSLI HLGK+RAHS+A 
Sbjct: 447 ISPDWNTFHILIKYFCKEKLYLLAYRTMEDMHNKGHQPEEELCSSLISHLGKIRAHSQAF 506

Query: 121 CL 122
            +
Sbjct: 507 SV 508

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224058965|ref|XP_002299667.1| predicted protein [Populus trichocarpa] gi|222846925|gb|EEE84472.1| predicted protein [Populus trichocarpa]

 Score =  209 bits (532), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 95/122 (77%), Positives = 111/122 (90%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           MIS+FCRGG FEEAK+LA +FEAKYDKYDVV+LN++LCAYCRTG+ ESV+  MRK+DELA
Sbjct: 290 MISSFCRGGLFEEAKELAEEFEAKYDKYDVVILNTILCAYCRTGEKESVMRTMRKMDELA 349

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISPDYNTFHILIKYF KEK+YMLAY+TM DMH+KGHQP EELCSSLI HLGK++AH+EA 
Sbjct: 350 ISPDYNTFHILIKYFCKEKLYMLAYQTMEDMHRKGHQPMEELCSSLILHLGKIKAHAEAF 409

Query: 121 CL 122
            +
Sbjct: 410 SV 411

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224073298|ref|XP_002304067.1| predicted protein [Populus trichocarpa] gi|222841499|gb|EEE79046.1| predicted protein [Populus trichocarpa]

 Score =  207 bits (526), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 94/122 (77%), Positives = 110/122 (90%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           MIS+FCRGG FEEAK+LA +FEAKYDKYDV + N++LCAYCR G+MESV+  MRK+DELA
Sbjct: 172 MISSFCRGGLFEEAKELAEEFEAKYDKYDVAISNAILCAYCRAGEMESVMRTMRKMDELA 231

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISPDYNTFHILIKYF KEK+YMLAY+TM DMH+KGHQP EELCSSL+FHLGK++AHSEA 
Sbjct: 232 ISPDYNTFHILIKYFCKEKLYMLAYQTMEDMHRKGHQPAEELCSSLLFHLGKIKAHSEAF 291

Query: 121 CL 122
            +
Sbjct: 292 SV 293

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449446895|ref|XP_004141206.1| PREDICTED: pentatricopeptide repeat-containing protein At1g10910, chloroplastic-like [Cucumis sativus]

 Score =  202 bits (514), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 90/125 (72%), Positives = 110/125 (88%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           MISAFCRGG  EEAK LA+DFEA YD+YD+V+LN+MLCAYCR G+MESV+ ++RK+D+LA
Sbjct: 389 MISAFCRGGLLEEAKLLAKDFEATYDRYDIVILNTMLCAYCRAGEMESVMQMLRKMDDLA 448

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISPDYNTFHILIKYF KEK+Y+L YRT+ DMH+KGHQPEEELCSSLI  LG +RA+SEA 
Sbjct: 449 ISPDYNTFHILIKYFFKEKLYLLCYRTLEDMHRKGHQPEEELCSSLILSLGNIRAYSEAF 508

Query: 121 CLQHV 125
            + ++
Sbjct: 509 SVYNI 513

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255576798|ref|XP_002529286.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223531275|gb|EEF33118.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  201 bits (512), Expect = 6e-50,   Method: Compositional matrix adjust.
 Identities = 92/122 (75%), Positives = 108/122 (88%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           MISA+CRG   EEAKQLA++FEAKYDKYDVV+LN+MLCAYCR GDMESV+  MRK+DELA
Sbjct: 398 MISAYCRGRLLEEAKQLAKEFEAKYDKYDVVILNTMLCAYCRAGDMESVMQTMRKMDELA 457

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISP Y TFHILIKYF K+K+Y+LAY+TM DMH+KGHQPEEELCS LIFHLGK +A++EA 
Sbjct: 458 ISPSYCTFHILIKYFCKQKLYLLAYQTMEDMHRKGHQPEEELCSMLIFHLGKAKAYTEAF 517

Query: 121 CL 122
            +
Sbjct: 518 SV 519

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357445509|ref|XP_003593032.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355482080|gb|AES63283.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  188 bits (477), Expect = 7e-46,   Method: Compositional matrix adjust.
 Identities = 84/122 (68%), Positives = 104/122 (85%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           +ISAFCR   F+EAKQLA+DF+  +DKYDVV++NSMLCA+CR G+MESV+  +RK+DELA
Sbjct: 355 IISAFCRAKLFQEAKQLAKDFQTTFDKYDVVIMNSMLCAFCRAGEMESVMETLRKMDELA 414

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISPDYNTF+ILIKYF ++ MY+LAYRT +DMH KG+QP EELCSSLI+HLG+  A SEA 
Sbjct: 415 ISPDYNTFNILIKYFCRKNMYLLAYRTTMDMHSKGYQPAEELCSSLIYHLGQENASSEAF 474

Query: 121 CL 122
            L
Sbjct: 475 SL 476

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356525958|ref|XP_003531588.1| PREDICTED: pentatricopeptide repeat-containing protein At1g10910, chloroplastic-like [Glycine max]

 Score =  187 bits (474), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 85/122 (69%), Positives = 102/122 (83%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           MISAFCR   F EAKQLA+DFE   +KYD+V+LNSMLCA+CR G+ME V+  ++K+DELA
Sbjct: 357 MISAFCRAKLFREAKQLAKDFETTSNKYDLVILNSMLCAFCRVGEMERVMETLKKMDELA 416

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           I+P YNTFHILIKYF +EKMY+LAYRTM DMH KGHQP EELCSSLI HLG++ A+SEA 
Sbjct: 417 INPGYNTFHILIKYFCREKMYLLAYRTMKDMHSKGHQPVEELCSSLISHLGQVNAYSEAF 476

Query: 121 CL 122
            +
Sbjct: 477 SV 478

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|145335386|ref|NP_172560.2| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|122242678|sp|Q0WVV0.1|PPR31_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At1g10910, chloroplastic; Flags: Precursor gi|110741600|dbj|BAE98748.1| membrane-associated salt-inducible protein isolog [Arabidopsis thaliana] gi|332190541|gb|AEE28662.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  179 bits (453), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 81/122 (66%), Positives = 104/122 (85%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           MISA CR   F+EAK+L+RD E  Y+K D+V+LN+MLCAYCR G+MESV+ +M+K+DE A
Sbjct: 383 MISALCRSKRFKEAKELSRDSETTYEKCDLVMLNTMLCAYCRAGEMESVMRMMKKMDEQA 442

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           +SPDYNTFHILIKYF KEK+++LAY+T +DMH KGH+ EEELCSSLI+HLGK+RA +EA 
Sbjct: 443 VSPDYNTFHILIKYFIKEKLHLLAYQTTLDMHSKGHRLEEELCSSLIYHLGKIRAQAEAF 502

Query: 121 CL 122
            +
Sbjct: 503 SV 504

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297843920|ref|XP_002889841.1| hypothetical protein ARALYDRAFT_888388 [Arabidopsis lyrata subsp. lyrata] gi|297335683|gb|EFH66100.1| hypothetical protein ARALYDRAFT_888388 [Arabidopsis lyrata subsp. lyrata]

 Score =  178 bits (451), Expect = 8e-43,   Method: Compositional matrix adjust.
 Identities = 83/122 (68%), Positives = 103/122 (84%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           MISA CR   FEEAK+L+RD E  Y+K D+V+LN+MLCAYCR G+MESV+ +M+K+DE A
Sbjct: 384 MISALCRSKRFEEAKELSRDSETTYEKCDLVMLNTMLCAYCRAGEMESVMRMMKKMDEQA 443

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           I PDYNTFHILIKYF KEK+++LAY+T +DMH KGH+ EEELCSSLI+HLGK+RA SEA 
Sbjct: 444 IIPDYNTFHILIKYFIKEKLHLLAYQTTLDMHSKGHRLEEELCSSLIYHLGKIRAPSEAF 503

Query: 121 CL 122
            +
Sbjct: 504 SV 505

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|1931651|gb|AAB65486.1| membrane-associated salt-inducible protein isolog; 88078-84012 [Arabidopsis thaliana]

 Score =  147 bits (370), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 66/100 (66%), Positives = 85/100 (85%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
           MISA CR   F+EAK+L+RD E  Y+K D+V+LN+MLCAYCR G+MESV+ +M+K+DE A
Sbjct: 383 MISALCRSKRFKEAKELSRDSETTYEKCDLVMLNTMLCAYCRAGEMESVMRMMKKMDEQA 442

Query: 61  ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEE 100
           +SPDYNTFHILIKYF KEK+++LAY+T +DMH KGH+ EE
Sbjct: 443 VSPDYNTFHILIKYFIKEKLHLLAYQTTLDMHSKGHRLEE 482

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

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	144
TAIR|locus:2197424	664	EMB3103 "EMBRYO DEFECTIVE 3103	0.902	0.195	0.630	2.5e-42
TAIR|locus:2139732	566	AT4G11690 [Arabidopsis thalian	0.916	0.233	0.253	2.4e-07
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.833	0.186	0.275	2.8e-07
TAIR|locus:2053552	627	AT2G15630 "AT2G15630" [Arabido	0.743	0.170	0.261	3.5e-07
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.743	0.172	0.308	7.2e-07
TAIR|locus:2089581	405	AT3G14580 "AT3G14580" [Arabido	0.826	0.293	0.243	1.3e-06
TAIR|locus:2024367	607	AT1G09680 "AT1G09680" [Arabido	0.784	0.186	0.238	1.5e-06
TAIR|locus:2195047	621	AT1G12620 [Arabidopsis thalian	0.972	0.225	0.251	1.9e-06
TAIR|locus:2097395	638	AT3G49730 [Arabidopsis thalian	0.729	0.164	0.287	2e-06
TAIR|locus:504956171	650	ABO5 "ABA Overly-Sensitive 5"	0.840	0.186	0.284	2.1e-06

TAIR|locus:2197424 EMB3103 "EMBRYO DEFECTIVE 3103" [Arabidopsis thaliana (taxid:3702)]

 Score = 450 (163.5 bits), Expect = 2.5e-42, P = 2.5e-42
 Identities = 82/130 (63%), Positives = 108/130 (83%)

Query:     1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
             MISA CR   F+EAK+L+RD E  Y+K D+V+LN+MLCAYCR G+MESV+ +M+K+DE A
Sbjct:   383 MISALCRSKRFKEAKELSRDSETTYEKCDLVMLNTMLCAYCRAGEMESVMRMMKKMDEQA 442

Query:    61 ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
             +SPDYNTFHILIKYF KEK+++LAY+T +DMH KGH+ EEELCSSLI+HLGK+RA +EA 
Sbjct:   443 VSPDYNTFHILIKYFIKEKLHLLAYQTTLDMHSKGHRLEEELCSSLIYHLGKIRAQAEAF 502

Query:   121 CLQHVKDIAK 130
              + ++   +K
Sbjct:   503 SVYNMLRYSK 512

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA

TAIR|locus:2139732 AT4G11690 [Arabidopsis thaliana (taxid:3702)]

 Score = 128 (50.1 bits), Expect = 2.4e-07, P = 2.4e-07
 Identities = 34/134 (25%), Positives = 66/134 (49%)

Query:     1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
             ++S FCR G    A ++ ++ E +  K   V    ++  + R+ +ME  I +   ++EL 
Sbjct:   379 LVSGFCRKGDTSGAAKMVKEMEERGIKPSKVTYTILIDTFARSDNMEKAIQLRLSMEELG 438

Query:    61 ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
             + PD +T+ +LI  F  +     A R    M +K  +P E + +++I  LG  +  S   
Sbjct:   439 LVPDVHTYSVLIHGFCIKGQMNEASRLFKSMVEKNCEPNEVIYNTMI--LGYCKEGSSYR 496

Query:   121 CLQHVKDIAKDRCA 134
              L+ +K++ +   A
Sbjct:   497 ALKLLKEMEEKELA 510

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:1009023134 AT1G12775 [Arabidopsis thaliana (taxid:3702)]

 Score = 128 (50.1 bits), Expect = 2.8e-07, P = 2.8e-07
 Identities = 33/120 (27%), Positives = 57/120 (47%)

Query:     1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
             +I   C+ G  + A  L  + E K  K D++  N+++  +C  G  +    ++R + +  
Sbjct:   269 IIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGAKLLRDMIKRK 328

Query:    61 ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
             ISP+  TF +LI  F KE     A + + +M ++G  P     +SLI    K     EA+
Sbjct:   329 ISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAPNTITYNSLIDGFCKENRLEEAI 388

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2053552 AT2G15630 "AT2G15630" [Arabidopsis thaliana (taxid:3702)]

 Score = 127 (49.8 bits), Expect = 3.5e-07, P = 3.5e-07
 Identities = 28/107 (26%), Positives = 59/107 (55%)

Query:     1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
             +I   CR     EA +L      K  K D+V++N+++  +C  G+M+    +++++D ++
Sbjct:   438 LIYVLCRKNKTREADELFEKVVGKGMKPDLVMMNTLMDGHCAIGNMDRAFSLLKEMDMMS 497

Query:    61 ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLI 107
             I+PD  T++ L++    E  +  A   M +M ++G +P+    ++LI
Sbjct:   498 INPDDVTYNCLMRGLCGEGKFEEARELMGEMKRRGIKPDHISYNTLI 544

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2077061 AT3G22470 "AT3G22470" [Arabidopsis thaliana (taxid:3702)]

 Score = 124 (48.7 bits), Expect = 7.2e-07, P = 7.2e-07
 Identities = 33/107 (30%), Positives = 52/107 (48%)

Query:     1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
             +I + C+ G F++A  L  + E K  K DVV  +S++   C  G  +    ++R++    
Sbjct:   251 VIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRN 310

Query:    61 ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLI 107
             I PD  TF  LI  F KE   + A     +M  +G  P+    +SLI
Sbjct:   311 IIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLI 357

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2089581 AT3G14580 "AT3G14580" [Arabidopsis thaliana (taxid:3702)]

 Score = 119 (46.9 bits), Expect = 1.3e-06, P = 1.3e-06
 Identities = 29/119 (24%), Positives = 54/119 (45%)

Query:     1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
             +I   C  G  E A QL  +F  +  + +V+  + ++  +C  G  E    ++ ++++  
Sbjct:   208 LIKGLCESGNLEAALQLLDEFPQQKSRPNVMTFSPLIRGFCNKGKFEEAFKLLERMEKER 267

Query:    61 ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEA 119
             I PD  TF+ILI   RK+         +  M  KG +P       +++ L   + + EA
Sbjct:   268 IEPDTITFNILISGLRKKGRVEEGIDLLERMKVKGCEPNPGTYQEVLYGLLDKKRNLEA 326

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2024367 AT1G09680 "AT1G09680" [Arabidopsis thaliana (taxid:3702)]

 Score = 121 (47.7 bits), Expect = 1.5e-06, P = 1.5e-06
 Identities = 27/113 (23%), Positives = 55/113 (48%)

Query:     1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
             +I  FCRGG  E A ++ ++ +    + D V  ++++C  C+ G +      +R++    
Sbjct:   421 LIDGFCRGGDVETALEIRKEMDQNGIELDRVGFSALVCGMCKEGRVIDAERALREMLRAG 480

Query:    61 ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKM 113
             I PD  T+ +++  F K+      ++ + +M   GH P     + L+  L K+
Sbjct:   481 IKPDDVTYTMMMDAFCKKGDAQTGFKLLKEMQSDGHVPSVVTYNVLLNGLCKL 533

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2195047 AT1G12620 [Arabidopsis thaliana (taxid:3702)]

 Score = 120 (47.3 bits), Expect = 1.9e-06, P = 1.9e-06
 Identities = 36/143 (25%), Positives = 63/143 (44%)

Query:     1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
             +I   C+ G  + A  L  + E K  K D+++  +++  +C  G  +    ++R + +  
Sbjct:   253 IIDGLCKDGSLDNAFNLFNEMEIKGFKADIIIYTTLIRGFCYAGRWDDGAKLLRDMIKRK 312

Query:    61 ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL 120
             I+PD   F  LI  F KE     A     +M ++G  P+    +SLI    K     +A 
Sbjct:   313 ITPDVVAFSALIDCFVKEGKLREAEELHKEMIQRGISPDTVTYTSLIDGFCKENQLDKA- 371

Query:   121 CLQHVKDIAKDRCAMPFMRKFFI 143
                H+ D+   +   P +R F I
Sbjct:   372 --NHMLDLMVSKGCGPNIRTFNI 392

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2097395 AT3G49730 [Arabidopsis thaliana (taxid:3702)]

 Score = 120 (47.3 bits), Expect = 2.0e-06, P = 2.0e-06
 Identities = 31/108 (28%), Positives = 52/108 (48%)

Query:     1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA 60
             ++ A C+ G  +EA ++  D   K+   ++    S+L  +CR G +     V+ ++ E  
Sbjct:   208 LLDALCKNGSVKEASKVFEDMREKFPP-NLRYFTSLLYGWCREGKLMEAKEVLVQMKEAG 266

Query:    61 ISPDYNTF-HILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLI 107
             + PD   F ++L  Y    KM   AY  M DM K+G +P     + LI
Sbjct:   267 LEPDIVVFTNLLSGYAHAGKMAD-AYDLMNDMRKRGFEPNVNCYTVLI 313

GO:0005739 "mitochondrion" evidence=ISM

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

GO:0009691 "cytokinin biosynthetic process" evidence=RCA

TAIR|locus:504956171 ABO5 "ABA Overly-Sensitive 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 120 (47.3 bits), Expect = 2.1e-06, P = 2.1e-06
 Identities = 35/123 (28%), Positives = 63/123 (51%)

Query:     1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHV-MRKLDEL 59
             +I++F R G  +EA  +  + E    K D++  NS++    + GD++   HV  +++ E 
Sbjct:   483 LIASFGRVGEVDEAINIFEELERSDCKPDIISYNSLINCLGKNGDVDEA-HVRFKEMQEK 541

Query:    60 AISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEA 119
              ++PD  T+  L++ F K +   +AY    +M  KG QP     + L+  L K    +EA
Sbjct:   542 GLNPDVVTYSTLMECFGKTERVEMAYSLFEEMLVKGCQPNIVTYNILLDCLEKNGRTAEA 601

Query:   120 LCL 122
             + L
Sbjct:   602 VDL 604

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008380 "RNA splicing" evidence=IMP

GO:0009737 "response to abscisic acid stimulus" evidence=IMP

---

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 Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	144
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-05

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 39.7 bits (94), Expect = 2e-05
 Identities = 15/49 (30%), Positives = 27/49 (55%)

Query: 29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK 77
          DVV  N+++  YC+ G +E  + +  ++ +  I P+  T+ ILI    K
Sbjct: 2  DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	144
PLN03218	1060	maturation of RBCL 1; Provisional	99.96
PLN03218	1060	maturation of RBCL 1; Provisional	99.96
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.95
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.95
PLN03077	857	Protein ECB2; Provisional	99.94
PLN03077	857	Protein ECB2; Provisional	99.94
PF13041	50	PPR_2: PPR repeat family	99.77
PF13041	50	PPR_2: PPR repeat family	99.71
PF12854	34	PPR_1: PPR repeat	99.33
PF12854	34	PPR_1: PPR repeat	99.31
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.29
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.28
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.27
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.11
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.09
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.06
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	99.03
PF13812	34	PPR_3: Pentatricopeptide repeat domain	99.0
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.93
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.92
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.91
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.85
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.85
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.84
PRK12370	553	invasion protein regulator; Provisional	98.83
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.79
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.79
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.76
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.76
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.74
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.68
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.66
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.64
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.64
PRK12370	553	invasion protein regulator; Provisional	98.61
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.61
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.59
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.58
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.57
PRK11189	296	lipoprotein NlpI; Provisional	98.57
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.56
PRK15359	144	type III secretion system chaperone protein SscB;	98.5
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.5
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.48
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	98.46
PRK15359	144	type III secretion system chaperone protein SscB;	98.46
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.45
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.44
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.44
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.42
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.39
PRK14574	822	hmsH outer membrane protein; Provisional	98.37
PRK14574	822	hmsH outer membrane protein; Provisional	98.37
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.36
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.34
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.34
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	98.33
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.33
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.32
PRK11189	296	lipoprotein NlpI; Provisional	98.32
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.32
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.31
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	98.31
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.31
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.3
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.29
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.25
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.24
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.24
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.23
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.23
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.23
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	98.2
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	98.2
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.19
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.19
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.13
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.13
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.12
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.11
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.1
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.08
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.06
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.06
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.04
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	98.02
KOG3941	406	consensus Intermediate in Toll signal transduction	98.02
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	98.0
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.99
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.99
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	97.94
KOG1129	478	consensus TPR repeat-containing protein [General f	97.93
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.91
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.91
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	97.9
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.89
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.83
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.82
KOG1126	638	consensus DNA-binding cell division cycle control	97.81
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.81
KOG2076	895	consensus RNA polymerase III transcription factor	97.79
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.79
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.78
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.78
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.76
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.74
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	97.74
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.74
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.71
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.7
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.68
KOG1915	677	consensus Cell cycle control protein (crooked neck	97.68
KOG1126	638	consensus DNA-binding cell division cycle control	97.66
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.65
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.61
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.59
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.58
KOG2076	895	consensus RNA polymerase III transcription factor	97.58
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.56
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.56
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.56
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	97.53
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.51
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.51
KOG3941	406	consensus Intermediate in Toll signal transduction	97.48
KOG1129	478	consensus TPR repeat-containing protein [General f	97.48
KOG2003	840	consensus TPR repeat-containing protein [General f	97.45
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	97.44
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.44
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.41
PLN02789	320	farnesyltranstransferase	97.4
KOG4340	459	consensus Uncharacterized conserved protein [Funct	97.39
KOG0553	304	consensus TPR repeat-containing protein [General f	97.37
PF12688	120	TPR_5: Tetratrico peptide repeat	97.34
KOG1915	677	consensus Cell cycle control protein (crooked neck	97.33
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.31
PRK10803	263	tol-pal system protein YbgF; Provisional	97.3
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.28
KOG0547	606	consensus Translocase of outer mitochondrial membr	97.26
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.26
PF13371	73	TPR_9: Tetratricopeptide repeat	97.25
smart00299	140	CLH Clathrin heavy chain repeat homology.	97.24
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	97.23
PF12688	120	TPR_5: Tetratrico peptide repeat	97.21
PRK10803	263	tol-pal system protein YbgF; Provisional	97.19
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.17
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	97.12
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.11
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.06
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.04
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	97.02
PRK14720	906	transcript cleavage factor/unknown domain fusion p	96.96
KOG2047	835	consensus mRNA splicing factor [RNA processing and	96.92
PRK15331	165	chaperone protein SicA; Provisional	96.89
KOG1125	579	consensus TPR repeat-containing protein [General f	96.89
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	96.88
KOG2376	652	consensus Signal recognition particle, subunit Srp	96.84
PF13371	73	TPR_9: Tetratricopeptide repeat	96.79
KOG1128	777	consensus Uncharacterized conserved protein, conta	96.77
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.76
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.74
KOG0547	606	consensus Translocase of outer mitochondrial membr	96.73
KOG0495	913	consensus HAT repeat protein [RNA processing and m	96.7
KOG3785	557	consensus Uncharacterized conserved protein [Funct	96.68
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.68
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.67
KOG3060	289	consensus Uncharacterized conserved protein [Funct	96.66
KOG2003	840	consensus TPR repeat-containing protein [General f	96.66
COG4783	484	Putative Zn-dependent protease, contains TPR repea	96.65
KOG0495	913	consensus HAT repeat protein [RNA processing and m	96.6
KOG4570	418	consensus Uncharacterized conserved protein [Funct	96.57
PRK15331	165	chaperone protein SicA; Provisional	96.55
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	96.52
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.36
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.35
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.34
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	96.27
KOG1125	579	consensus TPR repeat-containing protein [General f	96.25
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	96.2
KOG2047	835	consensus mRNA splicing factor [RNA processing and	96.12
PLN02789	320	farnesyltranstransferase	96.12
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.09
KOG4555	175	consensus TPR repeat-containing protein [Function	96.07
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	96.07
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.02
KOG0553	304	consensus TPR repeat-containing protein [General f	96.02
PRK04841	903	transcriptional regulator MalT; Provisional	95.98
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.97
KOG3616	1636	consensus Selective LIM binding factor [Transcript	95.94
KOG2376	652	consensus Signal recognition particle, subunit Srp	95.93
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.9
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.9
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	95.86
PF13512	142	TPR_18: Tetratricopeptide repeat	95.85
PRK04841	903	transcriptional regulator MalT; Provisional	95.79
PF13929	292	mRNA_stabil: mRNA stabilisation	95.75
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.75
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.69
KOG3060	289	consensus Uncharacterized conserved protein [Funct	95.64
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.59
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.54
KOG4340	459	consensus Uncharacterized conserved protein [Funct	95.46
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	95.4
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	95.37
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.35
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	95.24
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.2
KOG2796	366	consensus Uncharacterized conserved protein [Funct	95.08
KOG3616	1636	consensus Selective LIM binding factor [Transcript	94.98
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	94.81
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.79
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	94.71
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.71
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	94.66
PF13929	292	mRNA_stabil: mRNA stabilisation	94.64
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	94.58
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.49
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	94.48
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.43
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	94.41
KOG2796	366	consensus Uncharacterized conserved protein [Funct	94.36
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.29
KOG3785	557	consensus Uncharacterized conserved protein [Funct	94.2
PF13512	142	TPR_18: Tetratricopeptide repeat	94.13
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.11
COG4700	251	Uncharacterized protein conserved in bacteria cont	94.07
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	93.86
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	93.82
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	93.81
PF13762	145	MNE1: Mitochondrial splicing apparatus component	93.7
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.62
PF13428	44	TPR_14: Tetratricopeptide repeat	93.61
COG3118	304	Thioredoxin domain-containing protein [Posttransla	93.59
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.51
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.46
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.25
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	93.2
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	93.18
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.15
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.15
PF13428	44	TPR_14: Tetratricopeptide repeat	93.12
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	93.09
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	92.99
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	92.95
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.93
PF13431	34	TPR_17: Tetratricopeptide repeat	92.89
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	92.57
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	92.39
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	92.16
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	92.12
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	91.49
KOG4648	536	consensus Uncharacterized conserved protein, conta	91.48
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	91.39
PF10366	108	Vps39_1: Vacuolar sorting protein 39 domain 1; Int	91.33
COG4105	254	ComL DNA uptake lipoprotein [General function pred	91.3
KOG2610	491	consensus Uncharacterized conserved protein [Funct	91.3
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.0
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	90.88
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	90.85
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	90.58
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	90.52
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	90.33
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	90.29
COG4455	273	ImpE Protein of avirulence locus involved in tempe	89.75
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	89.67
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	89.65
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	89.57
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	89.08
COG4105	254	ComL DNA uptake lipoprotein [General function pred	88.7
COG1747	711	Uncharacterized N-terminal domain of the transcrip	87.96
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	87.64
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	87.64
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	87.42
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	87.31
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	87.21
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	87.09
COG3947	361	Response regulator containing CheY-like receiver a	86.84
COG3118	304	Thioredoxin domain-containing protein [Posttransla	86.75
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	86.72
COG4455	273	ImpE Protein of avirulence locus involved in tempe	86.41
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	86.18
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	86.17
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	86.06
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	85.81
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	85.75
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	85.68
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	85.62
PRK10564	303	maltose regulon periplasmic protein; Provisional	85.6
KOG4555	175	consensus TPR repeat-containing protein [Function	85.52
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	85.37
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	85.32
KOG2908	380	consensus 26S proteasome regulatory complex, subun	85.2
cd08819	88	CARD_MDA5_2 Caspase activation and recruitment dom	85.05
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	84.88
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	84.8
COG5108	1117	RPO41 Mitochondrial DNA-directed RNA polymerase [T	84.07
PRK10564	303	maltose regulon periplasmic protein; Provisional	84.05
COG3898	531	Uncharacterized membrane-bound protein [Function u	83.48
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	83.4
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	83.08
PF10366	108	Vps39_1: Vacuolar sorting protein 39 domain 1; Int	83.03
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	82.94
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	82.93
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	82.9
PF02847	113	MA3: MA3 domain; InterPro: IPR003891 This entry re	82.74
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	82.49
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	82.26
KOG4648	536	consensus Uncharacterized conserved protein, conta	82.02
KOG2041	1189	consensus WD40 repeat protein [General function pr	81.92
COG0457	291	NrfG FOG: TPR repeat [General function prediction	81.88
PF10155	126	DUF2363: Uncharacterized conserved protein (DUF236	81.75
PF11838	324	ERAP1_C: ERAP1-like C-terminal domain; InterPro: I	81.75
PF08771	100	Rapamycin_bind: Rapamycin binding domain; InterPro	81.73
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	81.41
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	81.36
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	81.23
KOG1550	552	consensus Extracellular protein SEL-1 and related	81.15
PF02847	113	MA3: MA3 domain; InterPro: IPR003891 This entry re	80.66
PF10475	291	DUF2450: Protein of unknown function N-terminal do	80.37
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	80.32
PRK11639	169	zinc uptake transcriptional repressor; Provisional	80.16

>PLN03218 maturation of RBCL 1; Provisional

Probab=99.96  E-value=3.6e-28  Score=190.80  Aligned_cols=126  Identities=17%  Similarity=0.167  Sum_probs=66.7

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcH
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMY   81 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~   81 (144)
                      |++|++.|++++|.++|++|.+.|+.|+..+||++|.+|++.|++++|.++|++|.+.|+.||..||+++|++|++.|++
T Consensus       586 I~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~  665 (1060)
T PLN03218        586 MKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDL  665 (1060)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCH
Confidence            44555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           82 MLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        82 ~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      ++|.+++++|.+.|+.|+..+|+++|.+|++.|++++|.++|++|.
T Consensus       666 eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~  711 (1060)
T PLN03218        666 DKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIK  711 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            5555555555555555555555555555555555555555555554

>PLN03218 maturation of RBCL 1; Provisional

Probab=99.96  E-value=4.6e-28  Score=190.24  Aligned_cols=129  Identities=16%  Similarity=0.177  Sum_probs=109.2

Q ss_pred             ChhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403            1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus         1 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      ||++|++.|++++|.++|++|.+.|+.||..+|+++|++|++.|++++|.+++++|.+.|+.||..+|+++|.+|++.|+
T Consensus       620 LI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~  699 (1060)
T PLN03218        620 AVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKN  699 (1060)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Confidence            46788888888888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           81 YMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +++|.++|++|.+.|+.||..+|++||.+|++.|++++|.++|++|...
T Consensus       700 ~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~  748 (1060)
T PLN03218        700 WKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRL  748 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            8888888888888888888888888888888888888888888888753

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=99.95  E-value=3.6e-27  Score=180.76  Aligned_cols=137  Identities=18%  Similarity=0.222  Sum_probs=109.9

Q ss_pred             ChhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403            1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus         1 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      ||++|+++|++++|.++|++|.    ++|+.+||++|.+|++.|++++|.++|++|.+.|+.||..||++++.+|++.|+
T Consensus       265 Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~  340 (697)
T PLN03081        265 LIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLAL  340 (697)
T ss_pred             HHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence            4677888888888888888885    468888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCCCcHHHHHHhh
Q 045403           81 YMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFMRKFF  142 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~~~~~~~~~  142 (144)
                      +++|.++++.|.+.|+.||..+|++|+++|++.|++++|.++|++|.+ .+..+|+.+...|
T Consensus       341 ~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~-~d~~t~n~lI~~y  401 (697)
T PLN03081        341 LEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR-KNLISWNALIAGY  401 (697)
T ss_pred             hHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC-CCeeeHHHHHHHH
Confidence            888888888888888888888888888888888888888888888764 5566676665544

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=99.95  E-value=9.7e-27  Score=178.42  Aligned_cols=139  Identities=12%  Similarity=0.069  Sum_probs=99.1

Q ss_pred             ChhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCC------------------
Q 045403            1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAIS------------------   62 (144)
Q Consensus         1 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~------------------   62 (144)
                      ||.+|++.|++++|.++|++|.+.|+.||..||+++|.+|++.|++++|.+++..|.+.|+.                  
T Consensus       296 li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~  375 (697)
T PLN03081        296 MLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGR  375 (697)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCC
Confidence            46677777777777777777777777777777777777776666666666666666666643                  


Q ss_pred             -------------CCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           63 -------------PDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        63 -------------p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                                   ||..+||+||.+|++.|+.++|.++|++|.+.|+.||..||++++.+|++.|++++|.++|+.|.+.
T Consensus       376 ~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~  455 (697)
T PLN03081        376 MEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSEN  455 (697)
T ss_pred             HHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHh
Confidence                         5666677777777777777777777777777788888888888888888888888888888888754


Q ss_pred             CCCCcHHHHH
Q 045403          130 KDRCAMPFMR  139 (144)
Q Consensus       130 ~~~~~~~~~~  139 (144)
                      ....|....|
T Consensus       456 ~g~~p~~~~y  465 (697)
T PLN03081        456 HRIKPRAMHY  465 (697)
T ss_pred             cCCCCCccch
Confidence            3333333333

>PLN03077 Protein ECB2; Provisional

Probab=99.94  E-value=3.5e-26  Score=178.68  Aligned_cols=132  Identities=20%  Similarity=0.241  Sum_probs=120.8

Q ss_pred             ChhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403            1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus         1 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      ||++|+|+|++++|.++|+.+     .||+.+||+||.+|+++|+.++|.++|++|.+.|+.||.+||+++|.+|++.|+
T Consensus       530 Li~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~  604 (857)
T PLN03077        530 LLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGM  604 (857)
T ss_pred             HHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcCh
Confidence            478899999999999999887     679999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHH-HCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCCCcHHH
Q 045403           81 YMLAYRTMVDMH-KKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPF  137 (144)
Q Consensus        81 ~~~a~~~~~~m~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~~~~  137 (144)
                      +++|.++|++|. +.|+.|+..+|++++++|++.|++++|.+++++|+...+...|..
T Consensus       605 v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~a  662 (857)
T PLN03077        605 VTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGA  662 (857)
T ss_pred             HHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHH
Confidence            999999999999 789999999999999999999999999999999964333333433

>PLN03077 Protein ECB2; Provisional

Probab=99.94  E-value=1.2e-25  Score=175.64  Aligned_cols=137  Identities=19%  Similarity=0.232  Sum_probs=118.2

Q ss_pred             ChhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403            1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus         1 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      ||++|++.|++++|.++|++|.    .||..+||++|.+|++.|++++|.++|.+|.+.|+.||..||+++|.+|++.|+
T Consensus       228 Li~~y~k~g~~~~A~~lf~~m~----~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~  303 (857)
T PLN03077        228 LITMYVKCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGD  303 (857)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCC----CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCC
Confidence            4778889999999999998885    578889999999999999999999999999988999999999999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCCCcHHHHHHhh
Q 045403           81 YMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFMRKFF  142 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~~~~~~~~~  142 (144)
                      .+.+.+++..|.+.|+.||..+|++|+.+|++.|++++|.++|++|.. .+..+|+.+...|
T Consensus       304 ~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~-~d~~s~n~li~~~  364 (857)
T PLN03077        304 ERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET-KDAVSWTAMISGY  364 (857)
T ss_pred             hHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC-CCeeeHHHHHHHH
Confidence            999999999998888889999999999999999999999999998875 5666777666544

>PF13041 PPR_2: PPR repeat family

Probab=99.77  E-value=1.9e-18  Score=89.88  Aligned_cols=50  Identities=32%  Similarity=0.674  Sum_probs=42.6

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH
Q 045403           28 YDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK   77 (144)
Q Consensus        28 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~   77 (144)
                      ||+.+||++|++|++.|++++|.++|++|++.|++||..||+++|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            78888888888888888888888888888888888888888888888764

>PF13041 PPR_2: PPR repeat family

Probab=99.71  E-value=6.9e-17  Score=83.96  Aligned_cols=50  Identities=30%  Similarity=0.415  Sum_probs=49.0

Q ss_pred             CCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc
Q 045403           63 PDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGK  112 (144)
Q Consensus        63 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~  112 (144)
                      ||.++||++|++|++.|++++|.++|++|.+.|+.||..||+++|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            89999999999999999999999999999999999999999999999985

>PF12854 PPR_1: PPR repeat

Probab=99.33  E-value=3e-12  Score=60.79  Aligned_cols=32  Identities=22%  Similarity=0.535  Sum_probs=18.9

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh
Q 045403           25 YDKYDVVLLNSMLCAYCRTGDMESVIHVMRKL   56 (144)
Q Consensus        25 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m   56 (144)
                      |++||..|||+||++|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            45555666666666666666666666655555

>PF12854 PPR_1: PPR repeat

Probab=99.31  E-value=3.7e-12  Score=60.43  Aligned_cols=32  Identities=25%  Similarity=0.314  Sum_probs=17.8

Q ss_pred             CCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHH
Q 045403           60 AISPDYNTFHILIKYFRKEKMYMLAYRTMVDM   91 (144)
Q Consensus        60 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m   91 (144)
                      |+.||.+|||++|++|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            45555555555555555555555555555554

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.29  E-value=1.5e-10  Score=83.61  Aligned_cols=122  Identities=13%  Similarity=0.030  Sum_probs=82.2

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+.+.|++++|.+.|+++.+... .+...+..+...+.+.|++++|.++++++.+.+......+++.+..+|...|+.++
T Consensus       189 ~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~  267 (389)
T PRK11788        189 QALARGDLDAARALLKKALAADP-QCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAE  267 (389)
T ss_pred             HHHhCCCHHHHHHHHHHHHhHCc-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHH
Confidence            45567777777777777766432 24556667777777777777777777777654322223556777777777777777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      |...++++.+.  .|+...+..+...+.+.|++++|.++++++.+
T Consensus       268 A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~  310 (389)
T PRK11788        268 GLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLR  310 (389)
T ss_pred             HHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            77777777654  35555566677777777777777777776554

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.28  E-value=4.2e-10  Score=81.33  Aligned_cols=126  Identities=10%  Similarity=0.048  Sum_probs=71.5

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDV----VLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK   77 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~   77 (144)
                      ..++.+.|++++|.+.++.+.+.+..++.    ..+..+...+.+.|++++|...|+++.+.. +.+...+..+...+.+
T Consensus       148 a~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~  226 (389)
T PRK11788        148 LEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALA  226 (389)
T ss_pred             HHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHH
Confidence            34556666666666666666655443321    234455556666666666666666665432 1234455556666666


Q ss_pred             hCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           78 EKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .|++++|.++++++.+.+......+++.+..+|.+.|++++|...++++.+
T Consensus       227 ~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~  277 (389)
T PRK11788        227 QGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALE  277 (389)
T ss_pred             CCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            666666666666665432212234455666666666666666666666554

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.27  E-value=1.2e-10  Score=83.58  Aligned_cols=125  Identities=17%  Similarity=0.210  Sum_probs=105.1

Q ss_pred             ChhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403            1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus         1 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      ||.+.||--..++|.+++++-.......+..+||.+|.+-.-...    -++..+|.+..+.||..|||+++.+..+.|+
T Consensus       213 mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~  288 (625)
T KOG4422|consen  213 MIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALLSCAAKFGK  288 (625)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHHHHHHHhcc
Confidence            578889999999999999999988888999999999987654332    6788999999999999999999999999997


Q ss_pred             HHH----HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHH-HHHHHHHhhhc
Q 045403           81 YML----AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSE-ALCLQHVKDIA  129 (144)
Q Consensus        81 ~~~----a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~l~~~m~~~  129 (144)
                      ++.    +.+++.+|++.|+.|.-.+|-.+|..+++.++..+ |..++..+..+
T Consensus       289 F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~  342 (625)
T KOG4422|consen  289 FEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNS  342 (625)
T ss_pred             hHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHh
Confidence            765    56678889999999999999999999998887654 55666655544

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=99.11  E-value=1.2e-08  Score=79.95  Aligned_cols=124  Identities=13%  Similarity=0.052  Sum_probs=76.4

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|.++++.+.+.. +.+...|..+..++...|++++|...|+++.+.. +.+...+..+..++...|+++
T Consensus       575 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  652 (899)
T TIGR02917       575 QYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYA  652 (899)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHH
Confidence            34556666667777666665542 3356667777777777777777777777666542 234555666666666677777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +|..+++++.+.. +.+..++..+...+.+.|++++|.++++.+...
T Consensus       653 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  698 (899)
T TIGR02917       653 KAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQ  698 (899)
T ss_pred             HHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            7777766666432 233555666666666666666666666666543

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.09  E-value=3.7e-09  Score=76.06  Aligned_cols=101  Identities=12%  Similarity=0.057  Sum_probs=87.9

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 045403           27 KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSL  106 (144)
Q Consensus        27 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  106 (144)
                      +-+..+|.+||.+.++-...+.|.++|++-.+...+.+..+||.+|.+.+-..+    .+++.+|....+.||..|+|++
T Consensus       204 PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNal  279 (625)
T KOG4422|consen  204 PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNAL  279 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHH
Confidence            447789999999999999999999999999998899999999999998766555    7899999998899999999999


Q ss_pred             HHHHhccCChHH----HHHHHHHhhhcCC
Q 045403          107 IFHLGKMRAHSE----ALCLQHVKDIAKD  131 (144)
Q Consensus       107 ~~~~~~~g~~~~----a~~l~~~m~~~~~  131 (144)
                      +++..+.|+++.    |.+++.+|++-..
T Consensus       280 L~c~akfg~F~~ar~aalqil~EmKeiGV  308 (625)
T KOG4422|consen  280 LSCAAKFGKFEDARKAALQILGEMKEIGV  308 (625)
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHHHHhCC
Confidence            999999998765    5667777775433

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=99.06  E-value=1.8e-08  Score=78.82  Aligned_cols=121  Identities=15%  Similarity=0.041  Sum_probs=64.9

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      +.+.|++++|.++++.+.+..+ ++...+..+...+...|++++|...|+.+.+.  .|+..++..+..++.+.|+.++|
T Consensus       679 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A  755 (899)
T TIGR02917       679 LLAAKRTESAKKIAKSLQKQHP-KAALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEA  755 (899)
T ss_pred             HHHcCCHHHHHHHHHHHHhhCc-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHH
Confidence            3444445555555544444332 24444555555555555555555555555443  23334455555555555666666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           85 YRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        85 ~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ...++++.+.. +.+...+..+...|.+.|+.++|..+++++.+.
T Consensus       756 ~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  799 (899)
T TIGR02917       756 VKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKK  799 (899)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh
Confidence            55555555432 334556666666666666666666666666543

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=99.03  E-value=6.7e-10  Score=52.72  Aligned_cols=33  Identities=24%  Similarity=0.619  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC
Q 045403           32 LLNSMLCAYCRTGDMESVIHVMRKLDELAISPD   64 (144)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~   64 (144)
                      +||++|++|++.|++++|.++|++|.+.|++||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            688888888888888888888888888888887

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=99.00  E-value=8.7e-10  Score=52.13  Aligned_cols=33  Identities=21%  Similarity=0.502  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKLDELAISP   63 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p   63 (144)
                      .+||++|++|++.|+++.|.++|++|++.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            567777777777777777777777777777776

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.93  E-value=3.8e-07  Score=60.58  Aligned_cols=121  Identities=12%  Similarity=-0.014  Sum_probs=53.0

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC-CCCHHHHHHHHHHHHHhCcHHHH
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAI-SPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      .+.|++++|.+.+++..+.... +...+..+...+...|++++|...+++..+... ..+...+..+..++...|++++|
T Consensus        76 ~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  154 (234)
T TIGR02521        76 QQLGELEKAEDSFRRALTLNPN-NGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKA  154 (234)
T ss_pred             HHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHH
Confidence            3344444444444444433221 333444444444444444444444444443211 11223344444444555555555


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           85 YRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        85 ~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ...+++..+.. +.+...+..+...+.+.|++++|...+++...
T Consensus       155 ~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  197 (234)
T TIGR02521       155 EKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLERYQQ  197 (234)
T ss_pred             HHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555544321 11233444455555555555555555555443

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.92  E-value=3.4e-08  Score=58.75  Aligned_cols=82  Identities=13%  Similarity=0.142  Sum_probs=65.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC-CCCHHHHHHHHHHHHHhC--------cHHHHHHHHHHHHHCCCCCCHH
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKLDELAI-SPDYNTFHILIKYFRKEK--------MYMLAYRTMVDMHKKGHQPEEE  101 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g--------~~~~a~~~~~~m~~~~~~~~~~  101 (144)
                      .|-...|.-+...+++.....+|+.+++.|+ .|+..+|+.++++-.+..        ++-..+.++++|...+++|+..
T Consensus        26 ~t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~e  105 (120)
T PF08579_consen   26 ETQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDE  105 (120)
T ss_pred             HHHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHH
Confidence            3445667777777888888889988888888 788888988888877744        2445678888888888889999


Q ss_pred             HHHHHHHHHhc
Q 045403          102 LCSSLIFHLGK  112 (144)
Q Consensus       102 ~~~~l~~~~~~  112 (144)
                      +|+.++..+.+
T Consensus       106 tYnivl~~Llk  116 (120)
T PF08579_consen  106 TYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHH
Confidence            99888887665

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.91  E-value=5.2e-07  Score=59.95  Aligned_cols=126  Identities=12%  Similarity=0.031  Sum_probs=102.8

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|.+.+++..+..+ .+...+..+...+...|++++|.+.+++..+... .+...+..+...+...|+++
T Consensus        39 ~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~~~~~~~g~~~  116 (234)
T TIGR02521        39 LGYLEQGDLEVAKENLDKALEHDP-DDYLAYLALALYYQQLGELEKAEDSFRRALTLNP-NNGDVLNNYGTFLCQQGKYE  116 (234)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcccHH
Confidence            467788999999999999887643 3678888899999999999999999999887543 45677888889999999999


Q ss_pred             HHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403           83 LAYRTMVDMHKKGHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      +|...+++..+....+ ....+..+..++.+.|++++|.+.+++.....
T Consensus       117 ~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  165 (234)
T TIGR02521       117 QAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID  165 (234)
T ss_pred             HHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999998643222 34567778888999999999999999877543

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.85  E-value=6e-09  Score=49.33  Aligned_cols=34  Identities=24%  Similarity=0.311  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCC
Q 045403           66 NTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPE   99 (144)
Q Consensus        66 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~   99 (144)
                      ++||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            3789999999999999999999999999999887

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.85  E-value=1.7e-07  Score=55.82  Aligned_cols=76  Identities=14%  Similarity=0.226  Sum_probs=67.9

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHhcC--------CHHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYD-KYDVVLLNSMLCAYCRTG--------DMESVIHVMRKLDELAISPDYNTFHILI   72 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~~~li~~~~~~~--------~~~~a~~~~~~m~~~g~~p~~~~~~~li   72 (144)
                      |.-|...+++.....+|+.++..|+ .|++.+||.++++.+++.        ++-+.+.+|++|...+++|+..||++++
T Consensus        32 I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl  111 (120)
T PF08579_consen   32 INSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVL  111 (120)
T ss_pred             HHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHH
Confidence            4556777999999999999999999 999999999999998765        2557899999999999999999999999


Q ss_pred             HHHHH
Q 045403           73 KYFRK   77 (144)
Q Consensus        73 ~~~~~   77 (144)
                      ....+
T Consensus       112 ~~Llk  116 (120)
T PF08579_consen  112 GSLLK  116 (120)
T ss_pred             HHHHH
Confidence            98765

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=98.84  E-value=2.6e-08  Score=69.26  Aligned_cols=125  Identities=19%  Similarity=0.172  Sum_probs=93.1

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhC
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKY-DKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEK   79 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g   79 (144)
                      +..+.+.|+++++.++++...... .+++...|..+...+.+.|+.++|..++++..+.  .| |....+.++..+...|
T Consensus       117 l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~P~~~~~~~~l~~~li~~~  194 (280)
T PF13429_consen  117 LQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL--DPDDPDARNALAWLLIDMG  194 (280)
T ss_dssp             -H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHCTTC
T ss_pred             HHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCC
Confidence            455677889999999988876432 3567788888888889999999999999888764  45 4677888888888889


Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +.+++..+++...+.. ..+...+..+..+|...|+.++|..++++....
T Consensus       195 ~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~  243 (280)
T PF13429_consen  195 DYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKL  243 (280)
T ss_dssp             HHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccc
Confidence            9888888888887653 445567788888888899999999999987653

>PRK12370 invasion protein regulator; Provisional

Probab=98.83  E-value=9.1e-07  Score=67.24  Aligned_cols=121  Identities=11%  Similarity=-0.052  Sum_probs=85.0

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCH-HHHHHHHHHHHHhCcHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDY-NTFHILIKYFRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~   82 (144)
                      ++...|++++|...|++..+..+. +...|..+...+...|++++|...+++..+.  .|+. ..+..+...+...|+++
T Consensus       347 ~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~e  423 (553)
T PRK12370        347 INTIHSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAAGITKLWITYYHTGID  423 (553)
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHhccCHH
Confidence            355678888888888888776443 5667777888888888888888888887764  3432 22333344455678888


Q ss_pred             HHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           83 LAYRTMVDMHKKGHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      +|...+++..+.. .| +...+..+-.++...|+.++|...++++..
T Consensus       424 eA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~  469 (553)
T PRK12370        424 DAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEIST  469 (553)
T ss_pred             HHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhh
Confidence            8888888876543 23 344566677777788888888888887654

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.79  E-value=7.2e-09  Score=47.80  Aligned_cols=30  Identities=30%  Similarity=0.698  Sum_probs=23.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 045403           32 LLNSMLCAYCRTGDMESVIHVMRKLDELAI   61 (144)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~   61 (144)
                      +||++|++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            677777777777777777777777777664

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.79  E-value=1.7e-08  Score=47.58  Aligned_cols=33  Identities=21%  Similarity=0.327  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCC
Q 045403           66 NTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQP   98 (144)
Q Consensus        66 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~   98 (144)
                      .||+++|.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            588899999999999999999999998888877

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=98.76  E-value=6e-07  Score=59.54  Aligned_cols=89  Identities=20%  Similarity=0.336  Sum_probs=80.1

Q ss_pred             CCCHHHHHHHHHHHHh-----cCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhC----------------cHHHHH
Q 045403           27 KYDVVLLNSMLCAYCR-----TGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEK----------------MYMLAY   85 (144)
Q Consensus        27 ~p~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g----------------~~~~a~   85 (144)
                      ..+..+|..+++.|.+     +|+.+-....+..|.+-|+.-|..+|+.||+.+-+..                +.+.|.
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            5688999999999975     4788999999999999999999999999999987633                577899


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccCC
Q 045403           86 RTMVDMHKKGHQPEEELCSSLIFHLGKMRA  115 (144)
Q Consensus        86 ~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~  115 (144)
                      +++++|...|+.||..++..+++.|++.+.
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            999999999999999999999999998776

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=98.76  E-value=2.5e-07  Score=64.40  Aligned_cols=119  Identities=24%  Similarity=0.175  Sum_probs=49.2

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-CCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL-AISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      ...+++++|.++++...+.  .++...+..++..+...++++++.+++++..+. ..+.|...|..+...+.+.|+.++|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A  165 (280)
T PF13429_consen   88 LQDGDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKA  165 (280)
T ss_dssp             --------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHH
T ss_pred             ccccccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            4556666666666554433  234455556666666666666666666665532 2334555566666666666666666


Q ss_pred             HHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           85 YRTMVDMHKKGHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        85 ~~~~~~m~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ...+++..+.  .| +....+.++..+...|+.+++..+++....
T Consensus       166 ~~~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~  208 (280)
T PF13429_consen  166 LRDYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLK  208 (280)
T ss_dssp             HHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence            6666666653  24 344555666666666666666666655544

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=98.74  E-value=2.4e-06  Score=65.67  Aligned_cols=117  Identities=10%  Similarity=-0.137  Sum_probs=50.0

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYR   86 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~   86 (144)
                      ..|++++|...|++.....+. +...|..+...+...|++++|...|++..+.. +.+..+|..+...+...|++++|..
T Consensus       343 ~~g~~~eA~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~  420 (615)
T TIGR00990       343 LKGKHLEALADLSKSIELDPR-VTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGK  420 (615)
T ss_pred             HcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            344555555555544433111 23344444444444455555555554443321 1233444444444444444444444


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHh
Q 045403           87 TMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVK  126 (144)
Q Consensus        87 ~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m  126 (144)
                      .|++..+.. +.+...+..+..++.+.|++++|...+++.
T Consensus       421 ~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~a  459 (615)
T TIGR00990       421 DYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRC  459 (615)
T ss_pred             HHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            444444321 112233333444444444444444444443

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=98.68  E-value=3.5e-06  Score=64.79  Aligned_cols=123  Identities=11%  Similarity=-0.138  Sum_probs=104.1

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+...|++++|...|++..+..+. +...|..+...+...|++++|...|++..+..- .+...+..+...+.+.|++++
T Consensus       374 ~~~~~g~~~eA~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P-~~~~~~~~la~~~~~~g~~~e  451 (615)
T TIGR00990       374 MNLELGDPDKAEEDFDKALKLNSE-DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDP-DFIFSHIQLGVTQYKEGSIAS  451 (615)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCc-cCHHHHHHHHHHHHHCCCHHH
Confidence            466789999999999999876433 678899999999999999999999999887532 356778888889999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      |...+++..+.. +.+...++.+-.++...|++++|.+.+++...-
T Consensus       452 A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l  496 (615)
T TIGR00990       452 SMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL  496 (615)
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            999999998642 335778889999999999999999999986543

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.66  E-value=7.7e-06  Score=54.30  Aligned_cols=123  Identities=10%  Similarity=-0.076  Sum_probs=97.6

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHH-HHHhCc--HHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKY-FRKEKM--YML   83 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~-~~~~g~--~~~   83 (144)
                      ..++.+++...++...+..+. |...|..+...|...|++++|...|++..+..- -|...+..+-.+ +...|+  .++
T Consensus        51 ~~~~~~~~i~~l~~~L~~~P~-~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P-~~~~~~~~lA~aL~~~~g~~~~~~  128 (198)
T PRK10370         51 SQQTPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWRNDYDNALLAYRQALQLRG-ENAELYAALATVLYYQAGQHMTPQ  128 (198)
T ss_pred             CchhHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCCCcHH
Confidence            345567777777776665444 899999999999999999999999999887532 366777777776 467777  599


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCC
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDR  132 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~  132 (144)
                      |..++++..+.+ +-+...+..+-..+.+.|++++|...++++.+..++
T Consensus       129 A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~  176 (198)
T PRK10370        129 TREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDLNSP  176 (198)
T ss_pred             HHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            999999999764 236678888888999999999999999998765443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.64  E-value=5.4e-06  Score=64.28  Aligned_cols=122  Identities=13%  Similarity=0.027  Sum_probs=64.4

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHH----HHHHHHHhhhCCCCCCHHHHHHHHHHHHHhC
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMES----VIHVMRKLDELAISPDYNTFHILIKYFRKEK   79 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~----a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g   79 (144)
                      ++.+.|++++|.+.+++.....+. +...+..+-..+...|++++    |...|++..+.. +.+...+..+...+...|
T Consensus       221 ~l~~~g~~~eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g  298 (656)
T PRK15174        221 TLCAVGKYQEAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTG  298 (656)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCC
Confidence            344455556666665555544322 44555555555555555553    555555554431 123445555555666666


Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ++++|...+++..+.. +.+...+..+..++.+.|++++|...++++..
T Consensus       299 ~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~  346 (656)
T PRK15174        299 QNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAR  346 (656)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            6666666666655432 11233444555556666666666666665544

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.64  E-value=9.4e-07  Score=64.61  Aligned_cols=105  Identities=13%  Similarity=0.021  Sum_probs=89.5

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC--CCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHH
Q 045403           25 YDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL--AISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEEL  102 (144)
Q Consensus        25 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  102 (144)
                      +.+.+.....++++.+....+.+++..++.+.+..  ....-..|..++|+.|.+.|..+.+..++++=...|+=||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            44557778888888888888999999999998865  3333345667999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403          103 CSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus       103 ~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ++.||+.|.+.|++..|.++..+|...
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQ  167 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQ  167 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHh
Confidence            999999999999999999999987654

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 [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PRK12370 invasion protein regulator; Provisional

Probab=98.61  E-value=9e-06  Score=61.89  Aligned_cols=120  Identities=9%  Similarity=-0.060  Sum_probs=95.5

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYR   86 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~   86 (144)
                      ..+++++|...+++..+..+. +...+..+-..+...|++++|...|++..+.+ +.+...+..+...+...|++++|..
T Consensus       316 ~~~~~~~A~~~~~~Al~ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~  393 (553)
T PRK12370        316 KQNAMIKAKEHAIKATELDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQ  393 (553)
T ss_pred             cchHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            346689999999999887555 77888899899999999999999999998753 2345678888899999999999999


Q ss_pred             HHHHHHHCCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403           87 TMVDMHKKGHQPEE-ELCSSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        87 ~~~~m~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      .+++..+..  |+. ..+..+...+...|++++|...+++.....
T Consensus       394 ~~~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~  436 (553)
T PRK12370        394 TINECLKLD--PTRAAAGITKLWITYYHTGIDDAIRLGDELRSQH  436 (553)
T ss_pred             HHHHHHhcC--CCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc
Confidence            999998754  432 233334445667899999999999876543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.61  E-value=5.8e-06  Score=64.13  Aligned_cols=81  Identities=6%  Similarity=-0.071  Sum_probs=33.3

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcHHHHHH
Q 045403            8 GGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMYMLAYR   86 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~   86 (144)
                      .|++++|.+.++++....+. +...+..+...+...|++++|...+++..+.  .| +...+..+...+...|+.++|..
T Consensus        89 ~g~~~~A~~~l~~~l~~~P~-~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~  165 (656)
T PRK15174         89 SSQPDAVLQVVNKLLAVNVC-QPEDVLLVASVLLKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKELQAIS  165 (656)
T ss_pred             cCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChHHHHH
Confidence            44444444444444433222 2333444444444444444444444444332  12 22333444444444444444444


Q ss_pred             HHHHH
Q 045403           87 TMVDM   91 (144)
Q Consensus        87 ~~~~m   91 (144)
                      .+.++
T Consensus       166 ~~~~~  170 (656)
T PRK15174        166 LARTQ  170 (656)
T ss_pred             HHHHH
Confidence            44433

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.59  E-value=1.7e-05  Score=49.05  Aligned_cols=110  Identities=9%  Similarity=-0.003  Sum_probs=87.0

Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCC
Q 045403           17 LARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGH   96 (144)
Q Consensus        17 ~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~   96 (144)
                      +++......+. +......+...+...|++++|...++...+.+ +.+...|..+..++...|++++|..++++..+.+ 
T Consensus         5 ~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-   81 (135)
T TIGR02552         5 TLKDLLGLDSE-QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-   81 (135)
T ss_pred             hHHHHHcCChh-hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-
Confidence            45555543222 44556677788889999999999999988754 2477888899999999999999999999987764 


Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           97 QPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        97 ~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +.+...+..+-.+|...|+.++|...+++..+.
T Consensus        82 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        82 PDDPRPYFHAAECLLALGEPESALKALDLAIEI  114 (135)
T ss_pred             CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            445667777888999999999999999987754

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.58  E-value=7.8e-08  Score=44.20  Aligned_cols=29  Identities=24%  Similarity=0.381  Sum_probs=18.3

Q ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHCC
Q 045403           67 TFHILIKYFRKEKMYMLAYRTMVDMHKKG   95 (144)
Q Consensus        67 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~   95 (144)
                      ||+++|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            56666666666666666666666666554

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.57  E-value=1.2e-06  Score=64.12  Aligned_cols=112  Identities=13%  Similarity=0.177  Sum_probs=92.9

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhc--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhC
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAK--YDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEK   79 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g   79 (144)
                      ++.+.+..+++.+..++-.....  ....-..|..++|+.|.+.|..++++.+++.=...|+=||.+|+|.+++.+.+.|
T Consensus        73 vn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~  152 (429)
T PF10037_consen   73 VNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLKKG  152 (429)
T ss_pred             HhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhhcc
Confidence            34556667788888888888765  2222233446999999999999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKM  113 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~  113 (144)
                      ++..|.++...|...+.-.+..|+..-+.+|.+.
T Consensus       153 ~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  153 NYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             cHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            9999999999999777767778887777777665

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 [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.57  E-value=1.6e-05  Score=55.90  Aligned_cols=119  Identities=11%  Similarity=0.015  Sum_probs=90.9

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~   82 (144)
                      .+.+.|++++|...|++..+..+. +...|+.+-..+...|++++|...|++..+.  .| +..+|..+..++...|+++
T Consensus        73 ~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~  149 (296)
T PRK11189         73 LYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAYLNRGIALYYGGRYE  149 (296)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHH
Confidence            456789999999999998876544 6788999999999999999999999998763  34 4567788888888899999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      +|.+.+++..+.  .|+..............++.++|...+++..
T Consensus       150 eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        150 LAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            999999998864  3443322222223445678999999996644

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=98.56  E-value=1.4e-06  Score=57.78  Aligned_cols=76  Identities=16%  Similarity=0.256  Sum_probs=67.1

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC----------------CHHHHHHHHHHhhhCCCCCCHHHHH
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTG----------------DMESVIHVMRKLDELAISPDYNTFH   69 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~----------------~~~~a~~~~~~m~~~g~~p~~~~~~   69 (144)
                      .+.|.++-...-+..|.+-|+.-|..+|+.||+.+=+..                +-+-|.+++++|...||-||..|+.
T Consensus        63 ~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~  142 (228)
T PF06239_consen   63 RRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDLLEQMENNGVMPDKETEQ  142 (228)
T ss_pred             CCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHHHHHHHHcCCCCcHHHHH
Confidence            356889999999999999999999999999999986522                2367999999999999999999999


Q ss_pred             HHHHHHHHhCcH
Q 045403           70 ILIKYFRKEKMY   81 (144)
Q Consensus        70 ~li~~~~~~g~~   81 (144)
                      .+++.+++.+..
T Consensus       143 ~ll~iFG~~s~p  154 (228)
T PF06239_consen  143 MLLNIFGRKSHP  154 (228)
T ss_pred             HHHHHhccccHH
Confidence            999999998853

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.50  E-value=2.5e-05  Score=49.19  Aligned_cols=108  Identities=11%  Similarity=-0.070  Sum_probs=85.3

Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCC
Q 045403           16 QLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKG   95 (144)
Q Consensus        16 ~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~   95 (144)
                      .+|++..+.  .|+  .+..+..++...|++++|...|+....... .+...|..+-.++...|++++|...|++..+.+
T Consensus        14 ~~~~~al~~--~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLLSV--DPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQP-WSWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHHHc--CHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            445554442  344  355677888899999999999999876533 477888999999999999999999999998753


Q ss_pred             CCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           96 HQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        96 ~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                       +.+...+..+-.++.+.|+.++|...+++....
T Consensus        89 -p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359         89 -ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             -CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             346778888888899999999999999987654

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.50  E-value=1.2e-05  Score=58.55  Aligned_cols=121  Identities=13%  Similarity=0.139  Sum_probs=99.9

Q ss_pred             ChhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403            1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus         1 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      |+..+...++++.|..+|+++.+..  |+  ....+.+.+...++-.+|.+++++..+. .+-|......-.+.+...++
T Consensus       175 Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~-~p~d~~LL~~Qa~fLl~k~~  249 (395)
T PF09295_consen  175 LLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLLSKKK  249 (395)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCC
Confidence            3556677899999999999999764  44  4456888888889999999999998864 22466677777778999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           81 YMLAYRTMVDMHKKGHQPEE-ELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .+.|..+.++..+.  .|+. .+|..|..+|.+.|+++.|+-.+..++-
T Consensus       250 ~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  250 YELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             HHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            99999999999874  5654 4999999999999999999999998773

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.48  E-value=3.5e-05  Score=62.14  Aligned_cols=23  Identities=4%  Similarity=0.086  Sum_probs=9.1

Q ss_pred             HHHHHHHHhccCChHHHHHHHHH
Q 045403          103 CSSLIFHLGKMRAHSEALCLQHV  125 (144)
Q Consensus       103 ~~~l~~~~~~~g~~~~a~~l~~~  125 (144)
                      +..+-.++...|++++|...+++
T Consensus       680 ~~nLA~al~~lGd~~eA~~~l~~  702 (987)
T PRK09782        680 IRQLAYVNQRLDDMAATQHYARL  702 (987)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHH
Confidence            33333333344444444444333

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=98.46  E-value=1.3e-05  Score=56.19  Aligned_cols=119  Identities=13%  Similarity=0.092  Sum_probs=86.1

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHH------HHHHHHHHHHHhCcH
Q 045403            8 GGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYN------TFHILIKYFRKEKMY   81 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~------~~~~li~~~~~~g~~   81 (144)
                      +.+.++|..+|-+|.+...+ +..+--+|-+.|-++|..|+|..+.+.+.++   ||..      ..-.|-.-|...|-+
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~-t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~  123 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPE-TFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLL  123 (389)
T ss_pred             hcCcchHHHHHHHHHhcCch-hhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhh
Confidence            46778888888888875333 4455557888888888899999988888775   4432      234455667788888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           82 MLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        82 ~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      |+|+.+|..+.+.+ ..-...-..|+..|-...++++|.++-+++....+
T Consensus       124 DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~  172 (389)
T COG2956         124 DRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGG  172 (389)
T ss_pred             hHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCC
Confidence            88888888887643 23445666788888888888888888887765433

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.46  E-value=1.5e-05  Score=50.17  Aligned_cols=95  Identities=8%  Similarity=-0.117  Sum_probs=81.7

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      ++.+.|++++|...|+......+. +...|..+..++...|++++|...|++..+.. +.+..++..+-.++...|+.++
T Consensus        33 ~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~~~e  110 (144)
T PRK15359         33 ASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGEPGL  110 (144)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHH
Confidence            567889999999999999876444 88999999999999999999999999998753 2578899999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHH
Q 045403           84 AYRTMVDMHKKGHQPEEEL  102 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~  102 (144)
                      |...++...+.  .|+...
T Consensus       111 Ai~~~~~Al~~--~p~~~~  127 (144)
T PRK15359        111 AREAFQTAIKM--SYADAS  127 (144)
T ss_pred             HHHHHHHHHHh--CCCChH
Confidence            99999999874  455433

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=98.45  E-value=3.4e-07  Score=71.00  Aligned_cols=91  Identities=13%  Similarity=0.136  Sum_probs=82.8

Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCC
Q 045403           16 QLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKG   95 (144)
Q Consensus        16 ~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~   95 (144)
                      .++-.+...|+.|+.+||..+|.-||..|+.+.|- +|.-|+-+..+.+...|+.++.+....++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            35667888999999999999999999999999999 9999998888889999999999999999988776          


Q ss_pred             CCCCHHHHHHHHHHHhccCChHH
Q 045403           96 HQPEEELCSSLIFHLGKMRAHSE  118 (144)
Q Consensus        96 ~~~~~~~~~~l~~~~~~~g~~~~  118 (144)
                       .|...||+.|..+|.++||+.-
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~  101 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLIL  101 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHH
Confidence             6888899999999999999875

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.44  E-value=4.8e-05  Score=51.05  Aligned_cols=125  Identities=10%  Similarity=-0.022  Sum_probs=88.5

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~   82 (144)
                      .|-+.|+...|..-++...+..++ +.-+|.++-..|-+.|+.+.|.+-|+...+.  .| +-...|..-.-+|..|+++
T Consensus        44 ~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl--~p~~GdVLNNYG~FLC~qg~~~  120 (250)
T COG3063          44 GYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSL--APNNGDVLNNYGAFLCAQGRPE  120 (250)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhc--CCCccchhhhhhHHHHhCCChH
Confidence            466778888888888887776544 6677888888888888888888888776653  33 4445666666677778888


Q ss_pred             HHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           83 LAYRTMVDMHKKGHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      +|...|++....-..+ ...+|..+.-|..+.|+.+.|.+.+++-....+
T Consensus       121 eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp  170 (250)
T COG3063         121 EAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDP  170 (250)
T ss_pred             HHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCc
Confidence            8888888777543322 244677777777788888888888887555433

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.44  E-value=3.1e-05  Score=62.44  Aligned_cols=122  Identities=10%  Similarity=0.026  Sum_probs=98.7

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      ++.+.|++++|.+.+++..+..+. +...+..+.......|++++|...+++..+.  .|+...+..+...+.+.|+.++
T Consensus       551 all~~Gd~~eA~~~l~qAL~l~P~-~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~de  627 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQRGLG-DNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPA  627 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHH
Confidence            567899999999999999876533 3333434444455669999999999998864  5778899999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      |...+.+..+.. +-+...+..+-.++.+.|+.++|...+++..+.
T Consensus       628 A~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l  672 (987)
T PRK09782        628 AVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKG  672 (987)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            999999998753 234567778888999999999999999987754

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.42  E-value=2.2e-05  Score=64.53  Aligned_cols=120  Identities=12%  Similarity=0.019  Sum_probs=66.4

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~   82 (144)
                      .+.+.|+.++|.+.|++..+..+. +...+..+...+...|++++|...++...+.  .| +..++..+..++...|+.+
T Consensus       612 ~~~~~g~~~~A~~~y~~al~~~P~-~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~la~~~~~~g~~~  688 (1157)
T PRK11447        612 WAQQRGDYAAARAAYQRVLTREPG-NADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRVALAWAALGDTA  688 (1157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHhCCCHH
Confidence            344556666666666666554332 4556666666666666666666666655432  22 3344455555566666666


Q ss_pred             HHHHHHHHHHHCCC--CC---CHHHHHHHHHHHhccCChHHHHHHHHHh
Q 045403           83 LAYRTMVDMHKKGH--QP---EEELCSSLIFHLGKMRAHSEALCLQHVK  126 (144)
Q Consensus        83 ~a~~~~~~m~~~~~--~~---~~~~~~~l~~~~~~~g~~~~a~~l~~~m  126 (144)
                      +|.++++++....-  .|   +...+..+...+.+.|+.++|...+++.
T Consensus       689 eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~A  737 (1157)
T PRK11447        689 AAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDA  737 (1157)
T ss_pred             HHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            66666666654321  11   1234444455566666666666666654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.39  E-value=3.3e-05  Score=63.54  Aligned_cols=120  Identities=9%  Similarity=-0.037  Sum_probs=99.6

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      +.+...|+.++|.++++.     .+++...+..+-..+.+.|++++|...|++..+.. +.+...+..+...+...|+.+
T Consensus       581 ~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~  654 (1157)
T PRK11447        581 NRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLA  654 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHH
Confidence            356778999999999882     24566778889999999999999999999998753 246788999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +|...++...+.. +.+...+..+..++.+.|+.++|.++++++...
T Consensus       655 eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        655 AARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             HHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            9999999887542 224556677888899999999999999998764

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.37  E-value=5e-05  Score=60.19  Aligned_cols=123  Identities=14%  Similarity=0.044  Sum_probs=87.5

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      .++.|+++.|+..|++..+..+.-....+ .++..+...|+.++|...+++.... -..+......+...+...|++++|
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd~A  121 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWDQA  121 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHHH
Confidence            46788999999999988875433212344 7788888888899999988888721 112233333345577778999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403           85 YRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        85 ~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      ..+++++.+.. +-+...+..+...+.+.++.++|++.++++....
T Consensus       122 iely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~d  166 (822)
T PRK14574        122 LALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAERD  166 (822)
T ss_pred             HHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccC
Confidence            99999988653 2235566677888888889999998888887643

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.37  E-value=7.2e-05  Score=59.33  Aligned_cols=128  Identities=13%  Similarity=-0.048  Sum_probs=88.9

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCC-----CCCCHHHHHHHHHHHH
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA-----ISPDYNTFHILIKYFR   76 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-----~~p~~~~~~~li~~~~   76 (144)
                      |-++.+.|+..++++.|+.+...+.+....+--.+.++|...+++++|..+|.......     ..++......|..++.
T Consensus       299 l~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~l  378 (822)
T PRK14574        299 LGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLN  378 (822)
T ss_pred             HHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHH
Confidence            34667778888888888888877766556677778888888888888888888875432     1234444567888888


Q ss_pred             HhCcHHHHHHHHHHHHHCCC-------------CCCHH-HHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           77 KEKMYMLAYRTMVDMHKKGH-------------QPEEE-LCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~~~-------------~~~~~-~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ..+++++|..+++++.+...             .||-. .+..++..+.-.|++.+|++.++.+...
T Consensus       379 d~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~  445 (822)
T PRK14574        379 ESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSST  445 (822)
T ss_pred             hcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            88888888888888876211             12222 3344566677788888888888887653

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.36  E-value=2.4e-05  Score=54.93  Aligned_cols=132  Identities=9%  Similarity=0.046  Sum_probs=82.8

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH----hcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYC----RTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK   77 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~----~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~   77 (144)
                      +..|.+.++++.|.+.++.|.+.  ..|... ..+..++.    ....+.+|.-+|+++.+. ..++..+.+.+..+...
T Consensus       138 Vqi~L~~~R~dlA~k~l~~~~~~--~eD~~l-~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~  213 (290)
T PF04733_consen  138 VQILLKMNRPDLAEKELKNMQQI--DEDSIL-TQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQ  213 (290)
T ss_dssp             HHHHHHTT-HHHHHHHHHHHHCC--SCCHHH-HHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhc--CCcHHH-HHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHH
Confidence            45677788888888888888764  334332 33333332    233578888888887543 55777778888888888


Q ss_pred             hCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCh-HHHHHHHHHhhhcCCCCcHHHH
Q 045403           78 EKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAH-SEALCLQHVKDIAKDRCAMPFM  138 (144)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~l~~~m~~~~~~~~~~~~  138 (144)
                      .|++++|.+++.+..+.+ +-+..+...++.+....|+- +.+.+.+.+++...+..++..-
T Consensus       214 ~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~h~~~~~  274 (290)
T PF04733_consen  214 LGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQSNPNHPLVKD  274 (290)
T ss_dssp             CT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTTTSHHHHH
T ss_pred             hCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhCCCChHHHH
Confidence            888888888877765432 22444555666666666666 6677788887766665655443

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.34  E-value=0.0001  Score=46.36  Aligned_cols=117  Identities=15%  Similarity=0.061  Sum_probs=87.4

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHhhhCCCCCCH--HHHHHHHHHHHHhCcHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLN--SMLCAYCRTGDMESVIHVMRKLDELAISPDY--NTFHILIKYFRKEKMYM   82 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~li~~~~~~g~~~   82 (144)
                      ..++...+...++.+.+......-....  .+-..+...|++++|...|+...+....|+.  ...-.+...+...|+++
T Consensus        23 ~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d  102 (145)
T PF09976_consen   23 QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYD  102 (145)
T ss_pred             HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            4788999999999998864442122222  3446688899999999999999987633332  24555678888999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHV  125 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~  125 (144)
                      +|...++.....  ......+...-++|.+.|+.++|...|+.
T Consensus       103 ~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  103 EALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999775433  23455677788899999999999999875

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.34  E-value=8.2e-05  Score=54.51  Aligned_cols=121  Identities=12%  Similarity=0.001  Sum_probs=92.6

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHH--HHHHHHHHhCcHHHHH
Q 045403            8 GGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFH--ILIKYFRKEKMYMLAY   85 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~--~li~~~~~~g~~~~a~   85 (144)
                      .|++++|.+......+.+-. ....|-....+..+.|+++.+...+.++.+.  .|+.....  .....+...|+.+.|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~-p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQ-PVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccc-hHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            59999999888876553222 2333444455558899999999999999764  45554333  3356788999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCC
Q 045403           86 RTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDR  132 (144)
Q Consensus        86 ~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~  132 (144)
                      ..+++..+.+ +-+......+...|.+.|++++|.+++..+.+....
T Consensus       174 ~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~  219 (398)
T PRK10747        174 HGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVG  219 (398)
T ss_pred             HHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCC
Confidence            9999998764 335678889999999999999999999999875444

>TIGR00540 hemY_coli hemY protein

Probab=98.33  E-value=0.00012  Score=53.73  Aligned_cols=127  Identities=12%  Similarity=-0.052  Sum_probs=95.8

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYR   86 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~   86 (144)
                      ..|+++.|.+.+....+.... +...+-..-.+..+.|+++++...+.+..+..-.++...--.....+...|+++.|..
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~-~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~  174 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAE-PVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARH  174 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHH
Confidence            479999999999887665332 2333345567778889999999999998764322222344445777888999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCCCcH
Q 045403           87 TMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAM  135 (144)
Q Consensus        87 ~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~~  135 (144)
                      .++.+.+.+ +-+......+...+.+.|++++|.++++++.+.....+.
T Consensus       175 ~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~  222 (409)
T TIGR00540       175 GVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDE  222 (409)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHH
Confidence            999999764 335668889999999999999999999999876444443

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.33  E-value=4.8e-05  Score=42.76  Aligned_cols=93  Identities=17%  Similarity=0.096  Sum_probs=59.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc
Q 045403           33 LNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGK  112 (144)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~  112 (144)
                      +..+...+...|++++|...+.+..+..- .+...+..+...+...|++++|.+.+++..+.. ..+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            44455566667777777777777655421 233556666677777777777777777766543 2233466666677777


Q ss_pred             cCChHHHHHHHHHhh
Q 045403          113 MRAHSEALCLQHVKD  127 (144)
Q Consensus       113 ~g~~~~a~~l~~~m~  127 (144)
                      .|+.++|...+.+..
T Consensus        81 ~~~~~~a~~~~~~~~   95 (100)
T cd00189          81 LGKYEEALEAYEKAL   95 (100)
T ss_pred             HHhHHHHHHHHHHHH
Confidence            777777777776654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.32  E-value=9.6e-05  Score=58.46  Aligned_cols=125  Identities=7%  Similarity=-0.077  Sum_probs=101.3

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCC-----------CCC---HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYD-----------KYD---VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFH   69 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~-----------~p~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~   69 (144)
                      ++.+.|++++|.++++.+....+           .|+   ...+..+...+...|++++|.++++++.+.. +-+...+.
T Consensus       319 a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~  397 (765)
T PRK10049        319 SLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRI  397 (765)
T ss_pred             HHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            56788999999999999886532           123   2355677788899999999999999997652 34677899


Q ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           70 ILIKYFRKEKMYMLAYRTMVDMHKKGHQPE-EELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        70 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      .+...+...|+.++|.+.+++..+.  .|+ ...+..+...+.+.|++++|..+++++.+..+
T Consensus       398 ~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~P  458 (765)
T PRK10049        398 DYASVLQARGWPRAAENELKKAEVL--EPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREP  458 (765)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC
Confidence            9999999999999999999999875  355 55666777788999999999999999887443

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.32  E-value=0.0002  Score=50.43  Aligned_cols=122  Identities=11%  Similarity=-0.105  Sum_probs=97.3

Q ss_pred             cCCHHHHHHHHHHHHhcCC-CCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            8 GGCFEEAKQLARDFEAKYD-KYD--VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~-~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      .+..+.++.-+.++..... .|+  ...|..+-..+...|+.++|...|++..+... .+...|+.+-..+...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRP-DMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCCHHHH
Confidence            4556778888888775322 222  45688888899999999999999999887532 4678899999999999999999


Q ss_pred             HHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCC
Q 045403           85 YRTMVDMHKKGHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDR  132 (144)
Q Consensus        85 ~~~~~~m~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~  132 (144)
                      ...|++..+.  .| +...|..+..++...|++++|.+.+++.....+.
T Consensus       118 ~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~  164 (296)
T PRK11189        118 YEAFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPN  164 (296)
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence            9999999864  35 4667788888899999999999999997764433

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.32  E-value=4.1e-05  Score=47.27  Aligned_cols=98  Identities=12%  Similarity=0.007  Sum_probs=81.2

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|+.++|.+.|+.....+.. +...|..+-..+...|++++|..+++...+.+ +.+..++..+-.++...|+.+
T Consensus        25 ~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~  102 (135)
T TIGR02552        25 YNLYQQGRYDEALKLFQLLAAYDPY-NSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLALGEPE  102 (135)
T ss_pred             HHHHHcccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHcCCHH
Confidence            4567889999999999999876543 78889999999999999999999999987654 356778888888999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHH
Q 045403           83 LAYRTMVDMHKKGHQPEEELCS  104 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~  104 (144)
                      +|...++...+.  .|+...+.
T Consensus       103 ~A~~~~~~al~~--~p~~~~~~  122 (135)
T TIGR02552       103 SALKALDLAIEI--CGENPEYS  122 (135)
T ss_pred             HHHHHHHHHHHh--ccccchHH
Confidence            999999999875  35544433

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.31  E-value=6.8e-05  Score=58.46  Aligned_cols=123  Identities=12%  Similarity=-0.033  Sum_probs=102.1

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      +..+.|..++|.++++...+..+. +....-.+...+.+.+++++|...+++..+... -+......+-.++...|++++
T Consensus        95 i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p-~~~~~~~~~a~~l~~~g~~~~  172 (694)
T PRK15179         95 ALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGGS-SSAREILLEAKSWDEIGQSEQ  172 (694)
T ss_pred             HHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCC-CCHHHHHHHHHHHHHhcchHH
Confidence            455789999999999999886444 667788899999999999999999999887522 355567778888999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      |..+|++.... ..-+..++..+-.++-+.|+.++|...|+.....
T Consensus       173 A~~~y~~~~~~-~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        173 ADACFERLSRQ-HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999999973 2334778889999999999999999999986544

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=98.31  E-value=3.3e-05  Score=58.63  Aligned_cols=121  Identities=12%  Similarity=0.046  Sum_probs=96.4

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..|...|+++-|+..|++..+..+. -...||.|-.++-..|++.+|++.|+....-.. --..+.+.|-..|.+.|.++
T Consensus       294 ~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p-~hadam~NLgni~~E~~~~e  371 (966)
T KOG4626|consen  294 CIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLCP-NHADAMNNLGNIYREQGKIE  371 (966)
T ss_pred             EEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhccch
Confidence            3577889999999999998876444 567899999999999999999999998776421 23456788888999999999


Q ss_pred             HHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           83 LAYRTMVDMHKKGHQPE-EELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      +|..+|.....  +-|+ ...++.|...|-+.|++++|...+++..
T Consensus       372 ~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal  415 (966)
T KOG4626|consen  372 EATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL  415 (966)
T ss_pred             HHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH
Confidence            99988887764  3343 4567888888888999999988888754

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.31  E-value=0.00014  Score=57.55  Aligned_cols=121  Identities=11%  Similarity=0.023  Sum_probs=77.5

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      ...-.|+.++|+++|++.... -+.+...+..+..++...|++++|..+|++..+.. +.+...+..+...+...|+.++
T Consensus        24 ia~~~g~~~~A~~~~~~~~~~-~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~e  101 (765)
T PRK10049         24 IALWAGQDAEVITVYNRYRVH-MQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDE  101 (765)
T ss_pred             HHHHcCCHHHHHHHHHHHHhh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHH
Confidence            445567777777777776642 13345557777777777777777777777765531 1234556666666777777777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      |...+++..+.. +.+.. +..+..++...|+.++|...+++..+
T Consensus       102 A~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~  144 (765)
T PRK10049        102 ALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALP  144 (765)
T ss_pred             HHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            777777776542 22333 66666667777777777777777665

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.30  E-value=8.1e-05  Score=54.60  Aligned_cols=120  Identities=16%  Similarity=0.107  Sum_probs=87.7

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      |+-.++-++|...|+...+.++. ....|+.|.+-|.+.++...|.+-|++.++-. +.|-..|-.+-.+|...++..=|
T Consensus       340 YSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~Ya  417 (559)
T KOG1155|consen  340 YSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYA  417 (559)
T ss_pred             HHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHH
Confidence            45567889999999999887555 67889999999999999999999999877642 24666677777777777776666


Q ss_pred             HHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           85 YRTMVDMHKKGHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        85 ~~~~~~m~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      +-.|++..+  ++| |+..|.+|-.+|.+.++.++|.+.|.+...
T Consensus       418 LyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~  460 (559)
T KOG1155|consen  418 LYYFQKALE--LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAIL  460 (559)
T ss_pred             HHHHHHHHh--cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHh
Confidence            666666654  333 566677777777777777777777766543

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.29  E-value=8.5e-06  Score=57.17  Aligned_cols=119  Identities=13%  Similarity=0.113  Sum_probs=90.1

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH--h--C
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK--E--K   79 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~--~--g   79 (144)
                      .+...|++++|+++++.-      .+.......+..+.+.++++.|.+.++.|.+.   -+..+...+..++..  .  +
T Consensus       111 i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~---~eD~~l~qLa~awv~l~~g~e  181 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQI---DEDSILTQLAEAWVNLATGGE  181 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC---SCCHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcHHHHHHHHHHHHHHhCch
Confidence            456789999998887642      36778888999999999999999999999874   233455555555544  2  3


Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCC
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDR  132 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~  132 (144)
                      .+.+|..+|+++.+. ..++..+.+.+..++...|++++|.+++.+....+..
T Consensus       182 ~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~  233 (290)
T PF04733_consen  182 KYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN  233 (290)
T ss_dssp             CCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC
T ss_pred             hHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC
Confidence            588999999998754 5678899999999999999999999999996654433

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.25  E-value=0.00015  Score=48.75  Aligned_cols=127  Identities=13%  Similarity=-0.054  Sum_probs=105.7

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-CCCCCHHHHHHHHHHHHHhCcH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL-AISPDYNTFHILIKYFRKEKMY   81 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~   81 (144)
                      ..|.+.|..+.|.+-|++..+..+. +..+-|..-..+|..|++++|...|++.... ...--..||..+.-|..+.|+.
T Consensus        77 ~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~  155 (250)
T COG3063          77 HYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQF  155 (250)
T ss_pred             HHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCc
Confidence            3577889999999999999887555 7788999999999999999999999998876 2333457899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           82 MLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        82 ~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      +.|...+++-.+.. +-...+...+.....+.|++..|...++.......
T Consensus       156 ~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~  204 (250)
T COG3063         156 DQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPARLYLERYQQRGG  204 (250)
T ss_pred             hhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHHHHHHHHHhccc
Confidence            99999999998753 22345677788899999999999999998875433

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.24  E-value=0.0001  Score=50.51  Aligned_cols=123  Identities=13%  Similarity=0.087  Sum_probs=87.6

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH----hC
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK----EK   79 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g   79 (144)
                      .|++.|++++|.+..+...      +....-.=...+.+..+.+-|...+.+|.+-   -+..|.+-|..++.+    .+
T Consensus       117 i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~gge  187 (299)
T KOG3081|consen  117 IYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGE  187 (299)
T ss_pred             HhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccch
Confidence            4778889999988877622      2223222233445566788888888888873   566777777777666    34


Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCCCcHH
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMP  136 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~~~  136 (144)
                      .+.+|..+|++|-+. ..|+..+-+-...++...|++++|..++++........|.+
T Consensus       188 k~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpet  243 (299)
T KOG3081|consen  188 KIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPET  243 (299)
T ss_pred             hhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHH
Confidence            677888888888643 56888888888888888889999999888877655555443

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.24  E-value=4.3e-05  Score=42.98  Aligned_cols=90  Identities=16%  Similarity=0.118  Sum_probs=74.2

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|...+++..+.... +...+..+...+...+++++|.+.+++..+... .+..++..+...+...|+.+
T Consensus         8 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~   85 (100)
T cd00189           8 NLYYKLGDYDEALEYYEKALELDPD-NADAYYNLAAAYYKLGKYEEALEDYEKALELDP-DNAKAYYNLGLAYYKLGKYE   85 (100)
T ss_pred             HHHHHHhcHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC-cchhHHHHHHHHHHHHHhHH
Confidence            3567789999999999998876433 457788899999999999999999999877543 44468888899999999999


Q ss_pred             HHHHHHHHHHHC
Q 045403           83 LAYRTMVDMHKK   94 (144)
Q Consensus        83 ~a~~~~~~m~~~   94 (144)
                      .|...+....+.
T Consensus        86 ~a~~~~~~~~~~   97 (100)
T cd00189          86 EALEAYEKALEL   97 (100)
T ss_pred             HHHHHHHHHHcc
Confidence            999999887653

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.23  E-value=3.9e-06  Score=47.86  Aligned_cols=81  Identities=17%  Similarity=0.226  Sum_probs=38.1

Q ss_pred             cCCHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHH
Q 045403            8 GGCFEEAKQLARDFEAKYDK-YDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYR   86 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~   86 (144)
                      .|+++.|+.+++.+.+.... |+...+-.+..++.+.|++++|..+++. .+.+. .+....-.+..++.+.|++++|.+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            35556666666665554331 2333333355556666666666666655 11111 111222333555555666666655


Q ss_pred             HHHH
Q 045403           87 TMVD   90 (144)
Q Consensus        87 ~~~~   90 (144)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            5543

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=98.23  E-value=4.9e-06  Score=64.83  Aligned_cols=140  Identities=16%  Similarity=0.112  Sum_probs=83.7

Q ss_pred             ChhhhhccCCHHHHHHHHHHHHhcCC------------------------CCCHHHHHHHHHHHHhcCCHHH---HHHHH
Q 045403            1 MISAFCRGGCFEEAKQLARDFEAKYD------------------------KYDVVLLNSMLCAYCRTGDMES---VIHVM   53 (144)
Q Consensus         1 ll~~~~~~g~~~~a~~~~~~m~~~~~------------------------~p~~~~~~~li~~~~~~~~~~~---a~~~~   53 (144)
                      ||.-||..|+.+.|- +|..|+....                        .|...+|+.|.++|.++|+...   +++.+
T Consensus        31 LiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll~ayr~hGDli~fe~veqdL  109 (1088)
T KOG4318|consen   31 LIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLLKAYRIHGDLILFEVVEQDL  109 (1088)
T ss_pred             HHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHHHHHHHhccchHHHHHHHHHH
Confidence            466789999999888 8887765422                        2677899999999999998644   33322


Q ss_pred             HHh----hhCCC-----------------CCCHHH----------HHHHHHHHHHhC-----------------cHHHHH
Q 045403           54 RKL----DELAI-----------------SPDYNT----------FHILIKYFRKEK-----------------MYMLAY   85 (144)
Q Consensus        54 ~~m----~~~g~-----------------~p~~~~----------~~~li~~~~~~g-----------------~~~~a~   85 (144)
                      ...    ...|+                 -||..+          |..+++-..+..                 +..-..
T Consensus       110 e~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa~~~p~~vfLrqnv~~ntpve  189 (1088)
T KOG4318|consen  110 ESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSAWNAPFQVFLRQNVVDNTPVE  189 (1088)
T ss_pred             HHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcccccchHHHHHHHhccCCchHH
Confidence            222    22333                 122221          222222221110                 000011


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCCCcHHHHHHh
Q 045403           86 RTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFMRKF  141 (144)
Q Consensus        86 ~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~~~~~~~~  141 (144)
                      ++.+..+..--.|++.+|.+.+++-.-+|+++.|..++.+|++..-+..+.++|-+
T Consensus       190 kLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpL  245 (1088)
T KOG4318|consen  190 KLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPL  245 (1088)
T ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhh
Confidence            11111111111588889999999988899999999999999887777776666544

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.23  E-value=0.00012  Score=49.81  Aligned_cols=122  Identities=16%  Similarity=0.037  Sum_probs=97.7

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ....+.|++..|.+.|++.... -++|...||-+--+|.+.|+.++|..-|.+..+--. -+....|.+.-.+...|+.+
T Consensus       108 k~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~-~~p~~~nNlgms~~L~gd~~  185 (257)
T COG5010         108 KNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGRFDEARRAYRQALELAP-NEPSIANNLGMSLLLRGDLE  185 (257)
T ss_pred             HHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhcc-CCchhhhhHHHHHHHcCCHH
Confidence            3456789999999999988754 356899999999999999999999999988877422 34567888888889999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      .|..++......+ .-|..+-..+.-.-...|++++|.++..+-.
T Consensus       186 ~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i~~~e~  229 (257)
T COG5010         186 DAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDIAVQEL  229 (257)
T ss_pred             HHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhhccccc
Confidence            9999999888654 2356666667777788999999999887644

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=98.20  E-value=0.00021  Score=50.32  Aligned_cols=128  Identities=14%  Similarity=0.155  Sum_probs=96.3

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCH------HHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDV------VLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFR   76 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~------~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~   76 (144)
                      +.|-+.|.+++|+++.+.+.+   +||.      ..---|-.-|...|-+|.|+++|..+.+.|. .-......|+..|.
T Consensus        77 nLfRsRGEvDRAIRiHQ~L~~---spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~e-fa~~AlqqLl~IYQ  152 (389)
T COG2956          77 NLFRSRGEVDRAIRIHQTLLE---SPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGE-FAEGALQQLLNIYQ  152 (389)
T ss_pred             HHHHhcchHHHHHHHHHHHhc---CCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchh-hhHHHHHHHHHHHH
Confidence            356788999999999999875   3443      2223445557788899999999999988655 55677889999999


Q ss_pred             HhCcHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHhccCChHHHHHHHHHhhhcCCCCc
Q 045403           77 KEKMYMLAYRTMVDMHKKGHQPEE----ELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCA  134 (144)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~  134 (144)
                      ...+|++|.++-.++.+.+-.+..    ..|.-|...+.-..++++|..++++-.+.+..|.
T Consensus       153 ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cv  214 (389)
T COG2956         153 ATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKKCV  214 (389)
T ss_pred             HhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccce
Confidence            999999999999999887655442    2355566666677888888888888666555554

>TIGR00540 hemY_coli hemY protein

Probab=98.20  E-value=0.00011  Score=53.95  Aligned_cols=124  Identities=14%  Similarity=0.056  Sum_probs=72.4

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHH---HHhCcH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYF---RKEKMY   81 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~---~~~g~~   81 (144)
                      +.+.|+++.|.+.++.+.+..+. +......+...+.+.|++++|.+++..+.+.++.++...-..-..++   ...+..
T Consensus       163 ~l~~~~~~~Al~~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~  241 (409)
T TIGR00540       163 LLAQNELHAARHGVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMA  241 (409)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            34467777777777777766443 55566677777777777777777777777665532222111111111   112222


Q ss_pred             HHHHHHHHHHHHCC---CCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           82 MLAYRTMVDMHKKG---HQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        82 ~~a~~~~~~m~~~~---~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +.....+..+.+..   .+.+...+..+...+.+.|+.++|.+++++..+.
T Consensus       242 ~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~  292 (409)
T TIGR00540       242 DEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK  292 (409)
T ss_pred             hcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh
Confidence            22222333333221   1126677788888889999999999999987653

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.19  E-value=0.00019  Score=48.58  Aligned_cols=125  Identities=15%  Similarity=0.094  Sum_probs=78.8

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCC-CC-HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCC-CCH-HHHHHHHHHHHHh
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDK-YD-VVLLNSMLCAYCRTGDMESVIHVMRKLDELAIS-PDY-NTFHILIKYFRKE   78 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~-p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~~-~~~~~li~~~~~~   78 (144)
                      ..+.+.|++++|...|++.....+. |. ...+..+..++...|++++|...+++..+..-. |.. .++..+-.++...
T Consensus        41 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~  120 (235)
T TIGR03302        41 KEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQ  120 (235)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHh
Confidence            3566788888888888887765332 11 246677788888888888888888888764221 111 1344444444443


Q ss_pred             --------CcHHHHHHHHHHHHHCCCCCCHH-HH-----------------HHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           79 --------KMYMLAYRTMVDMHKKGHQPEEE-LC-----------------SSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        79 --------g~~~~a~~~~~~m~~~~~~~~~~-~~-----------------~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                              |+.+.|.+.+++..+..  |+.. .+                 ..+...+.+.|+.++|...+++....
T Consensus       121 ~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~  195 (235)
T TIGR03302       121 IDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVEN  195 (235)
T ss_pred             cccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence                    66777888887776542  2211 11                 13445677778888888888776654

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.19  E-value=0.00021  Score=52.42  Aligned_cols=117  Identities=17%  Similarity=0.122  Sum_probs=93.1

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      .++.+.|+.++|.+++++..+.  +||...  .++.+....++.+++.+..+...+... -|.....++-..+...++++
T Consensus       271 ~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~P-~~~~l~l~lgrl~~~~~~~~  345 (398)
T PRK10747        271 EHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQHG-DTPLLWSTLGQLLMKHGEWQ  345 (398)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHCCCHH
Confidence            4677889999999999988874  444422  234444566899999999988876522 34556778888899999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHh
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVK  126 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m  126 (144)
                      +|.+.|+...+.  .|+..++..+..++-+.|+.++|.+++++-
T Consensus       346 ~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~  387 (398)
T PRK10747        346 EASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDG  387 (398)
T ss_pred             HHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999999874  699999999999999999999999999874

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.13  E-value=0.00033  Score=41.92  Aligned_cols=96  Identities=13%  Similarity=0.037  Sum_probs=51.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhhhCCC--CCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCC--CCCCHHHHHHHHH
Q 045403           33 LNSMLCAYCRTGDMESVIHVMRKLDELAI--SPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKG--HQPEEELCSSLIF  108 (144)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~~~~~~~~~l~~  108 (144)
                      +-.....+.+.|++++|.+.|..+.+..-  ......+..+..++.+.|+++.|...++......  .......+..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            34445555566666666666666654311  0112344455666666666666666666665421  1111334555555


Q ss_pred             HHhccCChHHHHHHHHHhhh
Q 045403          109 HLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       109 ~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ++.+.|+.++|.+.++++..
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~  104 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIK  104 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHH
Confidence            56666666666666666554

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.13  E-value=5.5e-06  Score=47.22  Aligned_cols=81  Identities=21%  Similarity=0.178  Sum_probs=60.5

Q ss_pred             cCCHHHHHHHHHHhhhCCC-CCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHH
Q 045403           43 TGDMESVIHVMRKLDELAI-SPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALC  121 (144)
Q Consensus        43 ~~~~~~a~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  121 (144)
                      .|+++.|..+++++.+..- .|+...+-.+..++.+.|++++|..++++ .+.+. .+....-.+..+|.+.|++++|.+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            5889999999999987633 22455666689999999999999999988 32221 122344456888999999999999


Q ss_pred             HHHH
Q 045403          122 LQHV  125 (144)
Q Consensus       122 l~~~  125 (144)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            9875

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.12  E-value=0.00029  Score=42.18  Aligned_cols=93  Identities=16%  Similarity=0.066  Sum_probs=74.3

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCC--CCHHHHHHHHHHHHHh
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDK--YDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAIS--PDYNTFHILIKYFRKE   78 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~--p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~--p~~~~~~~li~~~~~~   78 (144)
                      ..+.+.|++++|.+.|+++......  .....+..+..++.+.|++++|...|+...+..-.  .....+..+..++...
T Consensus        10 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~   89 (119)
T TIGR02795        10 LLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQEL   89 (119)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHh
Confidence            3567889999999999999875332  12456777999999999999999999998864211  2245678888889999


Q ss_pred             CcHHHHHHHHHHHHHCC
Q 045403           79 KMYMLAYRTMVDMHKKG   95 (144)
Q Consensus        79 g~~~~a~~~~~~m~~~~   95 (144)
                      |+.++|...+++..+..
T Consensus        90 ~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        90 GDKEKAKATLQQVIKRY  106 (119)
T ss_pred             CChHHHHHHHHHHHHHC
Confidence            99999999999998763

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.11  E-value=0.00036  Score=51.38  Aligned_cols=119  Identities=15%  Similarity=0.045  Sum_probs=99.0

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC-HHHHHHHHHHHHHhCcHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD-YNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~   83 (144)
                      +...|+.++|...++.+.+.-+. |+.-+......+.+.++..+|.+.++++...  .|+ ...+-.+-.++.+.|+..+
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~~P~-N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAAQPD-NPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHH
Confidence            45678999999999998877444 8888888999999999999999999999874  566 5667777888999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      |..++++.... .+-|...|..|-.+|.+.|+..++..-..+.-
T Consensus       393 ai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~  435 (484)
T COG4783         393 AIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARAEGY  435 (484)
T ss_pred             HHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            99999999865 35688899999999999998877766655543

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.10  E-value=0.0005  Score=46.53  Aligned_cols=121  Identities=13%  Similarity=0.095  Sum_probs=66.9

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHHhc--------CCHHHHHHHHHHhhhCCCCCCH-HHHH---
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDV--VLLNSMLCAYCRT--------GDMESVIHVMRKLDELAISPDY-NTFH---   69 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~~~~--------~~~~~a~~~~~~m~~~g~~p~~-~~~~---   69 (144)
                      ++.+.|++++|...++++.+..+....  .++..+-.++.+.        |++++|...|++..+.  .|+. ..+.   
T Consensus        79 ~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~  156 (235)
T TIGR03302        79 AYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKK  156 (235)
T ss_pred             HHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHH
Confidence            455667777777777777654332222  1333344444433        5567777777776654  2322 1111   


Q ss_pred             --------------HHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHH----HHHHHHhccCChHHHHHHHHHhhh
Q 045403           70 --------------ILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCS----SLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        70 --------------~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~----~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                                    .+-..+.+.|++++|...+++..+.  .|+..-..    .+..++.+.|+.++|.++++.+..
T Consensus       157 ~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~  231 (235)
T TIGR03302       157 RMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVEN--YPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGA  231 (235)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH--CCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence                          2234455667777777777776643  34433334    245556667777777777776654

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.08  E-value=0.00031  Score=50.80  Aligned_cols=96  Identities=14%  Similarity=-0.013  Sum_probs=79.9

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      ...+.|++++|+++|++....... +...|..+-.++...|++++|...+++..+..- .+...|..+-.+|...|++++
T Consensus        11 ~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P-~~~~a~~~lg~~~~~lg~~~e   88 (356)
T PLN03088         11 EAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELDP-SLAKAYLRKGTACMKLEEYQT   88 (356)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhCCHHH
Confidence            456789999999999999987555 778899999999999999999999999987532 366778888899999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHH
Q 045403           84 AYRTMVDMHKKGHQPEEELC  103 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~  103 (144)
                      |...+++..+.  .|+....
T Consensus        89 A~~~~~~al~l--~P~~~~~  106 (356)
T PLN03088         89 AKAALEKGASL--APGDSRF  106 (356)
T ss_pred             HHHHHHHHHHh--CCCCHHH
Confidence            99999999875  3443333

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=98.06  E-value=4.1e-05  Score=41.58  Aligned_cols=64  Identities=16%  Similarity=0.273  Sum_probs=42.8

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILI   72 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li   72 (144)
                      .+.|++++|.++|++..+..+. +...+-.+..++.+.|++++|..+++++...  .|+...|..++
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l~   65 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQLL   65 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHHH
Confidence            3567778888888877766444 6666667777777888888888887777654  45544444443

...

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.06  E-value=0.00037  Score=51.29  Aligned_cols=120  Identities=14%  Similarity=-0.013  Sum_probs=102.8

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~   83 (144)
                      |....+...|++-++...+-.+. |-..|-.+..+|...++..=|+-.|++..+  ++| |...|.+|-++|.+.+++++
T Consensus       374 yvEmKNt~AAi~sYRrAvdi~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~~e  450 (559)
T KOG1155|consen  374 YVEMKNTHAAIESYRRAVDINPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNRLEE  450 (559)
T ss_pred             HHHhcccHHHHHHHHHHHhcCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhccHHH
Confidence            34456778888888888876444 889999999999999999999999999776  455 89999999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      |.++|.+....| ..+...+.-|.+.|-+.++..+|-+.++.-.+
T Consensus       451 AiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  451 AIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            999999998765 33667899999999999999999999887544

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=98.04  E-value=6.4e-05  Score=59.22  Aligned_cols=118  Identities=14%  Similarity=0.041  Sum_probs=101.0

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHH
Q 045403            8 GGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRT   87 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~   87 (144)
                      .+..++|+++|.+.....+. |...-|-+--.++..|++.+|.+||...++... -+..+|-.+-++|...|++..|.++
T Consensus       625 kk~~~KAlq~y~kvL~~dpk-N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqm  702 (1018)
T KOG2002|consen  625 KKHQEKALQLYGKVLRNDPK-NMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQM  702 (1018)
T ss_pred             HHHHHHHHHHHHHHHhcCcc-hhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHH
Confidence            45678999999998876555 888889899999999999999999999988754 4557899999999999999999999


Q ss_pred             HHHHHH-CCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           88 MVDMHK-KGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        88 ~~~m~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      |+...+ ..-.-+..+...|.+++.+.|.+.+|.+....-.
T Consensus       703 Ye~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~  743 (1018)
T KOG2002|consen  703 YENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKAR  743 (1018)
T ss_pred             HHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            999874 4445577888899999999999999998887654

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=98.02  E-value=0.0013  Score=47.47  Aligned_cols=127  Identities=14%  Similarity=0.053  Sum_probs=107.8

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHH
Q 045403            8 GGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRT   87 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~   87 (144)
                      .|+|.+|.++...-.+.+-. .+..|..-.++--+.|+.+.+...+.+..+..-.++....-+........|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            69999999999997776655 56778889999999999999999999998864457777788888889999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCCCcHH
Q 045403           88 MVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMP  136 (144)
Q Consensus        88 ~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~~~  136 (144)
                      ++++.+.+ +.++........+|.+.|++....++...|.+.+...+..
T Consensus       176 v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e  223 (400)
T COG3071         176 VDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEE  223 (400)
T ss_pred             HHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHH
Confidence            99998754 4467788999999999999999999999999865544433

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=98.02  E-value=0.00022  Score=49.53  Aligned_cols=90  Identities=18%  Similarity=0.287  Sum_probs=77.0

Q ss_pred             CCCHHHHHHHHHHHHhc-----CCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhC----------------cHHHHH
Q 045403           27 KYDVVLLNSMLCAYCRT-----GDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEK----------------MYMLAY   85 (144)
Q Consensus        27 ~p~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g----------------~~~~a~   85 (144)
                      ..|-.+|-.++.-|.++     ++.+-...-+..|.+.|+.-|..+|+.||+.+-+..                +-..+.
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            55778888888888654     577888888899999999999999999999876644                455689


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccCCh
Q 045403           86 RTMVDMHKKGHQPEEELCSSLIFHLGKMRAH  116 (144)
Q Consensus        86 ~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~  116 (144)
                      +++++|..+|+.||..+--.++.+|.+.+..
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            9999999999999999999999999997764

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=98.00  E-value=0.00037  Score=42.94  Aligned_cols=87  Identities=15%  Similarity=0.176  Sum_probs=70.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHh---------------hhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHH-
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKL---------------DELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMH-   92 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m---------------~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~-   92 (144)
                      |..++.++|-++++.|+.+....+.+..               ..+...|+..+..+++.+|+..|++..|.++.+... 
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            4567888888888888888888887653               122356899999999999999999999999999998 


Q ss_pred             HCCCCCCHHHHHHHHHHHhccCC
Q 045403           93 KKGHQPEEELCSSLIFHLGKMRA  115 (144)
Q Consensus        93 ~~~~~~~~~~~~~l~~~~~~~g~  115 (144)
                      ..++..+..+|..|+.-....-+
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~v~s~  103 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAYVLSS  103 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHHHhcC
Confidence            46788889999999987664333

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=97.99  E-value=6.7e-05  Score=57.06  Aligned_cols=120  Identities=13%  Similarity=0.090  Sum_probs=82.5

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC-HHHHHHHHHHHHHhCcHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD-YNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~   83 (144)
                      |...+.+++|...|.......+. ..+.+..|-..|.++|..|.|.+.|++..+.  .|+ ...|+.|-.++-..|+..+
T Consensus       262 ~ke~~~~d~Avs~Y~rAl~lrpn-~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~e  338 (966)
T KOG4626|consen  262 YKEARIFDRAVSCYLRALNLRPN-HAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTE  338 (966)
T ss_pred             HHHHhcchHHHHHHHHHHhcCCc-chhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHH
Confidence            33445556666666555543222 4466777777777788888888888777663  343 4578888888888888888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      |.+++++..... .-.....+.|-.+|.+.|.+++|..+|..-.+
T Consensus       339 a~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~  382 (966)
T KOG4626|consen  339 AVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEATRLYLKALE  382 (966)
T ss_pred             HHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHh
Confidence            888888877642 33455777788888888888888888876443

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=97.99  E-value=0.00076  Score=48.32  Aligned_cols=96  Identities=13%  Similarity=0.055  Sum_probs=71.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCC-CCCH--HHHHHHHH
Q 045403           32 LLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGH-QPEE--ELCSSLIF  108 (144)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~~--~~~~~l~~  108 (144)
                      ....+...+...|++++|...+++..+.. +.+...+..+-..+...|++++|...+++.....- .|+.  ..|..+..
T Consensus       116 ~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~  194 (355)
T cd05804         116 LLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLAL  194 (355)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHH
Confidence            33455567778889999999999988753 24456778888888899999999999888875421 2332  34556778


Q ss_pred             HHhccCChHHHHHHHHHhhh
Q 045403          109 HLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       109 ~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .+...|+.++|..++++...
T Consensus       195 ~~~~~G~~~~A~~~~~~~~~  214 (355)
T cd05804         195 FYLERGDYEAALAIYDTHIA  214 (355)
T ss_pred             HHHHCCCHHHHHHHHHHHhc
Confidence            88899999999999998753

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=97.94  E-value=0.00059  Score=56.05  Aligned_cols=125  Identities=11%  Similarity=-0.051  Sum_probs=98.6

Q ss_pred             ChhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCH---HHHHHHHHHHHH
Q 045403            1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDY---NTFHILIKYFRK   77 (144)
Q Consensus         1 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~---~~~~~li~~~~~   77 (144)
                      |...|.+.+++++|.++++.|.+.- ......|...+..+.++.+.+.|..++++..+.  -|-.   .........-.+
T Consensus      1536 L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLEFk 1612 (1710)
T KOG1070|consen 1536 LLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLEFK 1612 (1710)
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHHhh
Confidence            3456788899999999999998752 257888999999999999999999999887764  2431   223444445567


Q ss_pred             hCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           78 EKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      .|+.+++..+|+.....- +-....|+..++.=.++|+.+.++++|++...-
T Consensus      1613 ~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l 1663 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIEL 1663 (1710)
T ss_pred             cCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhc
Confidence            899999999999998642 335668999999999999999999999998743

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.93  E-value=0.00035  Score=49.52  Aligned_cols=122  Identities=11%  Similarity=-0.099  Sum_probs=91.1

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHH-HHHHHHHHHhCcH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTF-HILIKYFRKEKMY   81 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~-~~li~~~~~~g~~   81 (144)
                      .+|.+.|-+.+|.+.|++-...  .|-+.||-.|-++|.+..+++.|+.++.+-.+.  -|-.+|+ .-+...+-..++.
T Consensus       231 kCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam~~~  306 (478)
T KOG1129|consen  231 KCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAMEQQ  306 (478)
T ss_pred             HHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHHHhH
Confidence            5788899999999999998876  455667778889999999999999999886653  4655554 4455667778888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           82 MLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        82 ~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ++|.++++...+.. ..+.....++...|.-.++.+.|+..++++.+.
T Consensus       307 ~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqm  353 (478)
T KOG1129|consen  307 EDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQM  353 (478)
T ss_pred             HHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHh
Confidence            88888888887652 334555555666666677777777777776653

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=97.91  E-value=0.00084  Score=44.59  Aligned_cols=96  Identities=10%  Similarity=0.080  Sum_probs=78.4

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH-HhcCC--HHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhC
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAY-CRTGD--MESVIHVMRKLDELAISPDYNTFHILIKYFRKEK   79 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~-~~~~~--~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g   79 (144)
                      ..|...|++++|...|+...+..+. +...+..+-.++ ...|+  .++|..++++..+..- -+..++..+-..+.+.|
T Consensus        81 ~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP-~~~~al~~LA~~~~~~g  158 (198)
T PRK10370         81 EYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQTREMIDKALALDA-NEVTALMLLASDAFMQA  158 (198)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCC-CChhHHHHHHHHHHHcC
Confidence            3577899999999999999987655 788888888864 67676  5999999999987643 36778888889999999


Q ss_pred             cHHHHHHHHHHHHHCCCCCCHH
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEE  101 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~  101 (144)
                      ++++|...++++.+.. .|+..
T Consensus       159 ~~~~Ai~~~~~aL~l~-~~~~~  179 (198)
T PRK10370        159 DYAQAIELWQKVLDLN-SPRVN  179 (198)
T ss_pred             CHHHHHHHHHHHHhhC-CCCcc
Confidence            9999999999998754 34443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.91  E-value=0.00056  Score=43.54  Aligned_cols=88  Identities=6%  Similarity=-0.097  Sum_probs=46.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCh
Q 045403           37 LCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAH  116 (144)
Q Consensus        37 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~  116 (144)
                      -.-+...|++++|..+|+-+..... -+..-|-.|-.++...|++++|...|....... +-|...+-.+-.++...|+.
T Consensus        42 A~~ly~~G~l~~A~~~f~~L~~~Dp-~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG~~  119 (157)
T PRK15363         42 AMQLMEVKEFAGAARLFQLLTIYDA-WSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACDNV  119 (157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcCCH
Confidence            3344555666666666665554221 233445555555555666666666666655443 12344444455555566666


Q ss_pred             HHHHHHHHHh
Q 045403          117 SEALCLQHVK  126 (144)
Q Consensus       117 ~~a~~l~~~m  126 (144)
                      +.|.+-|+..
T Consensus       120 ~~A~~aF~~A  129 (157)
T PRK15363        120 CYAIKALKAV  129 (157)
T ss_pred             HHHHHHHHHH
Confidence            6666666543

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=97.90  E-value=0.00093  Score=50.59  Aligned_cols=125  Identities=16%  Similarity=0.051  Sum_probs=101.1

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..|-..|++++|.+.++...+..+. .+..|.+-.+.+-..|++.+|.+.++..++-.. -|...=+-.++.+.+.|+.+
T Consensus       202 qhyd~~g~~~~Al~~Id~aI~htPt-~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~~e  279 (517)
T PF12569_consen  202 QHYDYLGDYEKALEYIDKAIEHTPT-LVELYMTKARILKHAGDLKEAAEAMDEARELDL-ADRYINSKCAKYLLRAGRIE  279 (517)
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCh-hhHHHHHHHHHHHHHCCCHH
Confidence            3566789999999999998886433 478899999999999999999999999887655 78888899999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHH--------HHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           83 LAYRTMVDMHKKGHQPEEELC--------SSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~--------~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +|.+++.-..+.+..|....+        ..--.+|.+.|++..|++-|..+...
T Consensus       280 ~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~  334 (517)
T PF12569_consen  280 EAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLKH  334 (517)
T ss_pred             HHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            999999999876654433222        34567788999999998888876543

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.89  E-value=0.00053  Score=47.98  Aligned_cols=125  Identities=11%  Similarity=0.103  Sum_probs=94.3

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYD-KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      |+..-+.+..+.|..+|.+..+.+. ...+....++|..++ .++.+.|..||+...+. ...+...|..-++.+.+.++
T Consensus         8 m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~-~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l~~~~d   85 (280)
T PF05843_consen    8 MRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYC-NKDPKRARKIFERGLKK-FPSDPDFWLEYLDFLIKLND   85 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHT-CS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHhCc
Confidence            4455566779999999999986543 455555555554432 45677899999998875 55678889999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           81 YMLAYRTMVDMHKKGHQPE---EELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      .+.|..+|++.... +.++   ...|...++-=.+.|+++.+.++.+++.+.
T Consensus        86 ~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   86 INNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999999864 3222   248999999999999999999999988764

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.83  E-value=0.0022  Score=44.15  Aligned_cols=130  Identities=9%  Similarity=0.045  Sum_probs=94.6

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH----hcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhC
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYC----RTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEK   79 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~----~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g   79 (144)
                      .+.|..+++-|.+.+++|.+.  . +-.|.+-|-.++.    ..+.+..|.-+|++|.+. ..|+.-+-+-...++...|
T Consensus       146 I~lk~~r~d~A~~~lk~mq~i--d-ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~  221 (299)
T KOG3081|consen  146 ILLKMHRFDLAEKELKKMQQI--D-EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLG  221 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHcc--c-hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhc
Confidence            456777889999999999873  3 4455555555554    455789999999999653 6799999999999999999


Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHhccCChHHHHHHHHHhhhcCCCCcHHHH
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELC-SSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFM  138 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~-~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~~~~~  138 (144)
                      ++++|..+++........ ++.+. |.++.+.-...+-+-..+.+.+++...+..++..-
T Consensus       222 ~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~~p~h~~vk~  280 (299)
T KOG3081|consen  222 RYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVTERNLSQLKLSHPEHPFVKH  280 (299)
T ss_pred             CHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCcchHHHH
Confidence            999999999999865433 34444 44444444444555667778888776666665543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.82  E-value=0.0021  Score=41.53  Aligned_cols=99  Identities=6%  Similarity=-0.069  Sum_probs=72.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC--HHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD--YNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSL  106 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  106 (144)
                      ....+..+...+...|++++|...|++..+.+..++  ...+..+...+.+.|++++|...+.+..+.. +-+...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence            445677778888888999999999988876543332  3577888888888899999998888887642 2245566667


Q ss_pred             HHHHhccCC--------------hHHHHHHHHHhhh
Q 045403          107 IFHLGKMRA--------------HSEALCLQHVKDI  128 (144)
Q Consensus       107 ~~~~~~~g~--------------~~~a~~l~~~m~~  128 (144)
                      ..++...|+              +++|.+++++...
T Consensus       113 g~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~  148 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIR  148 (172)
T ss_pred             HHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHh
Confidence            777777776              5778888887664

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=97.81  E-value=0.00021  Score=54.20  Aligned_cols=117  Identities=10%  Similarity=-0.012  Sum_probs=56.4

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHH---HHHHHHHHHHhCc
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNT---FHILIKYFRKEKM   80 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~---~~~li~~~~~~g~   80 (144)
                      +|+-.++-+.|++.|+...+.... ...+|+.+-.=+.....+|.|...|+....    .|...   |--+--.|.+.++
T Consensus       430 cfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~----~~~rhYnAwYGlG~vy~Kqek  504 (638)
T KOG1126|consen  430 CFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALG----VDPRHYNAWYGLGTVYLKQEK  504 (638)
T ss_pred             hhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhc----CCchhhHHHHhhhhheeccch
Confidence            444456677777777766653211 445555555555555555555555544332    22222   2223333445555


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHh
Q 045403           81 YMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVK  126 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m  126 (144)
                      .+.|+..|+...+-+ +.+.+....+...+-+.|+.++|++++++.
T Consensus       505 ~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A  549 (638)
T KOG1126|consen  505 LEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKA  549 (638)
T ss_pred             hhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHH
Confidence            555555554444322 123334444444445555555555555543

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.81  E-value=0.0015  Score=47.28  Aligned_cols=91  Identities=7%  Similarity=-0.138  Sum_probs=76.0

Q ss_pred             HHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChH
Q 045403           38 CAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHS  117 (144)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~  117 (144)
                      ......|++++|...|.+..+..- -+...|..+..+|.+.|++++|...+++..+.. ..+...|..+-.+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHH
Confidence            445678999999999999987533 467788889999999999999999999998753 235667888889999999999


Q ss_pred             HHHHHHHHhhhcC
Q 045403          118 EALCLQHVKDIAK  130 (144)
Q Consensus       118 ~a~~l~~~m~~~~  130 (144)
                      +|...+++.....
T Consensus        88 eA~~~~~~al~l~  100 (356)
T PLN03088         88 TAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999877543

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=97.79  E-value=0.0058  Score=48.30  Aligned_cols=125  Identities=14%  Similarity=0.071  Sum_probs=100.4

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcHHHHHH
Q 045403            8 GGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMYMLAYR   86 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~   86 (144)
                      .|++++|.+++.+..+..+. +...|-+|-..|-+.|+.+++...+--  .....| |...|-.+-+-..+.|.++.|.-
T Consensus       152 rg~~eeA~~i~~EvIkqdp~-~~~ay~tL~~IyEqrGd~eK~l~~~ll--AAHL~p~d~e~W~~ladls~~~~~i~qA~~  228 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQDPR-NPIAYYTLGEIYEQRGDIEKALNFWLL--AAHLNPKDYELWKRLADLSEQLGNINQARY  228 (895)
T ss_pred             hCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHcccHHHHHHHHHH--HHhcCCCChHHHHHHHHHHHhcccHHHHHH
Confidence            49999999999999887544 888999999999999999988776644  444444 67889999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCCCcHH
Q 045403           87 TMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMP  136 (144)
Q Consensus        87 ~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~~~  136 (144)
                      +|.+..+.. +++....---...|-+.|+..+|.+-|.++-...+++.+.
T Consensus       229 cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~e  277 (895)
T KOG2076|consen  229 CYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIE  277 (895)
T ss_pred             HHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHH
Confidence            999999864 3444444456778889999999999999987765544443

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=97.79  E-value=0.0034  Score=44.95  Aligned_cols=120  Identities=13%  Similarity=0.079  Sum_probs=84.1

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH----hcCCHHHHHHHHHHhhhCCCCCC-HHHHHHHHHHHHHhC
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYC----RTGDMESVIHVMRKLDELAISPD-YNTFHILIKYFRKEK   79 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~----~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g   79 (144)
                      +...|++++|.+.+++.....+. |...++. ...+.    ..+..+.+...+..  .....|+ ......+...+...|
T Consensus        53 ~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G  128 (355)
T cd05804          53 AWIAGDLPKALALLEQLLDDYPR-DLLALKL-HLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAG  128 (355)
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCC-cHHHHHH-hHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcC
Confidence            45679999999999998876433 4445553 22222    23455556665554  2222343 344456667788999


Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ++++|...+++..+.. +.+...+..+-.++...|++++|...+++....
T Consensus       129 ~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~  177 (355)
T cd05804         129 QYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDT  177 (355)
T ss_pred             CHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhc
Confidence            9999999999998754 334567778888999999999999999986654

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=97.78  E-value=0.0025  Score=43.57  Aligned_cols=120  Identities=16%  Similarity=0.117  Sum_probs=92.9

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYR   86 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~   86 (144)
                      -.|+-+....+..+.... .+.|...-+..+....+.|++.+|...+++...- -++|..+|+.+-.+|-+.|+.++|..
T Consensus        78 ~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr~~~Ar~  155 (257)
T COG5010          78 LRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGRFDEARR  155 (257)
T ss_pred             hcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccChhHHHH
Confidence            345555555554443322 2346677788999999999999999999998653 34899999999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           87 TMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        87 ~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      -|.+..+.- .-+....+.+.-.+.-.|+.+.|..++..-...
T Consensus       156 ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~  197 (257)
T COG5010         156 AYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLS  197 (257)
T ss_pred             HHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            999988642 234556777888888899999999999876643

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.78  E-value=0.00057  Score=42.98  Aligned_cols=86  Identities=13%  Similarity=0.099  Sum_probs=67.5

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDV--VLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      ..+...|++++|...|++.......|+.  ...-.+-..+...|++++|...++......  .....+...-+.+...|+
T Consensus        56 ~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~  133 (145)
T PF09976_consen   56 KAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIPDEA--FKALAAELLGDIYLAQGD  133 (145)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCC
Confidence            4567789999999999999987644433  234456777889999999999997754332  445667788888999999


Q ss_pred             HHHHHHHHHH
Q 045403           81 YMLAYRTMVD   90 (144)
Q Consensus        81 ~~~a~~~~~~   90 (144)
                      .++|...|+.
T Consensus       134 ~~~A~~~y~~  143 (145)
T PF09976_consen  134 YDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHHH
Confidence            9999999875

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.76  E-value=0.0025  Score=41.04  Aligned_cols=113  Identities=6%  Similarity=-0.059  Sum_probs=78.5

Q ss_pred             HHHHHHHHHHHH-hcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC--CHHHHHHHHHHHHHhCcHHHHHHH
Q 045403           11 FEEAKQLARDFE-AKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP--DYNTFHILIKYFRKEKMYMLAYRT   87 (144)
Q Consensus        11 ~~~a~~~~~~m~-~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p--~~~~~~~li~~~~~~g~~~~a~~~   87 (144)
                      +..+...+..+. ..+-.-....|..+...+...|++++|...|.+.......|  ...++..+-..+...|+.++|...
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            334444444442 33333346677888888889999999999999987653222  235788899999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHh-------ccCChHHHHHHHH
Q 045403           88 MVDMHKKGHQPEEELCSSLIFHLG-------KMRAHSEALCLQH  124 (144)
Q Consensus        88 ~~~m~~~~~~~~~~~~~~l~~~~~-------~~g~~~~a~~l~~  124 (144)
                      +++..+.. +....++..+...+.       +.|++++|...++
T Consensus        95 ~~~Al~~~-~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~  137 (168)
T CHL00033         95 YFQALERN-PFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFD  137 (168)
T ss_pred             HHHHHHhC-cCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHH
Confidence            99988642 223455666666777       7778775544444

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.74  E-value=0.00058  Score=47.78  Aligned_cols=97  Identities=13%  Similarity=0.045  Sum_probs=74.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhhCC-CCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKLDELA-ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFH  109 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~  109 (144)
                      .+|..+|+..-+.+..+.|..+|.+.++.+ +..+.....+++. |...++.+.|.++|+...+. ...+...|...++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E-~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALME-YYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHH-HHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            578999999999999999999999998653 3344444444443 33457778899999999875 45677889999999


Q ss_pred             HhccCChHHHHHHHHHhhhc
Q 045403          110 LGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus       110 ~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +.+.|+.+.|..+|++....
T Consensus        80 l~~~~d~~~aR~lfer~i~~   99 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS   99 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT
T ss_pred             HHHhCcHHHHHHHHHHHHHh
Confidence            99999999999999998754

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=97.74  E-value=0.0026  Score=45.89  Aligned_cols=122  Identities=16%  Similarity=0.141  Sum_probs=96.4

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHH-------HHHHHHHHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYN-------TFHILIKYFRK   77 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-------~~~~li~~~~~   77 (144)
                      ....|+.+.|..-.+++...++. ++..-.....+|.+.|++.++.+++..|.+.|+--|+.       +|..+++-...
T Consensus       163 ll~~~d~~aA~~~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~  241 (400)
T COG3071         163 LLNRRDYPAARENVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARD  241 (400)
T ss_pred             HHhCCCchhHHHHHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhc
Confidence            45678888888888888877655 77788999999999999999999999999998865554       57777777777


Q ss_pred             hCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           78 EKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .+..+.-...+++.-.. .+-++..-.+++.-+.++|+.++|.++.++-..
T Consensus       242 ~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk  291 (400)
T COG3071         242 DNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALK  291 (400)
T ss_pred             cccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            77777777777777543 345666777788888999999999998887543

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.74  E-value=0.00021  Score=38.40  Aligned_cols=54  Identities=11%  Similarity=0.070  Sum_probs=30.9

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDE   58 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (144)
                      .+.+.|++++|.+.|++..+..+. +...+..+-.++...|++++|...|++..+
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345556666666666666655433 555566666666666666666666665543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.71  E-value=0.0017  Score=41.74  Aligned_cols=87  Identities=9%  Similarity=-0.094  Sum_probs=64.5

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHH-----
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKY--DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFR-----   76 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~-----   76 (144)
                      .+...|++++|...|+........|  ...+|..+-..+...|++++|...+.+..+.. +....++..+...+.     
T Consensus        44 ~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~i~~~~~~~  122 (168)
T CHL00033         44 SAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAVICHYRGEQ  122 (168)
T ss_pred             HHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHhhHH
Confidence            4556799999999999997654333  23588999999999999999999999987642 233455667776777     


Q ss_pred             --HhCcHHHHHHHHHHH
Q 045403           77 --KEKMYMLAYRTMVDM   91 (144)
Q Consensus        77 --~~g~~~~a~~~~~~m   91 (144)
                        ..|++++|...+++-
T Consensus       123 ~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        123 AIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHcccHHHHHHHHHHH
Confidence              677777665555543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.70  E-value=0.0023  Score=48.28  Aligned_cols=125  Identities=14%  Similarity=0.054  Sum_probs=95.4

Q ss_pred             hhhhccCCHHHHHHHHHHHHhc---CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC----CC--CC-CHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAK---YDKY----DVVLLNSMLCAYCRTGDMESVIHVMRKLDEL----AI--SP-DYNTF   68 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~---~~~p----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~--~p-~~~~~   68 (144)
                      ..|+..+.+++|..+++...+.   -+.+    -..+++.|-..|...|++++|+++|.+..+.    +-  .+ .....
T Consensus       333 ~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l  412 (508)
T KOG1840|consen  333 AILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPL  412 (508)
T ss_pred             HHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHH
Confidence            4577889999999998876543   1222    2478999999999999999999999987643    11  22 24567


Q ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHH----CC-CCCC-HHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           69 HILIKYFRKEKMYMLAYRTMVDMHK----KG-HQPE-EELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        69 ~~li~~~~~~g~~~~a~~~~~~m~~----~~-~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      +.+-..|.+.+..++|.++|.+-..    -| -.|+ ..+|..|...|...|+++.|.++.+.+.
T Consensus       413 ~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  413 NQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            8888889999999988888877652    22 1233 5589999999999999999999998765

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.68  E-value=0.00025  Score=44.56  Aligned_cols=74  Identities=18%  Similarity=0.257  Sum_probs=55.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHH-----CCCCCCHHHHH
Q 045403           30 VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHK-----KGHQPEEELCS  104 (144)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~~~~  104 (144)
                      ..+...++..+...|++++|..+.+....... .|...|..+|.+|...|+...|.+.|+++.+     .|+.|+..+-.
T Consensus        62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP-~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   62 LDALERLAEALLEAGDYEEALRLLQRALALDP-YDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHST-T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            35667788888899999999999999987533 6888999999999999999999999998863     58888877654

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=97.68  E-value=0.0054  Score=45.70  Aligned_cols=82  Identities=13%  Similarity=0.073  Sum_probs=65.0

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYR   86 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~   86 (144)
                      ..|++..|.++|+....  .+|+...|++.|+.=.+.+..+.|..||++.+-  +.|++.+|---.+--.++|....+..
T Consensus       153 ~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~  228 (677)
T KOG1915|consen  153 MLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARS  228 (677)
T ss_pred             HhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHH
Confidence            35788888888888766  589999999999999999999999999998876  45888888777777677777666666


Q ss_pred             HHHHHH
Q 045403           87 TMVDMH   92 (144)
Q Consensus        87 ~~~~m~   92 (144)
                      +++...
T Consensus       229 VyerAi  234 (677)
T KOG1915|consen  229 VYERAI  234 (677)
T ss_pred             HHHHHH
Confidence            665554

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=97.66  E-value=0.0032  Score=48.10  Aligned_cols=119  Identities=10%  Similarity=-0.023  Sum_probs=61.8

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      |.|.++++.|.-.|+...+-.+. +.+....+...+-+.|+.|+|+++|++...-.- -|..+--.....+...++.++|
T Consensus       499 y~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~-kn~l~~~~~~~il~~~~~~~ea  576 (638)
T KOG1126|consen  499 YLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDP-KNPLCKYHRASILFSLGRYVEA  576 (638)
T ss_pred             eeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCC-CCchhHHHHHHHHHhhcchHHH
Confidence            44555666666666655554333 444445555555555666666666665543222 2233333333444445556666


Q ss_pred             HHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           85 YRTMVDMHKKGHQPE-EELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        85 ~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      +..++++++  +.|+ ...|-.+.+.|-+.|..+.|..-|.-+.
T Consensus       577 l~~LEeLk~--~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~  618 (638)
T KOG1126|consen  577 LQELEELKE--LVPQESSVFALLGKIYKRLGNTDLALLHFSWAL  618 (638)
T ss_pred             HHHHHHHHH--hCcchHHHHHHHHHHHHHHccchHHHHhhHHHh
Confidence            666666654  2343 3345555566666666666665555443

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.65  E-value=0.00097  Score=41.85  Aligned_cols=105  Identities=22%  Similarity=0.087  Sum_probs=72.1

Q ss_pred             ccCCHHHHHHHHHHHHhc--CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            7 RGGCFEEAKQLARDFEAK--YD-KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~--~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      ..|+.+.+.+.+++....  |. -|+...          .........-+..+.-       .+...++..+...|++++
T Consensus        18 ~~~~~~~~~~~~~~al~ly~G~~l~~~~~----------~~W~~~~r~~l~~~~~-------~~~~~l~~~~~~~~~~~~   80 (146)
T PF03704_consen   18 RAGDPEEAIELLEEALALYRGDFLPDLDD----------EEWVEPERERLRELYL-------DALERLAEALLEAGDYEE   80 (146)
T ss_dssp             HTT-HHHHHHHHHHHHTT--SSTTGGGTT----------STTHHHHHHHHHHHHH-------HHHHHHHHHHHHTT-HHH
T ss_pred             HCCCHHHHHHHHHHHHHHhCCCCCCCCCc----------cHHHHHHHHHHHHHHH-------HHHHHHHHHHHhccCHHH
Confidence            456777777777777653  22 122111          2233444444444432       567778888999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      |..+........ +.+...|..+|.+|...|+..+|.++|+++...
T Consensus        81 a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~  125 (146)
T PF03704_consen   81 ALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRR  125 (146)
T ss_dssp             HHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            999999998753 458889999999999999999999999987654

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.61  E-value=0.0052  Score=39.19  Aligned_cols=87  Identities=7%  Similarity=-0.060  Sum_probs=75.0

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      +...|++++|.++|+......+. +..-|-.|--++-..|++++|.+.|.....-.. -|...+-.+-.++...|+.+.|
T Consensus        45 ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~~~~A  122 (157)
T PRK15363         45 LMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDNVCYA  122 (157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCHHHH
Confidence            56789999999999999886544 666677788888888999999999999988664 6778888999999999999999


Q ss_pred             HHHHHHHHH
Q 045403           85 YRTMVDMHK   93 (144)
Q Consensus        85 ~~~~~~m~~   93 (144)
                      .+.|+....
T Consensus       123 ~~aF~~Ai~  131 (157)
T PRK15363        123 IKALKAVVR  131 (157)
T ss_pred             HHHHHHHHH
Confidence            999998874

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.59  E-value=0.00063  Score=36.77  Aligned_cols=50  Identities=18%  Similarity=0.209  Sum_probs=22.9

Q ss_pred             cCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Q 045403           43 TGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHK   93 (144)
Q Consensus        43 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~   93 (144)
                      .|++++|..+|++..+..- -|...+-.+..+|.+.|++++|..+++++..
T Consensus         4 ~~~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRNP-DNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHTT-TSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             ccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4445555555555443311 1444444455555555555555555555443

...

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.58  E-value=0.0032  Score=47.56  Aligned_cols=126  Identities=19%  Similarity=0.154  Sum_probs=89.2

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhc-----CC-CCCHHH-HHHHHHHHHhcCCHHHHHHHHHHhhhC---CCCCC----HHH
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAK-----YD-KYDVVL-LNSMLCAYCRTGDMESVIHVMRKLDEL---AISPD----YNT   67 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~-----~~-~p~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~p~----~~~   67 (144)
                      -..|...|++++|+.++++....     |. .|.+.+ -+.+-..|...+++++|..+|+++..-   ...++    ..+
T Consensus       206 a~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~  285 (508)
T KOG1840|consen  206 AEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAAT  285 (508)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            35788999999999999997654     21 233333 334666788899999999999998742   22222    235


Q ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHH-----CCC-CCCHH-HHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           68 FHILIKYFRKEKMYMLAYRTMVDMHK-----KGH-QPEEE-LCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        68 ~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~-~~~~~-~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      ++.|-..|.+.|++++|..++++..+     .|. .|... .++.+...+...+++++|..++++..
T Consensus       286 l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al  352 (508)
T KOG1840|consen  286 LNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKAL  352 (508)
T ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHH
Confidence            67777789999999998888777652     122 22333 35567777889999999999998644

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=97.58  E-value=0.0034  Score=49.55  Aligned_cols=121  Identities=12%  Similarity=0.006  Sum_probs=95.6

Q ss_pred             hccCCHHHHHHHHHHHHhcC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            6 CRGGCFEEAKQLARDFEAKY--DKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      ......+.+..+........  +.-++..|--+-++|...|++.+|..+|..+...-.--+...|--+-.+|...|..++
T Consensus       388 ~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~  467 (895)
T KOG2076|consen  388 VHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEE  467 (895)
T ss_pred             hcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHH
Confidence            33444444444555555554  5556788999999999999999999999999987555678899999999999999999


Q ss_pred             HHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           84 AYRTMVDMHKKGHQPE-EELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      |...++.....  .|+ ...--.|-..+.+.|+.++|.+.++++..
T Consensus       468 A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~  511 (895)
T KOG2076|consen  468 AIEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIIN  511 (895)
T ss_pred             HHHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccC
Confidence            99999999864  344 33445677788899999999999998753

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.56  E-value=0.0015  Score=47.79  Aligned_cols=88  Identities=18%  Similarity=0.084  Sum_probs=73.0

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCH-HHHHHHHHHHHHhCc
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDY-NTFHILIKYFRKEKM   80 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~   80 (144)
                      ...+...++-.+|.+++++..+..+ .+....+.-.+.+.+.++++.|..+.++..+.  .|+. .+|..|..+|...|+
T Consensus       207 A~v~l~~~~E~~AI~ll~~aL~~~p-~d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d  283 (395)
T PF09295_consen  207 ARVYLLMNEEVEAIRLLNEALKENP-QDSELLNLQAEFLLSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGD  283 (395)
T ss_pred             HHHHHhcCcHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCC
Confidence            3455567788999999999886533 37777777788899999999999999999874  5655 499999999999999


Q ss_pred             HHHHHHHHHHHH
Q 045403           81 YMLAYRTMVDMH   92 (144)
Q Consensus        81 ~~~a~~~~~~m~   92 (144)
                      ++.|+..++.+-
T Consensus       284 ~e~ALlaLNs~P  295 (395)
T PF09295_consen  284 FENALLALNSCP  295 (395)
T ss_pred             HHHHHHHHhcCc
Confidence            999999888774

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.56  E-value=0.0044  Score=48.68  Aligned_cols=102  Identities=7%  Similarity=-0.069  Sum_probs=84.3

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcH
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMY   81 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~   81 (144)
                      ..++.+.+++++|...+++.....+. +....+.+-.++.+.|++++|..+|++....+ .-+..++..+-.++-+.|+.
T Consensus       127 a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~  204 (694)
T PRK15179        127 LRGVKRQQGIEAGRAEIELYFSGGSS-SAREILLEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGAL  204 (694)
T ss_pred             HHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCH
Confidence            35788999999999999999987655 77888888899999999999999999999732 23478999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHH
Q 045403           82 MLAYRTMVDMHKKGHQPEEELCSSL  106 (144)
Q Consensus        82 ~~a~~~~~~m~~~~~~~~~~~~~~l  106 (144)
                      ++|...|.+..+.- .+....|+-.
T Consensus       205 ~~A~~~~~~a~~~~-~~~~~~~~~~  228 (694)
T PRK15179        205 WRARDVLQAGLDAI-GDGARKLTRR  228 (694)
T ss_pred             HHHHHHHHHHHHhh-CcchHHHHHH
Confidence            99999999998642 3444555443

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.56  E-value=0.0024  Score=39.33  Aligned_cols=66  Identities=12%  Similarity=0.024  Sum_probs=57.5

Q ss_pred             CHHHHHHHHHHHHHhCcHHHHHHHHHHHHH---------------CCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           64 DYNTFHILIKYFRKEKMYMLAYRTMVDMHK---------------KGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        64 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---------------~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      |+.++..+|.++++.|+++....+++..=.               ....|+..+..+++.+|+..|++..|+++++...+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            578899999999999999999888876521               13568999999999999999999999999999876


Q ss_pred             c
Q 045403          129 A  129 (144)
Q Consensus       129 ~  129 (144)
                      .
T Consensus        81 ~   81 (126)
T PF12921_consen   81 K   81 (126)
T ss_pred             H
Confidence            5

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=97.53  E-value=0.0034  Score=47.32  Aligned_cols=121  Identities=13%  Similarity=0.057  Sum_probs=87.7

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC--CCCC----CHHHHHHHHHHHHHh
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL--AISP----DYNTFHILIKYFRKE   78 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~p----~~~~~~~li~~~~~~   78 (144)
                      |.+-++++.|.++|.+.....+. |+...+-+--.....+.+.+|...|+.-...  .+.+    -..+++.+-.+|.+.
T Consensus       390 y~~t~n~kLAe~Ff~~A~ai~P~-Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl  468 (611)
T KOG1173|consen  390 YMRTNNLKLAEKFFKQALAIAPS-DPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKL  468 (611)
T ss_pred             HHHhccHHHHHHHHHHHHhcCCC-cchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHH
Confidence            44567788888888887765433 7777777777777778888888888776521  1111    234577777888888


Q ss_pred             CcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           79 KMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      +..++|...+++-... .+-+..++.++--.|...|+++.|.+.|..-.
T Consensus       469 ~~~~eAI~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL  516 (611)
T KOG1173|consen  469 NKYEEAIDYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKAL  516 (611)
T ss_pred             hhHHHHHHHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            8888888888887754 24577788888888888888888888887643

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.51  E-value=0.0095  Score=38.49  Aligned_cols=81  Identities=12%  Similarity=0.094  Sum_probs=61.6

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYD--VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMY   81 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~   81 (144)
                      .+.+.|++++|...|++..+....++  ...+..+...+.+.|++++|...+.+..+... -+...+..+...+...|+.
T Consensus        44 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~  122 (172)
T PRK02603         44 SAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNP-KQPSALNNIAVIYHKRGEK  122 (172)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCh
Confidence            45678999999999999887544433  46788999999999999999999999887422 2456677777778777765


Q ss_pred             HHHH
Q 045403           82 MLAY   85 (144)
Q Consensus        82 ~~a~   85 (144)
                      ..+.
T Consensus       123 ~~a~  126 (172)
T PRK02603        123 AEEA  126 (172)
T ss_pred             HhHh
Confidence            4433

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.51  E-value=0.0021  Score=45.84  Aligned_cols=101  Identities=12%  Similarity=0.008  Sum_probs=71.4

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      -|...|+...|.++-.+.+    .|+..-|-..|++++..++|++.+.+-..      +-+++-|-.++.+|.+.|...+
T Consensus       186 ~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~e  255 (319)
T PF04840_consen  186 KLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKE  255 (319)
T ss_pred             HHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHH
Confidence            4556677777777766664    46888888888888888888887776432      1233778888888888888888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHH
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQH  124 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~  124 (144)
                      |..++..+          .+..-+..|.+.|++.+|.+...
T Consensus       256 A~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~  286 (319)
T PF04840_consen  256 ASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAF  286 (319)
T ss_pred             HHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHH
Confidence            88777762          22445666777777777765543

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=97.48  E-value=0.0018  Score=45.23  Aligned_cols=85  Identities=14%  Similarity=0.108  Sum_probs=67.3

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC----------------HHHHHHHHHHhhhCCCCCCHHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGD----------------MESVIHVMRKLDELAISPDYNTFHI   70 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~----------------~~~a~~~~~~m~~~g~~p~~~~~~~   70 (144)
                      +.+.++--..-++.|.+.|+..|..+|+.||+.+-+-.-                -+-+.+++++|...|+-||..+--.
T Consensus        84 ~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~  163 (406)
T KOG3941|consen   84 GRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDI  163 (406)
T ss_pred             ccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHH
Confidence            346667777778889999999999999999999865432                2568999999999999999999999


Q ss_pred             HHHHHHHhCcH-HHHHHHHHHH
Q 045403           71 LIKYFRKEKMY-MLAYRTMVDM   91 (144)
Q Consensus        71 li~~~~~~g~~-~~a~~~~~~m   91 (144)
                      +++++++.+-. .+..++..-|
T Consensus       164 lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  164 LVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             HHHHhccccccHHHHHHHHHhh
Confidence            99999998853 2344444444

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.48  E-value=0.0027  Score=45.19  Aligned_cols=122  Identities=12%  Similarity=-0.014  Sum_probs=91.5

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHH--HHHHHHHHHHHhCcHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYN--TFHILIKYFRKEKMYM   82 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~--~~~~li~~~~~~g~~~   82 (144)
                      |.=.++++-|.+.|+.+.+.|+. +...|+.+--+|.-.+++|-++.-|++..+....|+..  .|-.+-....-.||+.
T Consensus       334 yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~n  412 (478)
T KOG1129|consen  334 YFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFN  412 (478)
T ss_pred             cccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchH
Confidence            34457788888888888888887 77778877777777788888888888877654445443  4666666677788888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .|.+.|.-...++ .-+...++.|.-.-.+.|++++|..++..-.+
T Consensus       413 lA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  413 LAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            8888888776543 23566788777777899999999999987653

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.45  E-value=0.014  Score=43.50  Aligned_cols=116  Identities=14%  Similarity=0.063  Sum_probs=70.0

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHH
Q 045403            9 GCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTM   88 (144)
Q Consensus         9 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~   88 (144)
                      .+..+|++++.+.... ++-|....+-|-..|-+.|+-.+|...+-+--.. .+-|..|..=|-..|....=++++..+|
T Consensus       572 ed~aqaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~  649 (840)
T KOG2003|consen  572 EDPAQAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYF  649 (840)
T ss_pred             hCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHH
Confidence            3444444444444332 3345566666666666666666666655442221 2234444444555555555566666666


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHH-hccCChHHHHHHHHHhhh
Q 045403           89 VDMHKKGHQPEEELCSSLIFHL-GKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        89 ~~m~~~~~~~~~~~~~~l~~~~-~~~g~~~~a~~l~~~m~~  128 (144)
                      ++..  -++|+..-|..++..| .+.|++++|+++++....
T Consensus       650 ekaa--liqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hr  688 (840)
T KOG2003|consen  650 EKAA--LIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHR  688 (840)
T ss_pred             HHHH--hcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            6553  3689999999877654 468999999999998764

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=97.44  E-value=0.003  Score=50.26  Aligned_cols=128  Identities=11%  Similarity=0.081  Sum_probs=97.3

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-CCCCCHHHHHHHHHHHHHhCcHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL-AISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      +++..|++++|..+|.+....... +..+|-.+-++|...|++..|.++|+.-.+. .-+-+....+.|-+++-+.|++.
T Consensus       655 VLA~kg~~~~A~dIFsqVrEa~~~-~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~  733 (1018)
T KOG2002|consen  655 VLAEKGRFSEARDIFSQVREATSD-FEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQ  733 (1018)
T ss_pred             hhhhccCchHHHHHHHHHHHHHhh-CCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHH
Confidence            567899999999999999887553 5667889999999999999999999876654 44567788899999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHh------------------ccCChHHHHHHHHHhhhcCCC
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLG------------------KMRAHSEALCLQHVKDIAKDR  132 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~------------------~~g~~~~a~~l~~~m~~~~~~  132 (144)
                      +|.+...........-+...||..+-..-                  ..+..+.|.++|..|....++
T Consensus       734 eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  734 EAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            99887776665433334556665443321                  123477788888888766444

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.44  E-value=0.021  Score=43.50  Aligned_cols=117  Identities=9%  Similarity=-0.128  Sum_probs=83.0

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC--------CHHHHHHHHHHhhhC-CCCCCHHHHHHHHHHHHHhC
Q 045403            9 GCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTG--------DMESVIHVMRKLDEL-AISPDYNTFHILIKYFRKEK   79 (144)
Q Consensus         9 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~--------~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g   79 (144)
                      ++.++|.++|++..+..+. +...|..+..++....        ++..+.+...+.... ....+...|.++--.....|
T Consensus       356 ~~~~~A~~lle~Ai~ldP~-~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g  434 (517)
T PRK10153        356 KSLNKASDLLEEILKSEPD-FTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVALPELNVLPRIYEILAVQALVKG  434 (517)
T ss_pred             HHHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcC
Confidence            3478999999999986444 4455555444443221        123344444433332 23345677887766666789


Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ++++|...+++....+  |+...|..+-+++...|+.++|.+.+++-..
T Consensus       435 ~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~  481 (517)
T PRK10153        435 KTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFN  481 (517)
T ss_pred             CHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9999999999999765  6888999999999999999999999998654

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.41  E-value=0.0017  Score=34.76  Aligned_cols=53  Identities=17%  Similarity=-0.031  Sum_probs=23.6

Q ss_pred             HHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           74 YFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        74 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      .+...|++++|...|++..+.. +-+...+..+-.++.+.|++++|...+++..
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444455555555555554332 1133344444444445555555555554443

>PLN02789 farnesyltranstransferase

Probab=97.40  E-value=0.024  Score=40.58  Aligned_cols=123  Identities=11%  Similarity=-0.020  Sum_probs=90.4

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcH-
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTG-DMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMY-   81 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~-   81 (144)
                      ++.+.++.++|+.+.++..+..+. +..+|+..-.++...| .++++++.++++.+... -+..+|+..-..+.+.|+. 
T Consensus        46 ~l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~np-knyqaW~~R~~~l~~l~~~~  123 (320)
T PLN02789         46 VYASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDNP-KNYQIWHHRRWLAEKLGPDA  123 (320)
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCC-cchHHhHHHHHHHHHcCchh
Confidence            455677888999998888876444 5567777766666766 67999999999887543 3445677665556666653 


Q ss_pred             -HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           82 -MLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        82 -~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                       +++..+.+.+.+.. .-+.+.|+...-++.+.|+++++++.++++.+.
T Consensus       124 ~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~  171 (320)
T PLN02789        124 ANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEE  171 (320)
T ss_pred             hHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence             66788888887653 346778888888888889999999999998764

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.39  E-value=0.0064  Score=42.90  Aligned_cols=120  Identities=18%  Similarity=0.164  Sum_probs=81.7

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC-------------CCCHHH----
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAI-------------SPDYNT----   67 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-------------~p~~~~----   67 (144)
                      ..+.|+.+.|.+-|+...+-|--.+...||+.+..|. .++++.|.+...+++++|+             .||+..    
T Consensus       154 lykegqyEaAvqkFqaAlqvsGyqpllAYniALaHy~-~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt  232 (459)
T KOG4340|consen  154 LYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHYS-SRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNT  232 (459)
T ss_pred             eeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHHh-hhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccch
Confidence            4688999999999999887555457788998887765 5678999999999999987             233322    


Q ss_pred             ----HHHHHHH-------HHHhCcHHHHHHHHHHHH-HC--------------------------------CCCC-CHHH
Q 045403           68 ----FHILIKY-------FRKEKMYMLAYRTMVDMH-KK--------------------------------GHQP-EEEL  102 (144)
Q Consensus        68 ----~~~li~~-------~~~~g~~~~a~~~~~~m~-~~--------------------------------~~~~-~~~~  102 (144)
                          -+.++.+       +-+.|+.+.|.+.+-+|- +.                                ++.| ...|
T Consensus       233 ~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~~~~p~~g~~KLqFLL~~nPfP~ET  312 (459)
T KOG4340|consen  233 LVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNMDARPTEGFEKLQFLLQQNPFPPET  312 (459)
T ss_pred             HHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcccCCccccHHHHHHHHhcCCCChHH
Confidence                2333333       445677777777666663 11                                1222 4556


Q ss_pred             HHHHHHHHhccCChHHHHHHHHH
Q 045403          103 CSSLIFHLGKMRAHSEALCLQHV  125 (144)
Q Consensus       103 ~~~l~~~~~~~g~~~~a~~l~~~  125 (144)
                      |..++-.||+..-++-|-+++-+
T Consensus       313 FANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  313 FANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             HHHHHHHHhhhHHHhHHHHHHhh
Confidence            66667777777667666666654

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.37  E-value=0.0067  Score=42.43  Aligned_cols=100  Identities=14%  Similarity=0.117  Sum_probs=77.3

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~   83 (144)
                      ..+++++++|+..|.+..+..+. |.+-|..---+|.+-|+++.|.+=...-.+-  .| -..+|..|-.+|.-.|++++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCcHHH
Confidence            45778899999999998887544 8888899999999999998888777666552  23 34578888889999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFH  109 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~  109 (144)
                      |...|+.-..  +.|+..+|-.=++.
T Consensus       168 A~~aykKaLe--ldP~Ne~~K~nL~~  191 (304)
T KOG0553|consen  168 AIEAYKKALE--LDPDNESYKSNLKI  191 (304)
T ss_pred             HHHHHHhhhc--cCCCcHHHHHHHHH
Confidence            9988877764  57777777654443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.34  E-value=0.012  Score=35.87  Aligned_cols=101  Identities=15%  Similarity=-0.046  Sum_probs=54.9

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC---H-HHHHHHHHHHHHh
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYD--VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD---Y-NTFHILIKYFRKE   78 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~-~~~~~li~~~~~~   78 (144)
                      +-..|+.++|+.+|++....|...+  ...+-.+-..+...|++++|..++++.....  |+   . .....+--++...
T Consensus        11 ~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L~~~   88 (120)
T PF12688_consen   11 HDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALYNL   88 (120)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHHC
Confidence            3445777777777777776665543  2334445555666677777777776665431  32   1 1122223345566


Q ss_pred             CcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 045403           79 KMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLG  111 (144)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~  111 (144)
                      |+.++|...+-....    ++..-|.--|..|.
T Consensus        89 gr~~eAl~~~l~~la----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   89 GRPKEALEWLLEALA----ETLPRYRRAIRFYA  117 (120)
T ss_pred             CCHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            777777666655432    23334444444443

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=97.33  E-value=0.022  Score=42.62  Aligned_cols=104  Identities=9%  Similarity=-0.128  Sum_probs=54.1

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCC-CCCCHHHH
Q 045403           25 YDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKG-HQPEEELC  103 (144)
Q Consensus        25 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~~~~~~  103 (144)
                      |..|-..+|-..|..=.+-+.+|.+..+|.+..+.+. -|..+|......--..|+.|.|..+|.-..+.. +.-....|
T Consensus       432 G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~P-e~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellw  510 (677)
T KOG1915|consen  432 GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSP-ENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLW  510 (677)
T ss_pred             ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcCh-HhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHH
Confidence            3445555555555555555555555555555555322 344555555555555556666655555554321 11223345


Q ss_pred             HHHHHHHhccCChHHHHHHHHHhhhc
Q 045403          104 SSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus       104 ~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      .+.|+-=...|.+++|..+++++...
T Consensus       511 kaYIdFEi~~~E~ekaR~LYerlL~r  536 (677)
T KOG1915|consen  511 KAYIDFEIEEGEFEKARALYERLLDR  536 (677)
T ss_pred             HHhhhhhhhcchHHHHHHHHHHHHHh
Confidence            55555555566666666666665543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.31  E-value=0.012  Score=46.71  Aligned_cols=116  Identities=18%  Similarity=0.137  Sum_probs=92.5

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH--HhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAY--CRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~--~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      ...+++.+|.+...+..+.  .|+ ..|...+.++  .+.|..++|..+++....-+.. |..|..++..+|...|+.++
T Consensus        20 ld~~qfkkal~~~~kllkk--~Pn-~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKK--HPN-ALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHH--CCC-cHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhH
Confidence            3568899999999998765  333 3466677775  4678999999999988765553 99999999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      +..++++..+.  .|+......++.+|.+.+++.+-.+.-=+|-
T Consensus        96 ~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~Ly  137 (932)
T KOG2053|consen   96 AVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLY  137 (932)
T ss_pred             HHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999864  5778888889999999998877555444443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.30  E-value=0.018  Score=40.10  Aligned_cols=99  Identities=9%  Similarity=-0.073  Sum_probs=75.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCH----HHHHHHHHHHHHhCcHHHHHHHHHHHHHCC--CCCCHHHH
Q 045403           30 VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDY----NTFHILIKYFRKEKMYMLAYRTMVDMHKKG--HQPEEELC  103 (144)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~~~~~~~  103 (144)
                      ...|+..+..+.+.|++++|...|+.+.+..  |+.    ..+--+-..|...|++++|...|+.+.+.-  .......+
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl  220 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHH
Confidence            4567777766677899999999999998752  443    467778888999999999999999998531  11123344


Q ss_pred             HHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403          104 SSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus       104 ~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      -.+..++.+.|+.++|.++++++....
T Consensus       221 ~klg~~~~~~g~~~~A~~~~~~vi~~y  247 (263)
T PRK10803        221 FKVGVIMQDKGDTAKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            445667778999999999999987643

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.28  E-value=0.0047  Score=33.39  Aligned_cols=62  Identities=19%  Similarity=0.131  Sum_probs=33.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhC-cHHHHHHHHHHHH
Q 045403           30 VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEK-MYMLAYRTMVDMH   92 (144)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~   92 (144)
                      ..+|..+-..+...|++++|...|.+..+.. +-+...|..+-.++...| ++++|.+.+++..
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            3455555555666666666666665555432 124445555555555555 4556655555544

...

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.26  E-value=0.0078  Score=44.94  Aligned_cols=117  Identities=15%  Similarity=0.037  Sum_probs=83.3

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC---------HHHHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD---------YNTFHILIKY   74 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---------~~~~~~li~~   74 (144)
                      +..+.+++++++..|++-++. .+.-+.+||-.-..+...++++.|.+.|+...+-  .|+         ....-.++- 
T Consensus       437 a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L--E~~~~~~~v~~~plV~Ka~l~-  512 (606)
T KOG0547|consen  437 ALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL--EPREHLIIVNAAPLVHKALLV-  512 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh--ccccccccccchhhhhhhHhh-
Confidence            345677888899999888766 4557788888888888999999999988877642  222         111111111 


Q ss_pred             HHHhCcHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHh
Q 045403           75 FRKEKMYMLAYRTMVDMHKKGHQP-EEELCSSLIFHLGKMRAHSEALCLQHVK  126 (144)
Q Consensus        75 ~~~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m  126 (144)
                      +.=.+++..|..++.+..+.  .| -...|..|-..-.+.|++++|.++|+.-
T Consensus       513 ~qwk~d~~~a~~Ll~KA~e~--Dpkce~A~~tlaq~~lQ~~~i~eAielFEks  563 (606)
T KOG0547|consen  513 LQWKEDINQAENLLRKAIEL--DPKCEQAYETLAQFELQRGKIDEAIELFEKS  563 (606)
T ss_pred             hchhhhHHHHHHHHHHHHcc--CchHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            11237888888888887654  23 3457888888889999999999999864

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.26  E-value=0.013  Score=47.14  Aligned_cols=124  Identities=12%  Similarity=0.045  Sum_probs=84.7

Q ss_pred             ChhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHH------------------HHHhhhCCCC
Q 045403            1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHV------------------MRKLDELAIS   62 (144)
Q Consensus         1 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~------------------~~~m~~~g~~   62 (144)
                      |+..+-..+++++|.++.+...+..+..-..-|-.-+ .+.+.++++.+..+                  ++.|.+.  .
T Consensus        37 Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~-l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve~~~~~i~~~--~  113 (906)
T PRK14720         37 LIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGI-LSLSRRPLNDSNLLNLIDSFSQNLKWAIVEHICDKILLY--G  113 (906)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHH-HHHhhcchhhhhhhhhhhhcccccchhHHHHHHHHHHhh--h
Confidence            4667778999999999999776653331112222222 55555555544444                  2233221  1


Q ss_pred             CCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           63 PDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        63 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      -+....-.+..+|-+.|+.+++..+++++.+.. .-+....|-+...|... ++++|.+++.+....
T Consensus       114 ~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~  178 (906)
T PRK14720        114 ENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR  178 (906)
T ss_pred             hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH
Confidence            122567778888888999999999999999876 45677888898899888 999999988876543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.25  E-value=0.0026  Score=34.83  Aligned_cols=55  Identities=15%  Similarity=0.094  Sum_probs=29.9

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDE   58 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (144)
                      ..|.+.+++++|.+.++.+....+. +...|...-.++.+.|++++|...|+...+
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3455555555555555555554333 445555555555555555555555555554

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=97.24  E-value=0.018  Score=35.81  Aligned_cols=107  Identities=13%  Similarity=0.064  Sum_probs=76.1

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcH
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMY   81 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~   81 (144)
                      +..+.+.+..+.+..+++.+...+. .+...+|.+|..|++.. ..+..+.+..      .++.......++.|.+.+.+
T Consensus        14 v~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~~l~   85 (140)
T smart00299       14 VELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKAKLY   85 (140)
T ss_pred             HHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHcCcH
Confidence            5667778899999999999888764 68889999999999875 3455555552      13445556678888888888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc-CChHHHHHHHHH
Q 045403           82 MLAYRTMVDMHKKGHQPEEELCSSLIFHLGKM-RAHSEALCLQHV  125 (144)
Q Consensus        82 ~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~-g~~~~a~~l~~~  125 (144)
                      +++..++.++..         +...+..+.+. ++++.|.+.+.+
T Consensus        86 ~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~  121 (140)
T smart00299       86 EEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVK  121 (140)
T ss_pred             HHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHh
Confidence            888888877731         22233333333 788888887775

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=97.23  E-value=0.056  Score=41.22  Aligned_cols=38  Identities=13%  Similarity=-0.059  Sum_probs=25.8

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHhhhcCCCCcHHHHH
Q 045403          102 LCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFMR  139 (144)
Q Consensus       102 ~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~~~~~~  139 (144)
                      ++..+...|-..|++++|++.+++-.+..+..+..++.
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~  233 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMT  233 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHH
Confidence            33456677788889999999888877655554444443

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.21  E-value=0.018  Score=35.17  Aligned_cols=88  Identities=19%  Similarity=0.089  Sum_probs=67.2

Q ss_pred             HHHHhcCCHHHHHHHHHHhhhCCCCCC--HHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHh
Q 045403           38 CAYCRTGDMESVIHVMRKLDELAISPD--YNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPE----EELCSSLIFHLG  111 (144)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~l~~~~~  111 (144)
                      .++-..|+.++|..+|++-...|...+  ...+-.+-..+...|+.++|..++++....-  |+    ......+.-++.
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHH
Confidence            456678999999999999999887654  3356667777999999999999999998542  33    233334455777


Q ss_pred             ccCChHHHHHHHHHhh
Q 045403          112 KMRAHSEALCLQHVKD  127 (144)
Q Consensus       112 ~~g~~~~a~~l~~~m~  127 (144)
                      ..|+.++|.+++-...
T Consensus        87 ~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   87 NLGRPKEALEWLLEAL  102 (120)
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            8999999999887643

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.19  E-value=0.021  Score=39.67  Aligned_cols=89  Identities=9%  Similarity=-0.059  Sum_probs=69.7

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC--CCCHHHHHHHHHHHHHhCcH
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYD--VVLLNSMLCAYCRTGDMESVIHVMRKLDELAI--SPDYNTFHILIKYFRKEKMY   81 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~   81 (144)
                      .+.|++++|...|+.+.+.-+...  ...+--+..+|...|++++|...|..+.+.--  ......+-.+...+...|+.
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~  233 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDT  233 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCH
Confidence            457999999999999998644321  35667888889999999999999999986421  12344555566778899999


Q ss_pred             HHHHHHHHHHHHC
Q 045403           82 MLAYRTMVDMHKK   94 (144)
Q Consensus        82 ~~a~~~~~~m~~~   94 (144)
                      ++|...+++..+.
T Consensus       234 ~~A~~~~~~vi~~  246 (263)
T PRK10803        234 AKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999999865

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.17  E-value=0.0026  Score=35.39  Aligned_cols=62  Identities=18%  Similarity=0.215  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhhC--CCC---CC-HHHHHHHHHHHHHhCcHHHHHHHHHHHH
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKLDEL--AIS---PD-YNTFHILIKYFRKEKMYMLAYRTMVDMH   92 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~---p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~   92 (144)
                      .+|+.+-..|...|++++|.+.|++..+.  ...   |+ ..++..+-.++...|++++|..++++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46677777777777777777777776532  111   22 3456666677777777777777776654

...

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=97.12  E-value=0.015  Score=41.18  Aligned_cols=123  Identities=11%  Similarity=0.100  Sum_probs=83.8

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh--cC----CHHHHHHHHHHhhhCC---CCCCHHHHHHHHHHHHHhC--
Q 045403           11 FEEAKQLARDFEAKYDKYDVVLLNSMLCAYCR--TG----DMESVIHVMRKLDELA---ISPDYNTFHILIKYFRKEK--   79 (144)
Q Consensus        11 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~--~~----~~~~a~~~~~~m~~~g---~~p~~~~~~~li~~~~~~g--   79 (144)
                      +++...+++.|++.|...+..+|-+..-....  ..    ...++..+|+.|++..   ..++-.++.+++..-...-  
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~~~~~~e~  157 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAMTSEDVEE  157 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhcccccHHH
Confidence            66778899999999999888877764444333  22    3568999999999875   3578888888877722211  


Q ss_pred             cHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccCC---hHHHHHHHHHhhhcCCCC
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEE-LCSSLIFHLGKMRA---HSEALCLQHVKDIAKDRC  133 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~-~~~~l~~~~~~~g~---~~~a~~l~~~m~~~~~~~  133 (144)
                      -.+++..+++.+.+.|+..+.. -+.+-+-++.....   +.++.++++.+++.+.+.
T Consensus       158 l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~ki  215 (297)
T PF13170_consen  158 LAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKI  215 (297)
T ss_pred             HHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCcc
Confidence            2466788899998888877544 33333444343222   457888899998764443

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.11  E-value=0.0065  Score=32.81  Aligned_cols=64  Identities=13%  Similarity=-0.033  Sum_probs=54.6

Q ss_pred             CHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC-ChHHHHHHHHHhhh
Q 045403           64 DYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMR-AHSEALCLQHVKDI  128 (144)
Q Consensus        64 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~l~~~m~~  128 (144)
                      +..+|..+-..+...|++++|...|++..+.. +-+...|..+-.+|.+.| ++++|.+.+++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            45788889999999999999999999999764 335668888999999999 79999999988654

...

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=97.06  E-value=0.012  Score=45.69  Aligned_cols=121  Identities=12%  Similarity=0.084  Sum_probs=100.5

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC-HHHHHHHHHHHHHhCcHHHH
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD-YNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a   84 (144)
                      .++++++++.+.|+.-....+ --..+|=.+-.+..+.+++..|.+.|..-..  ..|| ...||.+-.+|.+.|+-.+|
T Consensus       496 ~~~~~fs~~~~hle~sl~~np-lq~~~wf~~G~~ALqlek~q~av~aF~rcvt--L~Pd~~eaWnNls~ayi~~~~k~ra  572 (777)
T KOG1128|consen  496 LSNKDFSEADKHLERSLEINP-LQLGTWFGLGCAALQLEKEQAAVKAFHRCVT--LEPDNAEAWNNLSTAYIRLKKKKRA  572 (777)
T ss_pred             ccchhHHHHHHHHHHHhhcCc-cchhHHHhccHHHHHHhhhHHHHHHHHHHhh--cCCCchhhhhhhhHHHHHHhhhHHH
Confidence            346889999999988665433 3667888888999999999999999998765  3564 45799999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403           85 YRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        85 ~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      ...+++..+-+ .-+..+|...+-...+.|.++.|.+.+.++...+
T Consensus       573 ~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~  617 (777)
T KOG1128|consen  573 FRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLR  617 (777)
T ss_pred             HHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhh
Confidence            99999998876 5566678888888899999999999999987653

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.04  E-value=0.032  Score=41.47  Aligned_cols=65  Identities=8%  Similarity=-0.032  Sum_probs=53.1

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCH----HHHHHHHHHHHHhCcHHHHHHHHHHHHHC
Q 045403           28 YDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDY----NTFHILIKYFRKEKMYMLAYRTMVDMHKK   94 (144)
Q Consensus        28 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~   94 (144)
                      .+...|+.+..+|...|++++|...|++-.+.  .||.    .+|..+-.+|...|+.++|...+++..+.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            46688888999999999999999999887663  4653    35888999999999999998888888764

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=97.02  E-value=0.057  Score=45.22  Aligned_cols=115  Identities=16%  Similarity=0.073  Sum_probs=47.8

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCC-----CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKY-----DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      .+.++.++|.+++++.... +.+     -...|.++++.-...|.-+...++|++..+.  .-.-..|..|...|.+.+.
T Consensus      1469 LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~~~L~~iy~k~ek 1545 (1710)
T KOG1070|consen 1469 LELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVHLKLLGIYEKSEK 1545 (1710)
T ss_pred             hhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHHHHHHHHHHHhhc
Confidence            3445555555555555432 110     1134444444444444444444444444432  0112234444444444444


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHH
Q 045403           81 YMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQH  124 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~  124 (144)
                      .++|.++++.|.+. +.-...+|......+.+..+-+.|..++.
T Consensus      1546 ~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~ 1588 (1710)
T KOG1070|consen 1546 NDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLK 1588 (1710)
T ss_pred             chhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHH
Confidence            44444444444432 11223334444444444444344444333

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=96.96  E-value=0.034  Score=44.92  Aligned_cols=125  Identities=10%  Similarity=0.043  Sum_probs=69.8

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHH---HH--
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYF---RK--   77 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~---~~--   77 (144)
                      .+|-+.|+.++|...|++..+..+. |+.+-|.+-..|... ++++|..++.+....-+  |..-|+.+....   +.  
T Consensus       124 ~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~i--~~kq~~~~~e~W~k~~~~~  199 (906)
T PRK14720        124 EAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATSYEEE-DKEKAITYLKKAIYRFI--KKKQYVGIEEIWSKLVHYN  199 (906)
T ss_pred             HHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHH--hhhcchHHHHHHHHHHhcC
Confidence            4566678888888888888776633 777777777777777 77777777776655311  111122221111   11  


Q ss_pred             hCcHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           78 EKMYMLAYRTMVDMHKK-GHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        78 ~g~~~~a~~~~~~m~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      ..+.+.-.++.+.+... |..--..++-.+-..|-+.++++++..+++.+.+..+
T Consensus       200 ~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~  254 (906)
T PRK14720        200 SDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDN  254 (906)
T ss_pred             cccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCC
Confidence            11222223333333321 3333344555566667777777777777777665433

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=96.92  E-value=0.081  Score=41.11  Aligned_cols=119  Identities=13%  Similarity=0.001  Sum_probs=80.0

Q ss_pred             hccCCHHHHHHHHHHHHh-cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            6 CRGGCFEEAKQLARDFEA-KYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~-~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      -+.|++..-...|+.... .-+......|...|.....++-++-+..+|.+..+    .++..-+--|..+++.+++++|
T Consensus       113 ~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk----~~P~~~eeyie~L~~~d~~~ea  188 (835)
T KOG2047|consen  113 IKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLK----VAPEAREEYIEYLAKSDRLDEA  188 (835)
T ss_pred             HhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHh----cCHHHHHHHHHHHHhccchHHH
Confidence            456666667777766543 33344456677777777777777777777777765    3334466667777777777776


Q ss_pred             HHHHHHHHHC----------------------------------------CC--CCCHH--HHHHHHHHHhccCChHHHH
Q 045403           85 YRTMVDMHKK----------------------------------------GH--QPEEE--LCSSLIFHLGKMRAHSEAL  120 (144)
Q Consensus        85 ~~~~~~m~~~----------------------------------------~~--~~~~~--~~~~l~~~~~~~g~~~~a~  120 (144)
                      .+-+......                                        |+  -+|..  .|++|.+-|.+.|++++|.
T Consensus       189 a~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekar  268 (835)
T KOG2047|consen  189 AQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKAR  268 (835)
T ss_pred             HHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHH
Confidence            6555554321                                        21  24543  5889999999999999999


Q ss_pred             HHHHHhhh
Q 045403          121 CLQHVKDI  128 (144)
Q Consensus       121 ~l~~~m~~  128 (144)
                      +++++-..
T Consensus       269 Dvyeeai~  276 (835)
T KOG2047|consen  269 DVYEEAIQ  276 (835)
T ss_pred             HHHHHHHH
Confidence            99998543

>PRK15331 chaperone protein SicA; Provisional

Probab=96.89  E-value=0.02  Score=36.77  Aligned_cols=85  Identities=9%  Similarity=-0.046  Sum_probs=38.4

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYR   86 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~   86 (144)
                      +.|++++|..+|+-+...++- +..=|..|-.++-..+++++|...|.....-+. -|...+--.-.++...|+.+.|..
T Consensus        49 ~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~A~~  126 (165)
T PRK15331         49 NQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKARQ  126 (165)
T ss_pred             HCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHHHH
Confidence            445555555555555443222 222233333333344555555555554433222 222223333445555555555555


Q ss_pred             HHHHHHH
Q 045403           87 TMVDMHK   93 (144)
Q Consensus        87 ~~~~m~~   93 (144)
                      .|+....
T Consensus       127 ~f~~a~~  133 (165)
T PRK15331        127 CFELVNE  133 (165)
T ss_pred             HHHHHHh
Confidence            5555543

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.89  E-value=0.021  Score=43.27  Aligned_cols=114  Identities=14%  Similarity=0.070  Sum_probs=89.1

Q ss_pred             CHHHHHHHHHHHH-hcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcHHHHHHH
Q 045403           10 CFEEAKQLARDFE-AKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMYMLAYRT   87 (144)
Q Consensus        10 ~~~~a~~~~~~m~-~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~   87 (144)
                      .+.+..++|-++- ..+..+|..+++.|--.|...|++++|.+.|+....  ++| |...||-|-..+....+.++|...
T Consensus       409 ~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsA  486 (579)
T KOG1125|consen  409 HLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISA  486 (579)
T ss_pred             HHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHH
Confidence            3455666666665 345457888899999999999999999999999877  456 677899999999999999999999


Q ss_pred             HHHHHHCCCCCCHH-HHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           88 MVDMHKKGHQPEEE-LCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        88 ~~~m~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      |.+..+.  +|+-+ ..--|--.|...|.+.+|.+.|-...
T Consensus       487 Y~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  487 YNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            9999874  56522 33334556699999999988776533

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=96.88  E-value=0.025  Score=42.88  Aligned_cols=104  Identities=15%  Similarity=0.003  Sum_probs=83.5

Q ss_pred             ccCCHHHHHHHHHHHHhc--CC----CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403            7 RGGCFEEAKQLARDFEAK--YD----KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~--~~----~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      +.+.+.+|...|+.-...  .+    ....-+++.|..++.+.+.+++|...|+.-... .+-|..+++++--.|...|+
T Consensus       426 ~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l-~~k~~~~~asig~iy~llgn  504 (611)
T KOG1173|consen  426 TYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLL-SPKDASTHASIGYIYHLLGN  504 (611)
T ss_pred             hHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHc-CCCchhHHHHHHHHHHHhcC
Confidence            457788999999887621  11    125567999999999999999999999998764 23688999999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 045403           81 YMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKM  113 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~  113 (144)
                      ++.|.+.|.+-.  .+.|+..+-+.+++.+...
T Consensus       505 ld~Aid~fhKaL--~l~p~n~~~~~lL~~aie~  535 (611)
T KOG1173|consen  505 LDKAIDHFHKAL--ALKPDNIFISELLKLAIED  535 (611)
T ss_pred             hHHHHHHHHHHH--hcCCccHHHHHHHHHHHHh
Confidence            999999998876  4689988888888766543

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.84  E-value=0.041  Score=42.04  Aligned_cols=118  Identities=16%  Similarity=0.139  Sum_probs=81.7

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHH--HhC
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFR--KEK   79 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~--~~g   79 (144)
                      ++-+.+.|++++|.+...+....++. |...+-.=+-+..+.+.+++|+.+.+.-..  ...+.+-+  +=++||  +.+
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~pd-d~~a~~cKvValIq~~ky~~ALk~ikk~~~--~~~~~~~~--fEKAYc~Yrln   93 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIVPD-DEDAIRCKVVALIQLDKYEDALKLIKKNGA--LLVINSFF--FEKAYCEYRLN   93 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcCCC-cHhhHhhhHhhhhhhhHHHHHHHHHHhcch--hhhcchhh--HHHHHHHHHcc
Confidence            35567889999999999999987644 556666666677888899999866554321  11111111  345554  578


Q ss_pred             cHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           80 MYMLAYRTMVDMHKKGHQPE-EELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +.|+|...++     |+.++ ..+-..-...+.+.|++++|.++|+.+...
T Consensus        94 k~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn  139 (652)
T KOG2376|consen   94 KLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKN  139 (652)
T ss_pred             cHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            8999998888     33343 335555667788999999999999998543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.79  E-value=0.027  Score=30.67  Aligned_cols=56  Identities=16%  Similarity=0.129  Sum_probs=37.3

Q ss_pred             HHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHC
Q 045403           38 CAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKK   94 (144)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   94 (144)
                      ..|.+.+++++|.++++++.+.+- .+...|...-.++...|++++|...+++..+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDP-DDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCc-ccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            355667777777777777766422 35555666667777777777777777777654

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=96.77  E-value=0.016  Score=45.05  Aligned_cols=129  Identities=12%  Similarity=-0.010  Sum_probs=95.1

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-----CC---------------
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL-----AI---------------   61 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g~---------------   61 (144)
                      |-+|+..|+-.+|..+..+..+  -+||...|..+.+......-+++|.++.+..-.+     |.               
T Consensus       431 i~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hl  508 (777)
T KOG1128|consen  431 ILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHL  508 (777)
T ss_pred             HHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHH
Confidence            5678888999999998888776  4789999999999887777777777777654322     11               


Q ss_pred             -------CCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhhhcCCCC
Q 045403           62 -------SPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPE-EELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRC  133 (144)
Q Consensus        62 -------~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~  133 (144)
                             +.-..+|-.+-.+..+.+++..+.+.|......  .|| ...||.+-.+|.+.|+..+|...+.+-.+.+ ..
T Consensus       509 e~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~  585 (777)
T KOG1128|consen  509 ERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQ  585 (777)
T ss_pred             HHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CC
Confidence                   012223444455556677888888888888753  464 5689999999999999999999999876654 33


Q ss_pred             cH
Q 045403          134 AM  135 (144)
Q Consensus       134 ~~  135 (144)
                      +|
T Consensus       586 ~w  587 (777)
T KOG1128|consen  586 HW  587 (777)
T ss_pred             CC
Confidence            44

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.76  E-value=0.093  Score=36.06  Aligned_cols=71  Identities=10%  Similarity=0.163  Sum_probs=47.1

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHH--HHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLL--NSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYF   75 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~--~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~   75 (144)
                      +.+.|++++|.+.|++....-+.+.....  =.+..++.+.+++++|...+++..+....-...-+.-.+.+.
T Consensus        42 ~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~  114 (243)
T PRK10866         42 KLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGL  114 (243)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHH
Confidence            34578999999999999876444322221  245677788899999999999988764333333444444443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.74  E-value=0.046  Score=38.29  Aligned_cols=134  Identities=11%  Similarity=0.012  Sum_probs=79.9

Q ss_pred             hhhcc-CCHHHHHHHHHHHHhc----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC-----CCCHH-HHHHH
Q 045403            4 AFCRG-GCFEEAKQLARDFEAK----YDK-YDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAI-----SPDYN-TFHIL   71 (144)
Q Consensus         4 ~~~~~-g~~~~a~~~~~~m~~~----~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-----~p~~~-~~~~l   71 (144)
                      .|-+. |++++|++.|++....    +-+ .-..++..+...+.+.|++++|.++|++....-.     +++.. .|-..
T Consensus       123 ~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a  202 (282)
T PF14938_consen  123 IYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKA  202 (282)
T ss_dssp             HHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHH
Confidence            34555 7889999988886543    211 1235566777888999999999999998876432     22222 23334


Q ss_pred             HHHHHHhCcHHHHHHHHHHHHHC--CCCCC--HHHHHHHHHHHhccCChHHHHHHHHHhhhcCCCCcHHHH
Q 045403           72 IKYFRKEKMYMLAYRTMVDMHKK--GHQPE--EELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFM  138 (144)
Q Consensus        72 i~~~~~~g~~~~a~~~~~~m~~~--~~~~~--~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~~~~~  138 (144)
                      +-++...||.-.|...+++....  ++..+  ......|+.+ .+.||.+.-.+.+.+-..-.+..+|...
T Consensus       203 ~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A-~~~~D~e~f~~av~~~d~~~~ld~w~~~  272 (282)
T PF14938_consen  203 ILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEA-YEEGDVEAFTEAVAEYDSISRLDNWKTK  272 (282)
T ss_dssp             HHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHH-HHTT-CCCHHHHCHHHTTSS---HHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHH-HHhCCHHHHHHHHHHHcccCccHHHHHH
Confidence            44667788999999999998743  33333  3345556777 4566766666666665554666666544

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.73  E-value=0.062  Score=40.41  Aligned_cols=119  Identities=12%  Similarity=0.009  Sum_probs=68.9

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~   82 (144)
                      .|....+.++....|+...+..+. |.-+|----......+++++|..=|++-++  +.| +...|-.+--+.-+.+.++
T Consensus       369 ~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~--L~pe~~~~~iQl~~a~Yr~~k~~  445 (606)
T KOG0547|consen  369 AYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAIS--LDPENAYAYIQLCCALYRQHKIA  445 (606)
T ss_pred             HHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhh--cChhhhHHHHHHHHHHHHHHHHH
Confidence            345555566666666665554332 223333333333334456666666666554  223 2334444444445566777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHh
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVK  126 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m  126 (144)
                      ++...|++.++. ++.-+..|+.....+...++++.|.+-|+.-
T Consensus       446 ~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~a  488 (606)
T KOG0547|consen  446 ESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKA  488 (606)
T ss_pred             HHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHH
Confidence            777777777654 4445667777777788888888888777753

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=96.70  E-value=0.077  Score=41.38  Aligned_cols=128  Identities=13%  Similarity=0.033  Sum_probs=67.5

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYR   86 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~   86 (144)
                      +.|.+.+|..+++.-+..++. +...|-..|++=.+.|..+.|..+..+..+. ++-+...|..-|....+.++--.+. 
T Consensus       731 k~~~~~rAR~ildrarlkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks~-  807 (913)
T KOG0495|consen  731 KDGQLVRARSILDRARLKNPK-NALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSI-  807 (913)
T ss_pred             HhcchhhHHHHHHHHHhcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHHH-
Confidence            456777888888877766555 7778888888888888888887777665443 2223333444443333333311111 


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc--CCCCcHHHHHHh
Q 045403           87 TMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA--KDRCAMPFMRKF  141 (144)
Q Consensus        87 ~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~--~~~~~~~~~~~~  141 (144)
                        +.|++  +.-|.++.-++...|-....+++|++.|.+-..-  ..+..|-.+|++
T Consensus       808 --DALkk--ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykf  860 (913)
T KOG0495|consen  808 --DALKK--CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKF  860 (913)
T ss_pred             --HHHHh--ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHH
Confidence              11111  2234444444444444444555555555543322  234444444443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.68  E-value=0.028  Score=40.71  Aligned_cols=116  Identities=16%  Similarity=0.114  Sum_probs=75.8

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHH-HHHHHHHHhCcHHHHHHH
Q 045403            9 GCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFH-ILIKYFRKEKMYMLAYRT   87 (144)
Q Consensus         9 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~-~li~~~~~~g~~~~a~~~   87 (144)
                      .++++++..+...+..-..-|.+.+| +-.+++-.|.+.+|+++|-+...-.+ .|..+|. .+.++|.+++.++.|+.+
T Consensus       373 ~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~i-kn~~~Y~s~LArCyi~nkkP~lAW~~  450 (557)
T KOG3785|consen  373 FQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEI-KNKILYKSMLARCYIRNKKPQLAWDM  450 (557)
T ss_pred             HHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhh-hhhHHHHHHHHHHHHhcCCchHHHHH
Confidence            45666666666665554444555444 45667778888999999877765444 4555654 455778889999888887


Q ss_pred             HHHHHHCCCCCCHHHHH-HHHHHHhccCChHHHHHHHHHhhhc
Q 045403           88 MVDMHKKGHQPEEELCS-SLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        88 ~~~m~~~~~~~~~~~~~-~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +-.+..   ..+..+.- .+..-|.+.+++--|.+.|+.++..
T Consensus       451 ~lk~~t---~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~l  490 (557)
T KOG3785|consen  451 MLKTNT---PSERFSLLQLIANDCYKANEFYYAAKAFDELEIL  490 (557)
T ss_pred             HHhcCC---chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHcc
Confidence            766532   22333332 3455677888888888888877653

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.68  E-value=0.07  Score=37.40  Aligned_cols=80  Identities=23%  Similarity=0.200  Sum_probs=60.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHH-----CCCCCCHHHHHH
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHK-----KGHQPEEELCSS  105 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~~~~~  105 (144)
                      .++..++..+...|+++.+...++++..... .|...|..++.+|.+.|+...|...++++.+     .|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp-~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDP-YDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            4556677777777888888888888876543 6788888888888888888888888887765     477888777776


Q ss_pred             HHHHHh
Q 045403          106 LIFHLG  111 (144)
Q Consensus       106 l~~~~~  111 (144)
                      ......
T Consensus       233 y~~~~~  238 (280)
T COG3629         233 YEEILR  238 (280)
T ss_pred             HHHHhc
Confidence            666633

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.67  E-value=0.0089  Score=33.16  Aligned_cols=62  Identities=18%  Similarity=0.141  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHC----CC-CCC-HHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           66 NTFHILIKYFRKEKMYMLAYRTMVDMHKK----GH-QPE-EELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        66 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~-~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      .+++.+-..|...|++++|...+++..+.    |- .|+ ..++..+-.+|...|++++|.+.+++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46888899999999999999999998743    21 122 4567788899999999999999999754

...

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.66  E-value=0.12  Score=35.79  Aligned_cols=83  Identities=13%  Similarity=0.027  Sum_probs=45.9

Q ss_pred             cCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHH
Q 045403           43 TGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCL  122 (144)
Q Consensus        43 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l  122 (144)
                      .|++++|.++|+...+.. +-|.+++--=+...--.|+--+|.+-+.+..+. +..|...|.-+-..|...|++++|.-.
T Consensus        99 ~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fC  176 (289)
T KOG3060|consen   99 TGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFC  176 (289)
T ss_pred             hhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHH
Confidence            355666666666665544 234444444444444444444444444444432 445666666666666666666666666


Q ss_pred             HHHhh
Q 045403          123 QHVKD  127 (144)
Q Consensus       123 ~~~m~  127 (144)
                      ++++.
T Consensus       177 lEE~l  181 (289)
T KOG3060|consen  177 LEELL  181 (289)
T ss_pred             HHHHH
Confidence            66654

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.66  E-value=0.074  Score=39.83  Aligned_cols=109  Identities=18%  Similarity=0.211  Sum_probs=86.6

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHH-HHhCcH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYF-RKEKMY   81 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~-~~~g~~   81 (144)
                      +.|-+.|+-.+|++.+=+--.. .+-+..+..=|-.-|....-++++...|++..  =+.|+.+-|..||..| .+.|++
T Consensus       600 dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaa--liqp~~~kwqlmiasc~rrsgny  676 (840)
T KOG2003|consen  600 DLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAA--LIQPNQSKWQLMIASCFRRSGNY  676 (840)
T ss_pred             HHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH--hcCccHHHHHHHHHHHHHhcccH
Confidence            4566788888888776544332 45688888888888889899999999998854  3679999999999875 458999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC
Q 045403           82 MLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRA  115 (144)
Q Consensus        82 ~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~  115 (144)
                      .+|++++++.... ++-|......|+..+...|.
T Consensus       677 qka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  677 QKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            9999999999854 56677788889998888775

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=96.65  E-value=0.18  Score=37.78  Aligned_cols=89  Identities=12%  Similarity=0.029  Sum_probs=75.6

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      +.+.+.++.++|.+-++.+....+. ....+-++-.++.+.|++.+|..++++...+ .+-|...|.-|-.+|...|+..
T Consensus       348 ~i~~~~nk~~~A~e~~~kal~l~P~-~~~l~~~~a~all~~g~~~eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~  425 (484)
T COG4783         348 DILLEANKAKEAIERLKKALALDPN-SPLLQLNLAQALLKGGKPQEAIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRA  425 (484)
T ss_pred             HHHHHcCChHHHHHHHHHHHhcCCC-ccHHHHHHHHHHHhcCChHHHHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchH
Confidence            4567889999999999999986333 2677888999999999999999999998765 3468899999999999999999


Q ss_pred             HHHHHHHHHHH
Q 045403           83 LAYRTMVDMHK   93 (144)
Q Consensus        83 ~a~~~~~~m~~   93 (144)
                      ++.....+...
T Consensus       426 ~a~~A~AE~~~  436 (484)
T COG4783         426 EALLARAEGYA  436 (484)
T ss_pred             HHHHHHHHHHH
Confidence            98887777764

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=96.60  E-value=0.24  Score=38.79  Aligned_cols=112  Identities=13%  Similarity=-0.001  Sum_probs=50.3

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHH
Q 045403            8 GGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRT   87 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~   87 (144)
                      +|++..|..++.+.-+.... +...|-..++.-.++..+++|..+|.+...  ..|+...|.--++.---.+..++|.++
T Consensus       597 agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA~rl  673 (913)
T KOG0495|consen  597 AGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEALRL  673 (913)
T ss_pred             cCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHHHHH
Confidence            34555555555544443322 444455555555555555555555554333  234444444444444444455555555


Q ss_pred             HHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHH
Q 045403           88 MVDMHKKGHQPE-EELCSSLIFHLGKMRAHSEALCLQH  124 (144)
Q Consensus        88 ~~~m~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~  124 (144)
                      +++..+.  -|+ ...|-.+-..+-+.++++.|.+-|.
T Consensus       674 lEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~  709 (913)
T KOG0495|consen  674 LEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYL  709 (913)
T ss_pred             HHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            5444432  222 1233333333444444444444443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.57  E-value=0.043  Score=39.06  Aligned_cols=101  Identities=12%  Similarity=0.032  Sum_probs=78.1

Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCC---CCC--CHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCC
Q 045403           24 KYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA---ISP--DYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQP   98 (144)
Q Consensus        24 ~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g---~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~   98 (144)
                      .|.+....+...+++.-....+++.++..+-+++.+-   ..|  ..++|--++    ..-+.+++..+...-.+.|+=|
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irll----lky~pq~~i~~l~npIqYGiF~  133 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLL----LKYDPQKAIYTLVNPIQYGIFP  133 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHH----HccChHHHHHHHhCcchhcccc
Confidence            3566777788888888888888999999998887641   222  233333333    3346678999999999999999


Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           99 EEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        99 ~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      |..+++.+|+.|.+.+++..|.++.-.|..
T Consensus       134 dqf~~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  134 DQFTFCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             chhhHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            999999999999999999999998887654

>PRK15331 chaperone protein SicA; Provisional

Probab=96.55  E-value=0.06  Score=34.64  Aligned_cols=88  Identities=10%  Similarity=-0.069  Sum_probs=68.7

Q ss_pred             HHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHhccCCh
Q 045403           38 CAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGH-QPEEELCSSLIFHLGKMRAH  116 (144)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~~~~~l~~~~~~~g~~  116 (144)
                      .-+...|++++|..+|.-+.-.+. -|..-|..|-.++...+++++|...|......+. .|.+..  -.-.+|...|+.
T Consensus        45 y~~y~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f--~agqC~l~l~~~  121 (165)
T PRK15331         45 YEFYNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVF--FTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccc--hHHHHHHHhCCH
Confidence            345678999999999999987544 4566688888889999999999999988775432 233333  366788999999


Q ss_pred             HHHHHHHHHhhh
Q 045403          117 SEALCLQHVKDI  128 (144)
Q Consensus       117 ~~a~~l~~~m~~  128 (144)
                      +.|++.|+....
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            999999997765

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=96.52  E-value=0.18  Score=38.53  Aligned_cols=116  Identities=12%  Similarity=0.044  Sum_probs=70.8

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcHHHHHHHHH
Q 045403           11 FEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMYMLAYRTMV   89 (144)
Q Consensus        11 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~   89 (144)
                      .+.....++..+..-..--+-+|...|+.--+..-+..|..+|.+.++.+..+ .+...++++..||. ++.+.|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHH
Confidence            44445555555443222234557777777777767777777777777776655 66677777776653 45566777776


Q ss_pred             HHHHCCCCCCHHHH-HHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           90 DMHKKGHQPEEELC-SSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        90 ~m~~~~~~~~~~~~-~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      -=.+.  -+|...| ...++-+...++-..+..+|++....
T Consensus       426 LGLkk--f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s  464 (656)
T KOG1914|consen  426 LGLKK--FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTS  464 (656)
T ss_pred             HHHHh--cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhc
Confidence            54432  2233333 34666666677777777777776654

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.36  E-value=0.12  Score=32.30  Aligned_cols=64  Identities=11%  Similarity=0.101  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCC
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKG   95 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~   95 (144)
                      .-.+..++....+|.-|+..++++++.+. -.++....-.+-.+|.+.|+..++-+++.+.-+.|
T Consensus        87 e~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   87 EYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            33455555555555555555555555432 22444555555555555555555555555555444

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.35  E-value=0.15  Score=35.77  Aligned_cols=123  Identities=17%  Similarity=0.094  Sum_probs=76.8

Q ss_pred             hccCCHHHHHHHHHHHHhc---CCCCC--HHHHHHHHHHHHhc-CCHHHHHHHHHHhhhC----CCCCC--HHHHHHHHH
Q 045403            6 CRGGCFEEAKQLARDFEAK---YDKYD--VVLLNSMLCAYCRT-GDMESVIHVMRKLDEL----AISPD--YNTFHILIK   73 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~---~~~p~--~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~----g~~p~--~~~~~~li~   73 (144)
                      .+.+++++|.+.+++....   .-.|+  ..++..+-..|-.. |++++|.+.|++..+.    | .+.  ..++..+..
T Consensus        85 ~k~~~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~  163 (282)
T PF14938_consen   85 YKKGDPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAAD  163 (282)
T ss_dssp             HHHTTHHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHH
T ss_pred             HHhhCHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHH
Confidence            3445777777777775532   11222  34666777777777 8899999888876542    3 121  234667778


Q ss_pred             HHHHhCcHHHHHHHHHHHHHCCC-----CCCHH-HHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           74 YFRKEKMYMLAYRTMVDMHKKGH-----QPEEE-LCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        74 ~~~~~g~~~~a~~~~~~m~~~~~-----~~~~~-~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      .+.+.|++++|.++|++....-.     +.+.. .|-..+-++.-.||...|.+.+++....
T Consensus       164 l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~  225 (282)
T PF14938_consen  164 LYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQ  225 (282)
T ss_dssp             HHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTT
T ss_pred             HHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            89999999999999999876432     12222 2223344556678999999999987654

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.34  E-value=0.04  Score=39.45  Aligned_cols=88  Identities=13%  Similarity=0.059  Sum_probs=71.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHL  110 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~  110 (144)
                      .+.+..|.-+...|+...|.++-.+.+   | ||..-|...+++++..++|++..++...      +-.+..|..++.+|
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk---v-~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~  247 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK---V-PDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEAC  247 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC---C-cHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHH
Confidence            455666777788899888888877764   3 9999999999999999999988776433      22457899999999


Q ss_pred             hccCChHHHHHHHHHhhh
Q 045403          111 GKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       111 ~~~g~~~~a~~l~~~m~~  128 (144)
                      .+.|...+|..++.++..
T Consensus       248 ~~~~~~~eA~~yI~k~~~  265 (319)
T PF04840_consen  248 LKYGNKKEASKYIPKIPD  265 (319)
T ss_pred             HHCCCHHHHHHHHHhCCh
Confidence            999999999999988553

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.27  E-value=0.0017  Score=40.59  Aligned_cols=85  Identities=15%  Similarity=0.173  Sum_probs=61.9

Q ss_pred             ChhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403            1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus         1 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      +|+.+.+.+.++.+.++++...+.+..-+....|.++..|++.+..+++.++++...  +     .-...+++.|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~--~-----yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSN--N-----YDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSS--S-----S-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccccc--c-----cCHHHHHHHHHhcch
Confidence            467788889999999999999987777789999999999999988788888887322  2     333455666666666


Q ss_pred             HHHHHHHHHHHH
Q 045403           81 YMLAYRTMVDMH   92 (144)
Q Consensus        81 ~~~a~~~~~~m~   92 (144)
                      ++++.-++.++.
T Consensus        86 ~~~a~~Ly~~~~   97 (143)
T PF00637_consen   86 YEEAVYLYSKLG   97 (143)
T ss_dssp             HHHHHHHHHCCT
T ss_pred             HHHHHHHHHHcc
Confidence            666666666554

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.25  E-value=0.36  Score=36.92  Aligned_cols=132  Identities=11%  Similarity=0.061  Sum_probs=84.7

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~   83 (144)
                      +-+.|++.+|.-.|+...+..+. +...|--|...-.+.++-..|+.-+.+-.+-  .| |....-.|--+|...|.-..
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~L--dP~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLEL--DPTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhc--CCccHHHHHHHHHHHhhhhhHHH
Confidence            45789999999999999887655 7788888888888877777777777766552  34 33344444444444443333


Q ss_pred             H-----------------------------------------HHHHHHHH-HCCCCCCHHHHHHHHHHHhccCChHHHHH
Q 045403           84 A-----------------------------------------YRTMVDMH-KKGHQPEEELCSSLIFHLGKMRAHSEALC  121 (144)
Q Consensus        84 a-----------------------------------------~~~~~~m~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  121 (144)
                      |                                         .++|-++. ..+..+|..++..|--.|.-.|++++|.+
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            3                                         33333333 22334677777777777888888888888


Q ss_pred             HHHHhhhcCCCCcHHHHHHh
Q 045403          122 LQHVKDIAKDRCAMPFMRKF  141 (144)
Q Consensus       122 l~~~m~~~~~~~~~~~~~~~  141 (144)
                      .|+...  ...+....+|+-
T Consensus       452 cf~~AL--~v~Pnd~~lWNR  469 (579)
T KOG1125|consen  452 CFEAAL--QVKPNDYLLWNR  469 (579)
T ss_pred             HHHHHH--hcCCchHHHHHH
Confidence            888766  333444444443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=96.20  E-value=0.39  Score=36.76  Aligned_cols=121  Identities=11%  Similarity=0.137  Sum_probs=97.0

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHH-hhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKY-DVVLLNSMLCAYCRTGDMESVIHVMRK-LDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~-m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      -+..-++.|..+|....+.+..+ ++..++++|.-+|.. +.+-|.++|+- |++-|  -+..--...++-+...++-..
T Consensus       377 rR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~csk-D~~~AfrIFeLGLkkf~--d~p~yv~~YldfL~~lNdd~N  453 (656)
T KOG1914|consen  377 RRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCSK-DKETAFRIFELGLKKFG--DSPEYVLKYLDFLSHLNDDNN  453 (656)
T ss_pred             HHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhcC-ChhHHHHHHHHHHHhcC--CChHHHHHHHHHHHHhCcchh
Confidence            34455888999999999988876 999999999999864 57889999965 33322  233445677888889999899


Q ss_pred             HHHHHHHHHHCCCCCC--HHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           84 AYRTMVDMHKKGHQPE--EELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +..+|++....++.||  ..+|..+++-=...|++..+.++-+++-..
T Consensus       454 ~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  454 ARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             HHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            9999999998876665  468999999999999999999998876543

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=96.12  E-value=0.48  Score=37.13  Aligned_cols=135  Identities=14%  Similarity=0.082  Sum_probs=85.5

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHH-HHHHHHHHHHH---hCcHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYN-TFHILIKYFRK---EKMYM   82 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~---~g~~~   82 (144)
                      ..|-++....+++.+.+..+.......|- --.+-.+.-++++.++|++=+.-=--|+.. .|++-+.-+.+   ...++
T Consensus       489 s~gtfestk~vYdriidLriaTPqii~Ny-AmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klE  567 (835)
T KOG2047|consen  489 SLGTFESTKAVYDRIIDLRIATPQIIINY-AMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLE  567 (835)
T ss_pred             HhccHHHHHHHHHHHHHHhcCCHHHHHHH-HHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHH
Confidence            35677788888888876555422222221 112345566788888887654432235544 47776666554   23689


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHH--HhccCChHHHHHHHHHhhhcCCCCcHHHHHHhhc
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFH--LGKMRAHSEALCLQHVKDIAKDRCAMPFMRKFFI  143 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~l~~~m~~~~~~~~~~~~~~~~~  143 (144)
                      .|..+|++..+ |++|...-+--|+.+  =-+.|....|++++++.-..-.+...-.+|++||
T Consensus       568 raRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I  629 (835)
T KOG2047|consen  568 RARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYI  629 (835)
T ss_pred             HHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            99999999998 777653332223222  2247888999999999766566666777787775

>PLN02789 farnesyltranstransferase

Probab=96.12  E-value=0.31  Score=34.95  Aligned_cols=133  Identities=11%  Similarity=0.107  Sum_probs=90.8

Q ss_pred             ccC-CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC--HHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            7 RGG-CFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGD--MESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         7 ~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~--~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      +.| ++++++..++++.+..++ +..+|+-.-..+.+.+.  .+++.++++++.+... -|..+|+..-..+...|++++
T Consensus        83 ~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~e  160 (320)
T PLN02789         83 ALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWED  160 (320)
T ss_pred             HcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHH
Confidence            445 679999999998877665 66678866555555555  3678889988886543 578899999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhcc---CCh----HHHHHHHHHhhh-c-CCCCcHHHHHHhh
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKM---RAH----SEALCLQHVKDI-A-KDRCAMPFMRKFF  142 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~---g~~----~~a~~l~~~m~~-~-~~~~~~~~~~~~~  142 (144)
                      +.+.++++.+.+. -+...|+.....+.+.   |..    ++..+....... . ++..+|.+...+|
T Consensus       161 eL~~~~~~I~~d~-~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll  227 (320)
T PLN02789        161 ELEYCHQLLEEDV-RNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLF  227 (320)
T ss_pred             HHHHHHHHHHHCC-CchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHH
Confidence            9999999997653 3455666554444443   222    345555544332 2 4556666555444

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.09  E-value=0.33  Score=35.63  Aligned_cols=124  Identities=15%  Similarity=0.062  Sum_probs=91.0

Q ss_pred             hhhhccCCHHHHHHHHHHHHhc-----CC---------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAK-----YD---------KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTF   68 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~-----~~---------~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~   68 (144)
                      +.|.|.|++..|..-|+...+.     +.         ..-..+++.+.-++.+.+++.+|...-+.-...+- +|+...
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~-~N~KAL  294 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDP-NNVKAL  294 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCC-CchhHH
Confidence            3678899999999998875432     11         12346788888889999999999999888776533 677777


Q ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHhccCChH-HHHHHHHHhhhc
Q 045403           69 HILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELC-SSLIFHLGKMRAHS-EALCLQHVKDIA  129 (144)
Q Consensus        69 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~-~~l~~~~~~~g~~~-~a~~l~~~m~~~  129 (144)
                      ----.++...|+++.|...|+.+.+.  .|+...- +.++.+-.+..+.. +..++|..|-..
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            77788899999999999999999974  5655544 45555555544444 457788877543

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.07  E-value=0.17  Score=31.57  Aligned_cols=90  Identities=17%  Similarity=0.025  Sum_probs=68.0

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-CCCCCHHHHHH---HHHHHHHhC
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL-AISPDYNTFHI---LIKYFRKEK   79 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~~~~---li~~~~~~g   79 (144)
                      +.+..|+++.|++.|.+....-+ -....||.--.++--.|+.++|++=+++..+- |-+ ....+.+   ---.|...|
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P-~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAP-ERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhcc-cchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHhC
Confidence            46778999999999999877533 37788999999999999999999999888764 332 3333333   333477788


Q ss_pred             cHHHHHHHHHHHHHCC
Q 045403           80 MYMLAYRTMVDMHKKG   95 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~   95 (144)
                      +-+.|..=|+...+.|
T Consensus       130 ~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLG  145 (175)
T ss_pred             chHHHHHhHHHHHHhC
Confidence            8888888888777665

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=96.07  E-value=0.2  Score=37.95  Aligned_cols=103  Identities=19%  Similarity=0.147  Sum_probs=81.0

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC-HHHHHHHHHHHHHhCcHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD-YNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~   82 (144)
                      +.+..|+++.|+.+|.+.....+. |.+.|+.-..+|...|++++|.+=-.+-++  +.|+ ...|+-.-.+..=.|+++
T Consensus        11 aa~s~~d~~~ai~~~t~ai~l~p~-nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~~   87 (539)
T KOG0548|consen   11 AAFSSGDFETAIRLFTEAIMLSPT-NHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDYE   87 (539)
T ss_pred             hhcccccHHHHHHHHHHHHccCCC-ccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccHH
Confidence            557889999999999998877555 999999999999999999998876665544  4565 346777777777788999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHL  110 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~  110 (144)
                      +|..-|.+=.+.. +-+...++-+..++
T Consensus        88 eA~~ay~~GL~~d-~~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   88 EAILAYSEGLEKD-PSNKQLKTGLAQAY  114 (539)
T ss_pred             HHHHHHHHHhhcC-CchHHHHHhHHHhh
Confidence            9999998877642 23455666677666

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.02  E-value=0.16  Score=35.71  Aligned_cols=75  Identities=9%  Similarity=-0.046  Sum_probs=59.7

Q ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc----CCCCcHHHHHHhh
Q 045403           67 TFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA----KDRCAMPFMRKFF  142 (144)
Q Consensus        67 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~----~~~~~~~~~~~~~  142 (144)
                      ++..++..+...|+++.+...++++.... +.+...|..+|.+|.+.|+...|...++++.+-    -...|.+...++|
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            45667888888999999999999998753 568999999999999999999999999998762    2344555544443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.02  E-value=0.15  Score=35.98  Aligned_cols=86  Identities=10%  Similarity=-0.020  Sum_probs=68.7

Q ss_pred             HHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHH
Q 045403           40 YCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEA  119 (144)
Q Consensus        40 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a  119 (144)
                      +.+.+++.+|+..|.+.++-. +-|.+-|+.--.+|++.|+++.|++-.+...... .-...+|..|=.+|...|++.+|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHHH
Confidence            467889999999999988742 2477788899999999999999887766665432 12355888899999999999999


Q ss_pred             HHHHHHhh
Q 045403          120 LCLQHVKD  127 (144)
Q Consensus       120 ~~l~~~m~  127 (144)
                      .+-|+.-.
T Consensus       169 ~~aykKaL  176 (304)
T KOG0553|consen  169 IEAYKKAL  176 (304)
T ss_pred             HHHHHhhh
Confidence            99988644

>PRK04841 transcriptional regulator MalT; Provisional

Probab=95.98  E-value=0.33  Score=39.42  Aligned_cols=125  Identities=12%  Similarity=-0.029  Sum_probs=83.2

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCC-----CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC----CCC--C-CHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYD-----KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL----AIS--P-DYNTFHIL   71 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~-----~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~--p-~~~~~~~l   71 (144)
                      ++...|++++|...+++......     .+...+.+.+-..+...|++++|...+++....    |..  + ....+..+
T Consensus       500 ~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l  579 (903)
T PRK04841        500 VHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIR  579 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHH
Confidence            34568999999999988764311     112345566677788899999999998876542    221  1 23334455


Q ss_pred             HHHHHHhCcHHHHHHHHHHHHHC--CCCCC--HHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           72 IKYFRKEKMYMLAYRTMVDMHKK--GHQPE--EELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        72 i~~~~~~g~~~~a~~~~~~m~~~--~~~~~--~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ...+...|++++|...+.+....  ...+.  ...+..+...+...|+.++|...+++...
T Consensus       580 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~  640 (903)
T PRK04841        580 AQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLEN  640 (903)
T ss_pred             HHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            56677789999999988887542  11122  33444456677789999999998887643

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.97  E-value=0.47  Score=35.92  Aligned_cols=120  Identities=14%  Similarity=0.020  Sum_probs=83.6

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHH-HHHHHhcCCHHHHHHHHHHhhhC--CC-CCCHHHHHHHHHHHHHhCcHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSM-LCAYCRTGDMESVIHVMRKLDEL--AI-SPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l-i~~~~~~~~~~~a~~~~~~m~~~--g~-~p~~~~~~~li~~~~~~g~~~   82 (144)
                      .....+.|.++++.+.+.  -|+...|... -+.+...|++++|.+.|++....  .. ......+--+.-++....+++
T Consensus       245 ~~~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~  322 (468)
T PF10300_consen  245 EDVPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWE  322 (468)
T ss_pred             cCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHH
Confidence            356789999999999875  5666666533 34456679999999999976532  11 123345666677788899999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHH-HHhccCCh-------HHHHHHHHHhhhc
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIF-HLGKMRAH-------SEALCLQHVKDIA  129 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~-~~~~~g~~-------~~a~~l~~~m~~~  129 (144)
                      +|...|..+.+.+-. ...+|.-+.. ++...|+.       ++|.+++.+.+.-
T Consensus       323 ~A~~~f~~L~~~s~W-Ska~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~l  376 (468)
T PF10300_consen  323 EAAEYFLRLLKESKW-SKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPKL  376 (468)
T ss_pred             HHHHHHHHHHhcccc-HHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHHH
Confidence            999999999975422 2334443332 34467777       8899999887654

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=95.94  E-value=0.054  Score=42.92  Aligned_cols=105  Identities=14%  Similarity=0.157  Sum_probs=59.2

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHH
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAY   85 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~   85 (144)
                      .....|.+|+.+++-+......  ..-|.-+-..|+..|+++.|+++|-+-         ..++.-|..|++.|+|+.|.
T Consensus       743 i~akew~kai~ildniqdqk~~--s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~  811 (1636)
T KOG3616|consen  743 IGAKEWKKAISILDNIQDQKTA--SGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAF  811 (1636)
T ss_pred             hhhhhhhhhHhHHHHhhhhccc--cccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHH
Confidence            3455666677776666544222  234566667777777777777777553         23556677777777777777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHH
Q 045403           86 RTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQ  123 (144)
Q Consensus        86 ~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~  123 (144)
                      ++-.+...  -......|-+-..-.-+.|.+.+|.+++
T Consensus       812 kla~e~~~--~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  812 KLAEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHHhcC--chhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            77666531  1222333333333334445554444444

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.93  E-value=0.46  Score=36.67  Aligned_cols=123  Identities=11%  Similarity=0.040  Sum_probs=86.7

Q ss_pred             hhhhhccCCHHHHHHHHH--------HHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC------CCCCCHHH
Q 045403            2 ISAFCRGGCFEEAKQLAR--------DFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL------AISPDYNT   67 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~--------~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------g~~p~~~~   67 (144)
                      +......|+++.|.+++.        ...+.+..|-++  ..+...+.+.++-+.|-.++.+....      +-..=..+
T Consensus       383 aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V--~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~  460 (652)
T KOG2376|consen  383 AQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTV--GAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSL  460 (652)
T ss_pred             HHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHH--HHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhH
Confidence            345667899999999999        666655555555  45555666666655566666554432      11112234


Q ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           68 FHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        68 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      +......-.+.|..++|..+++++.+.+ ++|..+...++.+|++. |.++|..+-..+.-
T Consensus       461 ~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~-d~eka~~l~k~L~p  519 (652)
T KOG2376|consen  461 MREAAEFKLRHGNEEEASSLLEELVKFN-PNDTDLLVQLVTAYARL-DPEKAESLSKKLPP  519 (652)
T ss_pred             HHHHhHHHHhcCchHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhc-CHHHHHHHhhcCCC
Confidence            5555555667899999999999999754 57899999999999987 88888888776653

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.90  E-value=0.13  Score=38.53  Aligned_cols=100  Identities=13%  Similarity=0.037  Sum_probs=70.0

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHH
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAY   85 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~   85 (144)
                      .+.|+++.|.++.++      .++...|..|-+...+.|+++-|++.|++...         |..|+-.|.-.|+.+...
T Consensus       329 l~lg~L~~A~~~a~~------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~  393 (443)
T PF04053_consen  329 LQLGNLDIALEIAKE------LDDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLS  393 (443)
T ss_dssp             HHCT-HHHHHHHCCC------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHH
T ss_pred             HhcCCHHHHHHHHHh------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHH
Confidence            345566666555322      34777899999999999999999999988754         667777788888888777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHh
Q 045403           86 RTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVK  126 (144)
Q Consensus        86 ~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m  126 (144)
                      ++-+.....|      -++..+.++.-.|++++..+++.+-
T Consensus       394 kl~~~a~~~~------~~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  394 KLAKIAEERG------DINIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             HHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             HHHHHHHHcc------CHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            7777776655      3666667777778888888887753

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=95.90  E-value=0.25  Score=31.98  Aligned_cols=104  Identities=16%  Similarity=0.133  Sum_probs=72.5

Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Q 045403           14 AKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHK   93 (144)
Q Consensus        14 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~   93 (144)
                      ..+..+.+.+.+++|+...|..+|+.+.+.|++...    ..+...++-+|+......+-.+....  ..+.++--+|.+
T Consensus        13 llEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~~~~--~~~~Ql~lDMLk   86 (167)
T PF07035_consen   13 LLEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLGNQY--PPAYQLGLDMLK   86 (167)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhHccC--hHHHHHHHHHHH
Confidence            355666777889999999999999999999986654    45556677788888777665554432  333444334432


Q ss_pred             CCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           94 KGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        94 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      +    -...+..++..+...|++-+|.++.+...
T Consensus        87 R----L~~~~~~iievLL~~g~vl~ALr~ar~~~  116 (167)
T PF07035_consen   87 R----LGTAYEEIIEVLLSKGQVLEALRYARQYH  116 (167)
T ss_pred             H----hhhhHHHHHHHHHhCCCHHHHHHHHHHcC
Confidence            1    01145667788888999999999888753

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=95.86  E-value=0.69  Score=36.74  Aligned_cols=118  Identities=14%  Similarity=0.021  Sum_probs=94.1

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC-HHHHHHHHHHHHHhCcHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD-YNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~   82 (144)
                      .+.+.+..++|...+.+..+.. +-....|...-..+...|..++|...|..-..  +.|| +-.-+++-.++.+.|+..
T Consensus       659 ~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~--ldP~hv~s~~Ala~~lle~G~~~  735 (799)
T KOG4162|consen  659 LFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALA--LDPDHVPSMTALAELLLELGSPR  735 (799)
T ss_pred             HHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHh--cCCCCcHHHHHHHHHHHHhCCcc
Confidence            4566778888887777776553 33667778777888889999999999988665  3454 446788889999999887


Q ss_pred             HHHH--HHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 045403           83 LAYR--TMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHV  125 (144)
Q Consensus        83 ~a~~--~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~  125 (144)
                      .+.+  +..++.+.+ +.+...|-.+-..+-+.|+.++|.+.|+-
T Consensus       736 la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~a  779 (799)
T KOG4162|consen  736 LAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQA  779 (799)
T ss_pred             hHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHH
Confidence            7777  888888765 45677999999999999999999999985

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.85  E-value=0.23  Score=31.21  Aligned_cols=51  Identities=18%  Similarity=0.091  Sum_probs=22.6

Q ss_pred             cCCHHHHHHHHHHhhhCCC--CCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Q 045403           43 TGDMESVIHVMRKLDELAI--SPDYNTFHILIKYFRKEKMYMLAYRTMVDMHK   93 (144)
Q Consensus        43 ~~~~~~a~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~   93 (144)
                      .|++++|.+.|+.+..+--  +-..-+--.++.+|.+.+++++|...+++..+
T Consensus        23 ~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFir   75 (142)
T PF13512_consen   23 KGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIR   75 (142)
T ss_pred             hCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            3445555555555544310  11222333444445555555555555555544

>PRK04841 transcriptional regulator MalT; Provisional

Probab=95.79  E-value=0.5  Score=38.37  Aligned_cols=124  Identities=16%  Similarity=0.035  Sum_probs=83.9

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCC--CC-CC--HHHHHHHHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYD----VVLLNSMLCAYCRTGDMESVIHVMRKLDELA--IS-PD--YNTFHILIKYF   75 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~-p~--~~~~~~li~~~   75 (144)
                      +...|++++|...+++....-...+    ....+.+...+...|++++|...+.+.....  .. +.  ..+...+...+
T Consensus       462 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~  541 (903)
T PRK04841        462 AINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEIL  541 (903)
T ss_pred             HHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHH
Confidence            4568999999999998765322222    2345666667788999999999998876421  11 11  23445556677


Q ss_pred             HHhCcHHHHHHHHHHHHH----CCCC--C-CHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           76 RKEKMYMLAYRTMVDMHK----KGHQ--P-EEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        76 ~~~g~~~~a~~~~~~m~~----~~~~--~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ...|++++|...+++...    .+..  + ....+..+...+...|++++|...+++...
T Consensus       542 ~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~  601 (903)
T PRK04841        542 FAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLE  601 (903)
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHH
Confidence            889999999998887653    2221  1 223344555667778999999999887543

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=95.75  E-value=0.36  Score=34.00  Aligned_cols=118  Identities=8%  Similarity=0.041  Sum_probs=87.6

Q ss_pred             cCCHHHHHHHHHHHHh-cCCCCCHHHHHHHHHHHHh-cC-CHHHHHHHHHHhhh-CCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            8 GGCFEEAKQLARDFEA-KYDKYDVVLLNSMLCAYCR-TG-DMESVIHVMRKLDE-LAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~-~~~~p~~~~~~~li~~~~~-~~-~~~~a~~~~~~m~~-~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      +..+.+|.++|+.... ..+-.|..+...+++.... .+ ....-.++.+-+.. .|-.++..+...+|+.+++.+++.+
T Consensus       141 N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~k  220 (292)
T PF13929_consen  141 NKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNK  220 (292)
T ss_pred             hHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHH
Confidence            3446677777774332 3355688888888888776 22 34444445555543 3556888999999999999999999


Q ss_pred             HHHHHHHHHHC-CCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 045403           84 AYRTMVDMHKK-GHQPEEELCSSLIFHLGKMRAHSEALCLQHV  125 (144)
Q Consensus        84 a~~~~~~m~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~  125 (144)
                      -.++++..... +..-|...|..+|+...+.||..-..++.+.
T Consensus       221 l~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  221 LFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            99999988754 5567888999999999999999988887763

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.75  E-value=0.41  Score=33.27  Aligned_cols=102  Identities=17%  Similarity=0.124  Sum_probs=73.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCC----CCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHC-CCCC-CHHHH
Q 045403           30 VVLLNSMLCAYCRTGDMESVIHVMRKLDELA----ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKK-GHQP-EEELC  103 (144)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g----~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~-~~~~~  103 (144)
                      ...|+..+..+- .|++..|..-|...++..    ..||..-|  |-.++...|+.++|..+|..+.+. +-.| -+...
T Consensus       142 ~~~Y~~A~~~~k-sgdy~~A~~~F~~fi~~YP~s~~~~nA~yW--LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdal  218 (262)
T COG1729         142 TKLYNAALDLYK-SGDYAEAEQAFQAFIKKYPNSTYTPNAYYW--LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDAL  218 (262)
T ss_pred             hHHHHHHHHHHH-cCCHHHHHHHHHHHHHcCCCCcccchhHHH--HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHH
Confidence            457888777654 556999999999888763    23444444  678888999999999999999864 2222 23455


Q ss_pred             HHHHHHHhccCChHHHHHHHHHhhhcCCCCc
Q 045403          104 SSLIFHLGKMRAHSEALCLQHVKDIAKDRCA  134 (144)
Q Consensus       104 ~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~  134 (144)
                      --|-.+..+.|+.++|...++++.++-++.+
T Consensus       219 lKlg~~~~~l~~~d~A~atl~qv~k~YP~t~  249 (262)
T COG1729         219 LKLGVSLGRLGNTDEACATLQQVIKRYPGTD  249 (262)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHHCCCCH
Confidence            5667777889999999999999887544443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.69  E-value=0.32  Score=36.77  Aligned_cols=60  Identities=20%  Similarity=0.074  Sum_probs=37.3

Q ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           69 HILIKYFRKEKMYMLAYRTMVDMHKKGHQ-PEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        69 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ..+-.+.-+.|+.++|.+.+.+|.+..-. -...+...|+.++...+.+.++..++.+-.+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            33455555667777777777777654211 1233566677777777777777777776543

The molecular function of this protein is uncertain.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.64  E-value=0.45  Score=33.00  Aligned_cols=117  Identities=15%  Similarity=0.077  Sum_probs=87.3

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYR   86 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~   86 (144)
                      ..|.+++|++.++...+..+. |.++|--=+-..--.|+--+|.+-+++..+. ...|...|.-+-..|...|+++.|.-
T Consensus        98 a~~~~~~A~e~y~~lL~ddpt-~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~f  175 (289)
T KOG3060|consen   98 ATGNYKEAIEYYESLLEDDPT-DTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAF  175 (289)
T ss_pred             HhhchhhHHHHHHHHhccCcc-hhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHH
Confidence            468899999999999987644 7777776566666667666888888887765 44899999999999999999999999


Q ss_pred             HHHHHHHCCCCCCHH-HHHHHHHHHhc---cCChHHHHHHHHHhh
Q 045403           87 TMVDMHKKGHQPEEE-LCSSLIFHLGK---MRAHSEALCLQHVKD  127 (144)
Q Consensus        87 ~~~~m~~~~~~~~~~-~~~~l~~~~~~---~g~~~~a~~l~~~m~  127 (144)
                      +++++.=.  .|..+ -|..+-+.+.-   ..++.-+++.+.+-.
T Consensus       176 ClEE~ll~--~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~al  218 (289)
T KOG3060|consen  176 CLEELLLI--QPFNPLYFQRLAEVLYTQGGAENLELARKYYERAL  218 (289)
T ss_pred             HHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            99999853  45444 44455555433   334566777777654

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=95.59  E-value=0.36  Score=31.55  Aligned_cols=97  Identities=16%  Similarity=0.138  Sum_probs=70.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCH--HHHHHHHHHHHHhCcHHHHHHHHHHHHHC---CCCCCHH---
Q 045403           30 VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDY--NTFHILIKYFRKEKMYMLAYRTMVDMHKK---GHQPEEE---  101 (144)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~---  101 (144)
                      ...+..+.+.|.+.|+.++|.+.|.++.+....|..  ..+-.+|......++++.+...+.+....   |...+..   
T Consensus        36 r~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrl  115 (177)
T PF10602_consen   36 RMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRL  115 (177)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHH
Confidence            367889999999999999999999999887554443  35788899999999999998888877643   2211211   


Q ss_pred             -HHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403          102 -LCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       102 -~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                       .|..+.  +...|++.+|-++|-....
T Consensus       116 k~~~gL~--~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  116 KVYEGLA--NLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHH--HHHhchHHHHHHHHHccCc
Confidence             222222  2347799998888877654

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.54  E-value=0.19  Score=37.48  Aligned_cols=64  Identities=6%  Similarity=-0.205  Sum_probs=55.3

Q ss_pred             CCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           63 PDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEE----ELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        63 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .+...|+.+-.+|.+.|++++|...|++-.+.  .|+.    ..|..+-.+|.+.|++++|...+++..+
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            35667999999999999999999999998764  4653    4589999999999999999999998765

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.46  E-value=0.12  Score=36.83  Aligned_cols=117  Identities=10%  Similarity=0.152  Sum_probs=77.2

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-CCCCCHHHHHHHHHHHHHhCcHHHHHH
Q 045403            8 GGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL-AISPDYNTFHILIKYFRKEKMYMLAYR   86 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~a~~   86 (144)
                      .+++..+..+.++....   -+..+.+..-+...+.|++++|.+=|+...+- |. -....||.-+..| +.|+.+.|.+
T Consensus       125 e~Dl~g~rsLveQlp~e---n~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGy-qpllAYniALaHy-~~~qyasALk  199 (459)
T KOG4340|consen  125 EGDLPGSRSLVEQLPSE---NEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGY-QPLLAYNLALAHY-SSRQYASALK  199 (459)
T ss_pred             cccCcchHHHHHhccCC---CccchhccchheeeccccHHHHHHHHHHHHhhcCC-CchhHHHHHHHHH-hhhhHHHHHH
Confidence            34444444444443321   23445555556667889999999999998775 55 4467899888877 5678899999


Q ss_pred             HHHHHHHCCCC-------------CC--------HHHHHHHHHH-------HhccCChHHHHHHHHHhhhc
Q 045403           87 TMVDMHKKGHQ-------------PE--------EELCSSLIFH-------LGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        87 ~~~~m~~~~~~-------------~~--------~~~~~~l~~~-------~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ...+..++|++             ||        .-.-++++.+       +.+.|+.+.|.+-+-.|+-+
T Consensus       200 ~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPR  270 (459)
T KOG4340|consen  200 HISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPR  270 (459)
T ss_pred             HHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCc
Confidence            99998877543             22        1123344444       44678888888888877654

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=95.40  E-value=0.7  Score=36.06  Aligned_cols=122  Identities=12%  Similarity=0.004  Sum_probs=87.0

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYD-VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      ...+-+.|+++.|...++.....  .|+ +..|-+=-+.+.-.|.+++|..++++.++-.. ||...=+-..+-..+.++
T Consensus       378 aqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~-aDR~INsKcAKYmLrAn~  454 (700)
T KOG1156|consen  378 AQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDT-ADRAINSKCAKYMLRANE  454 (700)
T ss_pred             HHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc-hhHHHHHHHHHHHHHccc
Confidence            34567789999999998888764  333 34555666778888999999999988876554 777777788888888999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHH----------HHHHhccCChHHHHHHHHHhhh
Q 045403           81 YMLAYRTMVDMHKKGHQPEEELCSSL----------IFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~~~~~~~l----------~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .++|..+.....+.|.  +...+-+-          -.+|.+.|++.+|++=|..+..
T Consensus       455 i~eA~~~~skFTr~~~--~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k  510 (700)
T KOG1156|consen  455 IEEAEEVLSKFTREGF--GAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEK  510 (700)
T ss_pred             cHHHHHHHHHhhhccc--chhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHH
Confidence            9999988888877664  22221111          3456677777777777766654

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=95.37  E-value=0.35  Score=39.03  Aligned_cols=105  Identities=10%  Similarity=0.014  Sum_probs=69.0

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-CC--------CCCHHHHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL-AI--------SPDYNTFHILIKY   74 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~--------~p~~~~~~~li~~   74 (144)
                      .|.-.|+.+.|.+-.+..+      +...|..|-+.|.+..++|-|.-++..|... |.        .|+ .+=.-+.-.
T Consensus       737 fyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvL  809 (1416)
T KOG3617|consen  737 FYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVL  809 (1416)
T ss_pred             EEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHH
Confidence            3566799999998888765      5678999999999999999999999888743 43        232 222222222


Q ss_pred             HHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHH
Q 045403           75 FRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQH  124 (144)
Q Consensus        75 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~  124 (144)
                      -.+.|++++|..++.+.++.         -.|=+.|...|.+++|.++-+
T Consensus       810 AieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE  850 (1416)
T KOG3617|consen  810 AIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAE  850 (1416)
T ss_pred             HHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHh
Confidence            34677888888887777643         223333444555555555444

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.35  E-value=0.15  Score=40.19  Aligned_cols=101  Identities=16%  Similarity=0.022  Sum_probs=75.2

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      +..-|+..+|.++-.+.+    -||-..|=.-+.+++..+++++.+++-+.+++      +.-|.-.+.+|.+.|+.++|
T Consensus       694 li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskks------PIGy~PFVe~c~~~~n~~EA  763 (829)
T KOG2280|consen  694 LILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKKS------PIGYLPFVEACLKQGNKDEA  763 (829)
T ss_pred             HHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccCC------CCCchhHHHHHHhcccHHHH
Confidence            445677777777766665    57888888888999999999888888777653      36677788889999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHH
Q 045403           85 YRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQH  124 (144)
Q Consensus        85 ~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~  124 (144)
                      .+++.+...     .+    -...+|.+.|++.+|.++--
T Consensus       764 ~KYiprv~~-----l~----ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  764 KKYIPRVGG-----LQ----EKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             hhhhhccCC-----hH----HHHHHHHHhccHHHHHHHHH
Confidence            888877631     11    46677777777777776654

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=95.24  E-value=1  Score=34.67  Aligned_cols=89  Identities=11%  Similarity=0.058  Sum_probs=66.3

Q ss_pred             HHHHHHHHHHHHhc-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHH
Q 045403           11 FEEAKQLARDFEAK-YDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMV   89 (144)
Q Consensus        11 ~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~   89 (144)
                      +..+.+..+..... ..+.+...|.++--.....|++++|...+++..+.  .|+...|..+-+.+...|+.++|...++
T Consensus       400 l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~  477 (517)
T PRK10153        400 LAALSTELDNIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYS  477 (517)
T ss_pred             HHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            34455555543332 23345577888766677789999999999998875  4788899999999999999999999999


Q ss_pred             HHHHCCCCCCHHHH
Q 045403           90 DMHKKGHQPEEELC  103 (144)
Q Consensus        90 ~m~~~~~~~~~~~~  103 (144)
                      +....  .|...+|
T Consensus       478 ~A~~L--~P~~pt~  489 (517)
T PRK10153        478 TAFNL--RPGENTL  489 (517)
T ss_pred             HHHhc--CCCCchH
Confidence            98764  3443343

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.20  E-value=0.71  Score=32.55  Aligned_cols=116  Identities=14%  Similarity=-0.042  Sum_probs=82.2

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhC---cHHHHHHHH
Q 045403           12 EEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEK---MYMLAYRTM   88 (144)
Q Consensus        12 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---~~~~a~~~~   88 (144)
                      +....-++.-....+ -|...|-.|-..|...|+++.|..-|..-.+-- .+|...+..+-.++....   +-.++..++
T Consensus       139 ~~l~a~Le~~L~~nP-~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll  216 (287)
T COG4235         139 EALIARLETHLQQNP-GDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALL  216 (287)
T ss_pred             HHHHHHHHHHHHhCC-CCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHH
Confidence            333333444334444 499999999999999999999999999887631 234455555555543332   455789999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403           89 VDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        89 ~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      ++..+.. .-+...-..|-..+...|++.+|...++.|....
T Consensus       217 ~~al~~D-~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         217 RQALALD-PANIRALSLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            9998753 2345555667778899999999999999988763

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.08  E-value=0.66  Score=32.58  Aligned_cols=118  Identities=10%  Similarity=0.067  Sum_probs=65.5

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHH-----HHHhCcHHH
Q 045403            9 GCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKY-----FRKEKMYML   83 (144)
Q Consensus         9 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~-----~~~~g~~~~   83 (144)
                      |.+.-....+.+..+...+.++...+.+.+.-.+.|+.+.|...|++..+..-+.|..+++.++.-     |.-.+++..
T Consensus       191 kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~  270 (366)
T KOG2796|consen  191 KEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAE  270 (366)
T ss_pred             hhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHH
Confidence            344444555555555555566666677777777777777777777766655444555555555432     223445555


Q ss_pred             HHHHHHHHHHCCCCCCHHHHH--HHHHHHhccCChHHHHHHHHHhhhc
Q 045403           84 AYRTMVDMHKKGHQPEEELCS--SLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~--~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +...+.+.....- .|...-|  +|+..|  .|+...|.+..+.|...
T Consensus       271 a~r~~~~i~~~D~-~~~~a~NnKALcllY--lg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  271 AHRFFTEILRMDP-RNAVANNNKALCLLY--LGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             HHHHHhhccccCC-CchhhhchHHHHHHH--HHHHHHHHHHHHHHhcc
Confidence            5556655553321 1222222  233333  45777777777777653

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=94.98  E-value=0.16  Score=40.49  Aligned_cols=113  Identities=12%  Similarity=0.105  Sum_probs=65.1

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      +.|++.|+++.|.++|.+.         ..++-.|..|.+.|+|+.|.++-.+.-  |.....+.|-+-..-.-+.|++.
T Consensus       773 dhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~  841 (1636)
T KOG3616|consen  773 DHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFA  841 (1636)
T ss_pred             HHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchh
Confidence            5688889999999987643         236677888999999988888876543  22233344444333344445444


Q ss_pred             HHHHHH-------------HHH------HH--CCCCCC--HHHHHHHHHHHhccCChHHHHHHHHHh
Q 045403           83 LAYRTM-------------VDM------HK--KGHQPE--EELCSSLIFHLGKMRAHSEALCLQHVK  126 (144)
Q Consensus        83 ~a~~~~-------------~~m------~~--~~~~~~--~~~~~~l~~~~~~~g~~~~a~~l~~~m  126 (144)
                      +|.+++             ++-      .+  ....|+  ..|...+.+-|-..|++..|..-|-+.
T Consensus       842 eaeqlyiti~~p~~aiqmydk~~~~ddmirlv~k~h~d~l~dt~~~f~~e~e~~g~lkaae~~flea  908 (1636)
T KOG3616|consen  842 EAEQLYITIGEPDKAIQMYDKHGLDDDMIRLVEKHHGDHLHDTHKHFAKELEAEGDLKAAEEHFLEA  908 (1636)
T ss_pred             hhhheeEEccCchHHHHHHHhhCcchHHHHHHHHhChhhhhHHHHHHHHHHHhccChhHHHHHHHhh
Confidence            443332             211      00  001122  234445566666777777777666543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=94.81  E-value=0.87  Score=36.82  Aligned_cols=86  Identities=19%  Similarity=0.260  Sum_probs=71.2

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      ..+.|+.++|..+++.....+.. |..|-.++-.+|.+.++.++|..+|++....  -|+..-...+..+|.+.+++.+-
T Consensus        53 l~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~q  129 (932)
T KOG2053|consen   53 LFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQ  129 (932)
T ss_pred             HHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHH
Confidence            45789999999999988777666 9999999999999999999999999998753  58888889999999998887765


Q ss_pred             HHHHHHHHH
Q 045403           85 YRTMVDMHK   93 (144)
Q Consensus        85 ~~~~~~m~~   93 (144)
                      .+.--+|.+
T Consensus       130 Qkaa~~LyK  138 (932)
T KOG2053|consen  130 QKAALQLYK  138 (932)
T ss_pred             HHHHHHHHH
Confidence            444444443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.79  E-value=0.53  Score=35.44  Aligned_cols=92  Identities=16%  Similarity=0.199  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCC-CCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHH-HHH
Q 045403           30 VVLLNSMLCAYCRTGDMESVIHVMRKLDELA-ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCS-SLI  107 (144)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~-~l~  107 (144)
                      +.+|+..|+.-.+..-++.|..+|-+.++.| +.+++..+++++..++. |+...|..+|+-=...  -||...|. -.+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            4566667777666666777777777777776 45677777777766643 4445555555543322  23333332 344


Q ss_pred             HHHhccCChHHHHHHHH
Q 045403          108 FHLGKMRAHSEALCLQH  124 (144)
Q Consensus       108 ~~~~~~g~~~~a~~l~~  124 (144)
                      .-+...++-+.|..+|+
T Consensus       474 ~fLi~inde~naraLFe  490 (660)
T COG5107         474 LFLIRINDEENARALFE  490 (660)
T ss_pred             HHHHHhCcHHHHHHHHH
Confidence            44555566666666665

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=94.71  E-value=0.37  Score=39.46  Aligned_cols=29  Identities=17%  Similarity=-0.056  Sum_probs=23.9

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           99 EEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        99 ~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      |...|..+..+|.++|.+.-|.++|.+.-
T Consensus       595 D~n~W~gLGeAY~~sGry~~AlKvF~kAs  623 (1238)
T KOG1127|consen  595 DYNLWLGLGEAYPESGRYSHALKVFTKAS  623 (1238)
T ss_pred             hHHHHHHHHHHHHhcCceehHHHhhhhhH
Confidence            56678888899999999999999887654

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.71  E-value=0.094  Score=24.51  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=13.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHH
Q 045403           33 LNSMLCAYCRTGDMESVIHVMRK   55 (144)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~   55 (144)
                      |+.|-+.|.+.|++++|..+|++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            45556666666666666666655

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=94.66  E-value=0.93  Score=34.52  Aligned_cols=88  Identities=17%  Similarity=0.186  Sum_probs=63.5

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC-HHHHHHHHHHHHHhCcHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD-YNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~   82 (144)
                      .+.+.|++..|++.|.++.+..+. |...|+..--+|.+.+.+..|.+=.+.-.+.  .|+ ...|.-=..++....+++
T Consensus       367 e~Fk~gdy~~Av~~YteAIkr~P~-Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL--~p~~~kgy~RKg~al~~mk~yd  443 (539)
T KOG0548|consen  367 EAFKKGDYPEAVKHYTEAIKRDPE-DARLYSNRAACYLKLGEYPEALKDAKKCIEL--DPNFIKAYLRKGAALRAMKEYD  443 (539)
T ss_pred             HHHhccCHHHHHHHHHHHHhcCCc-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CchHHHHHHHHHHHHHHHHHHH
Confidence            456789999999999998887644 8899999999999999988888876666653  232 233433344444555777


Q ss_pred             HHHHHHHHHHHC
Q 045403           83 LAYRTMVDMHKK   94 (144)
Q Consensus        83 ~a~~~~~~m~~~   94 (144)
                      .|.+.|++-.+.
T Consensus       444 kAleay~eale~  455 (539)
T KOG0548|consen  444 KALEAYQEALEL  455 (539)
T ss_pred             HHHHHHHHHHhc
Confidence            788777777654

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=94.64  E-value=1.1  Score=31.74  Aligned_cols=88  Identities=14%  Similarity=0.075  Sum_probs=67.7

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-CCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHH-----HHCCCCC
Q 045403           25 YDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL-AISPDYNTFHILIKYFRKEKMYMLAYRTMVDM-----HKKGHQP   98 (144)
Q Consensus        25 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m-----~~~~~~~   98 (144)
                      |..++..+.-.+|..+++.+++.+..+++..-... +..-|...|..+|+.....|+..-..+++++=     ++.|+..
T Consensus       197 ~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v  276 (292)
T PF13929_consen  197 SKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDV  276 (292)
T ss_pred             ccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcC
Confidence            45678888899999999999999999999988765 66789999999999999999976555554432     2335556


Q ss_pred             CHHHHHHHHHHHhc
Q 045403           99 EEELCSSLIFHLGK  112 (144)
Q Consensus        99 ~~~~~~~l~~~~~~  112 (144)
                      +...-.++-..|.+
T Consensus       277 ~~~L~~~L~~LF~~  290 (292)
T PF13929_consen  277 TDELRSQLSELFKK  290 (292)
T ss_pred             CHHHHHHHHHHHHh
Confidence            66666666555543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=94.58  E-value=0.51  Score=37.44  Aligned_cols=89  Identities=15%  Similarity=-0.004  Sum_probs=72.8

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHH--HHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIH--VMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~--~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      +-..|.+++|.+.|.......+. ++.+-+++-.++.+.|+..-|.+  ++.++.+.+. -+...|--+-..+-+.|+.+
T Consensus       694 ~~~~~~~~EA~~af~~Al~ldP~-hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp-~n~eaW~~LG~v~k~~Gd~~  771 (799)
T KOG4162|consen  694 LEVKGQLEEAKEAFLVALALDPD-HVPSMTALAELLLELGSPRLAEKRSLLSDALRLDP-LNHEAWYYLGEVFKKLGDSK  771 (799)
T ss_pred             HHHHHhhHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHccchH
Confidence            34567888888888887765444 56778889999999998877777  9999988654 67889999999999999999


Q ss_pred             HHHHHHHHHHHCC
Q 045403           83 LAYRTMVDMHKKG   95 (144)
Q Consensus        83 ~a~~~~~~m~~~~   95 (144)
                      .|.++|+...+..
T Consensus       772 ~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  772 QAAECFQAALQLE  784 (799)
T ss_pred             HHHHHHHHHHhhc
Confidence            9999999887643

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.49  E-value=1.2  Score=31.71  Aligned_cols=120  Identities=12%  Similarity=0.060  Sum_probs=80.3

Q ss_pred             CHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHHHhcC--CHHHHHHHHHHhhhCCCCCCHH-HHHHHHHHHHHhCc---
Q 045403           10 CFEEAKQLARDFEAKYD---KYDVVLLNSMLCAYCRTG--DMESVIHVMRKLDELAISPDYN-TFHILIKYFRKEKM---   80 (144)
Q Consensus        10 ~~~~a~~~~~~m~~~~~---~p~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~---   80 (144)
                      ...+|.++|+.|++..+   .++-..+.+++..-...-  -.+.++.+|+.+.+.|...+.. -+.+-+-+++....   
T Consensus       118 ~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~  197 (297)
T PF13170_consen  118 IIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAMTSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEK  197 (297)
T ss_pred             HHHHHHHHHHHHHHhCccccCccchhHHHHHhcccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHH
Confidence            46789999999998743   466677777766622221  2478899999999988875433 44444444444322   


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHH-HHHHhccCC---hHHHHHHHHHhhhc
Q 045403           81 YMLAYRTMVDMHKKGHQPEEELCSSL-IFHLGKMRA---HSEALCLQHVKDIA  129 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~~~~~~~l-~~~~~~~g~---~~~a~~l~~~m~~~  129 (144)
                      ..++..+++.+.+.|+++....|..+ +-++...+.   ++...++.+.+.+.
T Consensus       198 v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~~~~~~~~i~ev~~~L~~~  250 (297)
T PF13170_consen  198 VARVIELYNALKKNGVKIKYMHYPTLGLLALLEDPEEKIVEEIKEVIDELKEQ  250 (297)
T ss_pred             HHHHHHHHHHHHHcCCccccccccHHHHHHhcCCchHHHHHHHHHHHHHHhhC
Confidence            45788899999999999988888764 333344443   55666666666654

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=94.48  E-value=0.55  Score=27.83  Aligned_cols=74  Identities=15%  Similarity=0.238  Sum_probs=47.1

Q ss_pred             HHHHHHHHHhcC--CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHH-HCCCCCCHHHHHHHHH
Q 045403           33 LNSMLCAYCRTG--DMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMH-KKGHQPEEELCSSLIF  108 (144)
Q Consensus        33 ~~~li~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~-~~~~~~~~~~~~~l~~  108 (144)
                      |+.---.|...+  +..++.+-++.+....+.|+.....+.+++|.+.+++..|.++++-.+ +-|-.  ...|..++.
T Consensus        11 F~ary~~~F~~~~iD~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~--~~~Y~~~lq   87 (108)
T PF02284_consen   11 FDARYEKYFNRPDIDGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNK--KEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHH-TT--HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT---TTHHHHHHH
T ss_pred             HHHHHHHHhCCccccHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCh--HHHHHHHHH
Confidence            343334444433  456777888888887888999999999999999999999998888887 33322  226665554

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.43  E-value=0.32  Score=36.82  Aligned_cols=72  Identities=15%  Similarity=0.248  Sum_probs=52.2

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCH--HHHHHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDK-YDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDY--NTFHILIKYFR   76 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~li~~~~   76 (144)
                      ++-+.|+.++|++.|++|.+.... -+....-.||.++...+.+.++..++.+..+... |.+  .+|+..+-.+.
T Consensus       268 CarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~l-pkSAti~YTaALLkaR  342 (539)
T PF04184_consen  268 CARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISL-PKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccC-CchHHHHHHHHHHHHH
Confidence            344679999999999999865433 2456788899999999999999999999865433 433  44666554433

The molecular function of this protein is uncertain.

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=94.41  E-value=1.9  Score=33.78  Aligned_cols=122  Identities=13%  Similarity=-0.019  Sum_probs=80.1

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHH
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAY   85 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~   85 (144)
                      +..|+.++|....+--....+. +.++|.++.-.+-..+++++|.+.|......+- -|...|..+--.-.+.++++...
T Consensus        52 ~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~-dN~qilrDlslLQ~QmRd~~~~~  129 (700)
T KOG1156|consen   52 NCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEK-DNLQILRDLSLLQIQMRDYEGYL  129 (700)
T ss_pred             hcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHHHhhhhHH
Confidence            3456666666666654443333 667777777777777778888888877655321 34455555555556666766666


Q ss_pred             HHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           86 RTMVDMHKKGHQPE-EELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        86 ~~~~~m~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      ..-.++.+.  .|+ ...|..+.-+..-.|+...|..+.++..+...
T Consensus       130 ~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~  174 (700)
T KOG1156|consen  130 ETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQN  174 (700)
T ss_pred             HHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            665555543  344 34677777888888999999999998877654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.36  E-value=1.2  Score=31.31  Aligned_cols=102  Identities=9%  Similarity=-0.109  Sum_probs=78.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHH-----H
Q 045403           30 VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELC-----S  104 (144)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~-----~  104 (144)
                      ..+-+.+.+.+...|.+.-..+++++.++..-+-+...-+.+...-...||.+.|...|++..+..-+.+..++     .
T Consensus       177 ~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~  256 (366)
T KOG2796|consen  177 GRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLM  256 (366)
T ss_pred             HHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHh
Confidence            35567788888888999999999999998776678888888888899999999999999988765434444443     3


Q ss_pred             HHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403          105 SLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus       105 ~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      .....|.-.+++..|-..+.++....+
T Consensus       257 n~a~i~lg~nn~a~a~r~~~~i~~~D~  283 (366)
T KOG2796|consen  257 NSAFLHLGQNNFAEAHRFFTEILRMDP  283 (366)
T ss_pred             hhhhheecccchHHHHHHHhhccccCC
Confidence            444556677888888888887766533

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.29  E-value=0.95  Score=29.78  Aligned_cols=124  Identities=10%  Similarity=0.005  Sum_probs=85.3

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHH-H--HHHhCc
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVL-LNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIK-Y--FRKEKM   80 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~-~--~~~~g~   80 (144)
                      +++.+..++|+.-|.++.+.|...-... ---+-....+.|+...|..-|++.-...-.|-..--..-++ +  +.-.|.
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gs  147 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGS  147 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhcccc
Confidence            4567889999999999998765422211 11223345678999999999999987655565553333333 2  344677


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           81 YMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ++....-.+.+...+-.-....-.+|--+-.+.|++..|.++|+++-+
T Consensus       148 y~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         148 YDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            888777777776544333344455677777799999999999999876

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.20  E-value=0.63  Score=34.04  Aligned_cols=91  Identities=11%  Similarity=0.056  Sum_probs=64.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHhcc
Q 045403           35 SMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCS-SLIFHLGKM  113 (144)
Q Consensus        35 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~-~l~~~~~~~  113 (144)
                      ++-.++....+++++.-.++..++.-..-|.+-+| +..+++..|...+|+++|-+.....+ .+..+|. .|.++|.+.
T Consensus       364 smAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~i-kn~~~Y~s~LArCyi~n  441 (557)
T KOG3785|consen  364 SMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEI-KNKILYKSMLARCYIRN  441 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhh-hhhHHHHHHHHHHHHhc
Confidence            44555555666788887777777665544555444 56778888999999999877754333 3556665 477889999


Q ss_pred             CChHHHHHHHHHhh
Q 045403          114 RAHSEALCLQHVKD  127 (144)
Q Consensus       114 g~~~~a~~l~~~m~  127 (144)
                      +..+.|.+++-.+.
T Consensus       442 kkP~lAW~~~lk~~  455 (557)
T KOG3785|consen  442 KKPQLAWDMMLKTN  455 (557)
T ss_pred             CCchHHHHHHHhcC
Confidence            99999988876553

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.13  E-value=0.86  Score=28.70  Aligned_cols=77  Identities=17%  Similarity=0.247  Sum_probs=59.0

Q ss_pred             hccCCHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            6 CRGGCFEEAKQLARDFEAKYD--KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      .+.|++++|.+.|+.+...-+  +-....-=.++.+|.+.+++++|...+++.++.+-..-.+-|.-.+.+++.....+
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~~~~   99 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYEQDE   99 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHHHhh
Confidence            467999999999999987632  22345566789999999999999999999998765444466777777776655543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.11  E-value=0.11  Score=24.23  Aligned_cols=24  Identities=8%  Similarity=-0.136  Sum_probs=19.3

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHH
Q 045403          102 LCSSLIFHLGKMRAHSEALCLQHV  125 (144)
Q Consensus       102 ~~~~l~~~~~~~g~~~~a~~l~~~  125 (144)
                      ++..|-..|.+.|++++|.+++++
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            466788888899999999999887

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=94.07  E-value=1.1  Score=29.84  Aligned_cols=114  Identities=17%  Similarity=0.085  Sum_probs=69.1

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCC---CCCCHHHHHHHHHHHHHhC
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA---ISPDYNTFHILIKYFRKEK   79 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g---~~p~~~~~~~li~~~~~~g   79 (144)
                      .+....|+..+|...|++....-...|....-.+-++-...+++..+...++++-+..   -.||  +.-.+-..+.-.|
T Consensus        97 ~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~~Ll~aR~laa~g  174 (251)
T COG4700          97 NALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--GHLLFARTLAAQG  174 (251)
T ss_pred             HHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--chHHHHHHHHhcC
Confidence            3456677777777777777665555666666666677777777777777777766543   2232  3344455666677


Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHH
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL  120 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  120 (144)
                      ....|...|+.....  .|+...-.-.-..+.+.|..+++.
T Consensus       175 ~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~  213 (251)
T COG4700         175 KYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREAN  213 (251)
T ss_pred             CchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHH
Confidence            777777777777653  455443333344445555544443

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.86  E-value=1.4  Score=34.42  Aligned_cols=99  Identities=13%  Similarity=-0.004  Sum_probs=65.5

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHH
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAY   85 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~   85 (144)
                      .+.|+++.|.++..+..      +..-|..|-++....+++..|.+.|.+...         |..|+-.+...|+.+...
T Consensus       648 l~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~  712 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLA  712 (794)
T ss_pred             hhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHH
Confidence            35566666666655443      566688888888888888888888776543         455666666777766555


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 045403           86 RTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHV  125 (144)
Q Consensus        86 ~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~  125 (144)
                      .+-...++.|      ..|..+-+|...|+++++.+++.+
T Consensus       713 ~la~~~~~~g------~~N~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  713 VLASLAKKQG------KNNLAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHHHHHHhhc------ccchHHHHHHHcCCHHHHHHHHHh
Confidence            5555555444      234455667778888888887764

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.82  E-value=2.3  Score=35.49  Aligned_cols=111  Identities=18%  Similarity=0.181  Sum_probs=68.4

Q ss_pred             hhccCCHHHHHHHHHHHHhcC---------------------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC
Q 045403            5 FCRGGCFEEAKQLARDFEAKY---------------------DKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP   63 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~---------------------~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p   63 (144)
                      +..++.+++|+++|+.....+                     ..-....|+.+-.+=.+.|...+|.+-|=+      .-
T Consensus      1058 ai~~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyik------ad 1131 (1666)
T KOG0985|consen 1058 AIENQLYEEAFAIFKKFDMNVSAIQVLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIK------AD 1131 (1666)
T ss_pred             HhhhhHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHh------cC
Confidence            445566777777777653210                     001234455555555555555555443322      14


Q ss_pred             CHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHH
Q 045403           64 DYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQ  123 (144)
Q Consensus        64 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~  123 (144)
                      |...|.-+++...+.|.+++..+++.-.++..-.|.  +-+.|+-+|++.+++.+..+.+
T Consensus      1132 Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~--id~eLi~AyAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1132 DPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPY--IDSELIFAYAKTNRLTELEEFI 1189 (1666)
T ss_pred             CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCcc--chHHHHHHHHHhchHHHHHHHh
Confidence            567788888888888888888877776666554554  4456888888888777766554

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=93.81  E-value=1.3  Score=29.50  Aligned_cols=126  Identities=16%  Similarity=0.114  Sum_probs=76.8

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHh---
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDK--YDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKE---   78 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~--p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~---   78 (144)
                      .+.+.|++++|.+.|+.+....+.  --....-.+..++.+.|+++.|...+++..+.--.-...-+...+.+.+..   
T Consensus        14 ~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~   93 (203)
T PF13525_consen   14 EALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYKQI   93 (203)
T ss_dssp             HHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhC
Confidence            356789999999999999876443  223445567888999999999999999988753222223333333333321   


Q ss_pred             ----------CcHHHHHHHHHHHHHCCCCCCHH------H-----H-------HHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403           79 ----------KMYMLAYRTMVDMHKKGHQPEEE------L-----C-------SSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        79 ----------g~~~~a~~~~~~m~~~~~~~~~~------~-----~-------~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                                +....|...|+.+.+.  -|++.      .     .       -.+.+-|.+.|.+..|..-++.+.+.-
T Consensus        94 ~~~~~~~~D~~~~~~A~~~~~~li~~--yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~y  171 (203)
T PF13525_consen   94 PGILRSDRDQTSTRKAIEEFEELIKR--YPNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVIENY  171 (203)
T ss_dssp             HHHH-TT---HHHHHHHHHHHHHHHH---TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHS
T ss_pred             ccchhcccChHHHHHHHHHHHHHHHH--CcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC
Confidence                      2234567777777643  12111      0     0       113566788899999988888887653


Q ss_pred             C
Q 045403          131 D  131 (144)
Q Consensus       131 ~  131 (144)
                      +
T Consensus       172 p  172 (203)
T PF13525_consen  172 P  172 (203)
T ss_dssp             T
T ss_pred             C
Confidence            3

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=93.70  E-value=1.1  Score=28.36  Aligned_cols=96  Identities=17%  Similarity=0.185  Sum_probs=72.5

Q ss_pred             HhcCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHhhhCC---C--CCCHHHHHHHHHHHHHhCcHH-HHHHHHHHHHH
Q 045403           22 EAKYDKYDV--VLLNSMLCAYCRTGDMESVIHVMRKLDELA---I--SPDYNTFHILIKYFRKEKMYM-LAYRTMVDMHK   93 (144)
Q Consensus        22 ~~~~~~p~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~g---~--~p~~~~~~~li~~~~~~g~~~-~a~~~~~~m~~   93 (144)
                      .+.+.++++  ...|++++-....+.......+++.+..-.   +  ..|..+|.+++++.+...-.. .+..+|+-|++
T Consensus        29 ~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~  108 (145)
T PF13762_consen   29 QEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKK  108 (145)
T ss_pred             hhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHH
Confidence            444555555  456888888888899998888888874321   1  255667999999997777633 57789999998


Q ss_pred             CCCCCCHHHHHHHHHHHhccCChH
Q 045403           94 KGHQPEEELCSSLIFHLGKMRAHS  117 (144)
Q Consensus        94 ~~~~~~~~~~~~l~~~~~~~g~~~  117 (144)
                      .+.+++..-|..+|+++.+....+
T Consensus       109 ~~~~~t~~dy~~li~~~l~g~~~~  132 (145)
T PF13762_consen  109 NDIEFTPSDYSCLIKAALRGYFHD  132 (145)
T ss_pred             cCCCCCHHHHHHHHHHHHcCCCCc
Confidence            888999999999999977654443

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=93.62  E-value=1.3  Score=28.96  Aligned_cols=90  Identities=13%  Similarity=0.049  Sum_probs=63.4

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHhhhC---CCCCCHHHHHHHHHH--H
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDV--VLLNSMLCAYCRTGDMESVIHVMRKLDEL---AISPDYNTFHILIKY--F   75 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~p~~~~~~~li~~--~   75 (144)
                      +.|++.|+.+.|.+.|.++.+....|..  ..+-.+|+.....+++..+.....+....   |-.++...--....+  +
T Consensus        44 ~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~~~gL~~  123 (177)
T PF10602_consen   44 DHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKVYEGLAN  123 (177)
T ss_pred             HHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHH
Confidence            5689999999999999999987655443  55668888999999999999998887653   222222221122222  3


Q ss_pred             HHhCcHHHHHHHHHHHH
Q 045403           76 RKEKMYMLAYRTMVDMH   92 (144)
Q Consensus        76 ~~~g~~~~a~~~~~~m~   92 (144)
                      ...+++..|-+.|-+..
T Consensus       124 l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  124 LAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHhchHHHHHHHHHccC
Confidence            34678888888877765

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.61  E-value=0.19  Score=24.56  Aligned_cols=26  Identities=15%  Similarity=0.052  Sum_probs=13.8

Q ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHH
Q 045403           68 FHILIKYFRKEKMYMLAYRTMVDMHK   93 (144)
Q Consensus        68 ~~~li~~~~~~g~~~~a~~~~~~m~~   93 (144)
                      |..+-..|...|++++|.+++++..+
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44445555555555555555555554

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=93.59  E-value=1.8  Score=30.66  Aligned_cols=121  Identities=13%  Similarity=0.034  Sum_probs=80.3

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      ....|++.+|..+|......... +...--.+..+|...|+.+.|..++..+-..--.........-|....+.....+.
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~  222 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEI  222 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCH
Confidence            45678999999999998876554 45666778899999999999999999875432222222322334455555555555


Q ss_pred             HHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           85 YRTMVDMHKKGHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        85 ~~~~~~m~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ..+-.+...   .| |...--.+...+...|+.+.|++.+=.+...
T Consensus       223 ~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         223 QDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             HHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            555555543   34 4445556777788888888877766554443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.51  E-value=1.1  Score=27.73  Aligned_cols=56  Identities=11%  Similarity=0.064  Sum_probs=43.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHH
Q 045403           32 LLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMV   89 (144)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~   89 (144)
                      ....+|..+.+.+....+...++.+.+.+. .+...++.++..|++.+.- +....+.
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~~-~ll~~l~   64 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDPQ-KEIERLD   64 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCHH-HHHHHHH
Confidence            345778888888899999999999988874 7888999999999987653 3333443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.46  E-value=1.7  Score=31.35  Aligned_cols=86  Identities=15%  Similarity=0.174  Sum_probs=61.1

Q ss_pred             ccCCHHHHHHHHHHHHhc---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            7 RGGCFEEAKQLARDFEAK---YDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~---~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      +...++.+...+=.++..   ...|+... -+.++.+.+ =+++++.-++..-++.|+=||.++++.+++.+.+.+++.+
T Consensus        76 ~~~~idd~~~~LyKlRhs~~a~~~~~~~~-~~~irlllk-y~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~  153 (418)
T KOG4570|consen   76 SREEIDDAEYYLYKLRHSPNAWYLRNWTI-HTWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKD  153 (418)
T ss_pred             cccchhHHHHHHHHHhcCcchhhhccccH-HHHHHHHHc-cChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHH
Confidence            456677777776666542   11222222 223333333 3577999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHC
Q 045403           84 AYRTMVDMHKK   94 (144)
Q Consensus        84 a~~~~~~m~~~   94 (144)
                      |.++.-.|...
T Consensus       154 aa~vvt~~~~q  164 (418)
T KOG4570|consen  154 AASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHHHHH
Confidence            99988887744

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.25  E-value=1.1  Score=36.12  Aligned_cols=81  Identities=10%  Similarity=0.109  Sum_probs=53.2

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      +.+.|++++|..-|-+-... +.|     +-+|.-|.......+....++.+.+.|+ .+...-+.|+.+|.+.++.++.
T Consensus       378 Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKlkd~~kL  450 (933)
T KOG2114|consen  378 LYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQRIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKLKDVEKL  450 (933)
T ss_pred             HHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHHHHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHhcchHHH
Confidence            45667777777776655432 222     2345666666667777777777777777 6666777888888888877666


Q ss_pred             HHHHHHHH
Q 045403           85 YRTMVDMH   92 (144)
Q Consensus        85 ~~~~~~m~   92 (144)
                      .++.+...
T Consensus       451 ~efI~~~~  458 (933)
T KOG2114|consen  451 TEFISKCD  458 (933)
T ss_pred             HHHHhcCC
Confidence            55554443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=93.20  E-value=2.5  Score=31.09  Aligned_cols=126  Identities=17%  Similarity=0.021  Sum_probs=76.0

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc---------CCHHHHHHHHHHhhhCCCCCCHHH---HHHHHHHH
Q 045403            8 GGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRT---------GDMESVIHVMRKLDELAISPDYNT---FHILIKYF   75 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~---------~~~~~a~~~~~~m~~~g~~p~~~~---~~~li~~~   75 (144)
                      .|+.++|.+++.........++..+|..+.+.|-..         ...++|.+.|.+--+  +.||..+   +.+|+...
T Consensus       195 ~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe--~~~~~Y~GIN~AtLL~~~  272 (374)
T PF13281_consen  195 PGDREKALQILLPVLESDENPDPDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFE--IEPDYYSGINAATLLMLA  272 (374)
T ss_pred             CCCHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHc--CCccccchHHHHHHHHHc
Confidence            688888888888866555667777888777776431         135667766665433  2344333   33344433


Q ss_pred             HHhCc-HHHHHHHH---HHHH-HCC---CCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCCCcHH
Q 045403           76 RKEKM-YMLAYRTM---VDMH-KKG---HQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMP  136 (144)
Q Consensus        76 ~~~g~-~~~a~~~~---~~m~-~~~---~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~~~  136 (144)
                      +.... -.+..++.   ..+. +.|   -..+-..+.+++.+..-.|+.++|.+..++|... .+..|.
T Consensus       273 g~~~~~~~el~~i~~~l~~llg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l-~~~~W~  340 (374)
T PF13281_consen  273 GHDFETSEELRKIGVKLSSLLGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL-KPPAWE  340 (374)
T ss_pred             CCcccchHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc-CCcchh
Confidence            33211 11222222   2222 233   2356667888999999999999999999998864 455553

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=93.18  E-value=2.5  Score=30.96  Aligned_cols=122  Identities=15%  Similarity=0.001  Sum_probs=88.2

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCC------------CCHHHHH--HHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDK------------YDVVLLN--SMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFH   69 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~------------p~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~   69 (144)
                      .+.|.|.+++|..=|++..+...+            +....|+  ..+..+...|+...|......+.+-.+ -|...+.
T Consensus       115 vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~-Wda~l~~  193 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQP-WDASLRQ  193 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCc-chhHHHH
Confidence            467899999999999999876443            1122222  345556678899999999999887533 6888999


Q ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           70 ILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        70 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      .-.++|...|++..|..=+....+.. .-++.++--+-..+...|+.+.++..+++-.
T Consensus       194 ~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECL  250 (504)
T KOG0624|consen  194 ARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECL  250 (504)
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            99999999999988877666665543 2234444455566777888888887777644

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=93.15  E-value=1.3  Score=27.75  Aligned_cols=118  Identities=11%  Similarity=0.116  Sum_probs=73.8

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-CC----------------CCCHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL-AI----------------SPDYNTFH   69 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~----------------~p~~~~~~   69 (144)
                      -.|.+++..++..+..+   +.+..-||=.|.-....-+=+-+.++++..-+. .+                ..+...+.
T Consensus        14 ldG~V~qGveii~k~v~---Ssni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~NlKrVi~C~~~~n~~se~vD   90 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVN---SSNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCGNLKRVIECYAKRNKLSEYVD   90 (161)
T ss_dssp             HTT-HHHHHHHHHHHHH---HS-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S-THHHHHHHHHTT---HHHH
T ss_pred             HhchHHHHHHHHHHHcC---cCCccccceeeeecchhhchhHHHHHHHHHhhhcCchhhcchHHHHHHHHHhcchHHHHH
Confidence            35888888888888775   345666666666665555555555555554432 00                12333455


Q ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           70 ILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        70 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .-++.....|+-|.-.++..++.+ +-.+++...-.+..+|.+.|+..++.+++.+.-+
T Consensus        91 ~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACe  148 (161)
T PF09205_consen   91 LALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACE  148 (161)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence            567777777888888888888876 3478888899999999999999999999988654

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.15  E-value=0.02  Score=35.67  Aligned_cols=88  Identities=13%  Similarity=0.065  Sum_probs=62.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC
Q 045403           35 SMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMR  114 (144)
Q Consensus        35 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g  114 (144)
                      .+|..+.+.+....+..+++.+...+..-+....+.++..|++.++.++..++++..       +..-...++..|.+.|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHG   84 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcc
Confidence            456777888889999999999998776678999999999999998877777766622       1122334566666677


Q ss_pred             ChHHHHHHHHHhhhc
Q 045403          115 AHSEALCLQHVKDIA  129 (144)
Q Consensus       115 ~~~~a~~l~~~m~~~  129 (144)
                      .++++.-++.++...
T Consensus        85 l~~~a~~Ly~~~~~~   99 (143)
T PF00637_consen   85 LYEEAVYLYSKLGNH   99 (143)
T ss_dssp             SHHHHHHHHHCCTTH
T ss_pred             hHHHHHHHHHHcccH
Confidence            777777776665443

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.12  E-value=0.52  Score=22.94  Aligned_cols=28  Identities=21%  Similarity=0.285  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 045403           32 LLNSMLCAYCRTGDMESVIHVMRKLDEL   59 (144)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~   59 (144)
                      +|..+-.+|.+.|++++|.++|++..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            5667778888888888888888888775

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=93.09  E-value=1.8  Score=29.00  Aligned_cols=82  Identities=11%  Similarity=0.104  Sum_probs=60.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHH---CCCCCCHHHHHHHHHHHhcc
Q 045403           37 LCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHK---KGHQPEEELCSSLIFHLGKM  113 (144)
Q Consensus        37 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~~~~~l~~~~~~~  113 (144)
                      -.-+.+.|+ +.|...|-.+...+.--+...-.. +..|-...+.+++..++.+..+   .+-.+|+..+.+|.+.|.+.
T Consensus       114 Yy~Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~a-LAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~  191 (203)
T PF11207_consen  114 YYHWSRFGD-QEALRRFLQLEGTPELETAELQYA-LATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKL  191 (203)
T ss_pred             HHHhhccCc-HHHHHHHHHHcCCCCCCCHHHHHH-HHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHh
Confidence            334455565 788888888888877545444444 4445557778889988888774   33478999999999999999


Q ss_pred             CChHHHH
Q 045403          114 RAHSEAL  120 (144)
Q Consensus       114 g~~~~a~  120 (144)
                      |+.+.|.
T Consensus       192 ~~~e~AY  198 (203)
T PF11207_consen  192 KNYEQAY  198 (203)
T ss_pred             cchhhhh
Confidence            9998875

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=92.99  E-value=1.1  Score=26.34  Aligned_cols=62  Identities=16%  Similarity=0.237  Sum_probs=48.9

Q ss_pred             CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHH-HCCCCCCHHHHHHHHH
Q 045403           45 DMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMH-KKGHQPEEELCSSLIF  108 (144)
Q Consensus        45 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~-~~~~~~~~~~~~~l~~  108 (144)
                      +..++.+-++.+....+.|+.....+.+++|.+.+|+..|.++++-.+ +-|.  +..+|..++.
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHH
Confidence            677888888888888888999999999999999999999999998887 4332  4446665554

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=92.95  E-value=3.1  Score=31.48  Aligned_cols=128  Identities=16%  Similarity=0.118  Sum_probs=82.3

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHH--HHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDK-YD----VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKY--FRK   77 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~--~~~   77 (144)
                      +-+.+++.+|.++|...-++.-. |.    ...-+-+|+||...+ .+.....+....+.  .| ...|-.+..+  +-+
T Consensus        16 Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~n-ld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y~   91 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLNN-LDLMEKQLMELRQQ--FG-KSAYLPLFKALVAYK   91 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHhh-HHHHHHHHHHHHHh--cC-CchHHHHHHHHHHHH
Confidence            34678999999999988765332 11    344567888888764 66666666666553  12 3345555554  335


Q ss_pred             hCcHHHHHHHHHHHHHC--CCC------------CCHHHHHHHHHHHhccCChHHHHHHHHHhhhc--CCCCcHH
Q 045403           78 EKMYMLAYRTMVDMHKK--GHQ------------PEEELCSSLIFHLGKMRAHSEALCLQHVKDIA--KDRCAMP  136 (144)
Q Consensus        78 ~g~~~~a~~~~~~m~~~--~~~------------~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~--~~~~~~~  136 (144)
                      .++.++|.+.+..=.++  +-.            +|-..-+..+.++.+.|.+++++.++.++...  ++.+.|+
T Consensus        92 ~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~  166 (549)
T PF07079_consen   92 QKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWN  166 (549)
T ss_pred             hhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhccc
Confidence            77788877766555432  211            22223345677888999999999999998766  4555554

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.93  E-value=0.43  Score=22.46  Aligned_cols=27  Identities=22%  Similarity=0.346  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhh
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKLD   57 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~   57 (144)
                      .+++.+-..|...|++++|..++++..
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            455666666666666666666666654

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=92.89  E-value=0.2  Score=23.15  Aligned_cols=22  Identities=27%  Similarity=0.427  Sum_probs=15.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVI   50 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~   50 (144)
                      |...|+.+-..|...|++++|.
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            6677777777777777777664

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=92.57  E-value=2.6  Score=34.95  Aligned_cols=84  Identities=14%  Similarity=0.062  Sum_probs=61.1

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHH--HHHhCcHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKY--FRKEKMYM   82 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~--~~~~g~~~   82 (144)
                      |-+.++..+|+.-|+......+. |...|..+..+|.++|++..|.++|.+...  +.|+ .+|...-.+  -+-.|.+.
T Consensus       572 yLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~--LrP~-s~y~~fk~A~~ecd~GkYk  647 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASL--LRPL-SKYGRFKEAVMECDNGKYK  647 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHh--cCcH-hHHHHHHHHHHHHHhhhHH
Confidence            45667788888888887765555 889999999999999999999999988665  3443 344443333  34467788


Q ss_pred             HHHHHHHHHH
Q 045403           83 LAYRTMVDMH   92 (144)
Q Consensus        83 ~a~~~~~~m~   92 (144)
                      ++...+....
T Consensus       648 eald~l~~ii  657 (1238)
T KOG1127|consen  648 EALDALGLII  657 (1238)
T ss_pred             HHHHHHHHHH
Confidence            8877776665

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=92.39  E-value=3.9  Score=31.13  Aligned_cols=118  Identities=10%  Similarity=0.027  Sum_probs=87.5

Q ss_pred             ccCCHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHH-HHHHHHHHHHhCcHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKY-DKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNT-FHILIKYFRKEKMYMLA   84 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~-~~~li~~~~~~g~~~~a   84 (144)
                      +-.-++.|..+|-...+.| +.|++..++++|..++.. +..-|..+|+-=... . ||... -+-.+.-+...++-+.|
T Consensus       409 r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~~-d~~ta~~ifelGl~~-f-~d~~~y~~kyl~fLi~inde~na  485 (660)
T COG5107         409 RKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYATG-DRATAYNIFELGLLK-F-PDSTLYKEKYLLFLIRINDEENA  485 (660)
T ss_pred             HHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhcC-CcchHHHHHHHHHHh-C-CCchHHHHHHHHHHHHhCcHHHH
Confidence            3445888999999999998 789999999999998864 567888888642221 2 55544 35667777888998999


Q ss_pred             HHHHHHHHHCCCCC--CHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           85 YRTMVDMHKKGHQP--EEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        85 ~~~~~~m~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ..+|+.-... +.-  -..+|..+|+--...|++..+..+-+++..
T Consensus       486 raLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         486 RALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            9999954421 112  256899999988899999777777776654

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.16  E-value=4.6  Score=33.90  Aligned_cols=57  Identities=16%  Similarity=0.057  Sum_probs=45.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRT   87 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~   87 (144)
                      |+..|.-.|+...+.|.+++..+.+...++..-.|..  -+.+|-+|.+.+++.+...+
T Consensus      1132 Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~AyAkt~rl~elE~f 1188 (1666)
T KOG0985|consen 1132 DPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFAYAKTNRLTELEEF 1188 (1666)
T ss_pred             CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHHHHHhchHHHHHHH
Confidence            6778889999999999999999988888777655644  45788888888887765544

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=92.12  E-value=1.5  Score=25.79  Aligned_cols=49  Identities=8%  Similarity=-0.007  Sum_probs=42.9

Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      |.=++.+.++.+....+.|++.+..+.+++|.+.+|+.-|.++++-++.
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~   70 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKD   70 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3345677788888888999999999999999999999999999998764

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=91.49  E-value=0.58  Score=21.96  Aligned_cols=28  Identities=18%  Similarity=-0.076  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403          101 ELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       101 ~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .+++.|-..|...|++++|..++++...
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4667777788888888888888887554

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=91.48  E-value=1.5  Score=31.98  Aligned_cols=78  Identities=12%  Similarity=0.046  Sum_probs=50.0

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKY-DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      -|.+.|.+++|+..|..-...  .| |.++|..--.+|.+...+..|+.=......        .-...+++|++.+...
T Consensus       106 ~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Aia--------Ld~~Y~KAYSRR~~AR  175 (536)
T KOG4648|consen  106 TYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIA--------LDKLYVKAYSRRMQAR  175 (536)
T ss_pred             hhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHH--------hhHHHHHHHHHHHHHH
Confidence            467888888888888876653  44 888888888888888877766654444332        1123456666665555


Q ss_pred             HHHHHHHHH
Q 045403           83 LAYRTMVDM   91 (144)
Q Consensus        83 ~a~~~~~~m   91 (144)
                      .++....+.
T Consensus       176 ~~Lg~~~EA  184 (536)
T KOG4648|consen  176 ESLGNNMEA  184 (536)
T ss_pred             HHHhhHHHH
Confidence            444444443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.39  E-value=0.73  Score=20.73  Aligned_cols=27  Identities=22%  Similarity=0.298  Sum_probs=14.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 045403           32 LLNSMLCAYCRTGDMESVIHVMRKLDE   58 (144)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (144)
                      +|..+..++...|++++|...|++..+
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            455555556666666666666655544

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=91.33  E-value=2  Score=25.68  Aligned_cols=27  Identities=7%  Similarity=0.240  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHH
Q 045403           67 TFHILIKYFRKEKMYMLAYRTMVDMHK   93 (144)
Q Consensus        67 ~~~~li~~~~~~g~~~~a~~~~~~m~~   93 (144)
                      -|..++..|...|..++|.+++.++..
T Consensus        41 ~~~eL~~lY~~kg~h~~AL~ll~~l~~   67 (108)
T PF10366_consen   41 KYQELVDLYQGKGLHRKALELLKKLAD   67 (108)
T ss_pred             CHHHHHHHHHccCccHHHHHHHHHHhc
Confidence            378888888888888888888888876

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=91.30  E-value=3.6  Score=28.57  Aligned_cols=72  Identities=14%  Similarity=0.237  Sum_probs=48.3

Q ss_pred             hccCCHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH
Q 045403            6 CRGGCFEEAKQLARDFEAKYD--KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK   77 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~   77 (144)
                      .+.|++++|.+.|+.+...-+  +-...+-=.++.++.+.+++++|....++.....-.....-|..-|++.+.
T Consensus        45 L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~  118 (254)
T COG4105          45 LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSY  118 (254)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHH
Confidence            357899999999999886533  223455556777788889999999999888765332233344444444443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.30  E-value=4.5  Score=29.63  Aligned_cols=87  Identities=7%  Similarity=-0.109  Sum_probs=50.0

Q ss_pred             HHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHH---CCCCCCHHHHHHHHHHHhccC
Q 045403           38 CAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHK---KGHQPEEELCSSLIFHLGKMR  114 (144)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~~~~~l~~~~~~~g  114 (144)
                      .++.+.|.+++|++.-++-.+-+- .|.-.-.+.....-..|++.++.+...+-..   .+...-.+.|=.-.-.+...+
T Consensus       183 FgL~E~g~y~dAEk~A~ralqiN~-~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~a  261 (491)
T KOG2610|consen  183 FGLEECGIYDDAEKQADRALQINR-FDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGA  261 (491)
T ss_pred             hhHHHhccchhHHHHHHhhccCCC-cchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhccc
Confidence            334456777777777666554322 4444555566666667777777666554431   111122223333344556778


Q ss_pred             ChHHHHHHHHH
Q 045403          115 AHSEALCLQHV  125 (144)
Q Consensus       115 ~~~~a~~l~~~  125 (144)
                      +++.|+++|++
T Consensus       262 eye~aleIyD~  272 (491)
T KOG2610|consen  262 EYEKALEIYDR  272 (491)
T ss_pred             chhHHHHHHHH
Confidence            99999999885

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.00  E-value=5.9  Score=32.25  Aligned_cols=113  Identities=15%  Similarity=0.144  Sum_probs=76.4

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH----HHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHh
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCA----YCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKE   78 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~----~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~   78 (144)
                      +...+-..++-|+.+   .+..+..++  .--.+...    +.+.|++++|..-|-+-... +.|     +-+|+-|...
T Consensus       342 ~iL~kK~ly~~Ai~L---Ak~~~~d~d--~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLda  410 (933)
T KOG2114|consen  342 DILFKKNLYKVAINL---AKSQHLDED--TLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDA  410 (933)
T ss_pred             HHHHHhhhHHHHHHH---HHhcCCCHH--HHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCH
Confidence            344555556666666   334434433  33333333    55789999999988775532 223     3456777778


Q ss_pred             CcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           79 KMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      ..+..-..+++.+.+.|+ -+...-+.|+.+|.+.++.++-.+..+.-.
T Consensus       411 q~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKlkd~~kL~efI~~~~  458 (933)
T KOG2114|consen  411 QRIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKLKDVEKLTEFISKCD  458 (933)
T ss_pred             HHHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHhcchHHHHHHHhcCC
Confidence            888888889999999886 455566789999999999888777776544

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=90.88  E-value=4.2  Score=28.53  Aligned_cols=125  Identities=14%  Similarity=0.083  Sum_probs=79.7

Q ss_pred             hccCCHHHHHHHHHHHHhcC--CCCCH------HHHHHHHHHHHhcCCHHHHHHHHHHhhhC--------CCCCCH----
Q 045403            6 CRGGCFEEAKQLARDFEAKY--DKYDV------VLLNSMLCAYCRTGDMESVIHVMRKLDEL--------AISPDY----   65 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~--~~p~~------~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------g~~p~~----   65 (144)
                      .+.|+.+.|...+.+.....  ..|+.      ..||+-...+.+..+++.|...+++..+-        ...|+.    
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr   83 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELR   83 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHH
Confidence            46899999999999987643  33333      55666666666653666555555443221        223333    


Q ss_pred             -HHHHHHHHHHHHhCcHHH---HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           66 -NTFHILIKYFRKEKMYML---AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        66 -~~~~~li~~~~~~g~~~~---a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                       .+...++.+|...+..+.   |..+++.+.+. ..-...++-.-++.+.+.++.+++.+++.+|...-+
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~  152 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVD  152 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcc
Confidence             357778888888776554   55566666433 222344565667777778999999999999886533

It is also involved in sporulation [].

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=90.85  E-value=5.1  Score=29.67  Aligned_cols=87  Identities=16%  Similarity=0.129  Sum_probs=64.9

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHH-HHHHHHHHhCcH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFH-ILIKYFRKEKMY   81 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~-~li~~~~~~g~~   81 (144)
                      .+|.|.+.+..|++..+.....+.. |+...=---.++...++++.|...|+++.+  +.|+...-+ -++.+-.+..+.
T Consensus       265 ~c~lKl~~~~~Ai~~c~kvLe~~~~-N~KALyRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~l~~k~~~~  341 (397)
T KOG0543|consen  265 ACYLKLKEYKEAIESCNKVLELDPN-NVKALYRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIKLKQKIREY  341 (397)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhcCCC-chhHHHHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHHH
Confidence            4678889999999999998876544 777777778889999999999999999987  467655544 444444444444


Q ss_pred             H-HHHHHHHHHH
Q 045403           82 M-LAYRTMVDMH   92 (144)
Q Consensus        82 ~-~a~~~~~~m~   92 (144)
                      . ...++|..|-
T Consensus       342 ~~kekk~y~~mF  353 (397)
T KOG0543|consen  342 EEKEKKMYANMF  353 (397)
T ss_pred             HHHHHHHHHHHh
Confidence            4 3467888885

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=90.58  E-value=4.7  Score=28.59  Aligned_cols=92  Identities=9%  Similarity=-0.060  Sum_probs=59.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh-
Q 045403           33 LNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLG-  111 (144)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~-  111 (144)
                      ...=|.|+++.+++.++....-..-+.--+.......-.|-.|++.++...+.++-..=.+..-.-+...|.++...|. 
T Consensus        86 cvvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl  165 (309)
T PF07163_consen   86 CVVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLL  165 (309)
T ss_pred             hhhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHH
Confidence            3456888999999999887665544332223345556666678899998887777666553211223334666665555 


Q ss_pred             ----ccCChHHHHHHHH
Q 045403          112 ----KMRAHSEALCLQH  124 (144)
Q Consensus       112 ----~~g~~~~a~~l~~  124 (144)
                          =.|.+++|+++..
T Consensus       166 ~VLlPLG~~~eAeelv~  182 (309)
T PF07163_consen  166 HVLLPLGHFSEAEELVV  182 (309)
T ss_pred             HHHhccccHHHHHHHHh
Confidence                4799999988873

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.52  E-value=2  Score=34.24  Aligned_cols=92  Identities=9%  Similarity=-0.026  Sum_probs=73.8

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 045403           27 KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSL  106 (144)
Q Consensus        27 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  106 (144)
                      ...--+.+--+.-+...|+-.+|.++-.+.+-    ||...|.--+.+++..+++++.+++-+.++      .+..|...
T Consensus       681 ~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fki----pdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PF  750 (829)
T KOG2280|consen  681 SFVDLSLHDTVTTLILIGQNKRAEQLKSDFKI----PDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPF  750 (829)
T ss_pred             ccccCcHHHHHHHHHHccchHHHHHHHHhcCC----cchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhH
Confidence            33334455556666778888999998888763    999999999999999999998877766663      25578889


Q ss_pred             HHHHhccCChHHHHHHHHHhhh
Q 045403          107 IFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       107 ~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      +.+|.+.|+.++|.+.+-+...
T Consensus       751 Ve~c~~~~n~~EA~KYiprv~~  772 (829)
T KOG2280|consen  751 VEACLKQGNKDEAKKYIPRVGG  772 (829)
T ss_pred             HHHHHhcccHHHHhhhhhccCC
Confidence            9999999999999999987653

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=90.33  E-value=6.3  Score=29.69  Aligned_cols=121  Identities=9%  Similarity=0.009  Sum_probs=88.0

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh----hhC-------C---CCCCHH---
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKL----DEL-------A---ISPDYN---   66 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m----~~~-------g---~~p~~~---   66 (144)
                      ++.+.|+.++|.--|+...... +.+..+|--|+..|.-.|...+|.-+-+..    ..+       |   +-||++   
T Consensus       343 lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rE  421 (564)
T KOG1174|consen  343 LLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMRE  421 (564)
T ss_pred             HHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHH
Confidence            4566788899999998877653 348899999999999998888776554432    211       1   012222   


Q ss_pred             ------------------HHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           67 ------------------TFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        67 ------------------~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                                        ..+.+...+...|..+++..++++-..  ..||...++.|-+.+.-.+.+++|++.|..-.
T Consensus       422 KAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~AL  498 (564)
T KOG1174|consen  422 KAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKAL  498 (564)
T ss_pred             HHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence                              234455567778888888888888775  36899999999999999999999998888644

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=90.29  E-value=0.76  Score=22.72  Aligned_cols=21  Identities=5%  Similarity=-0.096  Sum_probs=10.4

Q ss_pred             HHHHHHhCcHHHHHHHHHHHH
Q 045403           72 IKYFRKEKMYMLAYRTMVDMH   92 (144)
Q Consensus        72 i~~~~~~g~~~~a~~~~~~m~   92 (144)
                      -.+|...|+.+.|..++++..
T Consensus         6 A~ayie~Gd~e~Ar~lL~evl   26 (44)
T TIGR03504         6 ARAYIEMGDLEGARELLEEVI   26 (44)
T ss_pred             HHHHHHcCChHHHHHHHHHHH
Confidence            344555555555555555444

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=89.75  E-value=3.5  Score=28.25  Aligned_cols=73  Identities=21%  Similarity=0.212  Sum_probs=55.1

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC--CCCCCHHHHHHHHHHH
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL--AISPDYNTFHILIKYF   75 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~p~~~~~~~li~~~   75 (144)
                      ++.+.+.+++.+++...++=.+..+. |..+--.++..++-.|++++|..-++-.-.-  .-.+-..+|..+|.+-
T Consensus         8 ~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~e   82 (273)
T COG4455           8 ISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRCE   82 (273)
T ss_pred             HHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHHH
Confidence            45677889999999999888777555 7888889999999999999998877765432  2234455676666653

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.67  E-value=5.4  Score=27.92  Aligned_cols=93  Identities=18%  Similarity=0.162  Sum_probs=71.0

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHH---HHHHHHHHHhcCCHHHHHHHHHHhhhCC-CCC-CHHHHHHHHHHHHHhC
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVL---LNSMLCAYCRTGDMESVIHVMRKLDELA-ISP-DYNTFHILIKYFRKEK   79 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~---~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~p-~~~~~~~li~~~~~~g   79 (144)
                      +.+.|++..|..-|....+..+. +..+   +==|..++...|++++|-.+|..+.+.- =.| -..+.--+-.+..+.|
T Consensus       151 ~~ksgdy~~A~~~F~~fi~~YP~-s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~  229 (262)
T COG1729         151 LYKSGDYAEAEQAFQAFIKKYPN-STYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLG  229 (262)
T ss_pred             HHHcCCHHHHHHHHHHHHHcCCC-CcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhc
Confidence            56789999999999999887554 3333   3347788999999999999999988752 112 3356777778888999


Q ss_pred             cHHHHHHHHHHHHHCCCCCCH
Q 045403           80 MYMLAYRTMVDMHKKGHQPEE  100 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~  100 (144)
                      +.++|+..+++..+.  .|+.
T Consensus       230 ~~d~A~atl~qv~k~--YP~t  248 (262)
T COG1729         230 NTDEACATLQQVIKR--YPGT  248 (262)
T ss_pred             CHHHHHHHHHHHHHH--CCCC
Confidence            999999999999875  3543

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=89.65  E-value=4.4  Score=26.91  Aligned_cols=57  Identities=19%  Similarity=0.106  Sum_probs=42.3

Q ss_pred             HHHHhcCCHHHHHHHHHHhhhCCC--CCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHC
Q 045403           38 CAYCRTGDMESVIHVMRKLDELAI--SPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKK   94 (144)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   94 (144)
                      ......|++++|...|+++.....  +--....-.+..++-+.|+++.|...++++.+.
T Consensus        13 ~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   13 LEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            345678999999999999987522  223345567788899999999999999998864

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=89.57  E-value=7.4  Score=29.35  Aligned_cols=27  Identities=19%  Similarity=0.133  Sum_probs=20.6

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHH
Q 045403           99 EEELCSSLIFHLGKMRAHSEALCLQHV  125 (144)
Q Consensus        99 ~~~~~~~l~~~~~~~g~~~~a~~l~~~  125 (144)
                      +-..|.-|+.+|.-.|.+.+|.-.-..
T Consensus       367 rL~~Y~GL~hsYLA~~~~kEA~~~An~  393 (564)
T KOG1174|consen  367 RLEIYRGLFHSYLAQKRFKEANALANW  393 (564)
T ss_pred             hHHHHHHHHHHHHhhchHHHHHHHHHH
Confidence            566888888888888888887665543

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=89.08  E-value=3.3  Score=24.65  Aligned_cols=62  Identities=8%  Similarity=0.015  Sum_probs=43.7

Q ss_pred             HHHHHHHHHHhCcHH--HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           68 FHILIKYFRKEKMYM--LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        68 ~~~li~~~~~~g~~~--~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      |.+--..|....+.|  +..+-++.+....+.|++.+..+.+++|.+.+|+.-|.++++-++..
T Consensus        11 F~ary~~~F~~~~iD~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   11 FDARYEKYFNRPDIDGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHHHH-TT--HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCccccHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            333344444444444  56777888888889999999999999999999999999999988764

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=88.70  E-value=6.3  Score=27.43  Aligned_cols=82  Identities=17%  Similarity=0.069  Sum_probs=42.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC--CCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAI--SPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSL  106 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  106 (144)
                      -...|+..+.. .+.|++++|.+.|+.+.++..  +-..-+--.++.++-+.++.+.|...+++..+.-..-...-|..-
T Consensus        34 ~~~LY~~g~~~-L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Y  112 (254)
T COG4105          34 ASELYNEGLTE-LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYY  112 (254)
T ss_pred             HHHHHHHHHHH-HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHH
Confidence            33445544443 345666777777776665422  123334444555566666777777666666643222223334444


Q ss_pred             HHHHh
Q 045403          107 IFHLG  111 (144)
Q Consensus       107 ~~~~~  111 (144)
                      |.+.+
T Consensus       113 lkgLs  117 (254)
T COG4105         113 LKGLS  117 (254)
T ss_pred             HHHHH
Confidence            44444

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=87.96  E-value=11  Score=29.30  Aligned_cols=124  Identities=11%  Similarity=0.008  Sum_probs=74.0

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcH
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMY   81 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~   81 (144)
                      ++.++++-++.-+..+..+|...|  -+-..|-.++.+|.++ .-+.-..+|.++.+..+  |.+...--+.-+.+.++.
T Consensus        73 ~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df--nDvv~~ReLa~~yEkik~  147 (711)
T COG1747          73 LTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF--NDVVIGRELADKYEKIKK  147 (711)
T ss_pred             HHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc--hhHHHHHHHHHHHHHhch
Confidence            566777777888888888887653  3566677788888887 45677777777766433  222222222222222333


Q ss_pred             HHHHH--------------------------------------HHHHHH-HCCCCCCHHHHHHHHHHHhccCChHHHHHH
Q 045403           82 MLAYR--------------------------------------TMVDMH-KKGHQPEEELCSSLIFHLGKMRAHSEALCL  122 (144)
Q Consensus        82 ~~a~~--------------------------------------~~~~m~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l  122 (144)
                      +.+..                                      +..... +.|.......+.-+.+-|....++++|.++
T Consensus       148 sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~eN~~eai~I  227 (711)
T COG1747         148 SKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELIGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENENWTEAIRI  227 (711)
T ss_pred             hhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhccccCHHHHHHH
Confidence            33222                                      222222 124444555666667778888889999998


Q ss_pred             HHHhhhcC
Q 045403          123 QHVKDIAK  130 (144)
Q Consensus       123 ~~~m~~~~  130 (144)
                      +..+.+..
T Consensus       228 lk~il~~d  235 (711)
T COG1747         228 LKHILEHD  235 (711)
T ss_pred             HHHHhhhc
Confidence            88655443

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=87.64  E-value=0.83  Score=19.50  Aligned_cols=20  Identities=25%  Similarity=0.012  Sum_probs=12.3

Q ss_pred             HHHHHHhccCChHHHHHHHH
Q 045403          105 SLIFHLGKMRAHSEALCLQH  124 (144)
Q Consensus       105 ~l~~~~~~~g~~~~a~~l~~  124 (144)
                      .+-.++...|+.++|..+++
T Consensus         6 ~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    6 ALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHcCCHHHHHHHHh
Confidence            45555666666666666654

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=87.64  E-value=6  Score=25.99  Aligned_cols=31  Identities=13%  Similarity=-0.028  Sum_probs=16.3

Q ss_pred             CCCHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Q 045403           62 SPDYNTFHILIKYFRKEKMYMLAYRTMVDMH   92 (144)
Q Consensus        62 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~   92 (144)
                      .|+..++..++..+...|+.++|.++..++.
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~  171 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLARAR  171 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4555555555555555555555555555544

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=87.42  E-value=4.8  Score=26.46  Aligned_cols=57  Identities=9%  Similarity=-0.035  Sum_probs=41.2

Q ss_pred             HHHHHHhCcHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           72 IKYFRKEKMYMLAYRTMVDMHK-KGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        72 i~~~~~~g~~~~a~~~~~~m~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      +.......+.+......+...+ ....|+..+|..++.++...|+.++|.++.+++..
T Consensus       115 l~~~~~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~  172 (193)
T PF11846_consen  115 LLLARLPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARR  172 (193)
T ss_pred             HHhhcCCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3333355555554444444432 23579999999999999999999999999998764

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=87.31  E-value=5.2  Score=24.88  Aligned_cols=48  Identities=15%  Similarity=0.184  Sum_probs=37.5

Q ss_pred             CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Q 045403           45 DMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMH   92 (144)
Q Consensus        45 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~   92 (144)
                      +-.++.+-++......+.|+......-+.++.+.+|+..|.++|+-.+
T Consensus        64 D~wEvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK  111 (149)
T KOG4077|consen   64 DGWEVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIK  111 (149)
T ss_pred             hHHHHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            445677777777777777888888888888888888888888888776

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=87.21  E-value=7.7  Score=26.72  Aligned_cols=76  Identities=12%  Similarity=-0.018  Sum_probs=49.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHH---HHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045403           32 LLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTF---HILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIF  108 (144)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~---~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~  108 (144)
                      .|..- ..+.+.|++++|...|++....-..+ ...-   -.+..++.+.+++++|...+++..+....-...-+...+.
T Consensus        35 ~Y~~A-~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~  112 (243)
T PRK10866         35 IYATA-QQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMR  112 (243)
T ss_pred             HHHHH-HHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHH
Confidence            44433 34466899999999999998753322 2222   3456778899999999999999987532222233444444


Q ss_pred             H
Q 045403          109 H  109 (144)
Q Consensus       109 ~  109 (144)
                      +
T Consensus       113 g  113 (243)
T PRK10866        113 G  113 (243)
T ss_pred             H
Confidence            4

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=87.09  E-value=2.6  Score=22.39  Aligned_cols=22  Identities=14%  Similarity=0.031  Sum_probs=8.9

Q ss_pred             HHHHHHHHhCcHHHHHHHHHHH
Q 045403           70 ILIKYFRKEKMYMLAYRTMVDM   91 (144)
Q Consensus        70 ~li~~~~~~g~~~~a~~~~~~m   91 (144)
                      .+|.++...|++++|.++++++
T Consensus        28 qvI~gllqlg~~~~a~eYi~~~   49 (62)
T PF14689_consen   28 QVIYGLLQLGKYEEAKEYIKEL   49 (62)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHH
Confidence            3344444444444444444433

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=86.84  E-value=5.4  Score=28.56  Aligned_cols=101  Identities=11%  Similarity=0.038  Sum_probs=67.0

Q ss_pred             CCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHhhhCCCC-------CC---------HHHHHHHHHHHHHhCcHHHHHHHH
Q 045403           26 DKYDVVLLNSMLCAYCRTG-DMESVIHVMRKLDELAIS-------PD---------YNTFHILIKYFRKEKMYMLAYRTM   88 (144)
Q Consensus        26 ~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~g~~-------p~---------~~~~~~li~~~~~~g~~~~a~~~~   88 (144)
                      +..|+.-|-+.++-..... .++++-++....+..=++       -|         ..+++..-..|.++|.+.+|.++.
T Consensus       223 ~k~Dv~e~es~~rqi~~inltide~kelv~~ykgdyl~e~~y~Waedererle~ly~kllgkva~~yle~g~~neAi~l~  302 (361)
T COG3947         223 PKYDVQEYESLARQIEAINLTIDELKELVGQYKGDYLPEADYPWAEDERERLEQLYMKLLGKVARAYLEAGKPNEAIQLH  302 (361)
T ss_pred             ccccHHHHHHHhhhhhccccCHHHHHHHHHHhcCCcCCccccccccchHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            4456666666666554433 355555555544321110       01         123566677899999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           89 VDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        89 ~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      +...+.. +.+...+-.++..+...||-..+.+-++++.
T Consensus       303 qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         303 QRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            9988754 5677788899999999999777776666554

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=86.75  E-value=9.4  Score=27.26  Aligned_cols=117  Identities=10%  Similarity=0.084  Sum_probs=76.7

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCc
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKM   80 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~   80 (144)
                      ..+|...|+++.|..++..+...--......-..-|..+.+.....+..++-.+.-+.   | |...--.+-..+...|+
T Consensus       175 a~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aad---Pdd~~aa~~lA~~~~~~g~  251 (304)
T COG3118         175 AECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEIQDLQRRLAAD---PDDVEAALALADQLHLVGR  251 (304)
T ss_pred             HHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCC
Confidence            4578889999999999999875433323233233455555555555555555555543   6 66677788888999999


Q ss_pred             HHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHhccCChHHHHH
Q 045403           81 YMLAYRTMVDMHKK-GHQPEEELCSSLIFHLGKMRAHSEALC  121 (144)
Q Consensus        81 ~~~a~~~~~~m~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~  121 (144)
                      .+.|.+.+-.+.+. --.-|...-..++..|.-.|.-|.+-.
T Consensus       252 ~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~~~  293 (304)
T COG3118         252 NEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPLVL  293 (304)
T ss_pred             HHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHHHH
Confidence            99988876666533 223455666777887777775554333

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=86.72  E-value=4.9  Score=23.94  Aligned_cols=50  Identities=18%  Similarity=0.249  Sum_probs=24.2

Q ss_pred             HHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCC
Q 045403           40 YCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKG   95 (144)
Q Consensus        40 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~   95 (144)
                      +..+|+|++|..+.+.+    +-||...|-++-.  .+.|..+....-+.+|...|
T Consensus        49 LmNrG~Yq~Al~l~~~~----~~pdlepw~ALce--~rlGl~s~l~~rl~rla~sg   98 (115)
T TIGR02508        49 LMNRGDYQSALQLGNKL----CYPDLEPWLALCE--WRLGLGSALESRLNRLAASG   98 (115)
T ss_pred             HHccchHHHHHHhcCCC----CCchHHHHHHHHH--HhhccHHHHHHHHHHHHhCC
Confidence            44455555555555444    2355555554432  24455454444455554443

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=86.41  E-value=8.6  Score=26.46  Aligned_cols=59  Identities=12%  Similarity=0.089  Sum_probs=44.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHH
Q 045403           32 LLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDM   91 (144)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m   91 (144)
                      |.+.-|..+.+.+...++.....+=++... -|.-+-..+++.++..|++++|..-++-.
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakP-tda~~RhflfqLlcvaGdw~kAl~Ql~l~   61 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKP-TDAGGRHFLFQLLCVAGDWEKALAQLNLA   61 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCC-ccccchhHHHHHHhhcchHHHHHHHHHHH
Confidence            345567778888899999999887766522 36667788899999999999986654443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=86.18  E-value=12  Score=27.77  Aligned_cols=75  Identities=13%  Similarity=0.160  Sum_probs=42.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhhhCC-CC-C-CHHHHHHHHHHHHH---hCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045403           36 MLCAYCRTGDMESVIHVMRKLDELA-IS-P-DYNTFHILIKYFRK---EKMYMLAYRTMVDMHKKGHQPEEELCSSLIFH  109 (144)
Q Consensus        36 li~~~~~~~~~~~a~~~~~~m~~~g-~~-p-~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~  109 (144)
                      ++-+|-...+++...++.+.+..-- +. + ....--...-++.+   .|+-++|.+++.......-.++..++..+-..
T Consensus       147 lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRI  226 (374)
T PF13281_consen  147 LLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRI  226 (374)
T ss_pred             HHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHH
Confidence            3335777777888888887776531 10 1 11111122233444   67778888887775544445666666665544


Q ss_pred             H
Q 045403          110 L  110 (144)
Q Consensus       110 ~  110 (144)
                      |
T Consensus       227 y  227 (374)
T PF13281_consen  227 Y  227 (374)
T ss_pred             H
Confidence            4

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=86.17  E-value=2.1  Score=19.14  Aligned_cols=27  Identities=11%  Similarity=-0.049  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHH
Q 045403           67 TFHILIKYFRKEKMYMLAYRTMVDMHK   93 (144)
Q Consensus        67 ~~~~li~~~~~~g~~~~a~~~~~~m~~   93 (144)
                      +|..+-.+|...|++++|...+++..+
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            455566666666666666666666554

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=86.06  E-value=4.7  Score=25.09  Aligned_cols=46  Identities=4%  Similarity=0.052  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      +..+.++.+....+.|++.+..+-+.++.+-+|+..|.++++-++.
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~  112 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKD  112 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3556677777788999999999999999999999999999998864

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=85.81  E-value=5.5  Score=23.72  Aligned_cols=87  Identities=13%  Similarity=-0.028  Sum_probs=60.5

Q ss_pred             CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHH
Q 045403           45 DMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQH  124 (144)
Q Consensus        45 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~  124 (144)
                      ..++|..|-+-+...+.. ...+--+-+..+...|++++|..+.+.+    +.||...|-+|-.  -+.|..++...-+-
T Consensus        20 cHqEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~----~~pdlepw~ALce--~rlGl~s~l~~rl~   92 (115)
T TIGR02508        20 CHQEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKL----CYPDLEPWLALCE--WRLGLGSALESRLN   92 (115)
T ss_pred             HHHHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCC----CCchHHHHHHHHH--HhhccHHHHHHHHH
Confidence            357888888887765432 3334444455677889999999877666    6899998877654  47888888888887


Q ss_pred             HhhhcCCCCcHHHH
Q 045403          125 VKDIAKDRCAMPFM  138 (144)
Q Consensus       125 ~m~~~~~~~~~~~~  138 (144)
                      +|..+..+....|.
T Consensus        93 rla~sg~p~lq~Fa  106 (115)
T TIGR02508        93 RLAASGDPRLQTFV  106 (115)
T ss_pred             HHHhCCCHHHHHHH
Confidence            78766655554443

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=85.75  E-value=2.8  Score=20.69  Aligned_cols=22  Identities=18%  Similarity=-0.164  Sum_probs=12.3

Q ss_pred             HHHHHhccCChHHHHHHHHHhh
Q 045403          106 LIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus       106 l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      +..+|.+.|+.+.|.++++++.
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl   26 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVI   26 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHH
Confidence            4455555555555555555554

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=85.68  E-value=3.9  Score=23.06  Aligned_cols=46  Identities=15%  Similarity=0.136  Sum_probs=31.4

Q ss_pred             hcCCHHHHHHHHHHhhhCCCCC-C-HHHHHHHHHHHHHhCcHHHHHHH
Q 045403           42 RTGDMESVIHVMRKLDELAISP-D-YNTFHILIKYFRKEKMYMLAYRT   87 (144)
Q Consensus        42 ~~~~~~~a~~~~~~m~~~g~~p-~-~~~~~~li~~~~~~g~~~~a~~~   87 (144)
                      ...+-++|+.+|....+.-..| + ..++..++.+|+..|++++++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5556778888887776553332 2 23577788888888888877664

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=85.62  E-value=14  Score=28.18  Aligned_cols=128  Identities=9%  Similarity=-0.045  Sum_probs=83.3

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhc-CCCCCH-----HHHHHHHHHHHh----cCCHHHHHHHHHHhhhCCCCCCHHHHHHH
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAK-YDKYDV-----VLLNSMLCAYCR----TGDMESVIHVMRKLDELAISPDYNTFHIL   71 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~-~~~p~~-----~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~l   71 (144)
                      +...+=.||-+.+.+++.+-.+. ++....     -.|...+..++.    ....+.+.+++..+.++  -|+..-|...
T Consensus       195 l~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~~  272 (468)
T PF10300_consen  195 LSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLFF  272 (468)
T ss_pred             HhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHHH
Confidence            34444568888888888875543 233222     345555555544    34678999999999874  4887777555


Q ss_pred             HH-HHHHhCcHHHHHHHHHHHHH--CCCC-CCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           72 IK-YFRKEKMYMLAYRTMVDMHK--KGHQ-PEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        72 i~-~~~~~g~~~~a~~~~~~m~~--~~~~-~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      -. .+...|++++|.+.|++...  ...+ .....+=-+.-++.-.+++++|.+.|.++.+...
T Consensus       273 ~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~  336 (468)
T PF10300_consen  273 EGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESK  336 (468)
T ss_pred             HHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccc
Confidence            43 36668999999999997653  1111 1112222344456778899999999999986433

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=85.60  E-value=2.6  Score=30.03  Aligned_cols=29  Identities=14%  Similarity=0.398  Sum_probs=15.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhhhCCCC
Q 045403           34 NSMLCAYCRTGDMESVIHVMRKLDELAIS   62 (144)
Q Consensus        34 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~   62 (144)
                      |..|+...+.|++++|+.++++.++.|+.
T Consensus       261 ~~aI~~AVk~gDi~KAL~LldEAe~LG~~  289 (303)
T PRK10564        261 NQAIKQAVKKGDVDKALKLLDEAERLGST  289 (303)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCc
Confidence            35555555555555555555555555543

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=85.52  E-value=7  Score=24.65  Aligned_cols=86  Identities=10%  Similarity=0.042  Sum_probs=64.3

Q ss_pred             HHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHC-CCCCCHH---HHHHHHHHHhccC
Q 045403           39 AYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKK-GHQPEEE---LCSSLIFHLGKMR  114 (144)
Q Consensus        39 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~---~~~~l~~~~~~~g  114 (144)
                      +.++.|+++.|.+.|.....- .+-+...||.-..++...|+.++|++=+++..+. |-+ +..   .|..--..|...|
T Consensus        52 alaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHhC
Confidence            467889999999999987764 2347789999999999999999999888877753 322 322   3333344567788


Q ss_pred             ChHHHHHHHHHh
Q 045403          115 AHSEALCLQHVK  126 (144)
Q Consensus       115 ~~~~a~~l~~~m  126 (144)
                      +-+.|..=|+.-
T Consensus       130 ~dd~AR~DFe~A  141 (175)
T KOG4555|consen  130 NDDAARADFEAA  141 (175)
T ss_pred             chHHHHHhHHHH
Confidence            888888777753

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=85.37  E-value=11  Score=26.79  Aligned_cols=102  Identities=16%  Similarity=0.060  Sum_probs=72.6

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHh
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRT---GDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKE   78 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~---~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~   78 (144)
                      .+|.+.|+++.|..-|....+...+ |...+..+-.++...   .+-.++..+|++..+.  .| |..+-.-+--.+...
T Consensus       164 ~~ym~~~~~~~A~~AY~~A~rL~g~-n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~--D~~~iral~lLA~~afe~  240 (287)
T COG4235         164 RAYMALGRASDALLAYRNALRLAGD-NPEILLGLAEALYYQAGQQMTAKARALLRQALAL--DPANIRALSLLAFAAFEQ  240 (287)
T ss_pred             HHHHHhcchhHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHc
Confidence            4677889999999999998765332 555555555554433   3567899999999874  45 455566666679999


Q ss_pred             CcHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045403           79 KMYMLAYRTMVDMHKKGHQPEEELCSSLIFH  109 (144)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~  109 (144)
                      |++.+|...|+.|.+..  |....+..+|..
T Consensus       241 g~~~~A~~~Wq~lL~~l--p~~~~rr~~ie~  269 (287)
T COG4235         241 GDYAEAAAAWQMLLDLL--PADDPRRSLIER  269 (287)
T ss_pred             ccHHHHHHHHHHHHhcC--CCCCchHHHHHH
Confidence            99999999999999763  444445555443

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=85.32  E-value=3.3  Score=20.74  Aligned_cols=30  Identities=7%  Similarity=0.145  Sum_probs=13.5

Q ss_pred             hCcHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 045403           78 EKMYMLAYRTMVDMHKKGHQPEEELCSSLI  107 (144)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~  107 (144)
                      .|-++++..++++|.+.|+..+...+..++
T Consensus        15 ~GlI~~~~~~l~~l~~~g~~is~~l~~~~L   44 (48)
T PF11848_consen   15 RGLISEVKPLLDRLQQAGFRISPKLIEEIL   44 (48)
T ss_pred             cCChhhHHHHHHHHHHcCcccCHHHHHHHH
Confidence            344444444444444444444444444433

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]

Probab=85.20  E-value=13  Score=27.26  Aligned_cols=78  Identities=15%  Similarity=0.234  Sum_probs=50.7

Q ss_pred             hhccCCHHHHHHHHHHHHhc---CCCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHhhh-----CCCCCCHHH-HHHHH-
Q 045403            5 FCRGGCFEEAKQLARDFEAK---YDKYDVVLLN--SMLCAYCRTGDMESVIHVMRKLDE-----LAISPDYNT-FHILI-   72 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~---~~~p~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~-----~g~~p~~~~-~~~li-   72 (144)
                      .-+.++.++|.+.++++...   .-.|+.+.|.  .+.+.+...|+..++.+++.+.++     .|+.|++++ |..+- 
T Consensus        85 ~~~~~D~~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~~fY~lss  164 (380)
T KOG2908|consen   85 SEQISDKDEALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVHSSFYSLSS  164 (380)
T ss_pred             HHHhccHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhhhhHHHHHH
Confidence            34556888888888888753   2345665554  566667788899999888888877     678776654 33333 


Q ss_pred             HHHHHhCcHH
Q 045403           73 KYFRKEKMYM   82 (144)
Q Consensus        73 ~~~~~~g~~~   82 (144)
                      +.|...|++.
T Consensus       165 qYyk~~~d~a  174 (380)
T KOG2908|consen  165 QYYKKIGDFA  174 (380)
T ss_pred             HHHHHHHhHH
Confidence            2333444443

>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat

Probab=85.05  E-value=5.4  Score=22.94  Aligned_cols=66  Identities=12%  Similarity=-0.053  Sum_probs=40.9

Q ss_pred             HHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHH
Q 045403           49 VIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL  120 (144)
Q Consensus        49 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  120 (144)
                      +.++++.+.+.|+ .+......+-.+-...|+.+.|..++..+. .|  |  .-|..+++++-+.|.-+-|.
T Consensus        21 ~~~v~d~ll~~~i-lT~~d~e~I~aa~~~~g~~~~ar~LL~~L~-rg--~--~aF~~Fl~aLreT~~~~LA~   86 (88)
T cd08819          21 TRDVCDKCLEQGL-LTEEDRNRIEAATENHGNESGARELLKRIV-QK--E--GWFSKFLQALRETEHHELAR   86 (88)
T ss_pred             HHHHHHHHHhcCC-CCHHHHHHHHHhccccCcHHHHHHHHHHhc-cC--C--cHHHHHHHHHHHcCchhhhh
Confidence            5566677777775 444444444444445677777777777776 32  3  36677777777776665544

Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=84.88  E-value=4.2  Score=21.58  Aligned_cols=47  Identities=17%  Similarity=0.291  Sum_probs=34.5

Q ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 045403           10 CFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDE   58 (144)
Q Consensus        10 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (144)
                      .++.+.++.+.++..  ..|-.-.=.+|.++.+.|++++|.+..+++.+
T Consensus         5 ~~~~~~~~~~~lR~~--RHD~~NhLqvI~gllqlg~~~~a~eYi~~~~~   51 (62)
T PF14689_consen    5 QLEELEELIDSLRAQ--RHDFLNHLQVIYGLLQLGKYEEAKEYIKELSK   51 (62)
T ss_dssp             -HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH--hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            455666666666553  55666666889999999999999999988865

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=84.80  E-value=3.6  Score=20.63  Aligned_cols=35  Identities=11%  Similarity=0.177  Sum_probs=27.2

Q ss_pred             HHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 045403           40 YCRTGDMESVIHVMRKLDELAISPDYNTFHILIKY   74 (144)
Q Consensus        40 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~   74 (144)
                      ..+.|-.+++..++++|.+.|+..+...+..+++-
T Consensus        12 Ak~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~~   46 (48)
T PF11848_consen   12 AKRRGLISEVKPLLDRLQQAGFRISPKLIEEILRR   46 (48)
T ss_pred             HHHcCChhhHHHHHHHHHHcCcccCHHHHHHHHHH
Confidence            35667777888899999888888888877776653

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription]

Probab=84.07  E-value=7  Score=31.33  Aligned_cols=77  Identities=22%  Similarity=0.270  Sum_probs=52.7

Q ss_pred             ChhhhhccCCHHHHHHHHHHHHhc--CCCCCHHHHHHHHHHHHhcCCHHH--HHHHH-HHhhhCCCCCCHHHHHHHHHHH
Q 045403            1 MISAFCRGGCFEEAKQLARDFEAK--YDKYDVVLLNSMLCAYCRTGDMES--VIHVM-RKLDELAISPDYNTFHILIKYF   75 (144)
Q Consensus         1 ll~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~~~~~li~~~~~~~~~~~--a~~~~-~~m~~~g~~p~~~~~~~li~~~   75 (144)
                      |+.+|..+|++-++.++++.+...  |-..-...||..|+-+.++|.++-  +.+=. +.++...+.-|.-||..|+.+.
T Consensus        34 l~eacv~n~~~~rs~~ll~s~~~~~~~~k~~l~~~nlyi~~~~q~~sf~l~~~~~~~~~~lq~a~ln~d~~t~all~~~s  113 (1117)
T COG5108          34 LFEACVYNGDFLRSKQLLKSFIDHNKGDKILLPMINLYIREIIQRGSFELTDVLSNAKELLQQARLNGDSLTYALLCQAS  113 (1117)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCcCCeeehhHHHHHHHHHHhcCCccHHHHHHHHHHHHHHhhcCCcchHHHHHHHhh
Confidence            467899999999999999988753  334445678889999999986532  11111 2223334667888888888776


Q ss_pred             HH
Q 045403           76 RK   77 (144)
Q Consensus        76 ~~   77 (144)
                      ..
T Consensus       114 ln  115 (1117)
T COG5108         114 LN  115 (1117)
T ss_pred             cC
Confidence            54

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=84.05  E-value=3.4  Score=29.45  Aligned_cols=47  Identities=17%  Similarity=0.133  Sum_probs=36.7

Q ss_pred             CCCCHHH-HHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 045403           61 ISPDYNT-FHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLI  107 (144)
Q Consensus        61 ~~p~~~~-~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~  107 (144)
                      +.||..+ |+.-|+.-.+.||+++|++++++.++.|..--..+|-..+
T Consensus       252 v~~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFik~V  299 (303)
T PRK10564        252 MLNDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFISSV  299 (303)
T ss_pred             cCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHHHHh
Confidence            4465555 6799999999999999999999999998766666664443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=83.48  E-value=17  Score=27.36  Aligned_cols=24  Identities=4%  Similarity=-0.291  Sum_probs=17.5

Q ss_pred             HHHHHHhccCChHHHHHHHHHhhh
Q 045403          105 SLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       105 ~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .-..++.+.|++.++-++++.+-+
T Consensus       268 ~AAralf~d~~~rKg~~ilE~aWK  291 (531)
T COG3898         268 VAARALFRDGNLRKGSKILETAWK  291 (531)
T ss_pred             HHHHHHHhccchhhhhhHHHHHHh
Confidence            345667788888888888887765

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=83.40  E-value=18  Score=27.52  Aligned_cols=110  Identities=15%  Similarity=0.045  Sum_probs=59.7

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhh-------hCC----------CCCCHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLD-------ELA----------ISPDYNTFH   69 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~-------~~g----------~~p~~~~~~   69 (144)
                      -+|+++++.+..+.-.-- +.-+....+.+++.+-+.|..+.|+.+-.+-.       +.|          -..+...|.
T Consensus       273 ~~~d~~~v~~~i~~~~ll-~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~~rFeLAl~lg~L~~A~~~a~~~~~~~~W~  351 (443)
T PF04053_consen  273 LRGDFEEVLRMIAASNLL-PNIPKDQGQSIARFLEKKGYPELALQFVTDPDHRFELALQLGNLDIALEIAKELDDPEKWK  351 (443)
T ss_dssp             HTT-HHH-----HHHHTG-GG--HHHHHHHHHHHHHTT-HHHHHHHSS-HHHHHHHHHHCT-HHHHHHHCCCCSTHHHHH
T ss_pred             HcCChhhhhhhhhhhhhc-ccCChhHHHHHHHHHHHCCCHHHHHhhcCChHHHhHHHHhcCCHHHHHHHHHhcCcHHHHH
Confidence            356777766665411110 01124457788888888888888777654321       111          135677888


Q ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHh
Q 045403           70 ILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVK  126 (144)
Q Consensus        70 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m  126 (144)
                      .|-+.....|+++.|.+++++..         -|..|+-.|.-.|+.+...++.+.-
T Consensus       352 ~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a  399 (443)
T PF04053_consen  352 QLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIA  399 (443)
T ss_dssp             HHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHHH
Confidence            88888888888888888887764         2344444455555555555554443

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=83.08  E-value=9.3  Score=24.11  Aligned_cols=64  Identities=9%  Similarity=-0.010  Sum_probs=45.8

Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403           16 QLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus        16 ~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      ++.+.+++.|++++. ---.+++.+.+.++.-.|.++|+++.+.+...+..|.-..++.+...|-
T Consensus         7 ~~~~~lk~~glr~T~-qR~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Gl   70 (145)
T COG0735           7 DAIERLKEAGLRLTP-QRLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGL   70 (145)
T ss_pred             HHHHHHHHcCCCcCH-HHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCC
Confidence            344556667776443 3456778888887778899999999988777777776666777777663

>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=83.03  E-value=6.3  Score=23.55  Aligned_cols=27  Identities=19%  Similarity=-0.018  Sum_probs=25.2

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403          102 LCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       102 ~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      -|..|+..|...|.+++|++++.++..
T Consensus        41 ~~~eL~~lY~~kg~h~~AL~ll~~l~~   67 (108)
T PF10366_consen   41 KYQELVDLYQGKGLHRKALELLKKLAD   67 (108)
T ss_pred             CHHHHHHHHHccCccHHHHHHHHHHhc
Confidence            588999999999999999999999876

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=82.94  E-value=9.9  Score=24.31  Aligned_cols=51  Identities=10%  Similarity=0.158  Sum_probs=30.2

Q ss_pred             cCCHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCC
Q 045403            8 GGCFEEAKQLARDFEAKYDK-YDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA   60 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g   60 (144)
                      .++.+++..+++.|.-.-+. |...++..  ..+..+|++++|..+|++..+.+
T Consensus        23 ~~d~~D~e~lLdALrvLrP~~~e~d~~dg--~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLRPNLKELDMFDG--WLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccccchhHH--HHHHHcCCHHHHHHHHHhhhccC
Confidence            56677777777777653221 22222222  23456777788888887777654

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF11663 Toxin_YhaV: Toxin with endonuclease activity YhaV; InterPro: IPR021679 YhaV causes reversible bacteriostasis and is part of a toxin-antitoxin system in Escherichia coli along with PrlF

Probab=82.93  E-value=1.5  Score=27.32  Aligned_cols=30  Identities=20%  Similarity=0.268  Sum_probs=22.4

Q ss_pred             CcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045403           79 KMYMLAYRTMVDMHKKGHQPEEELCSSLIFHL  110 (144)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~  110 (144)
                      |.-.+|..+|..|.+.|-.||  .|+.|+...
T Consensus       109 gsk~DaY~VF~kML~~G~pPd--dW~~Ll~~a  138 (140)
T PF11663_consen  109 GSKTDAYAVFRKMLERGNPPD--DWDALLKEA  138 (140)
T ss_pred             ccCCcHHHHHHHHHhCCCCCc--cHHHHHHHh
Confidence            344457889999999998888  677777653

The toxicity of YhaV is counteracted by PrlF by the formation of a tight complex which binds to the promoter of the prlF-yhaV operon. In vitro, YhaV also has endonuclease activity [].

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=82.90  E-value=11  Score=24.96  Aligned_cols=99  Identities=13%  Similarity=0.000  Sum_probs=74.6

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH---HHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCA---YCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~---~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      ..++.|+...|..-|++.-+....|-+.-=..-+++   +..+|-++.+..-.+-+...|-+.....-..|--+--+.|+
T Consensus       103 ~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd  182 (221)
T COG4649         103 LLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGD  182 (221)
T ss_pred             HHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccc
Confidence            456789999999999999876666665533334433   46788999999988888777765666667777777779999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHH
Q 045403           81 YMLAYRTMVDMHKKGHQPEEEL  102 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~~~~  102 (144)
                      +.+|.++|.++......|....
T Consensus       183 ~a~A~~~F~qia~Da~aprnir  204 (221)
T COG4649         183 FAKAKSWFVQIANDAQAPRNIR  204 (221)
T ss_pred             hHHHHHHHHHHHccccCcHHHH
Confidence            9999999999986544554433

>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]

Probab=82.74  E-value=5.2  Score=23.68  Aligned_cols=61  Identities=16%  Similarity=0.292  Sum_probs=29.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhC--cHHHHHHHHHHHHHCCC
Q 045403           34 NSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEK--MYMLAYRTMVDMHKKGH   96 (144)
Q Consensus        34 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~~~   96 (144)
                      ..+|.-|...++.++|...+.++...  .--......++..+...+  .-+....++..+.+.+.
T Consensus         6 ~~~l~ey~~~~d~~ea~~~l~el~~~--~~~~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~~~   68 (113)
T PF02847_consen    6 FSILMEYFSSGDVDEAVECLKELKLP--SQHHEVVKVILECALEEKKSYREYYSKLLSHLCKRKL   68 (113)
T ss_dssp             HHHHHHHHHHT-HHHHHHHHHHTT-G--GGHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHhcCCCHHHHHHHHHHhCCC--ccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhcCC
Confidence            34555666667777777777665432  111122333333333332  22335556666665554

It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=82.49  E-value=3.2  Score=18.31  Aligned_cols=25  Identities=24%  Similarity=0.238  Sum_probs=11.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhh
Q 045403           33 LNSMLCAYCRTGDMESVIHVMRKLD   57 (144)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~   57 (144)
                      |..+-..+...|++++|...|++..
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al   28 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            3334444444555555555554443

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=82.26  E-value=21  Score=27.70  Aligned_cols=115  Identities=13%  Similarity=0.118  Sum_probs=73.6

Q ss_pred             CCHHHH-HHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHH
Q 045403            9 GCFEEA-KQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRT   87 (144)
Q Consensus         9 g~~~~a-~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~   87 (144)
                      |++..| .+++..+....-.|+.+..-+.|  +..-|+++.+...+...... +.....+-.+++...-+.|++++|...
T Consensus       303 gd~~aas~~~~~~lr~~~~~p~~i~l~~~i--~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~  379 (831)
T PRK15180        303 GDIIAASQQLFAALRNQQQDPVLIQLRSVI--FSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALST  379 (831)
T ss_pred             cCHHHHHHHHHHHHHhCCCCchhhHHHHHH--HHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHH
Confidence            444443 45566666555556665544443  45668888888888775432 345667888888888899999999988


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           88 MVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        88 ~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      -+-|....+.-. .+.+...-.--..|-+|++...++++-
T Consensus       380 a~~~l~~eie~~-ei~~iaa~sa~~l~~~d~~~~~wk~~~  418 (831)
T PRK15180        380 AEMMLSNEIEDE-EVLTVAAGSADALQLFDKSYHYWKRVL  418 (831)
T ss_pred             HHHHhccccCCh-hheeeecccHHHHhHHHHHHHHHHHHh
Confidence            888876655333 222222222245677888888777754

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=82.02  E-value=7.4  Score=28.66  Aligned_cols=48  Identities=17%  Similarity=0.157  Sum_probs=38.5

Q ss_pred             HHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcHHHHHHH
Q 045403           38 CAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMYMLAYRT   87 (144)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~   87 (144)
                      +-|.+.|.+++|.++|.+-..  +.| |.+++..-..+|.+.+.+..|..=
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~D  153 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEED  153 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHHh
Confidence            347789999999999988654  456 889999999999999887765543

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=81.92  E-value=12  Score=30.31  Aligned_cols=106  Identities=15%  Similarity=0.113  Sum_probs=53.1

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC---------------CCCHHHHHHHHH
Q 045403            9 GCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAI---------------SPDYNTFHILIK   73 (144)
Q Consensus         9 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~---------------~p~~~~~~~li~   73 (144)
                      |.+++|.++|-+|-..         ...|..+.+-|++-.+.++++.=. .+.               -.+...|....+
T Consensus       748 g~feeaek~yld~drr---------DLAielr~klgDwfrV~qL~r~g~-~d~dD~~~e~A~r~ig~~fa~~~~We~A~~  817 (1189)
T KOG2041|consen  748 GEFEEAEKLYLDADRR---------DLAIELRKKLGDWFRVYQLIRNGG-SDDDDEGKEDAFRNIGETFAEMMEWEEAAK  817 (1189)
T ss_pred             cchhHhhhhhhccchh---------hhhHHHHHhhhhHHHHHHHHHccC-CCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6677777777666533         123445555566665555554310 000               012223444555


Q ss_pred             HHHHhCcHHHHHHHH------HHHHH--CCCCCCHHHHHHHHHHHhccCChHHHHHHHH
Q 045403           74 YFRKEKMYMLAYRTM------VDMHK--KGHQPEEELCSSLIFHLGKMRAHSEALCLQH  124 (144)
Q Consensus        74 ~~~~~g~~~~a~~~~------~~m~~--~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~  124 (144)
                      .|...|+.+.-.+.+      +++..  ..++-+......+.++|.+.|..++|-+.+-
T Consensus       818 yY~~~~~~e~~~ecly~le~f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~L  876 (1189)
T KOG2041|consen  818 YYSYCGDTENQIECLYRLELFGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYL  876 (1189)
T ss_pred             HHHhccchHhHHHHHHHHHhhhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHH
Confidence            555555544433322      22221  1234455556666777777777776666554

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=81.88  E-value=11  Score=23.89  Aligned_cols=121  Identities=18%  Similarity=0.065  Sum_probs=53.1

Q ss_pred             hhccCCHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYD--KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      +...|+++.|...+++......  ......+......+...++.+.+...+.+..+.........+..+-..+...++.+
T Consensus       140 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  219 (291)
T COG0457         140 LYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYE  219 (291)
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccHH
Confidence            3445555555555555533111  01223333333334445555555555555544311112444555555555555555


Q ss_pred             HHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           83 LAYRTMVDMHKKGHQPE-EELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      .+...+......  .|+ ...+..+...+...|..+++...+.+..
T Consensus       220 ~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  263 (291)
T COG0457         220 EALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKAL  263 (291)
T ss_pred             HHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHH
Confidence            555555555432  121 2222222222224444555555555443

>PF10155 DUF2363: Uncharacterized conserved protein (DUF2363); InterPro: IPR019312 This entry represents a region of 120 amino acids in proteins conserved from plants to humans

Probab=81.75  E-value=9.9  Score=23.48  Aligned_cols=113  Identities=12%  Similarity=-0.003  Sum_probs=78.1

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHH---HHHHHHHHH-------h
Q 045403            9 GCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTF---HILIKYFRK-------E   78 (144)
Q Consensus         9 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~---~~li~~~~~-------~   78 (144)
                      .++.-|.+++......   |   -+...++.+...+---.+.++.+++....-.|..+.-   +..|+.|-.       .
T Consensus         3 nNp~IA~~~l~~l~~s---~---~~~~yld~lv~~~~sl~s~EvVn~L~~~~~~p~efl~~yI~~cI~~ce~~kd~~~q~   76 (126)
T PF10155_consen    3 NNPNIAIEILVKLINS---P---NFKEYLDVLVSMDMSLHSMEVVNRLTTSFSLPQEFLHMYISNCIKSCESIKDKYMQN   76 (126)
T ss_pred             CcHHHHHHHHHHHcCC---c---hHHHHHHHHHcCCCchhHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHHhhccccccc
Confidence            4566677777766542   2   2788888889888888899999999877655655442   223333332       2


Q ss_pred             CcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           79 KMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      ........+++.+.+.++.-....+.-+=.-|.+..++.||..+|+.+.
T Consensus        77 R~VRlvcvfl~sLir~~i~~~~~l~~evq~FClefs~i~Ea~~L~kllk  125 (126)
T PF10155_consen   77 RLVRLVCVFLQSLIRNKIIDVEDLFIEVQAFCLEFSRIKEASALFKLLK  125 (126)
T ss_pred             chhhhHHHHHHHHHHcCCCchHHHHhhHHHHHHHHccHHHHHHHHHHHh
Confidence            2344456677888888876666666666666778889999999999765

Their function is not known.

>PF11838 ERAP1_C: ERAP1-like C-terminal domain; InterPro: IPR024571 This entry represents the uncharacterised C-terminal domain of zinc metallopeptidases belonging to MEROPS peptidase family M1 (aminopeptidase N, clan MA), with a single member characterised in Streptomyces lividans: aminopeptidase G []

Probab=81.75  E-value=16  Score=25.87  Aligned_cols=113  Identities=15%  Similarity=0.096  Sum_probs=73.2

Q ss_pred             cCCHHHHHHHHHHHHhcCC----CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            8 GGCFEEAKQLARDFEAKYD----KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~----~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+..+.|.+.|++....+.    ..+...-..+++...+.|..+.-..+++.....   ++...-..++.+.+-..+.+.
T Consensus       143 ~~~~~~a~~~~~~~~~~~~~~~~~i~~dlr~~v~~~~~~~g~~~~~~~l~~~~~~~---~~~~~k~~~l~aLa~~~d~~~  219 (324)
T PF11838_consen  143 PECVAEARELFKAWLDGNDSPESSIPPDLRWAVYCAGVRNGDEEEWDFLWELYKNS---TSPEEKRRLLSALACSPDPEL  219 (324)
T ss_dssp             HHHHHHHHHHHHHHHHTTT-TTSTS-HHHHHHHHHHHTTS--HHHHHHHHHHHHTT---STHHHHHHHHHHHTT-S-HHH
T ss_pred             hhHHHHHHHHHHHHhcCCcccccccchHHHHHHHHHHHHHhhHhhHHHHHHHHhcc---CCHHHHHHHHHhhhccCCHHH
Confidence            3457788888998876422    446667778888888888877777777777653   577888999999999999998


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCh--HHHHHHHH
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAH--SEALCLQH  124 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--~~a~~l~~  124 (144)
                      ..++++.....+..+....+. ++.++...+..  +.+.+.+.
T Consensus       220 ~~~~l~~~l~~~~v~~~d~~~-~~~~~~~~~~~~~~~~~~~~~  261 (324)
T PF11838_consen  220 LKRLLDLLLSNDKVRSQDIRY-VLAGLASSNPVGRDLAWEFFK  261 (324)
T ss_dssp             HHHHHHHHHCTSTS-TTTHHH-HHHHHH-CSTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCcccccHHHHH-HHHHHhcCChhhHHHHHHHHH
Confidence            888998888754233333433 44444433333  55555555

The rest of the members of this family are identified as aminopeptidase N of the actinomycete-type. The spectrum of activity may differ somewhat from the aminopeptidase N clade of Escherichia coli and most other proteobacteria, which are well separated phylogenetically within the M1 family. ; PDB: 3MDJ_A 2YD0_A 3QNF_C 3RJO_A 1Z5H_A 3Q7J_A 1Z1W_A 3SE6_B.

>PF08771 Rapamycin_bind: Rapamycin binding domain; InterPro: IPR009076 Rapamycin and FK506 are potent immunosuppressive agents that bind to the FK506-binding protein (FKBP12), inhibiting its peptidyl-prolyl isomerase activity

Probab=81.73  E-value=2.8  Score=24.73  Aligned_cols=51  Identities=14%  Similarity=0.191  Sum_probs=19.2

Q ss_pred             HHhcCCHHHHHHHHHHhhhCC-CCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Q 045403           40 YCRTGDMESVIHVMRKLDELA-ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMH   92 (144)
Q Consensus        40 ~~~~~~~~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~   92 (144)
                      |...++.+...+++..+-+.- -+|....=.+.+..|++  ++.+|...+++..
T Consensus        24 y~~~~n~~~m~~~L~pLh~~l~k~PeT~~E~~F~~~fg~--~L~~A~~~~~~y~   75 (100)
T PF08771_consen   24 YFGENNVEKMFKILEPLHEMLEKGPETLREVSFAQAFGR--DLQEAREWLKRYE   75 (100)
T ss_dssp             HHTTT-HHHHHHHHHHHHHHHHHS-SSHHHHHHHHHHHH--HHHHHHHHHHHHH
T ss_pred             HHhhcCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--HHHHHHHHHHHHh
Confidence            334444444444443332210 02333333344444432  3444444444443

The rapamycin-FKBP12 complex can then bind to and inhibit the FKBP12-rapamycin-associated protein (FRAP) in humans and RAFT1 in rats, causing cell-cycle arrest []. The FK506-FKBP12 complex cannot bind FRAP, but can bind to and inhibit calcineurin. Rapamycin is able to bind to two proteins, FKBP12 and FRAP, by simultaneously occupying two hydrophobic binding pockets, thereby linking these two proteins together to form a dimer []. The structure of the FKBP12-rapamycin-binding domain of FRAP consists of a core bundle of four helices arranged up-and-down in a left-handed twist. FRAP has been shown to interact in vitro with CLIP-170, a protein involved in microtubule organisation and function []. FRAP is thought to act as a kinase to phosphorylate CLIP-170, thereby regulating its binding to microtubules. FRAP is also thought to cooperate with p85/p110 phosphatidylinositol 3-kinase (PI3K) to induce the activation of the serine/threonine kinase p70 S6 kinase (p70S6K), which in turn phosphorylates the 40S ribosomal protein S6, thereby altering the translation of ribosomal proteins and translation elongation factors [].; GO: 0016772 transferase activity, transferring phosphorus-containing groups; PDB: 2NPU_A 2RSE_B 4FAP_B 1AUE_A 2GAQ_A 1FAP_B 2FAP_B 3FAP_B 1NSG_B.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=81.41  E-value=3.4  Score=17.99  Aligned_cols=22  Identities=18%  Similarity=0.105  Sum_probs=13.3

Q ss_pred             HHHHHHhCcHHHHHHHHHHHHH
Q 045403           72 IKYFRKEKMYMLAYRTMVDMHK   93 (144)
Q Consensus        72 i~~~~~~g~~~~a~~~~~~m~~   93 (144)
                      -.++.+.|+.++|...|+++.+
T Consensus         7 a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    7 ARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHH
Confidence            3445556666666666666654

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=81.36  E-value=12  Score=24.18  Aligned_cols=52  Identities=19%  Similarity=0.204  Sum_probs=32.5

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCCHHHHH-HHHHHHHhcCCHHHHHHHHHHhhhC
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYDVVLLN-SMLCAYCRTGDMESVIHVMRKLDEL   59 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~-~li~~~~~~~~~~~a~~~~~~m~~~   59 (144)
                      .+.++.+++..+++.+.-.  .|...... .--..+..+|++.+|..+|+++.+.
T Consensus        21 l~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            4566778888888877764  33322222 2223346777888888888887664

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=81.23  E-value=14  Score=24.87  Aligned_cols=73  Identities=22%  Similarity=0.206  Sum_probs=56.3

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC---CCCCCHHHHHHHHHHHHHhCcHHHHH
Q 045403           12 EEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL---AISPDYNTFHILIKYFRKEKMYMLAY   85 (144)
Q Consensus        12 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~p~~~~~~~li~~~~~~g~~~~a~   85 (144)
                      +.|.+.|-++...+.--++..--.+-..|. ..+.+++..++.+..+.   +-.+|+..+.+|...+.+.|+.+.|.
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            567888888887766656666666655555 56789999999887643   33689999999999999999998875

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=81.15  E-value=24  Score=27.55  Aligned_cols=121  Identities=18%  Similarity=0.082  Sum_probs=77.5

Q ss_pred             hhccCCHHHHHHHHHHHHh-------cCCCCCHHHHHHHHHHHHhcC-----CHHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEA-------KYDKYDVVLLNSMLCAYCRTG-----DMESVIHVMRKLDELAISPDYNTFHILI   72 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~-------~~~~p~~~~~~~li~~~~~~~-----~~~~a~~~~~~m~~~g~~p~~~~~~~li   72 (144)
                      ++...+.+.|+..|+..-+       .|   +....+-+-.+|.+..     +.+.|..+|..-.+.|. |+.-..-..+
T Consensus       259 ~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~  334 (552)
T KOG1550|consen  259 YGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELGN-PDAQYLLGVL  334 (552)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHhcCC-chHHHHHHHH
Confidence            5677899999999998866       44   2334556666666643     66779999988888777 6666555555


Q ss_pred             HHHHH-hCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh--ccCChHHHHHHHHHhhhcC
Q 045403           73 KYFRK-EKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLG--KMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        73 ~~~~~-~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~--~~g~~~~a~~l~~~m~~~~  130 (144)
                      .-.+. ..+...|.++|..-.+.|.. +..-+-+++....  -..+...|..++.+.-+..
T Consensus       335 ~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g  394 (552)
T KOG1550|consen  335 YETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGLGVERNLELAFAYYKKAAEKG  394 (552)
T ss_pred             HHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc
Confidence            44444 34677888888888877742 2222222222222  3446777777777765543

>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]

Probab=80.66  E-value=7  Score=23.10  Aligned_cols=61  Identities=7%  Similarity=-0.086  Sum_probs=32.9

Q ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC--ChHHHHHHHHHhhhcC
Q 045403           68 FHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMR--AHSEALCLQHVKDIAK  130 (144)
Q Consensus        68 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~l~~~m~~~~  130 (144)
                      ...++..|...|+.++|...+.++...  .-.......++......+  .-+....++..+...+
T Consensus         5 i~~~l~ey~~~~d~~ea~~~l~el~~~--~~~~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~~   67 (113)
T PF02847_consen    5 IFSILMEYFSSGDVDEAVECLKELKLP--SQHHEVVKVILECALEEKKSYREYYSKLLSHLCKRK   67 (113)
T ss_dssp             HHHHHHHHHHHT-HHHHHHHHHHTT-G--GGHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhcCCCHHHHHHHHHHhCCC--ccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhcC
Confidence            345677888889999999988887422  112223333444444332  2334555666665433

It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....

>PF10475 DUF2450: Protein of unknown function N-terminal domain (DUF2450) ; InterPro: IPR019515 This entry represents Vacuolar protein sorting-associated protein 54, and is thought to be involved in retrograde transport from early and late endosomes to late Golgi found in eukaryotes, but its function is not known

Probab=80.37  E-value=18  Score=25.64  Aligned_cols=29  Identities=17%  Similarity=0.253  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 045403           30 VVLLNSMLCAYCRTGDMESVIHVMRKLDE   58 (144)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (144)
                      +..-...|..+...|++..|.+++.+..+
T Consensus       127 v~~~~~~l~~ll~~~dy~~Al~li~~~~~  155 (291)
T PF10475_consen  127 VQQTQSRLQELLEEGDYPGALDLIEECQQ  155 (291)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            34444556666667777777777766654

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=80.32  E-value=4  Score=18.06  Aligned_cols=23  Identities=17%  Similarity=0.010  Sum_probs=10.0

Q ss_pred             HHHHHHHHHhCcHHHHHHHHHHH
Q 045403           69 HILIKYFRKEKMYMLAYRTMVDM   91 (144)
Q Consensus        69 ~~li~~~~~~g~~~~a~~~~~~m   91 (144)
                      ..+-..|...|+.++|...|++.
T Consensus         5 ~~lg~~y~~~~~~~~A~~~~~~a   27 (34)
T PF13181_consen    5 YNLGKIYEQLGDYEEALEYFEKA   27 (34)
T ss_dssp             HHHHHHHHHTTSHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHH
Confidence            33344444444444444444443

...

>PRK11639 zinc uptake transcriptional repressor; Provisional

Probab=80.16  E-value=13  Score=24.03  Aligned_cols=61  Identities=8%  Similarity=-0.011  Sum_probs=45.9

Q ss_pred             HHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403           21 FEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus        21 m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      +++.|+.++.. =-.++..+...+..-.|.+|++.+.+.+..++..|.--.|+.+.+.|-+.
T Consensus        17 L~~~GlR~T~q-R~~IL~~l~~~~~hlSa~eI~~~L~~~~~~is~aTVYRtL~~L~e~Glv~   77 (169)
T PRK11639         17 CAQRNVRLTPQ-RLEVLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFVH   77 (169)
T ss_pred             HHHcCCCCCHH-HHHHHHHHHhcCCCCCHHHHHHHHHhhCCCCCcchHHHHHHHHHHCCCEE
Confidence            55667764443 34666666666777789999999999988888888888888888888543

---

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	144
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-08

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 51.0 bits (120), Expect = 2e-08
 Identities = 14/127 (11%), Positives = 47/127 (37%), Gaps = 4/127 (3%)

Query: 1   MISAFCRGGCFEEAKQLARDFEAKYDK---YDVVLLNSMLCAYCRTGDMESVIHVMRKLD 57
                        A  L      +  K     + + N+++  + R G  + +++V+  + 
Sbjct: 133 FFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVK 192

Query: 58  ELAISPDYNTFHILIK-YFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAH 116
           +  ++PD  ++   ++   R+++      R +  M ++G + +    + L+    +    
Sbjct: 193 DAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVL 252

Query: 117 SEALCLQ 123
                ++
Sbjct: 253 KAVHKVK 259

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	144
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.94
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.9
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.62
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.62
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.41
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.35
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.28
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.26
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.25
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.24
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.22
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.22
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.21
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.21
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.2
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.19
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.19
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.19
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.18
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.18
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.17
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.13
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.1
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.09
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.09
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.09
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.08
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.08
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.08
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.07
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.06
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.06
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.06
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.06
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.06
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.05
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.05
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.04
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.02
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.99
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.98
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.95
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.92
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.91
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.91
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.91
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	98.9
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.89
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.89
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.89
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.89
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.89
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.88
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.87
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.87
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.86
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.86
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.86
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.86
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	98.86
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.85
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.84
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.83
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.83
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.83
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.82
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.81
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.8
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.8
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.79
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.78
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.78
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.77
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.75
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.74
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.74
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.73
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.71
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.71
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	98.7
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.7
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.7
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.7
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.69
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.68
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.67
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.67
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.66
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.65
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.64
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.63
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.62
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.62
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.61
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.6
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.6
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	98.6
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.6
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.6
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.59
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.59
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.59
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.59
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.59
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.58
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.55
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.55
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.54
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.53
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.52
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.5
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.49
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.48
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.48
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.48
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.48
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.47
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.47
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.46
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.46
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.45
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.44
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.42
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.42
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.42
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.41
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.4
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.4
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.38
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.37
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.36
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.36
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.36
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.35
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.35
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.35
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.32
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.3
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.29
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.28
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.28
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.27
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.25
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.25
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.24
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.24
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.24
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.24
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.24
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.23
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.22
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.21
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.21
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.21
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.19
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.19
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	98.17
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.17
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.13
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.1
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.09
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.08
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	98.06
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.06
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.04
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.01
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.01
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.98
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.93
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.91
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.88
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.83
4g1t_A	472	Interferon-induced protein with tetratricopeptide	97.83
4g1t_A	472	Interferon-induced protein with tetratricopeptide	97.81
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.8
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.79
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.79
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.78
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.78
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.74
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.74
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.72
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.69
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.69
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.68
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	97.65
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.65
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.64
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.61
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	97.51
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.47
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.47
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.46
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.44
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.43
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.42
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	97.42
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.36
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.35
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.33
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.3
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	97.25
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	97.21
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.13
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.06
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.0
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	96.99
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	96.9
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	96.86
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.7
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	96.47
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	96.44
1klx_A	138	Cysteine rich protein B; structural genomics, heli	96.36
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	96.29
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	96.23
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	96.23
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.1
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.07
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	95.8
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.79
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.76
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.68
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.58
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	95.54
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.17
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.03
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	94.72
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	94.6
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.56
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	94.14
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	93.86
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.65
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	92.95
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	92.39
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	91.59
2p58_C	116	Putative type III secretion protein YSCG; type III	91.21
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	91.13
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	90.92
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	90.48
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	89.93
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	88.89
2p58_C	116	Putative type III secretion protein YSCG; type III	88.52
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	88.3
2nsz_A	129	Programmed cell death protein 4; PDCD4, tumor supp	88.28
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	87.7
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	87.6
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	87.57
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	87.16
2ion_A	152	PDCD4, programmed cell death 4, PDCD4; alpha-helic	86.02
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	85.41
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	84.72
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	84.47
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	84.39
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	84.27
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	81.39
2npu_A	126	FKBP12-rapamycin complex-associated protein; four-	80.77

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=9.5e-33  Score=203.51  Aligned_cols=139  Identities=12%  Similarity=0.059  Sum_probs=102.9

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC---------HHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGD---------MESVIHVMRKLDELAISPDYNTFHILI   72 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~---------~~~a~~~~~~m~~~g~~p~~~~~~~li   72 (144)
                      |++|+|.|++++|.++|++|.+.|+.||..|||+||.+|++.+.         +++|.++|++|.+.|+.||..||+++|
T Consensus        33 id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI  112 (501)
T 4g26_A           33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGA  112 (501)
T ss_dssp             HHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHHHHHH
Confidence            67888888888888888888888888888888777777776543         567777777777777777777777777


Q ss_pred             HHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCCCcHHHHHHh
Q 045403           73 KYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFMRKF  141 (144)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~~~~~~~~  141 (144)
                      .+|++.|++++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.+ ....|...+|..
T Consensus       113 ~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~-~G~~Pd~~ty~~  180 (501)
T 4g26_A          113 RLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVE-SEVVPEEPELAA  180 (501)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-TTCCCCHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHh-cCCCCCHHHHHH
Confidence            77777777777777777777777777777777777777777777777777777765 333444444443

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=2e-31  Score=196.44  Aligned_cols=134  Identities=9%  Similarity=0.047  Sum_probs=126.0

Q ss_pred             ChhhhhccCC---------HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHH
Q 045403            1 MISAFCRGGC---------FEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHIL   71 (144)
Q Consensus         1 ll~~~~~~g~---------~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l   71 (144)
                      ||.+|++.+.         +++|.++|++|...|+.||..|||++|++|++.|++++|.++|++|.+.|+.||..||+++
T Consensus        67 Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~l  146 (501)
T 4g26_A           67 LLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPA  146 (501)
T ss_dssp             HHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHH
Confidence            4677776554         7899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCCCc
Q 045403           72 IKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCA  134 (144)
Q Consensus        72 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~  134 (144)
                      |.+|++.|++++|.++|++|.+.|+.||..||++||++|++.|++++|.+++++|++....++
T Consensus       147 I~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps  209 (501)
T 4g26_A          147 LFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVS  209 (501)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcC
Confidence            999999999999999999999999999999999999999999999999999999997544433

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.94  E-value=3.7e-27  Score=181.85  Aligned_cols=114  Identities=11%  Similarity=0.204  Sum_probs=106.2

Q ss_pred             ChhhhhccCCHHHHHHHHHHHH---hcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH
Q 045403            1 MISAFCRGGCFEEAKQLARDFE---AKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK   77 (144)
Q Consensus         1 ll~~~~~~g~~~~a~~~~~~m~---~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~   77 (144)
                      ||++||+.|++++|.++|++|.   ..|..||++|||+||++|++.|++++|.++|++|.+.|+.||.+|||++|+++++
T Consensus       133 LIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI~glcK  212 (1134)
T 3spa_A          133 FFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGR  212 (1134)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHh
Confidence            5899999999999999998876   4589999999999999999999999999999999999999999999999999999


Q ss_pred             hCc-HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC
Q 045403           78 EKM-YMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMR  114 (144)
Q Consensus        78 ~g~-~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g  114 (144)
                      .|+ .++|.++|++|.+.|+.||..+|++++.+..+.+
T Consensus       213 ~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~  250 (1134)
T 3spa_A          213 QDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT  250 (1134)
T ss_dssp             HTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHH
Confidence            998 5789999999999999999999999987666543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.90  E-value=5.9e-23  Score=158.76  Aligned_cols=111  Identities=5%  Similarity=0.023  Sum_probs=100.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhh---hCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLD---ELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSS  105 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~---~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  105 (144)
                      -..|||++|++|++.|++++|.++|.+|.   +.|+.||.+|||+||++|++.|++++|.++|++|.+.|+.||..||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            45799999999999999999999998876   458999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccCCh-HHHHHHHHHhhhcCCCCcHHHHHH
Q 045403          106 LIFHLGKMRAH-SEALCLQHVKDIAKDRCAMPFMRK  140 (144)
Q Consensus       106 l~~~~~~~g~~-~~a~~l~~~m~~~~~~~~~~~~~~  140 (144)
                      +|.++++.|+. ++|.++|++|.+ +...|...+|+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~-kG~~PD~vtY~  240 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQ-EGLKLQALFTA  240 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHH-HTCCSHHHHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHH-cCCCCChhhcc
Confidence            99999999985 789999999986 44556666655

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.62  E-value=2.6e-14  Score=106.17  Aligned_cols=26  Identities=8%  Similarity=0.138  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHh
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKL   56 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m   56 (144)
                      .+|+.++.+|.+.|++++|.++|+++
T Consensus       408 ~~~~~l~~~~~~~g~~~~A~~~~~~~  433 (597)
T 2xpi_A          408 PAWIGFAHSFAIEGEHDQAISAYTTA  433 (597)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33334444444444444444444333

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.62  E-value=4.5e-14  Score=104.84  Aligned_cols=124  Identities=9%  Similarity=-0.063  Sum_probs=68.3

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      .+|.+.|++++|.++|+++.+.+. .+..+|+.++.+|.+.|++++|.++|+++.+... .+..+|+.+...|.+.|+++
T Consensus       415 ~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~  492 (597)
T 2xpi_A          415 HSFAIEGEHDQAISAYTTAARLFQ-GTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQ-YDPLLLNELGVVAFNKSDMQ  492 (597)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHTTT-TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhCCHH
Confidence            445555666666666666554432 2555555555555555555556555555554322 34555555555555555555


Q ss_pred             HHHHHHHHHHHC----CCCCC--HHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           83 LAYRTMVDMHKK----GHQPE--EELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        83 ~a~~~~~~m~~~----~~~~~--~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      +|.++|+++.+.    +..|+  ..+|..+..+|.+.|++++|.++++++.+
T Consensus       493 ~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  544 (597)
T 2xpi_A          493 TAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLL  544 (597)
T ss_dssp             HHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            555555555443    44454  45555555555555555555555555543

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.41  E-value=5.1e-11  Score=71.41  Aligned_cols=124  Identities=17%  Similarity=0.077  Sum_probs=107.2

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|.++++++.+.... +...+..+...+...|++++|..+++++.+.+. .+...+..+...+...|+++
T Consensus         9 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~   86 (136)
T 2fo7_A            9 NAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYD   86 (136)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHcCcHHHHHHHHHHHHHcCCc-chhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCC-CchHHHHHHHHHHHHhcCHH
Confidence            4677889999999999999876543 778899999999999999999999999987543 56778999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +|..+++++.+.. +.+...+..+..++.+.|++++|.+.++++...
T Consensus        87 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           87 EAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            9999999998753 346778888999999999999999999987653

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.35  E-value=8.9e-11  Score=83.08  Aligned_cols=124  Identities=13%  Similarity=-0.034  Sum_probs=93.1

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      .++.+.|++++|.+.|+++.+..+. +..+|+.+..++.+.|++++|...|+++.+.. +.+..++..+...+...|+++
T Consensus       245 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  322 (388)
T 1w3b_A          245 CVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIE  322 (388)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHH
Confidence            4566778888888888887765433 56678888888888888888888888877652 356777888888888888888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +|...++++.+.. +.+..++..+..+|.+.|++++|.+.++++.+.
T Consensus       323 ~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          323 EAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            8888888887542 335667788888888888888888888877653

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.28  E-value=6e-10  Score=78.80  Aligned_cols=122  Identities=13%  Similarity=0.057  Sum_probs=95.5

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      +.+.|++++|...|++.....+. +..+++.+..++.+.|++++|...|+++.+.+. .+..+|..+...+.+.|++++|
T Consensus       213 ~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A  290 (388)
T 1w3b_A          213 LKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEKGSVAEA  290 (388)
T ss_dssp             HHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHHSCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHH
Confidence            44556666666666655554322 577888889999999999999999999887532 3567888999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           85 YRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        85 ~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ...++++.+.. +.+..++..+...+.+.|++++|.+.++++.+.
T Consensus       291 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  334 (388)
T 1w3b_A          291 EDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV  334 (388)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            99999988653 457788889999999999999999999988754

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.26  E-value=7.6e-10  Score=73.67  Aligned_cols=123  Identities=13%  Similarity=-0.039  Sum_probs=70.3

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~   82 (144)
                      ++.+.|++++|.+.|++..+.... +...+..+...+...|++++|..++++..+.+..| +...+..+...+...|+++
T Consensus        80 ~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  158 (252)
T 2ho1_A           80 VFQTEMEPKLADEEYRKALASDSR-NARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPA  158 (252)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHH
Confidence            445566666666666665554322 45556666666666666666666666665532333 3445555556666666666


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      +|...+++..+.. +.+...+..+...+.+.|++++|...+++...
T Consensus       159 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  203 (252)
T 2ho1_A          159 QAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYYDLFAQ  203 (252)
T ss_dssp             HHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6666666655432 22345555566666666666666666666543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.25  E-value=1.6e-09  Score=70.49  Aligned_cols=121  Identities=8%  Similarity=-0.098  Sum_probs=57.5

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHh-CcHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKE-KMYML   83 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~-g~~~~   83 (144)
                      +.+.|++++|.+.|++..+.... +...|..+...+...|++++|...+++..+.. +.+..++..+...+... |++++
T Consensus        18 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~~   95 (225)
T 2vq2_A           18 YMRGQDYRQATASIEDALKSDPK-NELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCGRLNRPAE   95 (225)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCCHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCcHHH
Confidence            44455555555555555443222 34445555555555555555555555544331 12344455555555555 55555


Q ss_pred             HHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           84 AYRTMVDMHKKGHQPE-EELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      |...+++..+.+..|+ ...+..+..++.+.|++++|.+.+++..
T Consensus        96 A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  140 (225)
T 2vq2_A           96 SMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSL  140 (225)
T ss_dssp             HHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5555555544211222 3344444455555555555555555443

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.24  E-value=1.1e-09  Score=69.15  Aligned_cols=120  Identities=14%  Similarity=0.137  Sum_probs=58.8

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      +.+.|++++|.+.+++..+... .+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|
T Consensus        52 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A  129 (186)
T 3as5_A           52 YVKTGAVDRGTELLERSLADAP-DNVKVATVLGLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEA  129 (186)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHH
Confidence            3445555555555555444322 244445555555555555555555555544431 13444455555555555555555


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           85 YRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        85 ~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      ...+++..+.. +.+...+..+...+.+.|++++|.+.+++..
T Consensus       130 ~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  171 (186)
T 3as5_A          130 IDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHFKKAN  171 (186)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            55555554332 2234445555555555555555555555443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.22  E-value=1.9e-09  Score=70.13  Aligned_cols=125  Identities=10%  Similarity=-0.106  Sum_probs=94.6

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHhhhCCCCCC-HHHHHHHHHHHHHhCc
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRT-GDMESVIHVMRKLDELAISPD-YNTFHILIKYFRKEKM   80 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~   80 (144)
                      .++.+.|++++|.+.+++..+.... +..++..+...+... |++++|...+++..+.+..|+ ...+..+..++...|+
T Consensus        50 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  128 (225)
T 2vq2_A           50 EIYQYLKVNDKAQESFRQALSIKPD-SAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQ  128 (225)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcCChHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCC
Confidence            3566788888888888888765433 677788888888888 888888888888877333333 5677788888888888


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           81 YMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +++|...+++..+.. +.+...+..+..++.+.|++++|.+++++....
T Consensus       129 ~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  176 (225)
T 2vq2_A          129 FGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDADYYFKKYQSR  176 (225)
T ss_dssp             HHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            888888888887643 234667778888888888888888888886653

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.22  E-value=1.4e-09  Score=68.54  Aligned_cols=125  Identities=14%  Similarity=0.135  Sum_probs=107.8

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|.+.+++..+... .+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|+++
T Consensus        16 ~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~   93 (186)
T 3as5_A           16 ISHAKAGRYSQAVMLLEQVYDADA-FDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQKYD   93 (186)
T ss_dssp             HHHHHHTCHHHHHHHHTTTCCTTS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhCc-cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHH
Confidence            356788999999999999876543 378889999999999999999999999988753 356788999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      +|...+++..+.. +.+...+..+..++.+.|++++|.+.+++.....
T Consensus        94 ~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~  140 (186)
T 3as5_A           94 LAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR  140 (186)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC
Confidence            9999999998653 4567788889999999999999999999977644

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.21  E-value=2.9e-09  Score=70.79  Aligned_cols=126  Identities=10%  Similarity=-0.067  Sum_probs=108.0

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKY-DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMY   81 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~   81 (144)
                      ..+.+.|++++|.+.|++..+.+..| +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++
T Consensus       113 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~  191 (252)
T 2ho1_A          113 GFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREY  191 (252)
T ss_dssp             HHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCH
Confidence            46778999999999999998733334 66788999999999999999999999988753 24678899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403           82 MLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        82 ~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      ++|...+++..+.. +.+...+..+...+.+.|+.++|.+.++++.+..
T Consensus       192 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          192 VPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            99999999998653 3567788889999999999999999999987643

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.21  E-value=2e-09  Score=71.01  Aligned_cols=121  Identities=12%  Similarity=-0.030  Sum_probs=60.1

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      ++.+.|++++|.+.|++..+.... +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++
T Consensus        66 ~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~  143 (243)
T 2q7f_A           66 LLSSVNELERALAFYDKALELDSS-AATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKL  143 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCc-chHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHH
Confidence            344455555555555555443222 44555555555555555555555555554432 1234445555555555555555


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      |...+++..+.. +.+...+..+...+.+.|++++|.+.+++..
T Consensus       144 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  186 (243)
T 2q7f_A          144 ALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQFAAVT  186 (243)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            555555554321 1234444445555555555555555555544

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.20  E-value=1.4e-09  Score=77.98  Aligned_cols=122  Identities=12%  Similarity=0.011  Sum_probs=74.6

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|.++|+++.+..+ .+..+|..+..++...|++++|...|+++.+.+. .+..++..+..+|...|+++
T Consensus        34 ~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~  111 (450)
T 2y4t_A           34 KKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKM-DFTAARLQRGHLLLKQGKLD  111 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHH
Confidence            345667777777777777665432 3566777777777777777777777777665432 34566666777777777777


Q ss_pred             HHHHHHHHHHHCCCCCCH----HHHHHHH------------HHHhccCChHHHHHHHHHhhh
Q 045403           83 LAYRTMVDMHKKGHQPEE----ELCSSLI------------FHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~----~~~~~l~------------~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      +|...|+++.+.  .|+.    ..+..+.            ..+.+.|++++|..+++++..
T Consensus       112 ~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~  171 (450)
T 2y4t_A          112 EAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILE  171 (450)
T ss_dssp             HHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            777777766643  2332    3333332            225556666666666665544

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.19  E-value=1.1e-09  Score=78.48  Aligned_cols=123  Identities=11%  Similarity=-0.074  Sum_probs=86.2

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCH----HHHHHHH------
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDY----NTFHILI------   72 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~li------   72 (144)
                      .++.+.|++++|.+.|+++.+.++. +...+..+..++.+.|++++|...|+++.+.  .|+.    .++..+.      
T Consensus        68 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~  144 (450)
T 2y4t_A           68 TVFLAMGKSKAALPDLTKVIQLKMD-FTAARLQRGHLLLKQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEMQ  144 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHHH
Confidence            4567778888888888888776443 5777888888888888888888888887764  3433    4444443      


Q ss_pred             ------HHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           73 ------KYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        73 ------~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                            ..+...|++++|...++++.+.. +.+...+..+..+|.+.|++++|.++++++...
T Consensus       145 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  206 (450)
T 2y4t_A          145 RLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKL  206 (450)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence                  33777777888877777776542 335666777777777777777777777776543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.19  E-value=1.8e-09  Score=71.10  Aligned_cols=118  Identities=10%  Similarity=0.007  Sum_probs=52.6

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHh------
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKE------   78 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~------   78 (144)
                      +.+.|++++|...|++..+..+. +...|..+-..+.+.|++++|...|++..+... -+...+..+-..+...      
T Consensus        15 ~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~~~~~~~   92 (217)
T 2pl2_A           15 LYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVARTP-RYLGGYMVLSEAYVALYRQAED   92 (217)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHTCSS
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhhhhhhh
Confidence            34455555555555555443222 444444555555555555555555554443211 2333444444444444      


Q ss_pred             -----CcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 045403           79 -----KMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHV  125 (144)
Q Consensus        79 -----g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~  125 (144)
                           |++++|...+++..+.. +-+...+..+-.++.+.|++++|...+++
T Consensus        93 ~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~  143 (217)
T 2pl2_A           93 RERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQ  143 (217)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence                 44444444444444321 11233344444444444444444444444

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.19  E-value=3e-09  Score=70.14  Aligned_cols=125  Identities=10%  Similarity=0.010  Sum_probs=108.7

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|.+.+++..+.... +...+..+...+...|++++|...+++..+... .+...+..+...+...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAGME-NGDLFYMLGTVLVKLEQPKLALPYLQRAVELNE-NDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHTCC-SHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHcCCHH
Confidence            4677899999999999999876543 778899999999999999999999999887532 46788999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      +|...+++..+.. +.+..++..+..+|.+.|++++|.+.+++..+..
T Consensus       177 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          177 EALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            9999999998653 3467789999999999999999999999987643

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.18  E-value=6.3e-09  Score=66.24  Aligned_cols=120  Identities=14%  Similarity=0.030  Sum_probs=66.2

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      +|.+.|++++|++.|++..+..+. +...|..+..++.+.|++++|...+........ -+...+..+...+...++++.
T Consensus        14 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~   91 (184)
T 3vtx_A           14 KKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT-TSAEAYYILGSANFMIDEKQA   91 (184)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-hhHHHHHHHHHHHHHcCCHHH
Confidence            456678888888888887766444 667777777777788888777777777654422 233334444444444444444


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHh
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVK  126 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m  126 (144)
                      +...+.+..+.. +.+...+..+-.+|.+.|++++|.+.+++.
T Consensus        92 a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~  133 (184)
T 3vtx_A           92 AIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKT  133 (184)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHH
Confidence            444444443321 122333334444444444444444444443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.18  E-value=1.3e-09  Score=75.02  Aligned_cols=96  Identities=9%  Similarity=0.007  Sum_probs=42.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHH---HHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTF---HILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSS  105 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~---~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  105 (144)
                      +...+..+...+.+.|++++|...|+++.+..  |+....   ...+..+...|++++|..+|+++.+. .+.+...++.
T Consensus       129 ~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~  205 (291)
T 3mkr_A          129 SLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNG  205 (291)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHH
Confidence            44444444444555555555555555544431  322111   01111122224455555555555433 1234444555


Q ss_pred             HHHHHhccCChHHHHHHHHHhh
Q 045403          106 LIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus       106 l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      +..++.+.|++++|...+++..
T Consensus       206 la~~~~~~g~~~eA~~~l~~al  227 (291)
T 3mkr_A          206 QAACHMAQGRWEAAEGVLQEAL  227 (291)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Confidence            5555555555555555555544

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.17  E-value=1.4e-09  Score=76.33  Aligned_cols=125  Identities=12%  Similarity=0.011  Sum_probs=106.4

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDK-YDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMY   81 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~   81 (144)
                      ..+.+.|++++|.+.|+++.+..+. ++..+|..+...+...|++++|...|++..+.. +.+..+|..+..+|...|++
T Consensus       185 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  263 (365)
T 4eqf_A          185 KSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRS  263 (365)
T ss_dssp             ----CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            4677899999999999999886443 268899999999999999999999999998753 24688999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           82 MLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        82 ~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ++|...+++..+.. +.+..++..+..+|.+.|++++|...+++....
T Consensus       264 ~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  310 (365)
T 4eqf_A          264 EEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVSNFLTALSL  310 (365)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999999998753 335788999999999999999999999987654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.13  E-value=1.5e-08  Score=66.71  Aligned_cols=125  Identities=13%  Similarity=-0.034  Sum_probs=109.8

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc-----------CCHHHHHHHHHHhhhCCCCCCHHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRT-----------GDMESVIHVMRKLDELAISPDYNTFHIL   71 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-----------~~~~~a~~~~~~m~~~g~~p~~~~~~~l   71 (144)
                      .++.+.|++++|...|++..+..+. +...|..+-.++...           |++++|...|++..+... -+...|..+
T Consensus        47 ~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~l  124 (217)
T 2pl2_A           47 RTQLKLGLVNPALENGKTLVARTPR-YLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNP-RYAPLHLQR  124 (217)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCc-ccHHHHHHH
Confidence            3567899999999999999887544 778999999999999           999999999999987522 357789999


Q ss_pred             HHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           72 IKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        72 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      -..+...|++++|...+++..+..  .+...+..+..+|...|++++|...+++..+..+
T Consensus       125 g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P  182 (217)
T 2pl2_A          125 GLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQAP  182 (217)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            999999999999999999999876  7888999999999999999999999999876443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.10  E-value=4.7e-09  Score=73.57  Aligned_cols=64  Identities=14%  Similarity=-0.072  Sum_probs=32.8

Q ss_pred             CHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           64 DYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        64 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      +..++..+...+...|++++|...+++..+.. +.+..+|..+..+|.+.|++++|.+.+++...
T Consensus       212 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  275 (365)
T 4eqf_A          212 DPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALE  275 (365)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34455555555555555555555555554431 22344555555555555555555555555443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.09  E-value=8.9e-09  Score=69.05  Aligned_cols=125  Identities=10%  Similarity=-0.133  Sum_probs=92.9

Q ss_pred             hhccCCHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYD---KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMY   81 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~---~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~   81 (144)
                      ....|++++|.+.|+++.+...   +.+..+|..+...+...|++++|...|++..+... .+..+|..+...+...|++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHccCH
Confidence            3456788888888888876532   22467778888888888888888888888776532 3577888888888888888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           82 MLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        82 ~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      ++|...+++..+.. +.+...+..+..+|.+.|++++|.+.+++.....+
T Consensus        94 ~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  142 (275)
T 1xnf_A           94 DAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDP  142 (275)
T ss_dssp             HHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            88888888887642 23466777788888888888888888888765433

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.09  E-value=1.4e-08  Score=68.21  Aligned_cols=125  Identities=10%  Similarity=0.037  Sum_probs=101.3

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC--CHHHHHHHHHHHHHhCc
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP--DYNTFHILIKYFRKEKM   80 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p--~~~~~~~li~~~~~~g~   80 (144)
                      ..+.+.|++++|.+.|++..+..+. +...+..+..++...|++++|...+++..+.+-.|  ...+|..+...+...|+
T Consensus        11 ~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~   89 (272)
T 3u4t_A           11 DFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQ   89 (272)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHccc
Confidence            3567889999999999998876443 55688888889999999999999999988743222  23458889999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           81 YMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +++|...+++..+.. +.+...+..+..+|.+.|++++|.+.+++....
T Consensus        90 ~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  137 (272)
T 3u4t_A           90 DSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP  137 (272)
T ss_dssp             HHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS
T ss_pred             HHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc
Confidence            999999999998653 235578888999999999999999999987754

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.09  E-value=2.9e-08  Score=69.32  Aligned_cols=88  Identities=15%  Similarity=0.078  Sum_probs=51.8

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+.+.|++++|...|+++.+..+. +...|..+..++...|++++|...|++..+.. +.+..++..+...+...|++++
T Consensus        73 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~  150 (368)
T 1fch_A           73 RRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQ  150 (368)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            345566666666666666654332 55566666666666666666666666665542 1345556666666666666666


Q ss_pred             HHHHHHHHHH
Q 045403           84 AYRTMVDMHK   93 (144)
Q Consensus        84 a~~~~~~m~~   93 (144)
                      |...+++..+
T Consensus       151 A~~~~~~~~~  160 (368)
T 1fch_A          151 ACEILRDWLR  160 (368)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            6655555543

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.08  E-value=7.2e-09  Score=72.37  Aligned_cols=125  Identities=12%  Similarity=-0.024  Sum_probs=107.3

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKY-DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMY   81 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~   81 (144)
                      ..+.+.|++++|.+.|+++.+..+.. +..++..+...+...|++++|...|++..+.. +.+..++..+...+...|++
T Consensus       189 ~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~  267 (368)
T 1fch_A          189 GSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQS  267 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCH
Confidence            34457899999999999998864432 58899999999999999999999999988753 24678999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           82 MLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        82 ~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ++|...+++..+.. +.+...+..+..+|.+.|++++|...+++....
T Consensus       268 ~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          268 EEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999999998753 346778999999999999999999999987654

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.08  E-value=3.3e-08  Score=65.05  Aligned_cols=124  Identities=7%  Similarity=-0.151  Sum_probs=104.7

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+.+.|++++|.+.|++..+...+++...+..+..++...|++++|...|++..+... -+..+|..+...+...|++++
T Consensus        16 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~   94 (228)
T 4i17_A           16 DALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNY-NLANAYIGKSAAYRDMKNNQE   94 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC-SHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCc-chHHHHHHHHHHHHHcccHHH
Confidence            5678899999999999999876657888888899999999999999999999887532 356678999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCH-------HHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           84 AYRTMVDMHKKGHQPEE-------ELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~-------~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      |...+++..+.. +.+.       ..|..+-..+.+.|++++|.+.+++..+.
T Consensus        95 A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  146 (228)
T 4i17_A           95 YIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV  146 (228)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc
Confidence            999999998753 2234       45777888889999999999999998753

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.08  E-value=4e-09  Score=69.95  Aligned_cols=86  Identities=17%  Similarity=0.157  Sum_probs=39.0

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCC--CCCC----HHHHHHHHHHHHHh
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA--ISPD----YNTFHILIKYFRKE   78 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~p~----~~~~~~li~~~~~~   78 (144)
                      +.+.|++++|.+.|++..+..  .+...|..+..++...|++++|...+++..+..  ..|+    ..++..+...+...
T Consensus        15 ~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~   92 (258)
T 3uq3_A           15 FYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKL   92 (258)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHc
Confidence            334455555555555544443  344444444455555555555555544444321  1111    23444444444444


Q ss_pred             CcHHHHHHHHHHHH
Q 045403           79 KMYMLAYRTMVDMH   92 (144)
Q Consensus        79 g~~~~a~~~~~~m~   92 (144)
                      |++++|...+++..
T Consensus        93 ~~~~~A~~~~~~a~  106 (258)
T 3uq3_A           93 GDLKKTIEYYQKSL  106 (258)
T ss_dssp             TCHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHH
Confidence            44444444444444

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.07  E-value=1.5e-08  Score=69.77  Aligned_cols=129  Identities=9%  Similarity=0.050  Sum_probs=102.3

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHH---HHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHh
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLL---NSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKE   78 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~---~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~   78 (144)
                      ...+.+.|++++|.+.|+.+.+..  |+....   ...+..+...|++++|..+|+++.+. .+.+...++.+..++.+.
T Consensus       137 ~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~  213 (291)
T 3mkr_A          137 VQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQ  213 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHc
Confidence            356788999999999999998864  443222   22334455568999999999999886 446888999999999999


Q ss_pred             CcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHH-HHHHHHHhhhcCCCCc
Q 045403           79 KMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSE-ALCLQHVKDIAKDRCA  134 (144)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~l~~~m~~~~~~~~  134 (144)
                      |++++|...+++..+.. +-+..++..+...+...|+.++ +.++++++.+..+..+
T Consensus       214 g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~  269 (291)
T 3mkr_A          214 GRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHP  269 (291)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCCh
Confidence            99999999999988653 3467789999999999999976 6789988876544443

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.06  E-value=9.5e-09  Score=70.50  Aligned_cols=121  Identities=12%  Similarity=-0.019  Sum_probs=59.7

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCC--------CCCCHHHHHHHHHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA--------ISPDYNTFHILIKYFR   76 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g--------~~p~~~~~~~li~~~~   76 (144)
                      +.+.|++++|.+.+++..+..+. +...+..+...+...|++++|...+++..+..        .+.+..++..+...+.
T Consensus       169 ~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~  247 (330)
T 3hym_B          169 YGLTNNSKLAERFFSQALSIAPE-DPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCR  247 (330)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHH
Confidence            44455555555555555443222 44555555555555555555555555544321        0122345555555555


Q ss_pred             HhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           77 KEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      ..|++++|...+++..+.. +.+...+..+..++.+.|++++|.+.+++..
T Consensus       248 ~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  297 (330)
T 3hym_B          248 KLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTAL  297 (330)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTT
T ss_pred             HhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            5555555555555554432 1233445555555555555555555555544

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.06  E-value=1.7e-08  Score=77.65  Aligned_cols=124  Identities=12%  Similarity=0.048  Sum_probs=104.5

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMY   81 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~   81 (144)
                      .++.+.|++++|++.|++..+..+. +...|+.+-.+|.+.|++++|...|++..+.  .| +..+|..+-.++...|++
T Consensus        17 ~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg~~l~~~g~~   93 (723)
T 4gyw_A           17 NIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNTLKEMQDV   93 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCH
Confidence            3577889999999999998876444 6788999999999999999999999998774  34 567899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403           82 MLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        82 ~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      ++|.+.|++..+.. .-+...|..+-.+|.+.|++++|.+.+++..+-.
T Consensus        94 ~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~  141 (723)
T 4gyw_A           94 QGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK  141 (723)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999988653 2357788999999999999999999999876543

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.06  E-value=1.3e-08  Score=69.82  Aligned_cols=123  Identities=14%  Similarity=0.001  Sum_probs=70.3

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      ++.+.|++++|.+.|++..+.... +...+..+...+...|++++|...+++..+.. +.+..++..+...+...|++++
T Consensus       134 ~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~  211 (330)
T 3hym_B          134 SFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKT  211 (330)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHH
Confidence            445556666666666665554322 34445556666666666666666666655432 2345566666666666666666


Q ss_pred             HHHHHHHHHHCC--------CCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           84 AYRTMVDMHKKG--------HQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        84 a~~~~~~m~~~~--------~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      |...+++..+..        ......++..+..++.+.|++++|.+.+++..+
T Consensus       212 A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  264 (330)
T 3hym_B          212 AEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALV  264 (330)
T ss_dssp             HHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            666666665321        022234566666666666666666666666554

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.06  E-value=1.7e-08  Score=67.69  Aligned_cols=124  Identities=10%  Similarity=-0.037  Sum_probs=101.2

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      .++.+.|++++|.+.|++..+..+. +...|..+...+...|++++|...|++..+... .+..++..+...+...|+++
T Consensus        51 ~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~g~~~  128 (275)
T 1xnf_A           51 VLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRGIALYYGGRDK  128 (275)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCc-cccHHHHHHHHHHHHhccHH
Confidence            4677889999999999999886444 788999999999999999999999999987532 35788999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      +|...+++..+.  .|+..........+...|++++|...+++.....
T Consensus       129 ~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~  174 (275)
T 1xnf_A          129 LAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  174 (275)
T ss_dssp             HHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            999999999874  3554444445555567799999999997765543

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.06  E-value=9.7e-09  Score=70.37  Aligned_cols=122  Identities=13%  Similarity=0.030  Sum_probs=107.2

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      +.+.|++++|.+.+++..+.... +...+..+...+...|++++|...+++..+.. +.+..++..+...+...|++++|
T Consensus       148 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  225 (327)
T 3cv0_A          148 FAAPNEYRECRTLLHAALEMNPN-DAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEA  225 (327)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHH
Confidence            77889999999999999887544 78899999999999999999999999998753 24678899999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           85 YRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        85 ~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ...+++..+.. +.+...+..+..+|.+.|++++|.+.+++....
T Consensus       226 ~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  269 (327)
T 3cv0_A          226 LDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYM  269 (327)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            99999998653 346778999999999999999999999987654

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.05  E-value=4.6e-08  Score=62.17  Aligned_cols=123  Identities=9%  Similarity=-0.060  Sum_probs=106.5

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      .+|.+.|++++|...++........ +...+..+...+...++++.+...+.+..+.. +-+...+..+-..+.+.|+++
T Consensus        47 ~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~  124 (184)
T 3vtx_A           47 KTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGSANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHD  124 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCch
Confidence            4677899999999999999876554 67788888899999999999999999987653 246788999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      +|...+++..+.. +.+...|..+-.+|.+.|++++|.+.|++..+
T Consensus       125 ~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  169 (184)
T 3vtx_A          125 KAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEAVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            9999999998753 34677899999999999999999999998765

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.05  E-value=8.8e-09  Score=68.28  Aligned_cols=124  Identities=18%  Similarity=0.130  Sum_probs=61.0

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCC--C----HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCC-----------------
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKY--D----VVLLNSMLCAYCRTGDMESVIHVMRKLDELA-----------------   60 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p--~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-----------------   60 (144)
                      ++.+.|++++|.+.+++..+.....  +    ..+|..+...+...|++++|...|++..+..                 
T Consensus        47 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~  126 (258)
T 3uq3_A           47 AEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELK  126 (258)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHH
Confidence            3445555555555555554432111  1    3555555555555555555555555554421                 


Q ss_pred             -------CCC-CHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           61 -------ISP-DYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        61 -------~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                             ..| +...+..+...+...|++++|...+++..+.. +.+...+..+..+|.+.|++++|.+.+++...
T Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  201 (258)
T 3uq3_A          127 KAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIE  201 (258)
T ss_dssp             HHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence                   111 22344445555555555555555555555432 22344555555555555555555555555443

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.04  E-value=6.8e-09  Score=71.14  Aligned_cols=122  Identities=9%  Similarity=0.023  Sum_probs=104.4

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|.+.+++..+..+. +..+|..+...+...|++++|...+++..+.. +.+..++..+...+...|+++
T Consensus       180 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~  257 (327)
T 3cv0_A          180 VLYNLSNNYDSAAANLRRAVELRPD-DAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYD  257 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHH
Confidence            4678899999999999999876433 68899999999999999999999999988753 246788999999999999999


Q ss_pred             HHHHHHHHHHHCCCCC-----------CHHHHHHHHHHHhccCChHHHHHHHHHh
Q 045403           83 LAYRTMVDMHKKGHQP-----------EEELCSSLIFHLGKMRAHSEALCLQHVK  126 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~-----------~~~~~~~l~~~~~~~g~~~~a~~l~~~m  126 (144)
                      +|...+++..+.....           +...+..+..++.+.|+.++|..++++.
T Consensus       258 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          258 LAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            9999999998643211           4678889999999999999999998754

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.02  E-value=5.9e-08  Score=62.95  Aligned_cols=122  Identities=10%  Similarity=0.017  Sum_probs=103.7

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+.+.|++++|.+.|++.    +.|+...|..+...+...|++++|...|++..+.. +.+...|..+..++...|++++
T Consensus        15 ~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~   89 (213)
T 1hh8_A           15 LAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDL   89 (213)
T ss_dssp             HHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHHH
Confidence            567889999999999877    36788999999999999999999999999988753 3567889999999999999999


Q ss_pred             HHHHHHHHHHCCC--------------CC-CHHHHHHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403           84 AYRTMVDMHKKGH--------------QP-EEELCSSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        84 a~~~~~~m~~~~~--------------~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      |...+++..+..-              .| ....+..+..+|.+.|++++|.+.+++.....
T Consensus        90 A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           90 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            9999999987431              11 22678888999999999999999999976543

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.99  E-value=5.3e-08  Score=60.47  Aligned_cols=123  Identities=12%  Similarity=0.030  Sum_probs=99.9

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|...|++..+.... +...+..+...+...|++++|...+++..+.. +.+..+|..+..++...|+++
T Consensus        21 ~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~   98 (166)
T 1a17_A           21 NDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFR   98 (166)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhccHH
Confidence            3567889999999999998876443 78889999999999999999999999988753 246788999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHH--HHHHHHhccCChHHHHHHHHHhhh
Q 045403           83 LAYRTMVDMHKKGHQPEEELCS--SLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~--~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      +|...+++..+.. +.+...+.  .....+.+.|++++|.+.++....
T Consensus        99 ~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           99 AALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            9999999998653 23444553  344447788999999999987643

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.98  E-value=5.3e-08  Score=67.31  Aligned_cols=88  Identities=9%  Similarity=-0.036  Sum_probs=53.8

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+.+.|++++|.+.|++..+..+. +...+..+...+...|++++|...+++..+.. +-+...+..+...+...|++++
T Consensus        12 ~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~   89 (359)
T 3ieg_A           12 KLLAAGQLADALSQFHAAVDGDPD-NYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLDE   89 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChHH
Confidence            455566667777776666654332 45666666666666666666666666665532 1244566666666666666666


Q ss_pred             HHHHHHHHHH
Q 045403           84 AYRTMVDMHK   93 (144)
Q Consensus        84 a~~~~~~m~~   93 (144)
                      |...+++..+
T Consensus        90 A~~~~~~~~~   99 (359)
T 3ieg_A           90 AEDDFKKVLK   99 (359)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            6666666654

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.95  E-value=9.5e-08  Score=66.04  Aligned_cols=121  Identities=12%  Similarity=-0.077  Sum_probs=63.9

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC----CHHHHHHH--------
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP----DYNTFHIL--------   71 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p----~~~~~~~l--------   71 (144)
                      ++.+.|++++|.+.|++..+..+. +...|..+...+...|++++|...|++..+.  .|    +...+..+        
T Consensus        46 ~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~  122 (359)
T 3ieg_A           46 VFLAMGKSKAALPDLTKVIALKMD-FTAARLQRGHLLLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQR  122 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCC-cchHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHH
Confidence            345556666666666666554322 4455666666666666666666666665543  23    22222222        


Q ss_pred             ----HHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           72 ----IKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        72 ----i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                          ...+...|++++|...+++..+.. +.+...+..+..++.+.|++++|.+.+++...
T Consensus       123 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  182 (359)
T 3ieg_A          123 LRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASK  182 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                344555555555555555555432 22344555555555555555555555555443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.95  E-value=7.6e-08  Score=56.63  Aligned_cols=99  Identities=17%  Similarity=0.053  Sum_probs=78.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045403           30 VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFH  109 (144)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~  109 (144)
                      ...|..+...+...|++++|...+++..+.. +.+..++..+...+...|++++|..+++++.+.. +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            5677888888888889999998888887653 2467778888888888899999988888887643 3466778888888


Q ss_pred             HhccCChHHHHHHHHHhhhcC
Q 045403          110 LGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus       110 ~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      +.+.|++++|.+.+++.....
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~  107 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD  107 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhC
Confidence            888889999998888876543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.92  E-value=8.1e-08  Score=69.71  Aligned_cols=90  Identities=16%  Similarity=0.127  Sum_probs=80.5

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|.+.|+++.+..  |+...|..+..++.+.|++++|...+++..+.+ +.+..+|..+..++...|+++
T Consensus        14 ~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~   90 (514)
T 2gw1_A           14 NQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFA   90 (514)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHH
Confidence            35778999999999999999864  789999999999999999999999999998764 246789999999999999999


Q ss_pred             HHHHHHHHHHHCC
Q 045403           83 LAYRTMVDMHKKG   95 (144)
Q Consensus        83 ~a~~~~~~m~~~~   95 (144)
                      +|...|+++.+.+
T Consensus        91 ~A~~~~~~~~~~~  103 (514)
T 2gw1_A           91 DAMFDLSVLSLNG  103 (514)
T ss_dssp             HHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHhcC
Confidence            9999999987654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.91  E-value=2.2e-08  Score=72.75  Aligned_cols=123  Identities=8%  Similarity=-0.135  Sum_probs=88.9

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      .++.+.|++++|.+.|++..+....  ...|..+...+...|++++|...+++..+... .+..++..+...+...|+++
T Consensus       245 ~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~  321 (514)
T 2gw1_A          245 IFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDS-NNSSVYYHRGQMNFILQNYD  321 (514)
T ss_dssp             HHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCT-TCTHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCc-CCHHHHHHHHHHHHHhCCHH
Confidence            3466778888888888887765433  77777778888888888888888887766432 35567777777788888888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +|...+++..+.. +.+...+..+...+.+.|++++|.+++++....
T Consensus       322 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  367 (514)
T 2gw1_A          322 QAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRK  367 (514)
T ss_dssp             HHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            8888888777643 224556777777777788888888877776654

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=98.91  E-value=8.3e-08  Score=73.82  Aligned_cols=123  Identities=9%  Similarity=-0.071  Sum_probs=106.1

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      .+|.+.|++++|++.|++..+.... +...|+.+-.++.+.|++++|.+.|++..+..- -+..+|+.+-..|...|+++
T Consensus        51 ~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~P-~~~~a~~~Lg~~~~~~g~~~  128 (723)
T 4gyw_A           51 SVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGNTLKEMQDVQGALQCYTRAIQINP-AFADAHSNLASIHKDSGNIP  128 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHH
Confidence            4677899999999999999886544 688999999999999999999999999887421 35778999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      +|...|++..+.. +-+...+..+..++.+.|++++|.+.+++..+
T Consensus       129 eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          129 EAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHHHHHHHHHHHH
Confidence            9999999998753 23577899999999999999999998887543

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.91  E-value=2.8e-08  Score=61.81  Aligned_cols=122  Identities=7%  Similarity=-0.088  Sum_probs=97.5

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+.+.|++++|++.++........ +...+-.+-..|.+.|++++|...|++..+..- -+..+|..+-.+|...|++++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~~p~-~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPSPRQ-KSIKGFYFAKLYYEAKEYDLAKKYICTYINVQE-RDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCSHHH-HHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcChHHHHHHHHHHhcccCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCchHH
Confidence            455678999999999988654222 345566788899999999999999999987532 477899999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHH-HHHhhh
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCL-QHVKDI  128 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l-~~~m~~  128 (144)
                      |...|++..+.. +-+...+..+...|.+.|+.++|.+. +++..+
T Consensus        84 A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~  128 (150)
T 4ga2_A           84 AVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK  128 (150)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            999999998753 23577888999999999999876665 566554

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=98.90  E-value=6.1e-08  Score=69.34  Aligned_cols=125  Identities=9%  Similarity=-0.004  Sum_probs=105.8

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGD-MESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ++.+.|++++|++.+++..+..+. +...|+.+-.++...|+ +++|...|++..+..- -+...|..+-.++...|+++
T Consensus       106 ~~~~~g~~~~Al~~~~~al~l~P~-~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P-~~~~a~~~~g~~~~~~g~~~  183 (382)
T 2h6f_A          106 VLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVLVEWLRDPS  183 (382)
T ss_dssp             HHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCT
T ss_pred             HHHHCCChHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHccCHH
Confidence            466789999999999999887554 78889999999999996 9999999999987532 36778999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      +|...+++..+.. .-+...|..+-.++.+.|++++|...+++......
T Consensus       184 eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P  231 (382)
T 2h6f_A          184 QELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV  231 (382)
T ss_dssp             THHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC
Confidence            9999999998753 34677888899999999999999999999876443

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.89  E-value=2.2e-07  Score=69.17  Aligned_cols=126  Identities=9%  Similarity=-0.097  Sum_probs=102.8

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|.+.|++..+.... +...|..+..++...|++++|...|++..+.. +.+...+..+..++...|+++
T Consensus        31 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~  108 (568)
T 2vsy_A           31 DAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAVLLQQASDAA-PEHPGIALWLGHALEDAGQAE  108 (568)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHH
Confidence            3566789999999999998876443 67888999999999999999999999987753 245778888999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc---CChHHHHHHHHHhhhcCC
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKM---RAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~---g~~~~a~~l~~~m~~~~~  131 (144)
                      +|.+.+++..+.. +.+...+..+..++...   |+.++|.+.+++..+...
T Consensus       109 ~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~p  159 (568)
T 2vsy_A          109 AAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQGV  159 (568)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcCC
Confidence            9999999988653 23567788888888888   999999999998765443

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=98.89  E-value=8.9e-08  Score=70.02  Aligned_cols=122  Identities=9%  Similarity=-0.060  Sum_probs=74.1

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      ++.+.|++++|.+.|++..+..+. +..+|..+...+...|++++|...|++..+... .+..++..+...+...|++++
T Consensus       285 ~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~  362 (537)
T 3fp2_A          285 TLADKENSQEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNP-ENVYPYIQLACLLYKQGKFTE  362 (537)
T ss_dssp             HTCCSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhcCHHHHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHH
Confidence            445566666666666666554332 456666666666666666666666666655321 234556666666666666666


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      |...+++..+.. +.+...+..+...+.+.|++++|.+.+++...
T Consensus       363 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  406 (537)
T 3fp2_A          363 SEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKR  406 (537)
T ss_dssp             HHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            666666666542 22344566666666666777777666666443

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.89  E-value=4.3e-08  Score=62.07  Aligned_cols=124  Identities=10%  Similarity=-0.070  Sum_probs=99.5

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHH-HHHhCcH-
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKY-FRKEKMY-   81 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~-~~~~g~~-   81 (144)
                      .+...|++++|...++...+..+ .+...|..+...+...|++++|...|++..+..- .+...+..+..+ +...|++ 
T Consensus        19 ~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~l~~~~~~~~   96 (177)
T 2e2e_A           19 QFASQQNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRG-ENAELYAALATVLYYQASQHM   96 (177)
T ss_dssp             CCC-----CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTCC
T ss_pred             hhhhccCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCCcc
Confidence            35678899999999999887644 3778999999999999999999999999886532 366778888888 7789998 


Q ss_pred             -HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403           82 -MLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        82 -~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                       ++|...+++..+.. +.+...+..+..+|.+.|++++|...+++.....
T Consensus        97 ~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           97 TAQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence             99999999998753 3356788889999999999999999999977643

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.89  E-value=5.1e-07  Score=60.85  Aligned_cols=115  Identities=14%  Similarity=0.006  Sum_probs=63.9

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH---
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK---   77 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~---   77 (144)
                      +.+.|++++|.+.|++..+   +-+...+..+-..+..    .+++++|...|++..+.+   +...+..+-..|..   
T Consensus        16 ~~~~~~~~~A~~~~~~a~~---~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~   89 (273)
T 1ouv_A           16 SYKEKDFTQAKKYFEKACD---LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQG   89 (273)
T ss_dssp             HHHTTCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSS
T ss_pred             HHhCCCHHHHHHHHHHHHH---CCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCC
Confidence            3445566666666665554   2233455555555555    566666666666655543   44555555555555   


Q ss_pred             -hCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHhhh
Q 045403           78 -EKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGK----MRAHSEALCLQHVKDI  128 (144)
Q Consensus        78 -~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~l~~~m~~  128 (144)
                       .++.++|...+++..+.+   +...+..+-..|.+    .|++++|.+.+++..+
T Consensus        90 ~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~  142 (273)
T 1ouv_A           90 VSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACD  142 (273)
T ss_dssp             SCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH
T ss_pred             cccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHh
Confidence             566666666666555543   44455555555555    5566666666655443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.89  E-value=2e-07  Score=56.31  Aligned_cols=96  Identities=10%  Similarity=-0.080  Sum_probs=68.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHL  110 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~  110 (144)
                      ..+......|.+.|++++|...|++..+.. +.+..+|..+-.+|.+.|++++|...+++..+.. +.+...|..+-.+|
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHH
Confidence            456667777777788888888887776542 2456677777777777888888877777777543 23466777777777


Q ss_pred             hccCChHHHHHHHHHhhh
Q 045403          111 GKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       111 ~~~g~~~~a~~l~~~m~~  128 (144)
                      ...|++++|.+.|++..+
T Consensus        92 ~~~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQ  109 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH
Confidence            778888888887777654

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.88  E-value=2.2e-07  Score=55.19  Aligned_cols=98  Identities=17%  Similarity=0.035  Sum_probs=84.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHL  110 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~  110 (144)
                      ..|..+...+...|++++|..+++++.+.+. .+...+..+...+...|++++|..++++..+.+ +.+...+..+...+
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHH
Confidence            3577888999999999999999999987543 467888999999999999999999999998754 34677888899999


Q ss_pred             hccCChHHHHHHHHHhhhcC
Q 045403          111 GKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus       111 ~~~g~~~~a~~l~~~m~~~~  130 (144)
                      .+.|++++|.++++++....
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~   99 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELD   99 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHhC
Confidence            99999999999999987643

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.87  E-value=2.2e-07  Score=55.03  Aligned_cols=97  Identities=14%  Similarity=0.049  Sum_probs=48.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045403           30 VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFH  109 (144)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~  109 (144)
                      ...+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+..+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHH
Confidence            3444455555555555555555555554431 1244455555555555555555555555554431 1234445555555


Q ss_pred             HhccCChHHHHHHHHHhhh
Q 045403          110 LGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       110 ~~~~g~~~~a~~l~~~m~~  128 (144)
                      +.+.|++++|.+.+++...
T Consensus        90 ~~~~~~~~~A~~~~~~~~~  108 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALE  108 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHh
Confidence            5555555555555555443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.87  E-value=3.2e-07  Score=53.87  Aligned_cols=106  Identities=17%  Similarity=0.120  Sum_probs=86.2

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|.+.|+++.+... .+..++..+...+...|++++|...++++.+.. +.+..++..+...+...|+++
T Consensus        17 ~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~   94 (125)
T 1na0_A           17 NAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYD   94 (125)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHH
Confidence            457789999999999999987643 377889999999999999999999999998753 257788999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLG  111 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~  111 (144)
                      +|...+++..+.. +.+...+..+-..+.
T Consensus        95 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  122 (125)
T 1na0_A           95 EAIEYYQKALELD-PNNAEAKQNLGNAKQ  122 (125)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            9999999998653 234445555544443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.86  E-value=3e-07  Score=63.42  Aligned_cols=123  Identities=14%  Similarity=-0.026  Sum_probs=86.2

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHH-HhCcH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVV-LLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFR-KEKMY   81 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~-~~g~~   81 (144)
                      .+.+.|++++|.++|+...+..+. +.. .|..+...+.+.|++++|..+|++..+..- ++...|........ ..|+.
T Consensus       108 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~  185 (308)
T 2ond_A          108 YEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDK  185 (308)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCH
T ss_pred             HHHhcCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCH
Confidence            455678888888888888874222 233 788888888888888888888888876532 33344443322221 25888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           82 MLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        82 ~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ++|..+|++..+.. +-+...|..++..+.+.|++++|..+|++....
T Consensus       186 ~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~  232 (308)
T 2ond_A          186 SVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  232 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            88888888877542 235677888888888888888888888887653

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=98.86  E-value=1.1e-07  Score=69.50  Aligned_cols=125  Identities=9%  Similarity=-0.063  Sum_probs=107.8

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+...|++++|.+.|+...+.  .|+...|..+...+...|++++|...+++..+... .+..++..+...+...|++++
T Consensus       252 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~  328 (537)
T 3fp2_A          252 FHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNP-EYPPTYYHRGQMYFILQDYKN  328 (537)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCC-CCHHHHHHHHHHHHhcCCHHH
Confidence            466789999999999999885  45588899999999999999999999999987542 467889999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCC
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDR  132 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~  132 (144)
                      |...+++..+.. +.+...+..+..++.+.|++++|.+++++.....+.
T Consensus       329 A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~  376 (537)
T 3fp2_A          329 AKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPT  376 (537)
T ss_dssp             HHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            999999998753 234678888999999999999999999998765433

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.86  E-value=6.4e-08  Score=70.89  Aligned_cols=123  Identities=14%  Similarity=0.007  Sum_probs=104.6

Q ss_pred             hhhhccCCH-HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHh---
Q 045403            3 SAFCRGGCF-EEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKE---   78 (144)
Q Consensus         3 ~~~~~~g~~-~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~---   78 (144)
                      .++...|++ ++|.+.|++..+..+. +...|..+..+|...|++++|...|++..+.  .|+...+..+-..+...   
T Consensus       110 ~~~~~~g~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~~~~~~~~~  186 (474)
T 4abn_A          110 KALNVTPDYSPEAEVLLSKAVKLEPE-LVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSMVLRQLQTD  186 (474)
T ss_dssp             HHHTSSSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHHHHTTCCCS
T ss_pred             HHHHhccccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHHHHHHhccC
Confidence            356778999 9999999998876444 6889999999999999999999999998875  47788889999999998   


Q ss_pred             ------CcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc--------CChHHHHHHHHHhhhc
Q 045403           79 ------KMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKM--------RAHSEALCLQHVKDIA  129 (144)
Q Consensus        79 ------g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~--------g~~~~a~~l~~~m~~~  129 (144)
                            |++++|...+++..+.. +-+...|..+..+|...        |++++|.+.+++....
T Consensus       187 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~  250 (474)
T 4abn_A          187 SGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKV  250 (474)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             ChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHh
Confidence                  99999999999998753 33577888888888888        9999999999987764

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.86  E-value=6.5e-08  Score=65.74  Aligned_cols=127  Identities=12%  Similarity=0.048  Sum_probs=103.1

Q ss_pred             hhhhccCCHHHHHHHHHHHHhc-------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC------CCC-CCHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAK-------YDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL------AIS-PDYNTF   68 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~-------~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------g~~-p~~~~~   68 (144)
                      ..+...|++++|..+|++..+.       ..+....++..+...+...|++++|...+++..+.      +-. ....++
T Consensus        35 ~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  114 (311)
T 3nf1_A           35 IQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATL  114 (311)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHH
Confidence            4677899999999999998873       23445678899999999999999999999998754      222 345678


Q ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHC------CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           69 HILIKYFRKEKMYMLAYRTMVDMHKK------GHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        69 ~~li~~~~~~g~~~~a~~~~~~m~~~------~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ..+...+...|++++|...+++..+.      +-.| ....+..+...+.+.|++++|.+++++....
T Consensus       115 ~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~  182 (311)
T 3nf1_A          115 NNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEI  182 (311)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            88999999999999999999998753      2223 3456788899999999999999999987654

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=98.86  E-value=3e-09  Score=77.12  Aligned_cols=22  Identities=14%  Similarity=0.057  Sum_probs=11.4

Q ss_pred             HHHHHHhccCChHHHHHHHHHh
Q 045403          105 SLIFHLGKMRAHSEALCLQHVK  126 (144)
Q Consensus       105 ~l~~~~~~~g~~~~a~~l~~~m  126 (144)
                      .++..|.+.|.+++|.++++.-
T Consensus       212 ~lv~~Yek~G~~eEai~lLe~a  233 (449)
T 1b89_A          212 ELINYYQDRGYFEELITMLEAA  233 (449)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHH
Confidence            3444555555555555555543

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.85  E-value=3.4e-08  Score=66.11  Aligned_cols=126  Identities=17%  Similarity=0.096  Sum_probs=100.6

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcC-------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC------CCCC-CHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKY-------DKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL------AISP-DYNTF   68 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~-------~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------g~~p-~~~~~   68 (144)
                      .+|...|++++|.+.|++..+..       .+....++..+...+...|++++|...+++..+.      +-.| ...++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            46778999999999999987651       1335678899999999999999999999998764      1123 35678


Q ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHC------------------------------------------------CCCCCH
Q 045403           69 HILIKYFRKEKMYMLAYRTMVDMHKK------------------------------------------------GHQPEE  100 (144)
Q Consensus        69 ~~li~~~~~~g~~~~a~~~~~~m~~~------------------------------------------------~~~~~~  100 (144)
                      ..+...+...|++++|..++++..+.                                                ......
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  252 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVN  252 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHH
Confidence            89999999999999999999988752                                                111123


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403          101 ELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       101 ~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .++..+..+|.+.|++++|..++++..+
T Consensus       253 ~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          253 TTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4677889999999999999999998653

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.84  E-value=9.1e-07  Score=59.60  Aligned_cols=111  Identities=9%  Similarity=-0.019  Sum_probs=58.3

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH----hC
Q 045403            8 GGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK----EK   79 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g   79 (144)
                      .|++++|.+.|++..+.+   +...+..+-..|..    .+++++|...|++..+.+   +..++..+-..|..    .+
T Consensus        55 ~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~  128 (273)
T 1ouv_A           55 EKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTR  128 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCC
T ss_pred             CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCccc
Confidence            555555555555555443   44555555555555    555555555555555442   44555555555555    55


Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHhh
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGK----MRAHSEALCLQHVKD  127 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~l~~~m~  127 (144)
                      +.++|..++++..+.+   +...+..+-..|.+    .++.++|...+++..
T Consensus       129 ~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~  177 (273)
T 1ouv_A          129 DFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKAC  177 (273)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            5555555555555443   33344444444444    555555555555543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.83  E-value=1.2e-07  Score=69.52  Aligned_cols=126  Identities=11%  Similarity=0.021  Sum_probs=108.4

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc---------CCHHHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRT---------GDMESVIHVMRKLDELAISPDYNTFHILIK   73 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~---------~~~~~a~~~~~~m~~~g~~p~~~~~~~li~   73 (144)
                      .+|.+.|++++|.+.|++..+.  .|+...+..+-..+...         |++++|...|++..+... -+...|..+..
T Consensus       145 ~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~  221 (474)
T 4abn_A          145 EVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDV-LDGRSWYILGN  221 (474)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            4677889999999999999886  46679999999999999         999999999999887532 46788999999


Q ss_pred             HHHHh--------CcHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           74 YFRKE--------KMYMLAYRTMVDMHKKGHQ--PEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        74 ~~~~~--------g~~~~a~~~~~~m~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      +|...        |++++|...+++..+..-.  -+...|..+-.+|.+.|++++|.+.+++..+..+
T Consensus       222 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p  289 (474)
T 4abn_A          222 AYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDP  289 (474)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            99999        9999999999999875310  3788899999999999999999999999776443

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.83  E-value=7.2e-08  Score=59.86  Aligned_cols=110  Identities=15%  Similarity=-0.041  Sum_probs=83.8

Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCC
Q 045403           17 LARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGH   96 (144)
Q Consensus        17 ~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~   96 (144)
                      .|++..... +.+...+..+...+.+.|++++|...|++..+... .+...|..+-.++...|++++|...+++..+.. 
T Consensus         9 ~~~~al~~~-p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-   85 (148)
T 2vgx_A            9 TIAMLNEIS-SDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDH-YDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-   85 (148)
T ss_dssp             SHHHHTTCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             hHHHHHcCC-HhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-
Confidence            344444332 22556777788888899999999999998876432 477788888888999999999999999988653 


Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           97 QPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        97 ~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +.+...+..+-.+|...|++++|.+.+++....
T Consensus        86 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           86 IXEPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            235567777888889999999999999886654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.83  E-value=2.9e-07  Score=53.16  Aligned_cols=101  Identities=10%  Similarity=-0.020  Sum_probs=83.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCC--CHHHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQP--EEELCSSL  106 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~~l  106 (144)
                      +...|..+...+...|++++|...|++..+... .+...+..+...+...|++++|...+++..+.. ..  +...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDP-EESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            456677888888999999999999999876532 467788889999999999999999999998753 23  57788889


Q ss_pred             HHHHhcc-CChHHHHHHHHHhhhcCC
Q 045403          107 IFHLGKM-RAHSEALCLQHVKDIAKD  131 (144)
Q Consensus       107 ~~~~~~~-g~~~~a~~l~~~m~~~~~  131 (144)
                      ..++.+. |++++|.+.+++.....+
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhccc
Confidence            9999999 999999999999876443

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.82  E-value=6e-08  Score=65.92  Aligned_cols=126  Identities=15%  Similarity=0.085  Sum_probs=100.6

Q ss_pred             hhhhccCCHHHHHHHHHHHHhc------CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC------CCCC-CHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAK------YD-KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL------AISP-DYNTF   68 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~------~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------g~~p-~~~~~   68 (144)
                      ..|...|++++|.+.|++..+.      +. +.....+..+...+...|++++|...+++..+.      +-.| ...++
T Consensus       119 ~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  198 (311)
T 3nf1_A          119 VLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTK  198 (311)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHH
T ss_pred             HHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            4677899999999999998764      22 334577889999999999999999999998764      2223 34578


Q ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHC------------------------------------------------CCCCCH
Q 045403           69 HILIKYFRKEKMYMLAYRTMVDMHKK------------------------------------------------GHQPEE  100 (144)
Q Consensus        69 ~~li~~~~~~g~~~~a~~~~~~m~~~------------------------------------------------~~~~~~  100 (144)
                      ..+...+...|++++|...+++..+.                                                ......
T Consensus       199 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~  278 (311)
T 3nf1_A          199 NNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVT  278 (311)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------CHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHH
Confidence            88999999999999999999998752                                                112234


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403          101 ELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       101 ~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .++..+..+|.+.|++++|.+.+++..+
T Consensus       279 ~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          279 TTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            5788899999999999999999998654

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.81  E-value=2.7e-07  Score=64.68  Aligned_cols=122  Identities=10%  Similarity=0.014  Sum_probs=102.0

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCC--------------HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYD--------------VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTF   68 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~--------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~   68 (144)
                      ..+.+.|++++|...|++..+......              ...|..+-.++.+.|++++|...|++..+.. +.+...|
T Consensus       155 ~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~  233 (336)
T 1p5q_A          155 TVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGL  233 (336)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHH
Confidence            357788999999999999988644422              5899999999999999999999999998753 2478899


Q ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHH-HHHHHHh
Q 045403           69 HILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEA-LCLQHVK  126 (144)
Q Consensus        69 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a-~~l~~~m  126 (144)
                      ..+-.+|...|++++|...|++..+.. +-+...+..+..++.+.|+.+++ ..+++.|
T Consensus       234 ~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          234 SRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANM  291 (336)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999998753 33567888899999999999988 4455554

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.80  E-value=3.1e-08  Score=66.29  Aligned_cols=126  Identities=13%  Similarity=0.033  Sum_probs=101.8

Q ss_pred             hhhhccCCHHHHHHHHHHHHhc------CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC------CC-CCCHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAK------YD-KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL------AI-SPDYNTF   68 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~------~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------g~-~p~~~~~   68 (144)
                      .+|...|++++|...+++..+.      +- +....++..+...+...|++++|...+.+..+.      .- +....++
T Consensus        51 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  130 (283)
T 3edt_B           51 LVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQL  130 (283)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHH
Confidence            4577889999999999998764      22 334678999999999999999999999998754      11 2245678


Q ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHC------CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           69 HILIKYFRKEKMYMLAYRTMVDMHKK------GHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        69 ~~li~~~~~~g~~~~a~~~~~~m~~~------~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ..+...+...|++++|...+++..+.      +-.| ...++..+..+|.+.|++++|.+++++...
T Consensus       131 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~  197 (283)
T 3edt_B          131 NNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILT  197 (283)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            88999999999999999999998754      1123 345788899999999999999999998765

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.80  E-value=4.8e-07  Score=60.56  Aligned_cols=127  Identities=9%  Similarity=-0.001  Sum_probs=99.8

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYD--VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      .++.+.|++++|.+.+++..+.+..|+  ...|..+...+...|++++|...|++..+... .+..++..+...|...|+
T Consensus        45 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~  123 (272)
T 3u4t_A           45 VCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGN  123 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccC
Confidence            467789999999999999988432222  34588999999999999999999999887532 355789999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHH-HHHhccCChHHHHHHHHHhhhcCCC
Q 045403           81 YMLAYRTMVDMHKKGHQPEEELCSSLI-FHLGKMRAHSEALCLQHVKDIAKDR  132 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~~~~~~~l~-~~~~~~g~~~~a~~l~~~m~~~~~~  132 (144)
                      +++|...+++..+.. +.+...+..+. ..|. .+++++|.+.+++..+..+.
T Consensus       124 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~-~~~~~~A~~~~~~a~~~~p~  174 (272)
T 3u4t_A          124 FPLAIQYMEKQIRPT-TTDPKVFYELGQAYYY-NKEYVKADSSFVKVLELKPN  174 (272)
T ss_dssp             HHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhCcc
Confidence            999999999988652 33566676676 5544 45999999999988764433

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.79  E-value=2.9e-07  Score=54.85  Aligned_cols=102  Identities=9%  Similarity=-0.010  Sum_probs=75.2

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHH
Q 045403           26 DKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSS  105 (144)
Q Consensus        26 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  105 (144)
                      .+.+...|..+...+...|++++|...|++..+..- .+...+..+..++...|++++|...+++..+.. ..+...+..
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~   89 (133)
T 2lni_A           12 NPDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNP-KDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTR   89 (133)
T ss_dssp             SSCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHH
Confidence            345667777788888888888888888888765422 366777778888888888888888888877642 235667777


Q ss_pred             HHHHHhccCChHHHHHHHHHhhhc
Q 045403          106 LIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus       106 l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +..++.+.|++++|.+.+++....
T Consensus        90 la~~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           90 KAAALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHh
Confidence            777888888888888888876543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.78  E-value=3.7e-07  Score=57.03  Aligned_cols=99  Identities=10%  Similarity=-0.044  Sum_probs=77.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIF  108 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~  108 (144)
                      +...+..+-..+.+.|++++|...|++..+... -+...|..+-.+|...|++++|...|++..+.. +-+...|..+-.
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDF-YNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHH
Confidence            455677777888888888888888888876422 467788888888888888888888888888653 224567777888


Q ss_pred             HHhccCChHHHHHHHHHhhhc
Q 045403          109 HLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus       109 ~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +|.+.|++++|...|++..+.
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            888888888888888886653

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.78  E-value=3.6e-07  Score=63.51  Aligned_cols=122  Identities=9%  Similarity=-0.010  Sum_probs=97.3

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-----CHHHHHHHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYD-KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-----DYNTFHILIKYFR   76 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-----~~~~~~~li~~~~   76 (144)
                      .++...|++++|.+++++-...+. .-+...+-.++..+.+.|+.+.|.+++++|.+.  .|     +..+...+..++.
T Consensus       108 ~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~~l~~Laea~v  185 (310)
T 3mv2_B          108 TAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNEMILNLAESYI  185 (310)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CccccccchHHHHHHHHHHH
Confidence            467788999999999999876654 237788999999999999999999999999874  46     3677777777733


Q ss_pred             --HhC--cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           77 --KEK--MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        77 --~~g--~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                        ..|  +..+|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+
T Consensus       186 ~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          186 KFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             HHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence              345  899999999999754  35544555566689999999999999997664

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.77  E-value=3.2e-07  Score=68.34  Aligned_cols=121  Identities=10%  Similarity=-0.122  Sum_probs=88.2

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHH
Q 045403            8 GGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRT   87 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~   87 (144)
                      .|++++|.+.|++..+.... +...|..+...+...|++++|...|++..+..- -+..++..+...|...|++++|...
T Consensus         2 ~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLALHP-GHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTST-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            47899999999998875433 678999999999999999999999999887532 4678899999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           88 MVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        88 ~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      +++..+.. +.+...+..+..+|.+.|++++|.+.+++..+...
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  122 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP  122 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            99998753 34577899999999999999999999999776433

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.75  E-value=3.9e-07  Score=62.43  Aligned_cols=124  Identities=10%  Similarity=0.027  Sum_probs=95.0

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHH-HHHHhCcHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIK-YFRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~-~~~~~g~~~   82 (144)
                      .+.+.|++++|.+.|++..+..+. +...+..+...+.+.|++++|...+++....  .|+......... .+...++.+
T Consensus       126 ~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~l~~~~~~~  202 (287)
T 3qou_A          126 QLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQIELLXQAADT  202 (287)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHHHHHhhcccC
Confidence            466789999999999999887554 7788999999999999999999999988664  355443333322 355667777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      .|...+++..+.. +.+...+..+...+.+.|++++|...+++.....+
T Consensus       203 ~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p  250 (287)
T 3qou_A          203 PEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDL  250 (287)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             ccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhccc
Confidence            7788888777643 34567788888888899999999999988776443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.74  E-value=1.7e-06  Score=52.10  Aligned_cols=100  Identities=10%  Similarity=0.097  Sum_probs=84.1

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .|.+.|++++|++.|++..+..+. +...|..+-.++.+.|++++|...|++..+..- .+...|..+-.++...|++++
T Consensus        22 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~   99 (126)
T 4gco_A           22 EYFKKGDYPTAMRHYNEAVKRDPE-NAILYSNRAACLTKLMEFQRALDDCDTCIRLDS-KFIKGYIRKAACLVAMREWSK   99 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhh-hhhHHHHHHHHHHHHCCCHHH
Confidence            578899999999999999876544 789999999999999999999999999887532 467889999999999999999


Q ss_pred             HHHHHHHHHHCCCCC-CHHHHHHHH
Q 045403           84 AYRTMVDMHKKGHQP-EEELCSSLI  107 (144)
Q Consensus        84 a~~~~~~m~~~~~~~-~~~~~~~l~  107 (144)
                      |...|++..+.  .| +...+..+-
T Consensus       100 A~~~~~~al~l--~P~~~~a~~~l~  122 (126)
T 4gco_A          100 AQRAYEDALQV--DPSNEEAREGVR  122 (126)
T ss_dssp             HHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHH--CcCCHHHHHHHH
Confidence            99999999875  35 344444443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.74  E-value=1.4e-06  Score=58.43  Aligned_cols=125  Identities=10%  Similarity=-0.049  Sum_probs=99.3

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC-CCC-HHHHHHHHHHHHH-
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYD---VVLLNSMLCAYCRTGDMESVIHVMRKLDELAI-SPD-YNTFHILIKYFRK-   77 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~-~~~~~~li~~~~~-   77 (144)
                      .+.+.|++++|.+.|++..+..+. +   ...+..+..++.+.|++++|...|++..+... .|+ ...+..+..++.. 
T Consensus        24 ~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~  102 (261)
T 3qky_A           24 EFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYKL  102 (261)
T ss_dssp             HHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHh
Confidence            467889999999999999886443 3   67888899999999999999999999987532 122 4567777888888 


Q ss_pred             -------hCcHHHHHHHHHHHHHCCCCCC-HHHH-----------------HHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           78 -------EKMYMLAYRTMVDMHKKGHQPE-EELC-----------------SSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        78 -------~g~~~~a~~~~~~m~~~~~~~~-~~~~-----------------~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                             .|++++|...|++..+..  |+ ....                 -.+...|.+.|++++|...+++.....+
T Consensus       103 ~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p  179 (261)
T 3qky_A          103 SPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYP  179 (261)
T ss_dssp             CCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             cccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC
Confidence                   999999999999998643  32 2233                 4457788999999999999999876433

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.73  E-value=6.5e-07  Score=55.51  Aligned_cols=109  Identities=10%  Similarity=0.022  Sum_probs=88.1

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMY   81 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~   81 (144)
                      ..|.+.|++++|.+.|++..+..+. +...|..+..++.+.|++++|...|++..+.  .| +..+|..+...|.+.|+.
T Consensus        39 ~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~  115 (150)
T 4ga2_A           39 KLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEENTDKAVECYRRSVEL--NPTQKDLVLKIAELLCKNDVT  115 (150)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCSS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCh
Confidence            4678899999999999999887555 8899999999999999999999999998874  34 577899999999999998


Q ss_pred             HHHHHH-HHHHHHCCCCCCHHHHHHHHHHHhccCC
Q 045403           82 MLAYRT-MVDMHKKGHQPEEELCSSLIFHLGKMRA  115 (144)
Q Consensus        82 ~~a~~~-~~~m~~~~~~~~~~~~~~l~~~~~~~g~  115 (144)
                      +++... +++..+.. +-+..+|......+.+.|+
T Consensus       116 ~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A          116 DGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             SSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCc
Confidence            876654 57766542 2356677777777766664

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=98.71  E-value=1.1e-06  Score=57.55  Aligned_cols=124  Identities=10%  Similarity=-0.123  Sum_probs=101.2

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCH-------HHHHHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDY-------NTFHILIKYF   75 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-------~~~~~li~~~   75 (144)
                      .++.+.|++++|.+.|++..+..+. +...|..+...+...|++++|...+++..+... .+.       ..|..+-..+
T Consensus        50 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~  127 (228)
T 4i17_A           50 VCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKSAAYRDMKNNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKF  127 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHH
Confidence            3577889999999999999886544 778899999999999999999999999887422 234       4577888888


Q ss_pred             HHhCcHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHhccCCh---------------------------HHHHHHHHH
Q 045403           76 RKEKMYMLAYRTMVDMHKKGHQPE---EELCSSLIFHLGKMRAH---------------------------SEALCLQHV  125 (144)
Q Consensus        76 ~~~g~~~~a~~~~~~m~~~~~~~~---~~~~~~l~~~~~~~g~~---------------------------~~a~~l~~~  125 (144)
                      ...|++++|...+++..+.  .|+   ...+..+-.+|...|+.                           ++|...+++
T Consensus       128 ~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  205 (228)
T 4i17_A          128 QQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGVLFYNNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGE  205 (228)
T ss_dssp             HHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHHHHHHHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999864  454   45777788888887777                           888888888


Q ss_pred             hhhcC
Q 045403          126 KDIAK  130 (144)
Q Consensus       126 m~~~~  130 (144)
                      ..+..
T Consensus       206 a~~l~  210 (228)
T 4i17_A          206 AVTLS  210 (228)
T ss_dssp             HHHHC
T ss_pred             HhhcC
Confidence            76543

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.71  E-value=3e-06  Score=49.09  Aligned_cols=97  Identities=12%  Similarity=-0.022  Sum_probs=65.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045403           30 VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFH  109 (144)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~  109 (144)
                      ...+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            4456666667777777777777777766542 1356667777777777777777777777776542 2345666667777


Q ss_pred             HhccCChHHHHHHHHHhhh
Q 045403          110 LGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       110 ~~~~g~~~~a~~l~~~m~~  128 (144)
                      +.+.|++++|.+.+++...
T Consensus        82 ~~~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            7777777777777777654

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=98.70  E-value=3.9e-07  Score=66.15  Aligned_cols=103  Identities=9%  Similarity=0.004  Sum_probs=65.1

Q ss_pred             ChhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403            1 MISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus         1 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      |+.+|++.|+++++.++++       .|+..+|+.+...|...|.+++|...|+.+         ..|..+..++.+.|+
T Consensus       100 Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~  163 (449)
T 1b89_A          100 LIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGE  163 (449)
T ss_dssp             ---------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTC
T ss_pred             HHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhcc
Confidence            4568889999999888875       367779999999999999999999999976         378899999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 045403           81 YMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHV  125 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~  125 (144)
                      +++|.+.+.+.      .++.+|..++.+|...|+++.|......
T Consensus       164 yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~  202 (449)
T 1b89_A          164 YQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH  202 (449)
T ss_dssp             HHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT
T ss_pred             HHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH
Confidence            99999988888      2788999999999999998888655443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.70  E-value=6.1e-07  Score=56.03  Aligned_cols=94  Identities=15%  Similarity=0.069  Sum_probs=81.9

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+.+.|++++|.+.|++.....+. +...|..+-.++...|++++|...|++..+... -+...|..+-.+|...|++++
T Consensus        45 ~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P-~~~~~~~~lg~~~~~lg~~~e  122 (151)
T 3gyz_A           45 DFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALGK-NDYTPVFHTGQCQLRLKAPLK  122 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS-SCCHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHH
Confidence            567899999999999999987554 789999999999999999999999999987532 356789999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHH
Q 045403           84 AYRTMVDMHKKGHQPEEE  101 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~  101 (144)
                      |...|++..+.  .|+..
T Consensus       123 A~~~~~~al~l--~~~~~  138 (151)
T 3gyz_A          123 AKECFELVIQH--SNDEK  138 (151)
T ss_dssp             HHHHHHHHHHH--CCCHH
T ss_pred             HHHHHHHHHHh--CCCHH
Confidence            99999999875  46654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.70  E-value=1.1e-06  Score=52.26  Aligned_cols=109  Identities=10%  Similarity=0.029  Sum_probs=87.4

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|.+.|++..+.... +...+..+...+...|++++|...+++..+..- .+...+..+..++...|+++
T Consensus        24 ~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~~~~~  101 (133)
T 2lni_A           24 NECFQKGDYPQAMKHYTEAIKRNPK-DAKLYSNRAACYTKLLEFQLALKDCEECIQLEP-TFIKGYTRKAAALEAMKDYT  101 (133)
T ss_dssp             HHHHHTTCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHHhhHH
Confidence            3567899999999999999876433 788999999999999999999999999887532 46788999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMR  114 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g  114 (144)
                      +|...+++..+.. +-+...+..+..++.+.|
T Consensus       102 ~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A          102 KAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            9999999998643 123345555655555443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.70  E-value=1.2e-06  Score=64.72  Aligned_cols=123  Identities=12%  Similarity=-0.023  Sum_probs=94.1

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHH-HHHHHhC
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYD--VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILI-KYFRKEK   79 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li-~~~~~~g   79 (144)
                      ..+.+.|++++|.++|+...+.  .|+  ...|...+..+.+.|++++|..+|++..+..- .+...|.... -.+...|
T Consensus       329 ~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~~~~~~~a~~~~~~~~  405 (530)
T 2ooe_A          329 DYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSK  405 (530)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCTHHHHHHHHHHHHHTC
T ss_pred             HHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccC-CchHHHHHHHHHHHHHcC
Confidence            3456789999999999999875  443  35899999999999999999999999887521 1222222221 2234689


Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +.++|..+|++..+.. +-+...|..++..+.+.|+.++|..+|++....
T Consensus       406 ~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~  454 (530)
T 2ooe_A          406 DKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  454 (530)
T ss_dssp             CHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHS
T ss_pred             ChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhc
Confidence            9999999999888642 235788999999999999999999999998764

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.69  E-value=1.6e-06  Score=56.51  Aligned_cols=104  Identities=12%  Similarity=-0.059  Sum_probs=77.0

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHH----------------HHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNS----------------MLCAYCRTGDMESVIHVMRKLDELAISPDYNT   67 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~----------------li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~   67 (144)
                      .+.+.|++++|...|++..+..+. +...|..                +..++.+.|++++|...|++..+... -+...
T Consensus        13 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~   90 (208)
T 3urz_A           13 AAIEAGQNGQAVSYFRQTIALNID-RTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKAP-NNVDC   90 (208)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHH-HHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHH
Confidence            456789999999999988775333 4455666                88888899999999999988876532 36778


Q ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045403           68 FHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHL  110 (144)
Q Consensus        68 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~  110 (144)
                      +..+-..+...|++++|...|++..+.. +-+...+..+-.+|
T Consensus        91 ~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~  132 (208)
T 3urz_A           91 LEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYY  132 (208)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHH
Confidence            8888888999999999999999887643 22344555554444

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.68  E-value=3.9e-06  Score=48.61  Aligned_cols=91  Identities=16%  Similarity=0.041  Sum_probs=78.4

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|.+.|+......+. +...+..+...+...|++++|...+++..+... .+...+..+..++...|+++
T Consensus        12 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~   89 (118)
T 1elw_A           12 NKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAALEFLNRFE   89 (118)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHHhhHH
Confidence            3567889999999999999876443 788899999999999999999999999887532 46788999999999999999


Q ss_pred             HHHHHHHHHHHCC
Q 045403           83 LAYRTMVDMHKKG   95 (144)
Q Consensus        83 ~a~~~~~~m~~~~   95 (144)
                      +|...+++..+.+
T Consensus        90 ~A~~~~~~~~~~~  102 (118)
T 1elw_A           90 EAKRTYEEGLKHE  102 (118)
T ss_dssp             HHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHcC
Confidence            9999999998653

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.67  E-value=6.5e-06  Score=56.66  Aligned_cols=120  Identities=10%  Similarity=0.021  Sum_probs=94.7

Q ss_pred             ccCCH-------HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC-HH-HHHHHHHHHHH
Q 045403            7 RGGCF-------EEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD-YN-TFHILIKYFRK   77 (144)
Q Consensus         7 ~~g~~-------~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~-~~~~li~~~~~   77 (144)
                      +.|++       ++|..+|++..+.-.+-+...|..+...+.+.|++++|..+|++..+.  .|+ .. .|..+...+.+
T Consensus        69 ~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~  146 (308)
T 2ond_A           69 EKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARR  146 (308)
T ss_dssp             HTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHH
T ss_pred             hccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHH
Confidence            45775       999999999987322336779999999999999999999999999874  454 33 89999999999


Q ss_pred             hCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-hccCChHHHHHHHHHhhhc
Q 045403           78 EKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHL-GKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~-~~~g~~~~a~~l~~~m~~~  129 (144)
                      .|++++|..+|++..+.+ +.+...|....... ...|+.++|.++|++....
T Consensus       147 ~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~  198 (308)
T 2ond_A          147 AEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK  198 (308)
T ss_dssp             HHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999998754 23445554443332 2379999999999987654

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.67  E-value=2.7e-07  Score=67.77  Aligned_cols=119  Identities=12%  Similarity=0.022  Sum_probs=93.7

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|.+.|++..+.... +...|..+..++.+.|++++|...+++..+..- -+..+|..+-.+|...|+++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHH
Confidence            3567889999999999999886444 689999999999999999999999999987532 46788999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHH--HhccCChHHHHHHHH
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFH--LGKMRAHSEALCLQH  124 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~l~~  124 (144)
                      +|.+.+++..+..- -+...+..+..+  +.+.|++++|.++++
T Consensus        92 eA~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           92 AALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHST-TCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999986531 123344444444  888899999999988

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.66  E-value=4.4e-07  Score=57.55  Aligned_cols=123  Identities=11%  Similarity=0.048  Sum_probs=85.4

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHH-HHHhCcHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKY-FRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~-~~~~g~~~   82 (144)
                      .+.+.|++++|...|++..+..+. +...+..+...+...|++++|...+++..+.  .|+...+...... +...+...
T Consensus        15 ~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~   91 (176)
T 2r5s_A           15 ELLQQGEHAQALNVIQTLSDELQS-RGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKLELHQQAAES   91 (176)
T ss_dssp             HHHHTTCHHHHHHHHHTSCHHHHT-SHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHHHHHhhcccc
Confidence            567789999999999987765433 7788999999999999999999999887654  2344333222111 11222223


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      ++...+++..+.. +-+...+..+..++.+.|++++|...+++.....
T Consensus        92 ~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~  138 (176)
T 2r5s_A           92 PELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVN  138 (176)
T ss_dssp             HHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC
Confidence            4566777776532 2246777788888888888888888888876543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.65  E-value=2.1e-06  Score=50.69  Aligned_cols=111  Identities=12%  Similarity=0.027  Sum_probs=92.0

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+...|++++|.+.|++...... .+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|+++
T Consensus        20 ~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~   97 (131)
T 2vyi_A           20 NEQMKVENFEAAVHFYGKAIELNP-ANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALSSLNKHV   97 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHHHhCCHH
Confidence            456788999999999999887643 378889999999999999999999999988753 245788999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCh
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAH  116 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~  116 (144)
                      +|...+++..+.. +.+...+..+..++.+.|++
T Consensus        98 ~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           98 EAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            9999999998753 23566777777777777664

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.64  E-value=3.5e-06  Score=50.62  Aligned_cols=100  Identities=7%  Similarity=-0.205  Sum_probs=73.6

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 045403           27 KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSL  106 (144)
Q Consensus        27 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  106 (144)
                      +.+...|..+...+...|++++|...|++..+... .+...|..+..++...|++++|...+++..+.. +.+...+..+
T Consensus         6 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   83 (137)
T 3q49_B            6 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFL   83 (137)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCc-CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHH
Confidence            34567777778888888888888888887766432 356777778888888888888888888877643 2356677777


Q ss_pred             HHHHhccCChHHHHHHHHHhhh
Q 045403          107 IFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       107 ~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ..++...|++++|...+++...
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHH
Confidence            7888888888888888877554

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.63  E-value=1.9e-06  Score=51.30  Aligned_cols=93  Identities=10%  Similarity=-0.069  Sum_probs=44.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 045403           32 LLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLG  111 (144)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~  111 (144)
                      .|..+-..+.+.|++++|...|++..+.. +.+...|..+..++.+.|++++|...+++..+.. +.+...|..+-.++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            34444444455555555555555544321 1234445555555555555555555555554332 123344444555555


Q ss_pred             ccCChHHHHHHHHHh
Q 045403          112 KMRAHSEALCLQHVK  126 (144)
Q Consensus       112 ~~g~~~~a~~l~~~m  126 (144)
                      ..|++++|.+.+++.
T Consensus        84 ~~~~~~~A~~~~~~a   98 (126)
T 3upv_A           84 AVKEYASALETLDAA   98 (126)
T ss_dssp             HTTCHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHH
Confidence            555555555555543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.62  E-value=1.8e-06  Score=49.68  Aligned_cols=91  Identities=8%  Similarity=-0.080  Sum_probs=78.6

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC--CHHHHHHHHHHHHHh-C
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP--DYNTFHILIKYFRKE-K   79 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p--~~~~~~~li~~~~~~-g   79 (144)
                      ..+.+.|++++|...|++..+.... +...|..+...+...|++++|...+++..+..- .  +...+..+..++... |
T Consensus        14 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~l~~~~~~~~~   91 (112)
T 2kck_A           14 VLQYDAGNYTESIDLFEKAIQLDPE-ESKYWLMKGKALYNLERYEEAVDCYNYVINVIE-DEYNKDVWAAKADALRYIEG   91 (112)
T ss_dssp             HHHHSSCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSC-CTTCHHHHHHHHHHHTTCSS
T ss_pred             HHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCc-ccchHHHHHHHHHHHHHHhC
Confidence            3567889999999999998876443 678899999999999999999999999987532 3  588899999999999 9


Q ss_pred             cHHHHHHHHHHHHHCC
Q 045403           80 MYMLAYRTMVDMHKKG   95 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~   95 (144)
                      ++++|.+.+.+..+..
T Consensus        92 ~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           92 KEVEAEIAEARAKLEH  107 (112)
T ss_dssp             CSHHHHHHHHHHGGGC
T ss_pred             CHHHHHHHHHHHhhcc
Confidence            9999999999998654

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.62  E-value=2.8e-06  Score=50.56  Aligned_cols=89  Identities=12%  Similarity=-0.002  Sum_probs=78.4

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+.+.|++++|...|++..+..+. +...|..+..++.+.|++++|...+++..+... -+...|..+-.++...|++++
T Consensus        13 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~   90 (126)
T 3upv_A           13 EYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKDP-NFVRAYIRKATAQIAVKEYAS   90 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhCHHH
Confidence            567899999999999999876544 789999999999999999999999999987532 467889999999999999999


Q ss_pred             HHHHHHHHHHC
Q 045403           84 AYRTMVDMHKK   94 (144)
Q Consensus        84 a~~~~~~m~~~   94 (144)
                      |...+++..+.
T Consensus        91 A~~~~~~al~~  101 (126)
T 3upv_A           91 ALETLDAARTK  101 (126)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999998864

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.61  E-value=2.1e-06  Score=55.25  Aligned_cols=121  Identities=9%  Similarity=-0.006  Sum_probs=92.4

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCC---------------HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYD---------------VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTF   68 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~---------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~   68 (144)
                      .+.+.|++++|.+.|++.........               ...|..+..++...|++++|...+++..+.. +.+...+
T Consensus        47 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~  125 (198)
T 2fbn_A           47 EFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKAL  125 (198)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHH
Confidence            56788999999999999887533311               2788999999999999999999999988753 2567889


Q ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHH-HHHHHh
Q 045403           69 HILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL-CLQHVK  126 (144)
Q Consensus        69 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~-~l~~~m  126 (144)
                      ..+..++...|++++|...|++..+.. +-+...+..+..++...++..++. ..+..+
T Consensus       126 ~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  183 (198)
T 2fbn_A          126 YKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKDKLTFGGM  183 (198)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC---------
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999998653 235667778888887777777666 444443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.60  E-value=1.7e-06  Score=52.90  Aligned_cols=99  Identities=11%  Similarity=-0.077  Sum_probs=72.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIF  108 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~  108 (144)
                      +...+..+-..+.+.|++++|...|++..+... .+...|..+-.++...|++++|...+++..+.. +.+...+..+-.
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLDH-YDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            445556666777788888888888888776422 466777778888888888888888888887653 234556667777


Q ss_pred             HHhccCChHHHHHHHHHhhhc
Q 045403          109 HLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus       109 ~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +|...|++++|.+.+++....
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            888888888888888876543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.60  E-value=1.3e-06  Score=59.79  Aligned_cols=125  Identities=10%  Similarity=-0.035  Sum_probs=69.2

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCC---C--CHHHHHHHHHHHHhc-CCHHHHHHHHHHhhhCCCC-CC----HHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDK---Y--DVVLLNSMLCAYCRT-GDMESVIHVMRKLDELAIS-PD----YNTFHILI   72 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~---p--~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~g~~-p~----~~~~~~li   72 (144)
                      +|.+.|++++|+..|++..+....   +  -..+++.+-..|... |++++|...|++..+.... .+    ..++..+.
T Consensus        86 ~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg  165 (292)
T 1qqe_A           86 CFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCA  165 (292)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHH
Confidence            345556666666666665432111   0  134566666666664 7777777666665542100 01    23456666


Q ss_pred             HHHHHhCcHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           73 KYFRKEKMYMLAYRTMVDMHKKGHQPEE------ELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~------~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ..+...|++++|...+++..+.......      ..|..+..++...|++++|...+++...
T Consensus       166 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  227 (292)
T 1qqe_A          166 DLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQS  227 (292)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            6666777777777777766654322111      1345555666666777777777666543

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=98.60  E-value=1.1e-06  Score=62.82  Aligned_cols=124  Identities=6%  Similarity=-0.015  Sum_probs=103.9

Q ss_pred             hhhccCC-HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            4 AFCRGGC-FEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~-~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ++.+.|+ +++|+..|++..+..+. +...|+.+-.++...|++++|...|++..+..- -+...|..+-.++...|+++
T Consensus       140 ~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ldP-~~~~a~~~lg~~~~~~g~~~  217 (382)
T 2h6f_A          140 LLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLVEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWD  217 (382)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCT
T ss_pred             HHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcCChH
Confidence            4667786 99999999999987655 889999999999999999999999999987532 47789999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhc-cCChHHH-----HHHHHHhhhcC
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGK-MRAHSEA-----LCLQHVKDIAK  130 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~-~g~~~~a-----~~l~~~m~~~~  130 (144)
                      +|...+++..+.. .-+...|+.+..++.+ .|..++|     ...+++.....
T Consensus       218 eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~  270 (382)
T 2h6f_A          218 NELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV  270 (382)
T ss_dssp             THHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHC
Confidence            9999999999764 3367789889899888 6665777     47777755433

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.60  E-value=3.8e-06  Score=52.40  Aligned_cols=88  Identities=13%  Similarity=-0.033  Sum_probs=54.5

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+.+.|++++|++.|++..+.... +...|..+..++...|++++|...|++..+..- -+...|..+-.++...|++++
T Consensus        20 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~   97 (164)
T 3sz7_A           20 AAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVDP-KYSKAWSRLGLARFDMADYKG   97 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHccCHHH
Confidence            345566666666666666654333 556666666666666666666666666655321 245566666666666666666


Q ss_pred             HHHHHHHHHH
Q 045403           84 AYRTMVDMHK   93 (144)
Q Consensus        84 a~~~~~~m~~   93 (144)
                      |...+++..+
T Consensus        98 A~~~~~~al~  107 (164)
T 3sz7_A           98 AKEAYEKGIE  107 (164)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            6666666654

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.60  E-value=2.1e-06  Score=51.68  Aligned_cols=96  Identities=15%  Similarity=0.043  Sum_probs=52.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCC--CCCC----HHHHH
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKG--HQPE----EELCS  104 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~~~----~~~~~  104 (144)
                      ..+..+...+.+.|++++|...|++..+.. +-+...|..+-.+|.+.|++++|...+++..+..  ..++    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            345555566666666666666666655431 1244556666666666666666666666554321  1111    12444


Q ss_pred             HHHHHHhccCChHHHHHHHHHhh
Q 045403          105 SLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus       105 ~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      .+-.++...|++++|.+.|++..
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal  110 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSL  110 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHH
Confidence            45555666666666666666543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.59  E-value=2.9e-06  Score=51.84  Aligned_cols=89  Identities=8%  Similarity=-0.061  Sum_probs=77.7

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+.+.|++++|.+.|+......+. +...|..+-.++.+.|++++|...|++..+... -+...+..+-.++...|++++
T Consensus        27 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~  104 (142)
T 2xcb_A           27 NQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMDI-NEPRFPFHAAECHLQLGDLDG  104 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHHcCCHHH
Confidence            567889999999999999876544 788899999999999999999999999987532 456778889999999999999


Q ss_pred             HHHHHHHHHHC
Q 045403           84 AYRTMVDMHKK   94 (144)
Q Consensus        84 a~~~~~~m~~~   94 (144)
                      |...+++..+.
T Consensus       105 A~~~~~~al~~  115 (142)
T 2xcb_A          105 AESGFYSARAL  115 (142)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999998754

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.59  E-value=3.3e-06  Score=52.71  Aligned_cols=101  Identities=11%  Similarity=-0.153  Sum_probs=87.4

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 045403           28 YDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLI  107 (144)
Q Consensus        28 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~  107 (144)
                      .+...|..+...+.+.|++++|...|++..+..- -+...|..+..+|...|++++|...+++..+.. +-+...|..+-
T Consensus         9 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg   86 (164)
T 3sz7_A            9 PESDKLKSEGNAAMARKEYSKAIDLYTQALSIAP-ANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-cCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            4567888899999999999999999999887532 478889999999999999999999999998754 33577899999


Q ss_pred             HHHhccCChHHHHHHHHHhhhcC
Q 045403          108 FHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus       108 ~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      .+|.+.|++++|.+.+++.....
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC
Confidence            99999999999999999876543

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.59  E-value=4.9e-07  Score=69.03  Aligned_cols=122  Identities=11%  Similarity=-0.091  Sum_probs=104.7

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      .++.+.|++++|.+.|++..+.... +...|..+-.++...|++++|...|++..+..- -+...|..+-.++.+.|+++
T Consensus       441 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~lg~~~~~~g~~~  518 (681)
T 2pzi_A          441 RALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELLTGDYDSATKHFTEVLDTFP-GELAPKLALAATAELAGNTD  518 (681)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHHTCCC
T ss_pred             HHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCChH
Confidence            3577889999999999999886544 788999999999999999999999999887532 35678889999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      + ...+++..+.+ +-+...|..+-.++.+.|++++|.+.+++..+
T Consensus       519 ~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  562 (681)
T 2pzi_A          519 E-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTLDEVPP  562 (681)
T ss_dssp             T-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCT
T ss_pred             H-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHHHhhcc
Confidence            9 99999998753 33567888999999999999999999998764

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.59  E-value=1.8e-06  Score=53.45  Aligned_cols=89  Identities=10%  Similarity=0.031  Sum_probs=77.6

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+.+.|++++|...|+......+. +...|..+-.++...|++++|...|++..+..- -+...+..+-.++...|++++
T Consensus        30 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~~~~~~g~~~~  107 (148)
T 2vgx_A           30 NQYQSGXYEDAHXVFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI-XEPRFPFHAAECLLQXGELAE  107 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCChHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCHHH
Confidence            567899999999999999876544 888999999999999999999999999887532 356788889999999999999


Q ss_pred             HHHHHHHHHHC
Q 045403           84 AYRTMVDMHKK   94 (144)
Q Consensus        84 a~~~~~~m~~~   94 (144)
                      |...|++..+.
T Consensus       108 A~~~~~~al~~  118 (148)
T 2vgx_A          108 AESGLFLAQEL  118 (148)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998764

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.59  E-value=9e-07  Score=52.37  Aligned_cols=88  Identities=14%  Similarity=0.109  Sum_probs=42.2

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC--CCC----HHHHHHHHHHHHHh
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAI--SPD----YNTFHILIKYFRKE   78 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~p~----~~~~~~li~~~~~~   78 (144)
                      +.+.|++++|...|++..+... .+...+..+...+...|++++|...+++..+...  .++    ..++..+..++...
T Consensus        14 ~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~   92 (131)
T 1elr_A           14 AYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYFKE   92 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHhcCHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHHHHHHh
Confidence            3445555555555555544322 2444455555555555555555555555443211  111    34444555555555


Q ss_pred             CcHHHHHHHHHHHHH
Q 045403           79 KMYMLAYRTMVDMHK   93 (144)
Q Consensus        79 g~~~~a~~~~~~m~~   93 (144)
                      |++++|...+++..+
T Consensus        93 ~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           93 EKYKDAIHFYNKSLA  107 (131)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHH
Confidence            555555555555544

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.58  E-value=1e-05  Score=48.95  Aligned_cols=100  Identities=12%  Similarity=-0.065  Sum_probs=81.0

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC----HHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHH
Q 045403           28 YDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD----YNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELC  103 (144)
Q Consensus        28 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  103 (144)
                      .+...+..+...+...|++++|...|++..+.  .|+    ...|..+..++...|++++|...+++..+.. +.+...+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            46678888888889999999999999988764  465    5778888888999999999999998887642 2356777


Q ss_pred             HHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403          104 SSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus       104 ~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      ..+..++...|++++|.+.+++.....
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            888888899999999999999876543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.55  E-value=1.2e-05  Score=48.65  Aligned_cols=103  Identities=11%  Similarity=-0.048  Sum_probs=82.6

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHh
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYD----VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKE   78 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~   78 (144)
                      ..+.+.|++++|.+.|++..+.  .|+    ...|..+..++...|++++|...+++..+.. +.+...+..+..++...
T Consensus        36 ~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~  112 (148)
T 2dba_A           36 NELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYRRSQALEKL  112 (148)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHHHHHHHHHc
Confidence            3567889999999999999875  444    6888999999999999999999999987752 23678889999999999


Q ss_pred             CcHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045403           79 KMYMLAYRTMVDMHKKGHQPEEELCSSLIFH  109 (144)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~  109 (144)
                      |++++|...+++..+.. +.+...+..+...
T Consensus       113 ~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (148)
T 2dba_A          113 GRLDQAVLDLQRCVSLE-PKNKVFQEALRNI  142 (148)
T ss_dssp             TCHHHHHHHHHHHHHHC-SSCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcC-CCcHHHHHHHHHH
Confidence            99999999999998643 2234444444443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.55  E-value=2.5e-06  Score=50.96  Aligned_cols=94  Identities=6%  Similarity=-0.071  Sum_probs=62.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc
Q 045403           33 LNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGK  112 (144)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~  112 (144)
                      +-.+...+.+.|++++|...|++..+..- -+...|..+-.++...|++++|...+++..+.. +-+...+..+..++.+
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            44455666677777777777777765321 356667777777777777777777777776542 2245566667777777


Q ss_pred             cCChHHHHHHHHHhhh
Q 045403          113 MRAHSEALCLQHVKDI  128 (144)
Q Consensus       113 ~g~~~~a~~l~~~m~~  128 (144)
                      .|++++|...+++..+
T Consensus        98 ~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           98 EHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            7777777777776553

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.54  E-value=3.3e-06  Score=57.69  Aligned_cols=126  Identities=10%  Similarity=0.001  Sum_probs=95.5

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCC-CCCH----HHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCC-CC----HHHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYD-KYDV----VLLNSMLCAYCRTGDMESVIHVMRKLDELAIS-PD----YNTFHILI   72 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~-~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~----~~~~~~li   72 (144)
                      ..+.+.|++++|.+++++..+... .|+.    ..+..+...+...+++++|...|++..+.... +|    ..+++.+.
T Consensus        83 ~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg  162 (293)
T 3u3w_A           83 IMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIA  162 (293)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHH
Confidence            456788999999999999886432 2332    23445677777788999999999999874322 33    33689999


Q ss_pred             HHHHHhCcHHHHHHHHHHHHH----C-CCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           73 KYFRKEKMYMLAYRTMVDMHK----K-GHQPE-EELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~----~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ..|...|++++|...+++..+    . +..+. ..++..+..+|.+.|++++|.+.+++...
T Consensus       163 ~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~  224 (293)
T 3u3w_A          163 NIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIE  224 (293)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            999999999999999999873    2 22222 33778889999999999999999987543

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.53  E-value=5e-06  Score=49.91  Aligned_cols=89  Identities=13%  Similarity=0.041  Sum_probs=78.0

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|...|+......+. +...|..+..++...|++++|...+++..+... .+...+..+..++...|+++
T Consensus        17 ~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~   94 (137)
T 3q49_B           17 NRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQCQLEMESYD   94 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-hhHHHHHHHHHHHHHHhhHH
Confidence            3577899999999999998876544 688999999999999999999999999987532 46788999999999999999


Q ss_pred             HHHHHHHHHHH
Q 045403           83 LAYRTMVDMHK   93 (144)
Q Consensus        83 ~a~~~~~~m~~   93 (144)
                      +|...+++..+
T Consensus        95 ~A~~~~~~a~~  105 (137)
T 3q49_B           95 EAIANLQRAYS  105 (137)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999999875

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.52  E-value=6.3e-07  Score=53.04  Aligned_cols=104  Identities=8%  Similarity=-0.078  Sum_probs=75.7

Q ss_pred             ccCCHHHHHHHHHHHHhcC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKY--DKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      ..|++++|+..|++..+.+  -+.+...|..+..++...|++++|...|++..+... -+..++..+..++...|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFP-NHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHcCCHHHH
Confidence            4688999999999998764  233668888999999999999999999999887533 3577888899999999999999


Q ss_pred             HHHHHHHHHCC-CCCCHHHHHHHHHHHh
Q 045403           85 YRTMVDMHKKG-HQPEEELCSSLIFHLG  111 (144)
Q Consensus        85 ~~~~~~m~~~~-~~~~~~~~~~l~~~~~  111 (144)
                      ...+++..+.. -.|+...|...+..|.
T Consensus        81 ~~~~~~al~~~p~~~~~~~~~~ai~~~~  108 (117)
T 3k9i_A           81 VELLLKIIAETSDDETIQSYKQAILFYA  108 (117)
T ss_dssp             HHHHHHHHHHHCCCHHHHHTHHHHHHHT
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            99999887542 1223333444444443

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.50  E-value=1.7e-05  Score=48.83  Aligned_cols=101  Identities=12%  Similarity=-0.033  Sum_probs=85.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIF  108 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~  108 (144)
                      ....|..+...+...|++++|...|++..+... .+..++..+..++...|++++|...+++..+.. +.+...+..+..
T Consensus        12 ~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~   89 (166)
T 1a17_A           12 RAEELKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            346677888889999999999999999887532 468889999999999999999999999998753 346778888999


Q ss_pred             HHhccCChHHHHHHHHHhhhcCC
Q 045403          109 HLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus       109 ~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      ++.+.|++++|.+.+++.....+
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~p  112 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVKP  112 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHhccHHHHHHHHHHHHHhCC
Confidence            99999999999999999876443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.49  E-value=3.2e-06  Score=56.62  Aligned_cols=127  Identities=11%  Similarity=0.015  Sum_probs=97.2

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCC-C-CHHHHHHHHHHHHh--------cCCHHHHHHHHHHhhhCCCCCC-HHHH---
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDK-Y-DVVLLNSMLCAYCR--------TGDMESVIHVMRKLDELAISPD-YNTF---   68 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~-p-~~~~~~~li~~~~~--------~~~~~~a~~~~~~m~~~g~~p~-~~~~---   68 (144)
                      .+|.+.|++++|...|+...+..+. | ....+..+..++..        .|++++|...|++..+..  |+ ....   
T Consensus        60 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~  137 (261)
T 3qky_A           60 RAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDAT  137 (261)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHH
Confidence            4577899999999999999886442 2 24567778888888        999999999999998753  32 2223   


Q ss_pred             --------------HHHHHHHHHhCcHHHHHHHHHHHHHCCCC-C-CHHHHHHHHHHHhcc----------CChHHHHHH
Q 045403           69 --------------HILIKYFRKEKMYMLAYRTMVDMHKKGHQ-P-EEELCSSLIFHLGKM----------RAHSEALCL  122 (144)
Q Consensus        69 --------------~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~-~~~~~~~l~~~~~~~----------g~~~~a~~l  122 (144)
                                    ..+...|.+.|++++|...+++..+.... + ....+..+..+|.+.          |++++|...
T Consensus       138 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~  217 (261)
T 3qky_A          138 QKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVEL  217 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHH
Confidence                          45577899999999999999999864311 1 245677777788766          889999999


Q ss_pred             HHHhhhcCC
Q 045403          123 QHVKDIAKD  131 (144)
Q Consensus       123 ~~~m~~~~~  131 (144)
                      ++++....+
T Consensus       218 ~~~~~~~~p  226 (261)
T 3qky_A          218 YERLLQIFP  226 (261)
T ss_dssp             HHHHHHHCT
T ss_pred             HHHHHHHCC
Confidence            999876543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.48  E-value=2.4e-06  Score=58.47  Aligned_cols=127  Identities=7%  Similarity=-0.140  Sum_probs=97.6

Q ss_pred             hhhhccCCHHHHHHHHHHHHhc----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCC-CC----HHHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAK----YDKYD-VVLLNSMLCAYCRTGDMESVIHVMRKLDELAIS-PD----YNTFHILI   72 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~----~~~~~~li   72 (144)
                      ..|...|++++|.+.|++....    |-+++ ..+|+.+..+|.+.|++++|...|++..+.... .+    ..+++.+-
T Consensus        45 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  124 (292)
T 1qqe_A           45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (292)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3566789999999999887653    22222 578999999999999999999999887653111 11    35788888


Q ss_pred             HHHHHh-CcHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           73 KYFRKE-KMYMLAYRTMVDMHKKGHQ-PE----EELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        73 ~~~~~~-g~~~~a~~~~~~m~~~~~~-~~----~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ..|... |++++|...+++..+..-. .+    ..++..+...+.+.|++++|...+++....
T Consensus       125 ~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  187 (292)
T 1qqe_A          125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKS  187 (292)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            999996 9999999999998753110 11    346888899999999999999999997764

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.48  E-value=1.8e-05  Score=51.98  Aligned_cols=127  Identities=9%  Similarity=0.040  Sum_probs=91.7

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCC-CCH-HHHHHHHHHHHH--
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYD--VVLLNSMLCAYCRTGDMESVIHVMRKLDELAIS-PDY-NTFHILIKYFRK--   77 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~~-~~~~~li~~~~~--   77 (144)
                      .+.+.|++++|...|+++.+..+...  ...+..+..++.+.|++++|...|++..+..-. +.. .++-.+-.++..  
T Consensus        13 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~   92 (225)
T 2yhc_A           13 QKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALD   92 (225)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhh
Confidence            56788999999999999987644321  367888899999999999999999999875322 221 234444444443  


Q ss_pred             ----------------hCcHHHHHHHHHHHHHCCCCCCHH-HH-----------------HHHHHHHhccCChHHHHHHH
Q 045403           78 ----------------EKMYMLAYRTMVDMHKKGHQPEEE-LC-----------------SSLIFHLGKMRAHSEALCLQ  123 (144)
Q Consensus        78 ----------------~g~~~~a~~~~~~m~~~~~~~~~~-~~-----------------~~l~~~~~~~g~~~~a~~l~  123 (144)
                                      .|+.++|...|++..+.  .|+.. .+                 -.+...|.+.|++++|...+
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~  170 (225)
T 2yhc_A           93 DSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRV  170 (225)
T ss_dssp             C--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             hhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence                            57899999999999864  23321 22                 23455688899999999999


Q ss_pred             HHhhhcCCC
Q 045403          124 HVKDIAKDR  132 (144)
Q Consensus       124 ~~m~~~~~~  132 (144)
                      +++.+..+.
T Consensus       171 ~~~l~~~p~  179 (225)
T 2yhc_A          171 EGMLRDYPD  179 (225)
T ss_dssp             HHHHHHSTT
T ss_pred             HHHHHHCcC
Confidence            998765433

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.48  E-value=7.5e-06  Score=55.93  Aligned_cols=124  Identities=10%  Similarity=-0.032  Sum_probs=95.3

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-----CCCCC-HHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDK-YD----VVLLNSMLCAYCRTGDMESVIHVMRKLDEL-----AISPD-YNTFHILI   72 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g~~p~-~~~~~~li   72 (144)
                      .+...|++++|...|++..+.... ++    ..+++.+..+|...|++++|...|++..+.     +..+. ..++..+.
T Consensus       124 ~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg  203 (293)
T 3u3w_A          124 YVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHA  203 (293)
T ss_dssp             HHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHH
T ss_pred             HHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHH
Confidence            345678999999999999874322 23    347999999999999999999999998741     22222 23788899


Q ss_pred             HHHHHhCcHHHHHHHHHHHHH----CCCCCC-HHHHHHHHHHHhccCC-hHHHHHHHHHhh
Q 045403           73 KYFRKEKMYMLAYRTMVDMHK----KGHQPE-EELCSSLIFHLGKMRA-HSEALCLQHVKD  127 (144)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~----~~~~~~-~~~~~~l~~~~~~~g~-~~~a~~l~~~m~  127 (144)
                      ..|.+.|++++|...+++..+    .+..+. ...|..+-.+|.+.|+ .++|.+.+++..
T Consensus       204 ~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          204 KALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            999999999999999988763    233333 6688889999999994 688888887643

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.48  E-value=9.6e-06  Score=47.77  Aligned_cols=100  Identities=8%  Similarity=0.029  Sum_probs=83.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCC--CCC----HHHH
Q 045403           30 VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGH--QPE----EELC  103 (144)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~~~----~~~~  103 (144)
                      ...|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+...  .++    ..++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            4567888899999999999999999988753 35778899999999999999999999999875421  223    6678


Q ss_pred             HHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403          104 SSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus       104 ~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      ..+..++.+.|++++|.+.+++.....
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~  109 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEH  109 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            889999999999999999999977643

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.47  E-value=9e-06  Score=56.51  Aligned_cols=130  Identities=10%  Similarity=0.002  Sum_probs=95.0

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCC-----CHHHHHHHHHHHHh----cCCHHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKY-----DVVLLNSMLCAYCR----TGDMESVIHVMRKLDELAISPDYNTFHILI   72 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p-----~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~li   72 (144)
                      +..+.+.|+++.|.+.++.|.+.  .|     +-.+...+..++..    .+++.+|..+|+++.+.  .|+..+-..++
T Consensus       143 vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLl  218 (310)
T 3mv2_B          143 IEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLL  218 (310)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHH
Confidence            56788999999999999999875  55     35555666666332    33899999999998764  36645555666


Q ss_pred             HHHHHhCcHHHHHHHHHHHHHC-----CC---CC-CHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCCCcHHH
Q 045403           73 KYFRKEKMYMLAYRTMVDMHKK-----GH---QP-EEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPF  137 (144)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~-----~~---~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~~~~  137 (144)
                      .++.+.|++++|.+.++.+.+.     +-   .| +..+...+|......|+  +|.++++++.+..+..|+..
T Consensus       219 n~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~  290 (310)
T 3mv2_B          219 NLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIK  290 (310)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHH
Confidence            6999999999999999977642     11   14 55566456666666676  88999999998766665543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.47  E-value=1.9e-06  Score=52.68  Aligned_cols=126  Identities=17%  Similarity=0.059  Sum_probs=95.0

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC-CCC----HHHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDK-YD----VVLLNSMLCAYCRTGDMESVIHVMRKLDELAI-SPD----YNTFHILI   72 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~----~~~~~~li   72 (144)
                      ..+...|++++|.+.+++..+.... ++    ..++..+...+...|++++|...+++..+..- .++    ..++..+.
T Consensus        17 ~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~   96 (164)
T 3ro3_A           17 NTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLG   96 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHH
Confidence            3567789999999999997754221 11    25788899999999999999999998764311 122    45677888


Q ss_pred             HHHHHhCcHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           73 KYFRKEKMYMLAYRTMVDMHKK----GHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ..+...|++++|...+++..+.    +..+ ....+..+...+...|++++|.+.+++..+
T Consensus        97 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           97 NTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            8899999999999999888642    2111 234677788889999999999999998654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.46  E-value=2.6e-06  Score=54.46  Aligned_cols=121  Identities=9%  Similarity=-0.039  Sum_probs=69.6

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC----CCC-CCHHHHHHHHHHHHHhCc
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL----AIS-PDYNTFHILIKYFRKEKM   80 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~-p~~~~~~~li~~~~~~g~   80 (144)
                      ...|++++|.+.++.... .......+++.+-..+...|++++|...+++..+.    |.. ....++..+-..+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            356777777775444433 22235566777777777777777777777666541    111 123456666666777777


Q ss_pred             HHHHHHHHHHHHHC----CCCC--CHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           81 YMLAYRTMVDMHKK----GHQP--EEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        81 ~~~a~~~~~~m~~~----~~~~--~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      +++|...+++..+.    +-.|  ....+..+-..+...|++++|...+++..
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  134 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSL  134 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            77777777666532    1111  12345566666777777777777776644

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.46  E-value=1.4e-06  Score=55.81  Aligned_cols=126  Identities=11%  Similarity=-0.078  Sum_probs=94.6

Q ss_pred             hhhhccCCHHHHHHHHHHHHhc----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC--CCCCC----HHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAK----YD-KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL--AISPD----YNTFHIL   71 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~----~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~p~----~~~~~~l   71 (144)
                      ..+...|++++|...+++....    +. +....+++.+-..+...|++++|...+++..+.  ....+    ...+..+
T Consensus        34 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  113 (203)
T 3gw4_A           34 YVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEV  113 (203)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHH
Confidence            3567789999999999998762    12 234577888999999999999999999887653  12112    3457888


Q ss_pred             HHHHHHhCcHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           72 IKYFRKEKMYMLAYRTMVDMHKK----GHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        72 i~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      -..+...|++++|...+++..+.    +-.. ...++..+..++...|++++|.+.+++...
T Consensus       114 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          114 ATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            88899999999999999888632    2111 123457788889999999999999987544

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.45  E-value=2.5e-05  Score=57.62  Aligned_cols=119  Identities=10%  Similarity=0.021  Sum_probs=93.1

Q ss_pred             cCCHH-------HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC--HHHHHHHHHHHHHh
Q 045403            8 GGCFE-------EAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD--YNTFHILIKYFRKE   78 (144)
Q Consensus         8 ~g~~~-------~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~   78 (144)
                      .|+++       +|..+|+...+.-.+-+...|..+...+.+.|++++|..+|++..+.  .|+  ...|......+.+.
T Consensus       292 ~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~  369 (530)
T 2ooe_A          292 KGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRA  369 (530)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHH
T ss_pred             ccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHh
Confidence            68877       99999999886323447899999999999999999999999999884  454  25899999999999


Q ss_pred             CcHHHHHHHHHHHHHCCCCCCHHHHHHHHH-HHhccCChHHHHHHHHHhhhc
Q 045403           79 KMYMLAYRTMVDMHKKGHQPEEELCSSLIF-HLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~-~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      |+.++|..+|++..+.. ..+...|..... .+...|+.++|..+|++..+.
T Consensus       370 ~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~  420 (530)
T 2ooe_A          370 EGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK  420 (530)
T ss_dssp             HHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHH
Confidence            99999999999998652 223333332222 234689999999999987653

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.44  E-value=3.8e-06  Score=53.15  Aligned_cols=121  Identities=10%  Similarity=0.056  Sum_probs=90.0

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCc
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCA-YCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKM   80 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~   80 (144)
                      .++.+.|++++|...|+......+  +...+...... +.+.+...++...+++..+.  .| +...+..+...+...|+
T Consensus        48 ~~~~~~g~~~~A~~~~~~a~~~~p--~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~  123 (176)
T 2r5s_A           48 DCLLETKQFELAQELLATIPLEYQ--DNSYKSLIAKLELHQQAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGR  123 (176)
T ss_dssp             HHHHHTTCHHHHHHHHTTCCGGGC--CHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHCCCHHHHHHHHHHhhhccC--ChHHHHHHHHHHHHhhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHccc
Confidence            457789999999999999876533  44433332212 22222334567888887764  35 57889999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           81 YMLAYRTMVDMHKKGHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      +++|...+++..+....+ +...+..+..++...|+.++|...+++..
T Consensus       124 ~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A          124 DEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            999999999998764332 35688889999999999999999998754

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.42  E-value=8.9e-06  Score=55.83  Aligned_cols=125  Identities=10%  Similarity=0.036  Sum_probs=97.2

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCH----HHHHHHHHHHHHh
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDY----NTFHILIKYFRKE   78 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~   78 (144)
                      .++...|++++|.++|+.....+  |+....-++-..+.+.+++++|+..|+...+.   |+.    ..+..+-.++...
T Consensus       110 ~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~---~d~~~~~~a~~~LG~al~~L  184 (282)
T 4f3v_A          110 ACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW---PDKFLAGAAGVAHGVAAANL  184 (282)
T ss_dssp             HHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC---SCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc---CCcccHHHHHHHHHHHHHHC
Confidence            45778999999999999988754  33335566666899999999999999865543   333    3677778889999


Q ss_pred             CcHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHhccCChHHHHHHHHHhhhcCCC
Q 045403           79 KMYMLAYRTMVDMHKKGHQPE--EELCSSLIFHLGKMRAHSEALCLQHVKDIAKDR  132 (144)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~  132 (144)
                      |++++|...|++.......|.  .......-.++.+.|+.++|..+|+++....+.
T Consensus       185 G~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~  240 (282)
T 4f3v_A          185 ALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE  240 (282)
T ss_dssp             TCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC
T ss_pred             CCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc
Confidence            999999999999975443254  335566777888999999999999999875544

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.42  E-value=1.4e-05  Score=47.36  Aligned_cols=88  Identities=19%  Similarity=0.127  Sum_probs=60.5

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC----HHHHHHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDV---VLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD----YNTFHILIKYFR   76 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~li~~~~   76 (144)
                      .+.+.|++++|.+.|+...+..+. +.   ..+..+..++.+.|++++|...|++..+..  |+    ..++..+..++.
T Consensus        11 ~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la~~~~   87 (129)
T 2xev_A           11 DALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLGLSQY   87 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHH
Confidence            455677888888888877765333 22   466667777777788888888887776642  32    455666777777


Q ss_pred             HhCcHHHHHHHHHHHHHC
Q 045403           77 KEKMYMLAYRTMVDMHKK   94 (144)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~   94 (144)
                      ..|+.++|...+++..+.
T Consensus        88 ~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           88 GEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            778888887777777654

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.42  E-value=7.6e-06  Score=59.68  Aligned_cols=122  Identities=8%  Similarity=0.011  Sum_probs=97.7

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCC--------------HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYD--------------VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTF   68 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~--------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~   68 (144)
                      ..+.+.|++++|...|++..+......              ...|..+-.++.+.|++++|...+++..+..- .+...|
T Consensus       276 ~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~  354 (457)
T 1kt0_A          276 TVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDS-ANEKGL  354 (457)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-ccHHHH
Confidence            357789999999999999887533322              68999999999999999999999999987532 478889


Q ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHH-HHHHh
Q 045403           69 HILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALC-LQHVK  126 (144)
Q Consensus        69 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~-l~~~m  126 (144)
                      ..+-.+|...|++++|...|++..+.. +-+...+..+..++.+.|+.+++.+ +++.|
T Consensus       355 ~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  412 (457)
T 1kt0_A          355 YRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERDRRIYANM  412 (457)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999998653 2245678888888888888887664 44444

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.41  E-value=4.4e-06  Score=59.01  Aligned_cols=125  Identities=10%  Similarity=-0.102  Sum_probs=96.0

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCC------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC-CCC----HHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYD------KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAI-SPD----YNTFHILI   72 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~------~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~----~~~~~~li   72 (144)
                      +|...|++++|...+++..+...      +....+++.+...|...|++++|...|++..+..- .++    ..++..+-
T Consensus       152 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg  231 (383)
T 3ulq_A          152 SYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIG  231 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            56678888999888888765311      11246788899999999999999999988764311 122    24788899


Q ss_pred             HHHHHhCcHHHHHHHHHHHHHC----CC-CCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           73 KYFRKEKMYMLAYRTMVDMHKK----GH-QPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~----~~-~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ..|...|++++|...+++..+.    +. .....++..+..+|.+.|++++|.+.+++...
T Consensus       232 ~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  292 (383)
T 3ulq_A          232 LCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMA  292 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999988752    33 23456788899999999999999999998554

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.40  E-value=1.3e-05  Score=54.71  Aligned_cols=121  Identities=9%  Similarity=-0.034  Sum_probs=80.0

Q ss_pred             hhccCCHHHHHHHHHHHHhcCC---CCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-CCCCC-----HHHHHHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYD---KYD--VVLLNSMLCAYCRTGDMESVIHVMRKLDEL-AISPD-----YNTFHILIK   73 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~---~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p~-----~~~~~~li~   73 (144)
                      +...|++++|...+++..+...   .+.  ..+|+.+...|...|++++|...|++..+. ...|+     ..++..+..
T Consensus       125 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~  204 (293)
T 2qfc_A          125 VLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAK  204 (293)
T ss_dssp             HHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHH
T ss_pred             HhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHH
Confidence            4556788888888877664321   112  457778888888888888888888777621 01122     247777778


Q ss_pred             HHHHhCcHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHhccCChHHH-HHHHHH
Q 045403           74 YFRKEKMYMLAYRTMVDMHKK----GHQP-EEELCSSLIFHLGKMRAHSEA-LCLQHV  125 (144)
Q Consensus        74 ~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~l~~~~~~~g~~~~a-~~l~~~  125 (144)
                      .|...|++++|...+++..+.    +... -..+|..+-.+|.+.|+.++| ...+++
T Consensus       205 ~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~  262 (293)
T 2qfc_A          205 ALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKK  262 (293)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            888888888888888776532    1111 155677777788888888888 665554

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.40  E-value=2.5e-05  Score=51.28  Aligned_cols=123  Identities=10%  Similarity=0.081  Sum_probs=91.3

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHHh------------------cCCHHHHHHHHHHhhhCCCC
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDV--VLLNSMLCAYCR------------------TGDMESVIHVMRKLDELAIS   62 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~~~------------------~~~~~~a~~~~~~m~~~g~~   62 (144)
                      .++.+.|++++|+..|++..+..+....  ..+-.+..++..                  .|++++|...|++..+..  
T Consensus        49 ~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--  126 (225)
T 2yhc_A           49 YAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--  126 (225)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--
Confidence            4678899999999999999876544222  234344444433                  578999999999998752  


Q ss_pred             CCHH-HH-----------------HHHHHHHHHhCcHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHhccCChHHHH
Q 045403           63 PDYN-TF-----------------HILIKYFRKEKMYMLAYRTMVDMHKKGHQPE----EELCSSLIFHLGKMRAHSEAL  120 (144)
Q Consensus        63 p~~~-~~-----------------~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~  120 (144)
                      |+.. ++                 -.+...|.+.|++++|...++++.+.  .|+    ...+..+..+|.+.|+.++|.
T Consensus       127 P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~  204 (225)
T 2yhc_A          127 PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAE  204 (225)
T ss_dssp             TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHH
Confidence            3322 22                 23455688899999999999999864  243    246778999999999999999


Q ss_pred             HHHHHhhhc
Q 045403          121 CLQHVKDIA  129 (144)
Q Consensus       121 ~l~~~m~~~  129 (144)
                      +.++.+...
T Consensus       205 ~~~~~l~~~  213 (225)
T 2yhc_A          205 KVAKIIAAN  213 (225)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhh
Confidence            999988764

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.38  E-value=1.4e-05  Score=48.05  Aligned_cols=101  Identities=15%  Similarity=0.128  Sum_probs=81.1

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCC--CCCC----HHHHHHHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELA--ISPD----YNTFHILIKYFR   76 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~p~----~~~~~~li~~~~   76 (144)
                      ..+.+.|++++|++.|++..+..+. +...|+.+-.+|.+.|++++|...+++..+..  ..++    ..+|..+-.++.
T Consensus        16 ~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~   94 (127)
T 4gcn_A           16 NAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAGNAFQ   94 (127)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHHHHHH
Confidence            3577899999999999999886544 78899999999999999999999999987532  2222    236777888899


Q ss_pred             HhCcHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 045403           77 KEKMYMLAYRTMVDMHKKGHQPEEELCSSL  106 (144)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  106 (144)
                      ..|++++|...|++..+.  .|+..+...+
T Consensus        95 ~~~~~~~A~~~~~kal~~--~~~~~~~~~l  122 (127)
T 4gcn_A           95 KQNDLSLAVQWFHRSLSE--FRDPELVKKV  122 (127)
T ss_dssp             HTTCHHHHHHHHHHHHHH--SCCHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhh--CcCHHHHHHH
Confidence            999999999999998763  5787665443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.37  E-value=1.2e-05  Score=47.93  Aligned_cols=90  Identities=11%  Similarity=-0.056  Sum_probs=77.9

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|...|++..+..+. +...|..+-.++...|++++|...|++..+..- -+...+..+..++...|+++
T Consensus        25 ~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~~~~g~~~  102 (121)
T 1hxi_A           25 LSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTNEHNAN  102 (121)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHH
Confidence            3567899999999999999887544 888999999999999999999999999887532 36778899999999999999


Q ss_pred             HHHHHHHHHHHC
Q 045403           83 LAYRTMVDMHKK   94 (144)
Q Consensus        83 ~a~~~~~~m~~~   94 (144)
                      +|...+++..+.
T Consensus       103 ~A~~~~~~al~~  114 (121)
T 1hxi_A          103 AALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHh
Confidence            999999998753

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.36  E-value=5.1e-05  Score=51.76  Aligned_cols=126  Identities=10%  Similarity=-0.019  Sum_probs=94.0

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC---CCC--HHHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYD-----VVLLNSMLCAYCRTGDMESVIHVMRKLDELAI---SPD--YNTFHILI   72 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~---~p~--~~~~~~li   72 (144)
                      ..+...|++++|.+.+++..+.....+     ...+..+...+...|++++|...+++..+...   .+.  ..+++.+-
T Consensus        83 ~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg  162 (293)
T 2qfc_A           83 IMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIA  162 (293)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHH
Confidence            456788999999999998776533211     12344566667788999999999998875321   222  45889999


Q ss_pred             HHHHHhCcHHHHHHHHHHHHHC-CCCCC-----HHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           73 KYFRKEKMYMLAYRTMVDMHKK-GHQPE-----EELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~-~~~~~-----~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ..|...|++++|...+++..+. ...|+     ..++..+..+|.+.|++++|.+.+++...
T Consensus       163 ~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~  224 (293)
T 2qfc_A          163 NIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIE  224 (293)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHH
Confidence            9999999999999999988721 01122     25788899999999999999999997543

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.36  E-value=7.5e-06  Score=62.57  Aligned_cols=121  Identities=11%  Similarity=-0.099  Sum_probs=101.5

Q ss_pred             hccCCHHHHHHHHHHHH--------hcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH
Q 045403            6 CRGGCFEEAKQLARDFE--------AKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK   77 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~--------~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~   77 (144)
                      ...|++++|.+.+++..        +.. +.+...|..+..++.+.|++++|...|++..+..- -+...|..+-.++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVG-WRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCc-chHHHHHHHHHHHHH
Confidence            46799999999999987        432 34678899999999999999999999999987422 467889999999999


Q ss_pred             hCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403           78 EKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      .|++++|...|++..+.. +-+...+..+-.++.+.|++++ .+.+++..+..
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~  530 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN  530 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC
Confidence            999999999999998753 2356678889999999999999 99999876543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.36  E-value=9.5e-06  Score=57.27  Aligned_cols=126  Identities=10%  Similarity=-0.048  Sum_probs=97.3

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCC-----C-CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC----CCCC-CHHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYD-----K-YDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL----AISP-DYNTFHILI   72 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~-----~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~li   72 (144)
                      +|...|++++|...+++..+...     . ....+++.+-..|...|++++|...|++..+.    +-.+ ...++..+-
T Consensus       150 ~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg  229 (378)
T 3q15_A          150 AYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIA  229 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            56778999999999988765311     1 13567889999999999999999999887652    1111 234678888


Q ss_pred             HHHHHhCcHHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           73 KYFRKEKMYMLAYRTMVDMHKK----GHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~----~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      .+|...|++++|...+++..+.    +.+....++..+..+|.+.|+.++|...+++...-
T Consensus       230 ~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  290 (378)
T 3q15_A          230 NSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDH  290 (378)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            8999999999999999998761    22223667888999999999999999999986553

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.35  E-value=3.2e-06  Score=54.43  Aligned_cols=121  Identities=11%  Similarity=-0.040  Sum_probs=89.0

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC-CC---C-----------HHHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAI-SP---D-----------YNTFHIL   71 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p---~-----------~~~~~~l   71 (144)
                      ..|+++++.+.|+.-... .......+..+-..+...|++++|...|++..+..- .|   .           ...|..+
T Consensus        16 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   94 (198)
T 2fbn_A           16 NLYFQGAKKSIYDYTDEE-KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNL   94 (198)
T ss_dssp             ------CCCSGGGCCHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhccccCchhhCCHHH-HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHH
Confidence            345555555555532221 122456778888889999999999999999886421 12   1           2788889


Q ss_pred             HHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           72 IKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        72 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ..+|...|++++|...+++..+.. +.+...+..+..+|...|++++|.+.+++....
T Consensus        95 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A           95 ATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            999999999999999999998753 346778888999999999999999999987654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.35  E-value=3.8e-05  Score=45.43  Aligned_cols=93  Identities=13%  Similarity=0.044  Sum_probs=75.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhhhCCCCCCH---HHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCC----HHHHHHHH
Q 045403           35 SMLCAYCRTGDMESVIHVMRKLDELAISPDY---NTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPE----EELCSSLI  107 (144)
Q Consensus        35 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~l~  107 (144)
                      .+...+...|++++|...|++..+..- .+.   ..+..+..++...|++++|...+++..+..  |+    ...+..+.
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la   83 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYP-NGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCS-SSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCC-CCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHH
Confidence            455677889999999999999987532 122   477788889999999999999999998753  33    56677888


Q ss_pred             HHHhccCChHHHHHHHHHhhhcC
Q 045403          108 FHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus       108 ~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      .++.+.|+.++|.+.+++.....
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC
Confidence            89999999999999999987644

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.35  E-value=1.1e-05  Score=57.45  Aligned_cols=117  Identities=9%  Similarity=0.064  Sum_probs=91.9

Q ss_pred             hhhhccCCHHHHHHHHHHHHhc---------------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAK---------------YDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNT   67 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~---------------~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~   67 (144)
                      ..+.+.|++++|.+.|++..+.               --+.+..+|+.+-.++.+.|++++|...+++..+..- -+...
T Consensus       231 ~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p-~~~~a  309 (370)
T 1ihg_A          231 NTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP-SNTKA  309 (370)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TCHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCc-hhHHH
Confidence            3567889999999999998761               1123567889999999999999999999999887532 46788


Q ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHH
Q 045403           68 FHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALC  121 (144)
Q Consensus        68 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  121 (144)
                      +..+-.+|...|++++|...+++..+.. +-+...+..+..++.+.++.+++.+
T Consensus       310 ~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          310 LYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999998653 2356677777777777766666543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.32  E-value=4.3e-06  Score=58.76  Aligned_cols=126  Identities=17%  Similarity=0.038  Sum_probs=95.8

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC-CCC----HHHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYD-KYD----VVLLNSMLCAYCRTGDMESVIHVMRKLDELAI-SPD----YNTFHILI   72 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~-~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~----~~~~~~li   72 (144)
                      ..+...|++++|.+.+++..+... .++    ..++..+...+...|++++|...+++..+... .++    ..++..+.
T Consensus       195 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  274 (406)
T 3sf4_A          195 NTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLG  274 (406)
T ss_dssp             HHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHH
Confidence            456778999999999999765311 112    34788999999999999999999998764311 112    45788889


Q ss_pred             HHHHHhCcHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           73 KYFRKEKMYMLAYRTMVDMHKK----GHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ..|...|++++|...+++..+.    +-.+ ...++..+..+|.+.|++++|.+.+++..+
T Consensus       275 ~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          275 NTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999999999999988642    1111 155777888999999999999999998544

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.30  E-value=5.3e-05  Score=48.77  Aligned_cols=92  Identities=9%  Similarity=-0.052  Sum_probs=77.7

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCC--------------C-CHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAIS--------------P-DYNT   67 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~--------------p-~~~~   67 (144)
                      .++.+.|++++|.+.|++..+... .+...|..+..++...|++++|...|++..+..-.              | +...
T Consensus        45 ~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~  123 (213)
T 1hh8_A           45 CMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEV  123 (213)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHH
Confidence            457789999999999999987653 37889999999999999999999999999874221              1 2367


Q ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHCC
Q 045403           68 FHILIKYFRKEKMYMLAYRTMVDMHKKG   95 (144)
Q Consensus        68 ~~~li~~~~~~g~~~~a~~~~~~m~~~~   95 (144)
                      +..+..++...|++++|...+++..+..
T Consensus       124 ~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A          124 LYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            8889999999999999999999998653

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.29  E-value=6.2e-06  Score=60.86  Aligned_cols=125  Identities=14%  Similarity=0.050  Sum_probs=96.2

Q ss_pred             hhccCCHHHHHHHHHHHHhc-----CC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-----CC-CCC-HHHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAK-----YD-KY-DVVLLNSMLCAYCRTGDMESVIHVMRKLDEL-----AI-SPD-YNTFHI   70 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~-----~~-~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g~-~p~-~~~~~~   70 (144)
                      +...|++++|..++++..+.     |. .| ...+++.|..+|...|++++|..++++..+-     |- .|+ ..+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            55789999999999987653     22 12 3478999999999999999999999887632     32 233 345899


Q ss_pred             HHHHHHHhCcHHHHHHHHHHHHH-----CCC-CC-CHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           71 LIKYFRKEKMYMLAYRTMVDMHK-----KGH-QP-EEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        71 li~~~~~~g~~~~a~~~~~~m~~-----~~~-~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      |-..|...|++++|..++++..+     .|- .| ...+.+.+-.++.+.|.+.+|..+++++++.
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999888763     232 22 2345566777888899999999999998875

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.28  E-value=4.7e-06  Score=56.73  Aligned_cols=126  Identities=16%  Similarity=0.041  Sum_probs=94.4

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCC-----CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC-CCC----HHHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYD-----KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAI-SPD----YNTFHILI   72 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~-----~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~----~~~~~~li   72 (144)
                      ..+...|++++|.+.+++..+...     .....++..+...+...|++++|...+++..+... .++    ..++..+.
T Consensus       191 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  270 (338)
T 3ro2_A          191 NTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLG  270 (338)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHH
Confidence            356778999999999998765311     11234788889999999999999999988764311 122    45678888


Q ss_pred             HHHHHhCcHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           73 KYFRKEKMYMLAYRTMVDMHKK----GHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ..+...|++++|...+++..+.    +-.+ ...++..+...|.+.|++++|.+.+++...
T Consensus       271 ~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          271 NTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            8999999999999999888642    1111 244677888999999999999999998764

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.28  E-value=2e-06  Score=60.92  Aligned_cols=124  Identities=11%  Similarity=0.004  Sum_probs=97.3

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHhhhC----CC-CCCHHHHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDV----VLLNSMLCAYCRTGDMESVIHVMRKLDEL----AI-SPDYNTFHILIKY   74 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~-~p~~~~~~~li~~   74 (144)
                      .+.+.|++++|.+.|++..+.... +.    ..|..+...+...|++++|...+++..+.    +- .....++..+...
T Consensus        57 ~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~  135 (411)
T 4a1s_A           57 RLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNT  135 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHH
Confidence            567889999999999999886443 33    57889999999999999999999987643    11 1234578888899


Q ss_pred             HHHhCcHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHhccCC-----------------hHHHHHHHHHhhh
Q 045403           75 FRKEKMYMLAYRTMVDMHKK----GHQ-PEEELCSSLIFHLGKMRA-----------------HSEALCLQHVKDI  128 (144)
Q Consensus        75 ~~~~g~~~~a~~~~~~m~~~----~~~-~~~~~~~~l~~~~~~~g~-----------------~~~a~~l~~~m~~  128 (144)
                      |...|++++|...+++..+.    +-. ....++..+...|...|+                 +++|.+.+++...
T Consensus       136 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~  211 (411)
T 4a1s_A          136 LKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLK  211 (411)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHH
Confidence            99999999999999887643    111 234477788889999999                 9999999887543

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.27  E-value=5.5e-05  Score=51.56  Aligned_cols=89  Identities=13%  Similarity=0.041  Sum_probs=70.0

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ..+.+.|++++|...|++..+..+. +...|..+..++...|++++|...+++..+..- -+...+..+..++...|+++
T Consensus        12 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~   89 (281)
T 2c2l_A           12 NRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQCQLEMESYD   89 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHH
Confidence            3566788888888888888776433 778888888888888888888888888776422 35677888888888888888


Q ss_pred             HHHHHHHHHHH
Q 045403           83 LAYRTMVDMHK   93 (144)
Q Consensus        83 ~a~~~~~~m~~   93 (144)
                      +|...+++..+
T Consensus        90 ~A~~~~~~al~  100 (281)
T 2c2l_A           90 EAIANLQRAYS  100 (281)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            88888888764

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.25  E-value=2.7e-06  Score=50.24  Aligned_cols=88  Identities=13%  Similarity=-0.046  Sum_probs=69.4

Q ss_pred             hcCCHHHHHHHHHHhhhCCC--CCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHH
Q 045403           42 RTGDMESVIHVMRKLDELAI--SPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEA  119 (144)
Q Consensus        42 ~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a  119 (144)
                      ..|++++|...|++..+.+.  +-+...+..+..+|...|++++|...+++..+.. +-+...+..+..++.+.|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHH
Confidence            35788999999999988642  2345678889999999999999999999998753 23577888899999999999999


Q ss_pred             HHHHHHhhhcC
Q 045403          120 LCLQHVKDIAK  130 (144)
Q Consensus       120 ~~l~~~m~~~~  130 (144)
                      ...+++.....
T Consensus        81 ~~~~~~al~~~   91 (117)
T 3k9i_A           81 VELLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            99999876543

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.25  E-value=8.6e-05  Score=48.39  Aligned_cols=117  Identities=13%  Similarity=0.031  Sum_probs=67.2

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC----CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH---
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTG----DMESVIHVMRKLDELAISPDYNTFHILIKYFRK---   77 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~---   77 (144)
                      |.+.+++++|.+.|++..+.|   +...+..+-..|.. +    ++++|...|++..+.|   +...+..+-..|..   
T Consensus        28 ~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg~~y~~g~g  100 (212)
T 3rjv_A           28 WVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIVLARVLVNRQA  100 (212)
T ss_dssp             HHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHTCGGG
T ss_pred             HhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCC
Confidence            444566777777777666543   44555555555555 4    6666777666665543   34455555555554   


Q ss_pred             -hCcHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHhc----cCChHHHHHHHHHhhh
Q 045403           78 -EKMYMLAYRTMVDMHKKGHQ-PEEELCSSLIFHLGK----MRAHSEALCLQHVKDI  128 (144)
Q Consensus        78 -~g~~~~a~~~~~~m~~~~~~-~~~~~~~~l~~~~~~----~g~~~~a~~l~~~m~~  128 (144)
                       .++.++|..++++..+.|.. .....+..|-..|.+    .++.++|..++++..+
T Consensus       101 ~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~  157 (212)
T 3rjv_A          101 GATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSS  157 (212)
T ss_dssp             SSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH
T ss_pred             CccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence             55666666666666654321 014455555555555    5566666666666543

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.24  E-value=1e-05  Score=55.72  Aligned_cols=123  Identities=8%  Similarity=-0.035  Sum_probs=82.1

Q ss_pred             hhhccCCHHHHHHHHHHHHhc----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCC---C--CHHHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAK----YDK-YDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAIS---P--DYNTFHILIK   73 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~----~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~---p--~~~~~~~li~   73 (144)
                      +|.+.|++++|...|++..+.    |-. .-..+++.+-..|.. |++++|...|++..+..-.   +  ...++..+..
T Consensus        85 ~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~  163 (307)
T 2ifu_A           85 MLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASR  163 (307)
T ss_dssp             HHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            455667888888888776543    111 123567777788877 8888888888876642110   0  1356777888


Q ss_pred             HHHHhCcHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           74 YFRKEKMYMLAYRTMVDMHKK----GHQPE-EELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        74 ~~~~~g~~~~a~~~~~~m~~~----~~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      .|...|++++|...+++..+.    +..+. ...+..+..++...|++++|...+++..
T Consensus       164 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          164 LLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            888888888888888887642    21111 2255566667777788888888888865

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.24  E-value=4.7e-06  Score=56.74  Aligned_cols=125  Identities=9%  Similarity=-0.083  Sum_probs=96.8

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHhhhC----CCCC-CHHHHHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYD---VVLLNSMLCAYCRTGDMESVIHVMRKLDEL----AISP-DYNTFHILIKYF   75 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~   75 (144)
                      .+.+.|++++|...|++..+......   ...+..+...+...|++++|...+++..+.    +-.| ...++..+...+
T Consensus        14 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~   93 (338)
T 3ro2_A           14 RLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTL   93 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHH
Confidence            56788999999999999988643311   478889999999999999999999886542    2122 245788888999


Q ss_pred             HHhCcHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhccCC--------------------hHHHHHHHHHhhh
Q 045403           76 RKEKMYMLAYRTMVDMHKKGH-QPE----EELCSSLIFHLGKMRA--------------------HSEALCLQHVKDI  128 (144)
Q Consensus        76 ~~~g~~~~a~~~~~~m~~~~~-~~~----~~~~~~l~~~~~~~g~--------------------~~~a~~l~~~m~~  128 (144)
                      ...|++++|...+++..+..- .++    ..++..+...+...|+                    +++|.+.+++...
T Consensus        94 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~  171 (338)
T 3ro2_A           94 KVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLS  171 (338)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            999999999999998764210 122    3477788889999999                    9999999887543

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.24  E-value=5.6e-05  Score=52.89  Aligned_cols=101  Identities=9%  Similarity=-0.073  Sum_probs=86.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC--------------HHHHHHHHHHHHHhCcHHHHHHHHHHHHHC
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD--------------YNTFHILIKYFRKEKMYMLAYRTMVDMHKK   94 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   94 (144)
                      +...|..+-..+.+.|++++|...|++..+..-...              ..+|..+-.+|.+.|++++|...+++..+.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            567888999999999999999999999887532221              588999999999999999999999999875


Q ss_pred             CCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcC
Q 045403           95 GHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        95 ~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      . +.+...+..+-.+|.+.|++++|...|++..+..
T Consensus       226 ~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~  260 (336)
T 1p5q_A          226 D-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY  260 (336)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             C-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            3 3467789999999999999999999999977643

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.24  E-value=2e-05  Score=48.92  Aligned_cols=90  Identities=13%  Similarity=0.074  Sum_probs=74.0

Q ss_pred             hhhccCCHHHHHHHHHHHHhc--------C---------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAK--------Y---------DKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYN   66 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~--------~---------~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~   66 (144)
                      .+.+.|++++|+..|++....        .         -+-+...|..+..++.+.|++++|...+++..+.. +.+..
T Consensus        20 ~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~   98 (162)
T 3rkv_A           20 ELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEK   98 (162)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchH
Confidence            567889999999999998764        1         11234788889999999999999999999988753 24677


Q ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHC
Q 045403           67 TFHILIKYFRKEKMYMLAYRTMVDMHKK   94 (144)
Q Consensus        67 ~~~~li~~~~~~g~~~~a~~~~~~m~~~   94 (144)
                      .|..+-.++...|++++|...+++..+.
T Consensus        99 a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           99 ALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            8999999999999999999999998865

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.24  E-value=2.3e-05  Score=49.26  Aligned_cols=91  Identities=9%  Similarity=0.048  Sum_probs=77.0

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH-HHhcCCH--HHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhC
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCA-YCRTGDM--ESVIHVMRKLDELAISPDYNTFHILIKYFRKEK   79 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~--~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g   79 (144)
                      .+|...|++++|...|++..+..+. +...+..+..+ +...|++  ++|...+++..+... -+...+..+...+...|
T Consensus        52 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g  129 (177)
T 2e2e_A           52 EYYLWQNDYSNSLLAYRQALQLRGE-NAELYAALATVLYYQASQHMTAQTRAMIDKALALDS-NEITALMLLASDAFMQA  129 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcc
Confidence            4567889999999999998876544 67788888888 7788998  999999999987532 45778889999999999


Q ss_pred             cHHHHHHHHHHHHHCC
Q 045403           80 MYMLAYRTMVDMHKKG   95 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~   95 (144)
                      ++++|...+++..+..
T Consensus       130 ~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A          130 NYAQAIELWQKVMDLN  145 (177)
T ss_dssp             CHHHHHHHHHHHHHTC
T ss_pred             cHHHHHHHHHHHHhhC
Confidence            9999999999998753

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.23  E-value=4.5e-05  Score=51.98  Aligned_cols=98  Identities=7%  Similarity=-0.199  Sum_probs=81.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIF  108 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~  108 (144)
                      +...+..+...+...|++++|...|++..+..- -+...|..+..+|...|++++|...+++..+.. +-+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            566778888899999999999999999887522 377889999999999999999999999988653 335678888899


Q ss_pred             HHhccCChHHHHHHHHHhhh
Q 045403          109 HLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       109 ~~~~~g~~~~a~~l~~~m~~  128 (144)
                      +|.+.|++++|...+++...
T Consensus        81 ~~~~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYS  100 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            99999999999999987554

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.22  E-value=8.5e-06  Score=55.73  Aligned_cols=122  Identities=7%  Similarity=-0.064  Sum_probs=95.1

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHH-HHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLN-SMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMY   81 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~-~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~   81 (144)
                      .++.+.|++++|.+.+++.....  |+..... .....+.+.++.++|...+++..+.. +.+...+..+-..+...|++
T Consensus       159 ~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~  235 (287)
T 3qou_A          159 ETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVAQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRN  235 (287)
T ss_dssp             HHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHHHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccH
Confidence            46778999999999999987653  4443333 33333667777888899998887653 24678899999999999999


Q ss_pred             HHHHHHHHHHHHCCCC-CCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           82 MLAYRTMVDMHKKGHQ-PEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        82 ~~a~~~~~~m~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      ++|...+.+..+..-. .+...+..+...|...|+.++|...+++-.
T Consensus       236 ~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          236 EEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            9999999999975321 126688999999999999999999888743

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.21  E-value=3.9e-05  Score=54.13  Aligned_cols=122  Identities=12%  Similarity=0.034  Sum_probs=87.4

Q ss_pred             hhhccCCHHHHHHHHHHHHhc----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC----CCCCCHHHHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAK----YDK-YDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL----AISPDYNTFHILIKY   74 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~----~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~~~~~~~li~~   74 (144)
                      +|...|++++|.+.|++..+.    +.+ ....+++.+-..|...|++++|...+++..+.    +-+....++..+...
T Consensus       191 ~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  270 (378)
T 3q15_A          191 NYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWT  270 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHH
Confidence            567789999999999887653    111 12357888899999999999999999888761    222336778888999


Q ss_pred             HHHhCcHHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHhccCC---hHHHHHHHHH
Q 045403           75 FRKEKMYMLAYRTMVDMHKK----GHQPEEELCSSLIFHLGKMRA---HSEALCLQHV  125 (144)
Q Consensus        75 ~~~~g~~~~a~~~~~~m~~~----~~~~~~~~~~~l~~~~~~~g~---~~~a~~l~~~  125 (144)
                      +.+.|+.++|...+++..+.    +-......+..+-..|...|+   +.+|...+++
T Consensus       271 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~  328 (378)
T 3q15_A          271 LCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK  328 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh
Confidence            99999999999999988753    112223345555566666676   6666666665

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.21  E-value=2.2e-05  Score=55.40  Aligned_cols=124  Identities=10%  Similarity=-0.093  Sum_probs=87.0

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCC-C----CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC----CC-CCCHHHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDK-Y----DVVLLNSMLCAYCRTGDMESVIHVMRKLDEL----AI-SPDYNTFHILI   72 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~-p----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~-~p~~~~~~~li   72 (144)
                      .+|...|++++|.+.|++..+.... +    ...+++.+...|...|++++|...+++..+.    +- +....++..+.
T Consensus       192 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  271 (383)
T 3ulq_A          192 TNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLIT  271 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHH
Confidence            3567789999999999987653111 1    1257888999999999999999999888762    22 33466788899


Q ss_pred             HHHHHhCcHHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHhccCC---hHHHHHHHHHh
Q 045403           73 KYFRKEKMYMLAYRTMVDMHKK----GHQPEEELCSSLIFHLGKMRA---HSEALCLQHVK  126 (144)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~----~~~~~~~~~~~l~~~~~~~g~---~~~a~~l~~~m  126 (144)
                      ..+.+.|++++|...+++..+.    +-......+..+-..|.+.|+   +++|..++++.
T Consensus       272 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~  332 (383)
T 3ulq_A          272 QIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK  332 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC
Confidence            9999999999999998887642    111112234556666666666   56666666554

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.21  E-value=8.9e-06  Score=57.03  Aligned_cols=122  Identities=10%  Similarity=-0.102  Sum_probs=74.6

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHH------------------HHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVV------------------LLNSMLCAYCRTGDMESVIHVMRKLDELAISPD   64 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~------------------~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~   64 (144)
                      ..+.+.|++++|...|++....  .|+..                  .|+.+-.++.+.|++++|...+++..+.. +.+
T Consensus       187 ~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~  263 (338)
T 2if4_A          187 NSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTEE-EKN  263 (338)
T ss_dssp             HHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCC
Confidence            3567889999999999998764  34432                  78899999999999999999999988753 246


Q ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCC-HHHHHHHHHH-HhccCChHHHHHHHHHhhhc
Q 045403           65 YNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPE-EELCSSLIFH-LGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        65 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~-~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ...|..+-.+|...|++++|...|++..+.  .|+ ...+..+... ....+..+++..++..+-..
T Consensus       264 ~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          264 PKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------------------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence            788999999999999999999999998753  343 3344444444 23456777888888887643

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.19  E-value=7e-05  Score=46.43  Aligned_cols=100  Identities=11%  Similarity=-0.091  Sum_probs=82.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC--------C---------CCCCHHHHHHHHHHHHHhCcHHHHHHHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDEL--------A---------ISPDYNTFHILIKYFRKEKMYMLAYRTMVDM   91 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------g---------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m   91 (144)
                      ....+......+.+.|++++|...|.+..+.        .         -+.+...|..+..+|.+.|++++|...+++.
T Consensus        10 ~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~a   89 (162)
T 3rkv_A           10 SVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEV   89 (162)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            3456777888899999999999999988764        0         0123367889999999999999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           92 HKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        92 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      .+.. +.+...|..+-.+|...|++++|...+++...-
T Consensus        90 l~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           90 LKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            8753 346778889999999999999999999987654

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.19  E-value=0.00012  Score=44.57  Aligned_cols=117  Identities=10%  Similarity=-0.019  Sum_probs=94.6

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH----
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK----   77 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----   77 (144)
                      ..+....+++++|.+.|++..+.|.+ +..    +-..|...+..++|...|++..+.|   +...+..+-..|..    
T Consensus         2 ~~G~g~~~d~~~A~~~~~~aa~~g~~-~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~   73 (138)
T 1klx_A            2 VGGGTVKKDLKKAIQYYVKACELNEM-FGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYV   73 (138)
T ss_dssp             -CCSSHHHHHHHHHHHHHHHHHTTCT-THH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSS
T ss_pred             CCCcCCccCHHHHHHHHHHHHcCCCH-hhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCC
Confidence            34556677899999999999888733 333    6667777778999999999998864   56788888888887    


Q ss_pred             hCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHhhhc
Q 045403           78 EKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGK----MRAHSEALCLQHVKDIA  129 (144)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~l~~~m~~~  129 (144)
                      .++.++|..+|++..+.|   +...+..|-..|..    .++.++|.+++++-.+.
T Consensus        74 ~~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           74 KKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             CccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence            889999999999999876   56677778888887    89999999999987654

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=98.17  E-value=0.0004  Score=50.70  Aligned_cols=15  Identities=20%  Similarity=0.149  Sum_probs=6.2

Q ss_pred             CCHHHHHHHHHHhhh
Q 045403           44 GDMESVIHVMRKLDE   58 (144)
Q Consensus        44 ~~~~~a~~~~~~m~~   58 (144)
                      +++++|...|++..+
T Consensus       129 ~~~~~A~~~~~~a~~  143 (490)
T 2xm6_A          129 VDKAESVKWFRLAAE  143 (490)
T ss_dssp             CCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            344444444444333

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.17  E-value=5.9e-05  Score=48.98  Aligned_cols=95  Identities=14%  Similarity=0.072  Sum_probs=77.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC-HHHHHH----------------HHHHHHHhCcHHHHHHHHHHHHHCCC
Q 045403           34 NSMLCAYCRTGDMESVIHVMRKLDELAISPD-YNTFHI----------------LIKYFRKEKMYMLAYRTMVDMHKKGH   96 (144)
Q Consensus        34 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~----------------li~~~~~~g~~~~a~~~~~~m~~~~~   96 (144)
                      -.....+...|++++|...|++..+.  .|+ ...|..                +-.++.+.|++++|...+++..+.. 
T Consensus         8 ~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-   84 (208)
T 3urz_A            8 LQKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-   84 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-
Confidence            33445677899999999999998874  343 345666                8889999999999999999998753 


Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           97 QPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        97 ~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      +-+...+..+-.++.+.|++++|...+++..+..+
T Consensus        85 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P  119 (208)
T 3urz_A           85 PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEA  119 (208)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Confidence            33677899999999999999999999999876443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.13  E-value=7.2e-06  Score=58.02  Aligned_cols=125  Identities=10%  Similarity=-0.001  Sum_probs=77.6

Q ss_pred             hhhccCCHHHHHHHHHHHHhc----C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC----CCC-CCHHHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAK----Y-DKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL----AIS-PDYNTFHILIK   73 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~----~-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~-p~~~~~~~li~   73 (144)
                      +|...|++++|.+.+++..+.    + .+....++..+...|...|++++|...+++..+.    +-. ....++..+..
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~  174 (411)
T 4a1s_A           95 AYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGN  174 (411)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHH
Confidence            456677888888877776543    1 1224466777777777778888877777776542    111 12335666777


Q ss_pred             HHHHhCc-----------------HHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           74 YFRKEKM-----------------YMLAYRTMVDMHKK----GHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        74 ~~~~~g~-----------------~~~a~~~~~~m~~~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .|...|+                 +++|...+++..+.    +-.+ ....+..+...|...|++++|.+.+++...
T Consensus       175 ~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  251 (411)
T 4a1s_A          175 VYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLR  251 (411)
T ss_dssp             HHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            7777777                 77777777665431    1111 223556666677777777777777776543

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.10  E-value=1.9e-05  Score=54.34  Aligned_cols=126  Identities=13%  Similarity=-0.007  Sum_probs=93.2

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCC----C-CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC--CC-CCC--HHHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYD----K-YDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL--AI-SPD--YNTFHILI   72 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~----~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~-~p~--~~~~~~li   72 (144)
                      ..|...|++++|...|++......    . .-..+|+.+...|.+.|++++|...|++..+.  .. .|+  ..++..+-
T Consensus        44 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  123 (307)
T 2ifu_A           44 VAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAG  123 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            346677899999988888764311    1 12468889999999999999999999886542  11 121  35677888


Q ss_pred             HHHHHhCcHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           73 KYFRKEKMYMLAYRTMVDMHKK----GHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ..|.. |++++|...+++..+.    |-.+ ...++..+...|.+.|++++|...+++....
T Consensus       124 ~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  184 (307)
T 2ifu_A          124 KLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSM  184 (307)
T ss_dssp             HHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            88888 9999999999988642    1111 1457888899999999999999999986653

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.09  E-value=1.9e-05  Score=55.37  Aligned_cols=125  Identities=8%  Similarity=-0.088  Sum_probs=96.6

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHhhhC----CCCC-CHHHHHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYD---VVLLNSMLCAYCRTGDMESVIHVMRKLDEL----AISP-DYNTFHILIKYF   75 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~   75 (144)
                      .+.+.|++++|...|++..+......   ..+|..+...+...|++++|...+++..+.    +-.| ...++..+...+
T Consensus        18 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~   97 (406)
T 3sf4_A           18 RLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTL   97 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            56788999999999999988643311   367889999999999999999999886532    2222 245688888899


Q ss_pred             HHhCcHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhccCC--------------------hHHHHHHHHHhhh
Q 045403           76 RKEKMYMLAYRTMVDMHKKGH-QPE----EELCSSLIFHLGKMRA--------------------HSEALCLQHVKDI  128 (144)
Q Consensus        76 ~~~g~~~~a~~~~~~m~~~~~-~~~----~~~~~~l~~~~~~~g~--------------------~~~a~~l~~~m~~  128 (144)
                      ...|++++|...+++..+..- .++    ..++..+...|...|+                    +++|.+.+++...
T Consensus        98 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~  175 (406)
T 3sf4_A           98 KVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLS  175 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            999999999999988864210 112    4478888889999999                    9999999887543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.08  E-value=8.9e-06  Score=46.89  Aligned_cols=95  Identities=9%  Similarity=-0.018  Sum_probs=69.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCC-------HH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPE-------EE  101 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-------~~  101 (144)
                      +...|..+...+...|++++|...|++..+.. +.+...|..+-.++...|++++|...+++..+.  .|+       ..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~   79 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTAEHVAIRSK   79 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSSTTSHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCccHHHHHHH
Confidence            55677888888889999999999998887652 246778888888999999999999999988864  343       34


Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHh
Q 045403          102 LCSSLIFHLGKMRAHSEALCLQHVK  126 (144)
Q Consensus       102 ~~~~l~~~~~~~g~~~~a~~l~~~m  126 (144)
                      .+..+-.++...|+.+.|.+.++++
T Consensus        80 ~~~~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           80 LQYRLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHHHHHHHhHhhhHhHHHHh
Confidence            4555555666666666555544433

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=98.06  E-value=0.00087  Score=48.88  Aligned_cols=113  Identities=9%  Similarity=-0.130  Sum_probs=92.2

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH----hC
Q 045403            8 GGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK----EK   79 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g   79 (144)
                      .+++++|...|++..+.|   +...+..+-..|..    .+++++|...|++..+.|   +...+..+-..|..    .+
T Consensus        56 ~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~  129 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKV  129 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC
T ss_pred             CcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCC
Confidence            789999999999988753   56778888888888    899999999999998865   56777778888877    78


Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHhhhc
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGK----MRAHSEALCLQHVKDIA  129 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~l~~~m~~~  129 (144)
                      +.++|..+|++..+.|   +...+..+-..|..    .++.++|.+++++..+.
T Consensus       130 ~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~  180 (490)
T 2xm6_A          130 DKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQ  180 (490)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC
Confidence            9999999999988765   45666667777766    77888898888876653

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.06  E-value=9.3e-05  Score=43.15  Aligned_cols=79  Identities=9%  Similarity=0.006  Sum_probs=66.2

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Q 045403           13 EAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMH   92 (144)
Q Consensus        13 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~   92 (144)
                      +|.+.|++..+..+. +...|..+...+...|++++|...|++..+..- .+...|..+..++...|+.++|...+++..
T Consensus         3 ~a~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQGTD-NMLLRFTLGKTYAEHEQFDAALPHLRAALDFDP-TYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTTCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            567788887765443 788899999999999999999999999887532 457788999999999999999999999887


Q ss_pred             H
Q 045403           93 K   93 (144)
Q Consensus        93 ~   93 (144)
                      +
T Consensus        81 ~   81 (115)
T 2kat_A           81 A   81 (115)
T ss_dssp             H
T ss_pred             H
Confidence            5

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.04  E-value=0.00013  Score=45.85  Aligned_cols=90  Identities=11%  Similarity=-0.003  Sum_probs=65.9

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCC------CH-----HHHHHHHHHHHhcCCHHHHHHHHHHhhhC-----CCCCC-HH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKY------DV-----VLLNSMLCAYCRTGDMESVIHVMRKLDEL-----AISPD-YN   66 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p------~~-----~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g~~p~-~~   66 (144)
                      .+.+.|++++|++.|++.....+..      +.     ..|+.+-.++.+.|++++|...+++..+.     .+.|| ..
T Consensus        20 ~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~   99 (159)
T 2hr2_A           20 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   99 (159)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHH
Confidence            4567899999999999887753331      22     38888888888888888888888887763     12454 34


Q ss_pred             HH----HHHHHHHHHhCcHHHHHHHHHHHHH
Q 045403           67 TF----HILIKYFRKEKMYMLAYRTMVDMHK   93 (144)
Q Consensus        67 ~~----~~li~~~~~~g~~~~a~~~~~~m~~   93 (144)
                      .|    ...-.++...|++++|...|++..+
T Consensus       100 A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A          100 LWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            56    7777778888888888888887764

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.01  E-value=0.00019  Score=50.22  Aligned_cols=124  Identities=14%  Similarity=0.018  Sum_probs=79.4

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC-CCCH----HHHHHHHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDV----VLLNSMLCAYCRTGDMESVIHVMRKLDELAI-SPDY----NTFHILIKYF   75 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~~----~~~~~li~~~   75 (144)
                      +...|++++|...+++........+.    .+++.+...+...|++++|...+++..+..- .++.    .++..+...+
T Consensus        24 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~  103 (373)
T 1hz4_A           24 AINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEIL  103 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHH
Confidence            44578888888888887664333222    2456666777778888888888877654210 1222    2345566677


Q ss_pred             HHhCcHHHHHHHHHHHHHC----CCC--CC-HHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           76 RKEKMYMLAYRTMVDMHKK----GHQ--PE-EELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        76 ~~~g~~~~a~~~~~~m~~~----~~~--~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ...|++++|...+++..+.    +..  |. ...+..+-..+...|++++|...+++...
T Consensus       104 ~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  163 (373)
T 1hz4_A          104 FAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIE  163 (373)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            7788888888887777532    221  22 33455566777788888888888877544

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.01  E-value=0.00019  Score=50.19  Aligned_cols=126  Identities=10%  Similarity=-0.050  Sum_probs=91.0

Q ss_pred             hhhccCCHHHHHHHHHHHHhc----CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCC--C--CHHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAK----YDK--Y-DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAIS--P--DYNTFHILI   72 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~----~~~--p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~--p--~~~~~~~li   72 (144)
                      .+...|++++|.+.+++..+.    +..  | ....+..+-..+...|++++|...+++..+..-.  +  ...++..+.
T Consensus       102 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  181 (373)
T 1hz4_A          102 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  181 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHH
Confidence            466789999999999987653    221  2 3456777888999999999999999987653221  1  245678888


Q ss_pred             HHHHHhCcHHHHHHHHHHHHHCCCCC--CHHHHH----HHHHHHhccCChHHHHHHHHHhhhc
Q 045403           73 KYFRKEKMYMLAYRTMVDMHKKGHQP--EEELCS----SLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~----~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ..+...|++++|...+++.....-.+  ......    .....+...|+.++|..++++....
T Consensus       182 ~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~  244 (373)
T 1hz4_A          182 QCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKP  244 (373)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCC
Confidence            88999999999999999887431111  111111    2334477899999999999987653

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=97.98  E-value=0.001  Score=43.22  Aligned_cols=116  Identities=10%  Similarity=-0.026  Sum_probs=91.1

Q ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhhhCCCC-CCHHHHHHHHHHHHH----hCc
Q 045403           10 CFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVIHVMRKLDELAIS-PDYNTFHILIKYFRK----EKM   80 (144)
Q Consensus        10 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~----~g~   80 (144)
                      +.++|.+.|++..+.|   +...+..+-..|..    .+++++|...|++..+.|.. .+...+..+-..|..    .++
T Consensus        68 ~~~~A~~~~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d  144 (212)
T 3rjv_A           68 DYPQARQLAEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPED  144 (212)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCC
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCC
Confidence            8999999999997653   66778888888877    88999999999998876432 126788888888888    889


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc-C-----ChHHHHHHHHHhhhcC
Q 045403           81 YMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKM-R-----AHSEALCLQHVKDIAK  130 (144)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~-g-----~~~~a~~l~~~m~~~~  130 (144)
                      .++|..+|++..+.+  .+...+..|-..|.+. |     +.++|..++++..+..
T Consensus       145 ~~~A~~~~~~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          145 DVKASEYFKGSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHHHHHHHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            999999999998762  2344566666666542 3     8999999999876543

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=97.93  E-value=0.00022  Score=58.52  Aligned_cols=105  Identities=15%  Similarity=0.111  Sum_probs=59.1

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      +|.+.|++++|.+.++..++..  ++....+-+..+|++.+++++.....    +   .|+...|..+-..|-..|++++
T Consensus      1143 ~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~Yee 1213 (1630)
T 1xi4_A         1143 AANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDA 1213 (1630)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHH
Confidence            4444555555555555444332  22222223555555555444333221    1   2444555556666666666777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHh
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVK  126 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m  126 (144)
                      |..+|...         ..|..+..+|.+.|++++|.+.+++-
T Consensus      1214 A~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA 1247 (1630)
T 1xi4_A         1214 AKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA 1247 (1630)
T ss_pred             HHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh
Confidence            76666663         37778888888888888888888755

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.91  E-value=0.0004  Score=50.63  Aligned_cols=100  Identities=11%  Similarity=-0.073  Sum_probs=84.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC--------------HHHHHHHHHHHHHhCcHHHHHHHHHHHHHC
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD--------------YNTFHILIKYFRKEKMYMLAYRTMVDMHKK   94 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   94 (144)
                      ....|..+-..+.+.|++++|...|++..+..-...              ...|..+-.+|.+.|++++|...+++..+.
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  346 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL  346 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            456788889999999999999999999886422111              588999999999999999999999999875


Q ss_pred             CCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           95 GHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        95 ~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      . +.+...|..+-.+|.+.|++++|...|++..+.
T Consensus       347 ~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l  380 (457)
T 1kt0_A          347 D-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  380 (457)
T ss_dssp             S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             C-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            3 346778888999999999999999999997653

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.88  E-value=0.0005  Score=37.75  Aligned_cols=82  Identities=18%  Similarity=0.103  Sum_probs=58.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIF  108 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~  108 (144)
                      +...+..+-..+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+-.
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~   85 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            45667777888888888888888888877643 2356778888888888888888888888887642 224455555554


Q ss_pred             HHhc
Q 045403          109 HLGK  112 (144)
Q Consensus       109 ~~~~  112 (144)
                      ++.+
T Consensus        86 ~~~~   89 (91)
T 1na3_A           86 AKQK   89 (91)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            4443

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.83  E-value=0.00054  Score=48.66  Aligned_cols=99  Identities=8%  Similarity=-0.035  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhhC--------------CCC-CCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHC
Q 045403           30 VVLLNSMLCAYCRTGDMESVIHVMRKLDEL--------------AIS-PDYNTFHILIKYFRKEKMYMLAYRTMVDMHKK   94 (144)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------------g~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   94 (144)
                      ...+..+-..+.+.|++++|...|++..+.              ... .+..+|..+-.+|.+.|++++|...+++..+.
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  302 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI  302 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh
Confidence            345778888899999999999999988751              012 24567889999999999999999999999875


Q ss_pred             CCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           95 GHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        95 ~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      . +-+...+..+-.+|.+.|++++|.+.+++..+.
T Consensus       303 ~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l  336 (370)
T 1ihg_A          303 D-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  336 (370)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             C-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            3 235778888999999999999999999987654

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=97.83  E-value=0.00011  Score=52.91  Aligned_cols=119  Identities=10%  Similarity=-0.067  Sum_probs=73.6

Q ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHH--HHHHHHH-HHHHhCcHHHHHH
Q 045403           10 CFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYN--TFHILIK-YFRKEKMYMLAYR   86 (144)
Q Consensus        10 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~--~~~~li~-~~~~~g~~~~a~~   86 (144)
                      ..++|...|+......+. +..++..+...+...|++++|...|++..+....|...  .+..+.. .....|+.++|..
T Consensus       315 ~~~~A~~~~~~a~~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~  393 (472)
T 4g1t_A          315 LIGHAVAHLKKADEANDN-LFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIH  393 (472)
T ss_dssp             HHHHHHHHHHHHHHHCTT-TCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHH
T ss_pred             hHHHHHHHHHHHhhcCCc-hhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHH
Confidence            456777777777665433 56778888899999999999999999887754332221  1222221 2345788888888


Q ss_pred             HHHHHHHCC-----------------------CCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           87 TMVDMHKKG-----------------------HQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        87 ~~~~m~~~~-----------------------~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      .+++..+..                       -+.+..+|..+-.+|...|++++|.+.|++..+.
T Consensus       394 ~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~  459 (472)
T 4g1t_A          394 HFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLES  459 (472)
T ss_dssp             HHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC------------
T ss_pred             HHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            887765432                       1235668888999999999999999999986654

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=97.81  E-value=0.00069  Score=48.72  Aligned_cols=119  Identities=15%  Similarity=0.055  Sum_probs=72.4

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHh--------
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKE--------   78 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~--------   78 (144)
                      ..|+.++|.+.+++.....+. +...+..+...|...|++++|...+++..+... -+..++..+-.+|...        
T Consensus       225 ~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~y~~~~~~~~~~~  302 (472)
T 4g1t_A          225 EGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYIP-NNAYLHCQIGCCYRAKVFQVMNLR  302 (472)
T ss_dssp             -----CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             hhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCC-ChHHHHHHHHHHHHHHHHHhhhHH
Confidence            346777888888887765433 667788888888888888888888888776421 2344555544444321        


Q ss_pred             -----------CcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           79 -----------KMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        79 -----------g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                                 +..+.|...+++..+.. +.+...+..+-..|.+.|++++|.+.|++..+
T Consensus       303 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~  362 (472)
T 4g1t_A          303 ENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFS  362 (472)
T ss_dssp             -----CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHh
Confidence                       23445555555555432 22334556666777777777777777776544

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.80  E-value=0.00054  Score=50.25  Aligned_cols=92  Identities=12%  Similarity=-0.025  Sum_probs=77.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCh
Q 045403           37 LCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAH  116 (144)
Q Consensus        37 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~  116 (144)
                      -..+.+.|++++|...|++..+.. +-+..+|..+..+|.+.|++++|...+++..+.. +-+...+..+-.+|.+.|++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            344567899999999999988752 2358899999999999999999999999999763 34677888999999999999


Q ss_pred             HHHHHHHHHhhhcC
Q 045403          117 SEALCLQHVKDIAK  130 (144)
Q Consensus       117 ~~a~~l~~~m~~~~  130 (144)
                      ++|.+.+++..+..
T Consensus        91 ~eA~~~~~~al~~~  104 (477)
T 1wao_1           91 RAALRDYETVVKVK  104 (477)
T ss_dssp             HHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999976643

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.79  E-value=0.001  Score=41.77  Aligned_cols=99  Identities=14%  Similarity=0.014  Sum_probs=78.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCC-C-----CH-----HHHHHHHHHHHHhCcHHHHHHHHHHHHHC----
Q 045403           30 VVLLNSMLCAYCRTGDMESVIHVMRKLDELAIS-P-----DY-----NTFHILIKYFRKEKMYMLAYRTMVDMHKK----   94 (144)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p-----~~-----~~~~~li~~~~~~g~~~~a~~~~~~m~~~----   94 (144)
                      ...+......+.+.|++++|...|++..+..-. |     +.     ..|+.+-.++.+.|++++|...+++..+.    
T Consensus        11 a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~   90 (159)
T 2hr2_A           11 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   90 (159)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            345566777788999999999999998764221 1     23     38999999999999999999999999864    


Q ss_pred             -CCCCC-HHHH----HHHHHHHhccCChHHHHHHHHHhhh
Q 045403           95 -GHQPE-EELC----SSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        95 -~~~~~-~~~~----~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                       .+.|+ ...|    .-.-.++...|++++|...|++..+
T Consensus        91 ~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           91 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence             22565 4467    7788899999999999999998543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.79  E-value=0.00014  Score=41.62  Aligned_cols=56  Identities=13%  Similarity=0.163  Sum_probs=49.1

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL   59 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   59 (144)
                      ..+.+.|++++|.+.|++..+..+. +...|..+..++...|++++|...+++..+.
T Consensus        12 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A           12 NSLFKQGLYREAVHCYDQLITAQPQ-NPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            3567889999999999999876444 7888999999999999999999999998874

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.78  E-value=0.00067  Score=37.24  Aligned_cols=74  Identities=19%  Similarity=0.189  Sum_probs=57.8

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHh
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKE   78 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~   78 (144)
                      ..+.+.|++++|.+.|++..+.... +...+..+..++.+.|++++|...+++..+... -+...+..+-..+...
T Consensus        17 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~l~~~~~~~   90 (91)
T 1na3_A           17 NAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAKQNLGNAKQKQ   90 (91)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHhc
Confidence            3567889999999999999876443 678899999999999999999999999887532 3455666665555443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.78  E-value=0.00073  Score=48.03  Aligned_cols=128  Identities=12%  Similarity=-0.020  Sum_probs=92.8

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhc-CCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHhhh----CCCCCC-HHHHHHH
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAK-YDKYDV----VLLNSMLCAYCRTGDMESVIHVMRKLDE----LAISPD-YNTFHIL   71 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~-~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~----~g~~p~-~~~~~~l   71 (144)
                      ...|.+.|++++|.+.+++..+. +..++.    .+.+.+-..+...|+++++..++.....    .+..+. ..++..+
T Consensus        62 ~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l  141 (434)
T 4b4t_Q           62 GQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKL  141 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHH
Confidence            35788999999999999987653 111122    2333344444556899999999988753    233333 4578889


Q ss_pred             HHHHHHhCcHHHHHHHHHHHHHC--CC--CC-CHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           72 IKYFRKEKMYMLAYRTMVDMHKK--GH--QP-EEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        72 i~~~~~~g~~~~a~~~~~~m~~~--~~--~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ...|...|++++|..++++....  +.  .+ ...++..+...|...|++++|..++++...-
T Consensus       142 a~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~  204 (434)
T 4b4t_Q          142 ATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTA  204 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            99999999999999999988642  11  22 2457888999999999999999999876543

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=97.74  E-value=0.00062  Score=52.23  Aligned_cols=123  Identities=12%  Similarity=0.031  Sum_probs=80.0

Q ss_pred             hhccCCHHHHHHHHHHHHhcCC---------CC------------CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-C-C
Q 045403            5 FCRGGCFEEAKQLARDFEAKYD---------KY------------DVVLLNSMLCAYCRTGDMESVIHVMRKLDEL-A-I   61 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~---------~p------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g-~   61 (144)
                      .-+.|++++|.++|+.+.+...         .|            ...+|...++...+.|..+.|..+|.+..+. + .
T Consensus       388 ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~  467 (679)
T 4e6h_A          388 YELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLV  467 (679)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGS
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCC
Confidence            3456888888888888775310         13            2346777788777788888888888888765 2 2


Q ss_pred             CCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           62 SPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        62 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      .+......+.+.-. ..++.+.|.++|+...+. +.-+...+...++.....|+.++|..+|++....
T Consensus       468 ~~~lyi~~A~lE~~-~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~  533 (679)
T 4e6h_A          468 TPDIYLENAYIEYH-ISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDK  533 (679)
T ss_dssp             CTHHHHHHHHHHHT-TTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTT
T ss_pred             ChHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence            22222222222211 134578888888888764 3345566667777777788888888888876643

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=97.74  E-value=0.00099  Score=51.10  Aligned_cols=125  Identities=10%  Similarity=-0.015  Sum_probs=94.2

Q ss_pred             hccCCHHHHHHHHHHHHhc-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            6 CRGGCFEEAKQLARDFEAK-YD-KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~-~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+.|.++.|.++|....+. +. .+......+.+.... .++.+.|..+|+...+. .+-+...|...++.....|+.+.
T Consensus       445 rR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~-~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~  522 (679)
T 4e6h_A          445 KRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHI-SKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQ  522 (679)
T ss_dssp             HHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTT-TSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHH
Confidence            4568899999999999875 22 233333333333221 34589999999998876 44567778888998888999999


Q ss_pred             HHHHHHHHHHCCCCC--CHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCC
Q 045403           84 AYRTMVDMHKKGHQP--EEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDR  132 (144)
Q Consensus        84 a~~~~~~m~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~  132 (144)
                      |..+|++..+....+  ....|...+..-.+.|+.+.+.++.+++.+..+.
T Consensus       523 AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~  573 (679)
T 4e6h_A          523 VKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPE  573 (679)
T ss_dssp             HHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            999999998654322  3457888888888999999999999999876544

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=97.72  E-value=0.00099  Score=54.85  Aligned_cols=85  Identities=12%  Similarity=0.049  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 045403           32 LLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLG  111 (144)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~  111 (144)
                      .|..+...+.+.|++++|.+.+++.      -+..+|..+-.+|...|+++.|..+...     +..+...+..++..|.
T Consensus      1223 ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe 1291 (1630)
T 1xi4_A         1223 NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQ 1291 (1630)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHH
Confidence            4444444444444444444444433      2223444333333333333333332222     2335556667777788


Q ss_pred             ccCChHHHHHHHHHhh
Q 045403          112 KMRAHSEALCLQHVKD  127 (144)
Q Consensus       112 ~~g~~~~a~~l~~~m~  127 (144)
                      +.|.+++|..+++.-.
T Consensus      1292 ~~G~feEAI~LlE~aL 1307 (1630)
T 1xi4_A         1292 DRGYFEELITMLEAAL 1307 (1630)
T ss_pred             HcCCHHHHHHHHHHHh
Confidence            8888888888886643

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.69  E-value=0.00025  Score=42.87  Aligned_cols=99  Identities=10%  Similarity=-0.047  Sum_probs=76.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC-CCC----HHHHHHHHHHHHHhCcHHHHHHHHHHHHHC----CCCC-C
Q 045403           30 VVLLNSMLCAYCRTGDMESVIHVMRKLDELAI-SPD----YNTFHILIKYFRKEKMYMLAYRTMVDMHKK----GHQP-E   99 (144)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~-~   99 (144)
                      ..++..+-..+...|++++|...+++..+..- .++    ..++..+...+...|++++|...+++..+.    +-.+ .
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~   88 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVE   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHH
Confidence            45778888899999999999999988765311 122    146888889999999999999999987642    1111 1


Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403          100 EELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       100 ~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ...+..+..++...|++++|.+.+++...
T Consensus        89 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  117 (164)
T 3ro3_A           89 AQSCYSLGNTYTLLQDYEKAIDYHLKHLA  117 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            44677788889999999999999998654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.69  E-value=0.0012  Score=38.19  Aligned_cols=79  Identities=8%  Similarity=-0.101  Sum_probs=65.1

Q ss_pred             HHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           48 SVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        48 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      ++...|++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...|..+..+|.+.|++++|...+++..
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4667777776542 2467889999999999999999999999998753 3457788899999999999999999999865


Q ss_pred             h
Q 045403          128 I  128 (144)
Q Consensus       128 ~  128 (144)
                      .
T Consensus        81 ~   81 (115)
T 2kat_A           81 A   81 (115)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.68  E-value=0.00036  Score=48.84  Aligned_cols=96  Identities=7%  Similarity=-0.165  Sum_probs=81.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHH------------------HHHHHHHHHHHhCcHHHHHHHHHHH
Q 045403           30 VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYN------------------TFHILIKYFRKEKMYMLAYRTMVDM   91 (144)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~------------------~~~~li~~~~~~g~~~~a~~~~~~m   91 (144)
                      ...+..+-..+.+.|++++|...|++..+.  .|+..                  .|..+-.+|.+.|++++|...+++.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~a  256 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIV  256 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            455777888889999999999999997763  35543                  7888999999999999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           92 HKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        92 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .+.. +.+...|..+-.+|...|++++|...|++...
T Consensus       257 l~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~  292 (338)
T 2if4_A          257 LTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQK  292 (338)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            8753 34677889999999999999999999998764

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=97.65  E-value=0.00095  Score=46.33  Aligned_cols=124  Identities=6%  Similarity=-0.109  Sum_probs=68.7

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHH--HHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc------
Q 045403            9 GCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDME--SVIHVMRKLDELAISPDYNTFHILIKYFRKEKM------   80 (144)
Q Consensus         9 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~--~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~------   80 (144)
                      +++++++++++.+.+..++ |-.+|+-..-.+.+.|.++  ++.+.++++.+... -|...|+---....+.+.      
T Consensus       124 ~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             CCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccchhhh
Confidence            4555555555555544333 4555555544444444444  55555555554332 344444444444433333      


Q ss_pred             HHHHHHHHHHHHHC-----------------------------------C--CCCCHHHHHHHHHHHhccCChHHHHHHH
Q 045403           81 YMLAYRTMVDMHKK-----------------------------------G--HQPEEELCSSLIFHLGKMRAHSEALCLQ  123 (144)
Q Consensus        81 ~~~a~~~~~~m~~~-----------------------------------~--~~~~~~~~~~l~~~~~~~g~~~~a~~l~  123 (144)
                      ++++.+.+++....                                   +  -..+......+.++|.+.|+.++|.+++
T Consensus       202 ~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~  281 (306)
T 3dra_A          202 IDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVY  281 (306)
T ss_dssp             HHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            44444444333321                                   1  1236677888889999999999999999


Q ss_pred             HHhhhcCCCCc
Q 045403          124 HVKDIAKDRCA  134 (144)
Q Consensus       124 ~~m~~~~~~~~  134 (144)
                      +.+.+.-+|..
T Consensus       282 ~~l~~~~Dpir  292 (306)
T 3dra_A          282 DLLKSKYNPIR  292 (306)
T ss_dssp             HHHHHTTCGGG
T ss_pred             HHHHhccChHH
Confidence            99875444443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.65  E-value=0.0013  Score=46.73  Aligned_cols=126  Identities=10%  Similarity=-0.020  Sum_probs=90.8

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCC----------------HHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-CCCCCHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYD----------------VVLLNSMLCAYCRTGDMESVIHVMRKLDEL-AISPDYN   66 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~----------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~   66 (144)
                      .+.+.|++++|.+.|.+..+......                ...+..+...|...|++++|.+.+....+. +-.++..
T Consensus        13 ~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~   92 (434)
T 4b4t_Q           13 RLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSK   92 (434)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchH
Confidence            46788999999999999887533211                134788999999999999999999988653 1113322


Q ss_pred             H----HHHHHHHHHHhCcHHHHHHHHHHHHH----CCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           67 T----FHILIKYFRKEKMYMLAYRTMVDMHK----KGHQPE-EELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        67 ~----~~~li~~~~~~g~~~~a~~~~~~m~~----~~~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +    .+.+-..+...|+.+.+..++.+...    .+..+. ..++..+...|...|++++|..+++++...
T Consensus        93 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~  164 (434)
T 4b4t_Q           93 TVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLRE  164 (434)
T ss_dssp             HHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHH
Confidence            2    22333334456889999988887753    333333 457778999999999999999999986543

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.64  E-value=0.00037  Score=43.68  Aligned_cols=100  Identities=14%  Similarity=0.058  Sum_probs=79.2

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCH----------HHHHHHHHHhhhCCCCC-CHHHHHHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDM----------ESVIHVMRKLDELAISP-DYNTFHILIK   73 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~----------~~a~~~~~~m~~~g~~p-~~~~~~~li~   73 (144)
                      ..+.+++++|.+.++...+..+. +...|+.+-.++.+.+++          ++|...|++..+.  .| +..+|..+-.
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l--dP~~~~A~~~LG~   88 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIGN   88 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh--CcCcHHHHHHHHH
Confidence            34667899999999999887655 888999888888887764          5999999998874  44 5678889999


Q ss_pred             HHHHhC-----------cHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045403           74 YFRKEK-----------MYMLAYRTMVDMHKKGHQPEEELCSSLIFH  109 (144)
Q Consensus        74 ~~~~~g-----------~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~  109 (144)
                      +|...|           ++++|...|++..+.  .|+...|...+..
T Consensus        89 ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~~  133 (158)
T 1zu2_A           89 AYTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEM  133 (158)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            998774           899999999999874  5776666555554

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.61  E-value=0.00095  Score=37.98  Aligned_cols=65  Identities=12%  Similarity=0.007  Sum_probs=52.6

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Q 045403           28 YDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHK   93 (144)
Q Consensus        28 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~   93 (144)
                      -+...+..+-.++.+.|++++|...|++..+... -+...|..+-.+|...|++++|...+++..+
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVETDP-DYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3667788888889999999999999988876532 3456788888889999999999988888764

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=97.51  E-value=0.0056  Score=44.42  Aligned_cols=16  Identities=6%  Similarity=-0.261  Sum_probs=7.6

Q ss_pred             CHHHHHHHHHHHHhcC
Q 045403           10 CFEEAKQLARDFEAKY   25 (144)
Q Consensus        10 ~~~~a~~~~~~m~~~~   25 (144)
                      +.++|++.|+...+.|
T Consensus       194 ~~~~A~~~~~~aa~~g  209 (452)
T 3e4b_A          194 QQAELLKQMEAGVSRG  209 (452)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             cHHHHHHHHHHHHHCC
Confidence            4445555554444443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.47  E-value=0.0018  Score=36.30  Aligned_cols=52  Identities=21%  Similarity=0.144  Sum_probs=23.5

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYDVV-LLNSMLCAYCRTGDMESVIHVMRKLDE   58 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (144)
                      .+.|++++|.+.|++..+..+. +.. .|..+-.++...|++++|...|++..+
T Consensus        11 ~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A           11 INQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3444555555555544443222 333 444444444444455555544444443

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.47  E-value=0.00095  Score=48.53  Aligned_cols=82  Identities=5%  Similarity=-0.115  Sum_probs=43.0

Q ss_pred             CCHHHHHHHHHHhhh---CCCCCC----HHHHHHHHHHHHHhCcHHHHHHHHHHHHH-----CC-CCCC-HHHHHHHHHH
Q 045403           44 GDMESVIHVMRKLDE---LAISPD----YNTFHILIKYFRKEKMYMLAYRTMVDMHK-----KG-HQPE-EELCSSLIFH  109 (144)
Q Consensus        44 ~~~~~a~~~~~~m~~---~g~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~-~~~~-~~~~~~l~~~  109 (144)
                      |++++|+.++++..+   .-+.|+    ..+++.+...|...|++++|..++++..+     .| -.|+ ..+++.|-..
T Consensus       312 g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~  391 (433)
T 3qww_A          312 KSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRL  391 (433)
T ss_dssp             SCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHH
Confidence            455666666655432   112222    23456666666666666666666665542     12 1222 3345566666


Q ss_pred             HhccCChHHHHHHHHH
Q 045403          110 LGKMRAHSEALCLQHV  125 (144)
Q Consensus       110 ~~~~g~~~~a~~l~~~  125 (144)
                      |...|++++|..++++
T Consensus       392 ~~~qg~~~eA~~~~~~  407 (433)
T 3qww_A          392 YMGLENKAAGEKALKK  407 (433)
T ss_dssp             HHHTTCHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHH
Confidence            6666666666666665

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.46  E-value=0.0015  Score=37.18  Aligned_cols=65  Identities=11%  Similarity=-0.125  Sum_probs=55.7

Q ss_pred             CCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           63 PDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        63 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      -+...+..+-..|...|++++|...|++..+.. +-+...|..+-.+|.+.|++++|.+.+++...
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            367788999999999999999999999998754 23466888899999999999999999997653

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.44  E-value=0.0024  Score=43.83  Aligned_cols=102  Identities=7%  Similarity=-0.077  Sum_probs=77.0

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC--HHHHHHHHHHHHHhC
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYD--VVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD--YNTFHILIKYFRKEK   79 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g   79 (144)
                      .+.+.+++++|+..|+...... .|.  ...+..+-.++...|++++|+..|++.......|.  .......-.++.+.|
T Consensus       144 l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lG  222 (282)
T 4f3v_A          144 VYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQG  222 (282)
T ss_dssp             HHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcC
Confidence            5678899999999998554321 111  34678889999999999999999999875433254  346677778899999


Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELCSSLIF  108 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~  108 (144)
                      +.++|..+|+++...  .|+...+.+|.+
T Consensus       223 r~deA~~~l~~a~a~--~P~~~~~~aL~~  249 (282)
T 4f3v_A          223 NESAAVALLEWLQTT--HPEPKVAAALKD  249 (282)
T ss_dssp             CHHHHHHHHHHHHHH--SCCHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHhc--CCcHHHHHHHhC
Confidence            999999999999975  355555555543

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.43  E-value=0.0012  Score=47.90  Aligned_cols=59  Identities=5%  Similarity=-0.179  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHH-----CC-CCCC-HHHHHHHHHHHhccCChHHHHHHHHH
Q 045403           67 TFHILIKYFRKEKMYMLAYRTMVDMHK-----KG-HQPE-EELCSSLIFHLGKMRAHSEALCLQHV  125 (144)
Q Consensus        67 ~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~-~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~  125 (144)
                      +++.+...|...|++++|..++++...     .| -.|+ ..+++.|-..|...|++++|..++++
T Consensus       331 ~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~  396 (429)
T 3qwp_A          331 VLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRL  396 (429)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            345555555555555555555554432     11 1111 22344455555555555555555554

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.42  E-value=0.0014  Score=47.70  Aligned_cols=87  Identities=9%  Similarity=0.015  Sum_probs=69.4

Q ss_pred             ccCCHHHHHHHHHHHHhc-----CC-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-----CC-CCCH-HHHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAK-----YD-KYD-VVLLNSMLCAYCRTGDMESVIHVMRKLDEL-----AI-SPDY-NTFHILI   72 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~-----~~-~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g~-~p~~-~~~~~li   72 (144)
                      +.|++++|..++++..+.     |. .|+ ..+++.|..+|...|++++|..++++..+-     |- .|+. .+++.+-
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            357899999999987653     22 123 378999999999999999999999997632     32 3433 3589999


Q ss_pred             HHHHHhCcHHHHHHHHHHHHH
Q 045403           73 KYFRKEKMYMLAYRTMVDMHK   93 (144)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~   93 (144)
                      ..|...|++++|..++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999998864

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=97.42  E-value=0.0088  Score=38.11  Aligned_cols=48  Identities=10%  Similarity=0.135  Sum_probs=41.9

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDE   58 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (144)
                      ..+.|+++.|.++.+++.      +...|..+-+.....|+++-|+.+|.+...
T Consensus        15 AL~lg~l~~A~e~a~~l~------~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D   62 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKLN------DSITWERLIQEALAQGNASLAEMIYQTQHS   62 (177)
T ss_dssp             HHHTTCHHHHHHHHHHHC------CHHHHHHHHHHHHHTTCHHHHHHHHHHTTC
T ss_pred             HHhcCCHHHHHHHHHHhC------CHHHHHHHHHHHHHcCChHHHHHHHHHhCC
Confidence            356899999999988762      788999999999999999999999998764

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.36  E-value=0.0028  Score=46.03  Aligned_cols=92  Identities=12%  Similarity=0.049  Sum_probs=72.5

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcC---CC----CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-----CC-CCCH-HHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKY---DK----YDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL-----AI-SPDY-NTF   68 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~---~~----p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g~-~p~~-~~~   68 (144)
                      .-+.+.|++++|..++++..+..   ..    ....+++.+..+|...|++++|+.++++..+-     |- .|+. .++
T Consensus       295 e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l  374 (429)
T 3qwp_A          295 EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQV  374 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHH
Confidence            34567899999999999987541   11    23478999999999999999999999987632     22 2333 358


Q ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHC
Q 045403           69 HILIKYFRKEKMYMLAYRTMVDMHKK   94 (144)
Q Consensus        69 ~~li~~~~~~g~~~~a~~~~~~m~~~   94 (144)
                      +.+-..|...|++++|..++++..+-
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al~i  400 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAFDI  400 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            89999999999999999999988753

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.35  E-value=0.0025  Score=47.03  Aligned_cols=89  Identities=10%  Similarity=-0.070  Sum_probs=68.9

Q ss_pred             HHHhcCCHHHHHHHHHHhhhC---CCCCC----HHHHHHHHHHHHHhCcHHHHHHHHHHHHH-----CCC-CC-CHHHHH
Q 045403           39 AYCRTGDMESVIHVMRKLDEL---AISPD----YNTFHILIKYFRKEKMYMLAYRTMVDMHK-----KGH-QP-EEELCS  104 (144)
Q Consensus        39 ~~~~~~~~~~a~~~~~~m~~~---g~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~-~~-~~~~~~  104 (144)
                      .+...|++++|+.++++..+.   -+.|+    ..+++.+...|...|++++|..++++..+     .|- .| ...+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            355789999999999887642   22232    34689999999999999999999988763     221 23 345788


Q ss_pred             HHHHHHhccCChHHHHHHHHHhh
Q 045403          105 SLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus       105 ~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      .|...|...|++++|..++++..
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al  420 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAY  420 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHH
Confidence            89999999999999999999744

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.33  E-value=0.0029  Score=48.58  Aligned_cols=100  Identities=11%  Similarity=-0.057  Sum_probs=55.1

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYR   86 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~   86 (144)
                      +.|++++|.++.+.+      .+...|..+-..+.+.++++.|.++|.++..         |..+...+...|+.+...+
T Consensus       664 ~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~  728 (814)
T 3mkq_A          664 KVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVT  728 (814)
T ss_dssp             HHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHH
T ss_pred             hcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHH
Confidence            345555555553322      3567777777777777777777777777654         2334444444555554444


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           87 TMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        87 ~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      +-+.....|      -++....+|.+.|++++|.+++.++.
T Consensus       729 ~~~~a~~~~------~~~~A~~~~~~~g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          729 LAKDAETTG------KFNLAFNAYWIAGDIQGAKDLLIKSQ  763 (814)
T ss_dssp             HHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHHHcC------chHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            444443333      12333444555666666666665443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.30  E-value=0.0012  Score=36.97  Aligned_cols=59  Identities=10%  Similarity=0.164  Sum_probs=48.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhhhCCCCCCHH-HHHHHHHHHHHhCcHHHHHHHHHHHHHCC
Q 045403           36 MLCAYCRTGDMESVIHVMRKLDELAISPDYN-TFHILIKYFRKEKMYMLAYRTMVDMHKKG   95 (144)
Q Consensus        36 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~   95 (144)
                      ....+...|++++|...|++..+..- .+.. .+..+-.++...|++++|...+++..+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEP-VGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCS-STHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            34567788999999999999887532 3556 88889999999999999999999998753

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=97.25  E-value=0.008  Score=43.62  Aligned_cols=109  Identities=6%  Similarity=-0.001  Sum_probs=72.7

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHh----CcHHH
Q 045403           11 FEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTG---DMESVIHVMRKLDELAISPDYNTFHILIKYFRKE----KMYML   83 (144)
Q Consensus        11 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~----g~~~~   83 (144)
                      .+++..+++....    .+...+..+-..|...|   +.++|...|.+..+.|. ++...+..+-..|...    ++.++
T Consensus       161 ~~~a~~~~~~a~~----~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~~~d~~~  235 (452)
T 3e4b_A          161 LDDVERICKAALN----TTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLGTPDEKT  235 (452)
T ss_dssp             HHHHHHHHHHHTT----TCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGSSCCHHH
T ss_pred             HHHHHHHHHHHHc----CCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCCCCCHHH
Confidence            3444444444432    23337888888888888   88999999999888775 5555555566666544    68888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHH-H--hccCChHHHHHHHHHhhh
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFH-L--GKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~-~--~~~g~~~~a~~l~~~m~~  128 (144)
                      |..+|++.. .|   +...+..+-.. +  ...++.++|.+++++..+
T Consensus       236 A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~  279 (452)
T 3e4b_A          236 AQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRA  279 (452)
T ss_dssp             HHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Confidence            888888876 33   33344444444 3  457888888888887654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=97.21  E-value=0.025  Score=39.15  Aligned_cols=116  Identities=8%  Similarity=-0.044  Sum_probs=60.3

Q ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH----Hhc---CCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403           10 CFEEAKQLARDFEAKYDKYDVVLLNSMLCAY----CRT---GDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus        10 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~----~~~---~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ++++++++++.+....+. +..+|+---..+    ...   ++++++..+++++.+..- -|..+|+.---...+.|.++
T Consensus        84 ~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~p-kny~aW~~R~~vl~~l~~~~  161 (306)
T 3dra_A           84 NLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDP-KNHHVWSYRKWLVDTFDLHN  161 (306)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCTT
T ss_pred             cHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcccC
Confidence            566666666665554443 444555444444    333   455666666666654322 35555665555555556555


Q ss_pred             --HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC------hHHHHHHHHHhhh
Q 045403           83 --LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRA------HSEALCLQHVKDI  128 (144)
Q Consensus        83 --~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~------~~~a~~l~~~m~~  128 (144)
                        ++.+.++++.+.. .-+...|+--...+.+.|.      ++++++.+++...
T Consensus       162 ~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~  214 (306)
T 3dra_A          162 DAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIV  214 (306)
T ss_dssp             CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHH
Confidence              5666666665443 2344455444444444443      5556655555443

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.13  E-value=0.02  Score=43.03  Aligned_cols=128  Identities=7%  Similarity=-0.052  Sum_probs=99.2

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhC-cHHHHHHH
Q 045403           11 FEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTG--DMESVIHVMRKLDELAISPDYNTFHILIKYFRKEK-MYMLAYRT   87 (144)
Q Consensus        11 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~a~~~   87 (144)
                      ++++.+.++.+.+..++ +..+|+---.++.+.+  +++++.+.++++.+... -|..+|+---....+.| ..+++.+.
T Consensus        89 ~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d~-~N~~aW~~R~~~l~~l~~~~~~el~~  166 (567)
T 1dce_A           89 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAF  166 (567)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhcc-ccccHHHHHHHHHHHcCCChHHHHHH
Confidence            89999999999987666 8899999988899999  77999999999998654 58899999988888999 89999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHhcc--------------CChHHHHHHHHHhhhcC--CCCcHHHHHHh
Q 045403           88 MVDMHKKGHQPEEELCSSLIFHLGKM--------------RAHSEALCLQHVKDIAK--DRCAMPFMRKF  141 (144)
Q Consensus        88 ~~~m~~~~~~~~~~~~~~l~~~~~~~--------------g~~~~a~~l~~~m~~~~--~~~~~~~~~~~  141 (144)
                      ++++.+.. .-+...|+-....+.+.              +.++++.+.+++...-.  +...|.+...+
T Consensus       167 ~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~l  235 (567)
T 1dce_A          167 TDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWL  235 (567)
T ss_dssp             HHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHH
T ss_pred             HHHHHHHC-CCCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHH
Confidence            99998654 34666777655555442              55788988888765543  34455444433

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.06  E-value=0.0052  Score=38.18  Aligned_cols=91  Identities=12%  Similarity=0.030  Sum_probs=64.7

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHhhhCCCCC--CHHHHHHHHHHHHHhC
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTG---DMESVIHVMRKLDELAISP--DYNTFHILIKYFRKEK   79 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~g~~p--~~~~~~~li~~~~~~g   79 (144)
                      .........+.+-|++..+.|. ++..+.-.+-.++++.+   +.+++..++++..+.. .|  +...+--+--+|.+.|
T Consensus         8 ~l~~~~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~   85 (152)
T 1pc2_A            8 LVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLK   85 (152)
T ss_dssp             SCCHHHHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTS
T ss_pred             cCCHHHHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHcc
Confidence            3344556777777777766555 57777777888888877   6668999998888764 24  2344445555668999


Q ss_pred             cHHHHHHHHHHHHHCCCCCC
Q 045403           80 MYMLAYRTMVDMHKKGHQPE   99 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~   99 (144)
                      ++++|.+.++.+.+.  .|+
T Consensus        86 ~Y~~A~~y~~~lL~i--eP~  103 (152)
T 1pc2_A           86 EYEKALKYVRGLLQT--EPQ  103 (152)
T ss_dssp             CHHHHHHHHHHHHHH--CTT
T ss_pred             CHHHHHHHHHHHHhc--CCC
Confidence            999999999998864  454

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.00  E-value=0.05  Score=38.76  Aligned_cols=127  Identities=8%  Similarity=-0.151  Sum_probs=84.5

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cC-CHHHHHHHHHHhh---h-CCCCCCHHHHHHHHHHHHHhC
Q 045403            9 GCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCR----TG-DMESVIHVMRKLD---E-LAISPDYNTFHILIKYFRKEK   79 (144)
Q Consensus         9 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~-~~~~a~~~~~~m~---~-~g~~p~~~~~~~li~~~~~~g   79 (144)
                      .+..+|..+|++..+..+. ....|..+--++..    .+ .......+-..+.   . ..-+.+..+|.++-..+...|
T Consensus       213 ~~~~~A~~l~e~Al~lDP~-~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~~~~~~~a~~~~alal~~l~~g  291 (372)
T 3ly7_A          213 KSLNRASELLGEIVQSSPE-FTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTLPELNNLSIIYQIKAVSALVKG  291 (372)
T ss_dssp             HHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCGGGTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhcccCCcCHHHHHHHHHHHHhCC
Confidence            3458899999999886443 34444433333321    11 1122222211221   1 123568888988888888889


Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCCCcHHHHH
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFMR  139 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~~~~~~  139 (144)
                      ++++|...+++....+  |+...|..+-..+.-.|+.++|.+.+++... -.|..+++.+
T Consensus       292 d~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr-L~P~~~t~~~  348 (372)
T 3ly7_A          292 KTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFN-LRPGANTLYW  348 (372)
T ss_dssp             CHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-HSCSHHHHHH
T ss_pred             CHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-cCCCcChHHH
Confidence            9999999999999875  7888888888889999999999999998664 3444444433

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=96.99  E-value=0.023  Score=41.83  Aligned_cols=113  Identities=9%  Similarity=-0.064  Sum_probs=80.4

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLN--SMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a   84 (144)
                      +.+.++.|.++|+.....  ..+...|-  +.+.... .++.+.|..+|+...+.- +-+...|...++...+.|+.+.|
T Consensus       298 r~~~~~~AR~i~~~A~~~--~~~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~a  373 (493)
T 2uy1_A          298 KKRGLELFRKLFIELGNE--GVGPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENA  373 (493)
T ss_dssp             HHHCHHHHHHHHHHHTTS--CCCHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HcCCHHHHHHHHHHhhCC--CCChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            456789999999988221  22333343  3333322 236899999999887753 22345567778878889999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           85 YRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        85 ~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ..+|++..     .....|...+..-.+.|+.+.+.+++++...
T Consensus       374 R~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          374 RALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999973     2567888888877788999999998888654

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=96.90  E-value=0.062  Score=40.36  Aligned_cols=118  Identities=9%  Similarity=0.003  Sum_probs=95.0

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHh
Q 045403            9 GCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGD----------MESVIHVMRKLDELAISPDYNTFHILIKYFRKE   78 (144)
Q Consensus         9 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~   78 (144)
                      ..-++|++.++++....+. +...|+.--.++...++          ++++.+.++++.+..- -+..+|+.--..+.+.
T Consensus        43 ~~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~p-K~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           43 ELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-KSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHc
Confidence            3446778999998877555 67788877777777766          9999999999987543 5778899999999999


Q ss_pred             C--cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC-ChHHHHHHHHHhhhc
Q 045403           79 K--MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMR-AHSEALCLQHVKDIA  129 (144)
Q Consensus        79 g--~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~l~~~m~~~  129 (144)
                      +  +++++...++++.+.. .-+.+.|+----+..+.| ..+++.+.++++.+.
T Consensus       121 ~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~  173 (567)
T 1dce_A          121 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR  173 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTT
T ss_pred             ccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHH
Confidence            9  7799999999999764 347778887777777788 889999999887654

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=96.86  E-value=0.065  Score=37.88  Aligned_cols=116  Identities=12%  Similarity=-0.001  Sum_probs=66.4

Q ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc-C-CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH-----
Q 045403           10 CFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRT-G-DMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM-----   82 (144)
Q Consensus        10 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-~-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~-----   82 (144)
                      ++++++++++.+....++ +..+|+-.-..+... + +++++.++++++.+... -|..+|+----...+.|..+     
T Consensus       104 ~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dp-kNy~AW~~R~wvl~~l~~~~~~~~~  181 (349)
T 3q7a_A          104 SLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDP-KNYHTWAYLHWLYSHFSTLGRISEA  181 (349)
T ss_dssp             CHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCT-TCHHHHHHHHHHHHHHHHTTCCCHH
T ss_pred             hHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccccccchh
Confidence            466666666666655444 556666655555554 4 56666666666665422 35566665555555555444     


Q ss_pred             ---HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC-------hHHHHHHHHHhhh
Q 045403           83 ---LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRA-------HSEALCLQHVKDI  128 (144)
Q Consensus        83 ---~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~-------~~~a~~l~~~m~~  128 (144)
                         ++.+.++++.+.. .-+...|+-....+.+.+.       ++++++.+++...
T Consensus       182 ~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~  236 (349)
T 3q7a_A          182 QWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIH  236 (349)
T ss_dssp             HHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHH
Confidence               6666666666543 2355566655555555554       4566666665443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.70  E-value=0.043  Score=33.66  Aligned_cols=84  Identities=11%  Similarity=0.018  Sum_probs=55.1

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYR   86 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~   86 (144)
                      ++|++..+...+-.+.     -+..-.+..++.....|.-|+..+++.++.. +.+|+....-.+-.+|.+.|+..++.+
T Consensus        73 ~C~NlKrVi~C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~e  146 (172)
T 1wy6_A           73 KCQNLKSVVECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATT  146 (172)
T ss_dssp             GCSCTHHHHHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hhhcHHHHHHHHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHH
Confidence            4556666666655442     2455567777777777777777777777533 234666777777777777777777777


Q ss_pred             HHHHHHHCCC
Q 045403           87 TMVDMHKKGH   96 (144)
Q Consensus        87 ~~~~m~~~~~   96 (144)
                      ++.+.-+.|+
T Consensus       147 Ll~~AC~kG~  156 (172)
T 1wy6_A          147 LLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHTTC
T ss_pred             HHHHHHHhhh
Confidence            7777766664

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=96.47  E-value=0.12  Score=36.15  Aligned_cols=123  Identities=7%  Similarity=0.003  Sum_probs=62.6

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHh-----------
Q 045403           11 FEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGD-MESVIHVMRKLDELAISPDYNTFHILIKYFRKE-----------   78 (144)
Q Consensus        11 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~-----------   78 (144)
                      ++++..+++.+.+..+. |-..|+-....+...|. ++++.+.+.++.+..+ -|...|+-.-..+.+.           
T Consensus       126 ~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p-~N~SAW~~R~~ll~~l~~~~~~~~~~~  203 (331)
T 3dss_A          126 WARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGR  203 (331)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHHSCCC------C
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhhhccccccccc
Confidence            55666666666555433 55556655555555555 4566666666655433 4555555555554444           


Q ss_pred             ---CcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc-----------CChHHHHHHHHHhhhcCCCCcHH
Q 045403           79 ---KMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKM-----------RAHSEALCLQHVKDIAKDRCAMP  136 (144)
Q Consensus        79 ---g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~-----------g~~~~a~~l~~~m~~~~~~~~~~  136 (144)
                         +.++++.+.+.+..... +-|...|+-+--.+.+.           +.++++.+.++++.+..+...|.
T Consensus       204 ~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~~w~  274 (331)
T 3dss_A          204 LPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPENKWC  274 (331)
T ss_dssp             CCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTCHHH
T ss_pred             cchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCcccchH
Confidence               34555555555555432 22444454332222222           23555556666555444444443

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=96.44  E-value=0.024  Score=35.46  Aligned_cols=87  Identities=7%  Similarity=-0.132  Sum_probs=67.8

Q ss_pred             HhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcH----------HHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045403           41 CRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMY----------MLAYRTMVDMHKKGHQPEEELCSSLIFHL  110 (144)
Q Consensus        41 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~----------~~a~~~~~~m~~~~~~~~~~~~~~l~~~~  110 (144)
                      .+.+.+++|...++...+..- -+...|..+-.++...+++          ++|...|++..+.. +-+...|..+-.+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P-~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNP-LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHH
Confidence            455678999999999887532 4777888888888887764          59999999998753 22566888899999


Q ss_pred             hccC-----------ChHHHHHHHHHhhhc
Q 045403          111 GKMR-----------AHSEALCLQHVKDIA  129 (144)
Q Consensus       111 ~~~g-----------~~~~a~~l~~~m~~~  129 (144)
                      .+.|           ++++|.+.|++..+-
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh
Confidence            8764           899999999987653

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=96.36  E-value=0.07  Score=32.04  Aligned_cols=87  Identities=14%  Similarity=-0.114  Sum_probs=72.5

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH--
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK--   77 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~--   77 (144)
                      .|.+.+.+++|.+.|++..+.|   +...+..+-..|..    .+++++|...|++..+.|   +...+..+-..|..  
T Consensus        34 ~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~  107 (138)
T 1klx_A           34 VSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGK  107 (138)
T ss_dssp             HTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTS
T ss_pred             HHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCC
Confidence            3455677888999999988753   66788888888887    789999999999998864   56778888888888  


Q ss_pred             --hCcHHHHHHHHHHHHHCCC
Q 045403           78 --EKMYMLAYRTMVDMHKKGH   96 (144)
Q Consensus        78 --~g~~~~a~~~~~~m~~~~~   96 (144)
                        .++.++|..++++-.+.|.
T Consensus       108 g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A          108 GVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             SSCCCHHHHHHHHHHHHHTTC
T ss_pred             CCCcCHHHHHHHHHHHHHCCC
Confidence              8899999999999988763

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=96.29  E-value=0.2  Score=36.89  Aligned_cols=20  Identities=20%  Similarity=0.017  Sum_probs=14.7

Q ss_pred             hhccCCHHHHHHHHHHHHhc
Q 045403            5 FCRGGCFEEAKQLARDFEAK   24 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~   24 (144)
                      +.+.|++++|..+++.....
T Consensus       223 ~~~~~~~~~ar~i~erAi~~  242 (493)
T 2uy1_A          223 LIGIGQKEKAKKVVERGIEM  242 (493)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhC
Confidence            34567888888888877766

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=96.23  E-value=0.18  Score=35.39  Aligned_cols=128  Identities=7%  Similarity=-0.046  Sum_probs=96.3

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc-HHHHHHH
Q 045403           11 FEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTG--DMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM-YMLAYRT   87 (144)
Q Consensus        11 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~-~~~a~~~   87 (144)
                      +++++.+++.+....+. +..+|+---..+...+  .++++..+++++.+... -|..+|+----.....|. .+++.+.
T Consensus        90 l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~~~eel~~  167 (331)
T 3dss_A           90 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAF  167 (331)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            67899999998877655 8889998888888877  48999999999988644 688899998888888898 6899999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHhcc--------------CChHHHHHHHHHhhhc--CCCCcHHHHHHh
Q 045403           88 MVDMHKKGHQPEEELCSSLIFHLGKM--------------RAHSEALCLQHVKDIA--KDRCAMPFMRKF  141 (144)
Q Consensus        88 ~~~m~~~~~~~~~~~~~~l~~~~~~~--------------g~~~~a~~l~~~m~~~--~~~~~~~~~~~~  141 (144)
                      ++++.+.. .-|...|+-....+.+.              +.++++.+.+++....  ++..+|++...+
T Consensus       168 ~~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~l  236 (331)
T 3dss_A          168 TDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWL  236 (331)
T ss_dssp             HHHHHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            99998764 34666666554444433              4578888888886654  344455544443

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=96.23  E-value=0.18  Score=35.56  Aligned_cols=121  Identities=7%  Similarity=0.009  Sum_probs=92.5

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHh-C-cHH
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTG-DMESVIHVMRKLDELAISPDYNTFHILIKYFRKE-K-MYM   82 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~-g-~~~   82 (144)
                      .+.+..++|+++++.+....+. +...||..-..+...+ .+++++.+++.+..... -+..+|+.--..+... + +.+
T Consensus        65 ~~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nP-Kny~aW~hR~wlL~~l~~~~~~  142 (349)
T 3q7a_A           65 AKEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNL-KSYQVWHHRLLLLDRISPQDPV  142 (349)
T ss_dssp             HTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHHHCCSCCH
T ss_pred             HhCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhcCCChH
Confidence            3445667899999999887666 7788998888888888 59999999999987543 5777898888888877 7 889


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChH--------HHHHHHHHhhhc
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHS--------EALCLQHVKDIA  129 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~--------~a~~l~~~m~~~  129 (144)
                      +++.+++.+.+.. .-+...|+--.-.+.+.|..+        ++++.++++.+.
T Consensus       143 ~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~  196 (349)
T 3q7a_A          143 SEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV  196 (349)
T ss_dssp             HHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh
Confidence            9999999998653 346667765554544444555        888888887654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.10  E-value=0.12  Score=32.10  Aligned_cols=85  Identities=11%  Similarity=-0.019  Sum_probs=62.9

Q ss_pred             CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhC---cHHHHHHHHHHHHHCCCCC-C-HHHHHHHHHHHhccCChHHH
Q 045403           45 DMESVIHVMRKLDELAISPDYNTFHILIKYFRKEK---MYMLAYRTMVDMHKKGHQP-E-EELCSSLIFHLGKMRAHSEA  119 (144)
Q Consensus        45 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~~~~-~-~~~~~~l~~~~~~~g~~~~a  119 (144)
                      ....+.+-|.+-.+.|. ++..+.-.+-.++++++   +.+++..++++..+.. .| + ....=.+--+|.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            35567777777766665 78888888888888888   7779999999998764 24 1 22222355567999999999


Q ss_pred             HHHHHHhhhcCC
Q 045403          120 LCLQHVKDIAKD  131 (144)
Q Consensus       120 ~~l~~~m~~~~~  131 (144)
                      .+.++.+.+-++
T Consensus        91 ~~y~~~lL~ieP  102 (152)
T 1pc2_A           91 LKYVRGLLQTEP  102 (152)
T ss_dssp             HHHHHHHHHHCT
T ss_pred             HHHHHHHHhcCC
Confidence            999999876443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.07  E-value=0.082  Score=30.09  Aligned_cols=69  Identities=9%  Similarity=-0.121  Sum_probs=52.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCC------CCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCC
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELA------ISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPE   99 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~   99 (144)
                      +...+-.|...+.+.+++..|...|+...+.-      -.+....+..+..++.+.|++++|...+++..+.  .|+
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l--~P~   78 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL--DPE   78 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc--CCC
Confidence            45556678888888899999999888876531      1245667888888888999999999988888764  454

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=95.80  E-value=0.12  Score=36.80  Aligned_cols=76  Identities=9%  Similarity=0.074  Sum_probs=64.5

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 045403           27 KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSL  106 (144)
Q Consensus        27 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  106 (144)
                      +.+..+|..+-..+...|++++|...+++....+  |+...|..+-..+...|+.++|.+.+++....  .|...+|...
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~~~  349 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLYWI  349 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHHHH
Confidence            5688888888888888899999999999999865  88888888889999999999999999988864  5777776543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.79  E-value=0.11  Score=29.19  Aligned_cols=67  Identities=9%  Similarity=-0.010  Sum_probs=45.6

Q ss_pred             CCCHHHHHHHHHHHHhcCC---HHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHC
Q 045403           27 KYDVVLLNSMLCAYCRTGD---MESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKK   94 (144)
Q Consensus        27 ~p~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   94 (144)
                      +.|...+..+-.++...++   .++|..++++..+..- -+..+...+-..+.+.|++++|...|+++.+.
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp-~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEP-YNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCc-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4466667777777654443   5788888877766321 34556666667777888888888888888764

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=95.76  E-value=0.049  Score=38.91  Aligned_cols=79  Identities=15%  Similarity=-0.007  Sum_probs=63.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHH-----CCCCCCHHHHHHH
Q 045403           32 LLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHK-----KGHQPEEELCSSL  106 (144)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~~~~~l  106 (144)
                      +...++.++...|+++++...+....... +.++..|..++.++...|+..+|.+.|+++.+     .|+.|...+-...
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            45567888889999999999998887642 36889999999999999999999999998864     5999988876555


Q ss_pred             HHHHh
Q 045403          107 IFHLG  111 (144)
Q Consensus       107 ~~~~~  111 (144)
                      -....
T Consensus       252 ~~il~  256 (388)
T 2ff4_A          252 ERILR  256 (388)
T ss_dssp             HHHHT
T ss_pred             HHHHc
Confidence            44443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.68  E-value=0.13  Score=29.26  Aligned_cols=54  Identities=15%  Similarity=0.171  Sum_probs=29.8

Q ss_pred             hhccCCHHHHHHHHHHHHhcC------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 045403            5 FCRGGCFEEAKQLARDFEAKY------DKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDE   58 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~------~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (144)
                      +.+.|+++.|...|++..+.-      ..+....+..+..++.+.|++++|...+++..+
T Consensus        15 ~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A           15 AYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            445566666666666554321      122445555666666666666666666666555

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.58  E-value=0.26  Score=34.01  Aligned_cols=95  Identities=11%  Similarity=-0.001  Sum_probs=69.7

Q ss_pred             CCHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHHhc-----CCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHh-C
Q 045403            9 GCFEEAKQLARDFEAKYDKYD---VVLLNSMLCAYCRT-----GDMESVIHVMRKLDELAISPDYNTFHILIKYFRKE-K   79 (144)
Q Consensus         9 g~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~-g   79 (144)
                      +....|...+++..+.  .|+   ...|.++...|.+.     |+.++|...|++..+-+-.-+..++...-..++.. |
T Consensus       177 ~~l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~g  254 (301)
T 3u64_A          177 DTVHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLN  254 (301)
T ss_dssp             HHHHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTT
T ss_pred             HhHHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcC
Confidence            3456777777777664  555   67899999999984     89999999999988743222367777777888774 8


Q ss_pred             cHHHHHHHHHHHHHCCCC--CCHHHHHH
Q 045403           80 MYMLAYRTMVDMHKKGHQ--PEEELCSS  105 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~--~~~~~~~~  105 (144)
                      +.+++.+.+++.......  |+....+.
T Consensus       255 d~~~a~~~L~kAL~a~p~~~P~~~lan~  282 (301)
T 3u64_A          255 NRAGFDEALDRALAIDPESVPHNKLLVI  282 (301)
T ss_dssp             CHHHHHHHHHHHHHCCGGGCSSCHHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCCCChhHHHH
Confidence            999999999999887655  66444433

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=95.54  E-value=0.16  Score=29.31  Aligned_cols=76  Identities=16%  Similarity=0.233  Sum_probs=55.7

Q ss_pred             HHHHHHHHHh-cC-CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045403           33 LNSMLCAYCR-TG-DMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFH  109 (144)
Q Consensus        33 ~~~li~~~~~-~~-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~  109 (144)
                      |++--..|.. .. +..++.+-++.+....+.|+.....+.+++|.+.+++..|.++++-.+.. +.+...+|..++.-
T Consensus        11 F~aRy~~~F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lqE   88 (109)
T 1v54_E           11 FDARWVTYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQE   88 (109)
T ss_dssp             HHHHHHHHHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHH
T ss_pred             HHHHHHHHcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHHH
Confidence            3333334443 34 67888888999888888899999999999999999999999999988732 22334567666543

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=95.17  E-value=0.56  Score=33.44  Aligned_cols=63  Identities=13%  Similarity=-0.064  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           66 NTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        66 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      .+...++..+...|+.+++......+... .+.+...|..+|.++.+.|+..+|++.|++.+..
T Consensus       172 ~a~~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~  234 (388)
T 2ff4_A          172 LAHTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTT  234 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34566788888999999999988888754 2568889999999999999999999999986653

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.03  E-value=0.66  Score=36.23  Aligned_cols=119  Identities=13%  Similarity=0.060  Sum_probs=78.4

Q ss_pred             ccCC-HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHhhhC------CCCC-CHH----------H
Q 045403            7 RGGC-FEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTG-DMESVIHVMRKLDEL------AISP-DYN----------T   67 (144)
Q Consensus         7 ~~g~-~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~------g~~p-~~~----------~   67 (144)
                      -.|+ .+.|..+|+.+.+..+..+.....++|..+...+ +--+|..++.+..+.      ...+ +..          .
T Consensus       260 ~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~L  339 (754)
T 4gns_B          260 ITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARLMNCMSDL  339 (754)
T ss_dssp             TCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccccccCcchHH
Confidence            3444 5789999999988754434444445555554443 233455555554321      1222 111          1


Q ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           68 FHILIKYFRKEKMYMLAYRTMVDMHKKGHQPE-EELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        68 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      .+.=.+-+...|+++.|+.+-++....  .|+ =.+|..|..+|.+.|+++.|+-.+..++
T Consensus       340 L~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          340 LNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            122234466789999999999998763  565 6699999999999999999999999886

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=94.72  E-value=0.38  Score=29.29  Aligned_cols=63  Identities=17%  Similarity=0.221  Sum_probs=39.9

Q ss_pred             CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045403           45 DMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIF  108 (144)
Q Consensus        45 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~  108 (144)
                      +..++.+-++.+....+.|+.....+.+++|.+.+|+..|.++++-.+.. +.+...+|..++.
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            45566666666666666677777777777777777777777777776622 2233445555543

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=94.60  E-value=0.45  Score=29.93  Aligned_cols=115  Identities=11%  Similarity=0.007  Sum_probs=67.5

Q ss_pred             CCCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHhhhC-CCCCCH-------HHHHHHHHHHHHhCcHHHHHHHHHHHHHC
Q 045403           25 YDKYDVVLLN--SMLCAYCRTGDMESVIHVMRKLDEL-AISPDY-------NTFHILIKYFRKEKMYMLAYRTMVDMHKK   94 (144)
Q Consensus        25 ~~~p~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~~-g~~p~~-------~~~~~li~~~~~~g~~~~a~~~~~~m~~~   94 (144)
                      |..|-...|+  .=++.+...+.++.|.-+.+.+... +..|+.       .+..-+.+++...+++.+|...|++..+.
T Consensus        13 ~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~   92 (167)
T 3ffl_A           13 GLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQ   92 (167)
T ss_dssp             --------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHH
Confidence            4444443333  3355567777777777777775532 223332       14455666777788888888877774311


Q ss_pred             --C----------------------CCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCCCCcHHHHH
Q 045403           95 --G----------------------HQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKDRCAMPFMR  139 (144)
Q Consensus        95 --~----------------------~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~~~~~~~~  139 (144)
                        -                      ...+...-=-+-.||.+.|+.++|..+++.++...+....+.+.
T Consensus        93 ~k~l~k~~s~~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~Rt~kvnm~L  161 (167)
T 3ffl_A           93 KKALSKTSKVRPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQRTPKINMLL  161 (167)
T ss_dssp             HHCC--------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGGCCHHHHHHH
T ss_pred             HHHHhcCCCccccccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchhcCHHHHHHH
Confidence              0                      11111222237788999999999999999998876666665543

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=94.56  E-value=0.21  Score=31.08  Aligned_cols=100  Identities=9%  Similarity=-0.114  Sum_probs=68.3

Q ss_pred             CCCHHHHHHHHHHHHhcCCH------HHHHHHHHHhhhCCCCCCHH-HHHHHHHH------HHHhCcHHHHHHHHHHHHH
Q 045403           27 KYDVVLLNSMLCAYCRTGDM------ESVIHVMRKLDELAISPDYN-TFHILIKY------FRKEKMYMLAYRTMVDMHK   93 (144)
Q Consensus        27 ~p~~~~~~~li~~~~~~~~~------~~a~~~~~~m~~~g~~p~~~-~~~~li~~------~~~~g~~~~a~~~~~~m~~   93 (144)
                      +-|..+|=..+...-+.|+.      ++..++|++.... ++|+.. .|..-|..      +...++.++|.++|+.+.+
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~   88 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARA   88 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            44667777777777777777      7888888877653 555432 11111111      2335788899999999976


Q ss_pred             CCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           94 KGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        94 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .+-+. ...|-....--.+.|++++|.+++.+-..
T Consensus        89 ~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG  122 (161)
T 4h7y_A           89 NCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVE  122 (161)
T ss_dssp             HCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhc
Confidence            53333 66776666667789999999999998664

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=94.14  E-value=0.22  Score=38.22  Aligned_cols=80  Identities=10%  Similarity=0.025  Sum_probs=53.4

Q ss_pred             HHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCC-------CCCCHHHHHHHHHHHhc
Q 045403           40 YCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKG-------HQPEEELCSSLIFHLGK  112 (144)
Q Consensus        40 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-------~~~~~~~~~~l~~~~~~  112 (144)
                      ....|++++|.++.+.+      .+...|..+-..+.+.++++.|.++|.++....       ..-+......+.....+
T Consensus       662 ~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d~~~l~~l~~~~~~~~~~~~~~~~a~~  735 (814)
T 3mkq_A          662 ALKVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHDLESLFLLHSSFNNKEGLVTLAKDAET  735 (814)
T ss_dssp             HHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccChhhhHHHHHHcCCHHHHHHHHHHHHH
Confidence            34456666666664433      567899999999999999999999999875211       01233444555666666


Q ss_pred             cCChHHHHHHHHH
Q 045403          113 MRAHSEALCLQHV  125 (144)
Q Consensus       113 ~g~~~~a~~l~~~  125 (144)
                      .|++..|..++-+
T Consensus       736 ~~~~~~A~~~~~~  748 (814)
T 3mkq_A          736 TGKFNLAFNAYWI  748 (814)
T ss_dssp             TTCHHHHHHHHHH
T ss_pred             cCchHHHHHHHHH
Confidence            7777777766653

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=93.86  E-value=0.44  Score=26.61  Aligned_cols=48  Identities=10%  Similarity=-0.072  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 045403           11 FEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL   59 (144)
Q Consensus        11 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   59 (144)
                      .++|..++++..+..+. ++.....+-..+.+.|++++|...|+++.+.
T Consensus        25 ~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A           25 TDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            46666666666655433 5555556666666666666666666666553

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.65  E-value=0.72  Score=28.37  Aligned_cols=119  Identities=9%  Similarity=0.081  Sum_probs=84.6

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-CC----------------CCCHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL-AI----------------SPDYNTFH   69 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~----------------~p~~~~~~   69 (144)
                      -.|.+++..++..+..+   +.+..-||=.|.-....-+=+-..++++..-+. .+                ..+...+.
T Consensus        19 ldG~v~qGveii~k~~~---ssni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis~C~NlKrVi~C~~~~n~~se~vd   95 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITK---SSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEHVN   95 (172)
T ss_dssp             HTTCHHHHHHHHHHHHH---HSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHHHH
T ss_pred             HhhhHHHHHHHHHHHcC---CCCccccceeeeecchhhchhHHHHHHHHHhhhcCcHhhhcHHHHHHHHHHhcchHHHHH
Confidence            35888888888888775   346666776666666655555555555554432 00                23344566


Q ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           70 ILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        70 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ..++.....|.-|.-.++..++.. +.+|++...-.+..+|.+.|+..++.+++.+.-+.
T Consensus        96 ~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k  154 (172)
T 1wy6_A           96 KALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKK  154 (172)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence            677778888888888888888654 34788889999999999999999999999986653

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=92.95  E-value=1.5  Score=30.21  Aligned_cols=101  Identities=5%  Similarity=-0.024  Sum_probs=72.0

Q ss_pred             CCHHHHHHHHHH-HHhc--CC------HHHHHHHHHHhhhCCCCCC---HHHHHHHHHHHHH-----hCcHHHHHHHHHH
Q 045403           28 YDVVLLNSMLCA-YCRT--GD------MESVIHVMRKLDELAISPD---YNTFHILIKYFRK-----EKMYMLAYRTMVD   90 (144)
Q Consensus        28 p~~~~~~~li~~-~~~~--~~------~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~-----~g~~~~a~~~~~~   90 (144)
                      +..-.|..++.+ +...  |.      ...|...+++..+  +.|+   -..|..+...|..     -|+.++|.+.|++
T Consensus       152 ve~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~fer  229 (301)
T 3u64_A          152 VGTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEH  229 (301)
T ss_dssp             HHHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHH
Confidence            344556655554 3332  32      4566666666665  3565   5689999999999     4999999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHhc-cCChHHHHHHHHHhhhcC
Q 045403           91 MHKKGHQPEEELCSSLIFHLGK-MRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        91 m~~~~~~~~~~~~~~l~~~~~~-~g~~~~a~~l~~~m~~~~  130 (144)
                      -.+.+-.-+..++......+++ .|+.+++.+.+++.....
T Consensus       230 AL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~  270 (301)
T 3u64_A          230 LTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAID  270 (301)
T ss_dssp             HHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCC
T ss_pred             HHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCC
Confidence            9975421136677778888888 499999999999976543

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=92.39  E-value=1.1  Score=27.87  Aligned_cols=102  Identities=5%  Similarity=-0.123  Sum_probs=68.9

Q ss_pred             hhccCCH------HHHHHHHHHHHhcCCCCCH-HHHHHHHHHH------HhcCCHHHHHHHHHHhhhCCCCCCHHHHHHH
Q 045403            5 FCRGGCF------EEAKQLARDFEAKYDKYDV-VLLNSMLCAY------CRTGDMESVIHVMRKLDELAISPDYNTFHIL   71 (144)
Q Consensus         5 ~~~~g~~------~~a~~~~~~m~~~~~~p~~-~~~~~li~~~------~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l   71 (144)
                      .-+.|+.      ++..++|++.... ++|+. ..|-.-|..+      ...++.++|.++|+.+++.+=+. ...|-..
T Consensus        23 lE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~hKkF-AKiwi~~  100 (161)
T 4h7y_A           23 LEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANCKKF-AFVHISF  100 (161)
T ss_dssp             HHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHCTTB-HHHHHHH
T ss_pred             HHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhHHH-HHHHHHH
Confidence            3445777      8888888887764 44433 2222333222      23478899999999998763334 7777777


Q ss_pred             HHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045403           72 IKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFH  109 (144)
Q Consensus        72 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~  109 (144)
                      ..--.+.|+++.|.+++.+-...+.+| .....+.+.-
T Consensus       101 AqFEiRqgnl~kARkILg~AiG~~~k~-~~~le~a~~n  137 (161)
T 4h7y_A          101 AQFELSQGNVKKSKQLLQKAVERGAVP-LEMLEIALRN  137 (161)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTCBC-HHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHhccCCCc-HHHHHHHHHh
Confidence            777888999999999999999876544 4444444443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=91.59  E-value=1.2  Score=25.69  Aligned_cols=75  Identities=15%  Similarity=-0.051  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 045403           46 MESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHV  125 (144)
Q Consensus        46 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~  125 (144)
                      .++|..|-+-+...|.  ...+--+-+..+...|++++|..+.+.+    +.||...|-+|-.  .+.|..+++...+-+
T Consensus        22 HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALce--~rlGl~s~le~rL~~   93 (115)
T 2uwj_G           22 HEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGN----PWPALEPWFALCE--WHLGLGAALDRRLAG   93 (115)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTC----CCGGGHHHHHHHH--HHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHHH--HhcccHHHHHHHHHH
Confidence            4455555555544322  2222222223344455555555443332    3455555544332  245555555555544


Q ss_pred             hhh
Q 045403          126 KDI  128 (144)
Q Consensus       126 m~~  128 (144)
                      +..
T Consensus        94 la~   96 (115)
T 2uwj_G           94 LGG   96 (115)
T ss_dssp             HHT
T ss_pred             HHh
Confidence            443

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=91.21  E-value=1.3  Score=25.53  Aligned_cols=75  Identities=12%  Similarity=-0.055  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 045403           46 MESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHV  125 (144)
Q Consensus        46 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~  125 (144)
                      .++|..|-+-+...|.  ...+--+-+..+...|++++|..+.+.+    +.||...|-+|-.  .+.|..+++...+-+
T Consensus        23 HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALce--~rlGl~s~le~rL~~   94 (116)
T 2p58_C           23 HEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKL----AYPDLEPWLALCE--YRLGLGSALESRLNR   94 (116)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTS----CCGGGHHHHHHHH--HHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHHH--HhcccHHHHHHHHHH
Confidence            3455555554444322  2222222223344455555555443333    3455555544322  244555555554444


Q ss_pred             hhh
Q 045403          126 KDI  128 (144)
Q Consensus       126 m~~  128 (144)
                      +..
T Consensus        95 la~   97 (116)
T 2p58_C           95 LAR   97 (116)
T ss_dssp             HTT
T ss_pred             HHh
Confidence            443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=91.13  E-value=1.5  Score=26.17  Aligned_cols=64  Identities=13%  Similarity=-0.017  Sum_probs=27.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHH---HHHHHHHhhhCCCCC--CHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMES---VIHVMRKLDELAISP--DYNTFHILIKYFRKEKMYMLAYRTMVDMHK   93 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~---a~~~~~~m~~~g~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~   93 (144)
                      +..+--.+-.+++++.....   ...++.+..+.+- |  +....--+--++.+.|++++|.+.++.+.+
T Consensus        34 s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~-p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           34 SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGS-KEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSC-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCC-cchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            44444444444444443333   5555555444321 2  112222233334455555555555555544

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=90.92  E-value=1.6  Score=26.07  Aligned_cols=86  Identities=9%  Similarity=-0.043  Sum_probs=59.9

Q ss_pred             CCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH---HHHHHHHHHHCCCCC-CHHHHH-HHHHHHhccCChHH
Q 045403           44 GDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML---AYRTMVDMHKKGHQP-EEELCS-SLIFHLGKMRAHSE  118 (144)
Q Consensus        44 ~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~---a~~~~~~m~~~~~~~-~~~~~~-~l~~~~~~~g~~~~  118 (144)
                      .....+.+-|.+-...|. |+..+--.+..++.++...+.   +..+++++.+.+ .| ...-+. .|.-++.+.|++++
T Consensus        15 ~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~   92 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   92 (126)
T ss_dssp             HHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHH
Confidence            345566667766655555 777776667777777776555   888999988754 23 223332 35667889999999


Q ss_pred             HHHHHHHhhhcCC
Q 045403          119 ALCLQHVKDIAKD  131 (144)
Q Consensus       119 a~~l~~~m~~~~~  131 (144)
                      |.+.++.+.+..+
T Consensus        93 A~~~~~~lL~~eP  105 (126)
T 1nzn_A           93 ALKYVRGLLQTEP  105 (126)
T ss_dssp             HHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHhCC
Confidence            9999999876544

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=90.48  E-value=1.6  Score=25.21  Aligned_cols=57  Identities=14%  Similarity=0.137  Sum_probs=47.4

Q ss_pred             HHHHHhC-cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           73 KYFRKEK-MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        73 ~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +.+.+.. |.=+..+.++.+....+.|++.+..+.+++|.+.+|+.-|.++++-++..
T Consensus        17 ~~F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K   74 (109)
T 1v54_E           17 TYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   74 (109)
T ss_dssp             HHHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3333444 45567788888888899999999999999999999999999999988764

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.93  E-value=3.1  Score=30.06  Aligned_cols=99  Identities=12%  Similarity=-0.000  Sum_probs=69.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhhC--CCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHH---CCCCCCHHH--H
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKLDEL--AISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHK---KGHQPEEEL--C  103 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~~--~  103 (144)
                      .+...+...|.+.|++++|.++|.++...  +.+.-...+-..+..+...+++..+...+++...   .+..|+...  .
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk  211 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK  211 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH
Confidence            46777888999999999999999999864  3344456688888999999999999988888763   232333221  1


Q ss_pred             HHHHHHHhccCChHHHHHHHHHhhhc
Q 045403          104 SSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus       104 ~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ..-...+...+++..|.+.|-+.-..
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhcc
Confidence            11222344678888888888775443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=88.89  E-value=2.2  Score=24.58  Aligned_cols=87  Identities=14%  Similarity=0.121  Sum_probs=61.3

Q ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHH
Q 045403           10 CFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMV   89 (144)
Q Consensus        10 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~   89 (144)
                      .-++|..+-+.+...+-  ...+--+-+..+..+|+|++|..+.+.+-    -||...|-++-.  .+.|..+.+...+.
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~   92 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNP----WPALEPWFALCE--WHLGLGAALDRRLA   92 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCC----CGGGHHHHHHHH--HHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHH
Confidence            45678888787776433  22332344445678899999998876654    599999988754  58899999998888


Q ss_pred             HHHHCCCCCCHHHHHH
Q 045403           90 DMHKKGHQPEEELCSS  105 (144)
Q Consensus        90 ~m~~~~~~~~~~~~~~  105 (144)
                      ++...| .|....|..
T Consensus        93 ~la~sg-~p~~q~Fa~  107 (115)
T 2uwj_G           93 GLGGSS-DPALADFAA  107 (115)
T ss_dssp             HHHTCS-SHHHHHHHH
T ss_pred             HHHhCC-CHHHHHHHH
Confidence            888766 455555544

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=88.52  E-value=2.3  Score=24.49  Aligned_cols=87  Identities=17%  Similarity=0.173  Sum_probs=61.5

Q ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHH
Q 045403           10 CFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMV   89 (144)
Q Consensus        10 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~   89 (144)
                      .-++|..+-+.+...+-  ...+--+-+..+..+|+|++|..+.+.+-    -||...|-++-.  .+.|..+.+...+.
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~   93 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLA----YPDLEPWLALCE--YRLGLGSALESRLN   93 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSC----CGGGHHHHHHHH--HHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHH
Confidence            45778888887776433  22332344445678899999999887765    599999988754  57899998888888


Q ss_pred             HHHHCCCCCCHHHHHH
Q 045403           90 DMHKKGHQPEEELCSS  105 (144)
Q Consensus        90 ~m~~~~~~~~~~~~~~  105 (144)
                      ++...| .|....|..
T Consensus        94 ~la~sg-~p~~q~Fa~  108 (116)
T 2p58_C           94 RLARSQ-DPRIQTFVN  108 (116)
T ss_dssp             HHTTCC-CHHHHHHHH
T ss_pred             HHHhCC-CHHHHHHHH
Confidence            887665 455555544

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.30  E-value=5.8  Score=28.81  Aligned_cols=71  Identities=11%  Similarity=-0.071  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHH--CCCCCC---HHHHHHHHHHHhccCChHHHHHHHHHhhhc--CCCCcHHH
Q 045403           67 TFHILIKYFRKEKMYMLAYRTMVDMHK--KGHQPE---EELCSSLIFHLGKMRAHSEALCLQHVKDIA--KDRCAMPF  137 (144)
Q Consensus        67 ~~~~li~~~~~~g~~~~a~~~~~~m~~--~~~~~~---~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~--~~~~~~~~  137 (144)
                      ....|.+.+-..|++.+|.+++.++..  .|....   ...+...+..|...+++.+|..++......  ..++++..
T Consensus       139 l~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~l  216 (445)
T 4b4t_P          139 VTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESL  216 (445)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHH
Confidence            345677788889999999999999863  232222   346677788899999999999998886432  34444443

>2nsz_A Programmed cell death protein 4; PDCD4, tumor suppressor, translation, antitumor protein; 1.15A {Mus musculus} SCOP: a.118.1.14 PDB: 2kzt_B 2hm8_A 2ggf_A

Probab=88.28  E-value=2.3  Score=25.33  Aligned_cols=69  Identities=10%  Similarity=0.274  Sum_probs=35.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhC--cHHHHHHHHHHHHHCCCCCCHHH
Q 045403           33 LNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEK--MYMLAYRTMVDMHKKGHQPEEEL  102 (144)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~~~~~~~~~  102 (144)
                      .+.+|.=|...|+.++|...++++..-.. ....+...+..+.-+.+  ..+.+..++..+.+.|+-+....
T Consensus        10 i~~ll~EY~~~~D~~Ea~~cl~eL~~p~f-~~e~V~~~i~~alE~~~~~~~e~~~~LL~~L~~~~~is~~q~   80 (129)
T 2nsz_A           10 IDMLLKEYLLSGDISEAEHCLKELEVPHF-HHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQM   80 (129)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHTCGGG-HHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhCCCcc-HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCCcCHHHH
Confidence            45566666667777777777777642111 11223334444444432  23456666666666655444333

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=87.70  E-value=5.2  Score=28.73  Aligned_cols=126  Identities=12%  Similarity=0.047  Sum_probs=86.9

Q ss_pred             hhhhccCCHHHHHHHHHHHHhc----CCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHhhhCCCCCCHHHH------HHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAK----YDKYDVVLLNSMLCAYCRTG-DMESVIHVMRKLDELAISPDYNTF------HIL   71 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~----~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~g~~p~~~~~------~~l   71 (144)
                      ..|.+.|+.++..+++.....-    +-.-.......+|+.+...+ ..+.-.++..+..+..- -+..+|      .-+
T Consensus        27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~-~~~r~flr~~l~~kL  105 (394)
T 3txn_A           27 ELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAK-QEKRTFLRQSLEARL  105 (394)
T ss_dssp             HHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Confidence            5678899999999998876532    11124466778899888764 45556666665554311 111233      367


Q ss_pred             HHHHHHhCcHHHHHHHHHHHHHCCCCC-----CHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           72 IKYFRKEKMYMLAYRTMVDMHKKGHQP-----EEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        72 i~~~~~~g~~~~a~~~~~~m~~~~~~~-----~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      .+.|...|++.+|.+++.++.+.=-..     -..+|..-+..|...|++.++...+...+..
T Consensus       106 ~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~  168 (394)
T 3txn_A          106 IALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTT  168 (394)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhh
Confidence            889999999999999999987531111     2335667788899999999999999876654

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=87.60  E-value=3.8  Score=25.95  Aligned_cols=84  Identities=14%  Similarity=0.052  Sum_probs=60.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCC-C------CCCHH--------
Q 045403           37 LCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKG-H------QPEEE--------  101 (144)
Q Consensus        37 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~------~~~~~--------  101 (144)
                      .....+.|+++.|.++.+++      -+...|..+-+.....|+++-|.++|.+....+ +      .-|..        
T Consensus        12 F~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D~~~L~~Ly~~tg~~e~L~kla~i   85 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHSFDKLSFLYLVTGDVNKLSKMQNI   85 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTCHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHH
Confidence            44557889999999998876      467899999999999999999988887765211 0      00111        


Q ss_pred             -----HHHHHHHHHhccCChHHHHHHHHHh
Q 045403          102 -----LCSSLIFHLGKMRAHSEALCLQHVK  126 (144)
Q Consensus       102 -----~~~~l~~~~~~~g~~~~a~~l~~~m  126 (144)
                           -++....++.-.|+++++.+++.+.
T Consensus        86 A~~~g~~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           86 AQTREDFGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHTTCHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHCccHHHHHHHHHHcCCHHHHHHHHHHC
Confidence                 1444456666788888888888654

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=87.57  E-value=3.3  Score=25.22  Aligned_cols=50  Identities=10%  Similarity=0.033  Sum_probs=43.8

Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      |.=+..+-++++....+.|++.+..+.+++|-+.+|+.-|.++++-++..
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K  117 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK  117 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            44456777888888889999999999999999999999999999988764

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=87.16  E-value=2.8  Score=28.53  Aligned_cols=115  Identities=20%  Similarity=0.162  Sum_probs=77.4

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHH----HHHHHHHHHHHh
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYN----TFHILIKYFRKE   78 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~----~~~~li~~~~~~   78 (144)
                      ....+.|+++++++....-.+..+. |...-..++..+|-.|++++|..-++...+.  .|+..    +|..+|.+-   
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~P~-da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l--~p~~~~~a~~yr~lI~aE---   78 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAA---   78 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHH---
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CchhhHHHHHHHHHHHHH---
Confidence            3467889999999999988877555 8888899999999999999999999888763  23322    333333322   


Q ss_pred             CcHHHHHHHHHHHHHCCC-----CCCHHHHHHHHHHHh--ccCChHHHHHHHHHhhhcC
Q 045403           79 KMYMLAYRTMVDMHKKGH-----QPEEELCSSLIFHLG--KMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus        79 g~~~~a~~~~~~m~~~~~-----~~~~~~~~~l~~~~~--~~g~~~~a~~l~~~m~~~~  130 (144)
                       ...      .+.-..+-     .....-...++.+..  ..|+.++|..+-.+..+..
T Consensus        79 -~~R------~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~a  130 (273)
T 1zbp_A           79 -QAR------KDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  130 (273)
T ss_dssp             -HHH------HHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             -HHH------HHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC
Confidence             111      11112211     123334556777655  4699999999988876543

>2ion_A PDCD4, programmed cell death 4, PDCD4; alpha-helical, antitumor protein; 1.57A {Mus musculus} SCOP: a.118.1.14 PDB: 2ios_A 2iol_A

Probab=86.02  E-value=3.5  Score=25.34  Aligned_cols=25  Identities=24%  Similarity=0.590  Sum_probs=13.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhh
Q 045403           33 LNSMLCAYCRTGDMESVIHVMRKLD   57 (144)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~   57 (144)
                      .+.+|.=|...++.++|...++++.
T Consensus        12 i~~lL~EY~~~~D~~EA~~cl~EL~   36 (152)
T 2ion_A           12 IDMLLKEYLLSGDISEAEHCLKELE   36 (152)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhC
Confidence            3445555555555555555555553

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=85.41  E-value=5.4  Score=27.14  Aligned_cols=71  Identities=10%  Similarity=0.046  Sum_probs=53.7

Q ss_pred             HHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCC--CCCCHHHHHHHHHH
Q 045403           38 CAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKG--HQPEEELCSSLIFH  109 (144)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~~~~~~~~~l~~~  109 (144)
                      ....+.|.++++..-...-++.. +-|...-..++..+|..|++++|.+-++...+..  ..|....|..+|.+
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~lI~a   77 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKA   77 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHH
Confidence            34567889999998887777653 3588888999999999999999999888887542  23445566666665

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=84.72  E-value=14  Score=30.34  Aligned_cols=99  Identities=11%  Similarity=0.063  Sum_probs=63.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCC-----------------------HHHHHHHHHHHHHhCcHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPD-----------------------YNTFHILIKYFRKEKMYMLAY   85 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-----------------------~~~~~~li~~~~~~g~~~~a~   85 (144)
                      +...-=.+-.++...|++++|..+|.+.. .|+..+                       ..=|..++..+-+.+..+.+.
T Consensus       841 ~~~~~yl~g~~~L~~ge~~~A~~~F~kaa-~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi  919 (1139)
T 4fhn_B          841 DPIAVYLKALIYLKSKEAVKAVRCFKTTS-LVLYSHTSQFAVLREFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDAL  919 (1139)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHTCC-CSCTTCCCSCSSHHHHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHH
T ss_pred             CcHHHHHHHHHHHhcCCHHHHHHHHHHHh-hhhcccchhhhhhcccccccccccccccHHHHHHHHHHHHHHcCCHHHHH
Confidence            44433455666788899999999997742 122111                       122566777777788777777


Q ss_pred             HHHHHHHHC-CCCCC---HHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           86 RTMVDMHKK-GHQPE---EELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        86 ~~~~~m~~~-~~~~~---~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      ++-..-.+. +-.++   ...|..+++++.+.|++++|...+-.++.
T Consensus       920 ~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd  966 (1139)
T 4fhn_B          920 EFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLST  966 (1139)
T ss_dssp             HHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHH
T ss_pred             HHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCC
Confidence            665544432 11111   22577888999999999998888877764

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=84.47  E-value=9.4  Score=27.51  Aligned_cols=91  Identities=11%  Similarity=0.050  Sum_probs=63.9

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-CCCCCHHHHHHHHHH----H
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKY--DKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL-AISPDYNTFHILIKY----F   75 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~----~   75 (144)
                      ..|.+.|++++|.+.|.++....  ...-...+-..|+.+...+++..+...+++.... .-.+|...-+.+-.+    +
T Consensus       139 ~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~~~gl~~  218 (429)
T 4b4t_R          139 EYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKTYYGIHC  218 (429)
T ss_dssp             HHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHHHHHHGG
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHHHHHHHH
Confidence            45788999999999999998753  3444577788899999999999999999987642 111332222222111    2


Q ss_pred             HHhCcHHHHHHHHHHHHH
Q 045403           76 RKEKMYMLAYRTMVDMHK   93 (144)
Q Consensus        76 ~~~g~~~~a~~~~~~m~~   93 (144)
                      ...+++..|...|-+...
T Consensus       219 l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          219 LAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             GGTSCHHHHHHHHHHHHH
T ss_pred             HHhChHHHHHHHHHHHhc
Confidence            346788888888877653

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=84.39  E-value=3.5  Score=32.25  Aligned_cols=51  Identities=22%  Similarity=0.255  Sum_probs=44.5

Q ss_pred             HHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcHHHHHHHHHHH
Q 045403           39 AYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMYMLAYRTMVDM   91 (144)
Q Consensus        39 ~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m   91 (144)
                      .+...|+++-|+.+-++.+..  .| +..||..|.++|.+.|+++.|+-.++.+
T Consensus       346 FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            355679999999999998764  45 5789999999999999999999998888

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=84.27  E-value=5  Score=24.20  Aligned_cols=70  Identities=11%  Similarity=0.004  Sum_probs=43.1

Q ss_pred             CCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHC
Q 045403           25 YDKYDVVLLNSMLCAYCRTGD---MESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKK   94 (144)
Q Consensus        25 ~~~p~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   94 (144)
                      +..|+..+-=..-.+++++..   ..++..++.+..+.+-.-.....--+--++.+.|++++|.+..+.+.+.
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            445555555555555665553   3467777777766542123444555556677888888888888887753

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=81.39  E-value=14  Score=30.27  Aligned_cols=112  Identities=7%  Similarity=-0.084  Sum_probs=75.1

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCC-----------------------CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKY-----------------------DVVLLNSMLCAYCRTGDMESVIHVMRKLDEL   59 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p-----------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   59 (144)
                      .+|...|++++|.+.|++.-. |+..                       -..=|.-++..|-+.+.++.+.++-....+.
T Consensus       850 ~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~  928 (1139)
T 4fhn_B          850 LIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADAS  928 (1139)
T ss_dssp             HHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhcccccccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            356779999999999976421 1110                       1122566778888889888888887766554


Q ss_pred             CCCCCH----HHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChH
Q 045403           60 AISPDY----NTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHS  117 (144)
Q Consensus        60 g~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~  117 (144)
                      .-.-+.    ..|+.+.+++...|++++|...+-.+.....+  ..-...|+...|+.|.++
T Consensus       929 ~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r--~~cLr~LV~~lce~~~~~  988 (1139)
T 4fhn_B          929 KETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK--KSCLLDFVNQLTKQGKIN  988 (1139)
T ss_dssp             CCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC--HHHHHHHHHHHHHHCCHH
T ss_pred             ccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH--HHHHHHHHHHHHhCCChh
Confidence            221121    25899999999999999999888877654432  345556666666655543

>2npu_A FKBP12-rapamycin complex-associated protein; four-helix bundle, transferase; NMR {Homo sapiens}

Probab=80.77  E-value=4.1  Score=24.31  Aligned_cols=54  Identities=13%  Similarity=0.017  Sum_probs=25.5

Q ss_pred             HHhCcHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           76 RKEKMYMLAYRTMVDMHK-KGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        76 ~~~g~~~~a~~~~~~m~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      ...++.+.+.++++.+.+ ..-.|.+..-.+.+..|.+  ++.+|.+.+++-...++
T Consensus        51 f~~~n~~~m~~~L~pLh~~l~~~PeT~~E~sF~~~fG~--~L~~A~~~~~~y~~t~d  105 (126)
T 2npu_A           51 FGERNVKGMFEVLEPLHAMMERGPQTLKETSFNQAYGR--DLMEAQEWCRKYMKSGN  105 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHH--HHHHHHHHHHHHHHTCC
T ss_pred             hcccCHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHhH--HHHHHHHHHHHHHHhCC
Confidence            344555555555544421 1112444444455555554  55666666665543333

---

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	144
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.08
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.98
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.88
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.86
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.83
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.83
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.78
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.78
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.71
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.69
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.68
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.66
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.65
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.65
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.59
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.57
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.52
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.47
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.4
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.31
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.31
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.3
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.26
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.22
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.21
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.19
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.18
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.16
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.15
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.07
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.06
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.06
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.0
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.97
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.85
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.75
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.62
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.59
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.57
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.5
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.25
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	97.22
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	97.22
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.15
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.95
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.2
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.12
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	95.92
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	95.81
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	95.39
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	95.28
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	94.7
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.63
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	94.28
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	94.17
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.44
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	92.42
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	91.72
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	90.01
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	89.04
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	87.87
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	84.67
d1ug3a1	193	Eukaryotic initiation factor eIF4G {Human (Homo sa	84.45
d3fapb_	94	FKBP12-rapamycin-binding domain of FKBP-rapamycin-	83.41
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	82.76
d1mzba_	134	Ferric uptake regulation protein, FUR {Pseudomonas	82.52
d1ug3a1	193	Eukaryotic initiation factor eIF4G {Human (Homo sa	81.58
d1khda1	69	Anthranilate phosphoribosyltransferase (TrpD) {Pec	80.3

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.08  E-value=1e-08  Score=69.71  Aligned_cols=121  Identities=14%  Similarity=-0.003  Sum_probs=89.7

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      ++.+.|++++|.+.|++..+..+. +..+|..+...+...|++++|...++...... +.+...+..+...+.+.|++++
T Consensus       246 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  323 (388)
T d1w3ba_         246 VYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEE  323 (388)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHH
Confidence            456677888888888877665433 56677777888888888888888887766542 3566777778888888888888


Q ss_pred             HHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           84 AYRTMVDMHKKGHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        84 a~~~~~~m~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      |...+++..+.  .| +..++..+..+|.+.|++++|.+.+++..+
T Consensus       324 A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         324 AVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            88888887653  34 456777788888888888888888887654

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.98  E-value=4.6e-08  Score=66.36  Aligned_cols=124  Identities=13%  Similarity=0.067  Sum_probs=99.5

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      .++...|++++|...++........ +...+..+...+.+.|++++|...|++..+.. +-+..++..+...+...|+.+
T Consensus       211 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~  288 (388)
T d1w3ba_         211 NVLKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVA  288 (388)
T ss_dssp             HHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHH
T ss_pred             hhhhccccHHHHHHHHHHhHHHhhh-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            3566788888898888888776444 66778888888889999999999998887642 235678888888999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +|...++...... +.+...+..+..++.+.|++++|.+.+++..+.
T Consensus       289 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  334 (388)
T d1w3ba_         289 EAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV  334 (388)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS
T ss_pred             HHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9999998887642 456778888889999999999999999987653

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.88  E-value=1.5e-07  Score=63.47  Aligned_cols=123  Identities=13%  Similarity=-0.009  Sum_probs=94.8

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHH-HHHhCcHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKY-FRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~-~~~~g~~~   82 (144)
                      ...+.|+++.|..+|+.+.+........+|...+....+.|+.++|.++|.+..+.+.. +...|...... +...|+.+
T Consensus       108 ~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~  186 (308)
T d2onda1         108 YEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKS  186 (308)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHH
T ss_pred             HHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCHH
Confidence            34567899999999999887655544568999999999999999999999998876432 33333333322 34468899


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .|..+|+...+. .+.+...|...++.+.+.|++++|+.+|++...
T Consensus       187 ~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~  231 (308)
T d2onda1         187 VAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLT  231 (308)
T ss_dssp             HHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            999999999865 344677899999999999999999999999665

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.86  E-value=3.8e-07  Score=61.17  Aligned_cols=87  Identities=15%  Similarity=0.057  Sum_probs=63.9

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+.+.|++++|...|+...+..+. +...|..+..++...|++++|...|.+..+... -+...|..+..+|...|++++
T Consensus        28 ~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~  105 (323)
T d1fcha_          28 RRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELKP-DNQTALMALAVSFTNESLQRQ  105 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhcccc-ccccccccccccccccccccc
Confidence            356778888888888888776444 677788888888888888888888888765421 245667777777777887777


Q ss_pred             HHHHHHHHH
Q 045403           84 AYRTMVDMH   92 (144)
Q Consensus        84 a~~~~~~m~   92 (144)
                      |.+.+++..
T Consensus       106 A~~~~~~~~  114 (323)
T d1fcha_         106 ACEILRDWL  114 (323)
T ss_dssp             HHHHHHHHH
T ss_pred             cccchhhHH
Confidence            777776654

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.83  E-value=2.8e-07  Score=53.53  Aligned_cols=88  Identities=17%  Similarity=0.039  Sum_probs=58.0

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+.+.|++++|+..|++..+..+. +...|+.+-.++...|++++|...+.+..+... .+...|..+..++...|++++
T Consensus        12 ~~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          12 KALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhcc-chhhHHHHHHHHHHHccCHHH
Confidence            355667777777777776655433 566677777777777777777777776665432 456666667777777777777


Q ss_pred             HHHHHHHHHH
Q 045403           84 AYRTMVDMHK   93 (144)
Q Consensus        84 a~~~~~~m~~   93 (144)
                      |...+++..+
T Consensus        90 A~~~~~~a~~   99 (117)
T d1elwa_          90 AKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHH
Confidence            7777777664

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.83  E-value=1.9e-07  Score=57.05  Aligned_cols=116  Identities=12%  Similarity=0.025  Sum_probs=90.7

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .|.+.|++++|...|++..+..+. +...|..+..+|...|++++|...|++..+.. +-+..+|..+..++...|++++
T Consensus        19 ~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~e   96 (159)
T d1a17a_          19 DYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRA   96 (159)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHHH
Confidence            578899999999999999987655 88999999999999999999999999998753 2466899999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHH--HhccCChHHHHHH
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFH--LGKMRAHSEALCL  122 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~l  122 (144)
                      |...+++..+.. +-+...+..+-.+  ..+.+.++++...
T Consensus        97 A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          97 ALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcC-CCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            999999998753 2234444444333  2333445555443

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.78  E-value=5.7e-07  Score=56.73  Aligned_cols=121  Identities=10%  Similarity=-0.012  Sum_probs=98.2

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+...|++++|.+.|++.    .+|+..+|..+-.+|...|++++|.+.|++..+..- -+...|..+-.++.+.|++++
T Consensus        14 ~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp-~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhh-hhhhhHHHHHHHHHhhccHHH
Confidence            356789999999999864    367888999999999999999999999999987532 467789999999999999999


Q ss_pred             HHHHHHHHHHCC------------CC--CC-HHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           84 AYRTMVDMHKKG------------HQ--PE-EELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        84 a~~~~~~m~~~~------------~~--~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      |...|++..+..            ..  ++ ..++..+-.++.+.|++++|.+.++.....
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            999999876421            11  11 245556677889999999999999876543

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.78  E-value=6.6e-07  Score=58.08  Aligned_cols=121  Identities=10%  Similarity=-0.053  Sum_probs=72.3

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      +|.+.|++++|.+.|++..+..+. +..+|+.+-.++.+.|++++|...|++..+..- -+..++..+..++...|++++
T Consensus        46 ~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~  123 (259)
T d1xnfa_          46 LYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRGIALYYGGRDKL  123 (259)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHh-hhhhhHHHHHHHHHHHhhHHH
Confidence            455667777777777777665443 666777777777777777777777777665321 234456666677777777777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      |...++...+.. +.+......+..++.+.+..+.+..+.....
T Consensus       124 A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (259)
T d1xnfa_         124 AQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  166 (259)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhh
Confidence            777777766542 2233333333344444444444444444433

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.71  E-value=5.4e-07  Score=60.37  Aligned_cols=122  Identities=12%  Similarity=-0.032  Sum_probs=100.7

Q ss_pred             hhccCCHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAKYD-KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      +.+.+.+.+|.+.|++..+..+ .++...+..+...+...|++++|...|++..+... -+..+|..+..++...|++++
T Consensus       146 ~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~  224 (323)
T d1fcha_         146 LLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEE  224 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccccc-ccccchhhhhhcccccccchh
Confidence            3455678889999988776543 34677888999999999999999999999876532 357789999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      |...+++..+.. +-+...+..+..+|.+.|++++|.+.|++..+
T Consensus       225 A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         225 AVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999999998643 23567888999999999999999999998554

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.69  E-value=6.6e-07  Score=56.02  Aligned_cols=88  Identities=14%  Similarity=0.056  Sum_probs=72.4

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMY   81 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~   81 (144)
                      +.+.+.|++++|+..|++.....+. +...|+.+..+|.+.|++++|...|++..+.  .| +..+|..+-.+|...|++
T Consensus        12 n~~~~~g~~~~Ai~~~~kal~~~p~-~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~lg~~~~~l~~~   88 (201)
T d2c2la1          12 NRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQCQLEMESY   88 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCH
Confidence            3577889999999999888776544 7888888999999999999999999888763  45 567888888999999999


Q ss_pred             HHHHHHHHHHHH
Q 045403           82 MLAYRTMVDMHK   93 (144)
Q Consensus        82 ~~a~~~~~~m~~   93 (144)
                      ++|...|++..+
T Consensus        89 ~~A~~~~~~al~  100 (201)
T d2c2la1          89 DEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999998888764

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.68  E-value=3.7e-07  Score=57.20  Aligned_cols=99  Identities=7%  Similarity=-0.196  Sum_probs=85.9

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCC-CHHHHHH
Q 045403           27 KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQP-EEELCSS  105 (144)
Q Consensus        27 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~  105 (144)
                      +|+....-...+.+.+.|++++|...|++..+.. +-+...|+.+-.+|.+.|++++|...+++..+.  .| +...|..
T Consensus         1 ~~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~   77 (201)
T d2c2la1           1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFF   77 (201)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHH
Confidence            4677777888899999999999999999987653 357888999999999999999999999999864  45 5778999


Q ss_pred             HHHHHhccCChHHHHHHHHHhhh
Q 045403          106 LIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       106 l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      +-.+|.+.|++++|...+++...
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999999997543

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.66  E-value=1.2e-06  Score=50.75  Aligned_cols=91  Identities=11%  Similarity=-0.037  Sum_probs=80.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC
Q 045403           36 MLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRA  115 (144)
Q Consensus        36 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~  115 (144)
                      --+.+.+.|++++|..+|++..+.. +-+...|..+-.+|.+.|++++|...+.+..+.. +.+...|..+..++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccC
Confidence            3566788999999999999998753 3577889999999999999999999999999764 4578889999999999999


Q ss_pred             hHHHHHHHHHhhh
Q 045403          116 HSEALCLQHVKDI  128 (144)
Q Consensus       116 ~~~a~~l~~~m~~  128 (144)
                      +++|...+++..+
T Consensus        87 ~~~A~~~~~~a~~   99 (117)
T d1elwa_          87 FEEAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999999875

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.65  E-value=4.8e-07  Score=52.13  Aligned_cols=89  Identities=7%  Similarity=-0.055  Sum_probs=59.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC
Q 045403           36 MLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRA  115 (144)
Q Consensus        36 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~  115 (144)
                      +...+.+.|++++|...|++..+... -+..+|..+-.++.+.|++++|...+++..+.. +-+...+..+..+|.+.|+
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccccc-ccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCC
Confidence            34456667777777777777665421 256667777777777777777777777776542 2346667777777777777


Q ss_pred             hHHHHHHHHHh
Q 045403          116 HSEALCLQHVK  126 (144)
Q Consensus       116 ~~~a~~l~~~m  126 (144)
                      .++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77777777653

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.65  E-value=6.4e-07  Score=60.65  Aligned_cols=125  Identities=10%  Similarity=0.007  Sum_probs=103.8

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTG-DMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYM   82 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~   82 (144)
                      ++.+.+..++|+++++...+..+. +...|+....++...| ++++|...++...+... -+..+|..+-..+.+.|+++
T Consensus        52 ~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p-~~~~a~~~~~~~~~~l~~~~  129 (315)
T d2h6fa1          52 VLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVLVEWLRDPS  129 (315)
T ss_dssp             HHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCT
T ss_pred             HHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHH-hhhhHHHHHhHHHHhhccHH
Confidence            456778999999999999987555 7778899988888876 59999999999876432 46788999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      +|...+++..+.. +-+...|..+...+.+.|++++|.+.++...+.++
T Consensus       130 eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p  177 (315)
T d2h6fa1         130 QELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV  177 (315)
T ss_dssp             THHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT
T ss_pred             HHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC
Confidence            9999999998753 34688899999999999999999999999876443

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.59  E-value=4.2e-06  Score=56.12  Aligned_cols=120  Identities=9%  Similarity=-0.022  Sum_probs=94.8

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHH
Q 045403            9 GCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTM   88 (144)
Q Consensus         9 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~   88 (144)
                      +..++|..+|+...+...+.+...|...+......|+.++|..+|+++.+.........|...+....+.|+.++|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            45688899999988765666778899999999999999999999999987544334567999999999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHH-HhccCChHHHHHHHHHhhhc
Q 045403           89 VDMHKKGHQPEEELCSSLIFH-LGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        89 ~~m~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ++..+.+. .+...|...... +...|+.+.|.++|++....
T Consensus       158 ~~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~  198 (308)
T d2onda1         158 KKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK  198 (308)
T ss_dssp             HHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh
Confidence            99987642 333444433332 34568999999999998764

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.57  E-value=3.2e-06  Score=54.72  Aligned_cols=123  Identities=11%  Similarity=-0.127  Sum_probs=97.4

Q ss_pred             ccCCHHHHHHHHHHHHhcCC-CC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYD-KY--DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~-~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      ..++.+.++.-+++...... .+  ...+|..+..+|.+.|++++|...|++..+.. +-+..+|..+-.++.+.|++++
T Consensus        11 ~~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~   89 (259)
T d1xnfa_          11 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDA   89 (259)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHH
Confidence            34556777777778775422 11  33577788889999999999999999988742 2467889999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      |...|++..+.. +-+..++..+..+|...|++++|.+.++...+..+
T Consensus        90 A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p  136 (259)
T d1xnfa_          90 AYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDP  136 (259)
T ss_dssp             HHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             hhhhhhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhcc
Confidence            999999999753 22456788888999999999999999998765443

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.52  E-value=6.4e-06  Score=49.96  Aligned_cols=93  Identities=12%  Similarity=-0.039  Sum_probs=80.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC
Q 045403           36 MLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRA  115 (144)
Q Consensus        36 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~  115 (144)
                      .-+.|.+.|++++|...|++..+..- -+...|..+-.+|...|++++|...|++..+.. +-+...|..+..+|...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccch-hhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCC
Confidence            45567899999999999999987642 477889999999999999999999999998754 3466789999999999999


Q ss_pred             hHHHHHHHHHhhhcC
Q 045403          116 HSEALCLQHVKDIAK  130 (144)
Q Consensus       116 ~~~a~~l~~~m~~~~  130 (144)
                      +++|.+.+++...-.
T Consensus        94 ~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          94 FRAALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHcC
Confidence            999999999977643

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.47  E-value=6.6e-07  Score=52.49  Aligned_cols=95  Identities=11%  Similarity=0.010  Sum_probs=68.5

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHhhhCCCCCCH-HHHHHHHHHHHH
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGD---MESVIHVMRKLDELAISPDY-NTFHILIKYFRK   77 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~   77 (144)
                      ++.+...+++++|.+.|+...+.++. +..++..+-.++.+.++   +++|..+|++..+....|+. .+|..+-.+|.+
T Consensus         6 ~n~~~~~~~l~~Ae~~Y~~aL~~~p~-~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~~   84 (122)
T d1nzna_           6 LNELVSVEDLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYR   84 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHH
Confidence            45667778888888888888876544 77777778888776544   45688888887765433332 366777788888


Q ss_pred             hCcHHHHHHHHHHHHHCCCCCC
Q 045403           78 EKMYMLAYRTMVDMHKKGHQPE   99 (144)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~~   99 (144)
                      .|++++|.+.|++..+.  .|+
T Consensus        85 ~g~~~~A~~~~~~aL~~--~P~  104 (122)
T d1nzna_          85 LKEYEKALKYVRGLLQT--EPQ  104 (122)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTT
T ss_pred             HhhhHHHHHHHHHHHHh--CcC
Confidence            88888888888888764  354

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.40  E-value=3.5e-06  Score=48.35  Aligned_cols=87  Identities=11%  Similarity=-0.031  Sum_probs=76.7

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      .+.+.|++++|...|++.....+. +...|..+..++.+.|++++|...|++..+.. +-+...|..+..+|...|++++
T Consensus        25 ~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~~~  102 (112)
T d1hxia_          25 SMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANA  102 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCHHH
Confidence            467889999999999999987555 78999999999999999999999999988743 2468889999999999999999


Q ss_pred             HHHHHHHHH
Q 045403           84 AYRTMVDMH   92 (144)
Q Consensus        84 a~~~~~~m~   92 (144)
                      |.+.+++..
T Consensus       103 A~~~l~~~l  111 (112)
T d1hxia_         103 ALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999998753

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.31  E-value=3.1e-06  Score=49.52  Aligned_cols=96  Identities=9%  Similarity=0.004  Sum_probs=76.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhC---cHHHHHHHHHHHHHCCCCCC-HHHHHHHHHH
Q 045403           34 NSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEK---MYMLAYRTMVDMHKKGHQPE-EELCSSLIFH  109 (144)
Q Consensus        34 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~  109 (144)
                      ..+++.+...+++++|++.|++..+.+- .+..++..+-.++.+.+   +.++|..++++..+.+..|+ ...+..+-.+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p-~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            4678888899999999999999987543 57788888888887644   55679999999876543333 2366778889


Q ss_pred             HhccCChHHHHHHHHHhhhcC
Q 045403          110 LGKMRAHSEALCLQHVKDIAK  130 (144)
Q Consensus       110 ~~~~g~~~~a~~l~~~m~~~~  130 (144)
                      |.+.|++++|.+.|++..+-.
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhHHHHHHHHHHHHhC
Confidence            999999999999999987644

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.31  E-value=2e-05  Score=48.38  Aligned_cols=106  Identities=10%  Similarity=0.058  Sum_probs=81.7

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCC--------------CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDK--------------YDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFH   69 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~--------------p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~   69 (144)
                      .+.+.|++++|+..|++....-..              .-..+|+.+..+|.+.|++++|...+++..+.. +-+..++.
T Consensus        22 ~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~  100 (170)
T d1p5qa1          22 VYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLS  100 (170)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhH
Confidence            577899999999999987754211              113667788888999999999999999988753 23788999


Q ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhc
Q 045403           70 ILIKYFRKEKMYMLAYRTMVDMHKKGHQP-EEELCSSLIFHLGK  112 (144)
Q Consensus        70 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~l~~~~~~  112 (144)
                      .+..+|...|++++|...|++..+.  .| +......+-.+.-+
T Consensus       101 ~~g~~~~~~g~~~~A~~~~~~al~l--~P~n~~~~~~l~~~~~~  142 (170)
T d1p5qa1         101 RRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVCQQR  142 (170)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999875  34 44455444444433

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.30  E-value=1e-05  Score=47.38  Aligned_cols=89  Identities=12%  Similarity=0.106  Sum_probs=51.7

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCC-CC-----HHHHHHHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAIS-PD-----YNTFHILIKYFRK   77 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~-----~~~~~~li~~~~~   77 (144)
                      .+.+.|++++|++.|++..+..+. +..+|..+-.+|.+.|++++|...+++..+..-. ++     ..+|..+-..+..
T Consensus        13 ~~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~~~~   91 (128)
T d1elra_          13 DAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYFK   91 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHH
Confidence            355666677777777666665443 5666666666677777777777766665542100 11     1244555555556


Q ss_pred             hCcHHHHHHHHHHHHH
Q 045403           78 EKMYMLAYRTMVDMHK   93 (144)
Q Consensus        78 ~g~~~~a~~~~~~m~~   93 (144)
                      .+++++|...|..-..
T Consensus        92 ~~~~~~A~~~~~kal~  107 (128)
T d1elra_          92 EEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             hCCHHHHHHHHHHHHh
Confidence            6666666666665543

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.26  E-value=1.8e-05  Score=53.36  Aligned_cols=122  Identities=6%  Similarity=-0.015  Sum_probs=90.3

Q ss_pred             hhccC-CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHH
Q 045403            5 FCRGG-CFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYML   83 (144)
Q Consensus         5 ~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~   83 (144)
                      +.+.| ++++|+..++...+..+. +..+|+.+-..+.+.|++++|...+++..+..- -+...|..+...+.+.|++++
T Consensus        87 l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~dp-~n~~a~~~~~~~~~~~~~~~~  164 (315)
T d2h6fa1          87 LKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLVEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDN  164 (315)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTT
T ss_pred             HHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhHHHHhhccHHHHHHHHhhhhhhhh-cchHHHHHHHHHHHHHHhhHH
Confidence            34444 589999999988776555 788888888888999999999999998887422 467888889999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC------hHHHHHHHHHhhhc
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGKMRA------HSEALCLQHVKDIA  129 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~------~~~a~~l~~~m~~~  129 (144)
                      |...+++..+.+ +-+...|+.+..++.+.+.      +++|.+.+....+-
T Consensus       165 Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~  215 (315)
T d2h6fa1         165 ELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKL  215 (315)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHh
Confidence            999999888753 2355566655555544443      56777777665543

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.22  E-value=3.2e-05  Score=48.04  Aligned_cols=99  Identities=16%  Similarity=0.037  Sum_probs=76.2

Q ss_pred             hhhccCCHHHHHHHHHHHHhc--CCC-C------------------CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCC
Q 045403            4 AFCRGGCFEEAKQLARDFEAK--YDK-Y------------------DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAIS   62 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~--~~~-p------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~   62 (144)
                      .....|++++|.+.|.+....  |.. +                  ....+..+..++...|++++|...+++..+..- 
T Consensus        20 ~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~P-   98 (179)
T d2ff4a2          20 HAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFEHP-   98 (179)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCC-
Confidence            456789999999999998764  211 1                  114567788888888999999999988876432 


Q ss_pred             CCHHHHHHHHHHHHHhCcHHHHHHHHHHHHH-----CCCCCCHHHH
Q 045403           63 PDYNTFHILIKYFRKEKMYMLAYRTMVDMHK-----KGHQPEEELC  103 (144)
Q Consensus        63 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~~~  103 (144)
                      -+...|..++.++...|+.++|.+.|+++.+     .|+.|...+-
T Consensus        99 ~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~  144 (179)
T d2ff4a2          99 YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  144 (179)
T ss_dssp             TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHH
Confidence            5888899999999999999999888888753     5888887653

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=98.21  E-value=2.9e-06  Score=56.18  Aligned_cols=123  Identities=15%  Similarity=0.061  Sum_probs=82.2

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCH-HHHHHHHHHHHHhCcHHHH
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDY-NTFHILIKYFRKEKMYMLA   84 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~a   84 (144)
                      .+.|++++|++.+++..+..+. |...+..+...++..|++++|...|+...+.  .|+. ..+..+...+...+..+++
T Consensus         7 L~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHHH
Confidence            4679999999999999987665 8999999999999999999999999999874  4543 3344343333333332222


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           85 YRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        85 ~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      ..-...-...+-.++...+......+.+.|+.++|.+++++..+...
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p  130 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQ  130 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC
Confidence            11111000111112223344456667889999999999999876543

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.19  E-value=5.2e-05  Score=45.62  Aligned_cols=90  Identities=10%  Similarity=-0.001  Sum_probs=61.3

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCC----C-----------CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDK----Y-----------DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTF   68 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~----p-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~   68 (144)
                      .+.+.|++++|+..|++....-..    +           ...+|+.+..+|.+.|++++|...+++..+.. +.+..+|
T Consensus        26 ~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~  104 (153)
T d2fbna1          26 EFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKAL  104 (153)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhh
Confidence            466788999999999887653111    1           12456667777777777777777777766542 2466777


Q ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHC
Q 045403           69 HILIKYFRKEKMYMLAYRTMVDMHKK   94 (144)
Q Consensus        69 ~~li~~~~~~g~~~~a~~~~~~m~~~   94 (144)
                      ..+..++...|++++|...|++..+.
T Consensus       105 ~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1         105 YKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            77777777777777777777777654

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.18  E-value=3e-05  Score=48.53  Aligned_cols=87  Identities=7%  Similarity=-0.092  Sum_probs=74.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCh
Q 045403           37 LCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAH  116 (144)
Q Consensus        37 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~  116 (144)
                      ...+...|++++|.+.|.+..    .|+..+|..+-.+|...|++++|.+.|++..+.. +-+...|..+-.+|.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccH
Confidence            345578899999999998753    4788899999999999999999999999999754 34677899999999999999


Q ss_pred             HHHHHHHHHhhh
Q 045403          117 SEALCLQHVKDI  128 (144)
Q Consensus       117 ~~a~~l~~~m~~  128 (144)
                      ++|.+-|++...
T Consensus        87 ~~A~~~~~kAl~   98 (192)
T d1hh8a_          87 DLAIKDLKEALI   98 (192)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988543

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.16  E-value=4e-05  Score=46.79  Aligned_cols=104  Identities=9%  Similarity=0.037  Sum_probs=72.8

Q ss_pred             hhhccCCHHHHHHHHHHHHhc--------------CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAK--------------YD-KYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTF   68 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~--------------~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~   68 (144)
                      .+.+.|++++|+..|++..+.              .. +.+...|+.+-.++.+.|++++|...+++..+.. +-+..+|
T Consensus        36 ~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~  114 (169)
T d1ihga1          36 TFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKAL  114 (169)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHH
Confidence            466789999999988876432              01 1244566777778888888888888888887643 2466778


Q ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045403           69 HILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFH  109 (144)
Q Consensus        69 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~  109 (144)
                      ..+-.++...|++++|...|++..+.. +.+......+..+
T Consensus       115 ~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~~  154 (169)
T d1ihga1         115 YRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKV  154 (169)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            888888888888888888888887642 2244444444443

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.15  E-value=2e-05  Score=52.28  Aligned_cols=127  Identities=6%  Similarity=-0.155  Sum_probs=92.9

Q ss_pred             hhhhccCCHHHHHHHHHHHHhc----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC----CCC-CCHHHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAK----YDK-YDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL----AIS-PDYNTFHILI   72 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~----~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~-p~~~~~~~li   72 (144)
                      +.|...|++++|.+.|++....    +-+ .-..+|+.+..+|.+.|++++|...+++..+-    |-. ....++..+.
T Consensus        45 ~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~  124 (290)
T d1qqea_          45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (290)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHH
Confidence            4567789999999999987653    111 23468999999999999999999999976542    111 1134455666


Q ss_pred             HHHHH-hCcHHHHHHHHHHHHH----CCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           73 KYFRK-EKMYMLAYRTMVDMHK----KGHQP-EEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        73 ~~~~~-~g~~~~a~~~~~~m~~----~~~~~-~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ..|-. .|++++|...+++..+    .+-.+ ...++..+...|.+.|++++|.+++++....
T Consensus       125 ~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~  187 (290)
T d1qqea_         125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKS  187 (290)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHh
Confidence            66644 6999999999988753    22222 1345777899999999999999999997654

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.07  E-value=0.00016  Score=44.13  Aligned_cols=98  Identities=9%  Similarity=-0.054  Sum_probs=78.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhhCC-CCC-------------CHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCC
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKLDELA-ISP-------------DYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGH   96 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~p-------------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~   96 (144)
                      ..+....+.+.+.|++++|...|.+..+.- -.+             -..+|+.+..+|.+.|++++|...+++..+.. 
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-   92 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-   92 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-
Confidence            345556678899999999999998876431 111             12457778888999999999999999998764 


Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           97 QPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        97 ~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +-+...+..+..+|...|++++|...|++..+-
T Consensus        93 p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          93 SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            337888999999999999999999999998764

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.06  E-value=4e-05  Score=44.73  Aligned_cols=95  Identities=8%  Similarity=0.021  Sum_probs=76.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCC--CCCC----HHHHHHH
Q 045403           33 LNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKG--HQPE----EELCSSL  106 (144)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~~~----~~~~~~l  106 (144)
                      +-.+.+.+.+.|++++|...|.+..+..- .+...+..+-.+|.+.|++++|...+++..+..  ....    ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            44567789999999999999999987633 478899999999999999999999999987521  1111    2467778


Q ss_pred             HHHHhccCChHHHHHHHHHhhh
Q 045403          107 IFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus       107 ~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      -..+...+++++|.+.++.-..
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHh
Confidence            8888899999999999987554

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.06  E-value=0.0001  Score=44.93  Aligned_cols=120  Identities=8%  Similarity=-0.002  Sum_probs=85.2

Q ss_pred             hhhccCCHHHHHHHHHHHHhc---CCCC-----------CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAK---YDKY-----------DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFH   69 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~---~~~p-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~   69 (144)
                      .+.+.|++++|...|++....   ...+           ....|+.+-.+|.+.|++++|...+++..+.. +.+..+|.
T Consensus        24 ~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~  102 (168)
T d1kt1a1          24 VYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLY  102 (168)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHH
Confidence            467899999999999886642   1111           22456667778899999999999999988753 36788899


Q ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChH-HHHHHHHH
Q 045403           70 ILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHS-EALCLQHV  125 (144)
Q Consensus        70 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~-~a~~l~~~  125 (144)
                      .+..++...|++++|...|++..+.. +.+......+-.+..+.+... ...+++..
T Consensus       103 ~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~~~~~~~~e~~kk~~~~  158 (168)
T d1kt1a1         103 RRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQIFMCQKKAKEHNERDRRTYAN  158 (168)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            99999999999999999999998753 234455555544444443333 23344333

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.00  E-value=0.00033  Score=41.94  Aligned_cols=98  Identities=11%  Similarity=-0.048  Sum_probs=78.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhhCC----CCCC-----------HHHHHHHHHHHHHhCcHHHHHHHHHHHHHCC
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKLDELA----ISPD-----------YNTFHILIKYFRKEKMYMLAYRTMVDMHKKG   95 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g----~~p~-----------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~   95 (144)
                      ..+..-.+.+.+.|++.+|...|.+..+.-    ..++           ..+|+.+..+|.+.|++++|...+++..+..
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~   97 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID   97 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc
Confidence            344555677889999999999999876431    1122           2367778889999999999999999998753


Q ss_pred             CCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           96 HQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        96 ~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                       +.+...|-.+..++...|++++|...|++...-
T Consensus        98 -p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          98 -KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence             447789999999999999999999999987753

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=97.97  E-value=0.00033  Score=46.12  Aligned_cols=126  Identities=13%  Similarity=0.004  Sum_probs=92.2

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCC-CCC----HHHHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYD----VVLLNSMLCAYCRTGDMESVIHVMRKLDELAI-SPD----YNTFHILIKY   74 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~----~~~~~~li~~   74 (144)
                      .+...|++++|.+++++..+.....+    ...++.+..++...|++++|...|.+..+..- .++    ..++..+...
T Consensus        21 ~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  100 (366)
T d1hz4a_          21 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  100 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHH
Confidence            45678999999999999876533222    35677888999999999999999998765311 122    2346667778


Q ss_pred             HHHhCcHHHHHHHHHHHHH----CCCCC--C-HHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           75 FRKEKMYMLAYRTMVDMHK----KGHQP--E-EELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        75 ~~~~g~~~~a~~~~~~m~~----~~~~~--~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +...|++..+...+.+...    .+...  . ...+..+-..+...|+++.+...++.....
T Consensus       101 ~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~  162 (366)
T d1hz4a_         101 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEV  162 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHH
Confidence            8899999999998887653    22221  1 234556777888999999999999886654

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.85  E-value=0.0006  Score=42.04  Aligned_cols=91  Identities=11%  Similarity=-0.087  Sum_probs=74.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHhhhC--CCC-CC------------------HHHHHHHHHHHHHhCcHHHHHHHHHHHHHCC
Q 045403           37 LCAYCRTGDMESVIHVMRKLDEL--AIS-PD------------------YNTFHILIKYFRKEKMYMLAYRTMVDMHKKG   95 (144)
Q Consensus        37 i~~~~~~~~~~~a~~~~~~m~~~--g~~-p~------------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~   95 (144)
                      .......|++++|...|.+-.+.  |-. ++                  ...+..+...+.+.|++++|...+++..+..
T Consensus        18 g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~   97 (179)
T d2ff4a2          18 GVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFEH   97 (179)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhC
Confidence            34678889999999999987763  321 11                  1357888999999999999999999998753


Q ss_pred             CCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           96 HQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        96 ~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                       +-+...|..++.+|.+.|+.++|.+.|++...
T Consensus        98 -P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~  129 (179)
T d2ff4a2          98 -PYREPLWTQLITAYYLSDRQSDALGAYRRVKT  129 (179)
T ss_dssp             -TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             -CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence             45888999999999999999999999998754

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.75  E-value=0.00057  Score=44.97  Aligned_cols=127  Identities=9%  Similarity=-0.061  Sum_probs=87.4

Q ss_pred             hhhhccCCHHHHHHHHHHHHhcC-----CCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHhhhC----CCCC-CHHHHHHH
Q 045403            3 SAFCRGGCFEEAKQLARDFEAKY-----DKYDVVLLNSMLCAYCR-TGDMESVIHVMRKLDEL----AISP-DYNTFHIL   71 (144)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~~-----~~p~~~~~~~li~~~~~-~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~l   71 (144)
                      .+|.+.|++++|.+.++......     ......++..+...|.. .|++++|...|++..+-    +-.+ -..++..+
T Consensus        85 ~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~l  164 (290)
T d1qqea_          85 KCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKC  164 (290)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHH
Confidence            45678899999999999765431     11224556666666644 59999999999886532    2211 13457778


Q ss_pred             HHHHHHhCcHHHHHHHHHHHHHCCCCC-----CH-HHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           72 IKYFRKEKMYMLAYRTMVDMHKKGHQP-----EE-ELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        72 i~~~~~~g~~~~a~~~~~~m~~~~~~~-----~~-~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      ...+...|++++|...+++..+.....     .. ..+.....++...|+.+.|.+.+++....
T Consensus       165 a~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~  228 (290)
T d1qqea_         165 ADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE  228 (290)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             HHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            889999999999999999987643211     11 12334455667789999999999987653

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.62  E-value=0.00081  Score=40.67  Aligned_cols=96  Identities=9%  Similarity=0.020  Sum_probs=75.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhhhC--------------CCCC-CHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCC
Q 045403           33 LNSMLCAYCRTGDMESVIHVMRKLDEL--------------AISP-DYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQ   97 (144)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~~~--------------g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~   97 (144)
                      +......+...|++++|...|++..+.              .+.| +...|..+-.++.+.|++++|...+++..+.. +
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p  108 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-P  108 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-T
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-h
Confidence            344556678889999999998776431              0112 34457778889999999999999999998753 3


Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           98 PEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        98 ~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      -+...|..+-.+|.+.|++++|.+.|++..+-
T Consensus       109 ~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1         109 SNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            46778999999999999999999999987754

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.59  E-value=0.0014  Score=39.15  Aligned_cols=88  Identities=11%  Similarity=-0.010  Sum_probs=59.9

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCC-C----------CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-----CCCCCH---
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDK-Y----------DVVLLNSMLCAYCRTGDMESVIHVMRKLDEL-----AISPDY---   65 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~-p----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g~~p~~---   65 (144)
                      +.+.|++++|++.|++..+.... |          ...+|+.+-.+|...|++++|..-+++..+.     ...++.   
T Consensus        19 ~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~   98 (156)
T d2hr2a1          19 QLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKL   98 (156)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccch
Confidence            44668888888888887753211 1          1367888888888888888888888776531     122221   


Q ss_pred             --HHHHHHHHHHHHhCcHHHHHHHHHHHH
Q 045403           66 --NTFHILIKYFRKEKMYMLAYRTMVDMH   92 (144)
Q Consensus        66 --~~~~~li~~~~~~g~~~~a~~~~~~m~   92 (144)
                        ..+..+-.+|...|++++|...|++..
T Consensus        99 ~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          99 WISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence              245566777888888888888877765

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.57  E-value=0.001  Score=39.41  Aligned_cols=114  Identities=13%  Similarity=0.007  Sum_probs=81.8

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc----------CCHHHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRT----------GDMESVIHVMRKLDELAISPDYNTFHILIK   73 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~----------~~~~~a~~~~~~m~~~g~~p~~~~~~~li~   73 (144)
                      -|-+.+.+++|...|+...+..+. +...+..+-.++...          +.+++|...|++..+... -+..+|..+-.
T Consensus         6 ~~~r~~~fe~A~~~~e~al~~~P~-~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P-~~~~a~~~lG~   83 (145)
T d1zu2a1           6 EFDRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP-KKDEAVWCIGN   83 (145)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHccHHHHHHHHHHHHhhCCc-chHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcc-hhhHHHhhHHH
Confidence            456778899999999999887544 778888888887743          446789999998886422 46678888888


Q ss_pred             HHHHhCc-----------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           74 YFRKEKM-----------YMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        74 ~~~~~g~-----------~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      +|...|+           +++|.+.|++..+  +.|+...+...+..+      .+|.+++.+..
T Consensus        84 ~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~------~ka~~~~~e~~  140 (145)
T d1zu2a1          84 AYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT------AKAPQLHAEAY  140 (145)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH------HTHHHHHHHHH
T ss_pred             HHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH------HHHHHHHHHHH
Confidence            8877653           5778888888876  357766666555444      34555555543

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.50  E-value=0.0028  Score=38.17  Aligned_cols=98  Identities=11%  Similarity=-0.055  Sum_probs=77.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhhC---CCCCC-----------HHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCC
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKLDEL---AISPD-----------YNTFHILIKYFRKEKMYMLAYRTMVDMHKKGH   96 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~p~-----------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~   96 (144)
                      ..+.-....+.+.|++.+|...|.+....   ...++           ...|+.+-.+|.+.|++++|...+++..+.. 
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-   94 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-   94 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-
Confidence            34555667788999999999999886532   11121           1235667788999999999999999998753 


Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           97 QPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        97 ~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      +.+...|-.+..++...|++++|...|++...-
T Consensus        95 p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          95 SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            457788888999999999999999999998763

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=97.25  E-value=0.0031  Score=41.20  Aligned_cols=123  Identities=9%  Similarity=-0.072  Sum_probs=87.9

Q ss_pred             hhccCCHHHHHHHHHHHHhc----CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCC---CCHHHHHHHHHHH
Q 045403            5 FCRGGCFEEAKQLARDFEAK----YDKY--DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAIS---PDYNTFHILIKYF   75 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~----~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~---p~~~~~~~li~~~   75 (144)
                      +...|+..++...+.+....    +..+  ....+..+...+...|++++|...+.+..+....   .....+..+...+
T Consensus       182 ~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~  261 (366)
T d1hz4a_         182 SLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQ  261 (366)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHH
T ss_pred             HHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHH
Confidence            44556777777776665432    1111  2345667777888999999999999987654322   2344566788889


Q ss_pred             HHhCcHHHHHHHHHHHHH----CCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           76 RKEKMYMLAYRTMVDMHK----KGHQPE-EELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        76 ~~~g~~~~a~~~~~~m~~----~~~~~~-~~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                      ...|++++|...+++...    .+..|+ ...+..+-.+|.+.|++++|.+.+++-.
T Consensus       262 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al  318 (366)
T d1hz4a_         262 ILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDAL  318 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999999999988763    344443 3467778889999999999999998743

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.22  E-value=0.0013  Score=43.89  Aligned_cols=112  Identities=4%  Similarity=-0.092  Sum_probs=83.9

Q ss_pred             hccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHhhhCCCCCCHHHHHHHH-HHHHHhCcHH
Q 045403            6 CRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTG--DMESVIHVMRKLDELAISPDYNTFHILI-KYFRKEKMYM   82 (144)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~~~~~li-~~~~~~g~~~   82 (144)
                      ...|.+++|..+++...+..+. +...|..+..++...+  +++++...+++..+..- ++...+.... ..+...+..+
T Consensus        84 ~~~~~~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~  161 (334)
T d1dcea1          84 ESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPA  161 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHH
T ss_pred             HHHHHHHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhccccH
Confidence            3456688999999998876544 7788888887777765  58999999999877532 4566655444 6677789999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHH
Q 045403           83 LAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEAL  120 (144)
Q Consensus        83 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  120 (144)
                      +|...++...+.+ +-+...|..+-.++.+.|++++|.
T Consensus       162 ~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~  198 (334)
T d1dcea1         162 EELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSG  198 (334)
T ss_dssp             HHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             HHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHH
Confidence            9999999887654 246778888888888888776553

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.22  E-value=0.011  Score=39.09  Aligned_cols=120  Identities=8%  Similarity=-0.024  Sum_probs=83.8

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH---H-------hcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHh
Q 045403            9 GCFEEAKQLARDFEAKYDKYDVVLLNSMLCAY---C-------RTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKE   78 (144)
Q Consensus         9 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~---~-------~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~   78 (144)
                      +..++|.+++++..+..+. +...|+..-..+   .       ..+.+++|..+++...+.. +-+...|..+..++...
T Consensus        43 ~~~~~al~~~~~~l~~~P~-~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~  120 (334)
T d1dcea1          43 ELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (334)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             cccHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHh
Confidence            3458999999998876443 445565433332   2       2344788999999987653 24667788887777776


Q ss_pred             Cc--HHHHHHHHHHHHHCCCCCCHHHHHH-HHHHHhccCChHHHHHHHHHhhhcCC
Q 045403           79 KM--YMLAYRTMVDMHKKGHQPEEELCSS-LIFHLGKMRAHSEALCLQHVKDIAKD  131 (144)
Q Consensus        79 g~--~~~a~~~~~~m~~~~~~~~~~~~~~-l~~~~~~~g~~~~a~~l~~~m~~~~~  131 (144)
                      +.  ++++...+++..+.. +++...+.. .-..+...|..++|...++.....++
T Consensus       121 ~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p  175 (334)
T d1dcea1         121 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF  175 (334)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC
T ss_pred             ccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC
Confidence            64  889999999998753 334555544 44677789999999999998776433

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.15  E-value=0.0075  Score=35.71  Aligned_cols=96  Identities=11%  Similarity=0.006  Sum_probs=71.9

Q ss_pred             HHHHHH--HHHHHhcCCHHHHHHHHHHhhhC--CCCCC----------HHHHHHHHHHHHHhCcHHHHHHHHHHHHHC--
Q 045403           31 VLLNSM--LCAYCRTGDMESVIHVMRKLDEL--AISPD----------YNTFHILIKYFRKEKMYMLAYRTMVDMHKK--   94 (144)
Q Consensus        31 ~~~~~l--i~~~~~~~~~~~a~~~~~~m~~~--g~~p~----------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--   94 (144)
                      .+|..+  ...+.+.|++++|...|++..+-  .. |+          ..+|+.+-.+|...|++++|...+++..+.  
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~-~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~   86 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTM-PPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFN   86 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTS-CTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhh-hhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccc
Confidence            456666  44566779999999999998752  22 22          467889999999999999999988887642  


Q ss_pred             ---CCCCCH-----HHHHHHHHHHhccCChHHHHHHHHHhh
Q 045403           95 ---GHQPEE-----ELCSSLIFHLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus        95 ---~~~~~~-----~~~~~l~~~~~~~g~~~~a~~l~~~m~  127 (144)
                         ...++.     ..+..+-.+|.+.|++++|...|++..
T Consensus        87 ~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          87 RRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence               222322     245667889999999999999999744

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.95  E-value=0.0015  Score=35.65  Aligned_cols=55  Identities=16%  Similarity=0.223  Sum_probs=33.7

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCC-----CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYD-----KY-DVVLLNSMLCAYCRTGDMESVIHVMRKLDE   58 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~-----~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (144)
                      .+.+.|++++|...|++..+...     .+ ...+++.+-.++.+.|++++|.+.+++..+
T Consensus        14 ~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~   74 (95)
T d1tjca_          14 VAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH
Confidence            45566777777777776554211     11 134566667777777777777777776665

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.20  E-value=0.031  Score=30.08  Aligned_cols=63  Identities=8%  Similarity=-0.165  Sum_probs=42.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhhC-----CCCCC-HHHHHHHHHHHHHhCcHHHHHHHHHHHHHC
Q 045403           32 LLNSMLCAYCRTGDMESVIHVMRKLDEL-----AISPD-YNTFHILIKYFRKEKMYMLAYRTMVDMHKK   94 (144)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   94 (144)
                      .+-.+...+.+.|++++|...|++..+.     ...++ ..++..+-.++.+.|++++|...+++..+.
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3445667777888888888888776532     11122 346777777788888888888888887764

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.12  E-value=0.048  Score=31.56  Aligned_cols=67  Identities=13%  Similarity=0.056  Sum_probs=42.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCC
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGH   96 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~   96 (144)
                      +..-.+..++...+.|.-++..++++++.+. -+|+....-.+-.+|.+.|...++-+++.+.-+.|+
T Consensus        85 ~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          85 LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            4445566667777777777777777775553 235556666666677777777777776666666554

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=95.92  E-value=0.0028  Score=41.40  Aligned_cols=92  Identities=9%  Similarity=0.031  Sum_probs=56.7

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcH
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMY   81 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~   81 (144)
                      ...++..|++++|.+.++...+..+. +...+..+...+...+..+++..-...-...+-.++...+......+...|+.
T Consensus        37 a~lL~~~G~~e~A~~~l~~a~~l~P~-~~~~~~~l~~ll~a~~~~~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~  115 (264)
T d1zbpa1          37 IELLCIDGDFERADEQLMQSIKLFPE-YLPGASQLRHLVKAAQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDY  115 (264)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHHHHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHhccccHHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCH
Confidence            46789999999999999999876433 44555555444443333333222111111111122334445556678889999


Q ss_pred             HHHHHHHHHHHHC
Q 045403           82 MLAYRTMVDMHKK   94 (144)
Q Consensus        82 ~~a~~~~~~m~~~   94 (144)
                      ++|...+++..+.
T Consensus       116 ~~A~~~~~~a~e~  128 (264)
T d1zbpa1         116 EQVSELALQIEEL  128 (264)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999998754

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.81  E-value=0.026  Score=39.77  Aligned_cols=77  Identities=10%  Similarity=-0.045  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCC-CHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045403           31 VLLNSMLCAYCRTGDMESVIHVMRKLDELAISP-DYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFH  109 (144)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~  109 (144)
                      .++..+.+.+...+++++|...|++..+.  .| +..+|+.+-..+...|+..+|...|.+-.... .|-...+..|...
T Consensus       153 ~~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~  229 (497)
T d1ya0a1         153 HCLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKA  229 (497)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHH
Confidence            34455555566666666666666665543  23 33456666666666666666666555554332 2334444444433


Q ss_pred             H
Q 045403          110 L  110 (144)
Q Consensus       110 ~  110 (144)
                      |
T Consensus       230 ~  230 (497)
T d1ya0a1         230 L  230 (497)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=95.39  E-value=0.088  Score=30.55  Aligned_cols=86  Identities=8%  Similarity=-0.126  Sum_probs=62.3

Q ss_pred             HhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHh----------CcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045403           41 CRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKE----------KMYMLAYRTMVDMHKKGHQPEEELCSSLIFHL  110 (144)
Q Consensus        41 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~----------g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~  110 (144)
                      -+.+.+++|...|+...+.. +-|..++..+-.++...          +.+++|...|++..+.. +-+..+|..+-.+|
T Consensus         8 ~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y   85 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   85 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHH
Confidence            44567899999999988753 24667777777777644          45678999999888653 33567888888888


Q ss_pred             hccCC-----------hHHHHHHHHHhhh
Q 045403          111 GKMRA-----------HSEALCLQHVKDI  128 (144)
Q Consensus       111 ~~~g~-----------~~~a~~l~~~m~~  128 (144)
                      ...|.           +++|.+.|+...+
T Consensus        86 ~~~g~~~~~~~~~~~~~~~A~~~~~kal~  114 (145)
T d1zu2a1          86 TSFAFLTPDETEAKHNFDLATQFFQQAVD  114 (145)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHcccchhhHHHHHHhHHHhhhhhhcccc
Confidence            76543           5778888887654

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.28  E-value=0.087  Score=36.99  Aligned_cols=74  Identities=14%  Similarity=-0.020  Sum_probs=61.8

Q ss_pred             hhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhC
Q 045403            4 AFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEK   79 (144)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g   79 (144)
                      .+...|++++|...|++..+..+. +...|+.+-..+...|+..+|...|.+-..... |-..++..|...+.+..
T Consensus       161 l~~~~~~~~~A~~~y~~A~~l~P~-~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~-~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         161 IARYRNQTSQAESYYRHAAQLVPS-NGQPYNQLAILASSKGDHLTTIFYYCRSIAVKF-PFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-BSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSB-CCHHHHHHHHHHHHHHT
T ss_pred             HHHHcccHHHHHHHHHHHHHHCCC-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC-CCHHHHHHHHHHHHHhh
Confidence            466789999999999999887544 778999999999999999999999999877544 77778888877776543

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.70  E-value=0.14  Score=27.94  Aligned_cols=63  Identities=17%  Similarity=0.221  Sum_probs=48.4

Q ss_pred             CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045403           45 DMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIF  108 (144)
Q Consensus        45 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~  108 (144)
                      +..++.+-++.+....+.|+.....+.+++|.+.+++..|.++++-.+.. +.++...|..++.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHH
Confidence            67788888888888888899999999999999999999999999888732 2233446655543

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=94.63  E-value=0.17  Score=28.65  Aligned_cols=110  Identities=12%  Similarity=0.000  Sum_probs=75.3

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH----hCcHHH
Q 045403            8 GGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK----EKMYML   83 (144)
Q Consensus         8 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~   83 (144)
                      ..|.++|.+.|++..+.|-.   .....|.  .....+.++|...+++..+.|.   ......|-..|..    ..+.++
T Consensus         6 ~kd~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~g~---~~a~~~Lg~~y~~g~~~~~d~~~   77 (133)
T d1klxa_           6 KKDLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACELNS---GNGCRFLGDFYENGKYVKKDLRK   77 (133)
T ss_dssp             HHHHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhcccc---hhhhhhHHHhhhhccccchhhHH
Confidence            45789999999998877633   2222232  2345688999999999888764   3444445444543    457899


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHhhh
Q 045403           84 AYRTMVDMHKKGHQPEEELCSSLIFHLGK----MRAHSEALCLQHVKDI  128 (144)
Q Consensus        84 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~l~~~m~~  128 (144)
                      |.++|++-.+.|.   +.....|-..|..    ..+.++|.+++++--+
T Consensus        78 A~~~~~~aa~~g~---~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~  123 (133)
T d1klxa_          78 AAQYYSKACGLND---QDGCLILGYKQYAGKGVVKNEKQAVKTFEKACR  123 (133)
T ss_dssp             HHHHHHHHHHTTC---HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhccCc---chHHHHHHHHHHcCCccCCCHHHHHHHHHHHHH
Confidence            9999999998773   3444444444443    5689999999998654

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.28  E-value=0.43  Score=31.83  Aligned_cols=80  Identities=10%  Similarity=0.137  Sum_probs=52.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIF  108 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~  108 (144)
                      +..+|.-+..++.+......+     .+...+...+......++..|-..|.+++...+++..... -..+...++-++.
T Consensus        68 ~~~~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~  141 (336)
T d1b89a_          68 STRTWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAI  141 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHH
Confidence            444555555555555444332     1222333456666678888898999998888888877643 2467778888999


Q ss_pred             HHhccC
Q 045403          109 HLGKMR  114 (144)
Q Consensus       109 ~~~~~g  114 (144)
                      .|++.+
T Consensus       142 lyak~~  147 (336)
T d1b89a_         142 LYSKFK  147 (336)
T ss_dssp             HHHTTC
T ss_pred             HHHHhC
Confidence            998864

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.17  E-value=0.46  Score=31.70  Aligned_cols=91  Identities=13%  Similarity=0.097  Sum_probs=42.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045403           29 DVVLLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIF  108 (144)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~  108 (144)
                      +......++..|-..|.+++...++...... -.++...++-++..|++.+.    .++.+.+.......+   ..-++.
T Consensus        98 ~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~----~kl~e~l~~~s~~y~---~~k~~~  169 (336)
T d1b89a_          98 HADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKP----QKMREHLELFWSRVN---IPKVLR  169 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCH----HHHHHHHHHHSTTSC---HHHHHH
T ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhCh----HHHHHHHHhccccCC---HHHHHH
Confidence            3333445555666666666666655554321 12455555566666655543    122222322111111   122445


Q ss_pred             HHhccCChHHHHHHHHHhh
Q 045403          109 HLGKMRAHSEALCLQHVKD  127 (144)
Q Consensus       109 ~~~~~g~~~~a~~l~~~m~  127 (144)
                      .|-+.+.+.++.-++.++.
T Consensus       170 ~c~~~~l~~elv~Ly~~~~  188 (336)
T d1b89a_         170 AAEQAHLWAELVFLYDKYE  188 (336)
T ss_dssp             HHHTTTCHHHHHHHHHHTT
T ss_pred             HHHHcCChHHHHHHHHhcC
Confidence            5555555566555555554

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=93.44  E-value=0.35  Score=27.87  Aligned_cols=118  Identities=9%  Similarity=0.084  Sum_probs=88.7

Q ss_pred             ccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhhC-CC----------------CCCHHHHH
Q 045403            7 RGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDMESVIHVMRKLDEL-AI----------------SPDYNTFH   69 (144)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~----------------~p~~~~~~   69 (144)
                      -.|.+++..++..+..+   +.+..-||=.|.-....-+-+-+..+++..-+. .+                ..+...+.
T Consensus        14 ldG~ve~Gveii~k~~~---ss~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~Nlk~vv~C~~~~n~~se~vd   90 (161)
T d1wy6a1          14 LDGYIDEGVKIVLEITK---SSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEHVN   90 (161)
T ss_dssp             HTTCHHHHHHHHHHHHH---HSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHHHH
T ss_pred             HhhhHHhHHHHHHHHcc---cCCccccceeeeecccccchHHHHHHHHHHhhhcCchhhhcHHHHHHHHHHhcchHHHHH
Confidence            46888899999888775   446777888888877777777777777776543 11                12233355


Q ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhh
Q 045403           70 ILIKYFRKEKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDI  128 (144)
Q Consensus        70 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~  128 (144)
                      .-++.....|+-|.-.+++.++.+. -+|++...-.+..+|.+.|...++.+++.+.-+
T Consensus        91 lALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe  148 (161)
T d1wy6a1          91 KALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACK  148 (161)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence            6677788888888888888887764 478889999999999999999999999988654

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.42  E-value=0.15  Score=29.06  Aligned_cols=87  Identities=9%  Similarity=0.056  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHHhc-CCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHhhhCCCCCC-HHHHHHHHHHHHHhCcHHHHHH
Q 045403           12 EEAKQLARDFEAK-YDKYDVVLLNSMLCAYCRTG---DMESVIHVMRKLDELAISPD-YNTFHILIKYFRKEKMYMLAYR   86 (144)
Q Consensus        12 ~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~   86 (144)
                      ++-..+-++..+. +..|++.+-=..-.+++++.   +.+++..++++..+.+ +.+ ...+--+--+|.+.|++++|.+
T Consensus        16 ~el~~~~~q~~~e~~~~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~   94 (124)
T d2pqrb1          16 QQLEILRQQVVSEGGPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKR   94 (124)
T ss_dssp             HHHHHHHHHHHHTTGGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHH
Confidence            4444555556655 34566666556666666654   5678999999988643 123 3466667777889999999999


Q ss_pred             HHHHHHHCCCCCCHH
Q 045403           87 TMVDMHKKGHQPEEE  101 (144)
Q Consensus        87 ~~~~m~~~~~~~~~~  101 (144)
                      .++.+.+.  .|+..
T Consensus        95 ~~~~~L~i--eP~n~  107 (124)
T d2pqrb1          95 YVDTLFEH--ERNNK  107 (124)
T ss_dssp             HHHHHHHH--CTTCH
T ss_pred             HHHHHHcc--CCCcH
Confidence            99999874  45543

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.72  E-value=0.6  Score=26.43  Aligned_cols=53  Identities=15%  Similarity=0.002  Sum_probs=38.5

Q ss_pred             CcHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHhhhcCCC
Q 045403           79 KMYMLAYRTMVDMHKKGHQPEE-ELCSSLIFHLGKMRAHSEALCLQHVKDIAKDR  132 (144)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~l~~~m~~~~~~  132 (144)
                      .+++++..++++..+.+ +.+. ..+=-|--+|.+.|++++|.+.++.+.+..+.
T Consensus        52 ~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~  105 (124)
T d2pqrb1          52 NDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERN  105 (124)
T ss_dssp             HHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCC
Confidence            46778999999998653 2232 33345666788999999999999998765443

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=90.01  E-value=0.79  Score=24.87  Aligned_cols=50  Identities=10%  Similarity=0.033  Sum_probs=44.1

Q ss_pred             cHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHhhhc
Q 045403           80 MYMLAYRTMVDMHKKGHQPEEELCSSLIFHLGKMRAHSEALCLQHVKDIA  129 (144)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~l~~~m~~~  129 (144)
                      |.=++.+.++.+....+.|++.+..+.+++|.+.+|+.-|.++++-++..
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K   70 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   70 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            44467778888888889999999999999999999999999999988754

>d2nsza1 a.118.1.14 (A:322-450) Programmed cell death 4, PDCD4 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Programmed cell death 4, PDCD4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.04  E-value=1.1  Score=25.30  Aligned_cols=69  Identities=10%  Similarity=0.238  Sum_probs=34.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcH--HHHHHHHHHHHHCCCCCCHHH
Q 045403           33 LNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMY--MLAYRTMVDMHKKGHQPEEEL  102 (144)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~--~~a~~~~~~m~~~~~~~~~~~  102 (144)
                      ...++.-|..+++.++|...++++...... .......+..+.-+.++-  +.+..++..+.+.|+.+....
T Consensus        10 ~~~ll~EY~~~~D~~Ea~~~l~eL~~p~~~-~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~is~~~i   80 (129)
T d2nsza1          10 IDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQM   80 (129)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHTCGGGH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCchhh-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCCCCHHHH
Confidence            455666666666666666666666432111 123333333333333332  224556666666554443333

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=87.87  E-value=1.9  Score=26.60  Aligned_cols=115  Identities=14%  Similarity=0.007  Sum_probs=72.8

Q ss_pred             hhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH---
Q 045403            5 FCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK---   77 (144)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~---   77 (144)
                      +.+.|++++|++.|++..+.|   +...+-.|-..|..    ..+...+...+..-.+.+.   ......+...+..   
T Consensus        12 ~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~~l~~~~~~~~~   85 (265)
T d1ouva_          12 SYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCHLLGNLYYSGQG   85 (265)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTSS
T ss_pred             HHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhhccccccccccc
Confidence            446789999999999987765   44555556666655    5688999999888877653   3444444444433   


Q ss_pred             -hCcHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh----ccCChHHHHHHHHHhhh
Q 045403           78 -EKMYMLAYRTMVDMHKKGHQPEEELCSSLIFHLG----KMRAHSEALCLQHVKDI  128 (144)
Q Consensus        78 -~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~----~~g~~~~a~~l~~~m~~  128 (144)
                       .++.+.+...+++..+.|..   .....+...+.    .......+...+.....
T Consensus        86 ~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~  138 (265)
T d1ouva_          86 VSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACD  138 (265)
T ss_dssp             SCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH
T ss_pred             cchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhc
Confidence             45778888888888776532   22222222222    35556677777776544

>d2nsza1 a.118.1.14 (A:322-450) Programmed cell death 4, PDCD4 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Programmed cell death 4, PDCD4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.67  E-value=2.1  Score=24.06  Aligned_cols=61  Identities=11%  Similarity=0.244  Sum_probs=43.7

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCH--HHHHHHHHHhhhCCCCC
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTGDM--ESVIHVMRKLDELAISP   63 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~--~~a~~~~~~m~~~g~~p   63 (144)
                      |.=|...|++++|.+.++++...... ...++..+..++-+.+.-  +.+..++..+...|+-+
T Consensus        14 l~EY~~~~D~~Ea~~~l~eL~~p~~~-~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~is   76 (129)
T d2nsza1          14 LKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTIT   76 (129)
T ss_dssp             HHHHHHHCCHHHHHHHHHHHTCGGGH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHhCCCHHHHHHHHHHcCCchhh-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCCCC
Confidence            55678899999999999998643222 456666666666666554  34677999999888733

>d1ug3a1 a.118.1.14 (A:1235-1427) Eukaryotic initiation factor eIF4G {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Eukaryotic initiation factor eIF4G
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.45  E-value=0.71  Score=28.11  Aligned_cols=60  Identities=10%  Similarity=0.042  Sum_probs=35.5

Q ss_pred             hhhhhccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHhhhCCCCC
Q 045403            2 ISAFCRGGCFEEAKQLARDFEAKYDKYDVVLLNSMLCAYCRTG--DMESVIHVMRKLDELAISP   63 (144)
Q Consensus         2 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~g~~p   63 (144)
                      |.=|...|+.++|...++++...... ...+...+..++ ..+  .-+.+-.++..+.+.|+-+
T Consensus        17 l~Ey~~~~D~~Ea~~~l~el~~p~~~-~~~V~~~i~~~l-e~~~~~re~~~~Ll~~L~~~~~is   78 (193)
T d1ug3a1          17 IEEYLHLNDMKEAVQCVQELASPSLL-FIFVRHGVESTL-ERSAIAREHMGQLLHQLLCAGHLS   78 (193)
T ss_dssp             HHHHHHHCCHHHHHHHHHTTCCGGGH-HHHHHHHHHHHT-TTCHHHHHHHHHHHHHHHHTTSSC
T ss_pred             HHHHHhCCCHHHHHHHHHHcCCchhH-HHHHHHHHHHHH-cCCHHHHHHHHHHHHHHHHCCCCC
Confidence            44566778999999998887532222 223333333333 333  2355777888888777643

>d3fapb_ a.24.7.1 (B:) FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP)
family: FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP)
domain: FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.41  E-value=1.3  Score=23.59  Aligned_cols=54  Identities=13%  Similarity=0.122  Sum_probs=21.8

Q ss_pred             HHHHhcCCHHHHHHHHHHhhhC-CCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Q 045403           38 CAYCRTGDMESVIHVMRKLDEL-AISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHK   93 (144)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~   93 (144)
                      +.|...++.+...+++.-+-+. .-.|....=.+.+..|+  .++.+|...+++..+
T Consensus        18 r~y~~~~n~~~m~~~L~pLhe~L~k~PeT~~E~sF~q~fG--~~L~eA~~~~~~y~~   72 (94)
T d3fapb_          18 RLYFGERNVKGMFEVLEPLHAMMERGPQTLKETSFNQAYG--RDLMEAQEWCRKYMK   72 (94)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHHHHCCCSHHHHHHHHHHH--HHHHHHHHHHHHHHH
T ss_pred             HHHcccCCHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHh--HHHHHHHHHHHHHHH
Confidence            3344444554444444333211 00133333333444443  334455555555443

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=82.76  E-value=3.6  Score=25.24  Aligned_cols=61  Identities=13%  Similarity=0.025  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH----hCcHHHHHHHHHHHHHCC
Q 045403           32 LLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRK----EKMYMLAYRTMVDMHKKG   95 (144)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~   95 (144)
                      .+..+-..+.+.+++++|.+.|++..+.|   |...+..|-..|..    ..+...+...+..-.+.+
T Consensus         4 ~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~   68 (265)
T d1ouva_           4 ELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN   68 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc
Confidence            44444445555566666666666665543   33344444444443    345555665555555443

>d1mzba_ a.4.5.42 (A:) Ferric uptake regulation protein, FUR {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: FUR-like
domain: Ferric uptake regulation protein, FUR
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=82.52  E-value=2.5  Score=23.70  Aligned_cols=60  Identities=13%  Similarity=0.028  Sum_probs=44.7

Q ss_pred             HHHhcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc
Q 045403           20 DFEAKYDKYDVVLLNSMLCAYCRTG-DMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM   80 (144)
Q Consensus        20 ~m~~~~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~   80 (144)
                      ++++.|..++. .=..++.++...+ ..-.|.++++.+.+.+...+..|.--.++.+...|-
T Consensus         6 ~Lr~~GlR~T~-qR~~Il~~L~~~~~~h~sa~ei~~~l~~~~~~i~~aTVYR~L~~l~e~gl   66 (134)
T d1mzba_           6 ELRKAGLKVTL-PRVKILQMLDSAEQRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAGL   66 (134)
T ss_dssp             HHHHTTCCCCH-HHHHHHHHHHCC-CCSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTS
T ss_pred             HHHHcCCCCCH-HHHHHHHHHHhCCCCCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHhccE
Confidence            46778888554 4567777777664 467889999999988888888887777777777764

>d1ug3a1 a.118.1.14 (A:1235-1427) Eukaryotic initiation factor eIF4G {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Eukaryotic initiation factor eIF4G
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.58  E-value=3.8  Score=24.65  Aligned_cols=95  Identities=9%  Similarity=0.003  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCc--HHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045403           32 LLNSMLCAYCRTGDMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKM--YMLAYRTMVDMHKKGHQPEEELCSSLIFH  109 (144)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~--~~~a~~~~~~m~~~~~~~~~~~~~~l~~~  109 (144)
                      ...++|.-|...++.++|...++++...... ...... ++......++  -+.+..++..+.+.|+-+.......+-..
T Consensus        12 k~~~il~Ey~~~~D~~Ea~~~l~el~~p~~~-~~~V~~-~i~~~le~~~~~re~~~~Ll~~L~~~~~is~~~~~~gf~~~   89 (193)
T d1ug3a1          12 KSKAIIEEYLHLNDMKEAVQCVQELASPSLL-FIFVRH-GVESTLERSAIAREHMGQLLHQLLCAGHLSTAQYYQGLYEI   89 (193)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHTTCCGGGH-HHHHHH-HHHHHTTTCHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCchhH-HHHHHH-HHHHHHcCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Confidence            4677889999999999999999998542221 112222 2222223333  34467788888877765444433333332


Q ss_pred             Hhc----cCChHHHHHHHHHhhh
Q 045403          110 LGK----MRAHSEALCLQHVKDI  128 (144)
Q Consensus       110 ~~~----~g~~~~a~~l~~~m~~  128 (144)
                      +..    .=|+-.|..++.++..
T Consensus        90 l~~l~Dl~iDiP~a~~~la~~~a  112 (193)
T d1ug3a1          90 LELAEDMEIDIPHVWLYLAELVT  112 (193)
T ss_dssp             HHHHHHHTTTCTTHHHHHHHHHG
T ss_pred             HHhhhhhhhcchHHHHHHHHHHH
Confidence            222    2233345555554443

>d1khda1 a.46.2.1 (A:12-80) Anthranilate phosphoribosyltransferase (TrpD) {Pectobacterium carotovorum [TaxId: 554]}

class: All alpha proteins
fold: Methionine synthase domain-like
superfamily: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
family: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
domain: Anthranilate phosphoribosyltransferase (TrpD)
species: Pectobacterium carotovorum [TaxId: 554]

Probab=80.30  E-value=2.2  Score=21.05  Aligned_cols=62  Identities=8%  Similarity=-0.014  Sum_probs=29.2

Q ss_pred             HHHHHHHHHhcC--CHHHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHCC
Q 045403           33 LNSMLCAYCRTG--DMESVIHVMRKLDELAISPDYNTFHILIKYFRKEKMYMLAYRTMVDMHKKG   95 (144)
Q Consensus        33 ~~~li~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~   95 (144)
                      |..+|.-....+  ..+++..+++.+.+..+ +|.-.=..|+....+.-..++...+.+.|.+++
T Consensus         2 ~~~il~kl~~g~~Ls~ee~~~~~~~i~~g~~-~d~qiaafL~al~~kg~t~dEi~g~~~am~~~~   65 (69)
T d1khda1           2 HQPILEKLFKSQSMTQEESHQLFAAIVRGEL-EDSQLAAALISMKMRGERPEEIAGAASALLADA   65 (69)
T ss_dssp             CHHHHHHHHTTCCCCHHHHHHHHHHHTTTCS-CHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC
Confidence            444555554443  34566666666654322 333333333333333334555555666665544