Citrus Sinensis ID: 038114

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170
Protein Sequence
MIRNLKTQLRFTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYLD
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHcccccEEEcHHHHHHHHccccHHHHHHHHccccccccccccccccHHHHHHHHcccccHHHHHHHHHHHHHccccccccHHHHHHHHccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccccccc
Coil and Loop (DISEMBL)
mirnlktqlrftfynsqpiqnLYNEALVAFDFlqnntnfrirpsTYACLISTCSSLRSLQLGRKVHDhilssksqpdvVLQNYILNMygkcgsledarvvsdempqrnviespdlasWNAIIAGVASPSNANEAMSLFSEmrdrelipdgltVRSLLCactspsnvlyld
Flexible Loop (DISEMBL)
MIRNLKTQLRFTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHilssksqpdvVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRsllcactspsnvlyld
Low Complexity Region (SEG)
MIRNLKTQLRFTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYLD
Disordered region (IsUnstruct)
******TQLRFTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVV********VIESPDLASWNAIIAGVA*****************RELIPDGLTVRSLLCACTSPSNVLY**
Disordered Region (DISOPRED)
*IRNLKTQLRFTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYLD
Disordered Region (DISEMBL)
MIRNLKTQLRFTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYLD
Disordered Region (DISPRO)
***NLKTQLRFTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNV****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MIRNLKTQLRFTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYLD
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	170	2.2.26 [Sep-21-2011]
Q9LFI1	768	Pentatricopeptide repeat-	yes	no	0.858	0.190	0.486	4e-34
O23169	691	Pentatricopeptide repeat-	no	no	0.564	0.138	0.480	3e-20
O82380	738	Pentatricopeptide repeat-	no	no	0.776	0.178	0.326	2e-18
Q9LNP2	731	Putative pentatricopeptid	no	no	0.682	0.158	0.344	7e-18
Q9LUL5	710	Pentatricopeptide repeat-	no	no	0.658	0.157	0.381	1e-17
P0C8Q7	534	Pentatricopeptide repeat-	no	no	0.794	0.252	0.359	2e-17
Q9LIC3	628	Putative pentatricopeptid	no	no	0.782	0.211	0.328	2e-17
Q9M9E2	866	Pentatricopeptide repeat-	no	no	0.794	0.155	0.304	2e-17
P93011	583	Pentatricopeptide repeat-	no	no	0.705	0.205	0.335	3e-17
Q9SN39	871	Pentatricopeptide repeat-	no	no	0.8	0.156	0.349	3e-17

>sp|Q9LFI1|PP280_ARATH Pentatricopeptide repeat-containing protein At3g53360, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E86 PE=2 SV=1

 Score =  143 bits (361), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 74/152 (48%), Positives = 96/152 (63%), Gaps = 6/152 (3%)

Query: 15  NSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKS 74
           NS    N Y EAL AFDF Q N++F+IR  TY  LI  CSS RSL  GRK+HDHIL+S  
Sbjct: 39  NSLCKSNFYREALEAFDFAQKNSSFKIRLRTYISLICACSSSRSLAQGRKIHDHILNSNC 98

Query: 75  QPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEA 134
           + D +L N+IL+MYGKCGSL DAR V D MP+RN      L S+ ++I G +      EA
Sbjct: 99  KYDTILNNHILSMYGKCGSLRDAREVFDFMPERN------LVSYTSVITGYSQNGQGAEA 152

Query: 135 MSLFSEMRDRELIPDGLTVRSLLCACTSPSNV 166
           + L+ +M   +L+PD     S++ AC S S+V
Sbjct: 153 IRLYLKMLQEDLVPDQFAFGSIIKACASSSDV 184

Arabidopsis thaliana (taxid: 3702)

>sp|O23169|PP353_ARATH Pentatricopeptide repeat-containing protein At4g37170 OS=Arabidopsis thaliana GN=PCMP-H5 PE=3 SV=1

 Score = 97.4 bits (241), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 49/102 (48%), Positives = 62/102 (60%), Gaps = 6/102 (5%)

Query: 44  STYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDE 103
           STY  LI  CS  R+L+ G+KVH+HI +S   P +V+ N +L MY KCGSL DAR V DE
Sbjct: 86  STYCNLIQVCSQTRALEEGKKVHEHIRTSGFVPGIVIWNRLLRMYAKCGSLVDARKVFDE 145

Query: 104 MPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE 145
           MP R      DL SWN ++ G A      EA  LF EM +++
Sbjct: 146 MPNR------DLCSWNVMVNGYAEVGLLEEARKLFDEMTEKD 181

Arabidopsis thaliana (taxid: 3702)

>sp|O82380|PP175_ARATH Pentatricopeptide repeat-containing protein At2g29760, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H33 PE=2 SV=1

 Score = 91.7 bits (226), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 45/138 (32%), Positives = 79/138 (57%), Gaps = 6/138 (4%)

Query: 24  NEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNY 83
           NEAL+ F  LQ   N ++   T    +S C+ + +L+LGR +H +I     + +  + + 
Sbjct: 346 NEALIVFHELQLQKNMKLNQITLVSTLSACAQVGALELGRWIHSYIKKHGIRMNFHVTSA 405

Query: 84  ILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD 143
           +++MY KCG LE +R V       N +E  D+  W+A+I G+A     NEA+ +F +M++
Sbjct: 406 LIHMYSKCGDLEKSREVF------NSVEKRDVFVWSAMIGGLAMHGCGNEAVDMFYKMQE 459

Query: 144 RELIPDGLTVRSLLCACT 161
             + P+G+T  ++ CAC+
Sbjct: 460 ANVKPNGVTFTNVFCACS 477

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LNP2|PPR47_ARATH Putative pentatricopeptide repeat-containing protein At1g17630 OS=Arabidopsis thaliana GN=PCMP-E72 PE=3 SV=1

 Score = 90.1 bits (222), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 42/122 (34%), Positives = 69/122 (56%), Gaps = 6/122 (4%)

Query: 45  TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEM 104
           T  C++S C+ L +L LGR++H H++ +    ++++QN ++NMY KCG L +  +V +  
Sbjct: 436 TICCILSICAELPALNLGREIHGHVIRTSMSENILVQNALVNMYAKCGLLSEGSLVFE-- 493

Query: 105 PQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPS 164
                I   DL SWN+II G      A +A+S+F  M      PDG+ + ++L AC+   
Sbjct: 494 ----AIRDKDLISWNSIIKGYGMHGFAEKALSMFDRMISSGFHPDGIALVAVLSACSHAG 549

Query: 165 NV 166
            V
Sbjct: 550 LV 551

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LUL5|PP229_ARATH Pentatricopeptide repeat-containing protein At3g14330 OS=Arabidopsis thaliana GN=PCMP-H57 PE=2 SV=2

 Score = 89.0 bits (219), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 45/118 (38%), Positives = 70/118 (59%), Gaps = 6/118 (5%)

Query: 44  STYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDE 103
           +T   ++  CS + +L  G+++H  IL SK +PDV L N +++MYGKCG +E +R V D 
Sbjct: 338 ATLTTILPACSRVAALLTGKEIHAQILKSKEKPDVPLLNSLMDMYGKCGEVEYSRRVFD- 396

Query: 104 MPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACT 161
                V+ + DLASWN ++   A   N  E ++LF  M +  + PDG+T  +LL  C+
Sbjct: 397 -----VMLTKDLASWNIMLNCYAINGNIEEVINLFEWMIESGVAPDGITFVALLSGCS 449

Arabidopsis thaliana (taxid: 3702)

>sp|P0C8Q7|PP369_ARATH Pentatricopeptide repeat-containing protein At5g08305 OS=Arabidopsis thaliana GN=PCMP-E105 PE=2 SV=1

 Score = 88.6 bits (218), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 50/139 (35%), Positives = 75/139 (53%), Gaps = 4/139 (2%)

Query: 23  YNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQN 82
           YN+AL  FD +    + +    T   +I  C+ L +L  G+ VH +IL       V+LQ 
Sbjct: 221 YNKALEIFDQMMRMGSSKANEVTMVSVICACAHLGALNRGKTVHRYILDVHLPLTVILQT 280

Query: 83  YILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMR 142
            +++MY KCGS+ DA  V      R  ++  D   WNAII G+AS     E++ LF +MR
Sbjct: 281 SLIDMYAKCGSIGDAWSVF----YRASVKETDALMWNAIIGGLASHGFIRESLQLFHKMR 336

Query: 143 DRELIPDGLTVRSLLCACT 161
           + ++ PD +T   LL AC+
Sbjct: 337 ESKIDPDEITFLCLLAACS 355

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LIC3|PP227_ARATH Putative pentatricopeptide repeat-containing protein At3g13770, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H85 PE=3 SV=1

 Score = 88.6 bits (218), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 47/143 (32%), Positives = 79/143 (55%), Gaps = 10/143 (6%)

Query: 24  NEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNY 83
            EAL+    L     F      Y  L++ C   R+L+ G++VH H++ ++  P   L+  
Sbjct: 37  QEALLEMAMLGPEMGFH----GYDALLNACLDKRALRDGQRVHAHMIKTRYLPATYLRTR 92

Query: 84  ILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD 143
           +L  YGKC  LEDAR V DEMP++NV+      SW A+I+  +   +++EA+++F+EM  
Sbjct: 93  LLIFYGKCDCLEDARKVLDEMPEKNVV------SWTAMISRYSQTGHSSEALTVFAEMMR 146

Query: 144 RELIPDGLTVRSLLCACTSPSNV 166
            +  P+  T  ++L +C   S +
Sbjct: 147 SDGKPNEFTFATVLTSCIRASGL 169

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M9E2|PPR45_ARATH Pentatricopeptide repeat-containing protein At1g15510, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H73 PE=2 SV=1

 Score = 88.6 bits (218), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 43/141 (30%), Positives = 78/141 (55%), Gaps = 6/141 (4%)

Query: 20  QNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVV 79
           Q  ++EA+  +  +      +    T+ C++ TC  +  L  G++VH H++    + D+ 
Sbjct: 173 QGYFDEAMCLYHRMLWVGGVKPDVYTFPCVLRTCGGIPDLARGKEVHVHVVRYGYELDID 232

Query: 80  LQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFS 139
           + N ++ MY KCG ++ AR++ D MP+R++I      SWNA+I+G       +E + LF 
Sbjct: 233 VVNALITMYVKCGDVKSARLLFDRMPRRDII------SWNAMISGYFENGMCHEGLELFF 286

Query: 140 EMRDRELIPDGLTVRSLLCAC 160
            MR   + PD +T+ S++ AC
Sbjct: 287 AMRGLSVDPDLMTLTSVISAC 307

Arabidopsis thaliana (taxid: 3702)

>sp|P93011|PP182_ARATH Pentatricopeptide repeat-containing protein At2g33760 OS=Arabidopsis thaliana GN=PCMP-H6 PE=3 SV=1

 Score = 87.8 bits (216), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 43/128 (33%), Positives = 72/128 (56%), Gaps = 8/128 (6%)

Query: 41  IRPS--TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDAR 98
           + PS  T+  +I +C+ L +L++G+ VH H + S    D  +Q  ++  Y KCG +E AR
Sbjct: 103 VSPSNYTFTSVIKSCADLSALRIGKGVHCHAVVSGFGLDTYVQAALVTFYSKCGDMEGAR 162

Query: 99  VVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLC 158
            V D MP+++++      +WN++++G      A+EA+ +F +MR+    PD  T  SLL 
Sbjct: 163 QVFDRMPEKSIV------AWNSLVSGFEQNGLADEAIQVFYQMRESGFEPDSATFVSLLS 216

Query: 159 ACTSPSNV 166
           AC     V
Sbjct: 217 ACAQTGAV 224

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SN39|PP320_ARATH Pentatricopeptide repeat-containing protein At4g18750, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H45 PE=2 SV=1

 Score = 87.4 bits (215), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 50/143 (34%), Positives = 78/143 (54%), Gaps = 7/143 (4%)

Query: 20  QNLY-NEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDV 78
           +N Y NEAL  F+ L     F     T AC++  C+SL +   GR++H +I+ +    D 
Sbjct: 475 KNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSAFDKGREIHGYIMRNGYFSDR 534

Query: 79  VLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLF 138
            + N +++MY KCG+L  A ++ D+      I S DL SW  +IAG        EA++LF
Sbjct: 535 HVANSLVDMYAKCGALLLAHMLFDD------IASKDLVSWTVMIAGYGMHGFGKEAIALF 588

Query: 139 SEMRDRELIPDGLTVRSLLCACT 161
           ++MR   +  D ++  SLL AC+
Sbjct: 589 NQMRQAGIEADEISFVSLLYACS 611

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	170
147784524	763	hypothetical protein VITISV_032420 [Viti	0.829	0.184	0.503	2e-36
359481513	755	PREDICTED: pentatricopeptide repeat-cont	0.829	0.186	0.489	3e-35
15231798	768	pentatricopeptide repeat-containing prot	0.858	0.190	0.486	2e-32
297816638	769	pentatricopeptide repeat-containing prot	0.864	0.191	0.464	7e-31
356503704	855	PREDICTED: pentatricopeptide repeat-cont	0.829	0.164	0.448	4e-29
357510605	887	Pentatricopeptide repeat-containing prot	0.829	0.158	0.414	5e-29
356570738	777	PREDICTED: pentatricopeptide repeat-cont	0.829	0.181	0.435	1e-28
449440387	792	PREDICTED: pentatricopeptide repeat-cont	0.805	0.172	0.433	1e-27
449518693	792	PREDICTED: pentatricopeptide repeat-cont	0.805	0.172	0.433	1e-27
255583011	631	pentatricopeptide repeat-containing prot	0.688	0.185	0.432	6e-20

>gi|147784524|emb|CAN61725.1| hypothetical protein VITISV_032420 [Vitis vinifera]

 Score =  156 bits (395), Expect = 2e-36,   Method: Composition-based stats.
 Identities = 74/147 (50%), Positives = 100/147 (68%), Gaps = 6/147 (4%)

Query: 20  QNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVV 79
           Q L+NEA+ AF+FLQ  T F +  STYA LIS CS LRSL+ GRK+HDH+L SKS PD+ 
Sbjct: 40  QKLFNEAIKAFEFLQKKTGFCLTLSTYAYLISACSYLRSLEHGRKIHDHMLKSKSHPDLT 99

Query: 80  LQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFS 139
           LQN+ILNMYGKCGSL+DA+ V D MP+RNV+      SW ++IAG +       A+  + 
Sbjct: 100 LQNHILNMYGKCGSLKDAQKVFDAMPERNVV------SWTSVIAGYSQNGQGGNALEFYF 153

Query: 140 EMRDRELIPDGLTVRSLLCACTSPSNV 166
           +M    ++PD  T  S++ AC+S  ++
Sbjct: 154 QMLQSGVMPDQFTFGSIIKACSSLGDI 180

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359481513|ref|XP_003632631.1| PREDICTED: pentatricopeptide repeat-containing protein At3g53360, mitochondrial-like [Vitis vinifera]

 Score =  152 bits (385), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 72/147 (48%), Positives = 99/147 (67%), Gaps = 6/147 (4%)

Query: 20  QNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVV 79
           Q L+NEA+ AF+FLQ  T F +  STYA LIS CS LRSL+ G+K+HDH+L SKS PD+ 
Sbjct: 40  QKLFNEAIKAFEFLQKKTGFCLTLSTYAYLISACSYLRSLEHGKKIHDHMLKSKSHPDLT 99

Query: 80  LQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFS 139
           LQN+ILNMYGKC SL+DA+ V D MP+RNV+      SW ++IAG +       A+  + 
Sbjct: 100 LQNHILNMYGKCKSLKDAQKVFDAMPERNVV------SWTSVIAGYSQNGQGGNALEFYF 153

Query: 140 EMRDRELIPDGLTVRSLLCACTSPSNV 166
           +M    ++PD  T  S++ AC+S  ++
Sbjct: 154 QMLQSGVMPDQFTFGSIIKACSSLGDI 180

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15231798|ref|NP_190904.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75174119|sp|Q9LFI1.1|PP280_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At3g53360, mitochondrial; Flags: Precursor gi|6729487|emb|CAB67643.1| putative protein [Arabidopsis thaliana] gi|332645554|gb|AEE79075.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  143 bits (361), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 74/152 (48%), Positives = 96/152 (63%), Gaps = 6/152 (3%)

Query: 15  NSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKS 74
           NS    N Y EAL AFDF Q N++F+IR  TY  LI  CSS RSL  GRK+HDHIL+S  
Sbjct: 39  NSLCKSNFYREALEAFDFAQKNSSFKIRLRTYISLICACSSSRSLAQGRKIHDHILNSNC 98

Query: 75  QPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEA 134
           + D +L N+IL+MYGKCGSL DAR V D MP+RN      L S+ ++I G +      EA
Sbjct: 99  KYDTILNNHILSMYGKCGSLRDAREVFDFMPERN------LVSYTSVITGYSQNGQGAEA 152

Query: 135 MSLFSEMRDRELIPDGLTVRSLLCACTSPSNV 166
           + L+ +M   +L+PD     S++ AC S S+V
Sbjct: 153 IRLYLKMLQEDLVPDQFAFGSIIKACASSSDV 184

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297816638|ref|XP_002876202.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297322040|gb|EFH52461.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  138 bits (348), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 71/153 (46%), Positives = 96/153 (62%), Gaps = 6/153 (3%)

Query: 15  NSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKS 74
           NS    + Y EAL AFDF Q N++F+IR  TY  LI  CSS RSL  GRK+HDHIL+S  
Sbjct: 36  NSLCRNSFYREALEAFDFAQKNSSFKIRLRTYISLICACSSSRSLAQGRKIHDHILNSNC 95

Query: 75  QPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEA 134
           + D +L N+IL+MYGKCGSL DAR V D MP+RN      L S+ ++I G +      EA
Sbjct: 96  KYDTILNNHILSMYGKCGSLRDAREVFDFMPERN------LVSYTSVITGYSQNGQEAEA 149

Query: 135 MSLFSEMRDRELIPDGLTVRSLLCACTSPSNVL 167
           ++L+ +M   +L+PD     S++ AC    +V+
Sbjct: 150 ITLYLKMLQADLVPDQFAFGSIIKACACAGDVV 182

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356503704|ref|XP_003520645.1| PREDICTED: pentatricopeptide repeat-containing protein At3g53360, mitochondrial-like [Glycine max]

 Score =  132 bits (333), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 66/147 (44%), Positives = 92/147 (62%), Gaps = 6/147 (4%)

Query: 20  QNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVV 79
           Q  Y EAL  F+F   N++ ++  STY  LI  C+S+RSL+ G+K+HDHIL S  QPD+V
Sbjct: 134 QRHYREALDTFNFHPKNSSIQLESSTYGNLILACTSIRSLKYGKKIHDHILKSNCQPDLV 193

Query: 80  LQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFS 139
           LQN+ILNMYGKCGSL+DAR   D M  RNV+      SW  +I+G +     N+A+ ++ 
Sbjct: 194 LQNHILNMYGKCGSLKDARKAFDTMQLRNVV------SWTIMISGYSQNGQENDAIIMYI 247

Query: 140 EMRDRELIPDGLTVRSLLCACTSPSNV 166
           +M      PD LT  S++ AC    ++
Sbjct: 248 QMLQSGYFPDPLTFGSIIKACCIAGDI 274

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357510605|ref|XP_003625591.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355500606|gb|AES81809.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  132 bits (332), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 61/147 (41%), Positives = 92/147 (62%), Gaps = 6/147 (4%)

Query: 20  QNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVV 79
           Q+ Y EAL AFDF   N+N    PSTY  L+  C++ RSL   +K+HDH+L S  QP ++
Sbjct: 136 QHHYKEALEAFDFHLKNSNSHFEPSTYTSLVLACANFRSLDYAKKIHDHVLKSNYQPSII 195

Query: 80  LQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFS 139
           LQN+++NMYGKCGS++DAR V D M      + P++ SW ++I+G +    AN+A+ ++ 
Sbjct: 196 LQNHMINMYGKCGSMKDARKVFDTM------QLPNVVSWTSMISGYSQNGQANDAIIMYI 249

Query: 140 EMRDRELIPDGLTVRSLLCACTSPSNV 166
           +M      PD LT  S++ AC    ++
Sbjct: 250 QMTRSGQFPDQLTFGSVIKACYIAGDI 276

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356570738|ref|XP_003553542.1| PREDICTED: pentatricopeptide repeat-containing protein At3g53360, mitochondrial-like [Glycine max]

 Score =  131 bits (329), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 64/147 (43%), Positives = 93/147 (63%), Gaps = 6/147 (4%)

Query: 20  QNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVV 79
           Q  Y EAL  F+F   N++ ++ PSTY  LI  C+++RSL+ G+++HDHIL S  QPD+V
Sbjct: 57  QQHYREALDTFNFHLKNSSIQLEPSTYVNLILACTNVRSLKYGKRIHDHILKSNCQPDLV 116

Query: 80  LQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFS 139
           LQN+ILNMYGKCGSL+DAR   D M  R+V+      SW  +I+G +     N+A+ ++ 
Sbjct: 117 LQNHILNMYGKCGSLKDARKAFDTMQLRSVV------SWTIMISGYSQNGQENDAIIMYI 170

Query: 140 EMRDRELIPDGLTVRSLLCACTSPSNV 166
           +M      PD LT  S++ AC    ++
Sbjct: 171 QMLRSGYFPDQLTFGSIIKACCIAGDI 197

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449440387|ref|XP_004137966.1| PREDICTED: pentatricopeptide repeat-containing protein At3g53360, mitochondrial-like [Cucumis sativus]

 Score =  128 bits (321), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 62/143 (43%), Positives = 95/143 (66%), Gaps = 6/143 (4%)

Query: 20  QNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVV 79
           +NL+ EAL AFD  Q  ++  ++  TY  LI+ CSSLRSL+ GRK+H H+L+   QPD++
Sbjct: 75  KNLHREALKAFDIFQKCSSSPLKSVTYTHLINACSSLRSLEHGRKIHRHMLTCNYQPDMI 134

Query: 80  LQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFS 139
           LQN+IL+MYGKCGSL++AR + D MP +NV+      SW ++I+G +     + A++L+ 
Sbjct: 135 LQNHILSMYGKCGSLKEARNMFDSMPLKNVV------SWTSMISGYSRYGEEDNAITLYV 188

Query: 140 EMRDRELIPDGLTVRSLLCACTS 162
           +M     IPD  T  S++ +C+ 
Sbjct: 189 QMLRSGHIPDHFTFGSIVKSCSG 211

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449518693|ref|XP_004166371.1| PREDICTED: pentatricopeptide repeat-containing protein At3g53360, mitochondrial-like [Cucumis sativus]

 Score =  127 bits (320), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 62/143 (43%), Positives = 95/143 (66%), Gaps = 6/143 (4%)

Query: 20  QNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVV 79
           +NL+ EAL AFD  Q  ++  ++  TY  LI+ CSSLRSL+ GRK+H H+L+   QPD++
Sbjct: 75  KNLHREALKAFDIFQKCSSSPLKSVTYTHLINACSSLRSLEHGRKIHRHMLTCNYQPDMI 134

Query: 80  LQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFS 139
           LQN+IL+MYGKCGSL++AR + D MP +NV+      SW ++I+G +     + A++L+ 
Sbjct: 135 LQNHILSMYGKCGSLKEARNMFDSMPLKNVV------SWTSMISGYSRYGEEDNAITLYV 188

Query: 140 EMRDRELIPDGLTVRSLLCACTS 162
           +M     IPD  T  S++ +C+ 
Sbjct: 189 QMLRSGHIPDHFTFGSIVKSCSG 211

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255583011|ref|XP_002532274.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223528034|gb|EEF30114.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  102 bits (253), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 54/125 (43%), Positives = 78/125 (62%), Gaps = 8/125 (6%)

Query: 42  RPSTYAC--LISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARV 99
           RP  + C  ++++C SL +L+LGR+VH + +    + D+ LQN +++MY KCGSL DAR 
Sbjct: 240 RPDGFVCTSILTSCGSLEALELGRQVHAYSIKGNVESDIFLQNGLIDMYAKCGSLNDARK 299

Query: 100 VSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCA 159
           V D+M  RNV+      S+NA+I G ++    +EAM+LF EMR   L P  LT  SLL A
Sbjct: 300 VFDDMTIRNVV------SYNALIEGYSTLEQLSEAMNLFREMRHGMLSPSFLTFVSLLGA 353

Query: 160 CTSPS 164
             + S
Sbjct: 354 SATLS 358

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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	170
TAIR|locus:2083961	768	AT3G53360 "AT3G53360" [Arabido	0.941	0.208	0.455	1.2e-31
TAIR|locus:2115130	691	AT4G37170 "AT4G37170" [Arabido	0.564	0.138	0.480	2.2e-18
TAIR|locus:2060640	738	OTP81 "ORGANELLE TRANSCRIPT PR	0.776	0.178	0.326	6.1e-17
TAIR|locus:2198811	558	MEF3 "AT1G06140" [Arabidopsis	0.794	0.241	0.342	1.2e-16
TAIR|locus:2007888	731	AT1G17630 [Arabidopsis thalian	0.652	0.151	0.350	1.3e-16
TAIR|locus:2057630	727	AT2G33680 "AT2G33680" [Arabido	0.8	0.187	0.340	4.3e-16
TAIR|locus:2090990	710	AT3G14330 [Arabidopsis thalian	0.658	0.157	0.381	6.7e-16
TAIR|locus:2027554	704	AT1G56690 [Arabidopsis thalian	0.758	0.183	0.343	8.5e-16
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.8	0.156	0.349	9.3e-16
TAIR|locus:2091546	628	AT3G13770 [Arabidopsis thalian	0.676	0.183	0.347	1.5e-15

TAIR|locus:2083961 AT3G53360 "AT3G53360" [Arabidopsis thaliana (taxid:3702)]

 Score = 356 (130.4 bits), Expect = 1.2e-31, P = 1.2e-31
 Identities = 76/167 (45%), Positives = 104/167 (62%)

Query:     1 MIRNLKTQ-LRFTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSL 59
             ++  +KT+ L     NS    N Y EAL AFDF Q N++F+IR  TY  LI  CSS RSL
Sbjct:    24 VVSTIKTEELMNDHINSLCKSNFYREALEAFDFAQKNSSFKIRLRTYISLICACSSSRSL 83

Query:    60 QLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWN 119
               GRK+HDHIL+S  + D +L N+IL+MYGKCGSL DAR V D MP+RN++      S+ 
Sbjct:    84 AQGRKIHDHILNSNCKYDTILNNHILSMYGKCGSLRDAREVFDFMPERNLV------SYT 137

Query:   120 AIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNV 166
             ++I G +      EA+ L+ +M   +L+PD     S++ AC S S+V
Sbjct:   138 SVITGYSQNGQGAEAIRLYLKMLQEDLVPDQFAFGSIIKACASSSDV 184

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2115130 AT4G37170 "AT4G37170" [Arabidopsis thaliana (taxid:3702)]

 Score = 232 (86.7 bits), Expect = 2.2e-18, P = 2.2e-18
 Identities = 49/102 (48%), Positives = 62/102 (60%)

Query:    44 STYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDE 103
             STY  LI  CS  R+L+ G+KVH+HI +S   P +V+ N +L MY KCGSL DAR V DE
Sbjct:    86 STYCNLIQVCSQTRALEEGKKVHEHIRTSGFVPGIVIWNRLLRMYAKCGSLVDARKVFDE 145

Query:   104 MPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE 145
             MP R      DL SWN ++ G A      EA  LF EM +++
Sbjct:   146 MPNR------DLCSWNVMVNGYAEVGLLEEARKLFDEMTEKD 181

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2060640 OTP81 "ORGANELLE TRANSCRIPT PROCESSING 81" [Arabidopsis thaliana (taxid:3702)]

 Score = 219 (82.2 bits), Expect = 6.1e-17, P = 6.1e-17
 Identities = 45/138 (32%), Positives = 79/138 (57%)

Query:    24 NEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNY 83
             NEAL+ F  LQ   N ++   T    +S C+ + +L+LGR +H +I     + +  + + 
Sbjct:   346 NEALIVFHELQLQKNMKLNQITLVSTLSACAQVGALELGRWIHSYIKKHGIRMNFHVTSA 405

Query:    84 ILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD 143
             +++MY KCG LE +R V       N +E  D+  W+A+I G+A     NEA+ +F +M++
Sbjct:   406 LIHMYSKCGDLEKSREVF------NSVEKRDVFVWSAMIGGLAMHGCGNEAVDMFYKMQE 459

Query:   144 RELIPDGLTVRSLLCACT 161
               + P+G+T  ++ CAC+
Sbjct:   460 ANVKPNGVTFTNVFCACS 477

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2198811 MEF3 "AT1G06140" [Arabidopsis thaliana (taxid:3702)]

 Score = 214 (80.4 bits), Expect = 1.2e-16, P = 1.2e-16
 Identities = 49/143 (34%), Positives = 81/143 (56%)

Query:    26 ALVAFDFLQNNTNFRIRPS--TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNY 83
             A+ AFD  +      I P+  T A ++ +CSSL SL+ G+ VH +++ +  + D V    
Sbjct:   293 AVEAFDLFRQMLRESILPNQCTLAAILVSCSSLGSLRHGKSVHGYMIRNGIEMDAVNFTS 352

Query:    84 ILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD 143
              ++MY +CG+++ AR V D MP+RNVI      SW+++I          EA+  F +M+ 
Sbjct:   353 FIDMYARCGNIQMARTVFDMMPERNVI------SWSSMINAFGINGLFEEALDCFHKMKS 406

Query:   144 RELIPDGLTVRSLLCACTSPSNV 166
             + ++P+ +T  SLL AC+   NV
Sbjct:   407 QNVVPNSVTFVSLLSACSHSGNV 429

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0080156 "mitochondrial mRNA modification" evidence=IMP

TAIR|locus:2007888 AT1G17630 [Arabidopsis thaliana (taxid:3702)]

 Score = 216 (81.1 bits), Expect = 1.3e-16, P = 1.3e-16
 Identities = 41/117 (35%), Positives = 68/117 (58%)

Query:    45 TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEM 104
             T  C++S C+ L +L LGR++H H++ +    ++++QN ++NMY KCG L +  +V +  
Sbjct:   436 TICCILSICAELPALNLGREIHGHVIRTSMSENILVQNALVNMYAKCGLLSEGSLVFE-- 493

Query:   105 PQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACT 161
                  I   DL SWN+II G      A +A+S+F  M      PDG+ + ++L AC+
Sbjct:   494 ----AIRDKDLISWNSIIKGYGMHGFAEKALSMFDRMISSGFHPDGIALVAVLSACS 546

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2057630 AT2G33680 "AT2G33680" [Arabidopsis thaliana (taxid:3702)]

 Score = 211 (79.3 bits), Expect = 4.3e-16, P = 4.3e-16
 Identities = 49/144 (34%), Positives = 81/144 (56%)

Query:    19 IQNLYNE-ALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD 77
             +QN  NE AL+ +  ++        P T A ++  CSSL +L+LG++VH H +      +
Sbjct:   399 VQNSDNEEALILYRRMKTAGIIPNDP-TMASVLKACSSLATLELGKQVHGHTIKHGFGLE 457

Query:    78 VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSL 137
             V + + +  MY KCGSLED  +V    P ++V+      SWNA+I+G++     +EA+ L
Sbjct:   458 VPIGSALSTMYSKCGSLEDGNLVFRRTPNKDVV------SWNAMISGLSHNGQGDEALEL 511

Query:   138 FSEMRDRELIPDGLTVRSLLCACT 161
             F EM    + PD +T  +++ AC+
Sbjct:   512 FEEMLAEGMEPDDVTFVNIISACS 535

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2090990 AT3G14330 [Arabidopsis thaliana (taxid:3702)]

 Score = 209 (78.6 bits), Expect = 6.7e-16, P = 6.7e-16
 Identities = 45/118 (38%), Positives = 70/118 (59%)

Query:    44 STYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDE 103
             +T   ++  CS + +L  G+++H  IL SK +PDV L N +++MYGKCG +E +R V D 
Sbjct:   338 ATLTTILPACSRVAALLTGKEIHAQILKSKEKPDVPLLNSLMDMYGKCGEVEYSRRVFD- 396

Query:   104 MPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACT 161
                  V+ + DLASWN ++   A   N  E ++LF  M +  + PDG+T  +LL  C+
Sbjct:   397 -----VMLTKDLASWNIMLNCYAINGNIEEVINLFEWMIESGVAPDGITFVALLSGCS 449

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2027554 AT1G56690 [Arabidopsis thaliana (taxid:3702)]

 Score = 208 (78.3 bits), Expect = 8.5e-16, P = 8.5e-16
 Identities = 47/137 (34%), Positives = 75/137 (54%)

Query:    27 LVAFDFLQNNTNFRIRPS--TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI 84
             L A D         +RPS  +   ++S C++L SLQ GR+VH H++  +   DV + + +
Sbjct:   313 LEALDLFAQMQKQGVRPSFPSLISILSVCATLASLQYGRQVHAHLVRCQFDDDVYVASVL 372

Query:    85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR 144
             + MY KCG L  A++V D         S D+  WN+II+G AS     EA+ +F EM   
Sbjct:   373 MTMYVKCGELVKAKLVFDRF------SSKDIIMWNSIISGYASHGLGEEALKIFHEMPSS 426

Query:   145 ELIPDGLTVRSLLCACT 161
               +P+ +T+ ++L AC+
Sbjct:   427 GTMPNKVTLIAILTACS 443

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2124137 DOT4 "DEFECTIVELY ORGANIZED TRIBUTARIES 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 209 (78.6 bits), Expect = 9.3e-16, P = 9.3e-16
 Identities = 50/143 (34%), Positives = 78/143 (54%)

Query:    20 QNLY-NEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDV 78
             +N Y NEAL  F+ L     F     T AC++  C+SL +   GR++H +I+ +    D 
Sbjct:   475 KNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSAFDKGREIHGYIMRNGYFSDR 534

Query:    79 VLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLF 138
              + N +++MY KCG+L  A ++ D+      I S DL SW  +IAG        EA++LF
Sbjct:   535 HVANSLVDMYAKCGALLLAHMLFDD------IASKDLVSWTVMIAGYGMHGFGKEAIALF 588

Query:   139 SEMRDRELIPDGLTVRSLLCACT 161
             ++MR   +  D ++  SLL AC+
Sbjct:   589 NQMRQAGIEADEISFVSLLYACS 611

GO:0009507 "chloroplast" evidence=ISM

GO:0010087 "phloem or xylem histogenesis" evidence=IMP

GO:0010305 "leaf vascular tissue pattern formation" evidence=IMP

GO:0010588 "cotyledon vascular tissue pattern formation" evidence=IMP

GO:0048366 "leaf development" evidence=IMP

TAIR|locus:2091546 AT3G13770 [Arabidopsis thaliana (taxid:3702)]

 Score = 205 (77.2 bits), Expect = 1.5e-15, P = 1.5e-15
 Identities = 42/121 (34%), Positives = 73/121 (60%)

Query:    46 YACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMP 105
             Y  L++ C   R+L+ G++VH H++ ++  P   L+  +L  YGKC  LEDAR V DEMP
Sbjct:    55 YDALLNACLDKRALRDGQRVHAHMIKTRYLPATYLRTRLLIFYGKCDCLEDARKVLDEMP 114

Query:   106 QRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSN 165
             ++NV+      SW A+I+  +   +++EA+++F+EM   +  P+  T  ++L +C   S 
Sbjct:   115 EKNVV------SWTAMISRYSQTGHSSEALTVFAEMMRSDGKPNEFTFATVLTSCIRASG 168

Query:   166 V 166
             +
Sbjct:   169 L 169

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

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	170
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	8e-24
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-22
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-16
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-16
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	5e-16
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-13
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-11
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-04

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 96.5 bits (240), Expect = 8e-24
 Identities = 49/121 (40%), Positives = 69/121 (57%), Gaps = 6/121 (4%)

Query: 21  NLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVL 80
             + EAL  F+ L+    F +  STY  L+  C +L+S++  + V+ H+ SS  +PD  +
Sbjct: 101 GRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYM 160

Query: 81  QNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSE 140
            N +L M+ KCG L DAR + DEMP+RN      LASW  II G+    N  EA +LF E
Sbjct: 161 MNRVLLMHVKCGMLIDARRLFDEMPERN------LASWGTIIGGLVDAGNYREAFALFRE 214

Query: 141 M 141
           M
Sbjct: 215 M 215

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 92.2 bits (229), Expect = 3e-22
 Identities = 45/122 (36%), Positives = 70/122 (57%), Gaps = 8/122 (6%)

Query: 41  IRPS--TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDAR 98
           +RP   T+ C++ TC  +  L  GR+VH H++    + DV + N ++ MY KCG +  AR
Sbjct: 183 VRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSAR 242

Query: 99  VVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLC 158
           +V D MP+R+ I      SWNA+I+G        E + LF  MR+  + PD +T+ S++ 
Sbjct: 243 LVFDRMPRRDCI------SWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVIS 296

Query: 159 AC 160
           AC
Sbjct: 297 AC 298

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 75.7 bits (186), Expect = 1e-16
 Identities = 36/116 (31%), Positives = 64/116 (55%), Gaps = 6/116 (5%)

Query: 45  TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEM 104
           T++ +I   S L  L+  ++ H  ++ +    D+V    ++++Y K G +EDAR V D M
Sbjct: 327 TFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRM 386

Query: 105 PQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCAC 160
           P++N+I      SWNA+IAG  +     +A+ +F  M    + P+ +T  ++L AC
Sbjct: 387 PRKNLI------SWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSAC 436

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 74.5 bits (183), Expect = 4e-16
 Identities = 37/117 (31%), Positives = 62/117 (52%), Gaps = 7/117 (5%)

Query: 45  TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEM 104
           T    +S C+ + +L  G+++H H+L +    D  L N +L++Y +CG +  A       
Sbjct: 491 TLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYA------W 544

Query: 105 PQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACT 161
            Q N  E  D+ SWN ++ G  +    + A+ LF+ M +  + PD +T  SLLCAC+
Sbjct: 545 NQFNSHEK-DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS 600

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 74.1 bits (182), Expect = 5e-16
 Identities = 35/119 (29%), Positives = 64/119 (53%), Gaps = 6/119 (5%)

Query: 43  PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSD 102
           P T+  ++   + L S + G+++H  +L +    D  +   +++MY KCG +EDAR V D
Sbjct: 224 PRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFD 283

Query: 103 EMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACT 161
            MP++  +      +WN+++AG A    + EA+ L+ EMRD  +  D  T   ++   +
Sbjct: 284 GMPEKTTV------AWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFS 336

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 65.3 bits (159), Expect = 7e-13
 Identities = 37/116 (31%), Positives = 61/116 (52%), Gaps = 7/116 (6%)

Query: 45  TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEM 104
           T A ++S C+ L  L +G K+H+          VV+ N ++ MY KC  ++ A  V   +
Sbjct: 391 TIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNI 450

Query: 105 PQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCAC 160
           P+++VI      SW +IIAG+   +   EA+  F +M    L P+ +T+ + L AC
Sbjct: 451 PEKDVI------SWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSAC 499

Length = 857

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 60.2 bits (146), Expect = 3e-11
 Identities = 35/118 (29%), Positives = 59/118 (50%), Gaps = 6/118 (5%)

Query: 45  TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEM 104
           T   +IS C  L   +LGR++H +++ +    DV + N ++ MY   GS  +A  V   M
Sbjct: 290 TITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM 349

Query: 105 PQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTS 162
                 E+ D  SW A+I+G       ++A+  ++ M    + PD +T+ S+L AC  
Sbjct: 350 ------ETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACAC 401

Length = 857

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 57.2 bits (138), Expect = 4e-10
 Identities = 37/116 (31%), Positives = 54/116 (46%), Gaps = 6/116 (5%)

Query: 45  TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEM 104
            Y  L   C   R+++ G +V    LSS     V L N +L+M+ + G L  A  V  +M
Sbjct: 88  AYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKM 147

Query: 105 PQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCAC 160
           P+R      DL SWN ++ G A     +EA+ L+  M    + PD  T   +L  C
Sbjct: 148 PER------DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTC 197

Length = 857

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

 Score = 42.0 bits (100), Expect = 3e-06
 Identities = 15/48 (31%), Positives = 25/48 (52%)

Query: 113 PDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCAC 160
           PD+ ++N +I G        EA+ LF+EM+ R + P+  T   L+   
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 37.4 bits (88), Expect = 2e-04
 Identities = 16/49 (32%), Positives = 31/49 (63%), Gaps = 2/49 (4%)

Query: 76  PDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAG 124
           PDVV  N +++ Y K G +E+A  + +EM +R +   P++ +++ +I G
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGI--KPNVYTYSILIDG 47

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	170
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	99.98
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.97
PLN03077	857	Protein ECB2; Provisional	99.97
PF13041	50	PPR_2: PPR repeat family	99.74
PF13041	50	PPR_2: PPR repeat family	99.69
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.47
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.4
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.39
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.37
PF12854	34	PPR_1: PPR repeat	99.31
PF12854	34	PPR_1: PPR repeat	99.24
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.18
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.13
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.11
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.99
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.96
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.94
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.93
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.9
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.78
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.76
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.74
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.73
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.65
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.65
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.64
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.63
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.6
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.58
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.57
PRK12370	553	invasion protein regulator; Provisional	98.56
PRK12370	553	invasion protein regulator; Provisional	98.52
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.51
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.51
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.5
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.46
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.42
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.38
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	98.37
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.36
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.35
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.34
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.32
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.3
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.27
PRK15359	144	type III secretion system chaperone protein SscB;	98.27
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.27
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	98.25
PRK14574	822	hmsH outer membrane protein; Provisional	98.23
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.22
KOG1129	478	consensus TPR repeat-containing protein [General f	98.2
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.17
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.15
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.13
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.13
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.12
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.12
PRK11189	296	lipoprotein NlpI; Provisional	98.12
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.11
PRK14574	822	hmsH outer membrane protein; Provisional	98.1
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.1
PRK15359	144	type III secretion system chaperone protein SscB;	98.07
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.05
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.0
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.99
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.98
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	97.98
PRK11189	296	lipoprotein NlpI; Provisional	97.97
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.94
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.94
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.93
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.87
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.84
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.83
KOG1126	638	consensus DNA-binding cell division cycle control	97.83
KOG1126	638	consensus DNA-binding cell division cycle control	97.82
KOG1129	478	consensus TPR repeat-containing protein [General f	97.79
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.79
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	97.79
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.79
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.78
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	97.78
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.76
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	97.74
KOG2003	840	consensus TPR repeat-containing protein [General f	97.73
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.71
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.71
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	97.69
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.68
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.65
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.65
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.62
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.57
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.57
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.57
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.54
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.53
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.53
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.49
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	97.49
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.49
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	97.47
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	97.46
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.45
KOG2003	840	consensus TPR repeat-containing protein [General f	97.45
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.42
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.42
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.42
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	97.4
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.38
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	97.37
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.34
PF12688	120	TPR_5: Tetratrico peptide repeat	97.31
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.25
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	97.19
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	97.18
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.18
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.11
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	97.09
KOG2076	895	consensus RNA polymerase III transcription factor	97.06
KOG2076	895	consensus RNA polymerase III transcription factor	97.03
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.01
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.01
KOG3941	406	consensus Intermediate in Toll signal transduction	97.0
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	96.95
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.94
COG4783	484	Putative Zn-dependent protease, contains TPR repea	96.91
KOG0547	606	consensus Translocase of outer mitochondrial membr	96.82
KOG3941	406	consensus Intermediate in Toll signal transduction	96.81
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	96.79
PF12688	120	TPR_5: Tetratrico peptide repeat	96.78
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.78
KOG3616	1636	consensus Selective LIM binding factor [Transcript	96.77
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.76
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.73
KOG4340	459	consensus Uncharacterized conserved protein [Funct	96.68
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.67
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	96.66
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	96.64
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	96.63
KOG3060	289	consensus Uncharacterized conserved protein [Funct	96.62
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.62
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.59
PRK10803	263	tol-pal system protein YbgF; Provisional	96.56
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.56
KOG1128	777	consensus Uncharacterized conserved protein, conta	96.52
KOG1125	579	consensus TPR repeat-containing protein [General f	96.51
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.49
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.42
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	96.42
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.41
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.34
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	96.32
KOG1915	677	consensus Cell cycle control protein (crooked neck	96.3
KOG3785	557	consensus Uncharacterized conserved protein [Funct	96.29
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.26
PF13371	73	TPR_9: Tetratricopeptide repeat	96.19
KOG4340	459	consensus Uncharacterized conserved protein [Funct	96.07
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.07
PF13371	73	TPR_9: Tetratricopeptide repeat	96.07
KOG3060	289	consensus Uncharacterized conserved protein [Funct	96.04
KOG4570	418	consensus Uncharacterized conserved protein [Funct	96.04
PRK14720	906	transcript cleavage factor/unknown domain fusion p	95.97
PF13929	292	mRNA_stabil: mRNA stabilisation	95.97
PRK10803	263	tol-pal system protein YbgF; Provisional	95.94
PLN02789	320	farnesyltranstransferase	95.88
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.83
KOG2047	835	consensus mRNA splicing factor [RNA processing and	95.79
KOG3616	1636	consensus Selective LIM binding factor [Transcript	95.77
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.77
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.76
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.74
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.61
KOG3785	557	consensus Uncharacterized conserved protein [Funct	95.52
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.5
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.49
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	95.46
PRK14720	906	transcript cleavage factor/unknown domain fusion p	95.46
KOG1915	677	consensus Cell cycle control protein (crooked neck	95.45
PF13762	145	MNE1: Mitochondrial splicing apparatus component	95.41
KOG0553	304	consensus TPR repeat-containing protein [General f	95.33
KOG2376	652	consensus Signal recognition particle, subunit Srp	95.22
PF13929	292	mRNA_stabil: mRNA stabilisation	95.13
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.04
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	95.03
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.96
KOG0495	913	consensus HAT repeat protein [RNA processing and m	94.96
PF13512	142	TPR_18: Tetratricopeptide repeat	94.91
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.9
KOG0553	304	consensus TPR repeat-containing protein [General f	94.89
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	94.86
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	94.79
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.64
KOG0547	606	consensus Translocase of outer mitochondrial membr	94.59
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	94.58
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.53
PF13762	145	MNE1: Mitochondrial splicing apparatus component	94.52
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	94.48
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	94.48
PRK15331	165	chaperone protein SicA; Provisional	94.41
PRK04841	903	transcriptional regulator MalT; Provisional	94.35
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	94.26
KOG1128	777	consensus Uncharacterized conserved protein, conta	94.22
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	94.22
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	94.17
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	94.12
COG3898	531	Uncharacterized membrane-bound protein [Function u	93.99
cd08819	88	CARD_MDA5_2 Caspase activation and recruitment dom	93.96
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	93.83
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	93.79
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	93.79
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	93.64
PRK04841	903	transcriptional regulator MalT; Provisional	93.63
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	93.52
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	93.51
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	93.5
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.49
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.48
COG4105	254	ComL DNA uptake lipoprotein [General function pred	93.34
PRK15331	165	chaperone protein SicA; Provisional	93.31
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.21
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.06
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.01
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.99
KOG2376	652	consensus Signal recognition particle, subunit Srp	92.87
COG4700	251	Uncharacterized protein conserved in bacteria cont	92.54
PF13512	142	TPR_18: Tetratricopeptide repeat	92.42
KOG2796	366	consensus Uncharacterized conserved protein [Funct	92.29
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	92.03
PF13428	44	TPR_14: Tetratricopeptide repeat	91.62
PF13428	44	TPR_14: Tetratricopeptide repeat	91.5
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	91.48
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	90.92
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	90.9
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	90.62
KOG1585	308	consensus Protein required for fusion of vesicles	90.47
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	89.87
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	89.83
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	89.73
COG4455	273	ImpE Protein of avirulence locus involved in tempe	89.69
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	89.52
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	89.44
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	89.43
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	89.24
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	89.04
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	88.96
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	88.86
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	88.72
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	88.72
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	88.67
KOG1125	579	consensus TPR repeat-containing protein [General f	88.24
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	88.16
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	88.08
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	87.99
PF10366	108	Vps39_1: Vacuolar sorting protein 39 domain 1; Int	87.64
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	87.58
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	87.27
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	87.17
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	87.1
COG4700	251	Uncharacterized protein conserved in bacteria cont	86.83
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	86.67
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	86.39
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	86.27
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	86.09
PF13431	34	TPR_17: Tetratricopeptide repeat	85.82
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	85.81
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	85.67
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	85.61
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	85.45
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	85.34
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	85.09
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	85.04
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	84.75
cd07153	116	Fur_like Ferric uptake regulator(Fur) and related	84.27
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	84.24
COG3118	304	Thioredoxin domain-containing protein [Posttransla	84.12
PRK10564	303	maltose regulon periplasmic protein; Provisional	84.03
COG4455	273	ImpE Protein of avirulence locus involved in tempe	83.89
PF12926	88	MOZART2: Mitotic-spindle organizing gamma-tubulin	83.85
PLN02789	320	farnesyltranstransferase	83.64
KOG2610	491	consensus Uncharacterized conserved protein [Funct	83.26
COG4105	254	ComL DNA uptake lipoprotein [General function pred	82.56
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	82.15
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	81.76
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	81.68
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	81.66
KOG2610	491	consensus Uncharacterized conserved protein [Funct	81.63
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	81.56
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	81.03
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	80.8
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	80.72

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3e-34  Score=232.80  Aligned_cols=160  Identities=16%  Similarity=0.216  Sum_probs=117.6

Q ss_pred             cchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            6 KTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         6 ~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      |+..+|+ +|.+|++.|++++|.++|++| ...|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|++|
T Consensus       612 p~~~tynsLI~ay~k~G~~deAl~lf~eM-~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsL  690 (1060)
T PLN03218        612 GTPEVYTIAVNSCSQKGDWDFALSIYDDM-KKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSL  690 (1060)
T ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHH-HHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            4556666 677777777777777777777 66777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCC
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g  164 (170)
                      |.+|++.|++++|.++|++|...|+  .||..+||++|.+|++.|++++|.++|++|...|+.||..||++||.+|++.|
T Consensus       691 I~ay~k~G~~eeA~~lf~eM~~~g~--~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G  768 (1060)
T PLN03218        691 MGACSNAKNWKKALELYEDIKSIKL--RPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKD  768 (1060)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCC
Confidence            7777777777777777777777777  77777777777777777777777777777777777777777777777777777


Q ss_pred             cccc
Q 038114          165 NVLY  168 (170)
Q Consensus       165 ~~e~  168 (170)
                      ++++
T Consensus       769 ~le~  772 (1060)
T PLN03218        769 DADV  772 (1060)
T ss_pred             CHHH
Confidence            6654

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5.1e-34  Score=231.46  Aligned_cols=160  Identities=21%  Similarity=0.329  Sum_probs=102.1

Q ss_pred             cchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            6 KTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         6 ~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      |+..+|+ +|.+|++.|+++.|.++|++| .+.|+.||..+|++||.+|++.|++++|.++|++|.+.|+.||..+|+++
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M-~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaL  513 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLV-QEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGAL  513 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHH-HHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            5556666 566666666666666666666 66666666666666666666666666666666666666666666666666


Q ss_pred             HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh--CCCCCCHhhHHHHHHHhcC
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD--RELIPDGLTVRSLLCACTS  162 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~--~~~~p~~~t~~~ll~~~~~  162 (170)
                      |.+|++.|++++|.++|++|...|+  .||..+||.+|.+|++.|++++|.++|++|..  .|+.||..||++||.+|++
T Consensus       514 I~gy~k~G~~eeAl~lf~~M~~~Gv--~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k  591 (1060)
T PLN03218        514 IDGCARAGQVAKAFGAYGIMRSKNV--KPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACAN  591 (1060)
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHH
Confidence            6666666666666666666666666  66666666666666666666666666666654  4566666666666666666


Q ss_pred             CCcccc
Q 038114          163 PSNVLY  168 (170)
Q Consensus       163 ~g~~e~  168 (170)
                      .|++++
T Consensus       592 ~G~lde  597 (1060)
T PLN03218        592 AGQVDR  597 (1060)
T ss_pred             CCCHHH
Confidence            666554

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

Probab=100.00  E-value=4.1e-34  Score=227.14  Aligned_cols=157  Identities=26%  Similarity=0.441  Sum_probs=148.8

Q ss_pred             cchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            6 KTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         6 ~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      ++.++|| +|.+|++.|++++|+++|++| ...|+.||..||+++|.+|++.|++++|.+++..|.+.|+.||..+||+|
T Consensus       288 ~~~vt~n~li~~y~~~g~~~eA~~lf~~M-~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~L  366 (697)
T PLN03081        288 KTTVAWNSMLAGYALHGYSEEALCLYYEM-RDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTAL  366 (697)
T ss_pred             CChhHHHHHHHHHHhCCCHHHHHHHHHHH-HHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHH
Confidence            5889999 999999999999999999999 99999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCC
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g  164 (170)
                      |++|+++|++++|.++|++|.      +||+.+||++|.+|++.|+.++|.++|++|.+.|+.||..||+++|.+|++.|
T Consensus       367 i~~y~k~G~~~~A~~vf~~m~------~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g  440 (697)
T PLN03081        367 VDLYSKWGRMEDARNVFDRMP------RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSG  440 (697)
T ss_pred             HHHHHHCCCHHHHHHHHHhCC------CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCC
Confidence            999999999999999999997      45668999999999999999999999999999999999999999999999999


Q ss_pred             ccccC
Q 038114          165 NVLYL  169 (170)
Q Consensus       165 ~~e~~  169 (170)
                      .++++
T Consensus       441 ~~~~a  445 (697)
T PLN03081        441 LSEQG  445 (697)
T ss_pred             cHHHH
Confidence            88764

>PLN03077 Protein ECB2; Provisional

Probab=99.98  E-value=1.6e-31  Score=216.45  Aligned_cols=157  Identities=24%  Similarity=0.354  Sum_probs=149.6

Q ss_pred             cchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            6 KTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         6 ~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      ++.++|| +|.+|++.|++++|+++|++| ...|+.||..||+++|.+|++.|+.+.+.+++..|.+.|+.||..+||+|
T Consensus       251 ~d~~s~n~li~~~~~~g~~~eAl~lf~~M-~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~L  329 (857)
T PLN03077        251 RDCISWNAMISGYFENGECLEGLELFFTM-RELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSL  329 (857)
T ss_pred             CCcchhHHHHHHHHhCCCHHHHHHHHHHH-HHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHH
Confidence            6789999 999999999999999999999 99999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCC
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g  164 (170)
                      |.+|+++|++++|.++|++|.      .||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|
T Consensus       330 i~~y~k~g~~~~A~~vf~~m~------~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g  403 (857)
T PLN03077        330 IQMYLSLGSWGEAEKVFSRME------TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLG  403 (857)
T ss_pred             HHHHHhcCCHHHHHHHHhhCC------CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccc
Confidence            999999999999999999997      45668999999999999999999999999999999999999999999999998


Q ss_pred             ccccC
Q 038114          165 NVLYL  169 (170)
Q Consensus       165 ~~e~~  169 (170)
                      +++++
T Consensus       404 ~~~~a  408 (857)
T PLN03077        404 DLDVG  408 (857)
T ss_pred             hHHHH
Confidence            87754

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

Probab=99.97  E-value=3.7e-31  Score=210.36  Aligned_cols=157  Identities=25%  Similarity=0.416  Sum_probs=138.1

Q ss_pred             cchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            6 KTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         6 ~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      |+.++|| +|.+|++.|++++|+++|++| .+.|+.|+..||+.++.+|++.|..+.+.+++..+.+.|+.||..+||+|
T Consensus       187 ~~~~t~n~li~~~~~~g~~~~A~~lf~~M-~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~L  265 (697)
T PLN03081        187 RNLASWGTIIGGLVDAGNYREAFALFREM-WEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCAL  265 (697)
T ss_pred             CCeeeHHHHHHHHHHCcCHHHHHHHHHHH-HHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHH
Confidence            6788899 899999999999999999999 88888898888888888888888888888888888888888888889999


Q ss_pred             HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCC
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g  164 (170)
                      |++|+++|++++|.++|++|..      +|+++||++|.+|++.|++++|.++|++|.+.|+.||..||++++.+|++.|
T Consensus       266 i~~y~k~g~~~~A~~vf~~m~~------~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g  339 (697)
T PLN03081        266 IDMYSKCGDIEDARCVFDGMPE------KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLA  339 (697)
T ss_pred             HHHHHHCCCHHHHHHHHHhCCC------CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcc
Confidence            9999999999999999998864      4558999999999999999999999999999999999999999999999888


Q ss_pred             ccccC
Q 038114          165 NVLYL  169 (170)
Q Consensus       165 ~~e~~  169 (170)
                      .++++
T Consensus       340 ~~~~a  344 (697)
T PLN03081        340 LLEHA  344 (697)
T ss_pred             chHHH
Confidence            87754

>PLN03077 Protein ECB2; Provisional

Probab=99.97  E-value=1e-30  Score=211.78  Aligned_cols=156  Identities=29%  Similarity=0.526  Sum_probs=142.4

Q ss_pred             cchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            6 KTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         6 ~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      ++..+|| +|.+|++.|++++|+++|++| ...|+.||..||+++|++|++.+++..+.+++..|.+.|+.||+.+||+|
T Consensus       150 ~d~~~~n~li~~~~~~g~~~~A~~~f~~M-~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~L  228 (857)
T PLN03077        150 RDLFSWNVLVGGYAKAGYFDEALCLYHRM-LWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNAL  228 (857)
T ss_pred             CCeeEHHHHHHHHHhCCCHHHHHHHHHHH-HHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHH
Confidence            6889999 899999999999999999999 88999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCC
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g  164 (170)
                      |.+|+++|++++|.++|++|..      ||.++||++|.+|++.|++++|+++|.+|...|+.||..||+.+|.+|++.|
T Consensus       229 i~~y~k~g~~~~A~~lf~~m~~------~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g  302 (857)
T PLN03077        229 ITMYVKCGDVVSARLVFDRMPR------RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLG  302 (857)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCC------CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcC
Confidence            9999999999999999999874      5558899999999988888899988888888888888888888888888887


Q ss_pred             cccc
Q 038114          165 NVLY  168 (170)
Q Consensus       165 ~~e~  168 (170)
                      +++.
T Consensus       303 ~~~~  306 (857)
T PLN03077        303 DERL  306 (857)
T ss_pred             ChHH
Confidence            7654

>PF13041 PPR_2: PPR repeat family

Probab=99.74  E-value=6.1e-18  Score=90.23  Aligned_cols=50  Identities=32%  Similarity=0.602  Sum_probs=40.8

Q ss_pred             CChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcC
Q 038114          113 PDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTS  162 (170)
Q Consensus       113 p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~  162 (170)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|+.||..||+.||++|++
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            67788888888888888888888888888888888888888888888775

>PF13041 PPR_2: PPR repeat family

Probab=99.69  E-value=5.5e-17  Score=86.50  Aligned_cols=50  Identities=36%  Similarity=0.618  Sum_probs=36.4

Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhC
Q 038114           76 PDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVAS  127 (170)
Q Consensus        76 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~  127 (170)
                      ||..+||++|++|++.|++++|.++|++|++.|+  +||..||+++|.+||+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~--~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGI--KPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHcC
Confidence            6677777777777777777777777777777777  7777777777777764

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.47  E-value=1.2e-12  Score=96.07  Aligned_cols=155  Identities=22%  Similarity=0.300  Sum_probs=124.9

Q ss_pred             cchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            6 KTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         6 ~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      ++..++. +|.++++-.+.+.|.+++++. .....+.+..+||.+|.+-+-..    ..++..+|......||..|+|++
T Consensus       205 KT~et~s~mI~Gl~K~~~~ERA~~L~kE~-~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNal  279 (625)
T KOG4422|consen  205 KTDETVSIMIAGLCKFSSLERARELYKEH-RAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNAL  279 (625)
T ss_pred             CCchhHHHHHHHHHHHHhHHHHHHHHHHH-HHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHH
Confidence            4677888 899999999999999999999 88888899999999998865433    37899999999999999999999


Q ss_pred             HHHHHcCCCHHH----HHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHH-HHHHHHHHHh----CCCCCCHhh---
Q 038114           85 LNMYGKCGSLED----ARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANE-AMSLFSEMRD----RELIPDGLT---  152 (170)
Q Consensus        85 i~~~~~~~~~~~----a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~-a~~l~~~m~~----~~~~p~~~t---  152 (170)
                      +++..+.|+++.    |.+++.+|++-|+  +|+..+|..+|..+++.++..+ |..++.++..    +.++|-..|   
T Consensus       280 L~c~akfg~F~~ar~aalqil~EmKeiGV--ePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~  357 (625)
T KOG4422|consen  280 LSCAAKFGKFEDARKAALQILGEMKEIGV--EPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNK  357 (625)
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHHHHhCC--CcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhH
Confidence            999999998765    5678889999999  9999999999999999998744 4455555543    335554333   


Q ss_pred             -HHHHHHHhcCCCccc
Q 038114          153 -VRSLLCACTSPSNVL  167 (170)
Q Consensus       153 -~~~ll~~~~~~g~~e  167 (170)
                       |..-++.|.++.+.+
T Consensus       358 FF~~AM~Ic~~l~d~~  373 (625)
T KOG4422|consen  358 FFQSAMSICSSLRDLE  373 (625)
T ss_pred             HHHHHHHHHHHhhhHH
Confidence             555566666555443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.40  E-value=6.4e-12  Score=92.38  Aligned_cols=121  Identities=16%  Similarity=0.200  Sum_probs=108.5

Q ss_pred             cchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHH
Q 038114           41 IRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNA  120 (170)
Q Consensus        41 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~  120 (170)
                      -+..||.+||.+.++....+.|.+++++-.......+..+||.+|.+-.-    ....++..+|....+  +||..|||+
T Consensus       205 KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~----~~~K~Lv~EMisqkm--~Pnl~TfNa  278 (625)
T KOG4422|consen  205 KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY----SVGKKLVAEMISQKM--TPNLFTFNA  278 (625)
T ss_pred             CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh----hccHHHHHHHHHhhc--CCchHhHHH
Confidence            36679999999999999999999999999998889999999999987532    333889999999999  999999999


Q ss_pred             HHHHHhCCCChHH----HHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccc
Q 038114          121 IIAGVASPSNANE----AMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus       121 li~~~~~~g~~~~----a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      ++++.++.|.++.    |.+++.+|++-|+.|...+|..+|..+++.++..
T Consensus       279 lL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~  329 (625)
T KOG4422|consen  279 LLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQ  329 (625)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCch
Confidence            9999999997766    5688999999999999999999999999988764

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.39  E-value=1.7e-11  Score=91.90  Aligned_cols=20  Identities=20%  Similarity=-0.017  Sum_probs=7.9

Q ss_pred             HhhhcccCCHHHHHHHHHHH
Q 038114           14 YNSQPIQNLYNEALVAFDFL   33 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m   33 (170)
                      ...|.+.|+++.|..+|+++
T Consensus       114 a~~~~~~g~~~~A~~~~~~~  133 (389)
T PRK11788        114 GQDYLKAGLLDRAEELFLQL  133 (389)
T ss_pred             HHHHHHCCCHHHHHHHHHHH
Confidence            33333334444444444333

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.37  E-value=3.1e-11  Score=90.45  Aligned_cols=150  Identities=9%  Similarity=0.024  Sum_probs=80.3

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcch----hhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRP----STYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMY   88 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~   88 (170)
                      +...+.+.|++++|.+.++.+ ...+..+..    ..+..+...+.+.|++++|...|+++.+.. +.+...+..+...|
T Consensus       147 la~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~  224 (389)
T PRK11788        147 LLEIYQQEKDWQKAIDVAERL-EKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLA  224 (389)
T ss_pred             HHHHHHHhchHHHHHHHHHHH-HHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHH
Confidence            555566666666666666665 433322211    123344445555566666666666665542 22344555555666


Q ss_pred             HcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114           89 GKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus        89 ~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      .+.|++++|.+.|+++...+.  .....+++.+..+|+..|++++|...++++.+.  .|+...+..+...+.+.|+.++
T Consensus       225 ~~~g~~~~A~~~~~~~~~~~p--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~  300 (389)
T PRK11788        225 LAQGDYAAAIEALERVEEQDP--EYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEA  300 (389)
T ss_pred             HHCCCHHHHHHHHHHHHHHCh--hhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHH
Confidence            666666666666666554322  222344555666666666666666666665543  3444455556666666555543

>PF12854 PPR_1: PPR repeat

Probab=99.31  E-value=4.2e-12  Score=61.62  Aligned_cols=32  Identities=38%  Similarity=0.573  Sum_probs=18.2

Q ss_pred             CCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhc
Q 038114           73 KSQPDVVLQNYILNMYGKCGSLEDARVVSDEM  104 (170)
Q Consensus        73 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  104 (170)
                      |+.||..|||+||++||+.|++++|.++|++|
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            45555555555555555555555555555555

>PF12854 PPR_1: PPR repeat

Probab=99.24  E-value=1.1e-11  Score=60.11  Aligned_cols=34  Identities=35%  Similarity=0.738  Sum_probs=31.9

Q ss_pred             CCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114          107 RNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus       107 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      +|+  .||..|||++|.+||+.|++++|.++|++|+
T Consensus         1 ~G~--~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGC--EPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCC--CCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            367  8999999999999999999999999999984

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

Probab=99.18  E-value=1.7e-09  Score=88.16  Aligned_cols=147  Identities=12%  Similarity=0.059  Sum_probs=71.6

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +...+.+.|++++|...|+++ .... +.+...+..+..++.+.|++++|..+|..+.+.. +.+..++..+...+...|
T Consensus       607 l~~~~~~~~~~~~A~~~~~~~-~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  683 (899)
T TIGR02917       607 LGRAQLAAGDLNKAVSSFKKL-LALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAK  683 (899)
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcC
Confidence            445555555555555555554 3221 1233344445555555555555555555554432 223445555555555555


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccc
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      ++++|.++++.+.....   ++...+..+...+...|++++|...|+++...+  |+..++..+..++.+.|+.+
T Consensus       684 ~~~~A~~~~~~~~~~~~---~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~  753 (899)
T TIGR02917       684 RTESAKKIAKSLQKQHP---KAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTA  753 (899)
T ss_pred             CHHHHHHHHHHHHhhCc---CChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHH
Confidence            55555555555544332   333445555555555556666655555555432  33344455555555555443

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.

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

Probab=99.13  E-value=3.7e-09  Score=86.15  Aligned_cols=149  Identities=7%  Similarity=-0.016  Sum_probs=96.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +...+.+.|++++|..+++.+ ... .+.+..+|..+..++...|++++|...|..+.+.. +.++..+..+...|.+.|
T Consensus       573 l~~~~~~~~~~~~A~~~~~~~-~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  649 (899)
T TIGR02917       573 LAQYYLGKGQLKKALAILNEA-ADA-APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMK  649 (899)
T ss_pred             HHHHHHHCCCHHHHHHHHHHH-HHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcC
Confidence            566666666777777766666 332 23455566777777777777777777777766543 334556667777777777


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      ++++|..+|+.+.....   .+..++..+...+...|++++|..+++.+...+ .++...+..+...+.+.|++++
T Consensus       650 ~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~  721 (899)
T TIGR02917       650 NYAKAITSLKRALELKP---DNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPA  721 (899)
T ss_pred             CHHHHHHHHHHHHhcCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHH
Confidence            77777777776654322   345667777777777777777777777776654 3355566666677777776654

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.

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

Probab=99.11  E-value=1.2e-09  Score=86.44  Aligned_cols=157  Identities=14%  Similarity=0.134  Sum_probs=125.7

Q ss_pred             cccchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCC------------------------CCcchhhHHHHHHHhhcccc
Q 038114            4 NLKTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTN------------------------FRIRPSTYACLISTCSSLRS   58 (170)
Q Consensus         4 ~~~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~------------------------~~p~~~~~~~li~~~~~~~~   58 (170)
                      +.|+.+||. +|..||..|+++.|- +|..| +...                        -.|.+.||+.|+.+|...|+
T Consensus        21 i~PnRvtyqsLiarYc~~gdieaat-if~fm-~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll~ayr~hGD   98 (1088)
T KOG4318|consen   21 ILPNRVTYQSLIARYCTKGDIEAAT-IFPFM-EIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLLKAYRIHGD   98 (1088)
T ss_pred             CCCchhhHHHHHHHHcccCCCcccc-chhhh-hcccccccchhHHHHHhcccccccccCCCCCchhHHHHHHHHHHhccc
Confidence            468889999 999999999999998 77777 4322                        23778899999999999988


Q ss_pred             hHH---HHHHHHHHHh----cC----------------------------------------------------------
Q 038114           59 LQL---GRKVHDHILS----SK----------------------------------------------------------   73 (170)
Q Consensus        59 ~~~---a~~~~~~m~~----~~----------------------------------------------------------   73 (170)
                      +..   +.+.+.....    .|                                                          
T Consensus        99 li~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa~~~p~~vfL  178 (1088)
T KOG4318|consen   99 LILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSAWNAPFQVFL  178 (1088)
T ss_pred             hHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcccccchHHHHH
Confidence            654   2221111111    12                                                          


Q ss_pred             --------------------C-CCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChH
Q 038114           74 --------------------S-QPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNAN  132 (170)
Q Consensus        74 --------------------~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~  132 (170)
                                          . .|++.+|.+++++-...|+.+.|..++.+|++.|+  ..+.+-|..+|.+   .++..
T Consensus       179 rqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gf--pir~HyFwpLl~g---~~~~q  253 (1088)
T KOG4318|consen  179 RQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGF--PIRAHYFWPLLLG---INAAQ  253 (1088)
T ss_pred             HHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCC--Ccccccchhhhhc---Cccch
Confidence                                1 37889999999999999999999999999999999  8888888888877   78888


Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccc
Q 038114          133 EAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus       133 ~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      .++.++.-|...|+.|+..|+..-+..+.++|...
T Consensus       254 ~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~  288 (1088)
T KOG4318|consen  254 VFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTK  288 (1088)
T ss_pred             HHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhh
Confidence            99999999999999999999998888887765543

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.99  E-value=7.7e-10  Score=53.88  Aligned_cols=34  Identities=35%  Similarity=0.677  Sum_probs=28.0

Q ss_pred             hHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCH
Q 038114          117 SWNAIIAGVASPSNANEAMSLFSEMRDRELIPDG  150 (170)
Q Consensus       117 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~  150 (170)
                      +||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            6888888888888888888888888888888873

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.

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

Probab=98.96  E-value=1.1e-08  Score=73.62  Aligned_cols=159  Identities=13%  Similarity=0.039  Sum_probs=109.7

Q ss_pred             cchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            6 KTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         6 ~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      ++...+. .+..+.+.++++++..+++........+.++..|..+-..+.+.|+.++|.+.+++..+.. +-|....+.+
T Consensus       108 ~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-P~~~~~~~~l  186 (280)
T PF13429_consen  108 GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELD-PDDPDARNAL  186 (280)
T ss_dssp             ----------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH--TT-HHHHHHH
T ss_pred             cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHH
Confidence            3344455 6788889999999999999984444456777888888899999999999999999998863 3358889999


Q ss_pred             HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCC
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g  164 (170)
                      +..+...|+.+++.+++........   .|...+..+..++...|+.++|..+|++..+.. +.|......+..++...|
T Consensus       187 ~~~li~~~~~~~~~~~l~~~~~~~~---~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g  262 (280)
T PF13429_consen  187 AWLLIDMGDYDEAREALKRLLKAAP---DDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAG  262 (280)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHHH-H---TSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT---
T ss_pred             HHHHHHCCChHHHHHHHHHHHHHCc---CHHHHHHHHHHHhcccccccccccccccccccc-cccccccccccccccccc
Confidence            9999999999998888887765432   344577889999999999999999999977643 347778888999999999


Q ss_pred             ccccC
Q 038114          165 NVLYL  169 (170)
Q Consensus       165 ~~e~~  169 (170)
                      +.+++
T Consensus       263 ~~~~A  267 (280)
T PF13429_consen  263 RKDEA  267 (280)
T ss_dssp             -----
T ss_pred             ccccc
Confidence            98875

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.94  E-value=1.6e-07  Score=64.82  Aligned_cols=150  Identities=10%  Similarity=-0.045  Sum_probs=86.4

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +...+...|++++|...+++. .... +.+...+..+...+...|++++|.+.+.+..+.. +.+...+..+...+...|
T Consensus        37 la~~~~~~~~~~~A~~~~~~~-l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~g  113 (234)
T TIGR02521        37 LALGYLEQGDLEVAKENLDKA-LEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFLCQQG  113 (234)
T ss_pred             HHHHHHHCCCHHHHHHHHHHH-HHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcc
Confidence            566667777777777777766 4332 2234456666666677777777777777666553 224456666666666777


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccc
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      ++++|.+.|+........ ......+..+...+...|++++|...+.+..... ..+...+..+...+...|+.+
T Consensus       114 ~~~~A~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       114 KYEQAMQQFEQAIEDPLY-PQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYK  186 (234)
T ss_pred             cHHHHHHHHHHHHhcccc-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHH
Confidence            777777777666543210 1222344445555666666666666666555432 112344555555555555544

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.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.93  E-value=2e-09  Score=52.14  Aligned_cols=33  Identities=27%  Similarity=0.633  Sum_probs=26.5

Q ss_pred             hhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCC
Q 038114          116 ASWNAIIAGVASPSNANEAMSLFSEMRDRELIP  148 (170)
Q Consensus       116 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p  148 (170)
                      .+||++|.+|++.|+++.|.++|++|++.|++|
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            578888888888888888888888888888776

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.90  E-value=2.2e-07  Score=64.06  Aligned_cols=155  Identities=7%  Similarity=-0.087  Sum_probs=120.6

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCC-CCCHHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKS-QPDVVLQNYIL   85 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li   85 (170)
                      ...+. +...+...|++++|.+.+++. .... +.+...+..+-..+...|++++|.+.+....+... ......+..+-
T Consensus        65 ~~~~~~la~~~~~~~~~~~A~~~~~~a-l~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  142 (234)
T TIGR02521        65 YLAYLALALYYQQLGELEKAEDSFRRA-LTLN-PNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAG  142 (234)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH-HhhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHH
Confidence            33444 688889999999999999998 5543 23456777788888999999999999999987532 23456777788


Q ss_pred             HHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCc
Q 038114           86 NMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSN  165 (170)
Q Consensus        86 ~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~  165 (170)
                      ..+...|++++|.+.|.+......   .+...+..+...+...|++++|...+++.... ...+...+..+...+...|+
T Consensus       143 ~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  218 (234)
T TIGR02521       143 LCALKAGDFDKAEKYLTRALQIDP---QRPESLLELAELYYLRGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGD  218 (234)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCc---CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhh
Confidence            889999999999999998876533   34567888889999999999999999998876 34455666667777766666


Q ss_pred             ccc
Q 038114          166 VLY  168 (170)
Q Consensus       166 ~e~  168 (170)
                      .++
T Consensus       219 ~~~  221 (234)
T TIGR02521       219 VAA  221 (234)
T ss_pred             HHH
Confidence            554

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.

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

Probab=98.78  E-value=1e-07  Score=71.78  Aligned_cols=125  Identities=15%  Similarity=0.076  Sum_probs=92.9

Q ss_pred             CCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhc--CCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCC
Q 038114           37 TNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSS--KSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPD  114 (170)
Q Consensus        37 ~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~  114 (170)
                      .+.+.++..+..+++.+....+.+.+..++-.++.+  ....-..|..++|+.|.+.|..+.+..++..=...|+  =||
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGi--F~D  137 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGI--FPD  137 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhccc--CCC
Confidence            345567777777888888877788888877777765  2323344556888888888888888888887777787  688


Q ss_pred             hhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCC
Q 038114          115 LASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSP  163 (170)
Q Consensus       115 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~  163 (170)
                      ..+||.++..+.+.|++..|.++..+|..++...+..|+..-+.+|.+.
T Consensus       138 ~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  138 NFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888888888888888888888888888777777777777766666554

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 [].

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.76  E-value=9.7e-09  Score=49.85  Aligned_cols=33  Identities=30%  Similarity=0.458  Sum_probs=19.8

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCC
Q 038114           80 LQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPD  114 (170)
Q Consensus        80 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~  114 (170)
                      +||++|.+|++.|++++|.++|++|.+.|+  +||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~--~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGI--EPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCC--CCC
Confidence            456666666666666666666666666555  554

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.

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

Probab=98.74  E-value=1.7e-08  Score=47.65  Aligned_cols=30  Identities=33%  Similarity=0.690  Sum_probs=21.5

Q ss_pred             hHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 038114          117 SWNAIIAGVASPSNANEAMSLFSEMRDREL  146 (170)
Q Consensus       117 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~  146 (170)
                      |||++|.+|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            677777777777777777777777776653

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=98.73  E-value=1.2e-08  Score=49.38  Aligned_cols=30  Identities=30%  Similarity=0.364  Sum_probs=17.2

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHhhcccCCC
Q 038114           80 LQNYILNMYGKCGSLEDARVVSDEMPQRNV  109 (170)
Q Consensus        80 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  109 (170)
                      +||++|++|++.|+++.|.++|++|++.|+
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv   32 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGV   32 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            555555555555555555555555555555

>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=98.65  E-value=2.8e-06  Score=67.71  Aligned_cols=152  Identities=10%  Similarity=-0.091  Sum_probs=112.9

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcc-hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIR-PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNM   87 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~   87 (170)
                      .|. +-..+...|++++|+..|++. ...  .|+ ...|..+-..+...|++++|...|+...+.. +.+...|..+-..
T Consensus       333 a~~~lg~~~~~~g~~~eA~~~~~ka-l~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~  408 (615)
T TIGR00990       333 ALNLRGTFKCLKGKHLEALADLSKS-IEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQL  408 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH-HHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            344 566677889999999999887 443  343 4467777777888899999999999887763 3357788888888


Q ss_pred             HHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccc
Q 038114           88 YGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus        88 ~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      +...|++++|...|++......   .+...+..+...+.+.|++++|+..|++..+.. .-+...+..+-..+...|+++
T Consensus       409 ~~~~g~~~~A~~~~~kal~l~P---~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~  484 (615)
T TIGR00990       409 HFIKGEFAQAGKDYQKSIDLDP---DFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFD  484 (615)
T ss_pred             HHHcCCHHHHHHHHHHHHHcCc---cCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHH
Confidence            8899999999999988776533   345667777788888899999999988876542 223566777777777777766


Q ss_pred             cC
Q 038114          168 YL  169 (170)
Q Consensus       168 ~~  169 (170)
                      ++
T Consensus       485 ~A  486 (615)
T TIGR00990       485 EA  486 (615)
T ss_pred             HH
Confidence            53

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

Probab=98.65  E-value=1e-06  Score=66.47  Aligned_cols=119  Identities=17%  Similarity=0.143  Sum_probs=102.3

Q ss_pred             chhHhH-HHhhhcccCCHHHHHHHHHHHHhhC--CCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHH
Q 038114            7 TQLRFT-FYNSQPIQNLYNEALVAFDFLQNNT--NFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNY   83 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~--~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~   83 (170)
                      ..+... +++.+.+..+.+++..++... +..  ....-+.|..++|+.|.+.|..+.+..++..=...|+-||..++|.
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~-R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~  143 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKF-RHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNL  143 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHH-HcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHH
Confidence            455566 688888999999999998888 443  3445556778999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCC
Q 038114           84 ILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASP  128 (170)
Q Consensus        84 li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~  128 (170)
                      ||+.+.+.|++..|.+++.+|...+.  -.+..|+..-+.+|.+.
T Consensus       144 Lmd~fl~~~~~~~A~~V~~~~~lQe~--~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  144 LMDHFLKKGNYKSAAKVATEMMLQEE--FDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHHhhc--cCCchHHHHHHHHHHHh
Confidence            99999999999999999999887777  67778888888887776

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 [].

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.64  E-value=2.7e-06  Score=68.32  Aligned_cols=122  Identities=10%  Similarity=-0.042  Sum_probs=54.8

Q ss_pred             hhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHH----HHHHHHHHHhcCCCCCHHHHHHHHHHHHcC
Q 038114           16 SQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQL----GRKVHDHILSSKSQPDVVLQNYILNMYGKC   91 (170)
Q Consensus        16 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~----a~~~~~~m~~~~~~~~~~~~~~li~~~~~~   91 (170)
                      .+.+.|++++|...|++. .... +-+...+..+-..+...|++++    |...|+...+.. +.+...+..+...+.+.
T Consensus       221 ~l~~~g~~~eA~~~~~~a-l~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~  297 (656)
T PRK15174        221 TLCAVGKYQEAIQTGESA-LARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRT  297 (656)
T ss_pred             HHHHCCCHHHHHHHHHHH-HhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHC
Confidence            344444444444444444 2221 1123333334444444444443    444444444332 12344555555555555


Q ss_pred             CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114           92 GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      |++++|...++...+...   .+...+..+...+...|++++|...|+.+..
T Consensus       298 g~~~eA~~~l~~al~l~P---~~~~a~~~La~~l~~~G~~~eA~~~l~~al~  346 (656)
T PRK15174        298 GQNEKAIPLLQQSLATHP---DLPYVRAMYARALRQVGQYTAASDEFVQLAR  346 (656)
T ss_pred             CCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            555555555555443322   1223344445555555555555555555543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.63  E-value=2.4e-06  Score=68.60  Aligned_cols=148  Identities=8%  Similarity=-0.093  Sum_probs=72.4

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +...+.+.|++++|...+++. .... +.+...+..+..++...|++++|...+..+......+ ...+..+ ..+.+.|
T Consensus       116 la~~l~~~g~~~~Ai~~l~~A-l~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~-~~a~~~~-~~l~~~g  191 (656)
T PRK15174        116 VASVLLKSKQYATVADLAEQA-WLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPR-GDMIATC-LSFLNKS  191 (656)
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCC-HHHHHHH-HHHHHcC
Confidence            344455555555555555555 3221 1223344555555555555555555555554432221 2222222 2245556


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccc
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      ++++|...++.+.....  .++...+..+...+...|++++|+..+++..... .-+...+..+-..+...|+.+
T Consensus       192 ~~~eA~~~~~~~l~~~~--~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~  263 (656)
T PRK15174        192 RLPEDHDLARALLPFFA--LERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSR  263 (656)
T ss_pred             CHHHHHHHHHHHHhcCC--CcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCch
Confidence            66666666555544332  2333344444455566666666666666655443 223444555555666666654

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

Probab=98.60  E-value=3.7e-08  Score=46.47  Aligned_cols=29  Identities=38%  Similarity=0.489  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHhhcccCC
Q 038114           80 LQNYILNMYGKCGSLEDARVVSDEMPQRN  108 (170)
Q Consensus        80 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~  108 (170)
                      +||++|++|++.|++++|.++|++|.+.|
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.

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

Probab=98.58  E-value=1.1e-06  Score=53.66  Aligned_cols=79  Identities=15%  Similarity=0.235  Sum_probs=54.8

Q ss_pred             HHHHHHhhcccchHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHcCC--------CHHHHHHHHhhcccCCCCCCCChhh
Q 038114           47 ACLISTCSSLRSLQLGRKVHDHILSSKS-QPDVVLQNYILNMYGKCG--------SLEDARVVSDEMPQRNVIESPDLAS  117 (170)
Q Consensus        47 ~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~~--------~~~~a~~~~~~m~~~~~~~~p~~~~  117 (170)
                      ...|..|...+++.....+|..+++.|+ .|++.+|+.++++.++..        .+-..+.+|+.|...++  +|+..|
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~l--KP~~et  106 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKL--KPNDET  106 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhcc--CCcHHH
Confidence            3456666666778888888888888887 777888888887777642        23445666777777666  777777


Q ss_pred             HHHHHHHHhC
Q 038114          118 WNAIIAGVAS  127 (170)
Q Consensus       118 ~~~li~~~~~  127 (170)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            7777766543

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 [, , ].

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

Probab=98.57  E-value=8.7e-07  Score=54.14  Aligned_cols=78  Identities=21%  Similarity=0.102  Sum_probs=68.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCC-CcchhhHHHHHHHhhccc--------chHHHHHHHHHHHhcCCCCCHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNF-RIRPSTYACLISTCSSLR--------SLQLGRKVHDHILSSKSQPDVVLQNY   83 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~-~p~~~~~~~li~~~~~~~--------~~~~a~~~~~~m~~~~~~~~~~~~~~   83 (170)
                      -|..|...+++.....+|+.+ ++.|+ .|+..+|+.++.+.++..        +.-..+.+|..|...++.|+..+|++
T Consensus        31 ~I~~~~~~~d~N~I~~lYqsl-kRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   31 NINSCFENEDYNIINPLYQSL-KRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHhhcchHHHHHHHHHH-HhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            477777889999999999999 99999 999999999999987653        34567789999999999999999999


Q ss_pred             HHHHHHcC
Q 038114           84 ILNMYGKC   91 (170)
Q Consensus        84 li~~~~~~   91 (170)
                      ++..+.+.
T Consensus       110 vl~~Llkg  117 (120)
T PF08579_consen  110 VLGSLLKG  117 (120)
T ss_pred             HHHHHHHh
Confidence            99988754

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 [, , ].

>PRK12370 invasion protein regulator; Provisional

Probab=98.56  E-value=9.2e-06  Score=64.05  Aligned_cols=149  Identities=13%  Similarity=0.019  Sum_probs=93.8

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNM   87 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~   87 (170)
                      ..+. +-..+...|++++|...|++. .+.+ +.+...+..+-.++...|++++|...++...+.... +...+..+...
T Consensus       339 ~a~~~lg~~~~~~g~~~~A~~~~~~A-l~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~~~~~  415 (553)
T PRK12370        339 QALGLLGLINTIHSEYIVGSLLFKQA-NLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGITKLWI  415 (553)
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHH
Confidence            3444 455667788888888888887 5443 223456667777778888888888888888775322 22233334445


Q ss_pred             HHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhH-HHHHHHhcCCC
Q 038114           88 YGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTV-RSLLCACTSPS  164 (170)
Q Consensus        88 ~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~-~~ll~~~~~~g  164 (170)
                      +...|++++|...+++......  +-+...+..+-..+...|+.++|...+.++...  .|+..+. +.+...|.+.|
T Consensus       416 ~~~~g~~eeA~~~~~~~l~~~~--p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g  489 (553)
T PRK12370        416 TYYHTGIDDAIRLGDELRSQHL--QDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS  489 (553)
T ss_pred             HHhccCHHHHHHHHHHHHHhcc--ccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH
Confidence            6667788888888887654432  123344666667777888888888888776433  3443333 33333444444

>PRK12370 invasion protein regulator; Provisional

Probab=98.52  E-value=7.6e-06  Score=64.53  Aligned_cols=144  Identities=13%  Similarity=0.004  Sum_probs=106.5

Q ss_pred             ccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHH
Q 038114           19 IQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDAR   98 (170)
Q Consensus        19 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~   98 (170)
                      ..+++++|...+++. .+.. +-+...+..+-..+...|++++|...|++..+.. +.+...+..+-..+...|++++|.
T Consensus       316 ~~~~~~~A~~~~~~A-l~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi  392 (553)
T PRK12370        316 KQNAMIKAKEHAIKA-TELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEAL  392 (553)
T ss_pred             cchHHHHHHHHHHHH-HhcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            345688999999988 5443 2355577777777888999999999999998874 335778888999999999999999


Q ss_pred             HHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCH-hhHHHHHHHhcCCCccccC
Q 038114           99 VVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDG-LTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus        99 ~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~-~t~~~ll~~~~~~g~~e~~  169 (170)
                      ..++...+.+.  . +...+..+...+...|++++|...+++..... .|+. ..+..+-.++...|+.+++
T Consensus       393 ~~~~~Al~l~P--~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA  460 (553)
T PRK12370        393 QTINECLKLDP--T-RAAAGITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELA  460 (553)
T ss_pred             HHHHHHHhcCC--C-ChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHH
Confidence            99999887644  2 22233344445666899999999999887653 3433 3456666777788887764

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

Probab=98.51  E-value=2.1e-07  Score=67.06  Aligned_cols=142  Identities=11%  Similarity=0.014  Sum_probs=57.4

Q ss_pred             cccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhc-CCCCCHHHHHHHHHHHHcCCCHHH
Q 038114           18 PIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSS-KSQPDVVLQNYILNMYGKCGSLED   96 (170)
Q Consensus        18 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~   96 (170)
                      ...+++++|..+++.. -+..  +++..+...+..+.+.++++.+..+++...+. ....+...|..+-..+.+.|++++
T Consensus        88 ~~~~~~~~A~~~~~~~-~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~  164 (280)
T PF13429_consen   88 LQDGDPEEALKLAEKA-YERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDK  164 (280)
T ss_dssp             ---------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHH
T ss_pred             cccccccccccccccc-cccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHH
Confidence            4556666666655554 3221  44455555666666666666666666665432 223455566666666666666666


Q ss_pred             HHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcc
Q 038114           97 ARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNV  166 (170)
Q Consensus        97 a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~  166 (170)
                      |.+.|++..+...   -|....+.++..+...|+.+++.+++....+.. ..|...+..+-.++...|+.
T Consensus       165 A~~~~~~al~~~P---~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~  230 (280)
T PF13429_consen  165 ALRDYRKALELDP---DDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRY  230 (280)
T ss_dssp             HHHHHHHHHHH-T---T-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-H
T ss_pred             HHHHHHHHHHcCC---CCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccc
Confidence            6666666554422   134455556666666666666666665555443 33333444555555554443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.51  E-value=1.1e-05  Score=67.21  Aligned_cols=148  Identities=8%  Similarity=-0.071  Sum_probs=84.5

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +...+.+.|++++|...+++. .... +.+...+..+.....+.|++++|...+.+..+.  .|+...|..+-..+.+.|
T Consensus       548 la~all~~Gd~~eA~~~l~qA-L~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG  623 (987)
T PRK09782        548 AANTAQAAGNGAARDRWLQQA-EQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRH  623 (987)
T ss_pred             HHHHHHHCCCHHHHHHHHHHH-HhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCC
Confidence            444555566666666666665 4332 112222222223333446666666666666654  345666666767777777


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      ++++|...|+.......   -+...++.+-..+...|++++|+..+++..+.. .-+...+..+-.++...|+.++
T Consensus       624 ~~deA~~~l~~AL~l~P---d~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~e  695 (987)
T PRK09782        624 NVPAAVSDLRAALELEP---NNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAA  695 (987)
T ss_pred             CHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHH
Confidence            77777777776665533   334556666666777777777777777665432 1234455666666666666554

>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=98.50  E-value=8.5e-06  Score=65.05  Aligned_cols=150  Identities=11%  Similarity=-0.090  Sum_probs=76.3

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +...+...|++++|...|++. .... +.+...+..+-.++.+.|++++|...|++..+.. +-++..|+.+-..+...|
T Consensus       405 lg~~~~~~g~~~~A~~~~~ka-l~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g  481 (615)
T TIGR00990       405 RAQLHFIKGEFAQAGKDYQKS-IDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQN  481 (615)
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcc
Confidence            445555556666666666555 3321 1123344444555555666666666666555431 223556666666666666


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChh------hHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcc
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLA------SWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNV  166 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~------~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~  166 (170)
                      ++++|.+.|+.......  ..+..      .++..+..+...|++++|..++++..... .-+...+..+...+.+.|+.
T Consensus       482 ~~~~A~~~~~~Al~l~p--~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~-p~~~~a~~~la~~~~~~g~~  558 (615)
T TIGR00990       482 KFDEAIEKFDTAIELEK--ETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID-PECDIAVATMAQLLLQQGDV  558 (615)
T ss_pred             CHHHHHHHHHHHHhcCC--ccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHccCH
Confidence            66666666665443321  11100      11112222333466666766666654432 12233466666677766666


Q ss_pred             cc
Q 038114          167 LY  168 (170)
Q Consensus       167 e~  168 (170)
                      ++
T Consensus       559 ~e  560 (615)
T TIGR00990       559 DE  560 (615)
T ss_pred             HH
Confidence            54

>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=98.46  E-value=2.2e-06  Score=58.49  Aligned_cols=104  Identities=12%  Similarity=0.083  Sum_probs=77.5

Q ss_pred             CCCcchhhHHHHHHHhhc-----ccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC----------------CHHH
Q 038114           38 NFRIRPSTYACLISTCSS-----LRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG----------------SLED   96 (170)
Q Consensus        38 ~~~p~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~----------------~~~~   96 (170)
                      +-.-+-.+|..++..+.+     .|+.+=....+..|.+.|+.-|..+|+.||+.+=+..                +-+-
T Consensus        42 ~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c  121 (228)
T PF06239_consen   42 GQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQEC  121 (228)
T ss_pred             hccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHH
Confidence            345677888888888864     4778888888999999999999999999998776521                2355


Q ss_pred             HHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCC-hHHHHHHHHHHHh
Q 038114           97 ARVVSDEMPQRNVIESPDLASWNAIIAGVASPSN-ANEAMSLFSEMRD  143 (170)
Q Consensus        97 a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~-~~~a~~l~~~m~~  143 (170)
                      |.++++.|...|+  .||..|+..++..+.+.+. ..+..++.-+|.+
T Consensus       122 ~i~lL~qME~~gV--~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWmpk  167 (228)
T PF06239_consen  122 AIDLLEQMENNGV--MPDKETEQMLLNIFGRKSHPMKKYRRMMYWMPK  167 (228)
T ss_pred             HHHHHHHHHHcCC--CCcHHHHHHHHHHhccccHHHHHHHHHHHHHHH
Confidence            7777777777777  7777777777777777775 4555556555544

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

>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=98.42  E-value=1.4e-05  Score=59.99  Aligned_cols=127  Identities=12%  Similarity=0.106  Sum_probs=101.9

Q ss_pred             chhHhHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114            7 TQLRFTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus         7 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      |..+-+|++.+...++++.|+++|+++ ....  |+  ....+.+.+...++-.+|.+++.+..+.. +-+......-.+
T Consensus       169 NyLv~~Ll~~l~~t~~~~~ai~lle~L-~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~  242 (395)
T PF09295_consen  169 NYLVDTLLKYLSLTQRYDEAIELLEKL-RERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAE  242 (395)
T ss_pred             hHHHHHHHHHHhhcccHHHHHHHHHHH-HhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            444455788888889999999999999 5544  44  44557777777788888999888888653 446778888888


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      .+.+.++++.|+++.++..+...   -+..+|..|..+|...|+++.|+..++.+-
T Consensus       243 fLl~k~~~~lAL~iAk~av~lsP---~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  243 FLLSKKKYELALEIAKKAVELSP---SEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHhcCCHHHHHHHHHHHHHhCc---hhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            89999999999999999887632   345699999999999999999999998774

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

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.38  E-value=2.3e-05  Score=59.42  Aligned_cols=54  Identities=15%  Similarity=0.033  Sum_probs=44.3

Q ss_pred             ChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccccC
Q 038114          114 DLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       114 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      |...+.++-..|.+.+++++|.+.|+...+.  .|+..+|..+-..+.+.|+.+++
T Consensus       327 ~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A  380 (398)
T PRK10747        327 TPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEA  380 (398)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHH
Confidence            3445677778889999999999999988754  69999999999999988887653

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

Probab=98.37  E-value=2.2e-05  Score=57.78  Aligned_cols=157  Identities=9%  Similarity=-0.033  Sum_probs=117.6

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchh-------hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHH
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPS-------TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVL   80 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~-------~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~   80 (170)
                      .... ...+|.+.|.+.....+...+ .+.|.--++.       +|..++.-....+..+.-...|++.... ..-++..
T Consensus       188 ~vlrLa~r~y~~~g~~~~ll~~l~~L-~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l  265 (400)
T COG3071         188 EVLRLALRAYIRLGAWQALLAILPKL-RKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPEL  265 (400)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHH-HHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhH
Confidence            3445 378888888888888888888 6666544433       6777777777766666666666666443 3445666


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHhhcccCCCC----------------------------CCCChhhHHHHHHHHhCCCChH
Q 038114           81 QNYILNMYGKCGSLEDARVVSDEMPQRNVI----------------------------ESPDLASWNAIIAGVASPSNAN  132 (170)
Q Consensus        81 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~----------------------------~~p~~~~~~~li~~~~~~g~~~  132 (170)
                      -.+++.-+.++|+.++|.++..+-.+.+..                            ++-++-.+.++-..|.+.+.|.
T Consensus       266 ~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~tLG~L~~k~~~w~  345 (400)
T COG3071         266 VVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLSTLGRLALKNKLWG  345 (400)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhHHH
Confidence            777888888999999999887766544332                            1334567888889999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccccC
Q 038114          133 EAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       133 ~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      +|...|+  .....+|+..+|..+-.++.+.|+.+++
T Consensus       346 kA~~~le--aAl~~~~s~~~~~~la~~~~~~g~~~~A  380 (400)
T COG3071         346 KASEALE--AALKLRPSASDYAELADALDQLGEPEEA  380 (400)
T ss_pred             HHHHHHH--HHHhcCCChhhHHHHHHHHHHcCChHHH
Confidence            9999999  5557899999999999999999987654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.36  E-value=3.8e-05  Score=64.11  Aligned_cols=145  Identities=12%  Similarity=-0.024  Sum_probs=90.8

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCC
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGS   93 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~   93 (170)
                      ...+.+.|++++|...|+++ ...  .|+...+..+..++.+.|++++|...+.+..+.. +.+...+..+.....+.|+
T Consensus       516 A~al~~~Gr~eeAi~~~rka-~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr  591 (987)
T PRK09782        516 AYQAYQVEDYATALAAWQKI-SLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQ  591 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHHH-hcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCC
Confidence            33445677777777777776 433  2333444555566667777777777777777653 2223333333334445578


Q ss_pred             HHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCH-hhHHHHHHHhcCCCcccc
Q 038114           94 LEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDG-LTVRSLLCACTSPSNVLY  168 (170)
Q Consensus        94 ~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~-~t~~~ll~~~~~~g~~e~  168 (170)
                      +++|...|++..+.    .|+...|..+...+.+.|+.++|+..+++....  .|+. ..+..+-.++...|+.++
T Consensus       592 ~~eAl~~~~~AL~l----~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~ee  661 (987)
T PRK09782        592 PELALNDLTRSLNI----APSANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQ  661 (987)
T ss_pred             HHHHHHHHHHHHHh----CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHH
Confidence            88888888777654    455667777778888888888888888876654  3433 344444456666666554

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

Probab=98.35  E-value=4.9e-07  Score=72.27  Aligned_cols=91  Identities=7%  Similarity=0.054  Sum_probs=80.1

Q ss_pred             HHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           28 VAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        28 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      .++-.+ +..|+.|+.+||.++|..|+..|+.+.|- +|.-|+-....-+...++.++.+....++.+.+.         
T Consensus        11 nfla~~-e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk---------   79 (1088)
T KOG4318|consen   11 NFLALH-EISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK---------   79 (1088)
T ss_pred             hHHHHH-HHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC---------
Confidence            567788 88999999999999999999999999998 9999988888888899999999998888877665         


Q ss_pred             CCCCCCChhhHHHHHHHHhCCCChHH
Q 038114          108 NVIESPDLASWNAIIAGVASPSNANE  133 (170)
Q Consensus       108 ~~~~~p~~~~~~~li~~~~~~g~~~~  133 (170)
                          .|...||+.++.+|.++|+...
T Consensus        80 ----ep~aDtyt~Ll~ayr~hGDli~  101 (1088)
T KOG4318|consen   80 ----EPLADTYTNLLKAYRIHGDLIL  101 (1088)
T ss_pred             ----CCchhHHHHHHHHHHhccchHH
Confidence                3666899999999999998765

>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=98.34  E-value=1.4e-05  Score=54.70  Aligned_cols=86  Identities=21%  Similarity=0.288  Sum_probs=45.4

Q ss_pred             CHHHHHHHHHHHHc-----CCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhC----------------CCChHHHH
Q 038114           77 DVVLQNYILNMYGK-----CGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVAS----------------PSNANEAM  135 (170)
Q Consensus        77 ~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~----------------~g~~~~a~  135 (170)
                      +..+|..+|+.|.+     .|.++-....+..|.+-|+  .-|..+|+.||..+=+                ..+-+-|+
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv--~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGV--EKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCC--cccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            44455555555443     2445555555555555555  5555555555555421                12334455


Q ss_pred             HHHHHHHhCCCCCCHhhHHHHHHHhcCCC
Q 038114          136 SLFSEMRDRELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus       136 ~l~~~m~~~~~~p~~~t~~~ll~~~~~~g  164 (170)
                      +++++|...|+.||..|+..|++.+++.+
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence            55566665566666666665555555443

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.32  E-value=3.2e-05  Score=66.00  Aligned_cols=146  Identities=12%  Similarity=0.044  Sum_probs=107.5

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +...+...|+.++|..+++.-      +.++..+..+-..+.+.|++++|...|+...+.. +.++..+..+...|...|
T Consensus       579 ~a~~l~~~G~~~eA~~~l~~~------p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g  651 (1157)
T PRK11447        579 TANRLRDSGKEAEAEALLRQQ------PPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQG  651 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHhC------CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCC
Confidence            456778889999999887732      3455667778888889999999999999998764 335788899999999999


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCC--CC---CHhhHHHHHHHhcCCCccc
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDREL--IP---DGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~--~p---~~~t~~~ll~~~~~~g~~e  167 (170)
                      ++++|.+.++...+...   .+...+..+...+...|++++|.++++.+....-  .|   +...+..+-+.+.+.|+.+
T Consensus       652 ~~~eA~~~l~~ll~~~p---~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~  728 (1157)
T PRK11447        652 DLAAARAQLAKLPATAN---DSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQ  728 (1157)
T ss_pred             CHHHHHHHHHHHhccCC---CChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHH
Confidence            99999999997765422   3345566677788889999999999998876532  22   2234555556666666655


Q ss_pred             c
Q 038114          168 Y  168 (170)
Q Consensus       168 ~  168 (170)
                      +
T Consensus       729 ~  729 (1157)
T PRK11447        729 Q  729 (1157)
T ss_pred             H
Confidence            4

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.30  E-value=8.2e-05  Score=60.98  Aligned_cols=147  Identities=10%  Similarity=0.087  Sum_probs=110.0

Q ss_pred             HHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC
Q 038114           12 TFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC   91 (170)
Q Consensus        12 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~   91 (170)
                      ..+......|+.++|+++|.+. ... -..+...+..+-.++.+.|++++|..+|++..+.. +.+...+..+...+...
T Consensus        20 d~~~ia~~~g~~~~A~~~~~~~-~~~-~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~   96 (765)
T PRK10049         20 DWLQIALWAGQDAEVITVYNRY-RVH-MQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADA   96 (765)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHH-Hhh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHC
Confidence            3677788899999999999988 542 23445568888888999999999999999987753 33466777888889999


Q ss_pred             CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHhcCCCccc
Q 038114           92 GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPD-GLTVRSLLCACTSPSNVL  167 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~t~~~ll~~~~~~g~~e  167 (170)
                      |++++|...+++..+...   .+.. +..+...+...|+.++|+..+++..+.  .|+ ...+..+..++.+.|..+
T Consensus        97 g~~~eA~~~l~~~l~~~P---~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~--~P~~~~~~~~la~~l~~~~~~e  167 (765)
T PRK10049         97 GQYDEALVKAKQLVSGAP---DKAN-LLALAYVYKRAGRHWDELRAMTQALPR--APQTQQYPTEYVQALRNNRLSA  167 (765)
T ss_pred             CCHHHHHHHHHHHHHhCC---CCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCChH
Confidence            999999999998876633   3444 778888888999999999999988865  333 333344555555544443

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

Probab=98.27  E-value=0.00016  Score=49.51  Aligned_cols=111  Identities=11%  Similarity=0.089  Sum_probs=88.5

Q ss_pred             CcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH-HHcCCC--HHHHHHHHhhcccCCCCCCCChh
Q 038114           40 RIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNM-YGKCGS--LEDARVVSDEMPQRNVIESPDLA  116 (170)
Q Consensus        40 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~~~--~~~a~~~~~~m~~~~~~~~p~~~  116 (170)
                      +.+...|..+-..|...|++++|...|+...+.. +-+...+..+-.+ +.+.|+  .++|.+++++..+.+.   -+..
T Consensus        70 P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP---~~~~  145 (198)
T PRK10370         70 PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDA---NEVT  145 (198)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCC---CChh
Confidence            3566688888889999999999999999998865 3467888888776 467777  5999999999987755   3567


Q ss_pred             hHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHH
Q 038114          117 SWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRS  155 (170)
Q Consensus       117 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~  155 (170)
                      .+..+-..+...|++++|...|+++.+.. .|+..-+..
T Consensus       146 al~~LA~~~~~~g~~~~Ai~~~~~aL~l~-~~~~~r~~~  183 (198)
T PRK10370        146 ALMLLASDAFMQADYAQAIELWQKVLDLN-SPRVNRTQL  183 (198)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCccHHHH
Confidence            88888899999999999999999997654 444444433

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.27  E-value=7.3e-05  Score=48.55  Aligned_cols=94  Identities=3%  Similarity=-0.192  Sum_probs=66.5

Q ss_pred             HHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHH
Q 038114           46 YACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGV  125 (170)
Q Consensus        46 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~  125 (170)
                      +..+-.++...|++++|...|....... +.+...|..+-.++.+.|++++|...|+.....+.   .+...+..+-.++
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p---~~~~a~~~lg~~l  102 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDA---SHPEPVYQTGVCL  102 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC---CCcHHHHHHHHHH
Confidence            4445556667777888888877777653 33567777777777788888888888887775433   4556677777777


Q ss_pred             hCCCChHHHHHHHHHHHh
Q 038114          126 ASPSNANEAMSLFSEMRD  143 (170)
Q Consensus       126 ~~~g~~~~a~~l~~~m~~  143 (170)
                      ...|+.++|...|.....
T Consensus       103 ~~~g~~~eAi~~~~~Al~  120 (144)
T PRK15359        103 KMMGEPGLAREAFQTAIK  120 (144)
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            777888888887776654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.27  E-value=7.8e-05  Score=61.11  Aligned_cols=54  Identities=6%  Similarity=-0.044  Sum_probs=23.0

Q ss_pred             HhhcccchHHHHHHHHHHHhcCCCC---CHHHHHHHHHHHHcCCCHHHHHHHHhhcc
Q 038114           52 TCSSLRSLQLGRKVHDHILSSKSQP---DVVLQNYILNMYGKCGSLEDARVVSDEMP  105 (170)
Q Consensus        52 ~~~~~~~~~~a~~~~~~m~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~  105 (170)
                      ++...|++++|...|+++.+.....   .......|..++...|++++|.++++.+.
T Consensus       281 ~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~  337 (765)
T PRK10049        281 AYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTI  337 (765)
T ss_pred             HHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHh
Confidence            4444455555555555444321100   12233334444444555555555544443

>TIGR00540 hemY_coli hemY protein

Probab=98.25  E-value=4.8e-05  Score=57.84  Aligned_cols=93  Identities=11%  Similarity=-0.014  Sum_probs=64.1

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCC--------------------------------CCCCh---hhHHHH
Q 038114           77 DVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVI--------------------------------ESPDL---ASWNAI  121 (170)
Q Consensus        77 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--------------------------------~~p~~---~~~~~l  121 (170)
                      ++..+-.+...+...|+.++|.+++++..+....                                ..|+.   ....++
T Consensus       262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sL  341 (409)
T TIGR00540       262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRAL  341 (409)
T ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHH
Confidence            4555556666666777777777776655332110                                13333   344566


Q ss_pred             HHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccccC
Q 038114          122 IAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       122 i~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      -..+.+.|++++|.+.|+........|+...+..+...+.+.|+.+++
T Consensus       342 g~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A  389 (409)
T TIGR00540       342 GQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEA  389 (409)
T ss_pred             HHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHH
Confidence            778889999999999999666666689999999999999888886653

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.

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.23  E-value=7.7e-05  Score=61.21  Aligned_cols=153  Identities=6%  Similarity=0.053  Sum_probs=102.6

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcC-----CCCCHHHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSK-----SQPDVVLQNYILNM   87 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----~~~~~~~~~~li~~   87 (170)
                      .+-++...|+..++++.|+.+ +..+.+.-..+-.++-.+|...+.+++|..+|..+....     ..++......|..+
T Consensus       298 rl~aL~~r~r~~~vi~~y~~l-~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA  376 (822)
T PRK14574        298 RLGALLVRHQTADLIKEYEAM-EAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYS  376 (822)
T ss_pred             HHHHHHHhhhHHHHHHHHHHh-hhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHH
Confidence            477778888888888888888 777766556677888888888888888888888876542     23344446778888


Q ss_pred             HHcCCCHHHHHHHHhhcccCCC-----------CCCCChhh-HHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHH
Q 038114           88 YGKCGSLEDARVVSDEMPQRNV-----------IESPDLAS-WNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRS  155 (170)
Q Consensus        88 ~~~~~~~~~a~~~~~~m~~~~~-----------~~~p~~~~-~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~  155 (170)
                      |...+++++|..+++.+.+...           .+.||-.. +..++..+...|+..+|++.++++.... .-|......
T Consensus       377 ~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~  455 (822)
T PRK14574        377 LNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIA  455 (822)
T ss_pred             HHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            8888888888888887765211           01333333 3334566777788888888888885432 335555555


Q ss_pred             HHHHhcCCCccc
Q 038114          156 LLCACTSPSNVL  167 (170)
Q Consensus       156 ll~~~~~~g~~e  167 (170)
                      +-+.+...|...
T Consensus       456 ~A~v~~~Rg~p~  467 (822)
T PRK14574        456 LASIYLARDLPR  467 (822)
T ss_pred             HHHHHHhcCCHH
Confidence            555555544443

>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=98.22  E-value=9.2e-06  Score=58.84  Aligned_cols=93  Identities=15%  Similarity=0.143  Sum_probs=38.1

Q ss_pred             hhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHH---HHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHH
Q 038114           44 STYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVV---LQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNA  120 (170)
Q Consensus        44 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~  120 (170)
                      ......+..+.+.++++.|.+.++.|.+..  .|..   ...+.+..+.-...+++|..+|+++.+. .  .+++.+.|.
T Consensus       132 E~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~--~~t~~~lng  206 (290)
T PF04733_consen  132 ELLALAVQILLKMNRPDLAEKELKNMQQID--EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-F--GSTPKLLNG  206 (290)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S----SHHHHHH
T ss_pred             cHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-c--CCCHHHHHH
Confidence            333444444455555555555555554431  2211   1112222222222355555555554432 2  234444455


Q ss_pred             HHHHHhCCCChHHHHHHHHHH
Q 038114          121 IIAGVASPSNANEAMSLFSEM  141 (170)
Q Consensus       121 li~~~~~~g~~~~a~~l~~~m  141 (170)
                      +.-+....|++++|.+++.+-
T Consensus       207 ~A~~~l~~~~~~eAe~~L~~a  227 (290)
T PF04733_consen  207 LAVCHLQLGHYEEAEELLEEA  227 (290)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHH
Confidence            555555555555555554443

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.

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

Probab=98.20  E-value=2.6e-05  Score=56.56  Aligned_cols=147  Identities=12%  Similarity=-0.005  Sum_probs=107.3

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +-++|.+.|.+.+|...|+.- ...  .|.+.||..|-++|.+...+..|+.++.+-.+. ++.|+....-.-+.+-..+
T Consensus       229 ~gkCylrLgm~r~Aekqlqss-L~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  229 MGKCYLRLGMPRRAEKQLQSS-LTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHhcChhhhHHHHHHH-hhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHHH
Confidence            678889999999999988876 443  467778888999999999999999999988776 3445555555666777778


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccc
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      +.++|.++|+...+...   .++...-.+-.+|.-.++.+.|++.++.+.+.|+. +...|..+--+|.-.+.+|
T Consensus       305 ~~~~a~~lYk~vlk~~~---~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D  375 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKLHP---INVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQID  375 (478)
T ss_pred             hHHHHHHHHHHHHhcCC---ccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchh
Confidence            88899999887765433   34455556667777788889999999988888865 4444544444444444433

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.17  E-value=0.00011  Score=55.83  Aligned_cols=91  Identities=9%  Similarity=-0.001  Sum_probs=50.8

Q ss_pred             hhhcccCCHHHHHHHHHHHHhhCCCCcchhhHH--HHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           15 NSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYA--CLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        15 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      .+..+.|+++.+...+.++ .+  ..|+.....  .....+...|+++.|...++.+.+.. +-++.....+...|.+.|
T Consensus       126 ~aA~~~g~~~~A~~~l~~A-~~--~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~g  201 (398)
T PRK10747        126 EAAQQRGDEARANQHLERA-AE--LADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTG  201 (398)
T ss_pred             HHHHHCCCHHHHHHHHHHH-Hh--cCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHH
Confidence            3335666666666666666 32  223332222  22345555666666666666666553 224556666666666666


Q ss_pred             CHHHHHHHHhhcccCCC
Q 038114           93 SLEDARVVSDEMPQRNV  109 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~  109 (170)
                      ++++|.+++..+.+.+.
T Consensus       202 dw~~a~~~l~~l~k~~~  218 (398)
T PRK10747        202 AWSSLLDILPSMAKAHV  218 (398)
T ss_pred             hHHHHHHHHHHHHHcCC
Confidence            66666666666654433

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

Probab=98.15  E-value=0.00012  Score=46.67  Aligned_cols=107  Identities=7%  Similarity=-0.076  Sum_probs=73.9

Q ss_pred             hhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHH
Q 038114           44 STYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIA  123 (170)
Q Consensus        44 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~  123 (170)
                      .....+...+...|++++|.+.|......+ +.+...+..+-..+.+.|++++|...|+.....+.   .+...+..+-.
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p---~~~~~~~~la~   93 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDP---DDPRPYFHAAE   93 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC---CChHHHHHHHH
Confidence            345555666677788888888888877654 34677777778888888888888888887655433   34556666667


Q ss_pred             HHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 038114          124 GVASPSNANEAMSLFSEMRDRELIPDGLTVRSL  156 (170)
Q Consensus       124 ~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~l  156 (170)
                      .+...|++++|...|+...+.  .|+...+..+
T Consensus        94 ~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~  124 (135)
T TIGR02552        94 CLLALGEPESALKALDLAIEI--CGENPEYSEL  124 (135)
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--ccccchHHHH
Confidence            777888888888888766654  3555554433

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

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.13  E-value=0.00024  Score=49.79  Aligned_cols=158  Identities=10%  Similarity=-0.080  Sum_probs=109.4

Q ss_pred             hhHhHHHhhhcccCCHHHHHHHHHHHHhhCCC-Ccc-hhhHHHHHHHhhcccchHHHHHHHHHHHhcCC-CCC-HHHHHH
Q 038114            8 QLRFTFYNSQPIQNLYNEALVAFDFLQNNTNF-RIR-PSTYACLISTCSSLRSLQLGRKVHDHILSSKS-QPD-VVLQNY   83 (170)
Q Consensus         8 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~-~~~~~~   83 (170)
                      ...+.+...+.+.|+++.|...|++. ..... .|. ...+..+-.++...|+++.|...++.+.+... .+. ..++..
T Consensus        34 ~~~~~~g~~~~~~~~~~~A~~~~~~~-~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~  112 (235)
T TIGR03302        34 EELYEEAKEALDSGDYTEAIKYFEAL-ESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYL  112 (235)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHH-HHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHH
Confidence            33455788899999999999999988 44321 121 24667778888999999999999999987532 222 123444


Q ss_pred             HHHHHHcC--------CCHHHHHHHHhhcccCCCCCCCChhhH-----------------HHHHHHHhCCCChHHHHHHH
Q 038114           84 ILNMYGKC--------GSLEDARVVSDEMPQRNVIESPDLASW-----------------NAIIAGVASPSNANEAMSLF  138 (170)
Q Consensus        84 li~~~~~~--------~~~~~a~~~~~~m~~~~~~~~p~~~~~-----------------~~li~~~~~~g~~~~a~~l~  138 (170)
                      +-.++.+.        |++++|.+.|+.......  . +...+                 -.+...+.+.|++.+|...+
T Consensus       113 ~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p--~-~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~  189 (235)
T TIGR03302       113 RGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYP--N-SEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRF  189 (235)
T ss_pred             HHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCC--C-ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            44445443        678999999998876533  1 11111                 13345677889999999999


Q ss_pred             HHHHhCC--CCCCHhhHHHHHHHhcCCCccccC
Q 038114          139 SEMRDRE--LIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       139 ~~m~~~~--~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      .+.....  -......+..+..++.+.|+.+++
T Consensus       190 ~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A  222 (235)
T TIGR03302       190 ETVVENYPDTPATEEALARLVEAYLKLGLKDLA  222 (235)
T ss_pred             HHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHH
Confidence            9987652  222456788999999999887754

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).

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

Probab=98.13  E-value=0.00033  Score=45.50  Aligned_cols=126  Identities=9%  Similarity=0.056  Sum_probs=90.6

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCc--chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC--HHHHHH
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRI--RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD--VVLQNY   83 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~   83 (170)
                      ..|. ++..+ ..++...+...++.+ ......-  .....-.+-..+...|++++|...|+........++  ....-.
T Consensus        13 ~~y~~~~~~~-~~~~~~~~~~~~~~l-~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~   90 (145)
T PF09976_consen   13 ALYEQALQAL-QAGDPAKAEAAAEQL-AKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHHHH-HCCCHHHHHHHHHHH-HHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHH
Confidence            3455 55555 589999999999998 5442211  112233344667889999999999999998763333  234445


Q ss_pred             HHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHH
Q 038114           84 ILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSE  140 (170)
Q Consensus        84 li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~  140 (170)
                      |-..+...|++++|+..++.......    ....+...-..+.+.|++++|...|+.
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~----~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAF----KALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcch----HHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            67788889999999999987554433    344666777999999999999999875

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.12  E-value=0.00023  Score=60.91  Aligned_cols=144  Identities=12%  Similarity=0.091  Sum_probs=109.5

Q ss_pred             hHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc
Q 038114           11 FTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK   90 (170)
Q Consensus        11 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   90 (170)
                      +++-..+.+.|++++|+..|++. .... +.+...+..+...+...|++++|.+.++...+.. +.+...+..+-.++.+
T Consensus       607 ~~La~~~~~~g~~~~A~~~y~~a-l~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~~~  683 (1157)
T PRK11447        607 LTLADWAQQRGDYAAARAAYQRV-LTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQRRVALAWAA  683 (1157)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHHHHHHHHHHh
Confidence            33788899999999999999998 5543 3467789999999999999999999999887653 2346677778888999


Q ss_pred             CCCHHHHHHHHhhcccCCCCCCC---ChhhHHHHHHHHhCCCChHHHHHHHHHHHh-CCCCCC----HhhHHHHH
Q 038114           91 CGSLEDARVVSDEMPQRNVIESP---DLASWNAIIAGVASPSNANEAMSLFSEMRD-RELIPD----GLTVRSLL  157 (170)
Q Consensus        91 ~~~~~~a~~~~~~m~~~~~~~~p---~~~~~~~li~~~~~~g~~~~a~~l~~~m~~-~~~~p~----~~t~~~ll  157 (170)
                      .|++++|.++|+..........|   +...+..+...+...|++++|+..|+.... .|+.|+    ..+++.++
T Consensus       684 ~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~~~~~p~~~~~~~~l~  758 (1157)
T PRK11447        684 LGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASGITPTRPQDNDTFTRLT  758 (1157)
T ss_pred             CCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCCCCCCCCchHHHHHh
Confidence            99999999999998764321022   234566667888999999999999997753 345432    23455544

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

Probab=98.12  E-value=0.00019  Score=50.32  Aligned_cols=121  Identities=14%  Similarity=0.022  Sum_probs=64.1

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      ......+.|++..|...|.+. .. .-++|..+|+.+=-+|.+.|++++|..-|.+..+-- .-++...|.+--.|.-.|
T Consensus       106 ~gk~~~~~g~~~~A~~~~rkA-~~-l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~g  182 (257)
T COG5010         106 QGKNQIRNGNFGEAVSVLRKA-AR-LAPTDWEAWNLLGAALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRG  182 (257)
T ss_pred             HHHHHHHhcchHHHHHHHHHH-hc-cCCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcC
Confidence            344555556666666666555 22 223555566666666666666666666665555532 223445555555555566


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHH
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFS  139 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~  139 (170)
                      +++.|+.++..-...+.   -|...-..+.......|+++.|..+..
T Consensus       183 d~~~A~~lll~a~l~~~---ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         183 DLEDAETLLLPAYLSPA---ADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             CHHHHHHHHHHHHhCCC---CchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            66666666555544332   233444444445555566666555544

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.12  E-value=0.00038  Score=50.72  Aligned_cols=123  Identities=11%  Similarity=-0.117  Sum_probs=84.5

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +-..+.+.|++++|...|++. .... +-++..|+.+-..+...|+++.|...|+...+.. +-+...|..+-..+...|
T Consensus        70 ~g~~~~~~g~~~~A~~~~~~A-l~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g  146 (296)
T PRK11189         70 RGVLYDSLGLRALARNDFSQA-LALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAYLNRGIALYYGG  146 (296)
T ss_pred             HHHHHHHCCCHHHHHHHHHHH-HHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCC
Confidence            566677888888888888877 5433 2345678888888888888888888888887653 223667777777888888


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      ++++|.+.|+...+..    |+..........+...++.++|...|.+..
T Consensus       147 ~~~eA~~~~~~al~~~----P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        147 RYELAQDDLLAFYQDD----PNDPYRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             CHHHHHHHHHHHHHhC----CCCHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            8888888888776543    322212222223345677888888886644

>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=98.11  E-value=8.2e-05  Score=53.95  Aligned_cols=124  Identities=11%  Similarity=0.034  Sum_probs=90.8

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHh----hcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTC----SSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMY   88 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~----~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~   88 (170)
                      .+..|.+.++++.|.+.++.| ++..  .|. +...+..++    ...+.+.+|..+|+++.+. ..+++.+.|.+..++
T Consensus       137 ~Vqi~L~~~R~dlA~k~l~~~-~~~~--eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~  211 (290)
T PF04733_consen  137 AVQILLKMNRPDLAEKELKNM-QQID--EDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCH  211 (290)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHH-HCCS--CCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HhcC--CcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHH
Confidence            488999999999999999999 6542  333 444444444    3345799999999998664 578899999999999


Q ss_pred             HcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCCh-HHHHHHHHHHHhC
Q 038114           89 GKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNA-NEAMSLFSEMRDR  144 (170)
Q Consensus        89 ~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~-~~a~~l~~~m~~~  144 (170)
                      ...|++++|++++.+....+.   -+..+...+|-.....|.. +.+.+++.+++..
T Consensus       212 l~~~~~~eAe~~L~~al~~~~---~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  212 LQLGHYEEAEELLEEALEKDP---NDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HHCT-HHHHHHHHHHHCCC-C---CHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HHhCCHHHHHHHHHHHHHhcc---CCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            999999999999998776544   2445555666666666766 7788899988764

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.

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.10  E-value=0.00039  Score=57.23  Aligned_cols=141  Identities=9%  Similarity=0.024  Sum_probs=66.3

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchh---hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPS---TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYG   89 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~---~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~   89 (170)
                      ++..+...|+.++|+..+++. .    .|+..   ....+...+...|++++|.++|+++.+.. +-++..+..++..|.
T Consensus        74 ll~l~~~~G~~~~A~~~~eka-~----~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~  147 (822)
T PRK14574         74 WLQIAGWAGRDQEVIDVYERY-Q----SSMNISSRGLASAARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQA  147 (822)
T ss_pred             HHHHHHHcCCcHHHHHHHHHh-c----cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHh
Confidence            444445556666666555555 2    22111   22222334455566666666666665543 112444445555566


Q ss_pred             cCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCC
Q 038114           90 KCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus        90 ~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g  164 (170)
                      ..++.++|++.++.....    .|+...+-.++..+...++..+|++.++++.+.. .-+...+.-+..+..+.|
T Consensus       148 ~~~q~~eAl~~l~~l~~~----dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~  217 (822)
T PRK14574        148 DAGRGGVVLKQATELAER----DPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-PTSEEVLKNHLEILQRNR  217 (822)
T ss_pred             hcCCHHHHHHHHHHhccc----CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            666666666666655544    2333344333333333344444666666655442 112333344444444443

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

Probab=98.10  E-value=0.00046  Score=48.39  Aligned_cols=151  Identities=9%  Similarity=-0.027  Sum_probs=114.5

Q ss_pred             HHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC
Q 038114           12 TFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC   91 (170)
Q Consensus        12 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~   91 (170)
                      ++-..+-..|+-+.+..+..+. . ....-|............+.|++..|...+.+...-. ++|...||.+--+|.+.
T Consensus        71 ~~a~a~~~~G~a~~~l~~~~~~-~-~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          71 KLATALYLRGDADSSLAVLQKS-A-IAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHhcccccchHHHHhhh-h-ccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            3555566666666666666654 2 1223344566678899999999999999999997654 77899999999999999


Q ss_pred             CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccccC
Q 038114           92 GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      |++++|..-|.+..+...   -+...+|.+...+.-.|+.+.|..++..-...+.. |...-..|.......|+++++
T Consensus       148 Gr~~~Ar~ay~qAl~L~~---~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A  221 (257)
T COG5010         148 GRFDEARRAYRQALELAP---NEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREA  221 (257)
T ss_pred             cChhHHHHHHHHHHHhcc---CCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHH
Confidence            999999999998776544   23357788888888889999999999988877644 445556666677777777665

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.07  E-value=0.00027  Score=45.90  Aligned_cols=94  Identities=13%  Similarity=-0.008  Sum_probs=81.1

Q ss_pred             hHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc
Q 038114           11 FTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK   90 (170)
Q Consensus        11 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   90 (170)
                      +++-..+.+.|++++|...|++. .... +.+...+..+-.++.+.|++++|...|....+.. +.++..+..+-.++.+
T Consensus        28 ~~~g~~~~~~g~~~~A~~~~~~a-l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~  104 (144)
T PRK15359         28 YASGYASWQEGDYSRAVIDFSWL-VMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHH-HHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            44678889999999999999998 5443 2467788899999999999999999999999864 4578899999999999


Q ss_pred             CCCHHHHHHHHhhcccC
Q 038114           91 CGSLEDARVVSDEMPQR  107 (170)
Q Consensus        91 ~~~~~~a~~~~~~m~~~  107 (170)
                      .|++++|...|+.....
T Consensus       105 ~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359        105 MGEPGLAREAFQTAIKM  121 (144)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            99999999999988765

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

Probab=98.05  E-value=0.00033  Score=49.44  Aligned_cols=137  Identities=15%  Similarity=0.109  Sum_probs=97.6

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH----
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYG----   89 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~----   89 (170)
                      ..-|...|++++|+...+..       -+......=...+.+..+++.|.+..+.|++-.   +-.|.+-|-.++.    
T Consensus       115 a~i~~~~~~~deAl~~~~~~-------~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~  184 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLG-------ENLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLAT  184 (299)
T ss_pred             hHHhhcCCChHHHHHHHhcc-------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhc
Confidence            66788999999999888775       223333333444557788999999999998643   3445555555444    


Q ss_pred             cCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCC
Q 038114           90 KCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus        90 ~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g  164 (170)
                      ..+..+.|.-+|++|.++-   .|+.-+-|-...++...|++++|+.++++...+.-+ +..|...++-+-...|
T Consensus       185 ggek~qdAfyifeE~s~k~---~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~G  255 (299)
T KOG3081|consen  185 GGEKIQDAFYIFEELSEKT---PPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLG  255 (299)
T ss_pred             cchhhhhHHHHHHHHhccc---CCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhC
Confidence            4567999999999998754   478888899999999999999999999998876433 3444444444433333

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

Probab=98.00  E-value=0.00018  Score=51.94  Aligned_cols=147  Identities=10%  Similarity=0.079  Sum_probs=107.6

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNM   87 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~   87 (170)
                      .+|. +|...-+.+..+.|+.+|.+..+...+..+.....++|..++ .++.+.|.++|+...+. +..+...|..-++.
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 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYC-NKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHT-CS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            4577 789999999999999999999333344566666666665543 35677799999999876 56678899999999


Q ss_pred             HHcCCCHHHHHHHHhhcccCCCCCCC-ChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHh
Q 038114           88 YGKCGSLEDARVVSDEMPQRNVIESP-DLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCAC  160 (170)
Q Consensus        88 ~~~~~~~~~a~~~~~~m~~~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~  160 (170)
                      +.+.++.+.|..+|+..... +.... ....|...+.-=.+.|+.+.+..+...+.+.  .|+..++..+++-|
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~ry  150 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDRY  150 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCCT
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHHh
Confidence            99999999999999988765 30022 3358999998889999999999999888764  45555555554433

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.

>TIGR00540 hemY_coli hemY protein

Probab=97.99  E-value=0.00059  Score=52.00  Aligned_cols=124  Identities=7%  Similarity=-0.100  Sum_probs=94.9

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhH-HHHHHHh--hcccchHHHHHHHHHHHhcCCCCCH--HHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTY-ACLISTC--SSLRSLQLGRKVHDHILSSKSQPDV--VLQNYILNM   87 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~-~~li~~~--~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~li~~   87 (170)
                      +...+...|+.+.|.++++.. .+..  |+.... -.++..+  ...++.+.+.+.++...+.. +-|+  ....++-..
T Consensus       269 ~a~~l~~~g~~~~A~~~l~~~-l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~-p~~~~~~ll~sLg~l  344 (409)
T TIGR00540       269 LAEHLIDCDDHDSAQEIIFDG-LKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV-DDKPKCCINRALGQL  344 (409)
T ss_pred             HHHHHHHCCChHHHHHHHHHH-HhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhC-CCChhHHHHHHHHHH
Confidence            688999999999999999998 5543  333311 0122222  34577788888888777652 3345  677788899


Q ss_pred             HHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114           88 YGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        88 ~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      +.+.|++++|.+.|+.......  .|+...+..+...+.+.|+.++|.+++++-.
T Consensus       345 ~~~~~~~~~A~~~le~a~a~~~--~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       345 LMKHGEFIEAADAFKNVAACKE--QLDANDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             HHHcccHHHHHHHHHHhHHhhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999999999996555555  7888899999999999999999999998753

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.

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

Probab=97.98  E-value=0.00034  Score=50.74  Aligned_cols=151  Identities=9%  Similarity=-0.011  Sum_probs=99.4

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCH----HHHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDV----VLQNYILNMY   88 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~   88 (170)
                      |-.-|...|-+|.|..+|..+ ...+. --....-.|+..|-...+|++|..+-..+.+.+-.+..    ..|--|-..+
T Consensus       113 L~~Dym~aGl~DRAE~~f~~L-~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~  190 (389)
T COG2956         113 LGRDYMAAGLLDRAEDIFNQL-VDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQA  190 (389)
T ss_pred             HHHHHHHhhhhhHHHHHHHHH-hcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHH
Confidence            455566778888888888777 44321 22335566777777778888888887777765543332    2344444555


Q ss_pred             HcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114           89 GKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus        89 ~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      ....+++.|..++.+..+.+.   -++..--.+-......|++++|.+.++...+++..--..+...|..+|...|+.++
T Consensus       191 ~~~~~~d~A~~~l~kAlqa~~---~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~  267 (389)
T COG2956         191 LASSDVDRARELLKKALQADK---KCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAE  267 (389)
T ss_pred             hhhhhHHHHHHHHHHHHhhCc---cceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHH
Confidence            556677777777776554422   12222233346677788899999888888888766667778888888888887765

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

Probab=97.98  E-value=0.00048  Score=51.01  Aligned_cols=128  Identities=11%  Similarity=0.012  Sum_probs=98.1

Q ss_pred             hHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHh-cCCCCCHHHHHHHHHHHH
Q 038114           11 FTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILS-SKSQPDVVLQNYILNMYG   89 (170)
Q Consensus        11 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~~~~~li~~~~   89 (170)
                      -.++.-+.+.|..++|.++..+. .+++..|+   ... +-.+.+.++.+.-.+..++-.+ .+.  ++..+.+|-..|.
T Consensus       267 ~~~a~~li~l~~~~~A~~~i~~~-Lk~~~D~~---L~~-~~~~l~~~d~~~l~k~~e~~l~~h~~--~p~L~~tLG~L~~  339 (400)
T COG3071         267 VAYAERLIRLGDHDEAQEIIEDA-LKRQWDPR---LCR-LIPRLRPGDPEPLIKAAEKWLKQHPE--DPLLLSTLGRLAL  339 (400)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHH-HHhccChh---HHH-HHhhcCCCCchHHHHHHHHHHHhCCC--ChhHHHHHHHHHH
Confidence            34678888999999999999998 88877777   222 2334556666665555555544 343  4588999999999


Q ss_pred             cCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCC
Q 038114           90 KCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPD  149 (170)
Q Consensus        90 ~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~  149 (170)
                      +.+.|.+|...|+.-.  ..  +|+..+|+.+-.++.+.|+.++|.+++++-...-..|+
T Consensus       340 k~~~w~kA~~~leaAl--~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         340 KNKLWGKASEALEAAL--KL--RPSASDYAELADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             HhhHHHHHHHHHHHHH--hc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence            9999999999999444  44  88999999999999999999999999998764434443

>PRK11189 lipoprotein NlpI; Provisional

Probab=97.97  E-value=0.002  Score=46.96  Aligned_cols=92  Identities=10%  Similarity=-0.052  Sum_probs=50.6

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYIL   85 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li   85 (170)
                      ...|+ +-..+...|++++|...|++. .+.  .| +...+..+-.++...|++++|.+.|+...+..  |+-.......
T Consensus        98 ~~a~~~lg~~~~~~g~~~~A~~~~~~A-l~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~  172 (296)
T PRK11189         98 ADAYNYLGIYLTQAGNFDAAYEAFDSV-LEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWL  172 (296)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHH-HHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHH
Confidence            34455 566667777777777777666 432  23 23455555555666677777777777666542  2211112222


Q ss_pred             HHHHcCCCHHHHHHHHhhc
Q 038114           86 NMYGKCGSLEDARVVSDEM  104 (170)
Q Consensus        86 ~~~~~~~~~~~a~~~~~~m  104 (170)
                      ..+...+++++|...|...
T Consensus       173 ~l~~~~~~~~~A~~~l~~~  191 (296)
T PRK11189        173 YLAESKLDPKQAKENLKQR  191 (296)
T ss_pred             HHHHccCCHHHHHHHHHHH
Confidence            2233455677777777543

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

Probab=97.94  E-value=0.00047  Score=43.87  Aligned_cols=92  Identities=16%  Similarity=0.072  Sum_probs=78.1

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +...+.+.|++++|.+.|+.. ...+ +.+...+..+-.++...|++++|...+++..+.+ +.+...+..+-..|...|
T Consensus        23 ~a~~~~~~~~~~~A~~~~~~~-~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g   99 (135)
T TIGR02552        23 LAYNLYQQGRYDEALKLFQLL-AAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLALG   99 (135)
T ss_pred             HHHHHHHcccHHHHHHHHHHH-HHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHcC
Confidence            678888999999999999998 5543 3467788888888999999999999999988765 445777888888999999


Q ss_pred             CHHHHHHHHhhcccC
Q 038114           93 SLEDARVVSDEMPQR  107 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~  107 (170)
                      ++++|.+.|+...+.
T Consensus       100 ~~~~A~~~~~~al~~  114 (135)
T TIGR02552       100 EPESALKALDLAIEI  114 (135)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999987765

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

>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=97.94  E-value=0.00018  Score=41.79  Aligned_cols=89  Identities=16%  Similarity=0.067  Sum_probs=42.0

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +...+...|++++|...+++. .... +.+...+..+-..+...+++++|.+.+....+.. +.+..++..+...+...|
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           6 LGNLYYKLGDYDEALEYYEKA-LELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHhcHHHHHHHHHHH-HhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHH
Confidence            444445555555555555554 3221 1122344444444445555555555555554432 222334445555555555


Q ss_pred             CHHHHHHHHhhc
Q 038114           93 SLEDARVVSDEM  104 (170)
Q Consensus        93 ~~~~a~~~~~~m  104 (170)
                      +++.|...+...
T Consensus        83 ~~~~a~~~~~~~   94 (100)
T cd00189          83 KYEEALEAYEKA   94 (100)
T ss_pred             hHHHHHHHHHHH
Confidence            555555555443

>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=97.93  E-value=0.00022  Score=53.76  Aligned_cols=115  Identities=12%  Similarity=0.056  Sum_probs=92.3

Q ss_pred             HHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHH
Q 038114           46 YACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGV  125 (170)
Q Consensus        46 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~  125 (170)
                      ..+|++.+...++++.|..+|+++.+..  |+  ....+.+.+...++..+|.+++.+......   -|....+.....|
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p---~d~~LL~~Qa~fL  244 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENP---QDSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCC---CCHHHHHHHHHHH
Confidence            4566777778899999999999998774  44  455688888889999999999988775433   3455666666778


Q ss_pred             hCCCChHHHHHHHHHHHhCCCCCCHh-hHHHHHHHhcCCCccccC
Q 038114          126 ASPSNANEAMSLFSEMRDRELIPDGL-TVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       126 ~~~g~~~~a~~l~~~m~~~~~~p~~~-t~~~ll~~~~~~g~~e~~  169 (170)
                      ...++.+.|+.+.++....  .|+.. +|..|..+|.+.|++|.+
T Consensus       245 l~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~A  287 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENA  287 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHH
Confidence            9999999999999988854  56555 899999999999998864

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

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.87  E-value=0.001  Score=41.05  Aligned_cols=93  Identities=11%  Similarity=-0.038  Sum_probs=37.5

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCC--CcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCC--CCCHHHHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNF--RIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKS--QPDVVLQNYILNMY   88 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~li~~~   88 (170)
                      +...+.+.|++++|.+.|+++ .....  ......+..+-.++.+.|+++.|...|+.+.....  ......+..+..++
T Consensus         8 ~~~~~~~~~~~~~A~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~   86 (119)
T TIGR02795         8 AALLVLKAGDYADAIQAFQAF-LKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSL   86 (119)
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHH
Confidence            444444445555555555444 22110  00122333344444444444444444444443210  11123334444444


Q ss_pred             HcCCCHHHHHHHHhhccc
Q 038114           89 GKCGSLEDARVVSDEMPQ  106 (170)
Q Consensus        89 ~~~~~~~~a~~~~~~m~~  106 (170)
                      .+.|++++|.+.+++..+
T Consensus        87 ~~~~~~~~A~~~~~~~~~  104 (119)
T TIGR02795        87 QELGDKEKAKATLQQVIK  104 (119)
T ss_pred             HHhCChHHHHHHHHHHHH
Confidence            444444444444444443

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.

>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=97.84  E-value=0.00062  Score=43.13  Aligned_cols=98  Identities=13%  Similarity=0.022  Sum_probs=55.3

Q ss_pred             chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHH
Q 038114           42 RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAI  121 (170)
Q Consensus        42 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~l  121 (170)
                      |..++..+|.++++.|+.+....+.+..-  |+.++...         ..+.         --.....  .|+..+..++
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~---------~~~~---------~~~~spl--~Pt~~lL~AI   58 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGKK---------KEGD---------YPPSSPL--YPTSRLLIAI   58 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCcc---------ccCc---------cCCCCCC--CCCHHHHHHH
Confidence            45567777777777777776666665443  22111100         0000         1112222  6667777777


Q ss_pred             HHHHhCCCChHHHHHHHHHHHhC-CCCCCHhhHHHHHHHhc
Q 038114          122 IAGVASPSNANEAMSLFSEMRDR-ELIPDGLTVRSLLCACT  161 (170)
Q Consensus       122 i~~~~~~g~~~~a~~l~~~m~~~-~~~p~~~t~~~ll~~~~  161 (170)
                      +.+|+..|++..|+++.+...+. ++..+..+|..|++-+.
T Consensus        59 v~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   59 VHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             HHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            77777777777777777766553 56666667777666554

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

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.83  E-value=0.00049  Score=53.47  Aligned_cols=161  Identities=14%  Similarity=0.035  Sum_probs=114.1

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhh----CCCCc-chh-hHHHHHHHhhcccchHHHHHHHHHHHhc---CCCC--
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNN----TNFRI-RPS-TYACLISTCSSLRSLQLGRKVHDHILSS---KSQP--   76 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~----~~~~p-~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~--   76 (170)
                      .+++ |-..|.+.|++++|...++....-    .|..+ ... -++.+...|...+++++|..++....+-   -+.+  
T Consensus       284 ~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~  363 (508)
T KOG1840|consen  284 ATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDN  363 (508)
T ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccc
Confidence            3444 778899999999999888775221    12222 222 4667777788899999999988866542   1222  


Q ss_pred             --CHHHHHHHHHHHHcCCCHHHHHHHHhhcccC----CC-CCCCChhhHHHHHHHHhCCCChHHHHHHHHHHH----hCC
Q 038114           77 --DVVLQNYILNMYGKCGSLEDARVVSDEMPQR----NV-IESPDLASWNAIIAGVASPSNANEAMSLFSEMR----DRE  145 (170)
Q Consensus        77 --~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~----~~~  145 (170)
                        -..+++.|-..|.+.|++++|+++|++....    +. ...-.-..++.+-..|.+.+..+.|.++|.+-.    ..|
T Consensus       364 ~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g  443 (508)
T KOG1840|consen  364 VNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCG  443 (508)
T ss_pred             hHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhC
Confidence              2568999999999999999999999976421    11 001113467888899999999999999888654    333


Q ss_pred             C-CCC-HhhHHHHHHHhcCCCccccC
Q 038114          146 L-IPD-GLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       146 ~-~p~-~~t~~~ll~~~~~~g~~e~~  169 (170)
                      . .|+ ..||..|..+|.+.|++|.+
T Consensus       444 ~~~~~~~~~~~nL~~~Y~~~g~~e~a  469 (508)
T KOG1840|consen  444 PDHPDVTYTYLNLAALYRAQGNYEAA  469 (508)
T ss_pred             CCCCchHHHHHHHHHHHHHcccHHHH
Confidence            2 233 35699999999999998865

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

Probab=97.83  E-value=0.00014  Score=56.91  Aligned_cols=121  Identities=12%  Similarity=0.045  Sum_probs=66.8

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCC--------------------------------cchhhHHHHHHHhhcccchH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFR--------------------------------IRPSTYACLISTCSSLRSLQ   60 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~--------------------------------p~~~~~~~li~~~~~~~~~~   60 (170)
                      +-++|...+++++|..+|+..++....+                                -.+.+|+++=++|.-.++.+
T Consensus       359 ~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~sPesWca~GNcfSLQkdh~  438 (638)
T KOG1126|consen  359 LGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLIDTDPNSPESWCALGNCFSLQKDHD  438 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHhhCCCCcHHHHHhcchhhhhhHHH
Confidence            4778888888888888888885444333                                23345555555555555555


Q ss_pred             HHHHHHHHHHhcCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHH---HHHhCCCChHHHHH
Q 038114           61 LGRKVHDHILSSKSQP-DVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAII---AGVASPSNANEAMS  136 (170)
Q Consensus        61 ~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li---~~~~~~g~~~~a~~  136 (170)
                      .|.+.|+...+-  .| ...+|+.+-.-+.....++.|...|+...      ..|...||++-   -.|.+.+.++.|+-
T Consensus       439 ~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al------~~~~rhYnAwYGlG~vy~Kqek~e~Ae~  510 (638)
T KOG1126|consen  439 TAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKAL------GVDPRHYNAWYGLGTVYLKQEKLEFAEF  510 (638)
T ss_pred             HHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhh------cCCchhhHHHHhhhhheeccchhhHHHH
Confidence            555555555442  22 24455555555555555555555555433      23334555442   44555555555555


Q ss_pred             HHHHH
Q 038114          137 LFSEM  141 (170)
Q Consensus       137 l~~~m  141 (170)
                      .|+.-
T Consensus       511 ~fqkA  515 (638)
T KOG1126|consen  511 HFQKA  515 (638)
T ss_pred             HHHhh
Confidence            55543

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

Probab=97.82  E-value=0.00035  Score=54.73  Aligned_cols=153  Identities=12%  Similarity=0.075  Sum_probs=87.3

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCC------------------------------CCcchhhHHHHH---HHh
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTN------------------------------FRIRPSTYACLI---STC   53 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~------------------------------~~p~~~~~~~li---~~~   53 (170)
                      ..+|. +-..|+-.++.+.|++.|++. .+..                              +.+|+..|+++-   ..|
T Consensus       421 PesWca~GNcfSLQkdh~~Aik~f~RA-iQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~rhYnAwYGlG~vy  499 (638)
T KOG1126|consen  421 PESWCALGNCFSLQKDHDTAIKCFKRA-IQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPRHYNAWYGLGTVY  499 (638)
T ss_pred             cHHHHHhcchhhhhhHHHHHHHHHHHh-hccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCchhhHHHHhhhhhe
Confidence            34677 677777777777777777766 3211                              334444444432   234


Q ss_pred             hcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHH
Q 038114           54 SSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANE  133 (170)
Q Consensus        54 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~  133 (170)
                      .+.++++.|+-.|....+-+ +-+.+....+...+-+.|+.++|+++|++....+.  +-. .+-=.-...+...++.++
T Consensus       500 ~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~--kn~-l~~~~~~~il~~~~~~~e  575 (638)
T KOG1126|consen  500 LKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDP--KNP-LCKYHRASILFSLGRYVE  575 (638)
T ss_pred             eccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCC--CCc-hhHHHHHHHHHhhcchHH
Confidence            55566666666665555433 22345555555666677777777777776655444  222 222223344455577888


Q ss_pred             HHHHHHHHHhCCCCCCHhh-HHHHHHHhcCCCccc
Q 038114          134 AMSLFSEMRDRELIPDGLT-VRSLLCACTSPSNVL  167 (170)
Q Consensus       134 a~~l~~~m~~~~~~p~~~t-~~~ll~~~~~~g~~e  167 (170)
                      |+..++++++  +.|+..+ |-.+-+.|-+.|..+
T Consensus       576 al~~LEeLk~--~vP~es~v~~llgki~k~~~~~~  608 (638)
T KOG1126|consen  576 ALQELEELKE--LVPQESSVFALLGKIYKRLGNTD  608 (638)
T ss_pred             HHHHHHHHHH--hCcchHHHHHHHHHHHHHHccch
Confidence            8888887774  3555544 555555666555543

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

Probab=97.79  E-value=0.00021  Score=52.01  Aligned_cols=132  Identities=10%  Similarity=-0.084  Sum_probs=97.7

Q ss_pred             ccchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhh-HHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHH
Q 038114            5 LKTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPST-YACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQN   82 (170)
Q Consensus         5 ~~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~   82 (170)
                      .|-..+|- |-+.|.+..++..|+.+|.+- ..  ..|-.+| .+-+-+.+...++.+++.++|+...+.. ..++....
T Consensus       253 ~~~~dTfllLskvY~ridQP~~AL~~~~~g-ld--~fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~-~~nvEaiA  328 (478)
T KOG1129|consen  253 FPHPDTFLLLSKVYQRIDQPERALLVIGEG-LD--SFPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLH-PINVEAIA  328 (478)
T ss_pred             CCchhHHHHHHHHHHHhccHHHHHHHHhhh-hh--cCCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcC-Cccceeee
Confidence            45566788 688999999999999999887 33  2344444 4455666777788888888888887764 44667777


Q ss_pred             HHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114           83 YILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus        83 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      ++-..|.-.++++-|++.|+.+.+.|+   -+...|+.+-.+|.-.++++.++..|..-..
T Consensus       329 cia~~yfY~~~PE~AlryYRRiLqmG~---~speLf~NigLCC~yaqQ~D~~L~sf~RAls  386 (478)
T KOG1129|consen  329 CIAVGYFYDNNPEMALRYYRRILQMGA---QSPELFCNIGLCCLYAQQIDLVLPSFQRALS  386 (478)
T ss_pred             eeeeccccCCChHHHHHHHHHHHHhcC---CChHHHhhHHHHHHhhcchhhhHHHHHHHHh
Confidence            777788888888888888888888887   4556777777777777777777777766543

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

Probab=97.79  E-value=0.001  Score=49.41  Aligned_cols=88  Identities=8%  Similarity=0.078  Sum_probs=41.6

Q ss_pred             HhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCCh--hhHHHHHHHHhCCC
Q 038114           52 TCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDL--ASWNAIIAGVASPS  129 (170)
Q Consensus        52 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~--~~~~~li~~~~~~g  129 (170)
                      .+...|++++|...+++..+.. +.+...+..+-..|...|++++|...+++....... .|+.  ..|..+...+...|
T Consensus       123 ~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~-~~~~~~~~~~~la~~~~~~G  200 (355)
T cd05804         123 GLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDC-SSMLRGHNWWHLALFYLERG  200 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCC-CcchhHHHHHHHHHHHHHCC
Confidence            3444455555555555555432 223444455555555555555555555544432210 1111  22334445555555


Q ss_pred             ChHHHHHHHHHH
Q 038114          130 NANEAMSLFSEM  141 (170)
Q Consensus       130 ~~~~a~~l~~~m  141 (170)
                      ++++|..++++.
T Consensus       201 ~~~~A~~~~~~~  212 (355)
T cd05804         201 DYEAALAIYDTH  212 (355)
T ss_pred             CHHHHHHHHHHH
Confidence            555555555554

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.

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

Probab=97.79  E-value=0.0003  Score=54.25  Aligned_cols=142  Identities=15%  Similarity=0.002  Sum_probs=109.4

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhc------CCCCCHHHHHHHHH
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSS------KSQPDVVLQNYILN   86 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~~~~~~~~li~   86 (170)
                      ---|.+.++...|.++|.+. .  ++.| |+...+=+=-..-..+.+.+|..+|......      .......+++.|-.
T Consensus       387 gmey~~t~n~kLAe~Ff~~A-~--ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH  463 (611)
T KOG1173|consen  387 GMEYMRTNNLKLAEKFFKQA-L--AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGH  463 (611)
T ss_pred             HHHHHHhccHHHHHHHHHHH-H--hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHH
Confidence            34567788999999999887 3  3444 5556665555555678899999999877631      11124557999999


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCC
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSP  163 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~  163 (170)
                      +|.+.+.+++|...|+.......   -|..+|+++-..|...|+++.|.+.|++  ...+.|+-.+...++..+...
T Consensus       464 ~~Rkl~~~~eAI~~~q~aL~l~~---k~~~~~asig~iy~llgnld~Aid~fhK--aL~l~p~n~~~~~lL~~aie~  535 (611)
T KOG1173|consen  464 AYRKLNKYEEAIDYYQKALLLSP---KDASTHASIGYIYHLLGNLDKAIDHFHK--ALALKPDNIFISELLKLAIED  535 (611)
T ss_pred             HHHHHhhHHHHHHHHHHHHHcCC---CchhHHHHHHHHHHHhcChHHHHHHHHH--HHhcCCccHHHHHHHHHHHHh
Confidence            99999999999999998765433   4668999999999999999999999995  447899999999888876543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.79  E-value=0.0012  Score=40.67  Aligned_cols=102  Identities=8%  Similarity=-0.018  Sum_probs=79.3

Q ss_pred             hhHHHHHHHhhcccchHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHH
Q 038114           44 STYACLISTCSSLRSLQLGRKVHDHILSSKS--QPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAI  121 (170)
Q Consensus        44 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~l  121 (170)
                      .++-.+...+.+.|++++|.+.|..+.+...  ......+..+...+.+.|++++|.+.|+...............+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            4566677778889999999999999987531  22245677789999999999999999999876432102234567777


Q ss_pred             HHHHhCCCChHHHHHHHHHHHhCC
Q 038114          122 IAGVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus       122 i~~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      ...+...|+.++|...+++..+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHC
Confidence            788889999999999999998774

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.

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

Probab=97.78  E-value=0.00094  Score=45.79  Aligned_cols=109  Identities=14%  Similarity=0.069  Sum_probs=84.7

Q ss_pred             ccchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHH-hhcccc--hHHHHHHHHHHHhcCCCCCHHH
Q 038114            5 LKTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLIST-CSSLRS--LQLGRKVHDHILSSKSQPDVVL   80 (170)
Q Consensus         5 ~~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~-~~~~~~--~~~a~~~~~~m~~~~~~~~~~~   80 (170)
                      ..+...|. +-..|...|++++|...|++. .+... -+...+..+-.+ +...|+  .++|.+++++..+.. +-+...
T Consensus        70 P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~A-l~l~P-~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~a  146 (198)
T PRK10370         70 PQNSEQWALLGEYYLWRNDYDNALLAYRQA-LQLRG-ENAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTA  146 (198)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH-HHhCC-CCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhH
Confidence            34666777 788999999999999999998 55432 355566666665 356666  599999999999875 336889


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHH
Q 038114           81 QNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWN  119 (170)
Q Consensus        81 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~  119 (170)
                      +..+-..+.+.|++++|...|+++.+...   |+..-+.
T Consensus       147 l~~LA~~~~~~g~~~~Ai~~~~~aL~l~~---~~~~r~~  182 (198)
T PRK10370        147 LMLLASDAFMQADYAQAIELWQKVLDLNS---PRVNRTQ  182 (198)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCC---CCccHHH
Confidence            99999999999999999999999987655   4444443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=97.78  E-value=0.0018  Score=45.35  Aligned_cols=132  Identities=9%  Similarity=0.006  Sum_probs=92.7

Q ss_pred             hHHHhhhcccCCHHHHHHHHHHHHhhCCC-Ccch-hhHHHHHHHhhcc--------cchHHHHHHHHHHHhcCCCCCHHH
Q 038114           11 FTFYNSQPIQNLYNEALVAFDFLQNNTNF-RIRP-STYACLISTCSSL--------RSLQLGRKVHDHILSSKSQPDVVL   80 (170)
Q Consensus        11 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~p~~-~~~~~li~~~~~~--------~~~~~a~~~~~~m~~~~~~~~~~~   80 (170)
                      +.+...+.+.|++++|...++.+ .+... .|.. .++..+-.++...        |+.+.|.+.|..+.+.... +...
T Consensus        74 ~~la~~~~~~~~~~~A~~~~~~~-l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~  151 (235)
T TIGR03302        74 LDLAYAYYKSGDYAEAIAAADRF-IRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYA  151 (235)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHH-HHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhH
Confidence            33788999999999999999998 54332 1221 1333333334332        7889999999999875322 2222


Q ss_pred             HH-----------------HHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114           81 QN-----------------YILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus        81 ~~-----------------~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      +.                 .+-..|.+.|++++|...|++..+.....+.....+..+...+...|++++|..+++.+..
T Consensus       152 ~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~  231 (235)
T TIGR03302       152 PDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGA  231 (235)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            21                 3445678889999999999998765331123457888999999999999999999998875


Q ss_pred             C
Q 038114          144 R  144 (170)
Q Consensus       144 ~  144 (170)
                      .
T Consensus       232 ~  232 (235)
T TIGR03302       232 N  232 (235)
T ss_pred             h
Confidence            4

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).

>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=97.76  E-value=0.00049  Score=39.85  Aligned_cols=95  Identities=11%  Similarity=0.038  Sum_probs=76.8

Q ss_pred             HHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHH
Q 038114           46 YACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGV  125 (170)
Q Consensus        46 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~  125 (170)
                      +..+...+...|++++|...+.+..+.. +.+...+..+...+...+++++|.+.|+.......   .+..++..+...+
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~~~~~   78 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDP---DNAKAYYNLGLAY   78 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC---cchhHHHHHHHHH
Confidence            4556667778899999999999998763 33457788888999999999999999998776544   3446788888999


Q ss_pred             hCCCChHHHHHHHHHHHhC
Q 038114          126 ASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus       126 ~~~g~~~~a~~l~~~m~~~  144 (170)
                      ...|+++.|...+....+.
T Consensus        79 ~~~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          79 YKLGKYEEALEAYEKALEL   97 (100)
T ss_pred             HHHHhHHHHHHHHHHHHcc
Confidence            9999999999999887643

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

Probab=97.74  E-value=0.0017  Score=45.06  Aligned_cols=127  Identities=9%  Similarity=-0.063  Sum_probs=97.2

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      |--+|.+.|+...|..-+++. .+.. +-+..++..+-..|.+.|+.+.|.+-|+...+.. +-+-.+.|..--.+|..|
T Consensus        41 Lal~YL~~gd~~~A~~nlekA-L~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~qg  117 (250)
T COG3063          41 LALGYLQQGDYAQAKKNLEKA-LEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQG  117 (250)
T ss_pred             HHHHHHHCCCHHHHHHHHHHH-HHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhCC
Confidence            567888999999999999888 4432 1244478888888999999999999999888753 334667888888889999


Q ss_pred             CHHHHHHHHhhcccC-CCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           93 SLEDARVVSDEMPQR-NVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~-~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      .+++|...|+..... ..  .--..||..+--+..+.|+++.|...|+.-.+.
T Consensus       118 ~~~eA~q~F~~Al~~P~Y--~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~  168 (250)
T COG3063         118 RPEEAMQQFERALADPAY--GEPSDTLENLGLCALKAGQFDQAEEYLKRALEL  168 (250)
T ss_pred             ChHHHHHHHHHHHhCCCC--CCcchhhhhhHHHHhhcCCchhHHHHHHHHHHh
Confidence            999999999976543 33  222357777777778889999999888876544

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

Probab=97.73  E-value=0.0034  Score=47.89  Aligned_cols=150  Identities=14%  Similarity=0.113  Sum_probs=97.6

Q ss_pred             hHHHhhhcccCCHHHHHHHHHHHHhhCCC-CcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038114           11 FTFYNSQPIQNLYNEALVAFDFLQNNTNF-RIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYG   89 (170)
Q Consensus        11 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~   89 (170)
                      ||+--.+-..|+.++|++.|-++   +++ .-+..++..+-+.|....+...|.+++-+...- ++-|+.+.+-|-..|-
T Consensus       528 fniglt~e~~~~ldeald~f~kl---h~il~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~dlyd  603 (840)
T KOG2003|consen  528 FNIGLTAEALGNLDEALDCFLKL---HAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADLYD  603 (840)
T ss_pred             HHhcccHHHhcCHHHHHHHHHHH---HHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhh
Confidence            44444556667788887777665   222 234445556666666666666666666554322 3445667777777777


Q ss_pred             cCCCHHHHHHHHhhcc--------------------------------cCCCCCCCChhhHHHHHHHH-hCCCChHHHHH
Q 038114           90 KCGSLEDARVVSDEMP--------------------------------QRNVIESPDLASWNAIIAGV-ASPSNANEAMS  136 (170)
Q Consensus        90 ~~~~~~~a~~~~~~m~--------------------------------~~~~~~~p~~~~~~~li~~~-~~~g~~~~a~~  136 (170)
                      +.|+-.+|.+.+-+--                                ..-  ..|+..-|-.+|..| .|.|++.+|++
T Consensus       604 qegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rrsgnyqka~d  681 (840)
T KOG2003|consen  604 QEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRSGNYQKAFD  681 (840)
T ss_pred             cccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhcccHHHHHH
Confidence            7776666665432210                                111  289999999998666 45689999999


Q ss_pred             HHHHHHhCCCCCCHhhHHHHHHHhcCCCccc
Q 038114          137 LFSEMRDRELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus       137 l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      ++++... .+.-|..+..-|++.|...|.-|
T Consensus       682 ~yk~~hr-kfpedldclkflvri~~dlgl~d  711 (840)
T KOG2003|consen  682 LYKDIHR-KFPEDLDCLKFLVRIAGDLGLKD  711 (840)
T ss_pred             HHHHHHH-hCccchHHHHHHHHHhccccchh
Confidence            9988754 36668888888889888877544

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.71  E-value=0.0019  Score=52.35  Aligned_cols=125  Identities=9%  Similarity=0.064  Sum_probs=104.0

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchh-hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPS-TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC   91 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~   91 (170)
                      |-....+.|..++|..+++.. .+  +.|+.. ....+..++.+.+++++|....++..... +-+......+-.++.+.
T Consensus        92 La~i~~~~g~~~ea~~~l~~~-~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a~~l~~~  167 (694)
T PRK15179         92 VARALEAAHRSDEGLAVWRGI-HQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLEAKSWDEI  167 (694)
T ss_pred             HHHHHHHcCCcHHHHHHHHHH-Hh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHHHHHHHHh
Confidence            788888999999999999998 43  456544 67778888999999999999999998874 33577888888899999


Q ss_pred             CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           92 GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      |++++|..+|++....+.   -+..++-.+-..+-..|+.++|...|+.-.+.
T Consensus       168 g~~~~A~~~y~~~~~~~p---~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        168 GQSEQADACFERLSRQHP---EFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             cchHHHHHHHHHHHhcCC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999987432   34678888888999999999999999987654

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

Probab=97.71  E-value=0.0002  Score=56.14  Aligned_cols=128  Identities=16%  Similarity=0.113  Sum_probs=66.1

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcc-hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIR-PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC   91 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~   91 (170)
                      +-..|-..|.++.|+..|++. ...  .|+ +..|+-|-.+.-..|++.+|...|....... .-.....+.|-..|...
T Consensus       292 la~iYyeqG~ldlAI~~Ykra-l~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~  367 (966)
T KOG4626|consen  292 LACIYYEQGLLDLAIDTYKRA-LEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQ  367 (966)
T ss_pred             eEEEEeccccHHHHHHHHHHH-Hhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHh
Confidence            334444555555555555554 221  222 2345555555555555555555555555432 11244555555555555


Q ss_pred             CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCC
Q 038114           92 GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPD  149 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~  149 (170)
                      |.++.|.++|....+-..   --...+|.+...|-..|+.++|...+++-.  .+.|+
T Consensus       368 ~~~e~A~~ly~~al~v~p---~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal--rI~P~  420 (966)
T KOG4626|consen  368 GKIEEATRLYLKALEVFP---EFAAAHNNLASIYKQQGNLDDAIMCYKEAL--RIKPT  420 (966)
T ss_pred             ccchHHHHHHHHHHhhCh---hhhhhhhhHHHHHHhcccHHHHHHHHHHHH--hcCch
Confidence            666666655554443211   112456666666666677777776666544  34554

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

Probab=97.69  E-value=0.0018  Score=49.15  Aligned_cols=158  Identities=12%  Similarity=-0.007  Sum_probs=116.8

Q ss_pred             cchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            6 KTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         6 ~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      +....|+ +-+-|....+...|.+-|+.. .+-+ +-|-..|-.|=.+|.-.+...=|+-.|++..+-. +-|+..|.+|
T Consensus       362 ~~~~aWTLmGHEyvEmKNt~AAi~sYRrA-vdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aL  438 (559)
T KOG1155|consen  362 KYLSAWTLMGHEYVEMKNTHAAIESYRRA-VDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVAL  438 (559)
T ss_pred             chhHHHHHhhHHHHHhcccHHHHHHHHHH-HhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHH
Confidence            3456788 578888888888888888887 3321 2355677888888888888888888888887753 5579999999


Q ss_pred             HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC----C-CCCCHhhHHH-HHH
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR----E-LIPDGLTVRS-LLC  158 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~----~-~~p~~~t~~~-ll~  158 (170)
                      -.+|.+.++.++|.+.|......|-   .+...+..+...+-+.++.++|...|++-.+.    | +.|...--.. |-.
T Consensus       439 G~CY~kl~~~~eAiKCykrai~~~d---te~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~  515 (559)
T KOG1155|consen  439 GECYEKLNRLEEAIKCYKRAILLGD---TEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAE  515 (559)
T ss_pred             HHHHHHhccHHHHHHHHHHHHhccc---cchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHH
Confidence            9999999999999999998876554   34568889999999999999999988877652    4 3332222222 333


Q ss_pred             HhcCCCccccC
Q 038114          159 ACTSPSNVLYL  169 (170)
Q Consensus       159 ~~~~~g~~e~~  169 (170)
                      -+.+.++++++
T Consensus       516 ~f~k~~~~~~A  526 (559)
T KOG1155|consen  516 YFKKMKDFDEA  526 (559)
T ss_pred             HHHhhcchHHH
Confidence            44556655543

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

Probab=97.68  E-value=0.0029  Score=46.10  Aligned_cols=129  Identities=10%  Similarity=0.032  Sum_probs=93.7

Q ss_pred             cccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhc-CCCCCH--HHHHHHHHHHHcCCCH
Q 038114           18 PIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSS-KSQPDV--VLQNYILNMYGKCGSL   94 (170)
Q Consensus        18 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~--~~~~~li~~~~~~~~~   94 (170)
                      .-+.+.++|.++|-+| .+.. +-+..+--+|=+.|-+.|+.+.|.+++..+.++ +.+.+.  ...-.|-+=|.+.|-+
T Consensus        46 LLs~Q~dKAvdlF~e~-l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~  123 (389)
T COG2956          46 LLSNQPDKAVDLFLEM-LQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLL  123 (389)
T ss_pred             HhhcCcchHHHHHHHH-HhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhh
Confidence            3457889999999999 4411 122234456777888999999999999999875 233222  2333455567788999


Q ss_pred             HHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHh
Q 038114           95 EDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGL  151 (170)
Q Consensus        95 ~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~  151 (170)
                      +.|+.+|..+.+.+.   .-...--.++..|-...+|++|++.-+++.+.+-.+..+
T Consensus       124 DRAE~~f~~L~de~e---fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~  177 (389)
T COG2956         124 DRAEDIFNQLVDEGE---FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRV  177 (389)
T ss_pred             hHHHHHHHHHhcchh---hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchh
Confidence            999999999887544   234567788899999999999999999998776555444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.65  E-value=0.0022  Score=42.66  Aligned_cols=122  Identities=10%  Similarity=-0.086  Sum_probs=79.9

Q ss_pred             chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCC--CHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHH
Q 038114           42 RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQP--DVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWN  119 (170)
Q Consensus        42 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~  119 (170)
                      ....+..+...+...|++++|...|.........+  ...+|..+-..|...|++++|.+.++.......   ....+++
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~---~~~~~~~  110 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNP---FLPQALN  110 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc---CcHHHHH
Confidence            34456777777778899999999999887653222  245788888999999999999999988765422   2334566


Q ss_pred             HHHHHHh-------CCCChHHHHHHHHHHHhC---CCCCCHhhHHHHHHHhcCCCcc
Q 038114          120 AIIAGVA-------SPSNANEAMSLFSEMRDR---ELIPDGLTVRSLLCACTSPSNV  166 (170)
Q Consensus       120 ~li~~~~-------~~g~~~~a~~l~~~m~~~---~~~p~~~t~~~ll~~~~~~g~~  166 (170)
                      .+...+.       ..|+++.|...+++-...   .+.++...+..+...+...|.+
T Consensus       111 ~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~~~~~~~~~~~~~~~  167 (168)
T CHL00033        111 NMAVICHYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGNYIEAQNWLKITGRF  167 (168)
T ss_pred             HHHHHHHHhhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHhcCC
Confidence            6666666       788888777666654321   2333433344444444444443

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

Probab=97.65  E-value=0.00015  Score=42.42  Aligned_cols=80  Identities=13%  Similarity=0.079  Sum_probs=34.1

Q ss_pred             cCCHHHHHHHHHHHHhhCCC-CcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHH
Q 038114           20 QNLYNEALVAFDFLQNNTNF-RIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDAR   98 (170)
Q Consensus        20 ~~~~~~a~~~~~~m~~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~   98 (170)
                      .|+++.|+.+++++ ..... .|+...+-.+-.++.+.|+++.|..+++. .+.+.. +....-.+-.++.+.|++++|.
T Consensus         2 ~~~y~~Ai~~~~k~-~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKL-LELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHH-HHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHH-HHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHHHHH
Confidence            34555555555555 32221 12333333345555555555555555555 211111 1222223344455555555555


Q ss_pred             HHHh
Q 038114           99 VVSD  102 (170)
Q Consensus        99 ~~~~  102 (170)
                      ++|+
T Consensus        79 ~~l~   82 (84)
T PF12895_consen   79 KALE   82 (84)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            5554

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

Probab=97.62  E-value=0.0021  Score=48.18  Aligned_cols=91  Identities=7%  Similarity=-0.083  Sum_probs=68.6

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCC
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGS   93 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~   93 (170)
                      -..+...|++++|+..|++. ..... -+...|..+-.++...|++++|...++...+.. +.+...|..+-.+|.+.|+
T Consensus         9 a~~a~~~~~~~~Ai~~~~~A-l~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQA-IDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHH-HHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence            44566778888888888888 54332 345567777777888888888888888887753 3356778888888888888


Q ss_pred             HHHHHHHHhhcccC
Q 038114           94 LEDARVVSDEMPQR  107 (170)
Q Consensus        94 ~~~a~~~~~~m~~~  107 (170)
                      +++|...|+...+.
T Consensus        86 ~~eA~~~~~~al~l   99 (356)
T PLN03088         86 YQTAKAALEKGASL   99 (356)
T ss_pred             HHHHHHHHHHHHHh
Confidence            88888888887764

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

Probab=97.57  E-value=0.0031  Score=49.84  Aligned_cols=124  Identities=12%  Similarity=0.150  Sum_probs=78.5

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC-HHHHHHHHHH
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD-VVLQNYILNM   87 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~   87 (170)
                      .|+ |-.++-..|+..+|...|.+. .... .......+-|-+.+...|.++.|..+|..-.+-  .|+ ...+|.|-..
T Consensus       322 Ay~NlanALkd~G~V~ea~~cYnka-L~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i  397 (966)
T KOG4626|consen  322 AYNNLANALKDKGSVTEAVDCYNKA-LRLC-PNHADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASI  397 (966)
T ss_pred             HHhHHHHHHHhccchHHHHHHHHHH-HHhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHH
Confidence            455 777777778888888888776 4432 234456677777777778888888777776653  333 5567777777


Q ss_pred             HHcCCCHHHHHHHHhhcccCCCCCCCC-hhhHHHHHHHHhCCCChHHHHHHHHHH
Q 038114           88 YGKCGSLEDARVVSDEMPQRNVIESPD-LASWNAIIAGVASPSNANEAMSLFSEM  141 (170)
Q Consensus        88 ~~~~~~~~~a~~~~~~m~~~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~l~~~m  141 (170)
                      |-+.|++++|...|++...-    +|+ ...|+.+-..|-..|+.+.|.+.+..-
T Consensus       398 ~kqqgnl~~Ai~~YkealrI----~P~fAda~~NmGnt~ke~g~v~~A~q~y~rA  448 (966)
T KOG4626|consen  398 YKQQGNLDDAIMCYKEALRI----KPTFADALSNMGNTYKEMGDVSAAIQCYTRA  448 (966)
T ss_pred             HHhcccHHHHHHHHHHHHhc----CchHHHHHHhcchHHHHhhhHHHHHHHHHHH
Confidence            77777777777777765432    222 234555555555555555555555433

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

Probab=97.57  E-value=0.00018  Score=42.10  Aligned_cols=81  Identities=11%  Similarity=0.109  Sum_probs=59.4

Q ss_pred             ccchHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHH
Q 038114           56 LRSLQLGRKVHDHILSSKS-QPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEA  134 (170)
Q Consensus        56 ~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a  134 (170)
                      .|+++.|..+++.+.+... .++...+-.+-.+|.+.|++++|..+++. ...+.   .+....-.+..+|...|++++|
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~---~~~~~~~l~a~~~~~l~~y~eA   77 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP---SNPDIHYLLARCLLKLGKYEEA   77 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH---CHHHHHHHHHHHHHHTT-HHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC---CCHHHHHHHHHHHHHhCCHHHH
Confidence            4789999999999988643 22555555689999999999999999998 22221   1223334557889999999999


Q ss_pred             HHHHHH
Q 038114          135 MSLFSE  140 (170)
Q Consensus       135 ~~l~~~  140 (170)
                      +..+++
T Consensus        78 i~~l~~   83 (84)
T PF12895_consen   78 IKALEK   83 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            999875

>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=97.57  E-value=0.0015  Score=41.34  Aligned_cols=25  Identities=0%  Similarity=-0.174  Sum_probs=21.2

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHH
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFL   33 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m   33 (170)
                      .++. +|.++++.|+.+....+.+..
T Consensus         3 ~~~~~ii~al~r~g~~~~i~~~i~~~   28 (126)
T PF12921_consen    3 ELLCNIIYALGRSGQLDSIKSYIKSV   28 (126)
T ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHh
Confidence            3455 899999999999999999766

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

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.54  E-value=0.0059  Score=49.58  Aligned_cols=126  Identities=7%  Similarity=-0.085  Sum_probs=99.8

Q ss_pred             CCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhH
Q 038114           39 FRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASW  118 (170)
Q Consensus        39 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~  118 (170)
                      +..++..+-.|-......|..++|..+++...+.. +-+......+...+.+.+++++|+..++.......   -+....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p---~~~~~~  157 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGS---SSAREI  157 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCC---CCHHHH
Confidence            44557778888888889999999999999998863 33477888899999999999999999999887644   345667


Q ss_pred             HHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccccC
Q 038114          119 NAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       119 ~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      +.+-.++...|++++|..+|++....+ .-+..++..+-.++-..|+.+++
T Consensus       158 ~~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A  207 (694)
T PRK15179        158 LLEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRA  207 (694)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHH
Confidence            777899999999999999999999832 22356666666666666666543

>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=97.53  E-value=0.0009  Score=37.22  Aligned_cols=52  Identities=10%  Similarity=0.146  Sum_probs=36.9

Q ss_pred             cccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           55 SLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        55 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      ..|++++|.++|+...+.. +-+...+-.+..+|.+.|++++|.++++.+...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4577778888888777653 225666667778888888888888888877765

...

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

Probab=97.53  E-value=0.013  Score=43.47  Aligned_cols=149  Identities=12%  Similarity=-0.043  Sum_probs=91.3

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHH---HHHHhhcccchHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHH
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYAC---LISTCSSLRSLQLGRKVHDHILSSKSQPD-VVLQNYILNMYG   89 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~---li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~   89 (170)
                      ...+...|++++|...+++. .... +-+...+..   ........+....+.+.+..  .....|+ ......+-..+.
T Consensus        50 a~~~~~~g~~~~A~~~~~~~-l~~~-P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~  125 (355)
T cd05804          50 ALSAWIAGDLPKALALLEQL-LDDY-PRDLLALKLHLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLE  125 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHH-HHHC-CCcHHHHHHhHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHH
Confidence            44556778888888888887 4432 223334432   22222234455555555544  1222333 344455566778


Q ss_pred             cCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCC-CCCH--hhHHHHHHHhcCCCcc
Q 038114           90 KCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDREL-IPDG--LTVRSLLCACTSPSNV  166 (170)
Q Consensus        90 ~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~-~p~~--~t~~~ll~~~~~~g~~  166 (170)
                      ..|++++|.+.++...+...   .+...+..+-..+...|++++|..++.+.....- .|+.  ..|..+...+...|+.
T Consensus       126 ~~G~~~~A~~~~~~al~~~p---~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~  202 (355)
T cd05804         126 EAGQYDRAEEAARRALELNP---DDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDY  202 (355)
T ss_pred             HcCCHHHHHHHHHHHHhhCC---CCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCH
Confidence            88888888888888876543   3455677777888888889999888887765432 2332  2355677777777776


Q ss_pred             ccC
Q 038114          167 LYL  169 (170)
Q Consensus       167 e~~  169 (170)
                      +++
T Consensus       203 ~~A  205 (355)
T cd05804         203 EAA  205 (355)
T ss_pred             HHH
Confidence            653

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.

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

Probab=97.49  E-value=0.0048  Score=47.10  Aligned_cols=124  Identities=16%  Similarity=0.100  Sum_probs=93.4

Q ss_pred             hHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHH
Q 038114           11 FTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD-VVLQNYILNMYG   89 (170)
Q Consensus        11 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~   89 (170)
                      |..-..+-..|++++|+..++.+ ... .+-|+.........+.+.++..+|.+.++.+...  .|+ ....-.+-.+|.
T Consensus       310 YG~A~~~~~~~~~d~A~~~l~~L-~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all  385 (484)
T COG4783         310 YGRALQTYLAGQYDEALKLLQPL-IAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALL  385 (484)
T ss_pred             HHHHHHHHHhcccchHHHHHHHH-HHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHH
Confidence            33444556778899999999887 432 3345556667777889999999999999999875  454 667777788999


Q ss_pred             cCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHH
Q 038114           90 KCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEM  141 (170)
Q Consensus        90 ~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m  141 (170)
                      +.|++++|.+++..-.....   -|...|..|-.+|...|+..++..-..|.
T Consensus       386 ~~g~~~eai~~L~~~~~~~p---~dp~~w~~LAqay~~~g~~~~a~~A~AE~  434 (484)
T COG4783         386 KGGKPQEAIRILNRYLFNDP---EDPNGWDLLAQAYAELGNRAEALLARAEG  434 (484)
T ss_pred             hcCChHHHHHHHHHHhhcCC---CCchHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            99999999999998776544   56788999998887777666665544444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=97.49  E-value=0.0078  Score=43.90  Aligned_cols=147  Identities=13%  Similarity=0.184  Sum_probs=97.2

Q ss_pred             chhHhHHHhhhcccCC-----HHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhc--c----cchHHHHHHHHHHHhcCC-
Q 038114            7 TQLRFTFYNSQPIQNL-----YNEALVAFDFLQNNTNFRIRPSTYACLISTCSS--L----RSLQLGRKVHDHILSSKS-   74 (170)
Q Consensus         7 ~~~~~~li~~~~~~~~-----~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~--~----~~~~~a~~~~~~m~~~~~-   74 (170)
                      ....+.+...++-.+.     +++.+.+++.| .+.|++-+..+|-+..-....  .    .....+..+|+.|++... 
T Consensus        57 ~~~~~~la~~l~~~~~~p~~~~~~~~~~y~~L-~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~f  135 (297)
T PF13170_consen   57 GNHRFILAALLDISFEDPEEAFKEVLDIYEKL-KEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPF  135 (297)
T ss_pred             ccHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH-HHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCcc
Confidence            3344444333344444     45667899999 999999888887764444333  2    236788999999998754 


Q ss_pred             --CCCHHHHHHHHHHHHcCCC----HHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCC--hHHHHHHHHHHHhCCC
Q 038114           75 --QPDVVLQNYILNMYGKCGS----LEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSN--ANEAMSLFSEMRDREL  146 (170)
Q Consensus        75 --~~~~~~~~~li~~~~~~~~----~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~--~~~a~~l~~~m~~~~~  146 (170)
                        .++-..+..|+..  +..+    .+.++.+|+.+...|+...-+....+.++..+....+  ..++.++++.+.+.|+
T Consensus       136 LTs~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~  213 (297)
T PF13170_consen  136 LTSPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGV  213 (297)
T ss_pred             ccCccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCC
Confidence              3344566666554  3333    4778889999998888422234555555555544444  3488999999999999


Q ss_pred             CCCHhhHHHH
Q 038114          147 IPDGLTVRSL  156 (170)
Q Consensus       147 ~p~~~t~~~l  156 (170)
                      ++....|..+
T Consensus       214 kik~~~yp~l  223 (297)
T PF13170_consen  214 KIKYMHYPTL  223 (297)
T ss_pred             ccccccccHH
Confidence            8887776644

>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=97.49  E-value=0.00065  Score=44.04  Aligned_cols=73  Identities=14%  Similarity=0.159  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh-----CCCCCCHhhH
Q 038114           79 VLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD-----RELIPDGLTV  153 (170)
Q Consensus        79 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~-----~~~~p~~~t~  153 (170)
                      .....++..+...|++++|.++.+.......   .|...|..+|.++...|+...|.+.|+.+..     .|+.|+..|-
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP---~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALDP---YDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHST---T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcCC---CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            4566677778889999999999998887654   6788999999999999999999999988853     4888888774


Q ss_pred             H
Q 038114          154 R  154 (170)
Q Consensus       154 ~  154 (170)
                      .
T Consensus       140 ~  140 (146)
T PF03704_consen  140 A  140 (146)
T ss_dssp             H
T ss_pred             H
Confidence            3

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

>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=97.47  E-value=0.012  Score=46.28  Aligned_cols=131  Identities=13%  Similarity=0.088  Sum_probs=102.9

Q ss_pred             cchhHhH---HHhhhcccCCHHHHHHHHHHHHhhCCCCcc-hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHH
Q 038114            6 KTQLRFT---FYNSQPIQNLYNEALVAFDFLQNNTNFRIR-PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQ   81 (170)
Q Consensus         6 ~~~~~~~---li~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~   81 (170)
                      |....|.   +-..|-..|++++|++.+++. ..+.  |+ +..|.+--+.+-..|++.+|.+..+..++.. .-|...-
T Consensus       190 p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~a-I~ht--Pt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiN  265 (517)
T PF12569_consen  190 PSTLLWTLYFLAQHYDYLGDYEKALEYIDKA-IEHT--PTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYIN  265 (517)
T ss_pred             chHHHHHHHHHHHHHHHhCCHHHHHHHHHHH-HhcC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHH
Confidence            4444565   467788999999999999988 5543  54 5578888888999999999999999999876 4478899


Q ss_pred             HHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhH--------HHHHHHHhCCCChHHHHHHHHHHH
Q 038114           82 NYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASW--------NAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        82 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~--------~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      +-..+.+.|+|++++|.+++......+.  .|-...+        ...-.+|.+.|++..|+.-|....
T Consensus       266 sK~aKy~LRa~~~e~A~~~~~~Ftr~~~--~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~  332 (517)
T PF12569_consen  266 SKCAKYLLRAGRIEEAEKTASLFTREDV--DPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVL  332 (517)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHhhcCCCC--CcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            9999999999999999999998877665  3332222        233478889999998887776654

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 [], [].

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

Probab=97.46  E-value=0.00089  Score=54.75  Aligned_cols=131  Identities=13%  Similarity=0.105  Sum_probs=103.5

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhc-CCCCCHHHHHHHHHHHHcC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSS-KSQPDVVLQNYILNMYGKC   91 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~   91 (170)
                      +-..++..|++.+|+.+|.+. ++... -...+|--+-++|...|++..|.++|+...+. .-.-++.+.+.|-+++.++
T Consensus       652 IgiVLA~kg~~~~A~dIFsqV-rEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~  729 (1018)
T KOG2002|consen  652 IGIVLAEKGRFSEARDIFSQV-REATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEA  729 (1018)
T ss_pred             hhhhhhhccCchHHHHHHHHH-HHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHh
Confidence            777889999999999999999 65543 34567888899999999999999999987654 4566789999999999999


Q ss_pred             CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHH------------------hCCCChHHHHHHHHHHHhCCCC
Q 038114           92 GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGV------------------ASPSNANEAMSLFSEMRDRELI  147 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~------------------~~~g~~~~a~~l~~~m~~~~~~  147 (170)
                      |.+.+|.+..........  .-..+-||..+-..                  ...+..+.|.++|.+|...+-.
T Consensus       730 ~~~~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  730 GKLQEAKEALLKARHLAP--SNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             hhHHHHHHHHHHHHHhCC--ccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            999999998887766655  44446777766333                  2235677889999999887643

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.45  E-value=0.0087  Score=39.93  Aligned_cols=114  Identities=11%  Similarity=0.042  Sum_probs=76.0

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHH
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSSKSQPD--VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAII  122 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li  122 (170)
                      .+..+-..+...|++++|...|++..+....++  ...+..+-..+.+.|++++|...+.+......   -+...+..+.
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p---~~~~~~~~lg  113 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNP---KQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc---ccHHHHHHHH
Confidence            566666777788999999999998876543322  46788888889999999999999988776432   2344555566


Q ss_pred             HHHhCCCC--------------hHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCc
Q 038114          123 AGVASPSN--------------ANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSN  165 (170)
Q Consensus       123 ~~~~~~g~--------------~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~  165 (170)
                      ..+...|+              +++|.+++.+...  ..|+  .|..++..+...|+
T Consensus       114 ~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~--~~p~--~~~~~~~~~~~~~~  166 (172)
T PRK02603        114 VIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIR--LAPN--NYIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHh--hCch--hHHHHHHHHHhcCc
Confidence            66666555              3455555554443  2333  36667766666554

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

Probab=97.45  E-value=0.005  Score=46.97  Aligned_cols=144  Identities=10%  Similarity=0.074  Sum_probs=99.3

Q ss_pred             hcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHH
Q 038114           17 QPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLED   96 (170)
Q Consensus        17 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~   96 (170)
                      -..+|+++.|.+.|.+. ....-......||+=+. +-..|++++|+..|-.+..- +.-+..+.-.+-..|--..++.+
T Consensus       500 ~f~ngd~dka~~~ykea-l~ndasc~ealfniglt-~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aq  576 (840)
T KOG2003|consen  500 AFANGDLDKAAEFYKEA-LNNDASCTEALFNIGLT-AEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQ  576 (840)
T ss_pred             eeecCcHHHHHHHHHHH-HcCchHHHHHHHHhccc-HHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHH
Confidence            34689999999999999 55444444444554333 45678999999988776432 23356677777888888899999


Q ss_pred             HHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHH--------------H------------------HhC
Q 038114           97 ARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSE--------------M------------------RDR  144 (170)
Q Consensus        97 a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~--------------m------------------~~~  144 (170)
                      |.+++......  + +-|+...+-+-..|-+.|+-.+|++++-+              +                  +..
T Consensus       577 aie~~~q~~sl--i-p~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaa  653 (840)
T KOG2003|consen  577 AIELLMQANSL--I-PNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAA  653 (840)
T ss_pred             HHHHHHHhccc--C-CCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            99988665432  2 45667777777888777777777654221              1                  122


Q ss_pred             CCCCCHhhHHHHHHHhcC-CCcc
Q 038114          145 ELIPDGLTVRSLLCACTS-PSNV  166 (170)
Q Consensus       145 ~~~p~~~t~~~ll~~~~~-~g~~  166 (170)
                      =++|+..-|..++..|.+ .|+.
T Consensus       654 liqp~~~kwqlmiasc~rrsgny  676 (840)
T KOG2003|consen  654 LIQPNQSKWQLMIASCFRRSGNY  676 (840)
T ss_pred             hcCccHHHHHHHHHHHHHhcccH
Confidence            468999999999988864 4543

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

Probab=97.42  E-value=0.0036  Score=40.57  Aligned_cols=122  Identities=8%  Similarity=0.089  Sum_probs=83.2

Q ss_pred             hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChh--hH
Q 038114           43 PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD--VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLA--SW  118 (170)
Q Consensus        43 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~--~~  118 (170)
                      ...|..++.... .++...+...++.+.+....-.  ....=.+-..+...|++++|...|+.......  .|+..  ..
T Consensus        12 ~~~y~~~~~~~~-~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~--d~~l~~~a~   88 (145)
T PF09976_consen   12 SALYEQALQALQ-AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAP--DPELKPLAR   88 (145)
T ss_pred             HHHHHHHHHHHH-CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCC--CHHHHHHHH
Confidence            345666677764 7788889999999988632211  22222344678889999999999999987654  44432  33


Q ss_pred             HHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccccC
Q 038114          119 NAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       119 ~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      -.+...+...|++++|+..++.......  ....+...=..+.+.|+.+++
T Consensus        89 l~LA~~~~~~~~~d~Al~~L~~~~~~~~--~~~~~~~~Gdi~~~~g~~~~A  137 (145)
T PF09976_consen   89 LRLARILLQQGQYDEALATLQQIPDEAF--KALAAELLGDIYLAQGDYDEA  137 (145)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHhccCcch--HHHHHHHHHHHHHHCCCHHHH
Confidence            4456888889999999999977443333  333455666777778876653

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

Probab=97.42  E-value=0.0046  Score=46.35  Aligned_cols=104  Identities=9%  Similarity=0.025  Sum_probs=82.8

Q ss_pred             HHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCC
Q 038114           51 STCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSN  130 (170)
Q Consensus        51 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~  130 (170)
                      ......|+++.|...|.+..+.. +-+...|..+-.+|.+.|++++|...++.......   .+...|..+-.+|...|+
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P---~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELDP---SLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc---CCHHHHHHHHHHHHHhCC
Confidence            34556789999999999998864 33578888999999999999999999999877643   356678888899999999


Q ss_pred             hHHHHHHHHHHHhCCCCCCHhhHHHHHHHh
Q 038114          131 ANEAMSLFSEMRDRELIPDGLTVRSLLCAC  160 (170)
Q Consensus       131 ~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~  160 (170)
                      +++|...|++..+.  .|+.......+..|
T Consensus        86 ~~eA~~~~~~al~l--~P~~~~~~~~l~~~  113 (356)
T PLN03088         86 YQTAKAALEKGASL--APGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            99999999988754  45555555555444

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

Probab=97.42  E-value=0.0077  Score=46.78  Aligned_cols=138  Identities=12%  Similarity=0.114  Sum_probs=84.1

Q ss_pred             HHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHcCCCHHHHHHHH
Q 038114           23 YNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQP-DVVLQNYILNMYGKCGSLEDARVVS  101 (170)
Q Consensus        23 ~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~  101 (170)
                      .+.....++.+.......|+. +|+..|+..-+...++.|..+|.+..+.+..+ ++.+++++|..||. ++.+-|.++|
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tL-v~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIF  424 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTL-VYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIF  424 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCce-ehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHH
Confidence            444555555552333334433 67777777777777777777777777777766 67777777776664 4566777777


Q ss_pred             h-hcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCH--hhHHHHHHHhcCCCcc
Q 038114          102 D-EMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDG--LTVRSLLCACTSPSNV  166 (170)
Q Consensus       102 ~-~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~--~t~~~ll~~~~~~g~~  166 (170)
                      + .|+..|-    +..--...+.-+...++-..+.-+|+.....++.|+.  ..|..+|+-=+.-|++
T Consensus       425 eLGLkkf~d----~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL  488 (656)
T KOG1914|consen  425 ELGLKKFGD----SPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDL  488 (656)
T ss_pred             HHHHHhcCC----ChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccH
Confidence            7 4444333    1223344555566667777777777777766544433  4566666655555554

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

Probab=97.40  E-value=0.0081  Score=51.39  Aligned_cols=135  Identities=12%  Similarity=0.089  Sum_probs=102.8

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHcC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKS-QPDVVLQNYILNMYGKC   91 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~   91 (170)
                      |..-|.+.++.++|.++|++|-++-|  -....|...+....+.++-+.|..++.+..+.-. .-++....-....-.+.
T Consensus      1536 L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1536 LLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhc
Confidence            67778888888888888888844434  5666788888888888888888888887766411 22455666666667788


Q ss_pred             CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhh
Q 038114           92 GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLT  152 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t  152 (170)
                      |+.+.+..+|+.......   -....|+..|..=.++|+.+.+..+|++....++.|-..-
T Consensus      1614 GDaeRGRtlfEgll~ayP---KRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmK 1671 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSAYP---KRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMK 1671 (1710)
T ss_pred             CCchhhHHHHHHHHhhCc---cchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhH
Confidence            888888888888765432   2345799999999999999999999999999988776543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.38  E-value=0.0051  Score=47.99  Aligned_cols=147  Identities=14%  Similarity=0.012  Sum_probs=107.8

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCC--CCcc----hhhHHHHHHHhhcccchHHHHHHHHHHHhc------CCCC-CHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTN--FRIR----PSTYACLISTCSSLRSLQLGRKVHDHILSS------KSQP-DVV   79 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~--~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~-~~~   79 (170)
                      +...|...+.+++|..++....+...  +.++    ..+++.|-..|-..|++++|.++|++....      +..+ ...
T Consensus       331 ~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~  410 (508)
T KOG1840|consen  331 LAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGK  410 (508)
T ss_pred             HHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhH
Confidence            67788889999999998876523222  2222    237899999999999999999999988753      1122 255


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHhh----cccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC------CCCCC
Q 038114           80 LQNYILNMYGKCGSLEDARVVSDE----MPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR------ELIPD  149 (170)
Q Consensus        80 ~~~~li~~~~~~~~~~~a~~~~~~----m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~------~~~p~  149 (170)
                      .++-|-..|.+.+..++|.++|.+    |+..|...+-...+|..|...|.+.|++++|+++.+.....      +..|+
T Consensus       411 ~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~~~~~~~~~~~~  490 (508)
T KOG1840|consen  411 PLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLNAREQRLGTASPT  490 (508)
T ss_pred             HHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcCCCCCcc
Confidence            778888889999999999999885    34445432334577999999999999999999998876521      35566


Q ss_pred             HhhHHHHHHH
Q 038114          150 GLTVRSLLCA  159 (170)
Q Consensus       150 ~~t~~~ll~~  159 (170)
                      ..........
T Consensus       491 ~~~~~~~~~~  500 (508)
T KOG1840|consen  491 VEDEKLRLAD  500 (508)
T ss_pred             hhHHHHhhhH
Confidence            6665555443

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

Probab=97.37  E-value=0.023  Score=39.62  Aligned_cols=152  Identities=5%  Similarity=-0.133  Sum_probs=113.8

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcc-hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCC-CHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIR-PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQP-DVVLQNYI   84 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~l   84 (170)
                      -.+|. +-..|.+.|..+.|.+-|++. ..  ..|+ -.+.|--=-.+|..|++++|...|+.....-.-+ ...+|..+
T Consensus        69 ~~a~~~~A~~Yq~~Ge~~~A~e~YrkA-ls--l~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~  145 (250)
T COG3063          69 YLAHLVRAHYYQKLGENDLADESYRKA-LS--LAPNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENL  145 (250)
T ss_pred             HHHHHHHHHHHHHcCChhhHHHHHHHH-Hh--cCCCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhh
Confidence            44566 688889999999999999988 43  3343 3345555555678889999999999988753322 35689999


Q ss_pred             HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCC
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g  164 (170)
                      .-+..+.|+++.|...|+.-.+...  . ...+.-.+.......|+.-.|..+++.....+. ++....-..|+.--..|
T Consensus       146 G~Cal~~gq~~~A~~~l~raL~~dp--~-~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~g  221 (250)
T COG3063         146 GLCALKAGQFDQAEEYLKRALELDP--Q-FPPALLELARLHYKAGDYAPARLYLERYQQRGG-AQAESLLLGIRIAKRLG  221 (250)
T ss_pred             HHHHhhcCCchhHHHHHHHHHHhCc--C-CChHHHHHHHHHHhcccchHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhc
Confidence            9999999999999999998776544  1 123555667777888999999999988877765 77777777777666666


Q ss_pred             cc
Q 038114          165 NV  166 (170)
Q Consensus       165 ~~  166 (170)
                      +.
T Consensus       222 d~  223 (250)
T COG3063         222 DR  223 (250)
T ss_pred             cH
Confidence            54

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.34  E-value=0.013  Score=39.10  Aligned_cols=79  Identities=15%  Similarity=-0.008  Sum_probs=61.3

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcc--hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIR--PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK   90 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   90 (170)
                      +...+...|++++|...|++. ......+.  ...+..+-.++.+.|+++.|...+.+..+.. +-+...+..+...|..
T Consensus        41 lg~~~~~~g~~~~A~~~~~~a-l~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~  118 (172)
T PRK02603         41 DGMSAQADGEYAEALENYEEA-LKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAVIYHK  118 (172)
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHH
Confidence            677888899999999999998 55433222  3578888888999999999999999998753 2246677777777777


Q ss_pred             CCC
Q 038114           91 CGS   93 (170)
Q Consensus        91 ~~~   93 (170)
                      .|+
T Consensus       119 ~g~  121 (172)
T PRK02603        119 RGE  121 (172)
T ss_pred             cCC
Confidence            666

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.31  E-value=0.015  Score=36.56  Aligned_cols=110  Identities=12%  Similarity=0.021  Sum_probs=65.7

Q ss_pred             HhHHHhhhcccCCHHHHHHHHHHHHhhCCCCcch--hhHHHHHHHhhcccchHHHHHHHHHHHhcCCC--CCHHHHHHHH
Q 038114           10 RFTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRP--STYACLISTCSSLRSLQLGRKVHDHILSSKSQ--PDVVLQNYIL   85 (170)
Q Consensus        10 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~~~~~li   85 (170)
                      .|+.-.++-..|+.++|+.+|++. ...|.....  ..+-.+-+++...|++++|..++++.......  .+......+-
T Consensus         4 ~~~~A~a~d~~G~~~~Ai~~Y~~A-l~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~A   82 (120)
T PF12688_consen    4 LYELAWAHDSLGREEEAIPLYRRA-LAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLA   82 (120)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHH-HHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHH
Confidence            455566667778888888888887 777765442  24445556667778888888888877664211  1112222223


Q ss_pred             HHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHh
Q 038114           86 NMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVA  126 (170)
Q Consensus        86 ~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~  126 (170)
                      -++...|+.++|.+.+-.......      ..|.--|..|+
T Consensus        83 l~L~~~gr~~eAl~~~l~~la~~~------~~y~ra~~~ya  117 (120)
T PF12688_consen   83 LALYNLGRPKEALEWLLEALAETL------PRYRRAIRFYA  117 (120)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHH------HHHHHHHHHHH
Confidence            355667888888877765543333      34554444443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.25  E-value=0.0086  Score=39.76  Aligned_cols=89  Identities=15%  Similarity=-0.078  Sum_probs=66.0

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCc--chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH-
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRI--RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYG-   89 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~-   89 (170)
                      +...+...|++++|...|+.. ......|  ...++..+-..+...|++++|...+....+.. +.....+..+...+. 
T Consensus        41 ~g~~~~~~g~~~~A~~~~~~a-l~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~i~~~  118 (168)
T CHL00033         41 DGMSAQSEGEYAEALQNYYEA-MRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAVICHY  118 (168)
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHH
Confidence            677778889999999999998 5443222  23477888888999999999999999988652 233556777777777 


Q ss_pred             ------cCCCHHHHHHHHhh
Q 038114           90 ------KCGSLEDARVVSDE  103 (170)
Q Consensus        90 ------~~~~~~~a~~~~~~  103 (170)
                            +.|+++.|...+.+
T Consensus       119 ~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        119 RGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             hhHHHHHcccHHHHHHHHHH
Confidence                  77887766655553

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

Probab=97.19  E-value=0.0093  Score=45.52  Aligned_cols=149  Identities=10%  Similarity=-0.029  Sum_probs=118.3

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +-.-|+-.++.+.|...|+.. .+.+. -....|+.+=+-|........|.+-++..++-. +.|-..|=.|-.+|.-.+
T Consensus       336 IaNYYSlr~eHEKAv~YFkRA-LkLNp-~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~  412 (559)
T KOG1155|consen  336 IANYYSLRSEHEKAVMYFKRA-LKLNP-KYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMK  412 (559)
T ss_pred             ehhHHHHHHhHHHHHHHHHHH-HhcCc-chhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhc
Confidence            345566667788899999888 54432 123367778888999999999999999888764 557888999999999999


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      .+.-|+-.|++......   -|...|.+|-..|.+.++.++|+..|..-...|-. +...+..|-+.|-+.++.++
T Consensus       413 Mh~YaLyYfqkA~~~kP---nDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~LakLye~l~d~~e  484 (559)
T KOG1155|consen  413 MHFYALYYFQKALELKP---NDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAKLYEELKDLNE  484 (559)
T ss_pred             chHHHHHHHHHHHhcCC---CchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHHHHHHHHhHHH
Confidence            99999999998776543   57899999999999999999999999988877733 66778888888776665544

>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=97.18  E-value=0.037  Score=43.54  Aligned_cols=134  Identities=13%  Similarity=0.044  Sum_probs=98.2

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhh---CC----------CCcchhhH--HHHHHHhhcccchHHHHHHHHHHHhcC
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNN---TN----------FRIRPSTY--ACLISTCSSLRSLQLGRKVHDHILSSK   73 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~---~~----------~~p~~~~~--~~li~~~~~~~~~~~a~~~~~~m~~~~   73 (170)
                      .|+ |-.-|....+..-..+++......   .+          -.|+...|  .-+-..|-..|+++.|.+..+...++ 
T Consensus       145 lF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h-  223 (517)
T PF12569_consen  145 LFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH-  223 (517)
T ss_pred             HHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc-
Confidence            455 555555555555555666554121   11          12333333  44455577889999999999988886 


Q ss_pred             CCCC-HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCC
Q 038114           74 SQPD-VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIP  148 (170)
Q Consensus        74 ~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p  148 (170)
                       .|+ +..|..--+.|-+.|++++|.+..+..+..+.   -|...-+-....+.|.|+.++|..++....+.+..|
T Consensus       224 -tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~---~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~  295 (517)
T PF12569_consen  224 -TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDL---ADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDP  295 (517)
T ss_pred             -CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCh---hhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCc
Confidence             555 77888888899999999999999998887766   677777788899999999999999999888777543

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 [], [].

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

Probab=97.18  E-value=0.0096  Score=43.90  Aligned_cols=84  Identities=8%  Similarity=0.098  Sum_probs=60.8

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHH
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAG  124 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~  124 (170)
                      +.+.-|.-+...|....|.++-.+..    .|+..-|-.-|++++..++|++-++.... +       -++..|-.++..
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s-k-------KsPIGyepFv~~  246 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS-K-------KSPIGYEPFVEA  246 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC-C-------CCCCChHHHHHH
Confidence            45555666667777777777766664    67888888888888888888887765433 1       123678888888


Q ss_pred             HhCCCChHHHHHHHHH
Q 038114          125 VASPSNANEAMSLFSE  140 (170)
Q Consensus       125 ~~~~g~~~~a~~l~~~  140 (170)
                      |...|+..+|..+...
T Consensus       247 ~~~~~~~~eA~~yI~k  262 (319)
T PF04840_consen  247 CLKYGNKKEASKYIPK  262 (319)
T ss_pred             HHHCCCHHHHHHHHHh
Confidence            8888888888877765

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

>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=97.11  E-value=0.0016  Score=36.17  Aligned_cols=63  Identities=16%  Similarity=0.126  Sum_probs=48.7

Q ss_pred             cccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114           18 PIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus        18 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      .+.|++++|+.+|+++ ..... -+......+..++.+.|++++|..+++.+...  .|+...|..+
T Consensus         2 l~~~~~~~A~~~~~~~-l~~~p-~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l   64 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKA-LQRNP-DNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQL   64 (68)
T ss_dssp             HHTTHHHHHHHHHHHH-HHHTT-TSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHH
T ss_pred             hhccCHHHHHHHHHHH-HHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHH
Confidence            4679999999999998 54432 36777888999999999999999999999886  4453444444

...

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

Probab=97.09  E-value=0.0016  Score=53.36  Aligned_cols=155  Identities=10%  Similarity=0.068  Sum_probs=103.1

Q ss_pred             hHhHH-HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhc------------ccchHHHHHHHHHHHhcCCC
Q 038114            9 LRFTF-YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSS------------LRSLQLGRKVHDHILSSKSQ   75 (170)
Q Consensus         9 ~~~~l-i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~------------~~~~~~a~~~~~~m~~~~~~   75 (170)
                      ..|++ -.-+.....|..|..-|+.+-.+....+|+++.-+|=+.|..            .+..+.|+++|.+..+.. +
T Consensus       565 ~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-p  643 (1018)
T KOG2002|consen  565 NARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-P  643 (1018)
T ss_pred             HHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-c
Confidence            34553 335555566666666555542222333566555555444431            234678888888887764 4


Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC-CCCCCHhhHH
Q 038114           76 PDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR-ELIPDGLTVR  154 (170)
Q Consensus        76 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~-~~~p~~~t~~  154 (170)
                      -|...-|-+--.++.+|++..|.+||..+++...   -...+|-.+...|...|++..|+++|+...+. .-.-+.....
T Consensus       644 kN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~---~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~  720 (1018)
T KOG2002|consen  644 KNMYAANGIGIVLAEKGRFSEARDIFSQVREATS---DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLH  720 (1018)
T ss_pred             chhhhccchhhhhhhccCchHHHHHHHHHHHHHh---hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHH
Confidence            4667777777788888999999999998886644   23356778888888899999999999876554 4455667778


Q ss_pred             HHHHHhcCCCccc
Q 038114          155 SLLCACTSPSNVL  167 (170)
Q Consensus       155 ~ll~~~~~~g~~e  167 (170)
                      .|-+++.+.|.+.
T Consensus       721 ~Lara~y~~~~~~  733 (1018)
T KOG2002|consen  721 YLARAWYEAGKLQ  733 (1018)
T ss_pred             HHHHHHHHhhhHH
Confidence            8888887777654

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

Probab=97.06  E-value=0.016  Score=47.43  Aligned_cols=149  Identities=9%  Similarity=0.030  Sum_probs=94.3

Q ss_pred             hhhcccCCHHHHHHHHHHHHhhCCCCc--chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           15 NSQPIQNLYNEALVAFDFLQNNTNFRI--RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        15 ~~~~~~~~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      -++......+....+.... ...++.|  +...|.-+-.++.+.|++.+|..+|..+.....--+..+|--+-.+|-..+
T Consensus       385 icL~~L~~~e~~e~ll~~l-~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~  463 (895)
T KOG2076|consen  385 ICLVHLKERELLEALLHFL-VEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELG  463 (895)
T ss_pred             hhhhcccccchHHHHHHHH-HHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHh
Confidence            3444444444444444444 4444333  455778888888888888888888888877644445778888888888888


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHH--------hCCCCCCHhhHHHHHHHhcCCC
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMR--------DRELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~--------~~~~~p~~~t~~~ll~~~~~~g  164 (170)
                      ..++|.+.|+.......   -+...=.+|-..+-+.|+.++|.+.+..|.        ..++.|+...--.....+.+.|
T Consensus       464 e~e~A~e~y~kvl~~~p---~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~g  540 (895)
T KOG2076|consen  464 EYEEAIEFYEKVLILAP---DNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVG  540 (895)
T ss_pred             hHHHHHHHHHHHHhcCC---CchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhh
Confidence            88888888887765432   122233344456677788888888888753        2234555555555555555555


Q ss_pred             ccc
Q 038114          165 NVL  167 (170)
Q Consensus       165 ~~e  167 (170)
                      +.|
T Consensus       541 k~E  543 (895)
T KOG2076|consen  541 KRE  543 (895)
T ss_pred             hHH
Confidence            544

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

Probab=97.03  E-value=0.037  Score=45.38  Aligned_cols=127  Identities=12%  Similarity=0.076  Sum_probs=97.5

Q ss_pred             HHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC
Q 038114           12 TFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC   91 (170)
Q Consensus        12 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~   91 (170)
                      .+..+|...|++.+|+.+|..+ .....--+...|--+-++|-..|..+.|.+.|+...... +.+.-.--.|-..+-+.
T Consensus       419 d~a~al~~~~~~~~Al~~l~~i-~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~  496 (895)
T KOG2076|consen  419 DLADALTNIGKYKEALRLLSPI-TNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQL  496 (895)
T ss_pred             HHHHHHHhcccHHHHHHHHHHH-hcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhc
Confidence            3689999999999999999999 655444567889999999999999999999999998752 22344445555668889


Q ss_pred             CCHHHHHHHHhhcccCC--------CCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114           92 GSLEDARVVSDEMPQRN--------VIESPDLASWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~~--------~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      |++++|.++++.+...+        .  .|+...--.....+...|+.++-...-..|.
T Consensus       497 g~~EkalEtL~~~~~~D~~~~e~~a~--~~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv  553 (895)
T KOG2076|consen  497 GNHEKALETLEQIINPDGRNAEACAW--EPERRILAHRCDILFQVGKREEFINTASTLV  553 (895)
T ss_pred             CCHHHHHHHHhcccCCCccchhhccc--cHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            99999999999865332        3  5555555566677788888887666655554

>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=97.01  E-value=0.0042  Score=40.19  Aligned_cols=98  Identities=10%  Similarity=0.035  Sum_probs=65.1

Q ss_pred             hcccCCHHHHHHHHHHHHhhC--C-CCcchh------------------hHHHHHHHhhcccchHHHHHHHHHHHhcCCC
Q 038114           17 QPIQNLYNEALVAFDFLQNNT--N-FRIRPS------------------TYACLISTCSSLRSLQLGRKVHDHILSSKSQ   75 (170)
Q Consensus        17 ~~~~~~~~~a~~~~~~m~~~~--~-~~p~~~------------------~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~   75 (170)
                      ..+.++.+.+...+.++ ...  | +-|+..                  ....++..+...|+++.+..+........ +
T Consensus        16 ~~~~~~~~~~~~~~~~a-l~ly~G~~l~~~~~~~W~~~~r~~l~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P   93 (146)
T PF03704_consen   16 AARAGDPEEAIELLEEA-LALYRGDFLPDLDDEEWVEPERERLRELYLDALERLAEALLEAGDYEEALRLLQRALALD-P   93 (146)
T ss_dssp             HHHTT-HHHHHHHHHHH-HTT--SSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS-T
T ss_pred             HHHCCCHHHHHHHHHHH-HHHhCCCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-C
Confidence            35567788888877776 321  1 222211                  23344556667899999999999998874 5


Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHhhcc-----cCCCCCCCChhhH
Q 038114           76 PDVVLQNYILNMYGKCGSLEDARVVSDEMP-----QRNVIESPDLASW  118 (170)
Q Consensus        76 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~-----~~~~~~~p~~~~~  118 (170)
                      .+-..|-.+|.+|.+.|+...|.+.|+.+.     +.|+  .|+..+-
T Consensus        94 ~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~--~Ps~~~~  139 (146)
T PF03704_consen   94 YDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGI--EPSPETR  139 (146)
T ss_dssp             T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS------HHHH
T ss_pred             CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCc--CcCHHHH
Confidence            578899999999999999999999999763     4588  8887653

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

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

Probab=97.01  E-value=0.027  Score=40.13  Aligned_cols=124  Identities=12%  Similarity=0.067  Sum_probs=89.4

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHH----hhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLIST----CSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYG   89 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~----~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~   89 (170)
                      +..+.+..+++.|.+.+++| .+.   -+..|.+-|-.+    ....+...+|.-+|++|-+. ..|++.+.|-...++.
T Consensus       144 VqI~lk~~r~d~A~~~lk~m-q~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l  218 (299)
T KOG3081|consen  144 VQILLKMHRFDLAEKELKKM-QQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHL  218 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHH-Hcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHH
Confidence            56667788899999999999 442   233466645444    45567799999999999764 5889999999999999


Q ss_pred             cCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           90 KCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        90 ~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      ..|++++|+.++++...+..  +--...-|.+..+.-.-.+.+-..+.+.+++..
T Consensus       219 ~~~~~eeAe~lL~eaL~kd~--~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  219 QLGRYEEAESLLEEALDKDA--KDPETLANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             HhcCHHHHHHHHHHHHhccC--CCHHHHHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence            99999999999999887655  222223344445544444556666777777654

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

Probab=97.00  E-value=0.017  Score=41.55  Aligned_cols=102  Identities=12%  Similarity=0.102  Sum_probs=78.1

Q ss_pred             CcchhhHHHHHHHhhc-----ccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC----------------CHHHHH
Q 038114           40 RIRPSTYACLISTCSS-----LRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG----------------SLEDAR   98 (170)
Q Consensus        40 ~p~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~----------------~~~~a~   98 (170)
                      .-|-.+|-+.+..+..     .++++-....++.|.+.|+..|..+|+.||..+=+..                +-+-+.
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            3455567766666643     4678888888999999999999999999998876542                224577


Q ss_pred             HHHhhcccCCCCCCCChhhHHHHHHHHhCCCC-hHHHHHHHHHHHh
Q 038114           99 VVSDEMPQRNVIESPDLASWNAIIAGVASPSN-ANEAMSLFSEMRD  143 (170)
Q Consensus        99 ~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~-~~~a~~l~~~m~~  143 (170)
                      +++++|...|+  .||-.+-..++.++.+.+. ..+..++.-+|-+
T Consensus       144 ~vLeqME~hGV--mPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmPk  187 (406)
T KOG3941|consen  144 KVLEQMEWHGV--MPDKEIEDILVNAFGRWNFPTKKVKRMLYWMPK  187 (406)
T ss_pred             HHHHHHHHcCC--CCchHHHHHHHHHhccccccHHHHHHHHHhhhh
Confidence            88999999999  8999999999999988885 5566666666643

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.95  E-value=0.02  Score=47.95  Aligned_cols=130  Identities=15%  Similarity=0.152  Sum_probs=92.8

Q ss_pred             hhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCH
Q 038114           15 NSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSL   94 (170)
Q Consensus        15 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~   94 (170)
                      .-+..++-+++|..+|+..      ..+......||.-   .+.++.|.++-+..-      .+.+|+.+-++-.+.|.+
T Consensus      1056 ~iai~~~LyEEAF~ifkkf------~~n~~A~~VLie~---i~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~v 1120 (1666)
T KOG0985|consen 1056 EIAIENQLYEEAFAIFKKF------DMNVSAIQVLIEN---IGSLDRAYEFAERCN------EPAVWSQLAKAQLQGGLV 1120 (1666)
T ss_pred             HHHhhhhHHHHHHHHHHHh------cccHHHHHHHHHH---hhhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCch
Confidence            3445667777777777776      3455555555553   345555555544432      467899999999999999


Q ss_pred             HHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccccC
Q 038114           95 EDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus        95 ~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      .+|.+-|-+        .-|+..|..++....+.|.|++....+.--++..-.|...+  .||-+|++.+++.++
T Consensus      1121 ~dAieSyik--------adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~--eLi~AyAkt~rl~el 1185 (1666)
T KOG0985|consen 1121 KDAIESYIK--------ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDS--ELIFAYAKTNRLTEL 1185 (1666)
T ss_pred             HHHHHHHHh--------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchH--HHHHHHHHhchHHHH
Confidence            999888765        33457899999999999999999998876666666676654  677888887776554

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

Probab=96.94  E-value=0.0058  Score=44.23  Aligned_cols=118  Identities=12%  Similarity=0.110  Sum_probs=82.8

Q ss_pred             hhHHHHHHHhhcccchHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHH
Q 038114           44 STYACLISTCSSLRSLQLGRKVHDHILSSK-SQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAII  122 (170)
Q Consensus        44 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li  122 (170)
                      .+|..+++..-+.+..+.|..+|.+.++.+ ...++....++|.. ...++.+.|.++|+...+. +  ..+...|..-+
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~-~~~~d~~~A~~Ife~glk~-f--~~~~~~~~~Y~   77 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEY-YCNKDPKRARKIFERGLKK-F--PSDPDFWLEYL   77 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHH-HTCS-HHHHHHHHHHHHHH-H--TT-HHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHH-C--CCCHHHHHHHH
Confidence            478889999999999999999999998754 34445555554433 3346788899999987643 3  45667888999


Q ss_pred             HHHhCCCChHHHHHHHHHHHhCCCCCCH---hhHHHHHHHhcCCCcc
Q 038114          123 AGVASPSNANEAMSLFSEMRDRELIPDG---LTVRSLLCACTSPSNV  166 (170)
Q Consensus       123 ~~~~~~g~~~~a~~l~~~m~~~~~~p~~---~t~~~ll~~~~~~g~~  166 (170)
                      .-+...|+.+.|..+|+..... +.++.   ..|...++-=.+.|++
T Consensus        78 ~~l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl  123 (280)
T PF05843_consen   78 DFLIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDL  123 (280)
T ss_dssp             HHHHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-H
T ss_pred             HHHHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCH
Confidence            9999999999999999988765 33222   3566666554444543

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.

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

Probab=96.91  E-value=0.023  Score=43.58  Aligned_cols=118  Identities=9%  Similarity=0.014  Sum_probs=93.0

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCC-hhhHHHHHH
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPD-LASWNAIIA  123 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~-~~~~~~li~  123 (170)
                      -|..-+..| ..|.++.|+..+..+...- +-|+.-+......+.+.++.++|.+-++.+...    .|+ ....-.+-.
T Consensus       309 ~YG~A~~~~-~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l----~P~~~~l~~~~a~  382 (484)
T COG4783         309 QYGRALQTY-LAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALAL----DPNSPLLQLNLAQ  382 (484)
T ss_pred             HHHHHHHHH-HhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc----CCCccHHHHHHHH
Confidence            344444433 4578999999999988762 446888888889999999999999999999876    344 445556678


Q ss_pred             HHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccccC
Q 038114          124 GVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       124 ~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      ++...|.+.+|+.+++.-.... +-|...|..|-++|...|+..++
T Consensus       383 all~~g~~~eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a  427 (484)
T COG4783         383 ALLKGGKPQEAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEA  427 (484)
T ss_pred             HHHhcCChHHHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHH
Confidence            8999999999999999877653 56888999999999999987653

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

Probab=96.82  E-value=0.019  Score=44.23  Aligned_cols=123  Identities=11%  Similarity=0.119  Sum_probs=84.0

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcC-----C--CCCHHHHHHHHH
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSK-----S--QPDVVLQNYILN   86 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----~--~~~~~~~~~li~   86 (170)
                      -.+.-+.++++++...|+.. +.+ ++-.+..|+..-..+...++++.|.+.|+...+-.     +  .+.+.+.-.++-
T Consensus       435 ~~a~Yr~~k~~~~m~~Fee~-kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~  512 (606)
T KOG0547|consen  435 CCALYRQHKIAESMKTFEEA-KKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLV  512 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHH-HHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhh
Confidence            34445667888888888887 433 44556678878888888888888888888776531     1  222333333333


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      .- -.+++..|..++++..+.+.   -....|-.|-..-.+.|+.++|+++|++-.
T Consensus       513 ~q-wk~d~~~a~~Ll~KA~e~Dp---kce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  513 LQ-WKEDINQAENLLRKAIELDP---KCEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             hc-hhhhHHHHHHHHHHHHccCc---hHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            22 33778888888887776544   234678888888899999999999998653

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

Probab=96.81  E-value=0.01  Score=42.70  Aligned_cols=85  Identities=12%  Similarity=0.158  Sum_probs=67.9

Q ss_pred             ccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhccc----------------chHHHHHHHHHHHhcCCCCCHHHHH
Q 038114           19 IQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLR----------------SLQLGRKVHDHILSSKSQPDVVLQN   82 (170)
Q Consensus        19 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~----------------~~~~a~~~~~~m~~~~~~~~~~~~~   82 (170)
                      +.++.+=....++.| ++-|+.-|..+|+.||+.+-+..                .-+-+..++++|..+|+.||..+-.
T Consensus        84 ~R~HveFIy~ALk~m-~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~  162 (406)
T KOG3941|consen   84 GRTHVEFIYTALKYM-KEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIED  162 (406)
T ss_pred             ccchHHHHHHHHHHH-HHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHH
Confidence            346677777888999 99999999999999999986642                2356778999999999999999999


Q ss_pred             HHHHHHHcCCC-HHHHHHHHhhc
Q 038114           83 YILNMYGKCGS-LEDARVVSDEM  104 (170)
Q Consensus        83 ~li~~~~~~~~-~~~a~~~~~~m  104 (170)
                      .|+.++++.+- ..+..++.--|
T Consensus       163 ~lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  163 ILVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             HHHHHhccccccHHHHHHHHHhh
Confidence            99999999875 33344443333

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

Probab=96.79  E-value=0.08  Score=41.44  Aligned_cols=152  Identities=10%  Similarity=0.039  Sum_probs=113.4

Q ss_pred             cchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHH
Q 038114            6 KTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNY   83 (170)
Q Consensus         6 ~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~   83 (170)
                      ....+|. .|+.--+..-+..|+.+|.+. ++.+..+ +..+.+++|.-+|. ++..-|.++|+-=.+. +.-++.--..
T Consensus       364 ~~tLv~~~~mn~irR~eGlkaaR~iF~ka-R~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkk-f~d~p~yv~~  440 (656)
T KOG1914|consen  364 DLTLVYCQYMNFIRRAEGLKAARKIFKKA-REDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKK-FGDSPEYVLK  440 (656)
T ss_pred             CCceehhHHHHHHHHhhhHHHHHHHHHHH-hhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHh-cCCChHHHHH
Confidence            3445566 788888999999999999999 7666666 78889999998875 5788899999854332 2334556677


Q ss_pred             HHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC-C--CCCCHhhHHHHHHHh
Q 038114           84 ILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR-E--LIPDGLTVRSLLCAC  160 (170)
Q Consensus        84 li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~-~--~~p~~~t~~~ll~~~  160 (170)
                      .++.+..-++-..|..+|+.....++.+.-....|..+|.-=+..|+...+..+=+++... .  ..|...+-..+++-|
T Consensus       441 YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY  520 (656)
T KOG1914|consen  441 YLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRY  520 (656)
T ss_pred             HHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHH
Confidence            8888899999999999999998876611234578999999999999999999888777543 1  343444444444444

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.78  E-value=0.057  Score=33.91  Aligned_cols=108  Identities=10%  Similarity=-0.021  Sum_probs=74.3

Q ss_pred             HHhhcccchHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCC
Q 038114           51 STCSSLRSLQLGRKVHDHILSSKSQPD--VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASP  128 (170)
Q Consensus        51 ~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~  128 (170)
                      .++-..|+.++|..+|++....|....  ...+-.+-..+...|++++|..+|++..........+......+..++...
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~   88 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNL   88 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHC
Confidence            345567999999999999999887655  335555667788899999999999987754220001112222233566788


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcC
Q 038114          129 SNANEAMSLFSEMRDRELIPDGLTVRSLLCACTS  162 (170)
Q Consensus       129 g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~  162 (170)
                      |+.++|++.+-....    ++...|.--|..|..
T Consensus        89 gr~~eAl~~~l~~la----~~~~~y~ra~~~ya~  118 (120)
T PF12688_consen   89 GRPKEALEWLLEALA----ETLPRYRRAIRFYAD  118 (120)
T ss_pred             CCHHHHHHHHHHHHH----HHHHHHHHHHHHHHh
Confidence            999999998876553    344477777777653

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.78  E-value=0.039  Score=36.23  Aligned_cols=87  Identities=6%  Similarity=-0.112  Sum_probs=51.1

Q ss_pred             hhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChH
Q 038114           53 CSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNAN  132 (170)
Q Consensus        53 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~  132 (170)
                      +...|++++|.++|.-+.... +-+..-|-.|--++-..|++++|...|......+.   -|...+-.+-.++...|+.+
T Consensus        45 ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~---ddp~~~~~ag~c~L~lG~~~  120 (157)
T PRK15363         45 LMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI---DAPQAPWAAAECYLACDNVC  120 (157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC---CCchHHHHHHHHHHHcCCHH
Confidence            345566777777776665543 22344555555555566677777777766555444   34455555556666667777


Q ss_pred             HHHHHHHHHHh
Q 038114          133 EAMSLFSEMRD  143 (170)
Q Consensus       133 ~a~~l~~~m~~  143 (170)
                      .|...|+.-..
T Consensus       121 ~A~~aF~~Ai~  131 (157)
T PRK15363        121 YAIKALKAVVR  131 (157)
T ss_pred             HHHHHHHHHHH
Confidence            77766665443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=96.77  E-value=0.02  Score=46.50  Aligned_cols=105  Identities=13%  Similarity=0.044  Sum_probs=61.6

Q ss_pred             HHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCC
Q 038114           49 LISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASP  128 (170)
Q Consensus        49 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~  128 (170)
                      .|.+.....++.+|..+++.++..+..  ..-|..+-+.|...|+++.|+++|.+-.           .++-.|..|.+.
T Consensus       738 aieaai~akew~kai~ildniqdqk~~--s~yy~~iadhyan~~dfe~ae~lf~e~~-----------~~~dai~my~k~  804 (1636)
T KOG3616|consen  738 AIEAAIGAKEWKKAISILDNIQDQKTA--SGYYGEIADHYANKGDFEIAEELFTEAD-----------LFKDAIDMYGKA  804 (1636)
T ss_pred             HHHHHhhhhhhhhhHhHHHHhhhhccc--cccchHHHHHhccchhHHHHHHHHHhcc-----------hhHHHHHHHhcc
Confidence            344555666777777777777665322  3345666677777777777777776532           355567777777


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114          129 SNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       129 g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      |.|+.|.++-.+..  |-......|.+=..-.-..|++.+
T Consensus       805 ~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~e  842 (1636)
T KOG3616|consen  805 GKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAE  842 (1636)
T ss_pred             ccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhh
Confidence            77777777765543  333333344443333344444433

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

Probab=96.76  E-value=0.0085  Score=32.91  Aligned_cols=53  Identities=6%  Similarity=-0.018  Sum_probs=29.5

Q ss_pred             HhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcc
Q 038114           52 TCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMP  105 (170)
Q Consensus        52 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  105 (170)
                      .+...|++++|...|++..+.. +-+...+..+-.++.+.|++++|...|++..
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            3445566666666666665553 2245555555566666666666666665554

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

Probab=96.73  E-value=0.0089  Score=32.84  Aligned_cols=55  Identities=16%  Similarity=0.109  Sum_probs=28.0

Q ss_pred             hhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHh
Q 038114           15 NSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILS   71 (170)
Q Consensus        15 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   71 (170)
                      ..+.+.|++++|...|++. .... +-+...+..+-.++...|++++|...|+...+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~-l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQA-LKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHH-HCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHH-HHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445555555555555555 3333 12444555555555555555555555555543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.68  E-value=0.1  Score=38.10  Aligned_cols=150  Identities=14%  Similarity=0.067  Sum_probs=95.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCC-------------CCH-
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQ-------------PDV-   78 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-------------~~~-   78 (170)
                      .-.-.-+.|+++.|.+-|...-+-.|+.|-. .|+..+..| +.++...|++...++.+.|+.             ||+ 
T Consensus       150 ~gCllykegqyEaAvqkFqaAlqvsGyqpll-AYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvr  227 (459)
T KOG4340|consen  150 LGCLLYKEGQYEAAVQKFQAALQVSGYQPLL-AYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVR  227 (459)
T ss_pred             chheeeccccHHHHHHHHHHHHhhcCCCchh-HHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchh
Confidence            3344568899999999999885667887754 787776555 557899999999999988752             221 


Q ss_pred             -------HHHHHHHHH-------HHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           79 -------VLQNYILNM-------YGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        79 -------~~~~~li~~-------~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                             ..-+.++.+       +.+.++++.|.+-+..|.-+.-. ..|++|...+.-.=.. +++-...+=+.=+...
T Consensus       228 svgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~-elDPvTLHN~Al~n~~-~~p~~g~~KLqFLL~~  305 (459)
T KOG4340|consen  228 SVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEE-ELDPVTLHNQALMNMD-ARPTEGFEKLQFLLQQ  305 (459)
T ss_pred             cccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccc-cCCchhhhHHHHhccc-CCccccHHHHHHHHhc
Confidence                   122334433       45789999999999999844332 6677776655433222 2232322222222222


Q ss_pred             CCCCCHhhHHHHHHHhcCCCccc
Q 038114          145 ELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus       145 ~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      + .-...||..++-.||+..-++
T Consensus       306 n-PfP~ETFANlLllyCKNeyf~  327 (459)
T KOG4340|consen  306 N-PFPPETFANLLLLYCKNEYFD  327 (459)
T ss_pred             C-CCChHHHHHHHHHHhhhHHHh
Confidence            2 235678888888888766544

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

Probab=96.67  E-value=0.083  Score=39.05  Aligned_cols=106  Identities=8%  Similarity=-0.128  Sum_probs=84.2

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      .|.-|...|+...|.++-.+.     -.|+..-|-.-|.+++..++|++..++-..      .-++.-|--++.++.+.|
T Consensus       183 Ti~~li~~~~~k~A~kl~k~F-----kv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~  251 (319)
T PF04840_consen  183 TIRKLIEMGQEKQAEKLKKEF-----KVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYG  251 (319)
T ss_pred             HHHHHHHCCCHHHHHHHHHHc-----CCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCC
Confidence            578888889988888776666     348999999999999999999977765432      123578899999999999


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHH
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEM  141 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m  141 (170)
                      +..+|......     +       ++..-+..|.+.|++.+|.+.-.+.
T Consensus       252 ~~~eA~~yI~k-----~-------~~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  252 NKKEASKYIPK-----I-------PDEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             CHHHHHHHHHh-----C-------ChHHHHHHHHHCCCHHHHHHHHHHc
Confidence            99999998887     2       3366788889999999987765443

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

>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=96.66  E-value=0.096  Score=34.85  Aligned_cols=101  Identities=19%  Similarity=0.151  Sum_probs=71.5

Q ss_pred             HHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhccc
Q 038114           27 LVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQ  106 (170)
Q Consensus        27 ~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  106 (170)
                      .+.+..+ ...+++|....+..+|..+.+.|.+.    .+.++.+.++.+|.......+-.+....  ..+.++--+|..
T Consensus        14 lEYirSl-~~~~i~~~~~L~~lli~lLi~~~~~~----~L~qllq~~Vi~DSk~lA~~LLs~~~~~--~~~~Ql~lDMLk   86 (167)
T PF07035_consen   14 LEYIRSL-NQHNIPVQHELYELLIDLLIRNGQFS----QLHQLLQYHVIPDSKPLACQLLSLGNQY--PPAYQLGLDMLK   86 (167)
T ss_pred             HHHHHHH-HHcCCCCCHHHHHHHHHHHHHcCCHH----HHHHHHhhcccCCcHHHHHHHHHhHccC--hHHHHHHHHHHH
Confidence            3455556 67889999999999999999999866    5667778888888877777765555432  333333333332


Q ss_pred             -CCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHH
Q 038114          107 -RNVIESPDLASWNAIIAGVASPSNANEAMSLFSEM  141 (170)
Q Consensus       107 -~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m  141 (170)
                       .+       ..+..+++.+...|++-+|.++.+..
T Consensus        87 RL~-------~~~~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   87 RLG-------TAYEEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             Hhh-------hhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence             22       26777888888889999999888764

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.64  E-value=0.076  Score=44.71  Aligned_cols=117  Identities=15%  Similarity=0.130  Sum_probs=86.2

Q ss_pred             ccchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHH
Q 038114            5 LKTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNY   83 (170)
Q Consensus         5 ~~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~   83 (170)
                      +.....|. +-.+-.+.|...+|++-|-+.       -|+..|.-++..+.+.|.+++-.+.+...++....|.  +=+.
T Consensus      1101 ~n~p~vWsqlakAQL~~~~v~dAieSyika-------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~--id~e 1171 (1666)
T KOG0985|consen 1101 CNEPAVWSQLAKAQLQGGLVKDAIESYIKA-------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPY--IDSE 1171 (1666)
T ss_pred             hCChHHHHHHHHHHHhcCchHHHHHHHHhc-------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCcc--chHH
Confidence            34566788 889999999999999888777       6788999999999999999999988887777765654  4578


Q ss_pred             HHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHH
Q 038114           84 ILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFS  139 (170)
Q Consensus        84 li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~  139 (170)
                      ||-+|++.+++.+.++...         -|+....-.+-.-|...|.++.|.-++.
T Consensus      1172 Li~AyAkt~rl~elE~fi~---------gpN~A~i~~vGdrcf~~~~y~aAkl~y~ 1218 (1666)
T KOG0985|consen 1172 LIFAYAKTNRLTELEEFIA---------GPNVANIQQVGDRCFEEKMYEAAKLLYS 1218 (1666)
T ss_pred             HHHHHHHhchHHHHHHHhc---------CCCchhHHHHhHHHhhhhhhHHHHHHHH
Confidence            9999999999988776543         2333444444444444444444444443

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

Probab=96.63  E-value=0.12  Score=44.85  Aligned_cols=131  Identities=11%  Similarity=0.099  Sum_probs=96.6

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchh---hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPS---TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNY   83 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~---~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~   83 (170)
                      ..-|- .|....+.+..+.|++++++.-..-+++-...   .|.++++.-...|.-+...++|++..+.. . .-.+|..
T Consensus      1458 Si~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc-d-~~~V~~~ 1535 (1710)
T KOG1070|consen 1458 SILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC-D-AYTVHLK 1535 (1710)
T ss_pred             chHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc-c-hHHHHHH
Confidence            33444 58888999999999999988734444444333   56677777677777888888998887753 2 2568888


Q ss_pred             HHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114           84 ILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus        84 li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      |...|.+.+..++|-++++.|.+.=   +-....|...+..+.+..+-+.|.+++.+-.+
T Consensus      1536 L~~iy~k~ek~~~A~ell~~m~KKF---~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~ 1592 (1710)
T KOG1070|consen 1536 LLGIYEKSEKNDEADELLRLMLKKF---GQTRKVWIMYADFLLRQNEAEAARELLKRALK 1592 (1710)
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHHh---cchhhHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            9999999999999999999886431   12336788888888888888888888776543

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.62  E-value=0.14  Score=36.42  Aligned_cols=120  Identities=13%  Similarity=0.088  Sum_probs=76.3

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchh----hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPS----TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYG   89 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~   89 (170)
                      +.+....|+.+.|...++++ ...-  |.+.    ....+   +-..|.+++|.++++.+.+.. +.|.+++--=+-..-
T Consensus        59 ~IAAld~~~~~lAq~C~~~L-~~~f--p~S~RV~~lkam~---lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilk  131 (289)
T KOG3060|consen   59 FIAALDTGRDDLAQKCINQL-RDRF--PGSKRVGKLKAML---LEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILK  131 (289)
T ss_pred             HHHHHHhcchHHHHHHHHHH-HHhC--CCChhHHHHHHHH---HHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHH
Confidence            55666677788888888887 4433  3332    12222   234567788888888887765 445666665555555


Q ss_pred             cCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114           90 KCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus        90 ~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      ..|.-.+|.+-+.+-.+. +  ..|...|.-+-..|...|++++|.-+++++.-
T Consensus       132 a~GK~l~aIk~ln~YL~~-F--~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  132 AQGKNLEAIKELNEYLDK-F--MNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             HcCCcHHHHHHHHHHHHH-h--cCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            555555555555444332 2  46777888888888888888888888888863

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.62  E-value=0.078  Score=38.30  Aligned_cols=99  Identities=8%  Similarity=-0.027  Sum_probs=48.2

Q ss_pred             chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC---CCHHHHHHHHhhcccCCCCCCCChhhH
Q 038114           42 RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC---GSLEDARVVSDEMPQRNVIESPDLASW  118 (170)
Q Consensus        42 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~---~~~~~a~~~~~~m~~~~~~~~p~~~~~  118 (170)
                      |...|-.|=.+|...|+++.|...|..-.+-- .+++..+..+-.++...   ..-.++..+|+++...+.   -|+.+-
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~---~~iral  230 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDP---ANIRAL  230 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCC---ccHHHH
Confidence            44455555566666666666666555554421 22233333333332221   234555555555554422   233444


Q ss_pred             HHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114          119 NAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus       119 ~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      ..+-..+...|++.+|...|+.|.+.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            44445555556666666666555543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.59  E-value=0.12  Score=37.01  Aligned_cols=140  Identities=9%  Similarity=0.044  Sum_probs=96.8

Q ss_pred             hHhHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHH---
Q 038114            9 LRFTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYIL---   85 (170)
Q Consensus         9 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li---   85 (170)
                      +.|.++..+.-.|.+.-...++++. .+...+.++.....|.+.-...|+.+.|...|+...+..-..|-.+.+.++   
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~v-i~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSV-IKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHH-HHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhh
Confidence            4445677777778888888889888 777667788888888888888999999999999887653344444444443   


Q ss_pred             --HHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHH
Q 038114           86 --NMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVR  154 (170)
Q Consensus        86 --~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~  154 (170)
                        ..|.-..++..|...|.+....+-   -++..-|.=.-...-.|+...|...++.|...  -|...+-+
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D~---~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~e  323 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMDP---RNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHE  323 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccCC---CchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhh
Confidence              345556788888888887775543   23333343333344457889999999988754  34444444

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.56  E-value=0.09  Score=37.76  Aligned_cols=100  Identities=6%  Similarity=0.041  Sum_probs=70.7

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhcCCCC--CHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHH
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSSKSQP--DVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAII  122 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li  122 (170)
                      .|...+....+.|++++|...|+.+.+.....  .+..+--+-..|...|++++|...|+.+...-.........+-.+.
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            56666666566789999999999998753211  1346667778889999999999999998753221022233343445


Q ss_pred             HHHhCCCChHHHHHHHHHHHhC
Q 038114          123 AGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus       123 ~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      ..+...|+.++|...|++..+.
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            5666889999999999988754

>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=96.56  E-value=0.0097  Score=33.07  Aligned_cols=59  Identities=10%  Similarity=0.001  Sum_probs=29.0

Q ss_pred             hhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC-CHHHHHHHHhh
Q 038114           44 STYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG-SLEDARVVSDE  103 (170)
Q Consensus        44 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~  103 (170)
                      .+|..+=..+...|++++|...|.+..+.. +-+...|..+-.+|.+.| ++++|.+.|+.
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~   63 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEK   63 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHH
Confidence            344444444555555555555555555442 223445555555555555 45555555543

...

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

Probab=96.52  E-value=0.02  Score=45.92  Aligned_cols=56  Identities=7%  Similarity=-0.106  Sum_probs=36.5

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHH
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDH   68 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~   68 (170)
                      .|. .+..|...|+.+.|..+..+- .+  -.|++..|+.+........-++.|.++++.
T Consensus       426 mw~~vi~CY~~lg~~~kaeei~~q~-le--k~~d~~lyc~LGDv~~d~s~yEkawElsn~  482 (777)
T KOG1128|consen  426 MWDPVILCYLLLGQHGKAEEINRQE-LE--KDPDPRLYCLLGDVLHDPSLYEKAWELSNY  482 (777)
T ss_pred             HHHHHHHHHHHhcccchHHHHHHHH-hc--CCCcchhHHHhhhhccChHHHHHHHHHhhh
Confidence            455 677777888777777777665 33  457777777776665555555555555543

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

Probab=96.51  E-value=0.087  Score=41.31  Aligned_cols=146  Identities=12%  Similarity=-0.010  Sum_probs=105.7

Q ss_pred             cccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHH
Q 038114           18 PIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDA   97 (170)
Q Consensus        18 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a   97 (170)
                      .......+..++|-++....+..+|+.+.+.|=-.|--.|+++.|...|+....-. +-|-.+||-|--.++...+.++|
T Consensus       405 ~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EA  483 (579)
T KOG1125|consen  405 LDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEA  483 (579)
T ss_pred             CCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHH
Confidence            34444567777887775777777889999888888889999999999999998764 44688999999999999999999


Q ss_pred             HHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHH---HhCC------CCCCHhhHHHHHHHhcCCCccc
Q 038114           98 RVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEM---RDRE------LIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus        98 ~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m---~~~~------~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      ...|.+..+...  .. ++..-.|--+|...|.+++|...|-+-   ...+      -.++...|..|=.+++-.++.|
T Consensus       484 IsAY~rALqLqP--~y-VR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D  559 (579)
T KOG1125|consen  484 ISAYNRALQLQP--GY-VRVRYNLGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSD  559 (579)
T ss_pred             HHHHHHHHhcCC--Ce-eeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCch
Confidence            999998876532  11 244444555678889999998876644   3331      1233456666655555554444

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.49  E-value=0.11  Score=33.34  Aligned_cols=124  Identities=15%  Similarity=0.064  Sum_probs=87.4

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      ++..+.+.+.+.....+++.+ ...+ ..++..++.++..|++.+. +.....+..      ..+......+++.|.+.+
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~-~~~~-~~~~~~~~~li~ly~~~~~-~~ll~~l~~------~~~~yd~~~~~~~c~~~~   83 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESA-LKLN-SENPALQTKLIELYAKYDP-QKEIERLDN------KSNHYDIEKVGKLCEKAK   83 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHH-HccC-ccchhHHHHHHHHHHHHCH-HHHHHHHHh------ccccCCHHHHHHHHHHcC
Confidence            788888889999999999998 6666 3778899999999997643 333344332      123444555888888889


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCC-CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcC
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASP-SNANEAMSLFSEMRDRELIPDGLTVRSLLCACTS  162 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~-g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~  162 (170)
                      .++++.-++..+...           ...+..+... ++.+.|.+.+.+-      -+...|..++..+..
T Consensus        84 l~~~~~~l~~k~~~~-----------~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l~  137 (140)
T smart00299       84 LYEEAVELYKKDGNF-----------KDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALLD  137 (140)
T ss_pred             cHHHHHHHHHhhcCH-----------HHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHHc
Confidence            999999999887532           2233333333 7888898888752      266688888877754

>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=96.42  E-value=0.026  Score=31.30  Aligned_cols=62  Identities=11%  Similarity=0.065  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCC-ChHHHHHHHHHHH
Q 038114           78 VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPS-NANEAMSLFSEMR  142 (170)
Q Consensus        78 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g-~~~~a~~l~~~m~  142 (170)
                      +.+|..+-..+.+.|++++|...|++..+.+.   -+...|..+-.++...| ++++|+..|++-.
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p---~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDP---NNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHST---THHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC---CCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            44555555566666666666666665554422   23445555555556655 4666666655443

...

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

Probab=96.42  E-value=0.11  Score=42.75  Aligned_cols=138  Identities=12%  Similarity=0.124  Sum_probs=93.7

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHh--hcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTC--SSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC   91 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~--~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~   91 (170)
                      |-.....+++..|+.-..++-++.+-.    .|..++.++  .+.|+.++|..+++....-+.. |-.|...+-.+|-..
T Consensus        16 i~d~ld~~qfkkal~~~~kllkk~Pn~----~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~   90 (932)
T KOG2053|consen   16 IYDLLDSSQFKKALAKLGKLLKKHPNA----LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDL   90 (932)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHCCCc----HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHH
Confidence            334456788888888887762443333    344444443  4778888888888887766655 788899999999999


Q ss_pred             CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhc
Q 038114           92 GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACT  161 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~  161 (170)
                      +..++|..+|+...+.    -|+..-...+..+|+|.+++.+-...--+|-+ .+.-+...+-++++...
T Consensus        91 ~~~d~~~~~Ye~~~~~----~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slil  155 (932)
T KOG2053|consen   91 GKLDEAVHLYERANQK----YPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLIL  155 (932)
T ss_pred             hhhhHHHHHHHHHHhh----CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHH
Confidence            9999999999987755    45677777788888888877665444433333 23334455555555543

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.41  E-value=0.35  Score=38.33  Aligned_cols=138  Identities=11%  Similarity=-0.023  Sum_probs=87.0

Q ss_pred             cchhHhH-HHhhhcc--c---CCHHHHHHHHHHHHhhCCCCcch-hhHHHHHHHhhcc--------cchHHHHHHHHHHH
Q 038114            6 KTQLRFT-FYNSQPI--Q---NLYNEALVAFDFLQNNTNFRIRP-STYACLISTCSSL--------RSLQLGRKVHDHIL   70 (170)
Q Consensus         6 ~~~~~~~-li~~~~~--~---~~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~--------~~~~~a~~~~~~m~   70 (170)
                      .+...|. .+++...  .   +....|..+|++. .+.  .|+- ..|..+-.++...        .+...+.+......
T Consensus       335 ~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~A-i~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        335 HQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEI-LKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             CCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH-HHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            3556677 4655433  2   3366889999888 432  3432 2333332222111        11233333333322


Q ss_pred             hc-CCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCC
Q 038114           71 SS-KSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPD  149 (170)
Q Consensus        71 ~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~  149 (170)
                      .. ....++..|.++--.+...|++++|...++...+.    .|+...|..+-..+...|+.++|.+.+.+-...  .|.
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L----~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~  485 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL----EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPG  485 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCC
Confidence            22 23445678888866677789999999999998776    567788999999999999999999999876543  344


Q ss_pred             Hhh
Q 038114          150 GLT  152 (170)
Q Consensus       150 ~~t  152 (170)
                      ..|
T Consensus       486 ~pt  488 (517)
T PRK10153        486 ENT  488 (517)
T ss_pred             Cch
Confidence            334

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.34  E-value=0.15  Score=33.49  Aligned_cols=93  Identities=10%  Similarity=-0.010  Sum_probs=73.5

Q ss_pred             hHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc
Q 038114           11 FTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK   90 (170)
Q Consensus        11 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   90 (170)
                      |.+-.-+.+.|++++|..+|+.+ ..-.. -+..-|-.|=-++-..|++++|...|.....-. +-|+..+-.+-.++.+
T Consensus        39 Y~~A~~ly~~G~l~~A~~~f~~L-~~~Dp-~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~  115 (157)
T PRK15363         39 YRYAMQLMEVKEFAGAARLFQLL-TIYDA-WSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLA  115 (157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHH-HHhCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHH
Confidence            44566678899999999999998 43321 234455566666778899999999999998876 3467888888899999


Q ss_pred             CCCHHHHHHHHhhccc
Q 038114           91 CGSLEDARVVSDEMPQ  106 (170)
Q Consensus        91 ~~~~~~a~~~~~~m~~  106 (170)
                      .|+.+.|.+.|+....
T Consensus       116 lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        116 CDNVCYAIKALKAVVR  131 (157)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            9999999999997654

>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=96.32  E-value=0.014  Score=37.65  Aligned_cols=129  Identities=14%  Similarity=0.091  Sum_probs=64.2

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +++.|.+.+.+.....+++.+ ...+...+....+.++..|++.++.+...++++   ..    +..-...+++.+-+.|
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~-~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~---~~----~~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEAL-VKENKENNPDLHTLLLELYIKYDPYEKLLEFLK---TS----NNYDLDKALRLCEKHG   84 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHH-HHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT---SS----SSS-CTHHHHHHHTTT
T ss_pred             HHHHHHhCCCHHHHHHHHHHH-HhcccccCHHHHHHHHHHHHhcCCchHHHHHcc---cc----cccCHHHHHHHHHhcc
Confidence            455566666666666666666 444444555566666666666655555444444   11    1122234455555556


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcc
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNV  166 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~  166 (170)
                      .+++|.-++..+....-  -.+         .+...++++.|.+.+.      -.++...|..+++.|...+..
T Consensus        85 l~~~a~~Ly~~~~~~~~--al~---------i~~~~~~~~~a~e~~~------~~~~~~l~~~l~~~~l~~~~~  141 (143)
T PF00637_consen   85 LYEEAVYLYSKLGNHDE--ALE---------ILHKLKDYEEAIEYAK------KVDDPELWEQLLKYCLDSKPF  141 (143)
T ss_dssp             SHHHHHHHHHCCTTHTT--CSS---------TSSSTHCSCCCTTTGG------GCSSSHHHHHHHHHHCTSTCT
T ss_pred             hHHHHHHHHHHcccHHH--HHH---------HHHHHccHHHHHHHHH------hcCcHHHHHHHHHHHHhcCcc
Confidence            66666666655442211  000         1222333333332222      124577788888877766554

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.

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

Probab=96.30  E-value=0.2  Score=38.83  Aligned_cols=120  Identities=14%  Similarity=0.121  Sum_probs=65.4

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCC
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGS   93 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~   93 (170)
                      +..=.++.+...|+.+|+.. ...=.+.|. .|-.-+..=-..|++..|.++|+...+  ..|+...|.+.|+.=.+-..
T Consensus       114 ae~Emknk~vNhARNv~dRA-vt~lPRVdq-lWyKY~ymEE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRyke  189 (677)
T KOG1915|consen  114 AEFEMKNKQVNHARNVWDRA-VTILPRVDQ-LWYKYIYMEEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKE  189 (677)
T ss_pred             HHHHHhhhhHhHHHHHHHHH-HHhcchHHH-HHHHHHHHHHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhH
Confidence            44445566666666666665 322222222 222333333345666666666666554  36667777777777666667


Q ss_pred             HHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHH
Q 038114           94 LEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEM  141 (170)
Q Consensus        94 ~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m  141 (170)
                      ++.|..+|+...-.    -|++.+|--...-=-++|+...|..+++.-
T Consensus       190 ieraR~IYerfV~~----HP~v~~wikyarFE~k~g~~~~aR~VyerA  233 (677)
T KOG1915|consen  190 IERARSIYERFVLV----HPKVSNWIKYARFEEKHGNVALARSVYERA  233 (677)
T ss_pred             HHHHHHHHHHHhee----cccHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            77777776654422    345555555555445555555555555443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.29  E-value=0.062  Score=40.05  Aligned_cols=120  Identities=8%  Similarity=0.009  Sum_probs=67.6

Q ss_pred             ccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHH
Q 038114           19 IQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDAR   98 (170)
Q Consensus        19 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~   98 (170)
                      -..++++++-.+..+ +.--..-|...| -+-.+.+..|.+.+|+++|-.+....+.-+..-.+.|-++|.+++.++.|+
T Consensus       371 L~~qFddVl~YlnSi-~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW  448 (557)
T KOG3785|consen  371 LSFQFDDVLTYLNSI-ESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAW  448 (557)
T ss_pred             HHHHHHHHHHHHHHH-HHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHH
Confidence            334555555555555 443333333333 345566666777777777776655544433434445566777777777777


Q ss_pred             HHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           99 VVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        99 ~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      +++-.+...+-    .-...-.+...|-+.+++--|-.-|+++...
T Consensus       449 ~~~lk~~t~~e----~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~l  490 (557)
T KOG3785|consen  449 DMMLKTNTPSE----RFSLLQLIANDCYKANEFYYAAKAFDELEIL  490 (557)
T ss_pred             HHHHhcCCchh----HHHHHHHHHHHHHHHHHHHHHHHhhhHHHcc
Confidence            77766653322    1112223345666667776666667666544

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.26  E-value=0.16  Score=40.18  Aligned_cols=128  Identities=13%  Similarity=0.029  Sum_probs=87.1

Q ss_pred             CCCCcchhhHHHHHHHhhcc-----cchHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHcCC--------CHHHHHHHHh
Q 038114           37 TNFRIRPSTYACLISTCSSL-----RSLQLGRKVHDHILSSKSQPD-VVLQNYILNMYGKCG--------SLEDARVVSD  102 (170)
Q Consensus        37 ~~~~p~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~--------~~~~a~~~~~  102 (170)
                      .+.+.+...|...+++....     ++.+.|..+|++..+.  .|+ ...|..+..+|....        ++..+.+...
T Consensus       331 ~~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        331 QGLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             ccCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            34556778999999986432     3477899999999876  455 556665544443321        2334444444


Q ss_pred             hcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccccC
Q 038114          103 EMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       103 ~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      ........ ..+...|.++-......|++++|...+++....+  |+...|..+-..+...|+.+++
T Consensus       409 ~a~al~~~-~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA  472 (517)
T PRK10153        409 NIVALPEL-NVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLA  472 (517)
T ss_pred             HhhhcccC-cCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHH
Confidence            43332110 3455678877666667799999999999988765  7888999999999999987764

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.19  E-value=0.02  Score=32.11  Aligned_cols=53  Identities=15%  Similarity=0.108  Sum_probs=26.7

Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      .|.+.++++.|.++++.+...+.   .+...|...-..+...|++++|.+.|+...
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p---~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l   56 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDP---DDPELWLQRARCLFQLGRYEEALEDLERAL   56 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCc---ccchhhHHHHHHHHHhccHHHHHHHHHHHH
Confidence            34455555555555555554433   233444444455555555555555555554

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.07  E-value=0.069  Score=38.93  Aligned_cols=84  Identities=20%  Similarity=0.147  Sum_probs=56.8

Q ss_pred             cchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhccc-CCCCCCCChhhHHHHHHHHhCCCChHHHH
Q 038114           57 RSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQ-RNVIESPDLASWNAIIAGVASPSNANEAM  135 (170)
Q Consensus        57 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~~~p~~~~~~~li~~~~~~g~~~~a~  135 (170)
                      +++-.+..+.++....|   +..+.+..-....+.|+++.|.+-|....+ .|.  .|- ..||..+..|.+ |+...|+
T Consensus       126 ~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGy--qpl-lAYniALaHy~~-~qyasAL  198 (459)
T KOG4340|consen  126 GDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQKFQAALQVSGY--QPL-LAYNLALAHYSS-RQYASAL  198 (459)
T ss_pred             ccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHHHHHHHHhhcCC--Cch-hHHHHHHHHHhh-hhHHHHH
Confidence            44444444444443222   233333333345578999999999997764 566  554 689999888765 8999999


Q ss_pred             HHHHHHHhCCCC
Q 038114          136 SLFSEMRDRELI  147 (170)
Q Consensus       136 ~l~~~m~~~~~~  147 (170)
                      .+..++...|++
T Consensus       199 k~iSEIieRG~r  210 (459)
T KOG4340|consen  199 KHISEIIERGIR  210 (459)
T ss_pred             HHHHHHHHhhhh
Confidence            999999988763

>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=96.07  E-value=0.018  Score=32.82  Aligned_cols=62  Identities=15%  Similarity=0.153  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHhhcccC----CCCCCCC-hhhHHHHHHHHhCCCChHHHHHHHHHH
Q 038114           79 VLQNYILNMYGKCGSLEDARVVSDEMPQR----NVIESPD-LASWNAIIAGVASPSNANEAMSLFSEM  141 (170)
Q Consensus        79 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~p~-~~~~~~li~~~~~~g~~~~a~~l~~~m  141 (170)
                      .+|+.+-..|...|++++|.+.|++..+.    |-. .|+ ..+++.+-..+...|++++|++++++-
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~-~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDD-HPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTH-HHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34555555566666666666655544311    110 122 344555556666666666666665543

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.07  E-value=0.028  Score=31.48  Aligned_cols=52  Identities=13%  Similarity=-0.028  Sum_probs=25.3

Q ss_pred             hhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcc
Q 038114           53 CSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMP  105 (170)
Q Consensus        53 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  105 (170)
                      +.+.++++.|.++++.+.+.+ +.++..|...-.++.+.|++++|.+.|+...
T Consensus         5 ~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l   56 (73)
T PF13371_consen    5 YLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERAL   56 (73)
T ss_pred             HHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHH
Confidence            444455555555555554442 2234444444455555555555555555444

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.04  E-value=0.33  Score=34.55  Aligned_cols=123  Identities=11%  Similarity=0.041  Sum_probs=85.7

Q ss_pred             hcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHH
Q 038114           17 QPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLED   96 (170)
Q Consensus        17 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~   96 (170)
                      +-..|++++|+++++.+ .... +.|..++--=+-..-..|+..+|.+-+....+. +..|...|.-|-..|...|+++.
T Consensus        96 lEa~~~~~~A~e~y~~l-L~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~k  172 (289)
T KOG3060|consen   96 LEATGNYKEAIEYYESL-LEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEK  172 (289)
T ss_pred             HHHhhchhhHHHHHHHH-hccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHH
Confidence            34569999999999999 6665 456666665444444556656777766666654 57799999999999999999999


Q ss_pred             HHHHHhhcccCCCCCCCChhhHHHHHHH---HhCCCChHHHHHHHHHHHhCC
Q 038114           97 ARVVSDEMPQRNVIESPDLASWNAIIAG---VASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus        97 a~~~~~~m~~~~~~~~p~~~~~~~li~~---~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      |.-+++++.=...   .+...|-.+-..   -+...+.+.+..++..-.+..
T Consensus       173 A~fClEE~ll~~P---~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  173 AAFCLEELLLIQP---FNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHHHHHHHHHcCC---CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            9999999874322   222333333333   333446777888887666543

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.04  E-value=0.35  Score=35.58  Aligned_cols=127  Identities=13%  Similarity=0.054  Sum_probs=86.5

Q ss_pred             HHhhhcccCCHHHHHHHHHHH---------HhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhc---CCCC--CH
Q 038114           13 FYNSQPIQNLYNEALVAFDFL---------QNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSS---KSQP--DV   78 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m---------~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~--~~   78 (170)
                      |.++|+....|+.-....-.+         +-..|...+..+...++.......+++++...+-.++.+   ...|  +.
T Consensus        25 LsS~fs~e~~w~~r~~~~~kla~~g~~~~kkF~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~  104 (418)
T KOG4570|consen   25 LSSAFSDEHKWEAREKEHYKLADLGSLMDKKFERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI  104 (418)
T ss_pred             hHHHhhhhhhhhHHHHHHHHHhcccccchhhhhcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH
Confidence            566677666665433333122         012345566667777777777777888888877777654   2233  34


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC
Q 038114           79 VLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus        79 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      ++|-.++.-|    +++++..++..=.+-|+  =||..+++.+|..+.+.++...|.++.-+|..+.
T Consensus       105 ~~~irlllky----~pq~~i~~l~npIqYGi--F~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  105 HTWIRLLLKY----DPQKAIYTLVNPIQYGI--FPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             HHHHHHHHcc----ChHHHHHHHhCcchhcc--ccchhhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            4444444433    67788888888888888  7999999999999999999999888877776554

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

Probab=95.97  E-value=0.3  Score=41.09  Aligned_cols=127  Identities=12%  Similarity=0.074  Sum_probs=82.9

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCC-CCcchhhHHHHHHHhhcccchHHHHHH------------------HH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTN-FRIRPSTYACLISTCSSLRSLQLGRKV------------------HD   67 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~-~~p~~~~~~~li~~~~~~~~~~~a~~~------------------~~   67 (170)
                      ...|- |+..+...+++++|.++.+.. .... -.+...-+..+  .+...++.+++..+                  ..
T Consensus        31 ~~a~~~Li~~~~~~~~~deai~i~~~~-l~~~P~~i~~yy~~G~--l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve~~~~  107 (906)
T PRK14720         31 FKELDDLIDAYKSENLTDEAKDICEEH-LKEHKKSISALYISGI--LSLSRRPLNDSNLLNLIDSFSQNLKWAIVEHICD  107 (906)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHH-HHhCCcceehHHHHHH--HHHhhcchhhhhhhhhhhhcccccchhHHHHHHH
Confidence            44555 799999999999999999866 3322 22222222222  33344444443333                  33


Q ss_pred             HHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114           68 HILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus        68 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      .+.+.+  -+...+-.+-.+|-+.|+.++|.++++++.+.+.   -|+...|.+...|+.. ++++|.+++.+-..
T Consensus       108 ~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~---~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~  177 (906)
T PRK14720        108 KILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKADR---DNPEIVKKLATSYEEE-DKEKAITYLKKAIY  177 (906)
T ss_pred             HHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCc---ccHHHHHHHHHHHHHh-hHHHHHHHHHHHHH
Confidence            333321  1234666777788888999999999999887765   5667888888888888 88888887776653

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=95.97  E-value=0.39  Score=34.79  Aligned_cols=141  Identities=12%  Similarity=0.089  Sum_probs=103.2

Q ss_pred             cCCHHHHHHHHHHHHhh-CCCCcchhhHHHHHHHhhc-cc-chHHHHHHHHHHHh-cCCCCCHHHHHHHHHHHHcCCCHH
Q 038114           20 QNLYNEALVAFDFLQNN-TNFRIRPSTYACLISTCSS-LR-SLQLGRKVHDHILS-SKSQPDVVLQNYILNMYGKCGSLE   95 (170)
Q Consensus        20 ~~~~~~a~~~~~~m~~~-~~~~p~~~~~~~li~~~~~-~~-~~~~a~~~~~~m~~-~~~~~~~~~~~~li~~~~~~~~~~   95 (170)
                      +....+|+.+|+.. .. ..+--|..+...+++.... .+ ....-.++.+.+.. .|-.++..+...+|..++..++|.
T Consensus       141 N~~Vv~aL~L~~~~-~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~  219 (292)
T PF13929_consen  141 NKIVVEALKLYDGL-NPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWN  219 (292)
T ss_pred             hHHHHHHHHHhhcc-CcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHH
Confidence            34455677777755 32 4566788888888888766 22 34444445555543 356788889999999999999999


Q ss_pred             HHHHHHhhcccC-CCCCCCChhhHHHHHHHHhCCCChHHHHHHHHH-----HHhCCCCCCHhhHHHHHHHhcCC
Q 038114           96 DARVVSDEMPQR-NVIESPDLASWNAIIAGVASPSNANEAMSLFSE-----MRDRELIPDGLTVRSLLCACTSP  163 (170)
Q Consensus        96 ~a~~~~~~m~~~-~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~-----m~~~~~~p~~~t~~~ll~~~~~~  163 (170)
                      .-.+.++.-... +.  .-|...|..+|......|+.+-...+..+     +++.|+..+...-.+|-+.+.+.
T Consensus       220 kl~~fW~~~~~~~~~--~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~~v  291 (292)
T PF13929_consen  220 KLFQFWEQCIPNSVP--GNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFKKV  291 (292)
T ss_pred             HHHHHHHHhcccCCC--CCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHHhc
Confidence            999998876644 55  77889999999999999999888877764     34567777777777766665543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=95.94  E-value=0.22  Score=35.79  Aligned_cols=97  Identities=10%  Similarity=0.024  Sum_probs=70.3

Q ss_pred             hhHhHH-HhhhcccCCHHHHHHHHHHHHhhCCCCcc----hhhHHHHHHHhhcccchHHHHHHHHHHHhcC--CCCCHHH
Q 038114            8 QLRFTF-YNSQPIQNLYNEALVAFDFLQNNTNFRIR----PSTYACLISTCSSLRSLQLGRKVHDHILSSK--SQPDVVL   80 (170)
Q Consensus         8 ~~~~~l-i~~~~~~~~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~~   80 (170)
                      ...|.. +..+.+.|++++|...|+.+ ...-  |+    +..+-.+-.++...|++++|...|..+.+.-  -......
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~f-l~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dA  219 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNF-VKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADA  219 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHH-HHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHH
Confidence            344553 44446679999999999998 4432  33    3467778888899999999999999998642  1112334


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           81 QNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        81 ~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      +-.+...+...|+.++|.++|+...+.
T Consensus       220 l~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        220 MFKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            444556677899999999999988765

>PLN02789 farnesyltranstransferase

Probab=95.88  E-value=0.48  Score=35.12  Aligned_cols=140  Identities=6%  Similarity=-0.001  Sum_probs=93.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchh-hHHHHHHHhhccc-chHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPS-TYACLISTCSSLR-SLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK   90 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   90 (170)
                      +-..+...++.++|+.+++++ ...  .|+.. .|+.--.++...+ .+++++..++.+.+.. +-+..+|+-.--.+.+
T Consensus        43 ~ra~l~~~e~serAL~lt~~a-I~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~  118 (320)
T PLN02789         43 FRAVYASDERSPRALDLTADV-IRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEK  118 (320)
T ss_pred             HHHHHHcCCCCHHHHHHHHHH-HHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHH
Confidence            344556678899999999988 432  23222 3333333344455 5789999999998764 3345667755445555


Q ss_pred             CCC--HHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHh
Q 038114           91 CGS--LEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCAC  160 (170)
Q Consensus        91 ~~~--~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~  160 (170)
                      .|.  .+++...++.+.+.+.   -+..+|+..--.+...|+++++++.++++.+.+.. |...|+...-.+
T Consensus       119 l~~~~~~~el~~~~kal~~dp---kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl  186 (320)
T PLN02789        119 LGPDAANKELEFTRKILSLDA---KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVI  186 (320)
T ss_pred             cCchhhHHHHHHHHHHHHhCc---ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHH
Confidence            555  3677888888776544   45678888888888889999999999999887644 344444443333

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.83  E-value=0.082  Score=40.64  Aligned_cols=143  Identities=13%  Similarity=0.085  Sum_probs=63.3

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCC-CCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTN-FRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC   91 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~   91 (170)
                      .|..-.+..-.+.|+.+|-+. +..| +.|+..+++++|..++. |+..-|..+|+-=... ++.++.--+-.+..+.+-
T Consensus       403 ~~N~v~r~~Gl~aaR~~F~k~-rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~-f~d~~~y~~kyl~fLi~i  479 (660)
T COG5107         403 HLNYVLRKRGLEAARKLFIKL-RKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK-FPDSTLYKEKYLLFLIRI  479 (660)
T ss_pred             HHHHHHHHhhHHHHHHHHHHH-hccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh-CCCchHHHHHHHHHHHHh
Confidence            344444555555555555555 4444 34455555555554443 3344444444422211 111222223344444555


Q ss_pred             CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhc
Q 038114           92 GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACT  161 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~  161 (170)
                      ++-+.|..+|+.-..+--. .---..|-.+|.-=+..|+...+..+=+.|..  +.|-..+...+.+-|.
T Consensus       480 nde~naraLFetsv~r~~~-~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~evF~Sry~  546 (660)
T COG5107         480 NDEENARALFETSVERLEK-TQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFTSRYA  546 (660)
T ss_pred             CcHHHHHHHHHHhHHHHHH-hhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHHHHHh
Confidence            5555555555522211000 00013555555555555555555555554442  2444444444444443

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

Probab=95.79  E-value=0.52  Score=37.98  Aligned_cols=142  Identities=11%  Similarity=0.044  Sum_probs=92.0

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCC
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGS   93 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~   93 (170)
                      +.-....|++...+..|+..-....+.....+|...|......+-++-+.++++...+.    ++..-+.-|..+++.++
T Consensus       109 lq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L~~~d~  184 (835)
T KOG2047|consen  109 LQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYLAKSDR  184 (835)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHHHhccc
Confidence            44455667777777777765244455555567777777777777777777777777643    44456677777777777


Q ss_pred             HHHHHHHHhhcccCCCC----------------------------------------CCCC--hhhHHHHHHHHhCCCCh
Q 038114           94 LEDARVVSDEMPQRNVI----------------------------------------ESPD--LASWNAIIAGVASPSNA  131 (170)
Q Consensus        94 ~~~a~~~~~~m~~~~~~----------------------------------------~~p~--~~~~~~li~~~~~~g~~  131 (170)
                      +++|-+.+.........                                        .=+|  -..|++|..-|.+.|.+
T Consensus       185 ~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~  264 (835)
T KOG2047|consen  185 LDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLF  264 (835)
T ss_pred             hHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhh
Confidence            77777666655322111                                        0112  23588899999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHhhHHHHHHHhc
Q 038114          132 NEAMSLFSEMRDRELIPDGLTVRSLLCACT  161 (170)
Q Consensus       132 ~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~  161 (170)
                      ++|..++++-...  ..+..-|+.+.++|+
T Consensus       265 ekarDvyeeai~~--v~tvrDFt~ifd~Ya  292 (835)
T KOG2047|consen  265 EKARDVYEEAIQT--VMTVRDFTQIFDAYA  292 (835)
T ss_pred             HHHHHHHHHHHHh--heehhhHHHHHHHHH
Confidence            9999999876644  223444555555554

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=95.77  E-value=0.053  Score=44.20  Aligned_cols=108  Identities=16%  Similarity=0.232  Sum_probs=68.8

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCC
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGS   93 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~   93 (170)
                      +.+-.....|..|+.+++-+ +..+.  .+.-|.-+-..|+..|+++-|.++|.+-         ..++-.|..|++.|+
T Consensus       739 ieaai~akew~kai~ildni-qdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~k  806 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNI-QDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGK  806 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHh-hhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhcccc
Confidence            45556667777888887777 55443  2334677778888888898888887653         245667888888888


Q ss_pred             HHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHH
Q 038114           94 LEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSL  137 (170)
Q Consensus        94 ~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l  137 (170)
                      |+.|.++-.+....    +.....|-+-..-.-..|.+.+|+++
T Consensus       807 w~da~kla~e~~~~----e~t~~~yiakaedldehgkf~eaeql  846 (1636)
T KOG3616|consen  807 WEDAFKLAEECHGP----EATISLYIAKAEDLDEHGKFAEAEQL  846 (1636)
T ss_pred             HHHHHHHHHHhcCc----hhHHHHHHHhHHhHHhhcchhhhhhe
Confidence            88888887664322    22334444444444444444444443

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

Probab=95.77  E-value=0.18  Score=36.50  Aligned_cols=79  Identities=6%  Similarity=0.061  Sum_probs=66.0

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh-----CCCCCCHhh
Q 038114           78 VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD-----RELIPDGLT  152 (170)
Q Consensus        78 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~-----~~~~p~~~t  152 (170)
                      ..++..++..+..+|+.+.+...++++.....   -+...|..++.+|.+.|+...|++.++.+.+     .|+.|...+
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp---~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~  229 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDP---YDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPEL  229 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCc---cchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHH
Confidence            45667788888889999999999998887654   6788999999999999999999999998875     589998888


Q ss_pred             HHHHHHH
Q 038114          153 VRSLLCA  159 (170)
Q Consensus       153 ~~~ll~~  159 (170)
                      .....+.
T Consensus       230 ~~~y~~~  236 (280)
T COG3629         230 RALYEEI  236 (280)
T ss_pred             HHHHHHH
Confidence            7766666

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.76  E-value=0.56  Score=36.32  Aligned_cols=116  Identities=10%  Similarity=0.095  Sum_probs=84.8

Q ss_pred             hhhHHHHHHHhhcccchHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHcCCCHHHHHHHHh-hcccCCCCCCCChhhHHH
Q 038114           43 PSTYACLISTCSSLRSLQLGRKVHDHILSSK-SQPDVVLQNYILNMYGKCGSLEDARVVSD-EMPQRNVIESPDLASWNA  120 (170)
Q Consensus        43 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~-~m~~~~~~~~p~~~~~~~  120 (170)
                      ...|+..|++.-+...++.|..+|.+..+.| +.+++.+++++|..++. |+..-|.++|+ .|+..+-    +..--+-
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~f~d----~~~y~~k  471 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLKFPD----STLYKEK  471 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHhCCC----chHHHHH
Confidence            4589999999999999999999999999998 68889999999988865 57788899998 4544322    2233355


Q ss_pred             HHHHHhCCCChHHHHHHHHH----HHhCCCCCCHhhHHHHHHHhcCCCcc
Q 038114          121 IIAGVASPSNANEAMSLFSE----MRDRELIPDGLTVRSLLCACTSPSNV  166 (170)
Q Consensus       121 li~~~~~~g~~~~a~~l~~~----m~~~~~~p~~~t~~~ll~~~~~~g~~  166 (170)
                      .+.-+.+.++-+.|..+|+.    +.+...   ...|..+|+-=++-|++
T Consensus       472 yl~fLi~inde~naraLFetsv~r~~~~q~---k~iy~kmi~YEs~~G~l  518 (660)
T COG5107         472 YLLFLIRINDEENARALFETSVERLEKTQL---KRIYDKMIEYESMVGSL  518 (660)
T ss_pred             HHHHHHHhCcHHHHHHHHHHhHHHHHHhhh---hHHHHHHHHHHHhhcch
Confidence            56677788888999999983    333322   34566666555555544

>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=95.74  E-value=0.032  Score=31.76  Aligned_cols=60  Identities=18%  Similarity=0.192  Sum_probs=41.9

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhc----CC-CCC-HHHHHHHHHHHHcCCCHHHHHHHHhhc
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSS----KS-QPD-VVLQNYILNMYGKCGSLEDARVVSDEM  104 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m  104 (170)
                      +|+.+-.+|...|++++|...|++..+.    |- .|+ ..+++.+-..|...|++++|++.+++.
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            5667777777888888888888777642    21 122 557777778888888888888887753

...

>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=95.61  E-value=0.37  Score=32.47  Aligned_cols=58  Identities=9%  Similarity=0.044  Sum_probs=24.7

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHh
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSSKSQPD--VVLQNYILNMYGKCGSLEDARVVSD  102 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~  102 (170)
                      .+..+-..|.+.|+.+.|.+.|..+.+....+.  ...+-.+|+...-.+++..+.....
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~   97 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIE   97 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            344444444444444444444444444332222  2233344444444444444444333

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.

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.52  E-value=0.32  Score=36.47  Aligned_cols=81  Identities=9%  Similarity=0.005  Sum_probs=53.0

Q ss_pred             chHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHH-HHHHhCCCChHHHHH
Q 038114           58 SLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAI-IAGVASPSNANEAMS  136 (170)
Q Consensus        58 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~l-i~~~~~~g~~~~a~~  136 (170)
                      .++++.-.+..+...=...|...+| +-.+++..|++.+|+++|-.+....+  +-+ .+|-.+ ..+|.+.+.++.|++
T Consensus       374 qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~i--kn~-~~Y~s~LArCyi~nkkP~lAW~  449 (557)
T KOG3785|consen  374 QFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEI--KNK-ILYKSMLARCYIRNKKPQLAWD  449 (557)
T ss_pred             HHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhh--hhh-HHHHHHHHHHHHhcCCchHHHH
Confidence            3444444444444332233444444 44777888999999999988877666  433 566555 578889999999988


Q ss_pred             HHHHHH
Q 038114          137 LFSEMR  142 (170)
Q Consensus       137 l~~~m~  142 (170)
                      ++-.+.
T Consensus       450 ~~lk~~  455 (557)
T KOG3785|consen  450 MMLKTN  455 (557)
T ss_pred             HHHhcC
Confidence            876654

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.50  E-value=0.4  Score=36.98  Aligned_cols=62  Identities=8%  Similarity=-0.147  Sum_probs=39.5

Q ss_pred             hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCH----HHHHHHHHHHHcCCCHHHHHHHHhhccc
Q 038114           43 PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDV----VLQNYILNMYGKCGSLEDARVVSDEMPQ  106 (170)
Q Consensus        43 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~  106 (170)
                      ...++.+-.++...|++++|...|+...+.  .|+.    .+|..+-.+|.+.|++++|.+.+++..+
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            335666666666777777777777766554  2331    3466677777777777777777766554

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.49  E-value=0.21  Score=38.48  Aligned_cols=66  Identities=12%  Similarity=-0.015  Sum_probs=56.8

Q ss_pred             CCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCCh----hhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           75 QPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDL----ASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        75 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~----~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      +.+...|+.+-.+|.+.|++++|...|+...+.+    |+.    .+|..+-.+|...|+.++|+..+++..+.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~----Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELN----PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC----CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3458899999999999999999999999877653    442    46999999999999999999999988775

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=95.46  E-value=0.59  Score=33.19  Aligned_cols=159  Identities=8%  Similarity=-0.048  Sum_probs=100.0

Q ss_pred             hHhHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhh---HHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038114            9 LRFTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPST---YACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYIL   85 (170)
Q Consensus         9 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~---~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li   85 (170)
                      ..|.-...+.+.|++++|...|+.+ ...-..+ +..   .-.+..++-+.+++++|...+++..+....-...-|.-.+
T Consensus        34 ~~Y~~A~~~~~~g~y~~Ai~~f~~l-~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~  111 (243)
T PRK10866         34 EIYATAQQKLQDGNWKQAITQLEAL-DNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYM  111 (243)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHH-HHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHH
Confidence            3444556667789999999999999 5533222 222   2355677889999999999999998863322234555555


Q ss_pred             HHHHc-----------------CCCH---HHHHHHHhhcccCCCCC--CCChhhHH------------HHHHHHhCCCCh
Q 038114           86 NMYGK-----------------CGSL---EDARVVSDEMPQRNVIE--SPDLASWN------------AIIAGVASPSNA  131 (170)
Q Consensus        86 ~~~~~-----------------~~~~---~~a~~~~~~m~~~~~~~--~p~~~~~~------------~li~~~~~~g~~  131 (170)
                      .+.+.                 .++.   ..|...|+.+.+.=..+  .|+....-            .+..-|-+.|.+
T Consensus       112 ~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y  191 (243)
T PRK10866        112 RGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAY  191 (243)
T ss_pred             HHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCch
Confidence            55441                 1122   34556666655431100  22221111            222447888999


Q ss_pred             HHHHHHHHHHHhC--CCCCCHhhHHHHHHHhcCCCccccC
Q 038114          132 NEAMSLFSEMRDR--ELIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       132 ~~a~~l~~~m~~~--~~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      .-|..=|+.+.+.  +-.........+..+|.+.|..+++
T Consensus       192 ~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a  231 (243)
T PRK10866        192 VAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQA  231 (243)
T ss_pred             HHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHH
Confidence            9999999988865  4555666777888999888877654

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

Probab=95.46  E-value=0.59  Score=39.39  Aligned_cols=87  Identities=9%  Similarity=0.016  Sum_probs=45.6

Q ss_pred             HHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC
Q 038114           12 TFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC   91 (170)
Q Consensus        12 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~   91 (170)
                      +++..+....++..+..+...| ...  .-+...+-.+-.+|-+.|+.+++..+|+++.+.. .-|+.+.|.+-..|...
T Consensus        88 ~~l~~~~~~~~~~~ve~~~~~i-~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~  163 (906)
T PRK14720         88 NLIDSFSQNLKWAIVEHICDKI-LLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE  163 (906)
T ss_pred             hhhhhcccccchhHHHHHHHHH-Hhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh
Confidence            3455555555554444444555 332  2233355555555666666666666666665554 33455555555555555


Q ss_pred             CCHHHHHHHHhh
Q 038114           92 GSLEDARVVSDE  103 (170)
Q Consensus        92 ~~~~~a~~~~~~  103 (170)
                       ++++|.+++..
T Consensus       164 -dL~KA~~m~~K  174 (906)
T PRK14720        164 -DKEKAITYLKK  174 (906)
T ss_pred             -hHHHHHHHHHH
Confidence             55555554443

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

Probab=95.45  E-value=0.94  Score=35.38  Aligned_cols=123  Identities=15%  Similarity=0.097  Sum_probs=94.4

Q ss_pred             cccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHH
Q 038114           18 PIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDA   97 (170)
Q Consensus        18 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a   97 (170)
                      .++.+...|++++-..   -|..|..-+|..-|..=...+.++.+..+|+...+.+ +-+..+|.-.-..=...|+.+.|
T Consensus       415 IRq~~l~~ARkiLG~A---IG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~-Pe~c~~W~kyaElE~~LgdtdRa  490 (677)
T KOG1915|consen  415 IRQLNLTGARKILGNA---IGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS-PENCYAWSKYAELETSLGDTDRA  490 (677)
T ss_pred             HHHcccHHHHHHHHHH---hccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-hHhhHHHHHHHHHHHHhhhHHHH
Confidence            4567778888887655   6788999999999998889999999999999999876 33567777776666778999999


Q ss_pred             HHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC
Q 038114           98 RVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus        98 ~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      ..+|+-..+.... .-....|-+.|.-=...|.+++|..+++.+.+..
T Consensus       491 RaifelAi~qp~l-dmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt  537 (677)
T KOG1915|consen  491 RAIFELAISQPAL-DMPELLWKAYIDFEIEEGEFEKARALYERLLDRT  537 (677)
T ss_pred             HHHHHHHhcCccc-ccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhc
Confidence            9999976543211 2233455555655577899999999999998764

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=95.41  E-value=0.41  Score=31.07  Aligned_cols=91  Identities=9%  Similarity=0.106  Sum_probs=43.8

Q ss_pred             hhCCCCcchh--hHHHHHHHhhcccchHHHHHHHHHHHhcC-----CCCCHHHHHHHHHHHHcCCC-HHHHHHHHhhccc
Q 038114           35 NNTNFRIRPS--TYACLISTCSSLRSLQLGRKVHDHILSSK-----SQPDVVLQNYILNMYGKCGS-LEDARVVSDEMPQ  106 (170)
Q Consensus        35 ~~~~~~p~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----~~~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~  106 (170)
                      ++.+..++..  ..++++.-.+..+.+....++++.+..-.     -..+...|.+++++.++... --.+..+|.-|++
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            3344444433  34555555555555555555555552210     02233445555555544443 3334445555555


Q ss_pred             CCCCCCCChhhHHHHHHHHhC
Q 038114          107 RNVIESPDLASWNAIIAGVAS  127 (170)
Q Consensus       107 ~~~~~~p~~~~~~~li~~~~~  127 (170)
                      .+.  +++..-|..+|.++.+
T Consensus       109 ~~~--~~t~~dy~~li~~~l~  127 (145)
T PF13762_consen  109 NDI--EFTPSDYSCLIKAALR  127 (145)
T ss_pred             cCC--CCCHHHHHHHHHHHHc
Confidence            445  5555555555555544

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

Probab=95.33  E-value=0.27  Score=35.64  Aligned_cols=88  Identities=16%  Similarity=0.066  Sum_probs=63.3

Q ss_pred             hhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHcCCCH
Q 038114           16 SQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD-VVLQNYILNMYGKCGSL   94 (170)
Q Consensus        16 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~   94 (170)
                      -+.+.+++.+|+..|.+. .... +-|++-|+---.+|.+.|.++.|.+--+.-..-  .|+ ..+|..|=.+|...|++
T Consensus        90 ~~m~~~~Y~eAv~kY~~A-I~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEA-IELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHhhhHHHHHHHHHHH-HhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCcH
Confidence            356778888888888887 4321 235666777778888888888777766655543  444 56888888888888888


Q ss_pred             HHHHHHHhhcccC
Q 038114           95 EDARVVSDEMPQR  107 (170)
Q Consensus        95 ~~a~~~~~~m~~~  107 (170)
                      ++|.+-|++..+.
T Consensus       166 ~~A~~aykKaLel  178 (304)
T KOG0553|consen  166 EEAIEAYKKALEL  178 (304)
T ss_pred             HHHHHHHHhhhcc
Confidence            8888888776543

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

Probab=95.22  E-value=0.67  Score=36.87  Aligned_cols=121  Identities=12%  Similarity=0.126  Sum_probs=84.4

Q ss_pred             hHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHH--HHHHH
Q 038114           11 FTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNY--ILNMY   88 (170)
Q Consensus        11 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~--li~~~   88 (170)
                      |+=++.+.++|.+++|.+.-.++ ...+ +-+...+..=+-+....+.+++|+.+.+.   .+.   ..+++.  +=++|
T Consensus        16 ~t~ln~~~~~~e~e~a~k~~~Ki-l~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk---~~~---~~~~~~~~fEKAY   87 (652)
T KOG2376|consen   16 LTDLNRHGKNGEYEEAVKTANKI-LSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKK---NGA---LLVINSFFFEKAY   87 (652)
T ss_pred             HHHHHHhccchHHHHHHHHHHHH-HhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHh---cch---hhhcchhhHHHHH
Confidence            33488889999999999999999 6655 33445666667778888999988854432   221   112222  35666


Q ss_pred             H--cCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC
Q 038114           89 G--KCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus        89 ~--~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      |  +.+..++|...+.....      .+..+-..-...|-+.|++++|+.+++.+.+.+
T Consensus        88 c~Yrlnk~Dealk~~~~~~~------~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~  140 (652)
T KOG2376|consen   88 CEYRLNKLDEALKTLKGLDR------LDDKLLELRAQVLYRLERYDEALDIYQHLAKNN  140 (652)
T ss_pred             HHHHcccHHHHHHHHhcccc------cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            6  56889999999883322      222355555677888999999999999996554

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=95.13  E-value=0.73  Score=33.45  Aligned_cols=110  Identities=13%  Similarity=0.109  Sum_probs=83.6

Q ss_pred             HHhhhcc--cCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhc-CCCCCHHHHHHHHHHHH
Q 038114           13 FYNSQPI--QNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSS-KSQPDVVLQNYILNMYG   89 (170)
Q Consensus        13 li~~~~~--~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~   89 (170)
                      +++....  ......-.++.+.+....+-.++..+...+|..+++.+++....+++...... +..-|...|..+|+...
T Consensus       170 LL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~  249 (292)
T PF13929_consen  170 LLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIV  249 (292)
T ss_pred             HHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHH
Confidence            4555544  22455566777777556667789999999999999999999999999988765 66778999999999999


Q ss_pred             cCCCHHHHHHHHhh-----cccCCCCCCCChhhHHHHHHH
Q 038114           90 KCGSLEDARVVSDE-----MPQRNVIESPDLASWNAIIAG  124 (170)
Q Consensus        90 ~~~~~~~a~~~~~~-----m~~~~~~~~p~~~~~~~li~~  124 (170)
                      ..|+..-+.++.++     .++.++  ..+...-..+-..
T Consensus       250 ~sgD~~~~~kiI~~GhLLwikR~~V--~v~~~L~~~L~~L  287 (292)
T PF13929_consen  250 ESGDQEVMRKIIDDGHLLWIKRNNV--DVTDELRSQLSEL  287 (292)
T ss_pred             HcCCHHHHHHHhhCCCeEEeeecCC--cCCHHHHHHHHHH
Confidence            99999999999885     356666  4554444444333

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.04  E-value=0.92  Score=32.97  Aligned_cols=116  Identities=9%  Similarity=-0.017  Sum_probs=86.0

Q ss_pred             ccccchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhh-HHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHH
Q 038114            3 RNLKTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPST-YACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVL   80 (170)
Q Consensus         3 ~~~~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~   80 (170)
                      .+..|...|- |-..|.+.|+++.|...|...-+..|-.|+... |...+..-+......++..+|++..... +-|+..
T Consensus       151 ~nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~ira  229 (287)
T COG4235         151 QNPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRA  229 (287)
T ss_pred             hCCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHH
Confidence            3456788899 799999999999999999998455665555442 3333333334455788999999998864 446888


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHH
Q 038114           81 QNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIA  123 (170)
Q Consensus        81 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~  123 (170)
                      ..-|-..+...|++.+|...|+.|.+...   |+ ..+..+|.
T Consensus       230 l~lLA~~afe~g~~~~A~~~Wq~lL~~lp---~~-~~rr~~ie  268 (287)
T COG4235         230 LSLLAFAAFEQGDYAEAAAAWQMLLDLLP---AD-DPRRSLIE  268 (287)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCC---CC-CchHHHHH
Confidence            88888999999999999999999987644   33 34555553

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=95.03  E-value=0.4  Score=28.80  Aligned_cols=48  Identities=8%  Similarity=0.032  Sum_probs=29.6

Q ss_pred             chHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcc
Q 038114           58 SLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMP  105 (170)
Q Consensus        58 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  105 (170)
                      +.-++.+-++.+....+.|++.+..+-+++|-|.+++..|.++|+..+
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            444555555555556666666666666666666666666666666555

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.

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

Probab=94.96  E-value=0.43  Score=34.58  Aligned_cols=78  Identities=8%  Similarity=-0.029  Sum_probs=64.8

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcc-----cCCCCCCCChhhHH
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMP-----QRNVIESPDLASWN  119 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~-----~~~~~~~p~~~~~~  119 (170)
                      ++..++..+...++.+.+...++++.... +-+...|-.+|.+|.+.|+...|.+.|+.+.     ..|+  .|...+..
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi--~P~~~~~~  231 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGI--DPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCC--CccHHHHH
Confidence            55667888888899999999999998875 5578899999999999999999999998765     4688  88888877


Q ss_pred             HHHHHH
Q 038114          120 AIIAGV  125 (170)
Q Consensus       120 ~li~~~  125 (170)
                      ......
T Consensus       232 ~y~~~~  237 (280)
T COG3629         232 LYEEIL  237 (280)
T ss_pred             HHHHHh
Confidence            777663

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

Probab=94.96  E-value=1.3  Score=35.96  Aligned_cols=145  Identities=12%  Similarity=0.027  Sum_probs=72.8

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHcCC
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD-VVLQNYILNMYGKCG   92 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~   92 (170)
                      +.--..+..++.|+.+|.+. +.  ..|+...|..-++.---.+..++|.+++++..+.  -|+ ...|--+-..+-+.+
T Consensus       625 vKle~en~e~eraR~llaka-r~--~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~  699 (913)
T KOG0495|consen  625 VKLEFENDELERARDLLAKA-RS--ISGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQME  699 (913)
T ss_pred             HHHhhccccHHHHHHHHHHH-hc--cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHH
Confidence            55556666677777777666 33  4455555555555555556666666666655543  222 334444444444445


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhh-HHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLAS-WNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~-~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      +.+.|.+.|..=...    .|+... |-.+...=-+.|+.-+|..+++.-+..+ .-+...|...|+.=.++|..+.
T Consensus       700 ~ie~aR~aY~~G~k~----cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~  771 (913)
T KOG0495|consen  700 NIEMAREAYLQGTKK----CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQ  771 (913)
T ss_pred             HHHHHHHHHHhcccc----CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHH
Confidence            555555444432211    333222 2222222234445666666665554443 2244555555555555555443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.91  E-value=0.55  Score=30.40  Aligned_cols=87  Identities=11%  Similarity=0.029  Sum_probs=58.1

Q ss_pred             cchhHhHHHhhhcccCCHHHHHHHHHHHHhhCCCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            6 KTQLRFTFYNSQPIQNLYNEALVAFDFLQNNTNFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         6 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      ++...|+--....+.|++++|.+.|+.+..+.-..| ....--.++.++.+.+++++|...++.+.+....-.-.-|...
T Consensus         9 ~~~~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y   88 (142)
T PF13512_consen    9 SPQELYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYY   88 (142)
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence            444445556666788889999888888833332222 3446677888888888999998888888875432223566666


Q ss_pred             HHHHHcCC
Q 038114           85 LNMYGKCG   92 (170)
Q Consensus        85 i~~~~~~~   92 (170)
                      +.+++.-.
T Consensus        89 ~~gL~~~~   96 (142)
T PF13512_consen   89 MRGLSYYE   96 (142)
T ss_pred             HHHHHHHH
Confidence            66665443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.90  E-value=0.18  Score=37.06  Aligned_cols=93  Identities=14%  Similarity=0.039  Sum_probs=69.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCC--CCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTN--FRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK   90 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~--~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   90 (170)
                      ++..-.+..+++++...+-+++...+  ..|+. +-.++++.|-+. +++.+..+...-.+.|+-||.++++.+|+.+.+
T Consensus        70 ~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irlllky-~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk  147 (418)
T KOG4570|consen   70 LVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLLLKY-DPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLK  147 (418)
T ss_pred             hhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHHHcc-ChHHHHHHHhCcchhccccchhhHHHHHHHHHh
Confidence            35555667788899888877722222  23333 334455655555 577999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHhhcccC
Q 038114           91 CGSLEDARVVSDEMPQR  107 (170)
Q Consensus        91 ~~~~~~a~~~~~~m~~~  107 (170)
                      .+++.+|.++...|...
T Consensus       148 ~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  148 KENYKDAASVVTEVMMQ  164 (418)
T ss_pred             cccHHHHHHHHHHHHHH
Confidence            99999999987776544

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

Probab=94.89  E-value=0.57  Score=34.08  Aligned_cols=102  Identities=16%  Similarity=0.102  Sum_probs=79.2

Q ss_pred             hcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHH
Q 038114           54 SSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANE  133 (170)
Q Consensus        54 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~  133 (170)
                      .+.+++++|...|.+..+.. +-|.+-|..--.+|.+.|.++.|.+=.+.-..-+.   -...+|..|=.+|...|++++
T Consensus        92 m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp---~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   92 MKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDP---HYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcCh---HHHHHHHHHHHHHHccCcHHH
Confidence            45577888888888887753 34688888888999999999999988777654433   235789999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHhc
Q 038114          134 AMSLFSEMRDRELIPDGLTVRSLLCACT  161 (170)
Q Consensus       134 a~~l~~~m~~~~~~p~~~t~~~ll~~~~  161 (170)
                      |.+-|++-.  .+.|+-.+|-.=|+...
T Consensus       168 A~~aykKaL--eldP~Ne~~K~nL~~Ae  193 (304)
T KOG0553|consen  168 AIEAYKKAL--ELDPDNESYKSNLKIAE  193 (304)
T ss_pred             HHHHHHhhh--ccCCCcHHHHHHHHHHH
Confidence            999988544  56788888776666543

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=94.86  E-value=0.17  Score=30.72  Aligned_cols=47  Identities=9%  Similarity=0.068  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhccc
Q 038114           60 QLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQ  106 (170)
Q Consensus        60 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  106 (170)
                      -+..+-+..+....+.|++.+..+.+++|-|.+++..|.++|+..+.
T Consensus        27 we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~   73 (108)
T PF02284_consen   27 WELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKD   73 (108)
T ss_dssp             HHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            34555555555666666777777777777777777777777766654

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 ....

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

Probab=94.79  E-value=0.48  Score=37.38  Aligned_cols=114  Identities=18%  Similarity=0.076  Sum_probs=86.5

Q ss_pred             chhHhH-HHhhhcccCCHHHHHHHHHHHHhhC-----CCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHH
Q 038114            7 TQLRFT-FYNSQPIQNLYNEALVAFDFLQNNT-----NFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVV   79 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~-----~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~   79 (170)
                      ++...+ +--..-+.+.+.+|...|... ...     .-.+ ...+++-|=++|.+.+.+++|...|++-.... +-+..
T Consensus       413 Dplv~~Elgvvay~~~~y~~A~~~f~~~-l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k~~~  490 (611)
T KOG1173|consen  413 DPLVLHELGVVAYTYEEYPEALKYFQKA-LEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS-PKDAS  490 (611)
T ss_pred             cchhhhhhhheeehHhhhHHHHHHHHHH-HHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC-CCchh
Confidence            445555 544445678889999998876 411     1111 34468888899999999999999999988764 66889


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHh
Q 038114           80 LQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVA  126 (170)
Q Consensus        80 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~  126 (170)
                      +++++--.|...|+++.|.+-|.+-..  +  +|+-.+-+.++..+.
T Consensus       491 ~~asig~iy~llgnld~Aid~fhKaL~--l--~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  491 THASIGYIYHLLGNLDKAIDHFHKALA--L--KPDNIFISELLKLAI  533 (611)
T ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHHh--c--CCccHHHHHHHHHHH
Confidence            999999999999999999999998654  3  778777777776543

>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=94.64  E-value=0.027  Score=36.26  Aligned_cols=88  Identities=13%  Similarity=0.122  Sum_probs=67.8

Q ss_pred             HHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHh
Q 038114           47 ACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVA  126 (170)
Q Consensus        47 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~  126 (170)
                      ..+|..+.+.+.++....+++.+...+...+....+.++..|++.+..+...+.++....  .       -...++..|-
T Consensus        11 ~~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~--y-------d~~~~~~~c~   81 (143)
T PF00637_consen   11 SEVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN--Y-------DLDKALRLCE   81 (143)
T ss_dssp             CCCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS--S--------CTHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc--c-------CHHHHHHHHH
Confidence            346788888999999999999999877677899999999999999888888888884333  2       2345677777


Q ss_pred             CCCChHHHHHHHHHHHh
Q 038114          127 SPSNANEAMSLFSEMRD  143 (170)
Q Consensus       127 ~~g~~~~a~~l~~~m~~  143 (170)
                      +.|.++.|..++..+..
T Consensus        82 ~~~l~~~a~~Ly~~~~~   98 (143)
T PF00637_consen   82 KHGLYEEAVYLYSKLGN   98 (143)
T ss_dssp             TTTSHHHHHHHHHCCTT
T ss_pred             hcchHHHHHHHHHHccc
Confidence            77888888877776643

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.

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

Probab=94.59  E-value=0.59  Score=36.48  Aligned_cols=126  Identities=7%  Similarity=-0.002  Sum_probs=84.0

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +-..|.+..+.++.+..|+.. ..... -++.+|..--....-.++++.|..=|+..+.-. +-++..|--+--+.-|.+
T Consensus       366 ~a~~y~d~~~~~~~~~~F~~A-~~ldp-~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~  442 (606)
T KOG0547|consen  366 RAAAYADENQSEKMWKDFNKA-EDLDP-ENPDVYYHRGQMRFLLQQYEEAIADFQKAISLD-PENAYAYIQLCCALYRQH  442 (606)
T ss_pred             HHHHHhhhhccHHHHHHHHHH-HhcCC-CCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHHH
Confidence            566777778888888888877 43321 233444444344444567777777777766532 223555555656666778


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      .+++++..|++.+.+ +  +-.+..||.....+...+++++|.+.|+.-...
T Consensus       443 k~~~~m~~Fee~kkk-F--P~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  443 KIAESMKTFEEAKKK-F--PNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHHHHHHHHHHh-C--CCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            888888888887754 2  344567888888888888899998888876543

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

Probab=94.58  E-value=1.2  Score=32.24  Aligned_cols=142  Identities=11%  Similarity=0.043  Sum_probs=86.7

Q ss_pred             cccCCHHHHHHHHHHHHh---hCCCC-cchhhHHHHHHHhhcc-cchHHHHHHHHHHHhc----CCCCC--HHHHHHHHH
Q 038114           18 PIQNLYNEALVAFDFLQN---NTNFR-IRPSTYACLISTCSSL-RSLQLGRKVHDHILSS----KSQPD--VVLQNYILN   86 (170)
Q Consensus        18 ~~~~~~~~a~~~~~~m~~---~~~~~-p~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~----~~~~~--~~~~~~li~   86 (170)
                      .+..++++|...+++...   ..|-. --...+..+-..|... |+++.|.+.|.+..+.    | .+.  ...+..+..
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            344488888888877621   22321 1223666777778887 8999999999887652    3 222  346667778


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCC---CCCChh--hHHHHHHHHhCCCChHHHHHHHHHHHhC--CCCC--CHhhHHHHH
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVI---ESPDLA--SWNAIIAGVASPSNANEAMSLFSEMRDR--ELIP--DGLTVRSLL  157 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~---~~p~~~--~~~~li~~~~~~g~~~~a~~l~~~m~~~--~~~p--~~~t~~~ll  157 (170)
                      .+.+.|++++|.++|++....-..   .++++.  .++++|. +...|+...|...|++....  ++..  .......||
T Consensus       164 l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~-~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~  242 (282)
T PF14938_consen  164 LYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILC-HLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLL  242 (282)
T ss_dssp             HHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHH-HHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHH-HHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHH
Confidence            899999999999999987543221   023332  2345554 44458999999999988754  3332  244456666


Q ss_pred             HHhc
Q 038114          158 CACT  161 (170)
Q Consensus       158 ~~~~  161 (170)
                      .+|-
T Consensus       243 ~A~~  246 (282)
T PF14938_consen  243 EAYE  246 (282)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6653

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.53  E-value=0.73  Score=29.43  Aligned_cols=87  Identities=11%  Similarity=0.079  Sum_probs=61.2

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHH
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAG  124 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~  124 (170)
                      ....++..+...+.......+++.+...+ ..++..+|.+|..|++.. .+...+.+..  ..      +......++..
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~--~~------~~yd~~~~~~~   78 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN--KS------NHYDIEKVGKL   78 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh--cc------ccCCHHHHHHH
Confidence            45577888888889999999999998887 478889999999999874 3444555552  11      11344456666


Q ss_pred             HhCCCChHHHHHHHHHH
Q 038114          125 VASPSNANEAMSLFSEM  141 (170)
Q Consensus       125 ~~~~g~~~~a~~l~~~m  141 (170)
                      |.+.+-++.+..++..+
T Consensus        79 c~~~~l~~~~~~l~~k~   95 (140)
T smart00299       79 CEKAKLYEEAVELYKKD   95 (140)
T ss_pred             HHHcCcHHHHHHHHHhh
Confidence            66666666666666655

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=94.52  E-value=0.79  Score=29.79  Aligned_cols=99  Identities=14%  Similarity=0.176  Sum_probs=74.5

Q ss_pred             HHHhcCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHhhcccCC---CCCCCChhhHHHHHHHHhCCCC-hHHHHHHHHHH
Q 038114           68 HILSSKSQPD--VVLQNYILNMYGKCGSLEDARVVSDEMPQRN---VIESPDLASWNAIIAGVASPSN-ANEAMSLFSEM  141 (170)
Q Consensus        68 ~m~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~~~p~~~~~~~li~~~~~~g~-~~~a~~l~~~m  141 (170)
                      .|++.+..++  ....|+++.-....+++.....+++.+....   +.-..+..+|.+++.+.+.... .--+..+|.-|
T Consensus        27 y~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~L  106 (145)
T PF13762_consen   27 YMQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFL  106 (145)
T ss_pred             HhhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHH
Confidence            3444455555  3467888888888899999999888774221   1013456789999999988777 55678899999


Q ss_pred             HhCCCCCCHhhHHHHHHHhcCCCcc
Q 038114          142 RDRELIPDGLTVRSLLCACTSPSNV  166 (170)
Q Consensus       142 ~~~~~~p~~~t~~~ll~~~~~~g~~  166 (170)
                      ++.+.+++..-|..+|+++.+--..
T Consensus       107 k~~~~~~t~~dy~~li~~~l~g~~~  131 (145)
T PF13762_consen  107 KKNDIEFTPSDYSCLIKAALRGYFH  131 (145)
T ss_pred             HHcCCCCCHHHHHHHHHHHHcCCCC
Confidence            9989999999999999999876433

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=94.48  E-value=1.3  Score=36.34  Aligned_cols=128  Identities=10%  Similarity=-0.011  Sum_probs=98.6

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMY   88 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~   88 (170)
                      .|. .-..+.+.++.+++...+.+. ... .+.....|...=..+...|..++|.+.|..-..-. +-++..-+++-..+
T Consensus       652 lwllaa~~~~~~~~~~~a~~CL~Ea-~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ld-P~hv~s~~Ala~~l  728 (799)
T KOG4162|consen  652 LWLLAADLFLLSGNDDEARSCLLEA-SKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALD-PDHVPSMTALAELL  728 (799)
T ss_pred             HHHHHHHHHHhcCCchHHHHHHHHH-Hhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcC-CCCcHHHHHHHHHH
Confidence            344 467788889999999888877 332 23445556555566667788999999888776542 22477889999999


Q ss_pred             HcCCCHHHHHH--HHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114           89 GKCGSLEDARV--VSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus        89 ~~~~~~~~a~~--~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      .+.|+...|..  ++.++.+.+.   .+...|-.+-..+-..|+.++|-+.|.--.+
T Consensus       729 le~G~~~la~~~~~L~dalr~dp---~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~q  782 (799)
T KOG4162|consen  729 LELGSPRLAEKRSLLSDALRLDP---LNHEAWYYLGEVFKKLGDSKQAAECFQAALQ  782 (799)
T ss_pred             HHhCCcchHHHHHHHHHHHhhCC---CCHHHHHHHHHHHHHccchHHHHHHHHHHHh
Confidence            99999888888  8999887766   5667899999999999999999999986654

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

Probab=94.48  E-value=0.48  Score=39.35  Aligned_cols=97  Identities=15%  Similarity=0.064  Sum_probs=74.1

Q ss_pred             ccchhHhHHHhhh--cccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHH
Q 038114            5 LKTQLRFTFYNSQ--PIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQN   82 (170)
Q Consensus         5 ~~~~~~~~li~~~--~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~   82 (170)
                      .|+....-.+.++  .+.|+.++|..+++.. ...+.. |..|...+-.+|.+.++.+++..+|+...+.  -|+-....
T Consensus        39 ~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~-~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~  114 (932)
T KOG2053|consen   39 HPNALYAKVLKALSLFRLGKGDEALKLLEAL-YGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLY  114 (932)
T ss_pred             CCCcHHHHHHHHHHHHHhcCchhHHHHHhhh-ccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHH
Confidence            3444433355554  6789999999888888 555544 8889999999999999999999999998765  56677888


Q ss_pred             HHHHHHHcCCCHHH----HHHHHhhcc
Q 038114           83 YILNMYGKCGSLED----ARVVSDEMP  105 (170)
Q Consensus        83 ~li~~~~~~~~~~~----a~~~~~~m~  105 (170)
                      .+..+|.|.+++.+    |.+++....
T Consensus       115 ~lFmayvR~~~yk~qQkaa~~LyK~~p  141 (932)
T KOG2053|consen  115 HLFMAYVREKSYKKQQKAALQLYKNFP  141 (932)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            88899999988765    445555433

>PRK15331 chaperone protein SicA; Provisional

Probab=94.41  E-value=0.52  Score=31.30  Aligned_cols=84  Identities=7%  Similarity=-0.155  Sum_probs=37.7

Q ss_pred             ccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHH
Q 038114           56 LRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAM  135 (170)
Q Consensus        56 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~  135 (170)
                      .|++++|..+|.-+...+. -+..-|..|-.++-..+++++|...|...-..+.   -|...+-..-.++...|+.+.|.
T Consensus        50 ~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~---~dp~p~f~agqC~l~l~~~~~A~  125 (165)
T PRK15331         50 QGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK---NDYRPVFFTGQCQLLMRKAAKAR  125 (165)
T ss_pred             CCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---CCCCccchHHHHHHHhCCHHHHH
Confidence            4555555555555544321 1233344444444444555555555553322221   11122223334444455555555


Q ss_pred             HHHHHHHh
Q 038114          136 SLFSEMRD  143 (170)
Q Consensus       136 ~l~~~m~~  143 (170)
                      ..|..-..
T Consensus       126 ~~f~~a~~  133 (165)
T PRK15331        126 QCFELVNE  133 (165)
T ss_pred             HHHHHHHh
Confidence            55554443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=94.35  E-value=0.93  Score=38.27  Aligned_cols=127  Identities=9%  Similarity=-0.153  Sum_probs=75.2

Q ss_pred             hhcccCCHHHHHHHHHHHHhhCCCCcch----hhHHHHHHHhhcccchHHHHHHHHHHHhc----CC-CCCHHHHHHHHH
Q 038114           16 SQPIQNLYNEALVAFDFLQNNTNFRIRP----STYACLISTCSSLRSLQLGRKVHDHILSS----KS-QPDVVLQNYILN   86 (170)
Q Consensus        16 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~~~~~~~~~li~   86 (170)
                      .+...|++++|...+++. ...-...+.    ...+.+-..+...|+++.|...+.+....    |- ......+..+-.
T Consensus       461 ~~~~~g~~~~A~~~~~~a-l~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~  539 (903)
T PRK04841        461 VAINDGDPEEAERLAELA-LAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSE  539 (903)
T ss_pred             HHHhCCCHHHHHHHHHHH-HhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHH
Confidence            345678888998888886 432111111    13344445566788888888888877642    21 111234455566


Q ss_pred             HHHcCCCHHHHHHHHhhccc----CCCCCCC-ChhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114           87 MYGKCGSLEDARVVSDEMPQ----RNVIESP-DLASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~----~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      .+...|++++|...+++...    .+....| ....+..+...+...|++++|...+.+...
T Consensus       540 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~  601 (903)
T PRK04841        540 ILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLE  601 (903)
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHH
Confidence            67788888888888776432    1210001 122344444556667888888888877654

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=94.26  E-value=2.1  Score=34.63  Aligned_cols=101  Identities=14%  Similarity=0.071  Sum_probs=75.7

Q ss_pred             ccchhHhH---HHhhhcccCCHHHHHHHHHHHHhhCCCCcchh-hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHH
Q 038114            5 LKTQLRFT---FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPS-TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVL   80 (170)
Q Consensus         5 ~~~~~~~~---li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~   80 (170)
                      .|++..|+   +..++-..|+++.|...++.. -.  -.|+.. .|-+=-+.+.-.|+++.|..++++.++.. .+|...
T Consensus       366 ~PttllWt~y~laqh~D~~g~~~~A~~yId~A-Id--HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~I  441 (700)
T KOG1156|consen  366 PPTTLLWTLYFLAQHYDKLGDYEVALEYIDLA-ID--HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAI  441 (700)
T ss_pred             CchHHHHHHHHHHHHHHHcccHHHHHHHHHHH-hc--cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHH
Confidence            56777787   488899999999999999888 32  234433 33333355667799999999999998775 556666


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHhhcccCCC
Q 038114           81 QNYILNMYGKCGSLEDARVVSDEMPQRNV  109 (170)
Q Consensus        81 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~  109 (170)
                      -+--.+-..+..+.++|.++.......|.
T Consensus       442 NsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  442 NSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            65677788889999999999888776654

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

Probab=94.22  E-value=0.9  Score=37.04  Aligned_cols=88  Identities=15%  Similarity=0.144  Sum_probs=68.8

Q ss_pred             HhhcccchHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCC
Q 038114           52 TCSSLRSLQLGRKVHDHILSSKSQPD-VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSN  130 (170)
Q Consensus        52 ~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~  130 (170)
                      +..+.++++.+.+.|.....-  .|| ...||++=.+|.+.+.-.+|...+.+..+.+.   -+...|...+......|+
T Consensus       528 ~ALqlek~q~av~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~---~~w~iWENymlvsvdvge  602 (777)
T KOG1128|consen  528 AALQLEKEQAAVKAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNY---QHWQIWENYMLVSVDVGE  602 (777)
T ss_pred             HHHHHhhhHHHHHHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCC---CCCeeeechhhhhhhccc
Confidence            344566777777777776653  454 77999999999999999999999998876655   233567777788889999


Q ss_pred             hHHHHHHHHHHHhC
Q 038114          131 ANEAMSLFSEMRDR  144 (170)
Q Consensus       131 ~~~a~~l~~~m~~~  144 (170)
                      +++|++.+.++.+.
T Consensus       603 ~eda~~A~~rll~~  616 (777)
T KOG1128|consen  603 FEDAIKAYHRLLDL  616 (777)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999888654

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

Probab=94.22  E-value=0.45  Score=34.49  Aligned_cols=129  Identities=9%  Similarity=0.053  Sum_probs=81.3

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhh----CCCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHh----cCCCCC--HHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNN----TNFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILS----SKSQPD--VVLQ   81 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~----~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~~~--~~~~   81 (170)
                      .-..|-..|++++|.+.|.+. ..    .+-+. -...|.....+|.+. ++++|...+.+..+    .| .|+  ...+
T Consensus        41 Aa~~fk~~~~~~~A~~ay~kA-a~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G-~~~~aA~~~  117 (282)
T PF14938_consen   41 AANCFKLAKDWEKAAEAYEKA-ADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAG-RFSQAAKCL  117 (282)
T ss_dssp             HHHHHHHTT-CHHHHHHHHHH-HHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHHHHHH
T ss_pred             HHHHHHHHhccchhHHHHHHH-HHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcC-cHHHHHHHH
Confidence            466677778888888888776 32    12111 122455555555444 78888887777654    34 333  4477


Q ss_pred             HHHHHHHHcC-CCHHHHHHHHhhcccC----CCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC
Q 038114           82 NYILNMYGKC-GSLEDARVVSDEMPQR----NVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus        82 ~~li~~~~~~-~~~~~a~~~~~~m~~~----~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      ..+-..|-.. |+++.|.+.|++..+.    +.. .--..++..+...+.+.|++++|.++|++.....
T Consensus       118 ~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~-~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~  185 (282)
T PF14938_consen  118 KELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSP-HSAAECLLKAADLYARLGRYEEAIEIYEEVAKKC  185 (282)
T ss_dssp             HHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-H-HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCh-hhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHh
Confidence            7777778888 8999999888865321    210 1123456777888999999999999999987653

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=94.17  E-value=1.5  Score=35.30  Aligned_cols=102  Identities=15%  Similarity=0.159  Sum_probs=79.8

Q ss_pred             CcchhhH--HHHHHHhhcccchHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChh
Q 038114           40 RIRPSTY--ACLISTCSSLRSLQLGRKVHDHILSSKSQPD-VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLA  116 (170)
Q Consensus        40 ~p~~~~~--~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~  116 (170)
                      +|++..|  --+...+-+.|+++.|....+...++  .|+ +..|-.=-+.+...|++++|..++++..+.+.   ||..
T Consensus       366 ~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~---aDR~  440 (700)
T KOG1156|consen  366 PPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDT---ADRA  440 (700)
T ss_pred             CchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc---hhHH
Confidence            4555544  45667788899999999999988765  666 44565556788899999999999999888766   7766


Q ss_pred             hHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 038114          117 SWNAIIAGVASPSNANEAMSLFSEMRDREL  146 (170)
Q Consensus       117 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~  146 (170)
                      .-+.-..-..++++.++|..+.....+.|.
T Consensus       441 INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  441 INSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            555666777888999999999998888775

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=94.12  E-value=0.71  Score=38.51  Aligned_cols=118  Identities=9%  Similarity=0.081  Sum_probs=63.9

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCC--------cchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFR--------IRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDV   78 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~--------p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~   78 (170)
                      ...|. +-+.|.+.++.+-|.-.+-.|+..+|.+        |+ .+=..+--.....|.+++|+.+|.+.++       
T Consensus       757 ~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR-------  828 (1416)
T KOG3617|consen  757 DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR-------  828 (1416)
T ss_pred             hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH-------
Confidence            34455 6666666666666555555553333321        11 1111111122345666666666666553       


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHH
Q 038114           79 VLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSE  140 (170)
Q Consensus        79 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~  140 (170)
                        |..|-+.|-..|+|++|.++-+.-..-.+     ..||-.-..-+-..++.+.|++.|++
T Consensus       829 --~DLlNKlyQs~g~w~eA~eiAE~~DRiHL-----r~Tyy~yA~~Lear~Di~~AleyyEK  883 (1416)
T KOG3617|consen  829 --YDLLNKLYQSQGMWSEAFEIAETKDRIHL-----RNTYYNYAKYLEARRDIEAALEYYEK  883 (1416)
T ss_pred             --HHHHHHHHHhcccHHHHHHHHhhccceeh-----hhhHHHHHHHHHhhccHHHHHHHHHh
Confidence              33455666677888888887765332222     14555555556666777777777764

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=93.99  E-value=2.1  Score=32.69  Aligned_cols=128  Identities=16%  Similarity=0.175  Sum_probs=77.1

Q ss_pred             ccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHcCCCHHHH
Q 038114           19 IQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD-VVLQNYILNMYGKCGSLEDA   97 (170)
Q Consensus        19 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~a   97 (170)
                      -.|++++|.+-|+.| ... .+...--+..|.-..-+.|..+.|.+.-+.--+.  -|. ...+.+.+...|..|+|+.|
T Consensus       132 ~eG~~~~Ar~kfeAM-l~d-PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~--Ap~l~WA~~AtLe~r~~~gdWd~A  207 (531)
T COG3898         132 LEGDYEDARKKFEAM-LDD-PETRLLGLRGLYLEAQRLGAREAARHYAERAAEK--APQLPWAARATLEARCAAGDWDGA  207 (531)
T ss_pred             hcCchHHHHHHHHHH-hcC-hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhh--ccCCchHHHHHHHHHHhcCChHHH
Confidence            357777777777777 321 0011112223333334566666666665555433  222 56777888888888899888


Q ss_pred             HHHHhhcccCCCC-------------------------------------CCCChhhHHHH-HHHHhCCCChHHHHHHHH
Q 038114           98 RVVSDEMPQRNVI-------------------------------------ESPDLASWNAI-IAGVASPSNANEAMSLFS  139 (170)
Q Consensus        98 ~~~~~~m~~~~~~-------------------------------------~~p~~~~~~~l-i~~~~~~g~~~~a~~l~~  139 (170)
                      +++++.-++..++                                     ..||.+.--.+ ..++.+.|+..++-.+++
T Consensus       208 lkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE  287 (531)
T COG3898         208 LKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILE  287 (531)
T ss_pred             HHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHH
Confidence            8888765443332                                     15554443333 366778888888888888


Q ss_pred             HHHhCCCCCCH
Q 038114          140 EMRDRELIPDG  150 (170)
Q Consensus       140 ~m~~~~~~p~~  150 (170)
                      .+-+..-.|+.
T Consensus       288 ~aWK~ePHP~i  298 (531)
T COG3898         288 TAWKAEPHPDI  298 (531)
T ss_pred             HHHhcCCChHH
Confidence            87766555554

>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat

Probab=93.96  E-value=0.72  Score=27.13  Aligned_cols=68  Identities=15%  Similarity=0.094  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHH
Q 038114           61 LGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMS  136 (170)
Q Consensus        61 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  136 (170)
                      .+.++++.+.+.| ..+......+-.+-...|+.+.|.+++..+. +|.      ..|+.++.++-..|+-+.|.+
T Consensus        20 ~~~~v~d~ll~~~-ilT~~d~e~I~aa~~~~g~~~~ar~LL~~L~-rg~------~aF~~Fl~aLreT~~~~LA~e   87 (88)
T cd08819          20 KTRDVCDKCLEQG-LLTEEDRNRIEAATENHGNESGARELLKRIV-QKE------GWFSKFLQALRETEHHELARE   87 (88)
T ss_pred             hHHHHHHHHHhcC-CCCHHHHHHHHHhccccCcHHHHHHHHHHhc-cCC------cHHHHHHHHHHHcCchhhhhc
Confidence            3557888888888 4455556665555556788999999999998 777      689999999998888777654

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

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=93.83  E-value=1.4  Score=30.20  Aligned_cols=159  Identities=11%  Similarity=-0.031  Sum_probs=94.3

Q ss_pred             hhHhHHHhhhcccCCHHHHHHHHHHHHhhCCC-CcchhhHHHHHHHhhcccchHHHHHHHHHHHhcC-CCCCHHHHHHHH
Q 038114            8 QLRFTFYNSQPIQNLYNEALVAFDFLQNNTNF-RIRPSTYACLISTCSSLRSLQLGRKVHDHILSSK-SQPDVVLQNYIL   85 (170)
Q Consensus         8 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~li   85 (170)
                      ...|..-..+.+.|++.+|...|+.+...... +-.....-.+..++-+.|+++.|...++.+.+.- -.| ..-+...+
T Consensus         6 ~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~-~~~~A~Y~   84 (203)
T PF13525_consen    6 EALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSP-KADYALYM   84 (203)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-T-THHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCc-chhhHHHH
Confidence            34455677788999999999999999333222 2233356677888999999999999999988752 222 22333333


Q ss_pred             HHHHc----------C---CCHHHHHHHHhhcccCCCCC--CCChhhH------------HHHHHHHhCCCChHHHHHHH
Q 038114           86 NMYGK----------C---GSLEDARVVSDEMPQRNVIE--SPDLASW------------NAIIAGVASPSNANEAMSLF  138 (170)
Q Consensus        86 ~~~~~----------~---~~~~~a~~~~~~m~~~~~~~--~p~~~~~------------~~li~~~~~~g~~~~a~~l~  138 (170)
                      .+.+.          .   +...+|...|+.+...-..+  .++....            -.+..-|.+.|.+..|..-+
T Consensus        85 ~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~  164 (203)
T PF13525_consen   85 LGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRF  164 (203)
T ss_dssp             HHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHH
T ss_pred             HHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHH
Confidence            33332          1   22456777777765432210  1111111            11235678899999999999


Q ss_pred             HHHHhC--CCCCCHhhHHHHHHHhcCCCccc
Q 038114          139 SEMRDR--ELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus       139 ~~m~~~--~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      +.+.+.  +..-.......++.+|.+.|..+
T Consensus       165 ~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~  195 (203)
T PF13525_consen  165 QYVIENYPDTPAAEEALARLAEAYYKLGLKQ  195 (203)
T ss_dssp             HHHHHHSTTSHHHHHHHHHHHHHHHHTT-HH
T ss_pred             HHHHHHCCCCchHHHHHHHHHHHHHHhCChH
Confidence            988875  22223345577777777776543

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=93.79  E-value=0.52  Score=28.34  Aligned_cols=64  Identities=9%  Similarity=0.047  Sum_probs=50.3

Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCA  159 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~  159 (170)
                      +.-++.+-+..+-..+.  .|++....+.+.+|-|.+++..|.++|+-.+.+. ..+...|..+++-
T Consensus        22 D~we~rr~mN~l~~~Dl--VP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~-~~~~~~y~~~lqe   85 (103)
T cd00923          22 DGWELRRGLNNLFGYDL--VPEPKVIEAALRACRRVNDFALAVRILEAIKDKC-GAHKEIYPYILQE   85 (103)
T ss_pred             cHHHHHHHHHHHhcccc--CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cCchhhHHHHHHH
Confidence            45566777777778888  8999999999999999999999999999777442 2245577777654

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.

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=93.79  E-value=0.75  Score=33.29  Aligned_cols=87  Identities=10%  Similarity=0.032  Sum_probs=59.9

Q ss_pred             HHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHH----
Q 038114           50 ISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGV----  125 (170)
Q Consensus        50 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~----  125 (170)
                      |.+++..+++.++..+.-+.-+.--+..+.+.-..|-.|.|.+.+..+.++-+...+..-  .-+...|.+++..|    
T Consensus        90 IQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~--Nq~lp~y~~vaELyLl~V  167 (309)
T PF07163_consen   90 IQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPS--NQSLPEYGTVAELYLLHV  167 (309)
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcc--cCCchhhHHHHHHHHHHH
Confidence            788888888888877766665544444566677777788888888888888776654433  23334577766554    


Q ss_pred             -hCCCChHHHHHHH
Q 038114          126 -ASPSNANEAMSLF  138 (170)
Q Consensus       126 -~~~g~~~~a~~l~  138 (170)
                       .-.|.+++|+++.
T Consensus       168 LlPLG~~~eAeelv  181 (309)
T PF07163_consen  168 LLPLGHFSEAEELV  181 (309)
T ss_pred             HhccccHHHHHHHH
Confidence             4558888887776

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

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=93.64  E-value=2.6  Score=32.50  Aligned_cols=148  Identities=17%  Similarity=0.157  Sum_probs=85.2

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHH
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD----VVLQNYILNMYG   89 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~   89 (170)
                      ..+++..++...+...+-.++...-++-|......+-..+...|+.+++...|++.+..  .|+    .-.|.-|+   .
T Consensus       203 a~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL---~  277 (564)
T KOG1174|consen  203 ALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLL---G  277 (564)
T ss_pred             HHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHH---H
Confidence            44455556777777777777556667778888899999999999999999999888743  222    12333332   2


Q ss_pred             cCCCHHHHHHHHhhcccCC-------CC---------------------CCCChhhHHHHH---HHHhCCCChHHHHHHH
Q 038114           90 KCGSLEDARVVSDEMPQRN-------VI---------------------ESPDLASWNAII---AGVASPSNANEAMSLF  138 (170)
Q Consensus        90 ~~~~~~~a~~~~~~m~~~~-------~~---------------------~~p~~~~~~~li---~~~~~~g~~~~a~~l~  138 (170)
                      +.|+.+....+...+-...       ++                     ...+....-.+|   ..+...|++++|.--|
T Consensus       278 ~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaF  357 (564)
T KOG1174|consen  278 QEGGCEQDSALMDYLFAKVKYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAF  357 (564)
T ss_pred             hccCHhhHHHHHHHHHhhhhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHH
Confidence            3344433333222221000       00                     012222222222   3445566777777777


Q ss_pred             HHHHhCCCCC-CHhhHHHHHHHhcCCCcccc
Q 038114          139 SEMRDRELIP-DGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       139 ~~m~~~~~~p-~~~t~~~ll~~~~~~g~~e~  168 (170)
                      +.-+  .+.| +...|.-|+..|...|++.|
T Consensus       358 R~Aq--~Lap~rL~~Y~GL~hsYLA~~~~kE  386 (564)
T KOG1174|consen  358 RTAQ--MLAPYRLEIYRGLFHSYLAQKRFKE  386 (564)
T ss_pred             HHHH--hcchhhHHHHHHHHHHHHhhchHHH
Confidence            6544  3343 55677788887777776654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=93.63  E-value=1.9  Score=36.43  Aligned_cols=130  Identities=8%  Similarity=0.049  Sum_probs=85.0

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhC----CC-CcchhhHHHHHHHhhcccchHHHHHHHHHHHh----cCCC--C-CHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNT----NF-RIRPSTYACLISTCSSLRSLQLGRKVHDHILS----SKSQ--P-DVVL   80 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~----~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~--~-~~~~   80 (170)
                      +-..+...|++++|...+++. ...    |- .+-..++..+-..+...|+++.|...+.+..+    .+..  + ....
T Consensus       497 lg~~~~~~G~~~~A~~~~~~a-l~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  575 (903)
T PRK04841        497 LGEVHHCKGELARALAMMQQT-EQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFL  575 (903)
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHH
Confidence            455677899999999999887 432    11 11122445555667788999999999887665    2221  1 2334


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHhhcccC--CCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114           81 QNYILNMYGKCGSLEDARVVSDEMPQR--NVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus        81 ~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      +..+-..+...|++++|...+.+....  ..........+..+.......|+.+.|...+.+...
T Consensus       576 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~  640 (903)
T PRK04841        576 LRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLEN  640 (903)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            455556677789999999998876432  110012234455566677888999999998888754

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=93.52  E-value=1.1  Score=32.56  Aligned_cols=87  Identities=14%  Similarity=0.039  Sum_probs=63.1

Q ss_pred             HhhhcccCCHHHHHHHHHH-HHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc--
Q 038114           14 YNSQPIQNLYNEALVAFDF-LQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK--   90 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~-m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~--   90 (170)
                      |.+++..++|.+++...-+ -.....++|..  .-..|-.|++.+++..+.++-....+..-.-+...|.++...|..  
T Consensus        90 IQALAEmnrWreVLsWvlqyYq~pEklPpkI--leLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~V  167 (309)
T PF07163_consen   90 IQALAEMNRWREVLSWVLQYYQVPEKLPPKI--LELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHV  167 (309)
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcCcccCCHHH--HHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHH
Confidence            9999999999999985544 42234455554  445555677999999999999888765333344458888887776  


Q ss_pred             ---CCCHHHHHHHHh
Q 038114           91 ---CGSLEDARVVSD  102 (170)
Q Consensus        91 ---~~~~~~a~~~~~  102 (170)
                         .|.+++|+++..
T Consensus       168 LlPLG~~~eAeelv~  182 (309)
T PF07163_consen  168 LLPLGHFSEAEELVV  182 (309)
T ss_pred             HhccccHHHHHHHHh
Confidence               489999988763

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

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=93.51  E-value=3  Score=32.78  Aligned_cols=144  Identities=13%  Similarity=0.050  Sum_probs=95.0

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchh-----hHHHHHHHhhc----ccchHHHHHHHHHHHhcCCCCCHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPS-----TYACLISTCSS----LRSLQLGRKVHDHILSSKSQPDVVLQNY   83 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~-----~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~   83 (170)
                      +++..+=.|+-+.+++.+.+..+..+++-...     .|..++..+..    ....+.+.+++..+.+.  -|+...|.-
T Consensus       194 ll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~  271 (468)
T PF10300_consen  194 LLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLF  271 (468)
T ss_pred             HHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHH
Confidence            67777778999999999888734445543322     45555555443    45678899999999876  566665544


Q ss_pred             HH-HHHHcCCCHHHHHHHHhhcccC--CCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHh
Q 038114           84 IL-NMYGKCGSLEDARVVSDEMPQR--NVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCAC  160 (170)
Q Consensus        84 li-~~~~~~~~~~~a~~~~~~m~~~--~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~  160 (170)
                      .- +.+...|++++|.+.|+.....  ... +.....+--+.-.+....+|++|.+.|..+.+.. ..+..+|..+..+|
T Consensus       272 ~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~-Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c  349 (468)
T PF10300_consen  272 FEGRLERLKGNLEEAIESFERAIESQSEWK-QLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHhccchhhHH-hHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHH
Confidence            43 3345579999999999965431  110 2233344445556677799999999999998864 22455555555444

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.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=93.50  E-value=0.72  Score=28.04  Aligned_cols=63  Identities=10%  Similarity=0.031  Sum_probs=45.8

Q ss_pred             HHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 038114           94 LEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCA  159 (170)
Q Consensus        94 ~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~  159 (170)
                      .-+..+-+..+-..++  .|++....+.+.+|-|.+++..|.++|+-.+.+. .+....|..+++-
T Consensus        26 ~we~rrglN~l~~~Dl--VP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~-~~~~~~Y~~~lqE   88 (108)
T PF02284_consen   26 GWELRRGLNNLFGYDL--VPEPKIIEAALRACRRVNDFALAVRILEGIKDKC-GNKKEIYPYILQE   88 (108)
T ss_dssp             HHHHHHHHHHHTTSSB-----HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHT-TT-TTHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccc--CCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cChHHHHHHHHHH
Confidence            4456777777788888  8999999999999999999999999998877652 2333377777653

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 ....

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.49  E-value=0.14  Score=24.50  Aligned_cols=26  Identities=8%  Similarity=0.093  Sum_probs=19.8

Q ss_pred             hHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114          117 SWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus       117 ~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      +|+.|-..|.+.|++++|++++++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46777888888888888888888743

>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=93.48  E-value=1.3  Score=28.51  Aligned_cols=60  Identities=20%  Similarity=0.216  Sum_probs=24.7

Q ss_pred             HHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 038114           84 ILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDREL  146 (170)
Q Consensus        84 li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~  146 (170)
                      .++...+.|.-++-.+++.++.. +-  ++++...-.+-.+|.+.|+..++.+++.+-=+.|+
T Consensus        92 ALd~lv~~~kkDqLdki~~~l~k-n~--~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   92 ALDILVKQGKKDQLDKIYNELKK-NE--EINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHH--------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHhccHHHHHHHHHHHhh-cc--CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            34444444555555555554443 11  23434444444555555555555555554444443

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

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=93.34  E-value=2.1  Score=30.56  Aligned_cols=161  Identities=14%  Similarity=0.064  Sum_probs=104.8

Q ss_pred             cchhHhHHHhhhcccCCHHHHHHHHHHHHhhCCCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhc-CCCCCHHHHHH
Q 038114            6 KTQLRFTFYNSQPIQNLYNEALVAFDFLQNNTNFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSS-KSQPDVVLQNY   83 (170)
Q Consensus         6 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~   83 (170)
                      |...-|+=...-.+.|++++|.+.|+.+..+....| ...+--.++-++-+.+++++|....++..+. +-.||. -|-.
T Consensus        33 p~~~LY~~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~-dY~~  111 (254)
T COG4105          33 PASELYNEGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNA-DYAY  111 (254)
T ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCCh-hHHH
Confidence            444445545566789999999999999944443333 4557777888889999999999999998774 445543 5555


Q ss_pred             HHHHHHc-------CCCHHHHHHHHhhcc-------cCCCCCCCChhhH------------HHHHHHHhCCCChHHHHHH
Q 038114           84 ILNMYGK-------CGSLEDARVVSDEMP-------QRNVIESPDLASW------------NAIIAGVASPSNANEAMSL  137 (170)
Q Consensus        84 li~~~~~-------~~~~~~a~~~~~~m~-------~~~~~~~p~~~~~------------~~li~~~~~~g~~~~a~~l  137 (170)
                      -|++++.       .++...+..-|..++       ....  .||...=            ..+..-|.+.|.+..|..=
T Consensus       112 YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Y--a~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR  189 (254)
T COG4105         112 YLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRY--APDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINR  189 (254)
T ss_pred             HHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcc--hhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHH
Confidence            5665553       244555555444443       2233  3443321            1233667889999999999


Q ss_pred             HHHHHhC--CCCCCHhhHHHHHHHhcCCCccccC
Q 038114          138 FSEMRDR--ELIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       138 ~~~m~~~--~~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      +++|.+.  .-.-.....-.+..+|-+.|..+++
T Consensus       190 ~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a  223 (254)
T COG4105         190 FEEVLENYPDTSAVREALARLEEAYYALGLTDEA  223 (254)
T ss_pred             HHHHHhccccccchHHHHHHHHHHHHHhCChHHH
Confidence            9999887  1122333455666777777766554

>PRK15331 chaperone protein SicA; Provisional

Probab=93.31  E-value=1  Score=29.98  Aligned_cols=92  Identities=15%  Similarity=0.054  Sum_probs=66.5

Q ss_pred             HHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC
Q 038114           12 TFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC   91 (170)
Q Consensus        12 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~   91 (170)
                      ..-..+-+.|++++|..+|..+ ...+. .++.-+..|-.++-..++++.|...|......+. -|+..+=-.-.+|...
T Consensus        42 ~~Ay~~y~~Gk~~eA~~~F~~L-~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l  118 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFL-CIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLM  118 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHH-HHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHh
Confidence            3455667889999999999999 54332 2344455666666778999999999998766542 2233333345788899


Q ss_pred             CCHHHHHHHHhhccc
Q 038114           92 GSLEDARVVSDEMPQ  106 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~  106 (170)
                      |+.+.|...|....+
T Consensus       119 ~~~~~A~~~f~~a~~  133 (165)
T PRK15331        119 RKAAKARQCFELVNE  133 (165)
T ss_pred             CCHHHHHHHHHHHHh
Confidence            999999999998775

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.21  E-value=1.5  Score=34.40  Aligned_cols=81  Identities=9%  Similarity=0.120  Sum_probs=58.8

Q ss_pred             HHHHHhhcccchHHHHHHHHHHHhc-CCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHh
Q 038114           48 CLISTCSSLRSLQLGRKVHDHILSS-KSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVA  126 (170)
Q Consensus        48 ~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~  126 (170)
                      .+-.++-+.|+.++|.+.|.+|.+. ...-...+.-.||.++...+.+.++..++.+-.+-... +--..+|+..+..+-
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lp-kSAti~YTaALLkaR  342 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLP-KSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCC-chHHHHHHHHHHHHH
Confidence            3445556789999999999999764 32334668899999999999999999999986543331 334567888775544


Q ss_pred             CCC
Q 038114          127 SPS  129 (170)
Q Consensus       127 ~~g  129 (170)
                      ..+
T Consensus       343 av~  345 (539)
T PF04184_consen  343 AVG  345 (539)
T ss_pred             hhc
Confidence            333

The molecular function of this protein is uncertain.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.06  E-value=2.7  Score=30.93  Aligned_cols=119  Identities=8%  Similarity=0.151  Sum_probs=76.2

Q ss_pred             CHHHHHHHHHHHHhhCCC--CcchhhHHHHHHHhhcccc----hHHHHHHHHHHHhcCCCCC-H-HHHHHHHHHHHcCCC
Q 038114           22 LYNEALVAFDFLQNNTNF--RIRPSTYACLISTCSSLRS----LQLGRKVHDHILSSKSQPD-V-VLQNYILNMYGKCGS   93 (170)
Q Consensus        22 ~~~~a~~~~~~m~~~~~~--~p~~~~~~~li~~~~~~~~----~~~a~~~~~~m~~~~~~~~-~-~~~~~li~~~~~~~~   93 (170)
                      ....+..+|+.|++.+.+  .++...+++++..  ..++    .+.++..|+.+.+.|+..+ . ...+.++........
T Consensus       118 ~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~  195 (297)
T PF13170_consen  118 IIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQ  195 (297)
T ss_pred             HHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccch
Confidence            355889999999555554  3455577777665  3333    4677788899988887665 2 333344333333222


Q ss_pred             --HHHHHHHHhhcccCCCCCCCChhhHHHH-HHHHhCCCC---hHHHHHHHHHHHhC
Q 038114           94 --LEDARVVSDEMPQRNVIESPDLASWNAI-IAGVASPSN---ANEAMSLFSEMRDR  144 (170)
Q Consensus        94 --~~~a~~~~~~m~~~~~~~~p~~~~~~~l-i~~~~~~g~---~~~a~~l~~~m~~~  144 (170)
                        ...+.++++.+++.|+  ++....|..+ +-++...+.   .+...++.+.+.+.
T Consensus       196 ~~v~r~~~l~~~l~~~~~--kik~~~yp~lGlLall~~~~~~~~~~i~ev~~~L~~~  250 (297)
T PF13170_consen  196 EKVARVIELYNALKKNGV--KIKYMHYPTLGLLALLEDPEEKIVEEIKEVIDELKEQ  250 (297)
T ss_pred             HHHHHHHHHHHHHHHcCC--ccccccccHHHHHHhcCCchHHHHHHHHHHHHHHhhC
Confidence              4578889999999999  8888888776 344444444   45555566666544

>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=93.01  E-value=0.7  Score=31.13  Aligned_cols=68  Identities=10%  Similarity=0.014  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC
Q 038114           78 VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus        78 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      ...+..+...|++.|+.+.|.+.|.++.+....+..-...+-.+|......+++..+.....+....-
T Consensus        36 r~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~  103 (177)
T PF10602_consen   36 RMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLI  103 (177)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence            45788999999999999999999999998766223334557778888888999999999888776543

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.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.99  E-value=0.23  Score=23.71  Aligned_cols=25  Identities=20%  Similarity=0.224  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHhhc
Q 038114           80 LQNYILNMYGKCGSLEDARVVSDEM  104 (170)
Q Consensus        80 ~~~~li~~~~~~~~~~~a~~~~~~m  104 (170)
                      +|+.|-..|.+.|++++|.++|++.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4678888999999999999999874

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

Probab=92.87  E-value=4.2  Score=32.67  Aligned_cols=138  Identities=16%  Similarity=0.056  Sum_probs=84.2

Q ss_pred             CHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHH--------HHHhcCCCCCHHHHHHHHHHHHcCCC
Q 038114           22 LYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHD--------HILSSKSQPDVVLQNYILNMYGKCGS   93 (170)
Q Consensus        22 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~--------~m~~~~~~~~~~~~~~li~~~~~~~~   93 (170)
                      .+..+..++... ......-...+.-+.+......|+++.|.+++.        .+.+.+..|.  +-..++..|.+.++
T Consensus       356 ~~~ka~e~L~~~-~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~--~V~aiv~l~~~~~~  432 (652)
T KOG2376|consen  356 KHKKAIELLLQF-ADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPG--TVGAIVALYYKIKD  432 (652)
T ss_pred             HHhhhHHHHHHH-hccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChh--HHHHHHHHHHhccC
Confidence            456666666666 333222234456666777788899999998888        5555555554  44556666666666


Q ss_pred             HHHHHHHHhhcccCCCCCCCC----hhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCC
Q 038114           94 LEDARVVSDEMPQRNVIESPD----LASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSP  163 (170)
Q Consensus        94 ~~~a~~~~~~m~~~~~~~~p~----~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~  163 (170)
                      -+.|..++.+....-....+.    ..++.-...-=-+.|+-++|..+++++.+.+ .+|..+...++.+|++.
T Consensus       433 ~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~  505 (652)
T KOG2376|consen  433 NDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN-PNDTDLLVQLVTAYARL  505 (652)
T ss_pred             CccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhc
Confidence            555666555432110000111    1233333344456689999999999988754 56888888888888764

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=92.54  E-value=2.4  Score=29.10  Aligned_cols=127  Identities=10%  Similarity=0.128  Sum_probs=86.8

Q ss_pred             HHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcC---CCCCHHHHHHHHHHH
Q 038114           12 TFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSK---SQPDVVLQNYILNMY   88 (170)
Q Consensus        12 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~~~~~li~~~   88 (170)
                      .|-.++.+.|+..+|...|++. ...-+.-|....-.+-++-...+++..+...++.+-+..   -.||.  --.+-+.|
T Consensus        94 rLa~al~elGr~~EA~~hy~qa-lsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~--~Ll~aR~l  170 (251)
T COG4700          94 RLANALAELGRYHEAVPHYQQA-LSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDG--HLLFARTL  170 (251)
T ss_pred             HHHHHHHHhhhhhhhHHHHHHH-hccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCc--hHHHHHHH
Confidence            3678888889999999999888 766677788888888888888888888888888887753   34443  33455677


Q ss_pred             HcCCCHHHHHHHHhhcccCCCCCCCCh-hhHHHHHHHHhCCC-ChHHHHHHHHHHHh
Q 038114           89 GKCGSLEDARVVSDEMPQRNVIESPDL-ASWNAIIAGVASPS-NANEAMSLFSEMRD  143 (170)
Q Consensus        89 ~~~~~~~~a~~~~~~m~~~~~~~~p~~-~~~~~li~~~~~~g-~~~~a~~l~~~m~~  143 (170)
                      ...|.+.+|+.-|+.....-.  .|.. .-|..++..-.+.. .-.++..+++...+
T Consensus       171 aa~g~~a~Aesafe~a~~~yp--g~~ar~~Y~e~La~qgr~~ea~aq~~~v~d~~~r  225 (251)
T COG4700         171 AAQGKYADAESAFEVAISYYP--GPQARIYYAEMLAKQGRLREANAQYVAVVDTAKR  225 (251)
T ss_pred             HhcCCchhHHHHHHHHHHhCC--CHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHh
Confidence            788888888888887765432  2332 33555555544332 23444556665544

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=92.42  E-value=1.9  Score=28.00  Aligned_cols=83  Identities=13%  Similarity=0.085  Sum_probs=57.5

Q ss_pred             hhHHHHHHHhhcccchHHHHHHHHHHHhcC--CCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHH
Q 038114           44 STYACLISTCSSLRSLQLGRKVHDHILSSK--SQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAI  121 (170)
Q Consensus        44 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~l  121 (170)
                      ..|..-..+ .+.|+++.|.+.|+.+...-  -.-.....--|+.+|.+.+++++|...++...+.... -|+ +-|-..
T Consensus        12 ~ly~~a~~~-l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~-hp~-vdYa~Y   88 (142)
T PF13512_consen   12 ELYQEAQEA-LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPT-HPN-VDYAYY   88 (142)
T ss_pred             HHHHHHHHH-HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CCC-ccHHHH
Confidence            344444444 35688999999999998751  1233566777889999999999999999998876552 333 455555


Q ss_pred             HHHHhCCC
Q 038114          122 IAGVASPS  129 (170)
Q Consensus       122 i~~~~~~g  129 (170)
                      +.|++...
T Consensus        89 ~~gL~~~~   96 (142)
T PF13512_consen   89 MRGLSYYE   96 (142)
T ss_pred             HHHHHHHH
Confidence            55554433

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.29  E-value=1.5  Score=31.67  Aligned_cols=97  Identities=10%  Similarity=0.072  Sum_probs=75.8

Q ss_pred             HHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHH---
Q 038114           46 YACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAII---  122 (170)
Q Consensus        46 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li---  122 (170)
                      -++++++.--.+++.-...++++..+...+.++...+.|.+.-.+.|+.+.|...|+...+..-  +.|..+++.+.   
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~--kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQ--KLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHh--hhhccchhHHHHhh
Confidence            3556666667788888899999999987788899999999999999999999999997765544  56666666655   


Q ss_pred             --HHHhCCCChHHHHHHHHHHHhC
Q 038114          123 --AGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus       123 --~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                        ..|.-.+++..|...+.++...
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~  281 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRM  281 (366)
T ss_pred             hhhheecccchHHHHHHHhhcccc
Confidence              3455567888888888777543

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=92.03  E-value=3.8  Score=31.63  Aligned_cols=122  Identities=13%  Similarity=0.107  Sum_probs=71.1

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCC-cchhhHHHHHHHhhcccchHHHHHHHHHHHhc--------------------
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFR-IRPSTYACLISTCSSLRSLQLGRKVHDHILSS--------------------   72 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------------------   72 (170)
                      -..+.+.+++++|.-.|+.. ..  .. -+...|.-|+++|...|++.+|.-.-++..+.                    
T Consensus       341 G~lL~~~~R~~~A~IaFR~A-q~--Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp  417 (564)
T KOG1174|consen  341 GRLLIALERHTQAVIAFRTA-QM--LAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDP  417 (564)
T ss_pred             cHHHHhccchHHHHHHHHHH-Hh--cchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCc
Confidence            34556667777777777666 32  33 35557777777777777776665444433221                    


Q ss_pred             ------------C--CCCC-HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHH
Q 038114           73 ------------K--SQPD-VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSL  137 (170)
Q Consensus        73 ------------~--~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l  137 (170)
                                  +  +.|+ ...-+.+-..+...|..+.+..+++.-...    .||....+.+-..+...+.+.+|++.
T Consensus       418 ~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~----~~D~~LH~~Lgd~~~A~Ne~Q~am~~  493 (564)
T KOG1174|consen  418 RMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLII----FPDVNLHNHLGDIMRAQNEPQKAMEY  493 (564)
T ss_pred             hhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhh----ccccHHHHHHHHHHHHhhhHHHHHHH
Confidence                        0  1222 223334444455666666666666654432    56667777777777777777777766


Q ss_pred             HHHHH
Q 038114          138 FSEMR  142 (170)
Q Consensus       138 ~~~m~  142 (170)
                      |..-.
T Consensus       494 y~~AL  498 (564)
T KOG1174|consen  494 YYKAL  498 (564)
T ss_pred             HHHHH
Confidence            65443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=91.62  E-value=0.54  Score=23.50  Aligned_cols=17  Identities=18%  Similarity=0.350  Sum_probs=6.3

Q ss_pred             HHHcCCCHHHHHHHHhh
Q 038114           87 MYGKCGSLEDARVVSDE  103 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~  103 (170)
                      .|.+.|++++|.++|+.
T Consensus        10 ~~~~~G~~~~A~~~~~~   26 (44)
T PF13428_consen   10 AYRRLGQPDEAERLLRR   26 (44)
T ss_pred             HHHHcCCHHHHHHHHHH
Confidence            33333333333333333

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=91.50  E-value=0.99  Score=22.48  Aligned_cols=28  Identities=11%  Similarity=0.141  Sum_probs=16.0

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhc
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSS   72 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~   72 (170)
                      ++..+-.++.+.|++++|.++|+...+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3444555556666666666666666554

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=91.48  E-value=5.9  Score=31.35  Aligned_cols=141  Identities=11%  Similarity=0.023  Sum_probs=88.0

Q ss_pred             hhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHH-------------------------HHHHhhcccchHHHHHHHHHH
Q 038114           15 NSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYAC-------------------------LISTCSSLRSLQLGRKVHDHI   69 (170)
Q Consensus        15 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~-------------------------li~~~~~~~~~~~a~~~~~~m   69 (170)
                      .+|.+.++++.++..|.+. ......|+..+-..                         --+.+-+.|++..|...|.++
T Consensus       306 ~a~~k~~~~~~ai~~~~ka-Lte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteA  384 (539)
T KOG0548|consen  306 NAYTKREDYEGAIKYYQKA-LTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEA  384 (539)
T ss_pred             hhhhhHHhHHHHHHHHHHH-hhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence            3566667777777777776 44444443332111                         133445668899999999998


Q ss_pred             HhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCC
Q 038114           70 LSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPD  149 (170)
Q Consensus        70 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~  149 (170)
                      .+.. +-|...|+..--+|.+.|.+..|++=.+.-.+.+.   +....|.-=..++-...++++|++.|.+-.+..  |+
T Consensus       385 Ikr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p---~~~kgy~RKg~al~~mk~ydkAleay~eale~d--p~  458 (539)
T KOG0548|consen  385 IKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDP---NFIKAYLRKGAALRAMKEYDKALEAYQEALELD--PS  458 (539)
T ss_pred             HhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCc---hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--ch
Confidence            8876 55788999999999999999988887766665433   222223332333333447777887777666543  55


Q ss_pred             HhhHHHHHHHhcC
Q 038114          150 GLTVRSLLCACTS  162 (170)
Q Consensus       150 ~~t~~~ll~~~~~  162 (170)
                      ..-+.--++-|..
T Consensus       459 ~~e~~~~~~rc~~  471 (539)
T KOG0548|consen  459 NAEAIDGYRRCVE  471 (539)
T ss_pred             hHHHHHHHHHHHH
Confidence            5555544444443

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=90.92  E-value=0.6  Score=22.54  Aligned_cols=28  Identities=18%  Similarity=0.292  Sum_probs=19.7

Q ss_pred             hhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114          116 ASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus       116 ~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      .+++.+-..|...|++++|..++++...
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            4677777777777888888877776653

>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=90.90  E-value=1.2  Score=34.74  Aligned_cols=103  Identities=11%  Similarity=0.038  Sum_probs=55.3

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +++-+-+.|.++.|+++-..- .            .-+....+.|+++.|.++.++.      .+...|..|-+...+.|
T Consensus       301 i~~fL~~~G~~e~AL~~~~D~-~------------~rFeLAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~AL~~g  361 (443)
T PF04053_consen  301 IARFLEKKGYPELALQFVTDP-D------------HRFELALQLGNLDIALEIAKEL------DDPEKWKQLGDEALRQG  361 (443)
T ss_dssp             HHHHHHHTT-HHHHHHHSS-H-H------------HHHHHHHHCT-HHHHHHHCCCC------STHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHhhcCCh-H------------HHhHHHHhcCCHHHHHHHHHhc------CcHHHHHHHHHHHHHcC
Confidence            677777778888887764433 1            1223334556666665544332      25557777777777777


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      +++-|++.|.+.++           |..++--|...|+.++...+.+.-...|
T Consensus       362 ~~~lAe~c~~k~~d-----------~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  362 NIELAEECYQKAKD-----------FSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             BHHHHHHHHHHCT------------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHhhcC-----------ccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            77777777766542           3334444444555555555544444333

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.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=90.62  E-value=0.69  Score=22.31  Aligned_cols=28  Identities=25%  Similarity=0.256  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHhhcc
Q 038114           78 VVLQNYILNMYGKCGSLEDARVVSDEMP  105 (170)
Q Consensus        78 ~~~~~~li~~~~~~~~~~~a~~~~~~m~  105 (170)
                      ..+++.|-..|...|++++|.+++++..
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            4578899999999999999999998754

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.47  E-value=5  Score=28.77  Aligned_cols=123  Identities=10%  Similarity=-0.016  Sum_probs=71.2

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHh-hCCCCcchh--hHHHH--------------------HHHhhcccchHHHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQN-NTNFRIRPS--TYACL--------------------ISTCSSLRSLQLGRKVHDHI   69 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~-~~~~~p~~~--~~~~l--------------------i~~~~~~~~~~~a~~~~~~m   69 (170)
                      -...|.++|.++-|-..+++.-+ ..++.|+..  .|.--                    -+.+.+...++++-..|..-
T Consensus        97 As~lY~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe  176 (308)
T KOG1585|consen   97 ASELYVECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKE  176 (308)
T ss_pred             HHHHHHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHh
Confidence            46677777777766666655411 234555443  33333                    33344444444443333222


Q ss_pred             Hh----cCCCCCH-HHHHHHHHHHHcCCCHHHHHHHHhh---cccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHH
Q 038114           70 LS----SKSQPDV-VLQNYILNMYGKCGSLEDARVVSDE---MPQRNVIESPDLASWNAIIAGVASPSNANEAMSLF  138 (170)
Q Consensus        70 ~~----~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~---m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~  138 (170)
                      ..    ..-.+++ ..|-..|-.|.-..++..|+++|++   .....-  .-+..+...||.+|-. |+.+++..++
T Consensus       177 ~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~--sed~r~lenLL~ayd~-gD~E~~~kvl  250 (308)
T KOG1585|consen  177 GVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLK--SEDSRSLENLLTAYDE-GDIEEIKKVL  250 (308)
T ss_pred             hhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccC--hHHHHHHHHHHHHhcc-CCHHHHHHHH
Confidence            11    0112222 3455566677777899999999998   444444  5677899999999866 7777776543

>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=89.87  E-value=4.9  Score=27.73  Aligned_cols=78  Identities=10%  Similarity=-0.041  Sum_probs=51.5

Q ss_pred             hcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcc---cCCCCCCCChhhHHHHHHHHhCCCC
Q 038114           54 SSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMP---QRNVIESPDLASWNAIIAGVASPSN  130 (170)
Q Consensus        54 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~---~~~~~~~p~~~~~~~li~~~~~~g~  130 (170)
                      .+.| -+.|.+.|-++...+..-++...-.|-..|. ..+.+++..++-...   ..+-  .+|+..+..|...+-+.|+
T Consensus       118 sr~~-d~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~--~~n~eil~sLas~~~~~~~  193 (203)
T PF11207_consen  118 SRFG-DQEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDD--NFNPEILKSLASIYQKLKN  193 (203)
T ss_pred             hccC-cHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCC--CCCHHHHHHHHHHHHHhcc
Confidence            3444 4567777777777776666666666666665 456777777766443   3333  5677778888888888887


Q ss_pred             hHHHH
Q 038114          131 ANEAM  135 (170)
Q Consensus       131 ~~~a~  135 (170)
                      ++.|.
T Consensus       194 ~e~AY  198 (203)
T PF11207_consen  194 YEQAY  198 (203)
T ss_pred             hhhhh
Confidence            77764

>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=89.83  E-value=3.1  Score=26.81  Aligned_cols=85  Identities=9%  Similarity=0.044  Sum_probs=57.5

Q ss_pred             cccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHH
Q 038114           18 PIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDA   97 (170)
Q Consensus        18 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a   97 (170)
                      ...|+......-+-.+      ..+...+...+......|+-+.-.+++.++.+.+ .+++...--+-.+|.+-|+..++
T Consensus        67 s~C~NlKrVi~C~~~~------n~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~  139 (161)
T PF09205_consen   67 SKCGNLKRVIECYAKR------NKLSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREA  139 (161)
T ss_dssp             GG-S-THHHHHHHHHT------T---HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHH
T ss_pred             hhhcchHHHHHHHHHh------cchHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhH
Confidence            4556677777766665      3455677888888888899888888988887643 67777778888899999999999


Q ss_pred             HHHHhhcccCCC
Q 038114           98 RVVSDEMPQRNV  109 (170)
Q Consensus        98 ~~~~~~m~~~~~  109 (170)
                      .+++.+.-+.|+
T Consensus       140 ~ell~~ACekG~  151 (161)
T PF09205_consen  140 NELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHTT-
T ss_pred             HHHHHHHHHhch
Confidence            999888877776

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

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=89.73  E-value=1.6  Score=22.44  Aligned_cols=34  Identities=9%  Similarity=0.096  Sum_probs=25.3

Q ss_pred             hCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 038114          126 ASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCA  159 (170)
Q Consensus       126 ~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~  159 (170)
                      .+.|-.+++..++++|.+.|+..+...|..+++.
T Consensus        13 k~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~~   46 (48)
T PF11848_consen   13 KRRGLISEVKPLLDRLQQAGFRISPKLIEEILRR   46 (48)
T ss_pred             HHcCChhhHHHHHHHHHHcCcccCHHHHHHHHHH
Confidence            4557777777888888888888777777777654

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=89.69  E-value=3.2  Score=29.22  Aligned_cols=79  Identities=15%  Similarity=0.100  Sum_probs=51.1

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHH
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAG  124 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~  124 (170)
                      |.+.-++...+.+.+.++.....+-++.+ +-|...-..+++.||-.|+|++|..=++-.-.....-.+-..+|..+|.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            44555666677778888888777776664 44566777788888888888888765553322111003555677777754

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=89.52  E-value=7.4  Score=30.84  Aligned_cols=104  Identities=13%  Similarity=0.005  Sum_probs=79.6

Q ss_pred             hhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHcCCC
Q 038114           15 NSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD-VVLQNYILNMYGKCGS   93 (170)
Q Consensus        15 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~   93 (170)
                      .+....|+++.|...|-.. ..... +|...|+--..+|++.|++++|.+=-.+-++-  .|+ +.-|+..-.++.-.|+
T Consensus        10 naa~s~~d~~~ai~~~t~a-i~l~p-~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~   85 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEA-IMLSP-TNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGD   85 (539)
T ss_pred             HhhcccccHHHHHHHHHHH-HccCC-CccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhccc
Confidence            3557889999999999887 54443 48888999999999999999888766666654  444 7789999999999999


Q ss_pred             HHHHHHHHhhcccCCCCCCCChhhHHHHHHHH
Q 038114           94 LEDARVVSDEMPQRNVIESPDLASWNAIIAGV  125 (170)
Q Consensus        94 ~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~  125 (170)
                      +++|..-|.+-.+...   -+...++-+..++
T Consensus        86 ~~eA~~ay~~GL~~d~---~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   86 YEEAILAYSEGLEKDP---SNKQLKTGLAQAY  114 (539)
T ss_pred             HHHHHHHHHHHhhcCC---chHHHHHhHHHhh
Confidence            9999999997655432   3445556565555

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=89.44  E-value=2.4  Score=28.80  Aligned_cols=31  Identities=19%  Similarity=0.116  Sum_probs=16.1

Q ss_pred             CCCHHHHHHHHHHHHcCCCHHHHHHHHhhcc
Q 038114           75 QPDVVLQNYILNMYGKCGSLEDARVVSDEMP  105 (170)
Q Consensus        75 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  105 (170)
                      .|++.+|..++..+...|+.++|.++..++.
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~  171 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLARAR  171 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4555555555555555555555555544443

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=89.43  E-value=8  Score=29.56  Aligned_cols=125  Identities=10%  Similarity=0.017  Sum_probs=85.5

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhh----CCCCc---------chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHH
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNN----TNFRI---------RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVL   80 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~----~~~~p---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~   80 (170)
                      -..|.+.|++..|..-|+.....    .+..+         -...+.-+.-++.+.+++..|...-......+ +.|+..
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KA  293 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKA  293 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhH
Confidence            34678889999999988874221    11222         12245566667788999999999988888875 456665


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCC-C-ChHHHHHHHHHHHh
Q 038114           81 QNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASP-S-NANEAMSLFSEMRD  143 (170)
Q Consensus        81 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~-g-~~~~a~~l~~~m~~  143 (170)
                      .=.--.+|...|+++.|...|+.+.+.    .|+-..-+.=|..|.+. . ..++...+|..|-.
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k~----~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALKL----EPSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHh----CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            555667888889999999999999876    55555555555554332 2 34445677887753

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.24  E-value=6.5  Score=28.32  Aligned_cols=97  Identities=10%  Similarity=0.109  Sum_probs=54.5

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhcC----CCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHH
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSSK----SQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNA  120 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~  120 (170)
                      .|+.-+..+- .|++..|...|...++..    ..|+.  +==|-.++...|++++|-.+|..+.+.-..++--+.+.--
T Consensus       144 ~Y~~A~~~~k-sgdy~~A~~~F~~fi~~YP~s~~~~nA--~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         144 LYNAALDLYK-SGDYAEAEQAFQAFIKKYPNSTYTPNA--YYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             HHHHHHHHHH-cCCHHHHHHHHHHHHHcCCCCcccchh--HHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            4666665543 345777777777776642    22222  2235666777777777777777665432210111233444


Q ss_pred             HHHHHhCCCChHHHHHHHHHHHhC
Q 038114          121 IIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus       121 li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      +-....+.|+.++|-.+|++..+.
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHH
Confidence            445556667777777777766543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=89.04  E-value=9.6  Score=31.64  Aligned_cols=135  Identities=13%  Similarity=0.138  Sum_probs=88.1

Q ss_pred             ccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhh---cccchHHH-------------------H----HHHHHHHhc
Q 038114           19 IQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCS---SLRSLQLG-------------------R----KVHDHILSS   72 (170)
Q Consensus        19 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~---~~~~~~~a-------------------~----~~~~~m~~~   72 (170)
                      ..+...+++.-+... ...++..+..++..+...+.   ..++.+++                   .    -.+.++...
T Consensus       239 ~~~~~~~~i~s~~~~-l~~~w~~~~l~ka~l~~~~~~f~~~~~~Ee~~Lllli~es~i~Re~~~d~ilslm~~~~k~r~~  317 (799)
T KOG4162|consen  239 KLSGPKEAIKSYRRA-LLRSWSLDPLTKARLYKGFALFLPKSGQEEVILLLLIEESLIPRENIEDAILSLMLLLRKLRLK  317 (799)
T ss_pred             CCCCchHHHHhhhHH-hhcccccchhHHHHHhhcccccCCCCcHHHHHHHHHHHhhccccccHHHHHHHHHHHHHHHHHh
Confidence            445566667767666 66666666666666544432   23334433                   1    122333334


Q ss_pred             CCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhh
Q 038114           73 KSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLT  152 (170)
Q Consensus        73 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t  152 (170)
                      .+..|+.+|..|--+..++|+++.+-+.|++....-+   -....|..+-..+...|.-..|..++++-....-.|+..+
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~---~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s  394 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSF---GEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDIS  394 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh---hhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcch
Confidence            5667889999999999999999999999998764433   2336788888888888998999999887665443454444


Q ss_pred             HHHHH
Q 038114          153 VRSLL  157 (170)
Q Consensus       153 ~~~ll  157 (170)
                      --.+.
T Consensus       395 ~~Lma  399 (799)
T KOG4162|consen  395 VLLMA  399 (799)
T ss_pred             HHHHH
Confidence            33333

>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=88.96  E-value=3.3  Score=32.27  Aligned_cols=107  Identities=11%  Similarity=0.097  Sum_probs=66.1

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCC
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGS   93 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~   93 (170)
                      .....-.++++.+.+....-..-..+ | ..-.+.+++.+.+.|..+.|+++-..-.            .-.....++|+
T Consensus       268 fk~av~~~d~~~v~~~i~~~~ll~~i-~-~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~  333 (443)
T PF04053_consen  268 FKTAVLRGDFEEVLRMIAASNLLPNI-P-KDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGN  333 (443)
T ss_dssp             HHHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-
T ss_pred             HHHHHHcCChhhhhhhhhhhhhcccC-C-hhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCC
Confidence            45556677888877766522011222 2 4457788888888888888877644321            23456678888


Q ss_pred             HHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114           94 LEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        94 ~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      ++.|.++.++.        ++...|..|-....+.|+++.|++.|.+..
T Consensus       334 L~~A~~~a~~~--------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~  374 (443)
T PF04053_consen  334 LDIALEIAKEL--------DDPEKWKQLGDEALRQGNIELAEECYQKAK  374 (443)
T ss_dssp             HHHHHHHCCCC--------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT
T ss_pred             HHHHHHHHHhc--------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhc
Confidence            88888887763        345688888888888888888888887665

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.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=88.86  E-value=10  Score=29.92  Aligned_cols=117  Identities=11%  Similarity=-0.028  Sum_probs=80.4

Q ss_pred             cCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHH-hhcccchHHHHHHHHHHHhcC---CCCCHHHHHHHHHHHHcCCCHH
Q 038114           20 QNLYNEALVAFDFLQNNTNFRIRPSTYACLIST-CSSLRSLQLGRKVHDHILSSK---SQPDVVLQNYILNMYGKCGSLE   95 (170)
Q Consensus        20 ~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~-~~~~~~~~~a~~~~~~m~~~~---~~~~~~~~~~li~~~~~~~~~~   95 (170)
                      ....+.|.++++.+ ...  -|+...|...-.- +...|++++|.+.|+......   .+.....+--+.-.+.-.++|+
T Consensus       246 ~~~~~~a~~lL~~~-~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~  322 (468)
T PF10300_consen  246 DVPLEEAEELLEEM-LKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWE  322 (468)
T ss_pred             CCCHHHHHHHHHHH-HHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHH
Confidence            56788899999999 443  3777666544433 456799999999999765321   1333445555666678889999


Q ss_pred             HHHHHHhhcccCCCCCCCChhhHHHHHHHH-hCCCCh-------HHHHHHHHHHH
Q 038114           96 DARVVSDEMPQRNVIESPDLASWNAIIAGV-ASPSNA-------NEAMSLFSEMR  142 (170)
Q Consensus        96 ~a~~~~~~m~~~~~~~~p~~~~~~~li~~~-~~~g~~-------~~a~~l~~~m~  142 (170)
                      +|.+.|..+.+.+-   .+..+|.-+..+| ...|+.       ++|.++|.+..
T Consensus       323 ~A~~~f~~L~~~s~---WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  323 EAAEYFLRLLKESK---WSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHHHHhccc---cHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            99999999987433   4555566554333 445666       88888888774

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.

>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=88.72  E-value=0.98  Score=19.74  Aligned_cols=20  Identities=10%  Similarity=0.039  Sum_probs=10.6

Q ss_pred             HHHHHHHcCCCHHHHHHHHh
Q 038114           83 YILNMYGKCGSLEDARVVSD  102 (170)
Q Consensus        83 ~li~~~~~~~~~~~a~~~~~  102 (170)
                      .+-..+...|++++|+++++
T Consensus         6 ~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    6 ALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHcCCHHHHHHHHh
Confidence            34445555555555555543

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=88.72  E-value=2.9  Score=28.44  Aligned_cols=56  Identities=9%  Similarity=-0.025  Sum_probs=48.2

Q ss_pred             hcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhc
Q 038114           17 QPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSS   72 (170)
Q Consensus        17 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   72 (170)
                      .....+.+......+.+++.....|++.+|..++.++...|+.++|.++..++...
T Consensus       118 ~~~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  118 ARLPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             hcCCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34777777788888887666778999999999999999999999999999999864

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=88.67  E-value=10  Score=29.75  Aligned_cols=143  Identities=9%  Similarity=-0.017  Sum_probs=91.0

Q ss_pred             hcccCCHHHHHHHHHHHHhhCCCCc---c-hhhHHHHHHHhhcccchHHHHHHHHHHHhc-CCCCCHHHHHHHHHHHHcC
Q 038114           17 QPIQNLYNEALVAFDFLQNNTNFRI---R-PSTYACLISTCSSLRSLQLGRKVHDHILSS-KSQPDVVLQNYILNMYGKC   91 (170)
Q Consensus        17 ~~~~~~~~~a~~~~~~m~~~~~~~p---~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~   91 (170)
                      +-+.+++.+|..+|.++-.+..-.|   . ...-+.+|+||--. +.+..........+. |..+-...+-.|.  +-+.
T Consensus        16 Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~~~~s~~l~LF~~L~--~Y~~   92 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQFGKSAYLPLFKALV--AYKQ   92 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHhcCCchHHHHHHHHH--HHHh
Confidence            3567899999999988833322222   2 22345777777654 577777777777653 4333333333332  2366


Q ss_pred             CCHHHHHHHHhhcccC--CCC-C---------CCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC----CCCCCHhhHHH
Q 038114           92 GSLEDARVVSDEMPQR--NVI-E---------SPDLASWNAIIAGVASPSNANEAMSLFSEMRDR----ELIPDGLTVRS  155 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~--~~~-~---------~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~----~~~p~~~t~~~  155 (170)
                      +.+..|.+.+......  +.. +         -+|..-=++.+.++...|++.++..+++.|...    ....+..+|+.
T Consensus        93 k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~  172 (549)
T PF07079_consen   93 KEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDR  172 (549)
T ss_pred             hhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHH
Confidence            7889998888776544  320 0         112222356678889999999999998888765    34489999998


Q ss_pred             HHHHhcC
Q 038114          156 LLCACTS  162 (170)
Q Consensus       156 ll~~~~~  162 (170)
                      ++-.+++
T Consensus       173 ~vlmlsr  179 (549)
T PF07079_consen  173 AVLMLSR  179 (549)
T ss_pred             HHHHHhH
Confidence            7666654

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

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

Probab=88.24  E-value=12  Score=30.03  Aligned_cols=84  Identities=18%  Similarity=0.166  Sum_probs=63.0

Q ss_pred             chHHHHHHHHHHHh-cCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHH
Q 038114           58 SLQLGRKVHDHILS-SKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMS  136 (170)
Q Consensus        58 ~~~~a~~~~~~m~~-~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  136 (170)
                      .+....++|-++.. .+..+|+.+++.|--.|--.|.+++|.+.|+.......   -|...||-|-..++...+.++|+.
T Consensus       409 ~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~P---nd~~lWNRLGAtLAN~~~s~EAIs  485 (579)
T KOG1125|consen  409 HLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVKP---NDYLLWNRLGATLANGNRSEEAIS  485 (579)
T ss_pred             HHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcCC---chHHHHHHhhHHhcCCcccHHHHH
Confidence            34455555555533 34457778888888888888999999999998765533   467789999999999999999999


Q ss_pred             HHHHHHhC
Q 038114          137 LFSEMRDR  144 (170)
Q Consensus       137 l~~~m~~~  144 (170)
                      -+.+-.+.
T Consensus       486 AY~rALqL  493 (579)
T KOG1125|consen  486 AYNRALQL  493 (579)
T ss_pred             HHHHHHhc
Confidence            99877643

>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=88.16  E-value=6.7  Score=27.09  Aligned_cols=78  Identities=9%  Similarity=-0.000  Sum_probs=57.6

Q ss_pred             HHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC---CCCCCHhhHHHHHHHhcCCC
Q 038114           88 YGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR---ELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus        88 ~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~---~~~p~~~t~~~ll~~~~~~g  164 (170)
                      ..+.|+ +.|.+.|-.+...+.  --++..--.+..-|. ..+.+++..++....+.   +-.+|...+.+|...+-+.|
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~--l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~  192 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPE--LETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLK  192 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCC--CCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhc
Confidence            445555 678888888887776  445555555555555 68899999988877653   44899999999999999999


Q ss_pred             ccccC
Q 038114          165 NVLYL  169 (170)
Q Consensus       165 ~~e~~  169 (170)
                      +.+.+
T Consensus       193 ~~e~A  197 (203)
T PF11207_consen  193 NYEQA  197 (203)
T ss_pred             chhhh
Confidence            88754

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=88.08  E-value=7  Score=33.62  Aligned_cols=61  Identities=15%  Similarity=0.083  Sum_probs=39.5

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHH--HHhCCCChHHHHHHHHHHH
Q 038114           77 DVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIA--GVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        77 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~--~~~~~g~~~~a~~l~~~m~  142 (170)
                      |...|..+..+|.++|++..|.++|.+....    +|+ .+|...-.  .-|..|.+.+|...+....
T Consensus       595 D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L----rP~-s~y~~fk~A~~ecd~GkYkeald~l~~ii  657 (1238)
T KOG1127|consen  595 DYNLWLGLGEAYPESGRYSHALKVFTKASLL----RPL-SKYGRFKEAVMECDNGKYKEALDALGLII  657 (1238)
T ss_pred             hHHHHHHHHHHHHhcCceehHHHhhhhhHhc----CcH-hHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            5677778888888888888888888776543    333 34444322  2355577777776666553

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=87.99  E-value=8.1  Score=27.86  Aligned_cols=97  Identities=13%  Similarity=0.096  Sum_probs=73.0

Q ss_pred             HhHHHhhhcccCCHHHHHHHHHHHHhhCCC--CcchhhHHHHHHHhhcccchHHHHHHHHHHHhc-CCCCC-HHHHHHHH
Q 038114           10 RFTFYNSQPIQNLYNEALVAFDFLQNNTNF--RIRPSTYACLISTCSSLRSLQLGRKVHDHILSS-KSQPD-VVLQNYIL   85 (170)
Q Consensus        10 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~-~~~~~~li   85 (170)
                      .|+.--.+.+.|++..|...|... .....  .-.+..+-.|-.++...|++++|..+|..+.+. +-.|- +...=-|-
T Consensus       144 ~Y~~A~~~~ksgdy~~A~~~F~~f-i~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDLYKSGDYAEAEQAFQAF-IKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH-HHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            577666677888899999999887 44321  123335678899999999999999999999874 22222 34555566


Q ss_pred             HHHHcCCCHHHHHHHHhhcccC
Q 038114           86 NMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        86 ~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      ....+.|+.++|..+|+++.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            6788899999999999998765

>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=87.64  E-value=4.6  Score=24.82  Aligned_cols=27  Identities=11%  Similarity=0.277  Sum_probs=19.7

Q ss_pred             hHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114          117 SWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus       117 ~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      -|..++.-|-..|..++|.+++.++..
T Consensus        41 ~~~eL~~lY~~kg~h~~AL~ll~~l~~   67 (108)
T PF10366_consen   41 KYQELVDLYQGKGLHRKALELLKKLAD   67 (108)
T ss_pred             CHHHHHHHHHccCccHHHHHHHHHHhc
Confidence            467777777777777777777777766

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.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.58  E-value=5.1  Score=33.13  Aligned_cols=105  Identities=8%  Similarity=-0.060  Sum_probs=64.3

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      -+.-+...|+-.+|.++-.+.     -.||-..|-.=+.+++..+++++-+++-+..+      .+.-|-=++.+|.+.|
T Consensus       690 Tv~~li~~g~~k~a~ql~~~F-----kipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~  758 (829)
T KOG2280|consen  690 TVTTLILIGQNKRAEQLKSDF-----KIPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQG  758 (829)
T ss_pred             HHHHHHHccchHHHHHHHHhc-----CCcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhcc
Confidence            355666667777776665555     34777777777777777777775544443332      1334555667777777


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHH
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFS  139 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~  139 (170)
                      +.++|.+.+......        .   -...+|.+.|++.+|.++--
T Consensus       759 n~~EA~KYiprv~~l--------~---ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  759 NKDEAKKYIPRVGGL--------Q---EKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             cHHHHhhhhhccCCh--------H---HHHHHHHHhccHHHHHHHHH
Confidence            777777776653321        1   45566777777777765543

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=87.27  E-value=2  Score=22.07  Aligned_cols=32  Identities=25%  Similarity=0.370  Sum_probs=15.3

Q ss_pred             cccCCHHHHHHHHHHHHhhCCCCcchhhHHHHH
Q 038114           18 PIQNLYNEALVAFDFLQNNTNFRIRPSTYACLI   50 (170)
Q Consensus        18 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li   50 (170)
                      -+.|..+++..+++.| ++.|+..++..|..++
T Consensus        13 k~~GlI~~~~~~l~~l-~~~g~~is~~l~~~~L   44 (48)
T PF11848_consen   13 KRRGLISEVKPLLDRL-QQAGFRISPKLIEEIL   44 (48)
T ss_pred             HHcCChhhHHHHHHHH-HHcCcccCHHHHHHHH
Confidence            3444444444555555 5555544444444444

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.17  E-value=6.5  Score=32.54  Aligned_cols=102  Identities=10%  Similarity=0.050  Sum_probs=77.9

Q ss_pred             HHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           28 VAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        28 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      ++.+.++.+.|..-.--+.+--+.-+.-.|+...|.++-.+.+    .||...|-.=+.+++..++|++-++.-..++. 
T Consensus       669 ~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskks-  743 (829)
T KOG2280|consen  669 KLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKKS-  743 (829)
T ss_pred             HHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccCC-
Confidence            3444443344433333455555666667788899988888886    88999999999999999999998888777654 


Q ss_pred             CCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHH
Q 038114          108 NVIESPDLASWNAIIAGVASPSNANEAMSLFSEM  141 (170)
Q Consensus       108 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m  141 (170)
                             +.-|--+...|.+.|+.++|..++-..
T Consensus       744 -------PIGy~PFVe~c~~~~n~~EA~KYiprv  770 (829)
T KOG2280|consen  744 -------PIGYLPFVEACLKQGNKDEAKKYIPRV  770 (829)
T ss_pred             -------CCCchhHHHHHHhcccHHHHhhhhhcc
Confidence                   257888999999999999999988754

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=87.10  E-value=2.5  Score=26.87  Aligned_cols=47  Identities=11%  Similarity=0.092  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhccc
Q 038114           60 QLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQ  106 (170)
Q Consensus        60 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  106 (170)
                      .+..+.++.+....+.|++.+...-++++-+.+++..|.++|+..+.
T Consensus        66 wEvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~  112 (149)
T KOG4077|consen   66 WEVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKD  112 (149)
T ss_pred             HHHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            34445555555666666666666666666666666666666666654

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=86.83  E-value=8.1  Score=26.63  Aligned_cols=108  Identities=10%  Similarity=-0.034  Sum_probs=84.3

Q ss_pred             hCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCCh
Q 038114           36 NTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDL  115 (170)
Q Consensus        36 ~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~  115 (170)
                      .-...|+...--.|-.+..+.|+..+|...|.+...--+--|....-.+-++....+++..|...++++-+.+.. .-++
T Consensus        82 ~~~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa-~r~p  160 (251)
T COG4700          82 ELAIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPA-FRSP  160 (251)
T ss_pred             HHhhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCc-cCCC
Confidence            334567777778889999999999999999999876556667888888889999999999999999987654321 1222


Q ss_pred             hhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114          116 ASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus       116 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      .+.-.+-..+.-.|..++|+.-|+...+.
T Consensus       161 d~~Ll~aR~laa~g~~a~Aesafe~a~~~  189 (251)
T COG4700         161 DGHLLFARTLAAQGKYADAESAFEVAISY  189 (251)
T ss_pred             CchHHHHHHHHhcCCchhHHHHHHHHHHh
Confidence            34445667888889999999988887755

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=86.67  E-value=12  Score=28.51  Aligned_cols=80  Identities=10%  Similarity=0.070  Sum_probs=55.5

Q ss_pred             HHHHHHHHcCCCHHHHHHHHhhcccCCCCC-CCChhhHHHHHHHHhC---CCChHHHHHHHHHHHhCCCCCCHhhHHHHH
Q 038114           82 NYILNMYGKCGSLEDARVVSDEMPQRNVIE-SPDLASWNAIIAGVAS---PSNANEAMSLFSEMRDRELIPDGLTVRSLL  157 (170)
Q Consensus        82 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~p~~~~~~~li~~~~~---~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll  157 (170)
                      -.++-+|-...+++...++++.+....... .-....=-...-++.|   .|+.++|.+++.......-.++..||..+-
T Consensus       145 ~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~G  224 (374)
T PF13281_consen  145 INLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHH
Confidence            355556888899999999999998652200 1111111233455667   899999999999977777778888888777


Q ss_pred             HHhc
Q 038114          158 CACT  161 (170)
Q Consensus       158 ~~~~  161 (170)
                      +.|-
T Consensus       225 RIyK  228 (374)
T PF13281_consen  225 RIYK  228 (374)
T ss_pred             HHHH
Confidence            6663

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=86.39  E-value=12  Score=28.59  Aligned_cols=104  Identities=12%  Similarity=0.048  Sum_probs=71.6

Q ss_pred             HhhcccchHHHHHHHHHHHhc-----CC---------CCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhh
Q 038114           52 TCSSLRSLQLGRKVHDHILSS-----KS---------QPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLAS  117 (170)
Q Consensus        52 ~~~~~~~~~~a~~~~~~m~~~-----~~---------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~  117 (170)
                      .+.+.|++..|..-|+.....     +.         .+-..+++.|.-+|.+.+++..|.+........+.   +|+-.
T Consensus       217 ~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~---~N~KA  293 (397)
T KOG0543|consen  217 VLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDP---NNVKA  293 (397)
T ss_pred             HHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCC---CchhH
Confidence            456778888888877764432     11         22345788888899999999999999987766544   33333


Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHh
Q 038114          118 WNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCAC  160 (170)
Q Consensus       118 ~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~  160 (170)
                      .=-=-.+|...|+++.|...|+.+.+  +.|+-.....=|..|
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~l  334 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIKL  334 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHHH
Confidence            33334677888999999999998874  466666555544443

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=86.27  E-value=6.7  Score=30.67  Aligned_cols=111  Identities=8%  Similarity=0.043  Sum_probs=72.5

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHH--hhcccchHHHHHHHHHHHhc--CC------------CC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLIST--CSSLRSLQLGRKVHDHILSS--KS------------QP   76 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~--~~~~~~~~~a~~~~~~m~~~--~~------------~~   76 (170)
                      ++++|..+ +.+.....+...++..|-.    .|-.+..+  +.+.++++.|.+.+....+.  +.            .+
T Consensus        52 ilnAffl~-nld~Me~~l~~l~~~~~~s----~~l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~  126 (549)
T PF07079_consen   52 ILNAFFLN-NLDLMEKQLMELRQQFGKS----AYLPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFS  126 (549)
T ss_pred             HHHHHHHh-hHHHHHHHHHHHHHhcCCc----hHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhh
Confidence            56777654 3555555555553444433    34444444  34678899999988887765  32            23


Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCC--CCCChhhHHHHHHHHhCC
Q 038114           77 DVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVI--ESPDLASWNAIIAGVASP  128 (170)
Q Consensus        77 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~~p~~~~~~~li~~~~~~  128 (170)
                      |...=++.+.++...|++.++..+++.|...=+.  ...+..+||-++-.+++.
T Consensus       127 df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrS  180 (549)
T PF07079_consen  127 DFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRS  180 (549)
T ss_pred             HHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHH
Confidence            4455567788899999999999999888755440  037889999876666553

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=86.09  E-value=13  Score=28.34  Aligned_cols=129  Identities=12%  Similarity=0.049  Sum_probs=80.5

Q ss_pred             Hhhhcc---cCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhc---------ccchHHHHHHHHHHHhcCCCCCHH--
Q 038114           14 YNSQPI---QNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSS---------LRSLQLGRKVHDHILSSKSQPDVV--   79 (170)
Q Consensus        14 i~~~~~---~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~---------~~~~~~a~~~~~~m~~~~~~~~~~--   79 (170)
                      .-++.+   .|+.++|++++..+ ....-.+++.+|+.+-+.|-+         ....+.|...|.+--+.  .||..  
T Consensus       186 afALnRrn~~gdre~Al~il~~~-l~~~~~~~~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~G  262 (374)
T PF13281_consen  186 AFALNRRNKPGDREKALQILLPV-LESDENPDPDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSG  262 (374)
T ss_pred             HHHHhhcccCCCHHHHHHHHHHH-HhccCCCChHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--Cccccch
Confidence            455566   89999999999996 566667888899888777632         23466777777655443  34433  


Q ss_pred             -HHHHHHHHHHcCC-CHHHHHHHH---hh-cccCCCC-CCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC
Q 038114           80 -LQNYILNMYGKCG-SLEDARVVS---DE-MPQRNVI-ESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus        80 -~~~~li~~~~~~~-~~~~a~~~~---~~-m~~~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                       .+.+|+...+... .-.+..++-   .. ..+.|.. ...|---+.+++.++.-.|+.++|.+..+.|.+..
T Consensus       263 IN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  263 INAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             HHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence             2333433333211 122333333   22 2223321 13444556778899999999999999999998663

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=85.82  E-value=1.5  Score=20.61  Aligned_cols=22  Identities=27%  Similarity=0.354  Sum_probs=14.0

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHH
Q 038114           77 DVVLQNYILNMYGKCGSLEDAR   98 (170)
Q Consensus        77 ~~~~~~~li~~~~~~~~~~~a~   98 (170)
                      ++..|+.+-..|...|++++|.
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            4666666666666666666654

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=85.81  E-value=7.9  Score=31.82  Aligned_cols=92  Identities=9%  Similarity=0.146  Sum_probs=66.4

Q ss_pred             chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChh-----
Q 038114           42 RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLA-----  116 (170)
Q Consensus        42 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~-----  116 (170)
                      +..+...+-.-+.+...+..|.++|..|-+.         ..++......++|++|..+-+...+.    .||+.     
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~----~~dVy~pyaq  812 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF----KDDVYMPYAQ  812 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc----cccccchHHH
Confidence            3445555555566677788888888887532         35678888999999999999877653    34432     


Q ss_pred             ------hHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 038114          117 ------SWNAIIAGVASPSNANEAMSLFSEMRDREL  146 (170)
Q Consensus       117 ------~~~~li~~~~~~g~~~~a~~l~~~m~~~~~  146 (170)
                            -|.-.-++|-++|+-.+|.++++++....+
T Consensus       813 wLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnnav  848 (1081)
T KOG1538|consen  813 WLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNNAV  848 (1081)
T ss_pred             HhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhhhh
Confidence                  244555888999999999999999876544

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=85.67  E-value=11  Score=29.86  Aligned_cols=76  Identities=11%  Similarity=-0.097  Sum_probs=54.4

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCC-cchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFR-IRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD-VVLQNYILNMYG   89 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~   89 (170)
                      +-.++-+.|+.++|.+.|.+| .+.... -+......||.++-..+.+.++..++....+...+.+ ...|+..+-.+-
T Consensus       265 LAmCarklGr~~EAIk~~rdL-lke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDL-LKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHH-HhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHH
Confidence            344455679999999999998 543322 2344778899999999999999999999865433322 567887664433

The molecular function of this protein is uncertain.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=85.61  E-value=15  Score=31.81  Aligned_cols=50  Identities=12%  Similarity=0.209  Sum_probs=34.0

Q ss_pred             cCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114           90 KCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        90 ~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      +.+++.+|..-|+.-.+..   +-|...|..+.++|.+.|++.-|...|.+..
T Consensus       574 ea~n~h~aV~~fQsALR~d---PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs  623 (1238)
T KOG1127|consen  574 EAHNLHGAVCEFQSALRTD---PKDYNLWLGLGEAYPESGRYSHALKVFTKAS  623 (1238)
T ss_pred             CccchhhHHHHHHHHhcCC---chhHHHHHHHHHHHHhcCceehHHHhhhhhH
Confidence            3344444444444333222   3577888999999999999999999998665

>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=85.45  E-value=8.5  Score=25.54  Aligned_cols=57  Identities=5%  Similarity=-0.120  Sum_probs=31.2

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhc
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSS   72 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   72 (170)
                      +..-.+.+..+++..+++-++.-+--.|...++..++..  ..|++.+|..+|+++.+.
T Consensus        17 ~~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i--~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   17 LSVALRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHI--VRGDWDDALRLLRELEER   73 (160)
T ss_pred             HHHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHH--HhCCHHHHHHHHHHHhcc
Confidence            333445567777777777662222222333344444433  556777777777776554

>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=85.34  E-value=1.2  Score=28.51  Aligned_cols=30  Identities=20%  Similarity=0.161  Sum_probs=20.3

Q ss_pred             ccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038114           56 LRSLQLGRKVHDHILSSKSQPDVVLQNYILNM   87 (170)
Q Consensus        56 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~   87 (170)
                      .|.-.+|..+|..|+++|-+||  .|+.|+..
T Consensus       108 ygsk~DaY~VF~kML~~G~pPd--dW~~Ll~~  137 (140)
T PF11663_consen  108 YGSKTDAYAVFRKMLERGNPPD--DWDALLKE  137 (140)
T ss_pred             hccCCcHHHHHHHHHhCCCCCc--cHHHHHHH
Confidence            3555677778888888877765  46666654

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 [].

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=85.09  E-value=10  Score=26.05  Aligned_cols=126  Identities=13%  Similarity=0.087  Sum_probs=68.4

Q ss_pred             hhHhHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhh-------------cccchHHHHHHHHHHHhc--
Q 038114            8 QLRFTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCS-------------SLRSLQLGRKVHDHILSS--   72 (170)
Q Consensus         8 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~-------------~~~~~~~a~~~~~~m~~~--   72 (170)
                      ...+.+..++-+.|+++.|...++...+...-.|.. -+...+.+.+             ..+....|...|..+.+.  
T Consensus        43 ~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~-~~A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP  121 (203)
T PF13525_consen   43 QAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKA-DYALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRYP  121 (203)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTH-HHHHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-T
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcch-hhHHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHCc
Confidence            344557899999999999999999973443333322 2222222221             223345677777777654  


Q ss_pred             --CCCCCHHHHH------------HHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHH
Q 038114           73 --KSQPDVVLQN------------YILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEA  134 (170)
Q Consensus        73 --~~~~~~~~~~------------~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a  134 (170)
                        ...++....-            .+.+.|.+.|.+..|..-|+.+.+.=..++......-.++.++-+.|..+.+
T Consensus       122 ~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  122 NSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             TSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence              1111111111            2345677888888888888877654110022233456667777777776644

>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=85.04  E-value=3.4  Score=23.86  Aligned_cols=46  Identities=15%  Similarity=-0.043  Sum_probs=24.4

Q ss_pred             ccCCHHHHHHHHHHHHhhCCC-Ccchh-hHHHHHHHhhcccchHHHHHH
Q 038114           19 IQNLYNEALVAFDFLQNNTNF-RIRPS-TYACLISTCSSLRSLQLGRKV   65 (170)
Q Consensus        19 ~~~~~~~a~~~~~~m~~~~~~-~p~~~-~~~~li~~~~~~~~~~~a~~~   65 (170)
                      ...+.+.|+..|... .+.-. +|+.. ++..++.+++..|++.+++++
T Consensus        18 ~~~~~~~Al~~W~~a-L~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKA-LEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHH-HhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455556666666655 33222 22222 556666666666666655543

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

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=84.75  E-value=13  Score=31.64  Aligned_cols=107  Identities=14%  Similarity=0.177  Sum_probs=76.4

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhc-CC--------CCCHHHHHHH
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSS-KS--------QPDVVLQNYI   84 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~--------~~~~~~~~~l   84 (170)
                      .+-|...|+.+.|.+-++.+       -+..+|..|-+.|.+.++++-|.-.+..|... |.        .|+ .+=.-+
T Consensus       735 FSfyvtiG~MD~AfksI~~I-------kS~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakv  806 (1416)
T KOG3617|consen  735 FSFYVTIGSMDAAFKSIQFI-------KSDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKV  806 (1416)
T ss_pred             eeEEEEeccHHHHHHHHHHH-------hhhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHH
Confidence            66788999999999988888       34568999999999999999888888777643 21        221 122222


Q ss_pred             HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHH
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFS  139 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~  139 (170)
                      --.....|.+++|+.+|+.-+..           ..|=..|-..|.|++|+++-+
T Consensus       807 AvLAieLgMlEeA~~lYr~ckR~-----------DLlNKlyQs~g~w~eA~eiAE  850 (1416)
T KOG3617|consen  807 AVLAIELGMLEEALILYRQCKRY-----------DLLNKLYQSQGMWSEAFEIAE  850 (1416)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHH-----------HHHHHHHHhcccHHHHHHHHh
Confidence            22334568899999999886643           334455667789999988875

>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators

Probab=84.27  E-value=2.1  Score=26.35  Aligned_cols=48  Identities=15%  Similarity=0.045  Sum_probs=30.1

Q ss_pred             HHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114          121 IIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       121 li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      ++..+...+..-.|.++++.+.+.+..++..|.-..|+.+...|.+..
T Consensus         6 Il~~l~~~~~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~~   53 (116)
T cd07153           6 ILEVLLESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVRE   53 (116)
T ss_pred             HHHHHHhCCCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEE
Confidence            344444445555677777777776666677776666666666665543

Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=84.24  E-value=9.4  Score=25.06  Aligned_cols=19  Identities=16%  Similarity=0.184  Sum_probs=9.4

Q ss_pred             HcCCCHHHHHHHHhhcccC
Q 038114           89 GKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        89 ~~~~~~~~a~~~~~~m~~~  107 (170)
                      .+.|+|.+|.++|++..+.
T Consensus        55 i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        55 IARGNYDEAARILRELLSS   73 (153)
T ss_pred             HHcCCHHHHHHHHHhhhcc
Confidence            3445555555555555443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=84.12  E-value=14  Score=27.11  Aligned_cols=141  Identities=9%  Similarity=0.046  Sum_probs=82.6

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCC
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGS   93 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~   93 (170)
                      .......|++.+|..+|+.. ....- -+...--.+..++...|+.+.|..++..+...--.........-|..+.+...
T Consensus       141 ~~~~~~~e~~~~a~~~~~~a-l~~~~-~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~  218 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQA-LQAAP-ENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAA  218 (304)
T ss_pred             hhhhhhccchhhHHHHHHHH-HHhCc-ccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhc
Confidence            44567778888888888887 44322 23556677788888888888888888887654322223332333444444433


Q ss_pred             HHHHHHHHhhcccCCCCCCC-ChhhHHHHHHHHhCCCChHHHHHHHHHHHhC--CCCCCHhhHHHHHHHhcC
Q 038114           94 LEDARVVSDEMPQRNVIESP-DLASWNAIIAGVASPSNANEAMSLFSEMRDR--ELIPDGLTVRSLLCACTS  162 (170)
Q Consensus        94 ~~~a~~~~~~m~~~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~--~~~p~~~t~~~ll~~~~~  162 (170)
                      ..+...+-.....     .| |...--.+-..+...|+.+.|.+.+-.+.+.  |.. |...=..|++.+.-
T Consensus       219 ~~~~~~l~~~~aa-----dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~  284 (304)
T COG3118         219 TPEIQDLQRRLAA-----DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEA  284 (304)
T ss_pred             CCCHHHHHHHHHh-----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHh
Confidence            3333333222222     44 4555566678888889999998876666544  332 33333444444433

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=84.03  E-value=2.7  Score=30.81  Aligned_cols=47  Identities=19%  Similarity=0.164  Sum_probs=36.9

Q ss_pred             CCChhh-HHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 038114          112 SPDLAS-WNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLC  158 (170)
Q Consensus       112 ~p~~~~-~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~  158 (170)
                      .||..+ ||..|..-.+.|++++|+.|++|-++.|+.--..||..-++
T Consensus       253 ~~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFik~V~  300 (303)
T PRK10564        253 LNDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFISSVK  300 (303)
T ss_pred             CchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHHHHhh
Confidence            455554 67889999999999999999999999998877777665443

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=83.89  E-value=9.8  Score=26.89  Aligned_cols=119  Identities=10%  Similarity=-0.017  Sum_probs=76.1

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhc--CCCCCHHHHHHHHHHHHc
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSS--KSQPDVVLQNYILNMYGK   90 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~li~~~~~   90 (170)
                      .++.+.+.++..+++....+-.+.+  +.|..+-..++..++-.|++++|..-++-.-+.  ...+...+|..+|++-.-
T Consensus         7 t~seLL~~~sL~dai~~a~~qVkak--Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~ea~   84 (273)
T COG4455           7 TISELLDDNSLQDAIGLARDQVKAK--PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRCEAA   84 (273)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhcC--CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHHHHH
Confidence            4788999999999999886652332  345667788999999999999998877766543  345567788888876422


Q ss_pred             CCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHh-CCCChHHHHHHHH
Q 038114           91 CGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVA-SPSNANEAMSLFS  139 (170)
Q Consensus        91 ~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~-~~g~~~~a~~l~~  139 (170)
                      .      .++|..=...|+.-.|...---.++.+.. +.+..-+|.+-+.
T Consensus        85 R------~evfag~~~Pgflg~p~p~wva~L~aala~h~dg~gea~~alr  128 (273)
T COG4455          85 R------NEVFAGGAVPGFLGGPSPEWVAALLAALALHSDGAGEARTALR  128 (273)
T ss_pred             H------HHHhccCCCCCCcCCCCHHHHHHHHHHHhcccCCcchHHHHHH
Confidence            1      34566555555532245444445555443 3333444443333

>PF12926 MOZART2: Mitotic-spindle organizing gamma-tubulin ring associated; InterPro: IPR024332 The MOZART2 family of proteins (also known as FAM128 and Mitotic-spindle organizing protein 2) operate as part of the gamma-tubulin ring complex, gamma-TuRC, one of the complexes necessary for chromosome segregation

Probab=83.85  E-value=6.4  Score=23.15  Aligned_cols=43  Identities=12%  Similarity=-0.025  Sum_probs=29.3

Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhccc
Q 038114           64 KVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQ  106 (170)
Q Consensus        64 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  106 (170)
                      ++|+-.+..|+..|+.+|-+++...--+=.++...++++.|-.
T Consensus        29 EL~ELa~~AGv~~dp~VFriildLL~~nVsP~AI~qmLK~m~s   71 (88)
T PF12926_consen   29 ELYELAQLAGVPMDPEVFRIILDLLRLNVSPDAIFQMLKSMCS   71 (88)
T ss_pred             HHHHHHHHhCCCcChHHHHHHHHHHHcCCCHHHHHHHHHHHHc
Confidence            5666666677777777777777766666666776777766653

This complex is located at centrosomes and mediates the formation of bipolar spindles in mitosis; it consists of six subunits. However, unlike the other four known subunits, the MOZART proteins, both 1 and 2, do not carry the conserved 'Spc97-Spc98' GCP domain, so the TUBGCP nomenclature cannot be used for it. The exact function of MOZART2 is not clear [].

>PLN02789 farnesyltranstransferase

Probab=83.64  E-value=16  Score=27.23  Aligned_cols=147  Identities=10%  Similarity=-0.003  Sum_probs=88.2

Q ss_pred             hHhH-HHhhhcccC-CHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccc--hHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            9 LRFT-FYNSQPIQN-LYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRS--LQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         9 ~~~~-li~~~~~~~-~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~--~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      ..|+ .-..+...| .+++++..++++ ...+.+ +..+|+-.--.+.+.+.  .+.+..+++.+.+.. .-+..+|+-.
T Consensus        72 taW~~R~~iL~~L~~~l~eeL~~~~~~-i~~npk-nyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R  148 (320)
T PLN02789         72 TVWHFRRLCLEALDADLEEELDFAEDV-AEDNPK-NYQIWHHRRWLAEKLGPDAANKELEFTRKILSLD-AKNYHAWSHR  148 (320)
T ss_pred             HHHHHHHHHHHHcchhHHHHHHHHHHH-HHHCCc-chHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHH
Confidence            3454 333344445 578999999888 554332 22345433223334444  366788888887664 3468889888


Q ss_pred             HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCC---CCh----HHHHHHHHHHHhCCCCCCHhhHHHHH
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASP---SNA----NEAMSLFSEMRDRELIPDGLTVRSLL  157 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~---g~~----~~a~~l~~~m~~~~~~p~~~t~~~ll  157 (170)
                      --.+.+.|+++++.+.++++.+.+.   -+...|+.....+.+.   |..    +....+..+..... .-|...|+.+-
T Consensus       149 ~w~l~~l~~~~eeL~~~~~~I~~d~---~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~  224 (320)
T PLN02789        149 QWVLRTLGGWEDELEYCHQLLEEDV---RNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILAN-PRNESPWRYLR  224 (320)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHCC---CchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhC-CCCcCHHHHHH
Confidence            8888888999999999999987766   3445666665554443   222    34555554444332 22444455555


Q ss_pred             HHhcC
Q 038114          158 CACTS  162 (170)
Q Consensus       158 ~~~~~  162 (170)
                      ..+..
T Consensus       225 ~ll~~  229 (320)
T PLN02789        225 GLFKD  229 (320)
T ss_pred             HHHhc
Confidence            55544

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.26  E-value=18  Score=27.44  Aligned_cols=133  Identities=7%  Similarity=-0.059  Sum_probs=84.0

Q ss_pred             ccchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHH----HHHHHhhcccchHHHHHHHHHHHhcCCCCCHH
Q 038114            5 LKTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYA----CLISTCSSLRSLQLGRKVHDHILSSKSQPDVV   79 (170)
Q Consensus         5 ~~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~----~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~   79 (170)
                      ..+...+. .=.+|.-+|+.......++++ ... ..|+...|.    ..--+....|-+++|++.-++-.+-+ +.|.-
T Consensus       134 PtDlla~kfsh~a~fy~G~~~~~k~ai~kI-ip~-wn~dlp~~sYv~GmyaFgL~E~g~y~dAEk~A~ralqiN-~~D~W  210 (491)
T KOG2610|consen  134 PTDLLAVKFSHDAHFYNGNQIGKKNAIEKI-IPK-WNADLPCYSYVHGMYAFGLEECGIYDDAEKQADRALQIN-RFDCW  210 (491)
T ss_pred             chhhhhhhhhhhHHHhccchhhhhhHHHHh-ccc-cCCCCcHHHHHHHHHHhhHHHhccchhHHHHHHhhccCC-CcchH
Confidence            34566677 467888888888888888887 322 234443222    22233356788888888887776654 45666


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHhhcccCCCC-CCCChhhHHHHHHHHhCCCChHHHHHHHHH
Q 038114           80 LQNYILNMYGKCGSLEDARVVSDEMPQRNVI-ESPDLASWNAIIAGVASPSNANEAMSLFSE  140 (170)
Q Consensus        80 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~l~~~  140 (170)
                      .-.++-..+--.++++++.+...+-...--- .-.-.+-|-...-.+...++++.|+++|+.
T Consensus       211 a~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  211 ASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            7777778888888888888876654322110 011123344444455666899999998873

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=82.56  E-value=15  Score=26.42  Aligned_cols=52  Identities=17%  Similarity=0.036  Sum_probs=25.7

Q ss_pred             cccchHHHHHHHHHHHhcC--CCCCHHHHHHHHHHHHcCCCHHHHHHHHhhccc
Q 038114           55 SLRSLQLGRKVHDHILSSK--SQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQ  106 (170)
Q Consensus        55 ~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  106 (170)
                      +.|++++|.+.|+.+....  -+....+--.++.++-+.+++++|...+++...
T Consensus        46 ~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~   99 (254)
T COG4105          46 QKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIR   99 (254)
T ss_pred             hcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            3455556666665555431  122233444444555555556666555555443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=82.15  E-value=3.6  Score=18.77  Aligned_cols=26  Identities=8%  Similarity=0.125  Sum_probs=15.9

Q ss_pred             hHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114          117 SWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus       117 ~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      +|..+-..|...|++++|+..|++..
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al   28 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRAL   28 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHH
Confidence            45566666666666666666666554

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 ....

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=81.76  E-value=21  Score=27.19  Aligned_cols=21  Identities=10%  Similarity=0.094  Sum_probs=14.6

Q ss_pred             HHhhhcccCCHHHHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFL   33 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m   33 (170)
                      +-+.+...|++.+|+.-|...
T Consensus        44 lGk~lla~~Q~sDALt~yHaA   64 (504)
T KOG0624|consen   44 LGKELLARGQLSDALTHYHAA   64 (504)
T ss_pred             HHHHHHHhhhHHHHHHHHHHH
Confidence            455666677777777777766

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=81.68  E-value=11  Score=24.06  Aligned_cols=58  Identities=9%  Similarity=0.202  Sum_probs=42.8

Q ss_pred             HHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114           27 LVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus        27 ~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      .+-+... -.-.+.|++.....-+++|-+.+++..|.++|+-++.. +.+....|-.+++
T Consensus        69 rkglN~l-~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K-~g~~k~~Y~y~v~  126 (149)
T KOG4077|consen   69 RKGLNNL-FDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK-CGAQKQVYPYYVK  126 (149)
T ss_pred             HHHHHhh-hccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh-cccHHHHHHHHHH
Confidence            3334444 44567899999999999999999999999999988754 3333445665553

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=81.66  E-value=14  Score=25.18  Aligned_cols=131  Identities=15%  Similarity=0.132  Sum_probs=88.7

Q ss_pred             hcccCCHHHHHHHHHHHHhhCCCCcchhh-HHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHH-HHHHHHHH--HHcCC
Q 038114           17 QPIQNLYNEALVAFDFLQNNTNFRIRPST-YACLISTCSSLRSLQLGRKVHDHILSSKSQPDVV-LQNYILNM--YGKCG   92 (170)
Q Consensus        17 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~--~~~~~   92 (170)
                      +++.+..++|+.-|..+ +.-|..--+.. .--+-......|+...|...|++.-.....|-+. -...|=.+  +.-+|
T Consensus        68 lA~~~k~d~Alaaf~~l-ektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~g  146 (221)
T COG4649          68 LAQENKTDDALAAFTDL-EKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNG  146 (221)
T ss_pred             HHHcCCchHHHHHHHHH-HhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccc
Confidence            46788999999999999 77665432221 1111223456789999999999998765555544 33333333  34568


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCH
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDG  150 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~  150 (170)
                      .++....-.+-+...+-  .-....=.+|--+--+.|++.+|...|..+...-..|--
T Consensus       147 sy~dV~srvepLa~d~n--~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~aprn  202 (221)
T COG4649         147 SYDDVSSRVEPLAGDGN--PMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAPRN  202 (221)
T ss_pred             cHHHHHHHhhhccCCCC--hhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCcHH
Confidence            89988888887766555  333444456666667889999999999999876555543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.63  E-value=21  Score=27.10  Aligned_cols=116  Identities=13%  Similarity=0.046  Sum_probs=75.9

Q ss_pred             cCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhc---CCCCCHHHHHHHHHHHHcCCCHHH
Q 038114           20 QNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSS---KSQPDVVLQNYILNMYGKCGSLED   96 (170)
Q Consensus        20 ~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~li~~~~~~~~~~~   96 (170)
                      .|+..+|-..|+++ .+ ..+.|...+.-.=.+|...|..+.-...++.+.-.   +++.-+.+-...--++..+|-+++
T Consensus       116 ~g~~h~a~~~wdkl-L~-d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKL-LD-DYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             cccccHHHHHHHHH-HH-hCchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            45666666667766 33 34566667777777888888888877788777643   222223444444455567888888


Q ss_pred             HHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHH
Q 038114           97 ARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSE  140 (170)
Q Consensus        97 a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~  140 (170)
                      |++.-++-.+-+-   .|.-.-.+....+-..|++.++.++..+
T Consensus       194 AEk~A~ralqiN~---~D~Wa~Ha~aHVlem~~r~Keg~eFM~~  234 (491)
T KOG2610|consen  194 AEKQADRALQINR---FDCWASHAKAHVLEMNGRHKEGKEFMYK  234 (491)
T ss_pred             HHHHHHhhccCCC---cchHHHHHHHHHHHhcchhhhHHHHHHh
Confidence            8888877655433   4555556666777777888888777654

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=81.56  E-value=4.3  Score=20.51  Aligned_cols=24  Identities=13%  Similarity=0.123  Sum_probs=12.7

Q ss_pred             HHHHhCCCChHHHHHHHHHHHhCC
Q 038114          122 IAGVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus       122 i~~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      ..+|...|+.+.|.+++++....|
T Consensus         6 A~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         6 ARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHcC
Confidence            345555555555555555555433

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.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=81.03  E-value=4.5  Score=20.43  Aligned_cols=19  Identities=11%  Similarity=0.307  Sum_probs=8.2

Q ss_pred             HhhcccchHHHHHHHHHHH
Q 038114           52 TCSSLRSLQLGRKVHDHIL   70 (170)
Q Consensus        52 ~~~~~~~~~~a~~~~~~m~   70 (170)
                      +|...|+.+.|.++++++.
T Consensus         8 ayie~Gd~e~Ar~lL~evl   26 (44)
T TIGR03504         8 AYIEMGDLEGARELLEEVI   26 (44)
T ss_pred             HHHHcCChHHHHHHHHHHH
Confidence            3444444444444444444

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.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=80.80  E-value=18  Score=25.77  Aligned_cols=131  Identities=8%  Similarity=-0.012  Sum_probs=81.0

Q ss_pred             hHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhc-----------------ccc---hHHHHHHHHHHH
Q 038114           11 FTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSS-----------------LRS---LQLGRKVHDHIL   70 (170)
Q Consensus        11 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~-----------------~~~---~~~a~~~~~~m~   70 (170)
                      +.+..++-+.+++++|...+++.-+...-.|+. -+...+.+.+.                 ..+   ...|...|+.++
T Consensus        73 l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~-~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li  151 (243)
T PRK10866         73 LDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNI-DYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLV  151 (243)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCch-HHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHH
Confidence            456888999999999999999983444444443 33333333221                 112   234556666666


Q ss_pred             hc----CCCCCHHHHH------------HHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHH
Q 038114           71 SS----KSQPDVVLQN------------YILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEA  134 (170)
Q Consensus        71 ~~----~~~~~~~~~~------------~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a  134 (170)
                      +.    ...++....-            .+.+.|.+.|.+..|..=|+.+.+.=..++......-.++.+|...|..++|
T Consensus       152 ~~yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a  231 (243)
T PRK10866        152 RGYPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQA  231 (243)
T ss_pred             HHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHH
Confidence            53    2222222111            2334577888888888888888753221155556677788899999999988


Q ss_pred             HHHHHHHH
Q 038114          135 MSLFSEMR  142 (170)
Q Consensus       135 ~~l~~~m~  142 (170)
                      ......+.
T Consensus       232 ~~~~~~l~  239 (243)
T PRK10866        232 DKVAKIIA  239 (243)
T ss_pred             HHHHHHHh
Confidence            88776554

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.72  E-value=25  Score=28.82  Aligned_cols=22  Identities=14%  Similarity=0.151  Sum_probs=12.9

Q ss_pred             HHHHHHHhCCCChHHHHHHHHH
Q 038114          119 NAIIAGVASPSNANEAMSLFSE  140 (170)
Q Consensus       119 ~~li~~~~~~g~~~~a~~l~~~  140 (170)
                      |....+|...|+++++.+++.+
T Consensus       725 N~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  725 NLAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             chHHHHHHHcCCHHHHHHHHHh
Confidence            4444555566777776666543

---

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	170
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-07

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 47.1 bits (110), Expect = 7e-07
 Identities = 18/117 (15%), Positives = 35/117 (29%), Gaps = 1/117 (0%)

Query: 42  RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVS 101
                A L+       SL + +        ++                    L  A  + 
Sbjct: 91  WEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLL 150

Query: 102 DEMPQRNVI-ESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLL 157
                +    +   L  +NA++ G A      E + +   ++D  L PD L+  + L
Sbjct: 151 VVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL 207

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	170
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	99.92
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.68
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.68
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.31
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.3
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.27
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.25
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.24
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.24
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.23
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.23
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.22
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.21
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.2
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.19
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.18
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.16
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.14
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.14
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.1
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.1
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.09
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.09
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.09
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.08
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.07
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.07
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.06
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.06
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.05
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.04
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.02
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.99
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.98
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.97
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.97
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.95
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.95
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.95
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.92
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.9
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.89
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.89
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.88
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.88
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.88
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.87
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.85
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.85
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.81
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.8
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.78
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.73
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.73
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.71
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.69
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.68
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.66
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.65
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.64
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.63
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.62
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	98.61
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.59
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.59
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.56
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.55
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.54
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.53
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.52
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.52
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.51
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.51
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.51
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.49
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.49
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.48
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.47
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.46
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.45
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.43
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	98.42
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.42
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.41
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.4
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.39
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.39
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.38
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.38
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.36
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.35
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.33
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.33
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.32
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.32
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.31
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.3
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.3
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.3
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.29
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.28
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.27
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.27
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.27
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.26
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.26
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.26
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.21
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.21
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.21
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.2
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.2
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.19
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.18
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.18
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.17
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.17
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.17
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.16
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.14
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.14
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.13
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.13
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.12
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.11
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.1
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.1
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.1
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.09
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.09
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.08
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.07
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.07
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.07
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.07
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.06
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.05
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.04
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.02
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.02
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.02
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.01
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.0
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	97.97
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.95
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	97.93
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.93
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.92
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	97.92
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	97.91
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.91
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	97.9
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.9
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.88
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.88
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.85
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.85
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.83
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.83
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.81
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.81
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.79
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.76
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.74
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.68
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.68
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.61
4g1t_A	472	Interferon-induced protein with tetratricopeptide	97.6
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.6
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.59
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.56
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.53
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.52
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.47
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.46
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.44
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.44
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.42
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.3
4g1t_A	472	Interferon-induced protein with tetratricopeptide	97.29
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.28
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.26
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.26
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.24
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.21
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.17
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.17
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.11
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	97.05
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.05
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.03
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.0
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.0
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.97
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.95
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	96.34
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.25
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	96.24
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.22
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.16
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	96.09
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	95.91
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	95.78
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	95.62
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	95.46
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.36
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.21
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.11
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.09
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	95.05
1klx_A	138	Cysteine rich protein B; structural genomics, heli	95.03
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	94.9
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	94.55
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	94.54
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	94.37
1pc2_A	152	Mitochondria fission protein; unknown function; NM	94.24
1pc2_A	152	Mitochondria fission protein; unknown function; NM	94.11
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	93.79
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	93.78
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.63
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.62
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.56
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	93.44
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	93.1
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	92.79
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	91.46
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	91.18
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	91.15
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	91.13
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	90.95
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	90.56
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	90.35
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	90.11
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	89.11
2nsz_A	129	Programmed cell death protein 4; PDCD4, tumor supp	87.46
2ion_A	152	PDCD4, programmed cell death 4, PDCD4; alpha-helic	87.23
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	87.01
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	86.96
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	86.56
3ygs_P	97	Procaspase 9; apoptosis, caspase activation, caspa	84.88
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	84.22
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	83.76
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	82.96
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	82.35
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	81.89
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	80.96

>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=3.6e-38  Score=240.78  Aligned_cols=160  Identities=17%  Similarity=0.206  Sum_probs=151.6

Q ss_pred             chhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccc---------hHHHHHHHHHHHhcCCCC
Q 038114            7 TQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRS---------LQLGRKVHDHILSSKSQP   76 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~---------~~~a~~~~~~m~~~~~~~   76 (170)
                      |...++ +|.+|++.|++++|+++|++| ...|++||..||++||.+|++.+.         ++.|.++|++|.+.|+.|
T Consensus        25 pe~~l~~~id~c~k~G~~~~A~~lf~~M-~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~P  103 (501)
T 4g26_A           25 PEALLKQKLDMCSKKGDVLEALRLYDEA-RRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVP  103 (501)
T ss_dssp             HHHHHHHHHHHTTTSCCHHHHHHHHHHH-HHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCC
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHH-HHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCC
Confidence            334456 899999999999999999999 999999999999999999987654         688999999999999999


Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 038114           77 DVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSL  156 (170)
Q Consensus        77 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~l  156 (170)
                      |..|||+||++|++.|++++|.++|++|.+.|+  .||..|||++|.+|++.|++++|.++|++|.+.|+.||..||++|
T Consensus       104 d~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~--~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~L  181 (501)
T 4g26_A          104 NEATFTNGARLAVAKDDPEMAFDMVKQMKAFGI--QPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAAL  181 (501)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            999999999999999999999999999999999  999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCCccccC
Q 038114          157 LCACTSPSNVLYL  169 (170)
Q Consensus       157 l~~~~~~g~~e~~  169 (170)
                      |++|++.|+++++
T Consensus       182 i~~~~~~g~~d~A  194 (501)
T 4g26_A          182 LKVSMDTKNADKV  194 (501)
T ss_dssp             HHHHHHTTCHHHH
T ss_pred             HHHHhhCCCHHHH
Confidence            9999999998865

>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=1.1e-35  Score=227.01  Aligned_cols=157  Identities=12%  Similarity=0.085  Sum_probs=150.9

Q ss_pred             ccchhHhH-HHhhhcccCC---------HHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCC
Q 038114            5 LKTQLRFT-FYNSQPIQNL---------YNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKS   74 (170)
Q Consensus         5 ~~~~~~~~-li~~~~~~~~---------~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   74 (170)
                      .|+..+|| ||.+|++.+.         .+.|.++|++| ...|+.||..||++||.+|++.|++++|.++|++|.+.|+
T Consensus        58 ~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M-~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~  136 (501)
T 4g26_A           58 QLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQM-IVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGI  136 (501)
T ss_dssp             CCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHH-HHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTC
T ss_pred             CCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHH-HHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Confidence            47899999 8999987765         68899999999 9999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHH
Q 038114           75 QPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVR  154 (170)
Q Consensus        75 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~  154 (170)
                      .||..+||+||.+|++.|++++|.++|++|.+.|+  .||..||++||.+|++.|++++|.++|++|++.|+.|+..||+
T Consensus       137 ~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~--~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~  214 (501)
T 4g26_A          137 QPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEV--VPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFD  214 (501)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHH
T ss_pred             CCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHH
Confidence            99999999999999999999999999999999999  9999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCC
Q 038114          155 SLLCACTSPS  164 (170)
Q Consensus       155 ~ll~~~~~~g  164 (170)
                      .|+..|+..+
T Consensus       215 ~l~~~F~s~~  224 (501)
T 4g26_A          215 MIEEWFKSEV  224 (501)
T ss_dssp             HHHHHHHSHH
T ss_pred             HHHHHHhcCc
Confidence            9999998643

>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=1.8e-27  Score=189.78  Aligned_cols=121  Identities=14%  Similarity=0.180  Sum_probs=105.2

Q ss_pred             chhhHHHHHHHhhcccchHHHHHHHHHHHh---cCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhH
Q 038114           42 RPSTYACLISTCSSLRSLQLGRKVHDHILS---SKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASW  118 (170)
Q Consensus        42 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~  118 (170)
                      -..||++||++|++.|++++|.++|.+|.+   .|+.||+.|||+||++||+.|++++|.++|++|.+.|+  .||++||
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~--~PDvvTY  203 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGL--TPDLLSY  203 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTC--CCCHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC--CCcHHHH
Confidence            344899999999999999999999988764   48899999999999999999999999999999999999  9999999


Q ss_pred             HHHHHHHhCCCC-hHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCC
Q 038114          119 NAIIAGVASPSN-ANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus       119 ~~li~~~~~~g~-~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g  164 (170)
                      |++|.++|+.|+ .++|.++|++|.+.|+.||..||++++.++.+.+
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~  250 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT  250 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHH
Confidence            999999999887 4788999999999999999999997766655443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.92  E-value=4.2e-26  Score=181.97  Aligned_cols=150  Identities=9%  Similarity=0.042  Sum_probs=129.0

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHh--hCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQN--NTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~--~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      ..+|| ||++|++.|++++|.++|+.|.+  ..|+.||..|||+||++|++.|++++|.++|++|.+.|+.||..|||+|
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            56899 99999999999999999988822  4589999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCC-HHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCC------HhhHHHHH
Q 038114           85 LNMYGKCGS-LEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPD------GLTVRSLL  157 (170)
Q Consensus        85 i~~~~~~~~-~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~------~~t~~~ll  157 (170)
                      |.++|+.|+ .++|.++|++|.+.|+  .||..+|+.++.++.+.    .+++..+++ .-+..|+      ..|...|.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~--~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~  279 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGL--KLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLR  279 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTC--CSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCC--CCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHH
Confidence            999999998 5789999999999999  99999999999766553    444555444 3456655      66677777


Q ss_pred             HHhcCCC
Q 038114          158 CACTSPS  164 (170)
Q Consensus       158 ~~~~~~g  164 (170)
                      +.|.+.+
T Consensus       280 dl~s~d~  286 (1134)
T 3spa_A          280 DVYAKDG  286 (1134)
T ss_dssp             HHHCCCS
T ss_pred             HHHccCC
Confidence            7777655

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.68  E-value=6.5e-16  Score=119.42  Aligned_cols=153  Identities=12%  Similarity=0.000  Sum_probs=79.5

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMY   88 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~   88 (170)
                      +|+ ++..|.+.|++++|+++|+++ ...+ +.+..+|..+..+|.+.|++++|.++|+++.+.. +.++.+|+.+...|
T Consensus       409 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  485 (597)
T 2xpi_A          409 AWIGFAHSFAIEGEHDQAISAYTTA-ARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVA  485 (597)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHH-HHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH-HHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            444 455555555555555555555 3322 2244455555555555555555555555555432 22455555555555


Q ss_pred             HcCCCHHHHHHHHhhcccC----CCCCCCC--hhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcC
Q 038114           89 GKCGSLEDARVVSDEMPQR----NVIESPD--LASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTS  162 (170)
Q Consensus        89 ~~~~~~~~a~~~~~~m~~~----~~~~~p~--~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~  162 (170)
                      .+.|++++|.++|+++.+.    +.  .|+  ..+|+.+..+|.+.|++++|..+|+++.+.+ ..+..+|..+..+|.+
T Consensus       486 ~~~g~~~~A~~~~~~~~~~~~~~~~--~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~  562 (597)
T 2xpi_A          486 FNKSDMQTAINHFQNALLLVKKTQS--NEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLH  562 (597)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHSCC--CSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHhhhcccc--chhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence            5555555555555555433    33  444  4455555555555555555555555555443 2245555555555555


Q ss_pred             CCcccc
Q 038114          163 PSNVLY  168 (170)
Q Consensus       163 ~g~~e~  168 (170)
                      .|++++
T Consensus       563 ~g~~~~  568 (597)
T 2xpi_A          563 KKIPGL  568 (597)
T ss_dssp             TTCHHH
T ss_pred             hCCHHH
Confidence            555443

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.68  E-value=4.8e-16  Score=120.15  Aligned_cols=157  Identities=10%  Similarity=-0.135  Sum_probs=130.9

Q ss_pred             chhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038114            7 TQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYIL   85 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li   85 (170)
                      +...|+ +...|.+.|++++|.++|+++ .... +.+..+|+.++.++.+.|++++|.++|+++.+.+ +.+..+|+.+.
T Consensus       372 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~  448 (597)
T 2xpi_A          372 KAVTWLAVGIYYLCVNKISEARRYFSKS-STMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLG  448 (597)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhccHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHH
Confidence            455666 788899999999999999988 5432 2356788999999999999999999999988764 44678899999


Q ss_pred             HHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC----CCCCC--HhhHHHHHHH
Q 038114           86 NMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR----ELIPD--GLTVRSLLCA  159 (170)
Q Consensus        86 ~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~----~~~p~--~~t~~~ll~~  159 (170)
                      .+|.+.|++++|.++|+++.+...   .+..+|+.+...|.+.|++++|.++|+++.+.    +..|+  ..+|..+..+
T Consensus       449 ~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~  525 (597)
T 2xpi_A          449 MQHMQLGNILLANEYLQSSYALFQ---YDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHA  525 (597)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC---CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHH
Confidence            999999999999999998876543   46788999999999999999999999999876    77888  7899999999


Q ss_pred             hcCCCccccC
Q 038114          160 CTSPSNVLYL  169 (170)
Q Consensus       160 ~~~~g~~e~~  169 (170)
                      |.+.|+++++
T Consensus       526 ~~~~g~~~~A  535 (597)
T 2xpi_A          526 YRKLKMYDAA  535 (597)
T ss_dssp             HHHTTCHHHH
T ss_pred             HHHhcCHHHH
Confidence            9999988764

>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=99.31  E-value=1.5e-10  Score=85.09  Aligned_cols=121  Identities=11%  Similarity=-0.004  Sum_probs=70.3

Q ss_pred             hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHH
Q 038114           43 PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAII  122 (170)
Q Consensus        43 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li  122 (170)
                      ..++..+..++.+.|++++|...|+++.+.. +.++.+|..+...+.+.|++++|.+.|+++.+..   +.+..+|+.+.
T Consensus       237 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~l~  312 (388)
T 1w3b_A          237 AVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC---PTHADSLNNLA  312 (388)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC---TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC---cccHHHHHHHH
Confidence            3455555555666666666666666665542 2235556666666666666666666666655432   24455666666


Q ss_pred             HHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114          123 AGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       123 ~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      ..+...|++++|..+++++.+.. ..+..++..+...+.+.|++++
T Consensus       313 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  357 (388)
T 1w3b_A          313 NIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQE  357 (388)
T ss_dssp             HHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHH
Confidence            66666666666666666665431 2234556666666666666554

>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=99.30  E-value=9.4e-11  Score=87.51  Aligned_cols=156  Identities=8%  Similarity=-0.036  Sum_probs=116.9

Q ss_pred             chhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038114            7 TQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYIL   85 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li   85 (170)
                      +...|. +...+.+.|++++|+.+|+++ ... .+.+..++..+..++...|++++|...|.++.+.+ +.+...+..+.
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~-l~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  101 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAA-VDG-DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRG  101 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHH-HHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHH-HHh-CCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHH
Confidence            445555 788889999999999999988 543 23467788888889999999999999999988764 33578888999


Q ss_pred             HHHHcCCCHHHHHHHHhhcccCCCCCCCCh---hhHHHHH------------HHHhCCCChHHHHHHHHHHHhCCCCCCH
Q 038114           86 NMYGKCGSLEDARVVSDEMPQRNVIESPDL---ASWNAII------------AGVASPSNANEAMSLFSEMRDRELIPDG  150 (170)
Q Consensus        86 ~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~---~~~~~li------------~~~~~~g~~~~a~~l~~~m~~~~~~p~~  150 (170)
                      ..|.+.|++++|.+.|+++.....   .+.   ..+..+.            ..+...|++++|..+|+++.+.. ..+.
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~  177 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSNP---SENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDA  177 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSCC---CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCC---CChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCh
Confidence            999999999999999998876533   222   4444443            33777788888888888877543 2356


Q ss_pred             hhHHHHHHHhcCCCccccC
Q 038114          151 LTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       151 ~t~~~ll~~~~~~g~~e~~  169 (170)
                      ..+..+..+|.+.|+++++
T Consensus       178 ~~~~~l~~~~~~~g~~~~A  196 (450)
T 2y4t_A          178 ELRELRAECFIKEGEPRKA  196 (450)
T ss_dssp             HHHHHHHHHHHHTTCGGGG
T ss_pred             HHHHHHHHHHHHCCCHHHH
Confidence            6677777777777777654

>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=99.27  E-value=7.6e-10  Score=81.32  Aligned_cols=148  Identities=12%  Similarity=0.042  Sum_probs=122.2

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      ...+. +...+.+.|++++|...|+++ .... +.++.+|..+..++.+.|++++|...|+++.+.. +.+..+++.+..
T Consensus       237 ~~~~~~l~~~~~~~g~~~~A~~~~~~a-l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  313 (388)
T 1w3b_A          237 AVVHGNLACVYYEQGLIDLAIDTYRRA-IELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLAN  313 (388)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH-HHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH-HhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHH
Confidence            44555 889999999999999999998 6543 2356689999999999999999999999998864 567899999999


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHhcCC
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPD-GLTVRSLLCACTSP  163 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~t~~~ll~~~~~~  163 (170)
                      .+.+.|++++|.+.|+++.+..   +.+..++..+...+.+.|++++|...|+++.+.  .|+ ...|..+-..+...
T Consensus       314 ~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~a~~~lg~~~~~~  386 (388)
T 1w3b_A          314 IKREQGNIEEAVRLYRKALEVF---PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNTLKEM  386 (388)
T ss_dssp             HHHTTTCHHHHHHHHHHHTTSC---TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHhHHHHHHHc
Confidence            9999999999999999998753   345788999999999999999999999999864  443 44555555554443

>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=99.25  E-value=2.1e-10  Score=75.16  Aligned_cols=153  Identities=10%  Similarity=0.059  Sum_probs=122.0

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNM   87 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~   87 (170)
                      ..|. +...+...|++++|...|+++ .... +.+...+..+...+...|++++|...++...+.. +.+...+..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   85 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQV-YDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTT-CCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHH-HHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            3344 678888899999999999888 4432 3456778888888899999999999999988763 4467888889999


Q ss_pred             HHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccc
Q 038114           88 YGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus        88 ~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      +...|++++|.+.|++......   .+...+..+...+...|++++|...+++..+.. ..+...+..+...+...|+.+
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  161 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEANP---INFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHE  161 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcCc---HhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHH
Confidence            9999999999999998876533   456788888889999999999999999887664 335677888888888888766


Q ss_pred             c
Q 038114          168 Y  168 (170)
Q Consensus       168 ~  168 (170)
                      +
T Consensus       162 ~  162 (186)
T 3as5_A          162 E  162 (186)
T ss_dssp             H
T ss_pred             H
Confidence            4

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.24  E-value=1.3e-10  Score=82.95  Aligned_cols=86  Identities=9%  Similarity=0.004  Sum_probs=39.4

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcc-hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIR-PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC   91 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~   91 (170)
                      +...+...++.++|++.++++ ...+..|+ +..+..+-.++...|++++|.+.++.      ..+...+..+...|.+.
T Consensus        71 la~~~~~~~~~~~A~~~l~~l-l~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~  143 (291)
T 3mkr_A           71 FAEYLASHSRRDAIVAELDRE-MSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKL  143 (291)
T ss_dssp             HHHHHHCSTTHHHHHHHHHHH-HHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHT
T ss_pred             HHHHHcCCCcHHHHHHHHHHH-HhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHC
Confidence            344455555555555555555 44333332 22223333444444555555444443      23344444444445555


Q ss_pred             CCHHHHHHHHhhcc
Q 038114           92 GSLEDARVVSDEMP  105 (170)
Q Consensus        92 ~~~~~a~~~~~~m~  105 (170)
                      |++++|.+.|+.+.
T Consensus       144 g~~~~A~~~l~~~~  157 (291)
T 3mkr_A          144 DRLDLARKELKKMQ  157 (291)
T ss_dssp             TCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            55555555554444

>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=99.24  E-value=7.5e-10  Score=68.61  Aligned_cols=128  Identities=12%  Similarity=0.079  Sum_probs=108.7

Q ss_pred             hH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038114           11 FT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYG   89 (170)
Q Consensus        11 ~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~   89 (170)
                      |. +...+...|++++|..+|+++ .... +.+...+..+...+...|++++|...+++..+.+ +.+...+..+...+.
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~-~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKA-LELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHH-HHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            44 788889999999999999998 5543 2356678888888999999999999999998765 446788999999999


Q ss_pred             cCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           90 KCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        90 ~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      +.|++++|.+.|+++.....   .+...+..+...+...|++++|...++++...
T Consensus        81 ~~~~~~~A~~~~~~~~~~~~---~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELDP---RSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhCC---CChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            99999999999999876533   45678888999999999999999999988754

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.23  E-value=6e-10  Score=75.30  Aligned_cols=154  Identities=8%  Similarity=-0.090  Sum_probs=99.6

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNM   87 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~   87 (170)
                      ..|. +...+...|++++|...|++. .... +.+...+..+...+...|++++|...++...+.. +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~-~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            9 NIKTQLAMEYMRGQDYRQATASIEDA-LKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHH-HHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            3344 567777777777777777776 4332 2345566777777777777777777777776653 3356677777777


Q ss_pred             HHcC-CCHHHHHHHHhhcccCCCCCCC-ChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCc
Q 038114           88 YGKC-GSLEDARVVSDEMPQRNVIESP-DLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSN  165 (170)
Q Consensus        88 ~~~~-~~~~~a~~~~~~m~~~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~  165 (170)
                      |... |++++|.+.|+.+...+.  .| +...+..+...+...|++++|...|++..+.. ..+...+..+...+.+.|+
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALADPT--YPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHTSTT--CSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHhcCcHHHHHHHHHHHHcCcC--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCC
Confidence            7777 777777777777665222  23 24566666777777777777777777766543 1235556666666666665


Q ss_pred             ccc
Q 038114          166 VLY  168 (170)
Q Consensus       166 ~e~  168 (170)
                      .++
T Consensus       163 ~~~  165 (225)
T 2vq2_A          163 LGD  165 (225)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>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=99.23  E-value=1.2e-12  Score=97.86  Aligned_cols=139  Identities=11%  Similarity=0.100  Sum_probs=32.0

Q ss_pred             cchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            6 KTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         6 ~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      ++...|. +..++.+.|++++|++.|.+.       +|..+|..++.++...|++++|...+...++.  .+++.+.+.|
T Consensus        30 ~~~~vWs~La~A~l~~g~~~eAIdsfika-------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~L  100 (449)
T 1b89_A           30 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETEL  100 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHcC-------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHH
Confidence            4445777 788888888888888888654       67778888888888888888888876666653  4456777777


Q ss_pred             HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHH--------------------------HHHhCCCChHHHHHHH
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAII--------------------------AGVASPSNANEAMSLF  138 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li--------------------------~~~~~~g~~~~a~~l~  138 (170)
                      +.+|.+.|+++++.++++.         |+..+|+.+.                          .++.+.|+++.|.+.+
T Consensus       101 i~~Y~Klg~l~e~e~f~~~---------pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a~n~~~LA~~L~~Lg~yq~AVea~  171 (449)
T 1b89_A          101 IFALAKTNRLAELEEFING---------PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGA  171 (449)
T ss_dssp             --------CHHHHTTTTTC---------C----------------CTTTHHHHHHHTTCHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHcC---------CcHHHHHHHHHHHHHcCCHHHHHHHHHHhhhHHHHHHHHHHhccHHHHHHHH
Confidence            7888888777777766642         3333444444                          4445555555555555


Q ss_pred             HHHHhCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114          139 SEMRDRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       139 ~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      .+.      .+..||..++.+|...|+++.
T Consensus       172 ~KA------~~~~~Wk~v~~aCv~~~ef~l  195 (449)
T 1b89_A          172 RKA------NSTRTWKEVCFACVDGKEFRL  195 (449)
T ss_dssp             HHH------TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHc------CCchhHHHHHHHHHHcCcHHH
Confidence            444      266777777777777776654

>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=99.22  E-value=5e-10  Score=77.38  Aligned_cols=149  Identities=10%  Similarity=-0.036  Sum_probs=85.4

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +...+...|++++|...|+++ .... +.+...+..+...+...|++++|.+.+.+..+.. +.+...+..+...|.+.|
T Consensus        43 ~a~~~~~~~~~~~A~~~~~~a-l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g  119 (252)
T 2ho1_A           43 LGLGYLQRGNTEQAKVPLRKA-LEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLYEQK  119 (252)
T ss_dssp             HHHHHHHTTCTGGGHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCChHHHHHHHHHH-HhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHHh
Confidence            455666666666666666665 3322 2244556666666666666666666666665543 224556666666666666


Q ss_pred             CHHHHHHHHhhcccCCCCCCC-ChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccc
Q 038114           93 SLEDARVVSDEMPQRNVIESP-DLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      ++++|.+.|++....+.  .| +...+..+...+...|++++|...|++..+.. ..+...+..+...+...|+.+
T Consensus       120 ~~~~A~~~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~  192 (252)
T 2ho1_A          120 RYEEAYQRLLEASQDTL--YPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYV  192 (252)
T ss_dssp             CHHHHHHHHHHHTTCTT--CTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHhCcc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHH
Confidence            66666666666655222  22 34455555566666666666666666655432 123445555555555555544

>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=5.9e-10  Score=77.01  Aligned_cols=155  Identities=3%  Similarity=-0.190  Sum_probs=121.4

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCC-CHHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQP-DVVLQNYIL   85 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li   85 (170)
                      ...|. +...+...|++++|.+.|+++ .... +.+...+..+...+...|++++|...+.+..+.+..| +...+..+.
T Consensus        71 ~~~~~~la~~~~~~~~~~~A~~~~~~a-~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la  148 (252)
T 2ho1_A           71 ADAHAALAVVFQTEMEPKLADEEYRKA-LASD-SRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLG  148 (252)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH-HHHC-cCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHH
Confidence            33444 688888999999999999988 5443 2356788888888999999999999999988743444 467888888


Q ss_pred             HHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCc
Q 038114           86 NMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSN  165 (170)
Q Consensus        86 ~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~  165 (170)
                      ..|.+.|++++|.+.|++......   .+...+..+...+...|++++|...+++..+.. ..+...+..+...+.+.|+
T Consensus       149 ~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~  224 (252)
T 2ho1_A          149 LVSLQMKKPAQAKEYFEKSLRLNR---NQPSVALEMADLLYKEREYVPARQYYDLFAQGG-GQNARSLLLGIRLAKVFED  224 (252)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCS---CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCc---ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccC
Confidence            999999999999999998776533   346778888899999999999999999887643 3456667777788877777


Q ss_pred             ccc
Q 038114          166 VLY  168 (170)
Q Consensus       166 ~e~  168 (170)
                      .++
T Consensus       225 ~~~  227 (252)
T 2ho1_A          225 RDT  227 (252)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>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=2.9e-10  Score=84.84  Aligned_cols=156  Identities=8%  Similarity=-0.075  Sum_probs=120.9

Q ss_pred             chhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCH---HHHH
Q 038114            7 TQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDV---VLQN   82 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~   82 (170)
                      +...|. +...+.+.|++++|...|+++ ...+ +.+...+..+..++.+.|++++|...|+.+.+.. +.+.   ..+.
T Consensus        59 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a-l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~  135 (450)
T 2y4t_A           59 NYIAYYRRATVFLAMGKSKAALPDLTKV-IQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQS  135 (450)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHH-HhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHH
Confidence            345555 788899999999999999998 5543 2356788888999999999999999999998753 2234   5666


Q ss_pred             HHHHH------------HHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCH
Q 038114           83 YILNM------------YGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDG  150 (170)
Q Consensus        83 ~li~~------------~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~  150 (170)
                      .+...            +.+.|++++|...|+.+.....   .+...+..+...|...|++++|..+|+++.+.. ..+.
T Consensus       136 ~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~  211 (450)
T 2y4t_A          136 QLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCV---WDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNT  211 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC---CChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCH
Confidence            65444            8888999999999998876433   466788888899999999999999999887653 3457


Q ss_pred             hhHHHHHHHhcCCCccccC
Q 038114          151 LTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       151 ~t~~~ll~~~~~~g~~e~~  169 (170)
                      .++..+...|...|+.+++
T Consensus       212 ~~~~~l~~~~~~~g~~~~A  230 (450)
T 2y4t_A          212 EAFYKISTLYYQLGDHELS  230 (450)
T ss_dssp             HHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHH
Confidence            7888888888888877653

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.19  E-value=1.1e-09  Score=74.00  Aligned_cols=156  Identities=8%  Similarity=-0.067  Sum_probs=123.5

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcc-cchHHHHHHHHHHHhcCCCCC-HHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSL-RSLQLGRKVHDHILSSKSQPD-VVLQNYI   84 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~~~-~~~~~~l   84 (170)
                      ...|. +...+...|++++|...|++. .... +.+..++..+...+... |++++|...++...+.+..|+ ...+..+
T Consensus        42 ~~~~~~l~~~~~~~~~~~~A~~~~~~a-~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l  119 (225)
T 2vq2_A           42 ELAWLVRAEIYQYLKVNDKAQESFRQA-LSIK-PDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNK  119 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHH-HHhC-CCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHH
Confidence            34455 788899999999999999998 5433 23667888899999999 999999999999988433443 6788999


Q ss_pred             HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCC
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g  164 (170)
                      ...+.+.|++++|.+.|++..+...   .+...+..+...+...|++++|...+++..+..-..+...+..+...+...|
T Consensus       120 ~~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  196 (225)
T 2vq2_A          120 GICSAKQGQFGLAEAYLKRSLAAQP---QFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALG  196 (225)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHST---TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCC---CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcC
Confidence            9999999999999999998876533   3467888899999999999999999999877543245666777777767666


Q ss_pred             cccc
Q 038114          165 NVLY  168 (170)
Q Consensus       165 ~~e~  168 (170)
                      +.+.
T Consensus       197 ~~~~  200 (225)
T 2vq2_A          197 NAQA  200 (225)
T ss_dssp             CHHH
T ss_pred             cHHH
Confidence            6543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.18  E-value=1.2e-09  Score=74.80  Aligned_cols=155  Identities=12%  Similarity=0.020  Sum_probs=118.6

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      ...+. +...+...|++++|...|++. .... +.+...+..+...+...|++++|...+++..+.. +.+...+..+..
T Consensus        57 ~~~~~~la~~~~~~~~~~~A~~~~~~~-~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~  133 (243)
T 2q7f_A           57 AIPYINFANLLSSVNELERALAFYDKA-LELD-SSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGT  133 (243)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH-HHcC-CcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34444 677888889999999988887 4432 2356677888888888899999999998887764 345778888888


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcc
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNV  166 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~  166 (170)
                      .+.+.|++++|.+.+++......   .+...+..+...+...|++++|...|++..+.. ..+..++..+...+.+.|+.
T Consensus       134 ~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  209 (243)
T 2q7f_A          134 VLVKLEQPKLALPYLQRAVELNE---NDTEARFQFGMCLANEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENR  209 (243)
T ss_dssp             HHHHTSCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCT
T ss_pred             HHHHhccHHHHHHHHHHHHHhCC---ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCH
Confidence            88899999999999888765433   356678888888888899999999988877653 23566788888888888877


Q ss_pred             ccC
Q 038114          167 LYL  169 (170)
Q Consensus       167 e~~  169 (170)
                      +++
T Consensus       210 ~~A  212 (243)
T 2q7f_A          210 EKA  212 (243)
T ss_dssp             THH
T ss_pred             HHH
Confidence            653

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.16  E-value=6.8e-10  Score=75.79  Aligned_cols=149  Identities=14%  Similarity=-0.013  Sum_probs=86.5

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcc-----------cchHHHHHHHHHHHhcCCCCCHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSL-----------RSLQLGRKVHDHILSSKSQPDVVLQ   81 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~-----------~~~~~a~~~~~~m~~~~~~~~~~~~   81 (170)
                      +-..+.+.|++++|...|++. .... +-+...+..+-.++...           |++++|...|+...+.. +-+...+
T Consensus        45 lg~~~~~~g~~~~A~~~~~~a-l~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~  121 (217)
T 2pl2_A           45 LARTQLKLGLVNPALENGKTL-VART-PRYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLH  121 (217)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHhC-CCcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHH
Confidence            556666666666666666665 3322 12344555566666666           66677766666666542 2245666


Q ss_pred             HHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhc
Q 038114           82 NYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACT  161 (170)
Q Consensus        82 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~  161 (170)
                      ..+-..|...|++++|...|++..+..    .+...+..+-..+...|++++|...|++..+.. +-+...+..+...+.
T Consensus       122 ~~lg~~~~~~g~~~~A~~~~~~al~~~----~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~  196 (217)
T 2pl2_A          122 LQRGLVYALLGERDKAEASLKQALALE----DTPEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALL  196 (217)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC----CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhcc----cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHH
Confidence            666666777777777777776655432    234556666667777777777777777666542 224455666677777


Q ss_pred             CCCccccC
Q 038114          162 SPSNVLYL  169 (170)
Q Consensus       162 ~~g~~e~~  169 (170)
                      +.|+.+++
T Consensus       197 ~~g~~~~A  204 (217)
T 2pl2_A          197 LKGKAEEA  204 (217)
T ss_dssp             C-------
T ss_pred             HccCHHHH
Confidence            77776654

>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=99.14  E-value=1.7e-11  Score=91.66  Aligned_cols=127  Identities=8%  Similarity=0.011  Sum_probs=73.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      ++.+|.+.|+++++.++++        .|+..+|..+...|...|.+++|...|..+         ..|..+..++.+.|
T Consensus       100 Li~~Y~Klg~l~e~e~f~~--------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg  162 (449)
T 1b89_A          100 LIFALAKTNRLAELEEFIN--------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLG  162 (449)
T ss_dssp             ---------CHHHHTTTTT--------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTT
T ss_pred             HHHHHHHhCCHHHHHHHHc--------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhc
Confidence            5555555555555444442        245556666666666666666666666655         36777888888888


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccccC
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      ++++|.+.++++.        ++.+|..++.+|+..|+|+.|......+   .+.|+.  ...++..|.+.|.++++
T Consensus       163 ~yq~AVea~~KA~--------~~~~Wk~v~~aCv~~~ef~lA~~~~l~L---~~~ad~--l~~lv~~Yek~G~~eEa  226 (449)
T 1b89_A          163 EYQAAVDGARKAN--------STRTWKEVCFACVDGKEFRLAQMCGLHI---VVHADE--LEELINYYQDRGYFEEL  226 (449)
T ss_dssp             CHHHHHHHHHHHT--------CHHHHHHHHHHHHHTTCHHHHHHTTTTT---TTCHHH--HHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHcC--------CchhHHHHHHHHHHcCcHHHHHHHHHHH---HhCHhh--HHHHHHHHHHCCCHHHH
Confidence            8888888888762        4489999999999999999997665542   244544  55788999999988764

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.14  E-value=2.9e-09  Score=70.27  Aligned_cols=154  Identities=7%  Similarity=-0.101  Sum_probs=120.9

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNM   87 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~   87 (170)
                      ..|. +-..|.+.|++++|+..|++. .+.. +-+...+..+-.++.+.|++++|...+....... +-+...+..+-..
T Consensus         6 ~iy~~lG~~~~~~g~~~~A~~~~~~a-l~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            6 TIYMDIGDKKRTKGDFDGAIRAYKKV-LKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            3454 888999999999999999998 5433 2356678888889999999999999999988764 3357778888888


Q ss_pred             HHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccc
Q 038114           88 YGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus        88 ~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      +...++++.|...+.+......   -+...+..+-..+.+.|++++|+..|++..+.. .-+...|..+-.++.+.|+.+
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~~~---~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIALNT---VYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCc---cchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHH
Confidence            8889999999999888765433   355678888888899999999999998887653 235667888888888888776


Q ss_pred             cC
Q 038114          168 YL  169 (170)
Q Consensus       168 ~~  169 (170)
                      ++
T Consensus       159 ~A  160 (184)
T 3vtx_A          159 EA  160 (184)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.10  E-value=2.6e-09  Score=76.22  Aligned_cols=142  Identities=18%  Similarity=0.112  Sum_probs=110.4

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHH---HHHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVV---LQNYILNMYG   89 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~~~li~~~~   89 (170)
                      +-..+.+.|++++|+..+++       +.+...+..+...+.+.|++++|.+.|+.+.+..  |+..   ....++..+.
T Consensus       107 la~~~~~~g~~~~Al~~l~~-------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~  177 (291)
T 3mkr_A          107 AASIYFYDQNPDAALRTLHQ-------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAA  177 (291)
T ss_dssp             HHHHHHHTTCHHHHHHHHTT-------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHhC-------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHh
Confidence            56888899999999998876       4677788888899999999999999999998764  4422   1223445555


Q ss_pred             cCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccc
Q 038114           90 KCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus        90 ~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      ..|++++|..+|+++.+..   +.+...|+.+...+.+.|++++|+..|++..... .-+..++..+...+...|+.+
T Consensus       178 ~~~~~~eA~~~~~~~l~~~---p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~  251 (291)
T 3mkr_A          178 GGEKLQDAYYIFQEMADKC---SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPP  251 (291)
T ss_dssp             CTTHHHHHHHHHHHHHHHS---CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCH
T ss_pred             CchHHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCH
Confidence            6688999999999988763   4678889999999999999999999999877653 225667777887777777764

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.10  E-value=5.5e-10  Score=81.38  Aligned_cols=151  Identities=13%  Similarity=0.054  Sum_probs=100.2

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHH----------------------
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHIL----------------------   70 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~----------------------   70 (170)
                      +...+.+.|++++|+..|++. .... +.+..++..+..++...|++++|...|++..                      
T Consensus       105 lg~~~~~~g~~~~A~~~~~~a-l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~  182 (365)
T 4eqf_A          105 LGITQAENENEQAAIVALQRC-LELQ-PNNLKALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRR  182 (365)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------
T ss_pred             HHHHHHHCCCHHHHHHHHHHH-HhcC-CCCHHHHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHH
Confidence            555555566666666666555 3321 1234455555555555555555555555544                      


Q ss_pred             ----------------------hcCCC-CCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhC
Q 038114           71 ----------------------SSKSQ-PDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVAS  127 (170)
Q Consensus        71 ----------------------~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~  127 (170)
                                            +.... +++.++..+...|.+.|++++|.+.|++..+...   .+..+|+.+...|..
T Consensus       183 l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p---~~~~~~~~l~~~~~~  259 (365)
T 4eqf_A          183 MSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVRP---EDYSLWNRLGATLAN  259 (365)
T ss_dssp             ------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHH
Confidence                                  33211 1577888888888888999999999888776533   456788888888999


Q ss_pred             CCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccccC
Q 038114          128 PSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       128 ~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      .|++++|...|++..+.. ..+..++..+-.+|.+.|+++++
T Consensus       260 ~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          260 GDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             cCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHH
Confidence            999999999998887653 22467788888888888877653

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.09  E-value=4.5e-10  Score=81.83  Aligned_cols=151  Identities=13%  Similarity=-0.042  Sum_probs=119.9

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCC-CCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTN-FRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC   91 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~   91 (170)
                      +...+.+.|++++|...|+++ .... -.++..++..+...+...|++++|...|++..+.. +.+..+|+.+..+|.+.
T Consensus       183 l~~~~~~~g~~~~A~~~~~~a-l~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  260 (365)
T 4eqf_A          183 MSKSPVDSSVLEGVKELYLEA-AHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANG  260 (365)
T ss_dssp             ------CCHHHHHHHHHHHHH-HHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHhhhhhHHHHHHHHHHH-HHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            577889999999999999999 5443 22368899999999999999999999999998864 44688999999999999


Q ss_pred             CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCC---C--------CCHhhHHHHHHHh
Q 038114           92 GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDREL---I--------PDGLTVRSLLCAC  160 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~---~--------p~~~t~~~ll~~~  160 (170)
                      |++++|.+.|++..+...   .+..+|..+...|...|++++|...|++..+..-   .        .+...|..+-.++
T Consensus       261 g~~~~A~~~~~~al~~~p---~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  337 (365)
T 4eqf_A          261 DRSEEAVEAYTRALEIQP---GFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIAL  337 (365)
T ss_dssp             TCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhcCC---CchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHH
Confidence            999999999999876533   3478899999999999999999999998875421   1        1367788888888


Q ss_pred             cCCCcccc
Q 038114          161 TSPSNVLY  168 (170)
Q Consensus       161 ~~~g~~e~  168 (170)
                      ...|+.+.
T Consensus       338 ~~~g~~~~  345 (365)
T 4eqf_A          338 SLMDQPEL  345 (365)
T ss_dssp             HHHTCHHH
T ss_pred             HHcCcHHH
Confidence            77776654

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.09  E-value=1e-09  Score=75.62  Aligned_cols=151  Identities=13%  Similarity=0.038  Sum_probs=81.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCC--CCcc----hhhHHHHHHHhhcccchHHHHHHHHHHHhcC-------------
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTN--FRIR----PSTYACLISTCSSLRSLQLGRKVHDHILSSK-------------   73 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~--~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-------------   73 (170)
                      +...+...|++++|...|++. ....  ..|+    ..++..+-.++...|++++|...|....+..             
T Consensus        44 ~~~~~~~~~~~~~A~~~~~~a-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  122 (258)
T 3uq3_A           44 RAAAEYEKGEYETAISTLNDA-VEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAE  122 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHH-HHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHH
Confidence            455556666666666666555 3211  1111    3455555556666666666666666655521             


Q ss_pred             -----------CCC-CHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHH
Q 038114           74 -----------SQP-DVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEM  141 (170)
Q Consensus        74 -----------~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m  141 (170)
                                 ..| +...+..+...+.+.|++++|.+.|++......   .+...|..+...+...|++++|...|++.
T Consensus       123 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  199 (258)
T 3uq3_A          123 KELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAP---EDARGYSNRAAALAKLMSFPEAIADCNKA  199 (258)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCc---ccHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence                       111 244555555566666666666666665554322   24455666666666666666666666666


Q ss_pred             HhCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114          142 RDRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       142 ~~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      .+.. ..+...+..+-..+.+.|+.++
T Consensus       200 l~~~-~~~~~~~~~l~~~~~~~g~~~~  225 (258)
T 3uq3_A          200 IEKD-PNFVRAYIRKATAQIAVKEYAS  225 (258)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHhC-HHHHHHHHHHHHHHHHHhhHHH
Confidence            5442 2234555566666666665543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.09  E-value=9.2e-09  Score=70.10  Aligned_cols=154  Identities=14%  Similarity=-0.038  Sum_probs=129.8

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      ...+. +-..+.+.|++++|...|++. .... +-+...+..+-.++.+.|++++|...++...+.. +.+...+..+-.
T Consensus         5 ~~~~~~lg~~~~~~g~~~~A~~~~~~a-l~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~   81 (217)
T 2pl2_A            5 EQNPLRLGVQLYALGRYDAALTLFERA-LKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSE   81 (217)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHH-HTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            33444 788899999999999999998 5433 2466788888899999999999999999998864 345789999999


Q ss_pred             HHHcC-----------CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHH
Q 038114           87 MYGKC-----------GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRS  155 (170)
Q Consensus        87 ~~~~~-----------~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~  155 (170)
                      .+.+.           |++++|...|++..+...   -+...|..+-..+...|++++|+..|++..+..  .+...+..
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P---~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           82 AYVALYRQAEDRERGKGYLEQALSVLKDAERVNP---RYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCc---ccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            99999           999999999998876533   346788888899999999999999999998887  78888999


Q ss_pred             HHHHhcCCCccccC
Q 038114          156 LLCACTSPSNVLYL  169 (170)
Q Consensus       156 ll~~~~~~g~~e~~  169 (170)
                      +-.++...|+.+++
T Consensus       157 la~~~~~~g~~~~A  170 (217)
T 2pl2_A          157 LAELYLSMGRLDEA  170 (217)
T ss_dssp             HHHHHHHHTCHHHH
T ss_pred             HHHHHHHcCCHHHH
Confidence            99999888887653

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.08  E-value=1.1e-09  Score=75.00  Aligned_cols=153  Identities=10%  Similarity=-0.016  Sum_probs=114.1

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMY   88 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~   88 (170)
                      .|. +...+.+.|++++|...|+++ .... +.+...+..+...+...|++++|...+.+..+.. +.+...+..+...|
T Consensus        25 ~~~~~a~~~~~~~~~~~A~~~~~~~-l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~  101 (243)
T 2q7f_A           25 TGGQQMGRGSEFGDYEKAAEAFTKA-IEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVY  101 (243)
T ss_dssp             -----------------CCTTHHHH-HTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCHHHHHHHHHHH-HHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHH
Confidence            344 677889999999999999998 5532 3467788889999999999999999999998764 34688999999999


Q ss_pred             HcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114           89 GKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus        89 ~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      .+.|++++|.+.|++..+...   .+...+..+...+...|++++|...+++..+.. ..+...+..+...+.+.|++++
T Consensus       102 ~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          102 VVKEMYKEAKDMFEKALRAGM---ENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHTTCHHHHHHHHHHHHHHTC---CSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHhccHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999876543   456788889999999999999999999987653 2356778888888888887765


Q ss_pred             C
Q 038114          169 L  169 (170)
Q Consensus       169 ~  169 (170)
                      +
T Consensus       178 A  178 (243)
T 2q7f_A          178 A  178 (243)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.07  E-value=1.4e-09  Score=77.49  Aligned_cols=148  Identities=9%  Similarity=-0.095  Sum_probs=123.9

Q ss_pred             hhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHH
Q 038114           16 SQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLE   95 (170)
Q Consensus        16 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~   95 (170)
                      .+...|++++|...++++ .... +.+...+..+...+...|++++|...+.+..+.. +.+...+..+...|.+.|+++
T Consensus       147 ~~~~~~~~~~A~~~~~~~-~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  223 (327)
T 3cv0_A          147 FFAAPNEYRECRTLLHAA-LEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQ  223 (327)
T ss_dssp             CTTSHHHHHHHHHHHHHH-HHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcccHHHHHHHHHHH-HhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHH
Confidence            388889999999999998 5443 2367789999999999999999999999998764 446889999999999999999


Q ss_pred             HHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCC-----------CHhhHHHHHHHhcCCC
Q 038114           96 DARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIP-----------DGLTVRSLLCACTSPS  164 (170)
Q Consensus        96 ~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p-----------~~~t~~~ll~~~~~~g  164 (170)
                      +|.+.|++..+...   .+...|..+...+...|++++|...|++.....-..           +...+..+..++.+.|
T Consensus       224 ~A~~~~~~a~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  300 (327)
T 3cv0_A          224 EALDAYNRALDINP---GYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMN  300 (327)
T ss_dssp             HHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCC---CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcC
Confidence            99999999876533   456789999999999999999999999887653221           4778889999999988


Q ss_pred             ccccC
Q 038114          165 NVLYL  169 (170)
Q Consensus       165 ~~e~~  169 (170)
                      +.+++
T Consensus       301 ~~~~A  305 (327)
T 3cv0_A          301 RPDLV  305 (327)
T ss_dssp             CHHHH
T ss_pred             CHHHH
Confidence            87653

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.07  E-value=1.6e-09  Score=74.63  Aligned_cols=151  Identities=12%  Similarity=-0.015  Sum_probs=85.6

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCC--CCC----HHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKS--QPD----VVLQNYILN   86 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~~~----~~~~~~li~   86 (170)
                      +-..+...|++++|...|++. ....  .+...+..+-.++...|++++|...+....+...  .++    ..+|..+..
T Consensus        11 ~g~~~~~~~~~~~A~~~~~~a-~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~   87 (258)
T 3uq3_A           11 EGNKFYKARQFDEAIEHYNKA-WELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGN   87 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHH-HHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHH
Confidence            555666666666666666666 4443  5555666666666666666666666666654311  111    456666666


Q ss_pred             HHHcCCCHHHHHHHHhhcccCC------------------------CCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114           87 MYGKCGSLEDARVVSDEMPQRN------------------------VIESPDLASWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~------------------------~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      .|.+.|++++|...|++.....                        .. +.+...|..+...+...|++++|...|++..
T Consensus        88 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~  166 (258)
T 3uq3_A           88 AYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWPNAVKAYTEMI  166 (258)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            6666666666666666554411                        10 1233455555666666666666666666665


Q ss_pred             hCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114          143 DRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       143 ~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      +.. ..+..++..+...+.+.|++++
T Consensus       167 ~~~-~~~~~~~~~l~~~~~~~~~~~~  191 (258)
T 3uq3_A          167 KRA-PEDARGYSNRAAALAKLMSFPE  191 (258)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             hcC-cccHHHHHHHHHHHHHhCCHHH
Confidence            443 2244556666666666555543

>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=99.06  E-value=1.6e-09  Score=78.69  Aligned_cols=151  Identities=15%  Similarity=0.012  Sum_probs=124.1

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCC-CCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTN-FRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +..+...|++++|...|+++ .... -.++..++..+...+.+.|++++|...|.+..+.. +.+...|..+...|.+.|
T Consensus       188 ~~~~~~~~~~~~A~~~~~~a-~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g  265 (368)
T 1fch_A          188 LGSLLSDSLFLEVKELFLAA-VRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGN  265 (368)
T ss_dssp             THHHHHHHHHHHHHHHHHHH-HHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHhhcccHHHHHHHHHHH-HHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcC
Confidence            33344889999999999998 5433 22257889999999999999999999999998763 445889999999999999


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCC---C-------CHhhHHHHHHHhcC
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELI---P-------DGLTVRSLLCACTS  162 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~---p-------~~~t~~~ll~~~~~  162 (170)
                      ++++|.+.|++......   .+...|..+...|.+.|++++|...|++.....-.   |       ...+|..+..++..
T Consensus       266 ~~~~A~~~~~~al~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  342 (368)
T 1fch_A          266 QSEEAVAAYRRALELQP---GYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSM  342 (368)
T ss_dssp             CHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCC---CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHH
Confidence            99999999999876432   45678999999999999999999999988764211   1       26789999999999


Q ss_pred             CCccccC
Q 038114          163 PSNVLYL  169 (170)
Q Consensus       163 ~g~~e~~  169 (170)
                      .|+.+++
T Consensus       343 ~g~~~~A  349 (368)
T 1fch_A          343 LGQSDAY  349 (368)
T ss_dssp             HTCGGGH
T ss_pred             hCChHhH
Confidence            9988764

>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=5.9e-09  Score=74.34  Aligned_cols=154  Identities=7%  Similarity=-0.104  Sum_probs=109.7

Q ss_pred             hHhH-HHhhhcccC-CHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114            9 LRFT-FYNSQPIQN-LYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus         9 ~~~~-li~~~~~~~-~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      ..|. +...+...| ++++|...|++. .... +.+...+..+...+...|++++|...|....+.. +.+...+..+..
T Consensus        91 ~~~~~l~~~~~~~~~~~~~A~~~~~~a-~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~  167 (330)
T 3hym_B           91 VSWFAVGCYYLMVGHKNEHARRYLSKA-TTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGL  167 (330)
T ss_dssp             HHHHHHHHHHHHSCSCHHHHHHHHHHH-HTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHH-HHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHH
Confidence            3444 667777777 788888888877 4433 2345567777778888888888888888877654 223556666778


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC--------CCCCHhhHHHHHH
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE--------LIPDGLTVRSLLC  158 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~--------~~p~~~t~~~ll~  158 (170)
                      .|...|++++|.+.|++......   .+...+..+...+...|++++|...+++..+..        ...+..++..+..
T Consensus       168 ~~~~~~~~~~A~~~~~~al~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~  244 (330)
T 3hym_B          168 EYGLTNNSKLAERFFSQALSIAP---EDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGH  244 (330)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHhCC---CChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHH
Confidence            88888888888888887766533   456778888888888888888888888776531        1333567778888


Q ss_pred             HhcCCCcccc
Q 038114          159 ACTSPSNVLY  168 (170)
Q Consensus       159 ~~~~~g~~e~  168 (170)
                      .+.+.|++++
T Consensus       245 ~~~~~g~~~~  254 (330)
T 3hym_B          245 VCRKLKKYAE  254 (330)
T ss_dssp             HHHHTTCHHH
T ss_pred             HHHHhcCHHH
Confidence            8877777664

>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=99.05  E-value=2.3e-09  Score=77.87  Aligned_cols=150  Identities=13%  Similarity=0.052  Sum_probs=105.2

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCC------------------
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKS------------------   74 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~------------------   74 (170)
                      +...+.+.|++++|...|+++ .... +.+..++..+..++...|++++|...+....+...                  
T Consensus       104 l~~~~~~~g~~~~A~~~~~~a-l~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (368)
T 1fch_A          104 LGTTQAENEQELLAISALRRC-LELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGL  181 (368)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC-----------
T ss_pred             HHHHHHHCcCHHHHHHHHHHH-HhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcc
Confidence            566666667777777777666 4332 23455666666666666666666666665544211                  


Q ss_pred             -----------------------------CC---CHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHH
Q 038114           75 -----------------------------QP---DVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAII  122 (170)
Q Consensus        75 -----------------------------~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li  122 (170)
                                                   .|   +..++..+...|.+.|++++|...|++......   .+...|..+.
T Consensus       182 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~---~~~~~~~~l~  258 (368)
T 1fch_A          182 GPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRP---NDYLLWNKLG  258 (368)
T ss_dssp             ----CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHH
T ss_pred             cHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc---CCHHHHHHHH
Confidence                                         12   477888888999999999999999988776432   4567888888


Q ss_pred             HHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114          123 AGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       123 ~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      ..+...|++++|...|++..+.. ..+...+..+...|.+.|++++
T Consensus       259 ~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~  303 (368)
T 1fch_A          259 ATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHRE  303 (368)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHH
Confidence            99999999999999999887653 2356678888888888777664

>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=99.04  E-value=1.9e-08  Score=65.63  Aligned_cols=132  Identities=8%  Similarity=-0.072  Sum_probs=111.1

Q ss_pred             chhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038114            7 TQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYIL   85 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li   85 (170)
                      +...+. +...+...|++++|...+++. .... +.+...+..+...+...|++++|...+....+.. +.+...+..+.
T Consensus        41 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~-~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a  117 (186)
T 3as5_A           41 DVDVALHLGIAYVKTGAVDRGTELLERS-LADA-PDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLG  117 (186)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHHH-HhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHH
Confidence            344455 788899999999999999998 5442 3466788888899999999999999999998764 44688999999


Q ss_pred             HHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           86 NMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        86 ~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      ..+.+.|++++|.+.|++......   .+...+..+...+...|++++|...+++..+.
T Consensus       118 ~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A          118 VALDNLGRFDEAIDSFKIALGLRP---NEGKVHRAIAFSYEQMGRHEEALPHFKKANEL  173 (186)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCcHHHHHHHHHHHHhcCc---cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            999999999999999999876533   45678999999999999999999999988754

>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=99.02  E-value=6e-09  Score=74.33  Aligned_cols=156  Identities=9%  Similarity=-0.077  Sum_probs=95.8

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNM   87 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~   87 (170)
                      ..|. +...+...|++++|...|++. ..... .+...+..+-..+...|++++|...+.+..+.. +.+...+..+...
T Consensus       126 ~~~~~l~~~~~~~~~~~~A~~~~~~a-~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~  202 (330)
T 3hym_B          126 PAWIAYGHSFAVESEHDQAMAAYFTA-AQLMK-GCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVV  202 (330)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHH-HHHTT-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHH-HHhcc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            3444 667777777777777777776 43321 234455556666777777777777777776653 3346677777777


Q ss_pred             HHcCCCHHHHHHHHhhcccCC----C--CCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhc
Q 038114           88 YGKCGSLEDARVVSDEMPQRN----V--IESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACT  161 (170)
Q Consensus        88 ~~~~~~~~~a~~~~~~m~~~~----~--~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~  161 (170)
                      |.+.|++++|...|++.....    -  ....+..+|..+...+...|++++|...+++..+.. ..+...+..+-..+.
T Consensus       203 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~  281 (330)
T 3hym_B          203 AFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHS  281 (330)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHH
Confidence            777777777777776654321    0  001224566677777777777777777777666543 124455556666666


Q ss_pred             CCCcccc
Q 038114          162 SPSNVLY  168 (170)
Q Consensus       162 ~~g~~e~  168 (170)
                      +.|+.++
T Consensus       282 ~~g~~~~  288 (330)
T 3hym_B          282 LMGNFEN  288 (330)
T ss_dssp             HHTCHHH
T ss_pred             HhccHHH
Confidence            5555443

>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=98.99  E-value=1.2e-08  Score=62.99  Aligned_cols=120  Identities=10%  Similarity=0.021  Sum_probs=100.4

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHH
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAG  124 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~  124 (170)
                      .+..+...+...|++++|..++.++.+.. +.+...+..+...+...|++++|.+.|+++...+.   .+...+..+...
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~   78 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP---RSAEAWYNLGNA   78 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCC---CchHHHHHHHHH
Confidence            46677788889999999999999998764 34678899999999999999999999999876543   456788889999


Q ss_pred             HhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccccC
Q 038114          125 VASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       125 ~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      +...|++++|..+++++.+.. ..+..++..+...+.+.|+.+++
T Consensus        79 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  122 (136)
T 2fo7_A           79 YYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEA  122 (136)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHH
Confidence            999999999999999988764 33567788889999998887653

>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=98.98  E-value=1.6e-08  Score=80.50  Aligned_cols=155  Identities=11%  Similarity=-0.069  Sum_probs=129.6

Q ss_pred             chhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038114            7 TQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYIL   85 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li   85 (170)
                      +...|+ |-..+.+.|++++|+..|++. .+.. +-+...+..+-.++.+.|++++|...|++..+.. +-+...|..+-
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kA-l~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg   84 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKA-LEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            345566 899999999999999999998 5432 1246688899999999999999999999998864 33588999999


Q ss_pred             HHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCC-CHhhHHHHHHHhcCCC
Q 038114           86 NMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIP-DGLTVRSLLCACTSPS  164 (170)
Q Consensus        86 ~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p-~~~t~~~ll~~~~~~g  164 (170)
                      .+|.+.|++++|.+.|++..+.+.   -+...|+.+-..|...|++++|+..|++..+.  .| +...+..+..++...|
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~P---~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g  159 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQINP---AFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVC  159 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcc
Confidence            999999999999999998876533   35678999999999999999999999988765  34 4667888999999999


Q ss_pred             ccccC
Q 038114          165 NVLYL  169 (170)
Q Consensus       165 ~~e~~  169 (170)
                      +++++
T Consensus       160 ~~~~A  164 (723)
T 4gyw_A          160 DWTDY  164 (723)
T ss_dssp             CCTTH
T ss_pred             cHHHH
Confidence            88765

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.97  E-value=7.1e-09  Score=78.34  Aligned_cols=152  Identities=9%  Similarity=-0.064  Sum_probs=125.3

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNM   87 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~   87 (170)
                      ..|. +...+...|++++|...|+++ ....  |+...+..+..++...|++++|...+....+.. +.+...+..+...
T Consensus       238 ~~~~~~~~~~~~~~~~~~A~~~~~~~-l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  313 (514)
T 2gw1_A          238 ISLEHTGIFKFLKNDPLGAHEDIKKA-IELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQM  313 (514)
T ss_dssp             HHHHHHHHHHHHSSCHHHHHHHHHHH-HHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHH-HhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHH
Confidence            3444 688899999999999999998 5544  337788999999999999999999999998764 3457789999999


Q ss_pred             HHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccc
Q 038114           88 YGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus        88 ~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      |.+.|++++|...|++......   .+...+..+...+...|++++|..++++..+.. ..+..++..+...+.+.|+++
T Consensus       314 ~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  389 (514)
T 2gw1_A          314 NFILQNYDQAGKDFDKAKELDP---ENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFD  389 (514)
T ss_dssp             HHHTTCTTHHHHHHHHHHHTCS---SCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhCh---hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHH
Confidence            9999999999999999876544   355788899999999999999999999987653 224567888888888888776


Q ss_pred             c
Q 038114          168 Y  168 (170)
Q Consensus       168 ~  168 (170)
                      +
T Consensus       390 ~  390 (514)
T 2gw1_A          390 K  390 (514)
T ss_dssp             H
T ss_pred             H
Confidence            5

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.97  E-value=6.4e-09  Score=72.44  Aligned_cols=121  Identities=11%  Similarity=-0.055  Sum_probs=58.1

Q ss_pred             cccCCHHHHHHHHHHHHhhCCCC---cchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCH
Q 038114           18 PIQNLYNEALVAFDFLQNNTNFR---IRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSL   94 (170)
Q Consensus        18 ~~~~~~~~a~~~~~~m~~~~~~~---p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~   94 (170)
                      ...|++++|+..|+++ ......   .+..++..+..++...|++++|...|.+..+.. +.+...|..+...|.+.|++
T Consensus        16 ~~~~~~~~A~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           16 QPTLQQEVILARMEQI-LASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCHHHHHHHHHHHHH-HTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCH
T ss_pred             CccchHHHHHHHHHHH-HhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCH
Confidence            3445555555555555 332110   123344455555555555555555555554432 22344555555555555555


Q ss_pred             HHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114           95 EDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus        95 ~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      ++|.+.|++......   .+...|..+...+...|++++|...|++..+
T Consensus        94 ~~A~~~~~~al~~~~---~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  139 (275)
T 1xnf_A           94 DAAYEAFDSVLELDP---TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQ  139 (275)
T ss_dssp             HHHHHHHHHHHHHCT---TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCc---cccHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            555555555443321   2234455555555555555555555555543

>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=98.95  E-value=1.4e-08  Score=72.31  Aligned_cols=112  Identities=13%  Similarity=0.111  Sum_probs=84.1

Q ss_pred             hhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChH
Q 038114           53 CSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNAN  132 (170)
Q Consensus        53 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~  132 (170)
                      +...|++++|...+.+..+.. +.+...+..+...|.+.|++++|.+.|++..+...   .+..+|..+...+...|+++
T Consensus       148 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~  223 (327)
T 3cv0_A          148 FAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRP---DDAQLWNKLGATLANGNRPQ  223 (327)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC---CcHHHHHHHHHHHHHcCCHH
Confidence            444455555555555555443 33578888899999999999999999998876533   45678889999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccccC
Q 038114          133 EAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       133 ~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      +|...|++..+.. ..+..++..+...+.+.|+++++
T Consensus       224 ~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A  259 (327)
T 3cv0_A          224 EALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLA  259 (327)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHH
Confidence            9999999887653 23567788888888888877653

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.95  E-value=6.9e-09  Score=73.40  Aligned_cols=160  Identities=11%  Similarity=0.043  Sum_probs=123.3

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhC-------CCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhc------C
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNT-------NFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSS------K   73 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~-------~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~   73 (170)
                      ...+. +...+...|++++|..+|+++ ...       ........+..+-..+...|++++|...+.+..+.      +
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a-~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQA-LEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH-HHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            34455 788999999999999999998 542       23345567888889999999999999999988764      2


Q ss_pred             CCC-CHHHHHHHHHHHHcCCCHHHHHHHHhhcccC------CCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC--
Q 038114           74 SQP-DVVLQNYILNMYGKCGSLEDARVVSDEMPQR------NVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR--  144 (170)
Q Consensus        74 ~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~--  144 (170)
                      -.| ....+..+...|...|++++|.+.|++..+.      +.. ......+..+...+...|++++|..++++....  
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~  184 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDH-PDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQ  184 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCC-hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            223 3678899999999999999999999987653      220 234566888889999999999999999998765  


Q ss_pred             ----CCCC-CHhhHHHHHHHhcCCCccccC
Q 038114          145 ----ELIP-DGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       145 ----~~~p-~~~t~~~ll~~~~~~g~~e~~  169 (170)
                          +-.| ...++..+...+...|+++++
T Consensus       185 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  214 (311)
T 3nf1_A          185 TKLGPDDPNVAKTKNNLASCYLKQGKFKQA  214 (311)
T ss_dssp             HTSCTTCHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHhCCCCHHHHHHHHHHHHHHHHcCCHHHH
Confidence                2233 344677788888888877653

>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=98.95  E-value=1.5e-07  Score=63.20  Aligned_cols=144  Identities=10%  Similarity=-0.080  Sum_probs=115.0

Q ss_pred             hHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc
Q 038114           11 FTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK   90 (170)
Q Consensus        11 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   90 (170)
                      |++-..+...|++++|...|++.     +.|+...+..+-.++...|++++|...|.+..+.. +.+...|..+-..|.+
T Consensus        10 ~~~g~~~~~~~~~~~A~~~~~~a-----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A           10 WNEGVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHH-----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHH
Confidence            44778888999999999999988     36688899999999999999999999999998764 4468899999999999


Q ss_pred             CCCHHHHHHHHhhcccCCCC------------CCC-ChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHH
Q 038114           91 CGSLEDARVVSDEMPQRNVI------------ESP-DLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLL  157 (170)
Q Consensus        91 ~~~~~~a~~~~~~m~~~~~~------------~~p-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll  157 (170)
                      .|++++|.+.|+...+....            ..| +...+..+...+...|++++|...|++..+..-......+...+
T Consensus        84 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~a~  163 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKAM  163 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcccccchHHHHH
Confidence            99999999999988764320            011 23678888899999999999999999988665333434444444


Q ss_pred             HHh
Q 038114          158 CAC  160 (170)
Q Consensus       158 ~~~  160 (170)
                      ..+
T Consensus       164 ~~~  166 (213)
T 1hh8_A          164 ECV  166 (213)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            444

>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=98.92  E-value=3.8e-09  Score=73.59  Aligned_cols=135  Identities=13%  Similarity=0.016  Sum_probs=106.5

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhC------CC-CcchhhHHHHHHHhhcccchHHHHHHHHHHHhc------C
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNT------NF-RIRPSTYACLISTCSSLRSLQLGRKVHDHILSS------K   73 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~------~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~   73 (170)
                      ...+. +-..|...|++++|...|++. ...      +- +....++..+-..+...|++++|...+.+..+.      .
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~  121 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDA-LAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGK  121 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHH-HHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCC
Confidence            34455 788899999999999999987 432      22 234558889999999999999999999988764      1


Q ss_pred             C-CCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccC------CCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           74 S-QPDVVLQNYILNMYGKCGSLEDARVVSDEMPQR------NVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        74 ~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      - +.....+..+-..|...|++++|.+.|++....      +- ......++..+...+...|++++|..++++..+.
T Consensus       122 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~  198 (283)
T 3edt_B          122 FHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPD-DPNVAKTKNNLASCYLKQGKYQDAETLYKEILTR  198 (283)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            1 233678899999999999999999999987654      11 0223567888899999999999999999988753

>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=98.90  E-value=3.7e-08  Score=74.95  Aligned_cols=148  Identities=12%  Similarity=-0.045  Sum_probs=122.9

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +-..+...|++++|...|++. ...  .|+...+..+-..+...|++++|...+....+.. +.+..+|..+...|...|
T Consensus       249 ~g~~~~~~~~~~~A~~~~~~~-~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  324 (537)
T 3fp2_A          249 TGIFHFLKNNLLDAQVLLQES-INL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQ  324 (537)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhcccHHHHHHHHHHH-Hhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcC
Confidence            567788899999999999998 554  3557788889999999999999999999998764 346888999999999999


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      ++++|...|++......   .+...|..+...+...|++++|...+++..+.. ..+...+..+...+...|++++
T Consensus       325 ~~~~A~~~~~~a~~~~~---~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~  396 (537)
T 3fp2_A          325 DYKNAKEDFQKAQSLNP---ENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDT  396 (537)
T ss_dssp             CHHHHHHHHHHHHHHCT---TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHH
T ss_pred             CHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHH
Confidence            99999999998876543   345788889999999999999999999988764 3345678888888888887765

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.89  E-value=2.9e-08  Score=75.03  Aligned_cols=156  Identities=10%  Similarity=-0.029  Sum_probs=110.1

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      ...|. +...+...|++++|...|++. ..... .+...+..+...+...|++++|...+....+.. +.+...+..+..
T Consensus       304 ~~~~~~l~~~~~~~~~~~~A~~~~~~~-~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~  380 (514)
T 2gw1_A          304 SSVYYHRGQMNFILQNYDQAGKDFDKA-KELDP-ENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAE  380 (514)
T ss_dssp             THHHHHHHHHHHHTTCTTHHHHHHHHH-HHTCS-SCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHH-HHhCh-hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHH
Confidence            33444 677788888888888888887 54332 245677777888888888888888888887653 334667788888


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCCC----hhhHHHHHHHHhC---CCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESPD----LASWNAIIAGVAS---PSNANEAMSLFSEMRDRELIPDGLTVRSLLCA  159 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p~----~~~~~~li~~~~~---~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~  159 (170)
                      .|.+.|++++|.+.|+.+...... .++    ...|..+...+..   .|++++|...|++..... ..+..++..+...
T Consensus       381 ~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  458 (514)
T 2gw1_A          381 ILTDKNDFDKALKQYDLAIELENK-LDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQM  458 (514)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHT-SSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhhhc-cchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            888888888888888876543220 122    3377788888888   888888888888877653 2345667777777


Q ss_pred             hcCCCcccc
Q 038114          160 CTSPSNVLY  168 (170)
Q Consensus       160 ~~~~g~~e~  168 (170)
                      +.+.|+.++
T Consensus       459 ~~~~g~~~~  467 (514)
T 2gw1_A          459 KLQQEDIDE  467 (514)
T ss_dssp             HHHTTCHHH
T ss_pred             HHHhcCHHH
Confidence            777777654

>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=98.89  E-value=8.4e-08  Score=65.38  Aligned_cols=147  Identities=8%  Similarity=-0.106  Sum_probs=116.9

Q ss_pred             hHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc
Q 038114           11 FTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK   90 (170)
Q Consensus        11 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   90 (170)
                      ++.-..+...|++++|...|++. ......++...+..+-.++...|++++|...|....+.. +-+...|..+-..|.+
T Consensus        11 ~~~g~~~~~~~~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~   88 (228)
T 4i17_A           11 KNEGNDALNAKNYAVAFEKYSEY-LKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSAAYRD   88 (228)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHH-HHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHH-HhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHHHHHH
Confidence            33788899999999999999998 665544677777778888999999999999999998764 3357889999999999


Q ss_pred             CCCHHHHHHHHhhcccCCCCCCCCh-------hhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCC---HhhHHHHHHHh
Q 038114           91 CGSLEDARVVSDEMPQRNVIESPDL-------ASWNAIIAGVASPSNANEAMSLFSEMRDRELIPD---GLTVRSLLCAC  160 (170)
Q Consensus        91 ~~~~~~a~~~~~~m~~~~~~~~p~~-------~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~---~~t~~~ll~~~  160 (170)
                      .|++++|.+.|++..+...   .+.       ..|..+-..+...|++++|...|++..+.  .|+   ...+..+-.+|
T Consensus        89 ~~~~~~A~~~~~~al~~~p---~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~~~  163 (228)
T 4i17_A           89 MKNNQEYIATLTEGIKAVP---GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGVLF  163 (228)
T ss_dssp             TTCHHHHHHHHHHHHHHST---TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHCC---CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHHHH
Confidence            9999999999998876533   223       45777778889999999999999988754  565   34555555555


Q ss_pred             cCCC
Q 038114          161 TSPS  164 (170)
Q Consensus       161 ~~~g  164 (170)
                      ...|
T Consensus       164 ~~~~  167 (228)
T 4i17_A          164 YNNG  167 (228)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.88  E-value=6e-08  Score=69.72  Aligned_cols=150  Identities=7%  Similarity=-0.119  Sum_probs=79.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCC--CCHHHHHHH------
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQ--PDVVLQNYI------   84 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~~~~~l------   84 (170)
                      +...+...|++++|...|+++ .... +-+...+..+-.++...|++++|...|....+....  .+...+..+      
T Consensus        43 ~a~~~~~~~~~~~A~~~~~~~-~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  120 (359)
T 3ieg_A           43 RATVFLAMGKSKAALPDLTKV-IALK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEM  120 (359)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHH-HHhC-CCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHH
Confidence            455555556666666666555 3221 123345555555555556666666666655543210  123333333      


Q ss_pred             ------HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 038114           85 ------LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLC  158 (170)
Q Consensus        85 ------i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~  158 (170)
                            ...+...|++++|.+.|++..+...   .+...+..+...+...|++++|...+++..+.. ..+..++..+..
T Consensus       121 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~  196 (359)
T 3ieg_A          121 QRLRSQALDAFDGADYTAAITFLDKILEVCV---WDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKIST  196 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhCC---CchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence                  3455555666666666665554322   344556666666666666666666666665542 234455666666


Q ss_pred             HhcCCCcccc
Q 038114          159 ACTSPSNVLY  168 (170)
Q Consensus       159 ~~~~~g~~e~  168 (170)
                      .+...|++++
T Consensus       197 ~~~~~~~~~~  206 (359)
T 3ieg_A          197 LYYQLGDHEL  206 (359)
T ss_dssp             HHHHHTCHHH
T ss_pred             HHHHcCCHHH
Confidence            6665555443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.88  E-value=4.9e-08  Score=70.18  Aligned_cols=150  Identities=9%  Similarity=-0.023  Sum_probs=95.3

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +...+.+.|++++|...|+++ .... +.+...+..+-.++...|++++|...++...+.. +.+...+..+...|.+.|
T Consensus         9 ~~~~~~~~g~~~~A~~~~~~~-l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~   85 (359)
T 3ieg_A            9 LGKKLLAAGQLADALSQFHAA-VDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQG   85 (359)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcC
Confidence            566677777777777777776 4322 2345566677777777777777777777776653 224567777777777777


Q ss_pred             CHHHHHHHHhhcccCCCCCC--CChhhHHHH------------HHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 038114           93 SLEDARVVSDEMPQRNVIES--PDLASWNAI------------IAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLC  158 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~--p~~~~~~~l------------i~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~  158 (170)
                      ++++|...|++......  .  .+...+..+            ...+...|++++|..++++..+.. ..+...+..+..
T Consensus        86 ~~~~A~~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~  162 (359)
T 3ieg_A           86 KLDEAEDDFKKVLKSNP--SEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAE  162 (359)
T ss_dssp             CHHHHHHHHHHHHTSCC--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhcCC--cccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHH
Confidence            77777777776654311  0  133333333            466777777777777777776543 234556666666


Q ss_pred             HhcCCCcccc
Q 038114          159 ACTSPSNVLY  168 (170)
Q Consensus       159 ~~~~~g~~e~  168 (170)
                      .+...|++++
T Consensus       163 ~~~~~~~~~~  172 (359)
T 3ieg_A          163 CFIKEGEPRK  172 (359)
T ss_dssp             HHHHTTCHHH
T ss_pred             HHHHCCCHHH
Confidence            6666666553

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.88  E-value=1.4e-07  Score=67.54  Aligned_cols=154  Identities=12%  Similarity=0.049  Sum_probs=116.0

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcc-hh-hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIR-PS-TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      ...|. +...+.+.|++++|..+|++. ..  ..|+ .. .|..+...+.+.|++++|..+|+...+.. +.+...|...
T Consensus        99 ~~~~~~~~~~~~~~~~~~~A~~~~~~a-l~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~  174 (308)
T 2ond_A           99 MLLYFAYADYEESRMKYEKVHSIYNRL-LA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTA  174 (308)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH-HT--SSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHH-Hh--ccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHH
Confidence            33566 788888999999999999998 55  3454 33 78888888899999999999999998764 2344555444


Q ss_pred             HHHHH-cCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC-CCCC--HhhHHHHHHHh
Q 038114           85 LNMYG-KCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE-LIPD--GLTVRSLLCAC  160 (170)
Q Consensus        85 i~~~~-~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~-~~p~--~~t~~~ll~~~  160 (170)
                      ..... ..|++++|.++|+...+...   -+...|..++..+.+.|+.++|..+|++..... +.|+  ...|..++...
T Consensus       175 a~~~~~~~~~~~~A~~~~~~al~~~p---~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~  251 (308)
T 2ond_A          175 ALMEYYCSKDKSVAFKIFELGLKKYG---DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFE  251 (308)
T ss_dssp             HHHHHHTSCCHHHHHHHHHHHHHHHT---TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC---CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHH
Confidence            33322 36999999999998776432   356788888999999999999999999998874 5653  45677777777


Q ss_pred             cCCCcccc
Q 038114          161 TSPSNVLY  168 (170)
Q Consensus       161 ~~~g~~e~  168 (170)
                      .+.|+.+.
T Consensus       252 ~~~g~~~~  259 (308)
T 2ond_A          252 SNIGDLAS  259 (308)
T ss_dssp             HHHSCHHH
T ss_pred             HHcCCHHH
Confidence            76776554

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.87  E-value=1e-08  Score=72.55  Aligned_cols=133  Identities=12%  Similarity=0.033  Sum_probs=105.2

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhC------C-CCcchhhHHHHHHHhhcccchHHHHHHHHHHHhc------CC
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNT------N-FRIRPSTYACLISTCSSLRSLQLGRKVHDHILSS------KS   74 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~------~-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~   74 (170)
                      ..+. +...|...|++++|...+++. ...      + ......++..+-..+...|++++|...+.+..+.      +-
T Consensus        70 ~~~~~la~~~~~~g~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~  148 (311)
T 3nf1_A           70 TMLNILALVYRDQNKYKDAANLLNDA-LAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKD  148 (311)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHH-HHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHH-HHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCC
Confidence            3444 788899999999999999988 432      2 2334567888999999999999999999998764      22


Q ss_pred             CC-CHHHHHHHHHHHHcCCCHHHHHHHHhhcccC------CCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114           75 QP-DVVLQNYILNMYGKCGSLEDARVVSDEMPQR------NVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus        75 ~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      .| ....+..+...|...|++++|.+.|++....      +.. .....++..+...+...|++++|...+++..+
T Consensus       149 ~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          149 HPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDD-PNVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTC-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCC-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            23 3567889999999999999999999987653      210 22345788888999999999999999998875

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.85  E-value=5.4e-08  Score=67.71  Aligned_cols=130  Identities=9%  Similarity=-0.105  Sum_probs=100.5

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      ...|. +...+...|++++|...|++. .... +.+...+..+-..+...|++++|...|....+.. +.+...+..+..
T Consensus        43 ~~~~~~l~~~~~~~~~~~~A~~~~~~a-l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~  119 (275)
T 1xnf_A           43 AQLLYERGVLYDSLGLRALARNDFSQA-LAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGI  119 (275)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHH-HHcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHH
Confidence            34455 788899999999999999998 5443 2367788999999999999999999999998864 335788999999


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      .|.+.|++++|.+.|+++...    .|+...+...+..+...|++++|...+.+....
T Consensus       120 ~~~~~g~~~~A~~~~~~a~~~----~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A          120 ALYYGGRDKLAQDDLLAFYQD----DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHh----CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            999999999999999988764    333334444444455567888888888665543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.85  E-value=3.5e-07  Score=63.54  Aligned_cols=149  Identities=8%  Similarity=-0.085  Sum_probs=104.6

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcc--hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIR--PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      .|. +...+.+.|++++|+..|++. ...+-.|+  ...|..+-..+...|++++|...|....+.. +.+...|..+-.
T Consensus        39 ~~~~l~~~~~~~~~~~~A~~~~~~a-~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~  116 (272)
T 3u4t_A           39 IYNRRAVCYYELAKYDLAQKDIETY-FSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGS  116 (272)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHHH-HTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHH-HhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHH
Confidence            444 677888889999999988888 55332121  2237778888888889999999888888754 335678888888


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHH-HHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCc
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAII-AGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSN  165 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li-~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~  165 (170)
                      .|.+.|++++|.+.|++..+...   .+...|..+. ..+. .+++++|...|++..+.. ..+...+..+-..+...|+
T Consensus       117 ~~~~~~~~~~A~~~~~~al~~~~---~~~~~~~~l~~~~~~-~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~  191 (272)
T 3u4t_A          117 YFYNKGNFPLAIQYMEKQIRPTT---TDPKVFYELGQAYYY-NKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDP  191 (272)
T ss_dssp             HHHHTTCHHHHHHHHGGGCCSSC---CCHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHST
T ss_pred             HHHHccCHHHHHHHHHHHhhcCC---CcHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCc
Confidence            88899999999999988876633   4455666666 4444 458999999888887643 1224555555555555554

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.81  E-value=4.1e-07  Score=59.77  Aligned_cols=136  Identities=10%  Similarity=0.014  Sum_probs=110.9

Q ss_pred             chhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038114            7 TQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYIL   85 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li   85 (170)
                      +...|. +...+.+.|++++|...+... ..... -+...+..+-..+...++++.+...+.+..+.. +-+...+..+-
T Consensus        38 ~~~~~~~la~~~~~~~~~~~a~~~~~~~-~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg  114 (184)
T 3vtx_A           38 NVETLLKLGKTYMDIGLPNDAIESLKKF-VVLDT-TSAEAYYILGSANFMIDEKQAAIDALQRAIALN-TVYADAYYKLG  114 (184)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHH-HhcCc-hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHH
Confidence            344555 788999999999999999998 54332 345567777778888999999999999988764 44688899999


Q ss_pred             HHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCH
Q 038114           86 NMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDG  150 (170)
Q Consensus        86 ~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~  150 (170)
                      ..|.+.|++++|.+.|++..+...   -+...|..+-..|.+.|++++|...|++..+.  .|+.
T Consensus       115 ~~~~~~g~~~~A~~~~~~~l~~~p---~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~  174 (184)
T 3vtx_A          115 LVYDSMGEHDKAIEAYEKTISIKP---GFIRAYQSIGLAYEGKGLRDEAVKYFKKALEK--EEKK  174 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--THHH
T ss_pred             HHHHHhCCchhHHHHHHHHHHhcc---hhhhHHHHHHHHHHHCCCHHHHHHHHHHHHhC--CccC
Confidence            999999999999999998876543   45678999999999999999999999987754  4544

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.80  E-value=4.1e-08  Score=74.59  Aligned_cols=150  Identities=10%  Similarity=-0.121  Sum_probs=88.5

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcc---------cchHHHHHHHHHHHhcCCCCCHH
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSL---------RSLQLGRKVHDHILSSKSQPDVV   79 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~---------~~~~~a~~~~~~m~~~~~~~~~~   79 (170)
                      .|. +-..|.+.|++++|...|++. ....  |+...+..+-.++...         |++++|...|++..+.. +-+..
T Consensus       139 a~~~lg~~~~~~g~~~~A~~~~~~a-l~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~  214 (474)
T 4abn_A          139 AWNQLGEVYWKKGDVTSAHTCFSGA-LTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGR  214 (474)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHH-HTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH-HhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHH
Confidence            344 566666677777777777666 4432  5556666666666666         77777777777766643 22466


Q ss_pred             HHHHHHHHHHcC--------CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHh
Q 038114           80 LQNYILNMYGKC--------GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGL  151 (170)
Q Consensus        80 ~~~~li~~~~~~--------~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~  151 (170)
                      .|..+-.+|...        |++++|.+.|+...+......-+...|..+-..|...|++++|...|++..+.. .-+..
T Consensus       215 ~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~  293 (474)
T 4abn_A          215 SWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPE  293 (474)
T ss_dssp             HHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHH
Confidence            666666666666        667777777776654311000255666677777777777777777777665432 11233


Q ss_pred             hHHHHHHHhcCCC
Q 038114          152 TVRSLLCACTSPS  164 (170)
Q Consensus       152 t~~~ll~~~~~~g  164 (170)
                      .+..+-.++...|
T Consensus       294 a~~~l~~~~~~lg  306 (474)
T 4abn_A          294 PQQREQQLLEFLS  306 (474)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            3444444444333

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.78  E-value=1.4e-07  Score=65.53  Aligned_cols=140  Identities=17%  Similarity=0.114  Sum_probs=111.4

Q ss_pred             hHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCC--CHHHHHHHHHHH
Q 038114           11 FTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQP--DVVLQNYILNMY   88 (170)
Q Consensus        11 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~   88 (170)
                      +..-..+...|++++|+..|++. ..... -+...+..+..++...|++++|...+....+.+-.+  ....|..+-..|
T Consensus         7 ~~~a~~~~~~~~~~~A~~~~~~~-l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            7 FRYADFLFKNNNYAEAIEVFNKL-EAKKY-NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKIL   84 (272)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHH-HHTTC-CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHH-HHhCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHH
Confidence            44677888999999999999998 55432 345588888889999999999999999998843222  244689999999


Q ss_pred             HcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCC-CHhhHHHHH
Q 038114           89 GKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIP-DGLTVRSLL  157 (170)
Q Consensus        89 ~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p-~~~t~~~ll  157 (170)
                      .+.|++++|.+.|+...+...   .+...|..+...+...|++++|...|++..+.  .| +...+..+-
T Consensus        85 ~~~~~~~~A~~~~~~a~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~  149 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVDRDT---TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELG  149 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHHST---TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHH
T ss_pred             HHcccHHHHHHHHHHHHhcCc---ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHH
Confidence            999999999999998876543   34578999999999999999999999987765  34 344444444

>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=98.73  E-value=8.5e-07  Score=61.96  Aligned_cols=121  Identities=9%  Similarity=-0.043  Sum_probs=58.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhc----ccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSS----LRSLQLGRKVHDHILSSKSQPDVVLQNYILNMY   88 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~   88 (170)
                      +-..+...|++++|...|++. ...   -+...+..+-..+..    .+++++|...|.+..+.+   ++..+..+-..|
T Consensus        12 lg~~~~~~~~~~~A~~~~~~a-~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~   84 (273)
T 1ouv_A           12 LGAKSYKEKDFTQAKKYFEKA-CDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLY   84 (273)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHH-HHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHH
Confidence            444455555555555555555 331   122334444444444    555555555555555443   444555555555


Q ss_pred             Hc----CCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhC----CCChHHHHHHHHHHHhCC
Q 038114           89 GK----CGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVAS----PSNANEAMSLFSEMRDRE  145 (170)
Q Consensus        89 ~~----~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~~  145 (170)
                      ..    .+++++|.+.|++..+.+     +...+..+-..|..    .+++++|...|++..+.+
T Consensus        85 ~~g~~~~~~~~~A~~~~~~a~~~~-----~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~  144 (273)
T 1ouv_A           85 YSGQGVSQNTNKALQYYSKACDLK-----YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN  144 (273)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTT-----CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT
T ss_pred             hCCCCcccCHHHHHHHHHHHHHcC-----CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC
Confidence            55    555555555555444332     22344444444444    455555555555554443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.73  E-value=8.5e-08  Score=72.84  Aligned_cols=154  Identities=10%  Similarity=-0.035  Sum_probs=126.8

Q ss_pred             hHhH-HHhhhcccCCH-HHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114            9 LRFT-FYNSQPIQNLY-NEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~-~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      ..|. +-..+...|++ ++|+..|++. .+.. +-+...|..+-.++...|++++|...|+...+.  .|+...+..+-.
T Consensus       103 ~~~~~lg~~~~~~g~~~~~A~~~~~~a-l~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~  178 (474)
T 4abn_A          103 QALMLKGKALNVTPDYSPEAEVLLSKA-VKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSM  178 (474)
T ss_dssp             HHHHHHHHHHTSSSSCCHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccHHHHHHHHHHH-HhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHH
Confidence            3444 68888999999 9999999998 5433 234678999999999999999999999999886  466789999999


Q ss_pred             HHHcC---------CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCC--------CChHHHHHHHHHHHhCCCC--
Q 038114           87 MYGKC---------GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASP--------SNANEAMSLFSEMRDRELI--  147 (170)
Q Consensus        87 ~~~~~---------~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~--------g~~~~a~~l~~~m~~~~~~--  147 (170)
                      .|...         |++++|.+.|++..+...   -+...|..+-..|...        |++++|...|++..+..-.  
T Consensus       179 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p---~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~  255 (474)
T 4abn_A          179 VLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDV---LDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKAS  255 (474)
T ss_dssp             HHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGG
T ss_pred             HHHHhccCChhhhhhhHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcc
Confidence            99999         999999999999876543   3567888888888888        8999999999998875311  


Q ss_pred             CCHhhHHHHHHHhcCCCccccC
Q 038114          148 PDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       148 p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      -+...|..+-.+|...|+++++
T Consensus       256 ~~~~~~~~lg~~~~~~g~~~~A  277 (474)
T 4abn_A          256 SNPDLHLNRATLHKYEESYGEA  277 (474)
T ss_dssp             GCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHH
Confidence            3777888898999888887754

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.71  E-value=4.1e-07  Score=55.30  Aligned_cols=97  Identities=10%  Similarity=0.086  Sum_probs=56.1

Q ss_pred             hhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHH
Q 038114           44 STYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIA  123 (170)
Q Consensus        44 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~  123 (170)
                      ..+..+...+...|++++|...+.+..+.. +.+...+..+...+.+.|++++|...|+++.....   .+..++..+..
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~la~   85 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP---NNAEAWYNLGN   85 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC---ccHHHHHHHHH
Confidence            345555555566666666666666665542 22455566666666666666666666666554322   34455566666


Q ss_pred             HHhCCCChHHHHHHHHHHHhC
Q 038114          124 GVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus       124 ~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      .+...|++++|...|++....
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHh
Confidence            666666666666666665543

>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=98.69  E-value=3e-06  Score=59.16  Aligned_cols=128  Identities=14%  Similarity=0.012  Sum_probs=66.9

Q ss_pred             cCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhc----ccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc----C
Q 038114           20 QNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSS----LRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK----C   91 (170)
Q Consensus        20 ~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~   91 (170)
                      .+++++|+..|++. ...+   +...+..+-..+..    .+++++|...|....+.+   +...+..+-..|.+    .
T Consensus        91 ~~~~~~A~~~~~~a-~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~  163 (273)
T 1ouv_A           91 SQNTNKALQYYSKA-CDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTP  163 (273)
T ss_dssp             CCCHHHHHHHHHHH-HHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSC
T ss_pred             ccCHHHHHHHHHHH-HHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCC
Confidence            55555555555555 4333   34444444444544    555566665555555543   34445555555555    5


Q ss_pred             CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhC----CCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcC
Q 038114           92 GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVAS----PSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTS  162 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~  162 (170)
                      +++++|...|+...+.+.     ...+..+-..|..    .+++++|...|++..+.+   +...+..+-..|.+
T Consensus       164 ~~~~~A~~~~~~a~~~~~-----~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~~~  230 (273)
T 1ouv_A          164 KDLKKALASYDKACDLKD-----SPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYN  230 (273)
T ss_dssp             CCHHHHHHHHHHHHHTTC-----HHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHCCC-----HHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHHc
Confidence            556666666655544322     2344445555555    666666666666655543   13444445555544

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.68  E-value=1.3e-06  Score=62.44  Aligned_cols=143  Identities=7%  Similarity=-0.047  Sum_probs=108.9

Q ss_pred             ccCCH-------HHHHHHHHHHHhhCCCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC-HH-HHHHHHHHH
Q 038114           19 IQNLY-------NEALVAFDFLQNNTNFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD-VV-LQNYILNMY   88 (170)
Q Consensus        19 ~~~~~-------~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~-~~~~li~~~   88 (170)
                      +.|++       ++|..+|++. ... +.| +...|..+...+.+.|++++|..+|+...+.  .|+ .. .|..+...+
T Consensus        69 ~~g~~~~~~~~~~~A~~~~~rA-l~~-~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~  144 (308)
T 2ond_A           69 EKGDMNNAKLFSDEAANIYERA-IST-LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFA  144 (308)
T ss_dssp             HTSCCHHHHHHHHHHHHHHHHH-HTT-TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHH
T ss_pred             hccchhhcccchHHHHHHHHHH-HHH-hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHH
Confidence            35776       8999999998 542 234 4558889999999999999999999999984  343 33 899999999


Q ss_pred             HcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHH-HhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccc
Q 038114           89 GKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAG-VASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus        89 ~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~-~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      .+.|++++|..+|+...+...   ++...|...... +...|+.++|..+|++..+.. .-+...|..+...+.+.|+.+
T Consensus       145 ~~~~~~~~A~~~~~~a~~~~p---~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~  220 (308)
T 2ond_A          145 RRAEGIKSGRMIFKKAREDAR---TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDN  220 (308)
T ss_dssp             HHHHCHHHHHHHHHHHHTSTT---CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHH
T ss_pred             HHhcCHHHHHHHHHHHHhcCC---CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHH
Confidence            999999999999999887543   233444433333 224699999999999887652 225677888888888888876


Q ss_pred             cC
Q 038114          168 YL  169 (170)
Q Consensus       168 ~~  169 (170)
                      ++
T Consensus       221 ~A  222 (308)
T 2ond_A          221 NT  222 (308)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>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=98.66  E-value=1.1e-07  Score=66.18  Aligned_cols=152  Identities=11%  Similarity=0.036  Sum_probs=112.2

Q ss_pred             hcccCCHHHHHHHHHHHHhh-------CCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhc------CCCC-CHHHHH
Q 038114           17 QPIQNLYNEALVAFDFLQNN-------TNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSS------KSQP-DVVLQN   82 (170)
Q Consensus        17 ~~~~~~~~~a~~~~~~m~~~-------~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~-~~~~~~   82 (170)
                      ....|+++.|+..|++. ..       ...+....++..+-..+...|++++|...+.+..+.      +-.| ...++.
T Consensus        11 ~~~~~~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~   89 (283)
T 3edt_B           11 SSGLVPRGSAVPLCKQA-LEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLN   89 (283)
T ss_dssp             --CCSCSSSHHHHHHHH-HHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHH-HHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHH
Confidence            45567777777777766 33       122334567888999999999999999999998764      2233 367899


Q ss_pred             HHHHHHHcCCCHHHHHHHHhhcccCC-----CCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC------CCCC-CH
Q 038114           83 YILNMYGKCGSLEDARVVSDEMPQRN-----VIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR------ELIP-DG  150 (170)
Q Consensus        83 ~li~~~~~~~~~~~a~~~~~~m~~~~-----~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~------~~~p-~~  150 (170)
                      .+-..|...|++++|.+.|++.....     ...+....+|..+...+...|++++|..++++..+.      +-.| ..
T Consensus        90 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  169 (283)
T 3edt_B           90 NLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVA  169 (283)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHH
Confidence            99999999999999999999876431     100234567888899999999999999999988765      2133 35


Q ss_pred             hhHHHHHHHhcCCCccccC
Q 038114          151 LTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       151 ~t~~~ll~~~~~~g~~e~~  169 (170)
                      .++..+-..+...|+++++
T Consensus       170 ~~~~~la~~~~~~g~~~~A  188 (283)
T 3edt_B          170 KTKNNLASCYLKQGKYQDA  188 (283)
T ss_dssp             HHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHH
Confidence            5677888888888877653

>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=98.65  E-value=7.4e-07  Score=67.74  Aligned_cols=131  Identities=10%  Similarity=-0.002  Sum_probs=110.5

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      ...|. +...+...|++++|...|++. .... +.+..++..+-..+...|++++|...|+...+.. +.+...|..+..
T Consensus       276 ~~~~~~l~~~~~~~~~~~~A~~~~~~~-~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~  352 (537)
T 3fp2_A          276 PNSYIFLALTLADKENSQEFFKFFQKA-VDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLAC  352 (537)
T ss_dssp             HHHHHHHHHHTCCSSCCHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHH
T ss_pred             chHHHHHHHHHHHhcCHHHHHHHHHHH-hccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34455 788999999999999999998 5443 2456789999999999999999999999998864 334678999999


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      .|.+.|++++|.+.|++......   .+...+..+...+...|++++|...|++..+.
T Consensus       353 ~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  407 (537)
T 3fp2_A          353 LLYKQGKFTESEAFFNETKLKFP---TLPEVPTFFAEILTDRGDFDTAIKQYDIAKRL  407 (537)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCT---TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC---CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            99999999999999999876533   44568899999999999999999999988654

>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=98.64  E-value=3.5e-07  Score=58.65  Aligned_cols=142  Identities=6%  Similarity=-0.055  Sum_probs=106.1

Q ss_pred             hhhcccCCHHHHHHHHHHHHhhCCCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCC
Q 038114           15 NSQPIQNLYNEALVAFDFLQNNTNFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGS   93 (170)
Q Consensus        15 ~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~   93 (170)
                      ..+...|++++|+..+... ..  ..| ++..+-.+-..|.+.|++++|.+.|++..+.. +-++..|..+-.+|.+.|+
T Consensus         5 ~~~~~~~~~e~ai~~~~~a-~~--~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGS-TP--SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHH-SC--SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcChHHHHHHHHHHh-cc--cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCc
Confidence            4566778899999999887 32  223 33456677888999999999999999998864 3468899999999999999


Q ss_pred             HHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHH-HHHHHhCCCCC-CHhhHHHHHHHhcCCCc
Q 038114           94 LEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSL-FSEMRDRELIP-DGLTVRSLLCACTSPSN  165 (170)
Q Consensus        94 ~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l-~~~m~~~~~~p-~~~t~~~ll~~~~~~g~  165 (170)
                      +++|...|+...+.+.   -+...|..+...|.+.|++++|... +++..+.  .| +...|...-..+.+.|+
T Consensus        81 ~~~A~~~~~~al~~~p---~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l--~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           81 TDKAVECYRRSVELNP---TQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL--FPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH--STTCHHHHHHHHHHHHTCCC
T ss_pred             hHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhCc
Confidence            9999999998876533   3467888888999999998876665 4655543  34 34456655555555553

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.63  E-value=1.1e-06  Score=53.76  Aligned_cols=118  Identities=8%  Similarity=0.012  Sum_probs=67.0

Q ss_pred             hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHH
Q 038114           43 PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAII  122 (170)
Q Consensus        43 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li  122 (170)
                      ...+..+-..+...|+++.|...|....+.. +.+...+..+...+...|++++|.+.++.......   .+...+..+.
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~~~   87 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDP---AYSKAYGRMG   87 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCc---cCHHHHHHHH
Confidence            3345555555666666666666666665542 22455666666666666666666666666554322   2345566666


Q ss_pred             HHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCc
Q 038114          123 AGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSN  165 (170)
Q Consensus       123 ~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~  165 (170)
                      ..+...|++++|...|++..+.. ..+...+..+..++.+.|+
T Consensus        88 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           88 LALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            66666666666666666665442 1234445555555554444

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.62  E-value=1e-06  Score=53.48  Aligned_cols=97  Identities=12%  Similarity=0.019  Sum_probs=82.1

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      ...|. +...+.+.|++++|...|+++ .... +.+..++..+...+.+.|++++|...++.+.+.. +.+..++..+..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~-~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   85 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKA-LELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGN   85 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH-HHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHH
Confidence            34455 788899999999999999998 5443 3456788889999999999999999999998764 446889999999


Q ss_pred             HHHcCCCHHHHHHHHhhcccC
Q 038114           87 MYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      .|.+.|++++|...|++..+.
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHh
Confidence            999999999999999988764

>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=98.61  E-value=5e-07  Score=66.90  Aligned_cols=147  Identities=5%  Similarity=-0.024  Sum_probs=111.5

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccc-hHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRS-LQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      ..|. +-..+.+.|++++|+..|++. .... +-+...|..+-.++...|+ +++|...|++..+.. +-+...|+.+-.
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~a-l~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~  174 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDA-IELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHH-HHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            3455 677778889999999999888 5432 1245577777888888886 999999999888764 336788888888


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcC
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTS  162 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~  162 (170)
                      ++.+.|++++|...|++..+.+.   -+...|..+-..+...|++++|+..|++..+..-. +...|..+-.++.+
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ldP---~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~  246 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQDA---KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISN  246 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCT---TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCc---cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            88899999999999998876543   35677888888888888999999998888765422 45566666666665

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.59  E-value=2.2e-06  Score=65.67  Aligned_cols=154  Identities=12%  Similarity=0.045  Sum_probs=113.4

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcc-h-hhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIR-P-STYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      ...|. +...+.+.|++++|..+|+++ ...  .|+ . ..|......+.+.|+++.|.++|....+... .+...|-..
T Consensus       321 ~~l~~~~~~~~~~~g~~~~A~~~~~~a-l~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~~~~~~~  396 (530)
T 2ooe_A          321 MLLYFAYADYEESRMKYEKVHSIYNRL-LAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTA  396 (530)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH-HHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCTHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHH-hCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccC-CchHHHHHH
Confidence            44455 688888899999999999998 653  454 2 4788888888899999999999999987632 222333222


Q ss_pred             H-HHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC-CCCC--HhhHHHHHHHh
Q 038114           85 L-NMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE-LIPD--GLTVRSLLCAC  160 (170)
Q Consensus        85 i-~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~-~~p~--~~t~~~ll~~~  160 (170)
                      . -.+...|++++|..+|+...+...   -+...|..++..+.+.|+.++|..+|+.....+ ..|+  ...|...+...
T Consensus       397 a~~~~~~~~~~~~A~~~~e~al~~~p---~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e  473 (530)
T 2ooe_A          397 ALMEYYCSKDKSVAFKIFELGLKKYG---DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFE  473 (530)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHHT---TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHcCChhHHHHHHHHHHHHCC---CCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHH
Confidence            2 223468999999999998765422   356789999999999999999999999998764 3443  34666666666


Q ss_pred             cCCCcccc
Q 038114          161 TSPSNVLY  168 (170)
Q Consensus       161 ~~~g~~e~  168 (170)
                      .+.|+.+.
T Consensus       474 ~~~G~~~~  481 (530)
T 2ooe_A          474 SNIGDLAS  481 (530)
T ss_dssp             HHSSCHHH
T ss_pred             HHcCCHHH
Confidence            66676543

>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=98.59  E-value=1e-06  Score=56.48  Aligned_cols=128  Identities=8%  Similarity=-0.097  Sum_probs=100.4

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNM   87 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~   87 (170)
                      ..|. +-..+...|++++|...|++. .... +.+...+..+-.++...|++++|...+....+.. +.+...|..+-..
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~a-l~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQA-IELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHH-HHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHH-HHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            3344 677888999999999999998 5432 2356788888889999999999999999998864 4468889999999


Q ss_pred             HHcCCCHHHHHHHHhhcccCCCCCCCChhhHHH--HHHHHhCCCChHHHHHHHHHHH
Q 038114           88 YGKCGSLEDARVVSDEMPQRNVIESPDLASWNA--IIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        88 ~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~--li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      +.+.|++++|...|++......   .+...+..  ....+...|++++|...+....
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p---~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKP---HDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHST---TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            9999999999999998876533   23334433  3344677899999999988764

>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=98.56  E-value=1.7e-06  Score=69.03  Aligned_cols=130  Identities=7%  Similarity=0.016  Sum_probs=109.2

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      ...|. +-..|.+.|++++|+..|++. .+.. +-+...|..+-.++.+.|++++|.+.|++..+.. +-+...|+.+-.
T Consensus        43 ~~a~~nLg~~l~~~g~~~eA~~~~~~A-l~l~-P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~  119 (723)
T 4gyw_A           43 AAAHSNLASVLQQQGKLQEALMHYKEA-IRIS-PTFADAYSNMGNTLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLAS  119 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            44555 889999999999999999998 5432 1246689999999999999999999999998864 335889999999


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      .|.+.|++++|.+.|++..+...   -+...|..+...+...|++++|.+.+++..+
T Consensus       120 ~~~~~g~~~eAi~~~~~Al~l~P---~~~~a~~~L~~~l~~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          120 IHKDSGNIPEAIASYRTALKLKP---DFPDAYCNLAHCLQIVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCS---CCHHHHHHHHHHHHHTTCCTTHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC---CChHHHhhhhhHHHhcccHHHHHHHHHHHHH
Confidence            99999999999999998876533   3467899999999999999999998887753

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.55  E-value=1.8e-06  Score=53.10  Aligned_cols=97  Identities=13%  Similarity=0.061  Sum_probs=54.3

Q ss_pred             hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHH
Q 038114           43 PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAII  122 (170)
Q Consensus        43 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li  122 (170)
                      ...+..+-..+...|++++|...|.+..+.. +.+...+..+...|...|++++|.+.|++......   .+...+..+.
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~---~~~~~~~~la   91 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEP---TFIKGYTRKA   91 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCT---TCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC---CchHHHHHHH
Confidence            3345555555556666666666666655442 22455556666666666666666666665554322   2344555555


Q ss_pred             HHHhCCCChHHHHHHHHHHHh
Q 038114          123 AGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus       123 ~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      ..+...|++++|...|++..+
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            666666666666666665544

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.54  E-value=5.5e-07  Score=64.59  Aligned_cols=136  Identities=12%  Similarity=0.076  Sum_probs=90.6

Q ss_pred             HHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHcCCCHHHHHHHHhhc
Q 038114           26 ALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKS-QPDVVLQNYILNMYGKCGSLEDARVVSDEM  104 (170)
Q Consensus        26 a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  104 (170)
                      ++..|++. ...+ .++..++..+-.++...|++++|++++.+....+- .-+...+..++..+.+.|+++.|.+.+++|
T Consensus        85 a~~~l~~l-~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 NIEELENL-LKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             CCHHHHHT-TTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHH-HhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            55666665 4443 45555555777777888888888888888766653 235777888888888888888888888888


Q ss_pred             ccCCCCCCC-----ChhhHHHHHHH----HhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccccC
Q 038114          105 PQRNVIESP-----DLASWNAIIAG----VASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       105 ~~~~~~~~p-----~~~~~~~li~~----~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      .+.    .|     +..+...+..+    ....+....|+.+|+++.+.  .|+..+-..++.++.+.|+++++
T Consensus       163 ~~~----~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eA  230 (310)
T 3mv2_B          163 TNA----IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEA  230 (310)
T ss_dssp             HHH----SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHH
T ss_pred             Hhc----CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHH
Confidence            654    45     23444444444    22234788888888887644  35544444555567777777654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.53  E-value=3.2e-06  Score=60.66  Aligned_cols=146  Identities=8%  Similarity=-0.035  Sum_probs=105.4

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCC-CcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCC-----CHHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNF-RIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQP-----DVVLQNYILN   86 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-----~~~~~~~li~   86 (170)
                      +-..+...|++++|++++.+. ...+. .-+...+..++..+.+.|+.+.|.+.++.|.+.  .|     +-.+...|..
T Consensus       106 la~i~~~~g~~eeAL~~l~~~-i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~~l~~Lae  182 (310)
T 3mv2_B          106 LATAQAILGDLDKSLETCVEG-IDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNEMILNLAE  182 (310)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHH-HTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-hccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CccccccchHHHHHHHH
Confidence            688889999999999999987 55554 236668889999999999999999999999876  55     2455555655


Q ss_pred             H--HHc--CCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC-----CC----CCCHhhH
Q 038114           87 M--YGK--CGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR-----EL----IPDGLTV  153 (170)
Q Consensus        87 ~--~~~--~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~-----~~----~p~~~t~  153 (170)
                      +  ...  .+++++|..+|+++.+.    .|+..+-..++.++.+.|++++|+..++.+.+.     +.    .-|..+.
T Consensus       183 a~v~l~~g~~~~q~A~~~f~El~~~----~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~L  258 (310)
T 3mv2_B          183 SYIKFATNKETATSNFYYYEELSQT----FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFL  258 (310)
T ss_dssp             HHHHHHHTCSTTTHHHHHHHHHHTT----SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHH
T ss_pred             HHHHHHhCCccHHHHHHHHHHHHHh----CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHH
Confidence            5  222  34899999999998654    344334445555888999999999999976653     11    2355555


Q ss_pred             HHHHHHhcCCCc
Q 038114          154 RSLLCACTSPSN  165 (170)
Q Consensus       154 ~~ll~~~~~~g~  165 (170)
                      ..+|......|+
T Consensus       259 aN~i~l~~~lgk  270 (310)
T 3mv2_B          259 ANQITLALMQGL  270 (310)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHhCh
Confidence            455544444443

>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=98.52  E-value=9.4e-07  Score=68.35  Aligned_cols=132  Identities=6%  Similarity=-0.104  Sum_probs=106.7

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      ...|. +-..+.+.|++++|...|++. .+.. +-+...+..+-.++...|++++|.+.+++..+.. +.+...+..+-.
T Consensus        23 ~~~~~~lg~~~~~~g~~~~A~~~~~~a-l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~   99 (568)
T 2vsy_A           23 FVAWLMLADAELGMGDTTAGEMAVQRG-LALH-PGHPEAVARLGRVRWTQQRHAEAAVLLQQASDAA-PEHPGIALWLGH   99 (568)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHH-HTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            34455 788888999999999999998 5543 2356688888888999999999999999988764 335788999999


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCC---CChHHHHHHHHHHHhCC
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASP---SNANEAMSLFSEMRDRE  145 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~---g~~~~a~~l~~~m~~~~  145 (170)
                      .|.+.|++++|.+.|++..+...   .+...+..+...+...   |+.++|...+++..+.+
T Consensus       100 ~~~~~g~~~~A~~~~~~al~~~p---~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A          100 ALEDAGQAEAAAAAYTRAHQLLP---EEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            99999999999999998776533   3456788888888888   99999999999887654

>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=98.52  E-value=3.7e-06  Score=65.01  Aligned_cols=142  Identities=7%  Similarity=-0.079  Sum_probs=100.4

Q ss_pred             cCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHH
Q 038114           20 QNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARV   99 (170)
Q Consensus        20 ~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~   99 (170)
                      .|++++|...|++. .+.. +-+...+..+-..+...|++++|...|++..+.. +.+...+..+-..|.+.|++++|.+
T Consensus         2 ~g~~~~A~~~~~~a-l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAA-VRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            47889999999887 4432 2346678888888999999999999999998864 3358899999999999999999999


Q ss_pred             HHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCC---Ccccc
Q 038114          100 VSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSP---SNVLY  168 (170)
Q Consensus       100 ~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~---g~~e~  168 (170)
                      .|++..+...   .+...|..+...+...|++++|...|++..+.. .-+...+..+...+...   |+.++
T Consensus        79 ~~~~al~~~p---~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~  146 (568)
T 2vsy_A           79 LLQQASDAAP---EHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDV  146 (568)
T ss_dssp             HHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHH
T ss_pred             HHHHHHhcCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHH
Confidence            9998876533   456788899999999999999999999887654 22466778888888777   55543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.51  E-value=1.6e-06  Score=60.22  Aligned_cols=151  Identities=10%  Similarity=-0.090  Sum_probs=110.8

Q ss_pred             hHhHHHhhhcccCCHHHHHHHHHHHHhhCCC-Ccc-hhhHHHHHHHhhcccchHHHHHHHHHHHhcCC-C-CCHHHHHHH
Q 038114            9 LRFTFYNSQPIQNLYNEALVAFDFLQNNTNF-RIR-PSTYACLISTCSSLRSLQLGRKVHDHILSSKS-Q-PDVVLQNYI   84 (170)
Q Consensus         9 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~-~~~~~~~~l   84 (170)
                      ..|.+-..+.+.|++++|...|+++ ..... .|. ...+..+-.++.+.|++++|...|+...+... . .....+..+
T Consensus        17 ~~~~~a~~~~~~g~~~~A~~~~~~~-l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l   95 (261)
T 3qky_A           17 EAFERAMEFYNQGKYDRAIEYFKAV-FTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYER   95 (261)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-GGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHH-HHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHH
Confidence            3345788889999999999999998 55431 111 56778888889999999999999999988532 2 235677778


Q ss_pred             HHHHHc--------CCCHHHHHHHHhhcccCCCCCCCChhhH-----------------HHHHHHHhCCCChHHHHHHHH
Q 038114           85 LNMYGK--------CGSLEDARVVSDEMPQRNVIESPDLASW-----------------NAIIAGVASPSNANEAMSLFS  139 (170)
Q Consensus        85 i~~~~~--------~~~~~~a~~~~~~m~~~~~~~~p~~~~~-----------------~~li~~~~~~g~~~~a~~l~~  139 (170)
                      -.++.+        .|++++|...|++......   -+....                 ..+...|...|++++|...|+
T Consensus        96 g~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p---~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  172 (261)
T 3qky_A           96 AMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYP---NHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYE  172 (261)
T ss_dssp             HHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCT---TCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHhcccccccchhHHHHHHHHHHHHHHCc---CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            888888        9999999999999876533   112233                 445677889999999999999


Q ss_pred             HHHhCCC-CC-CHhhHHHHHHHhcCC
Q 038114          140 EMRDREL-IP-DGLTVRSLLCACTSP  163 (170)
Q Consensus       140 ~m~~~~~-~p-~~~t~~~ll~~~~~~  163 (170)
                      +..+..- .| ....+..+..+|...
T Consensus       173 ~~l~~~p~~~~~~~a~~~l~~~~~~~  198 (261)
T 3qky_A          173 AVFDAYPDTPWADDALVGAMRAYIAY  198 (261)
T ss_dssp             HHHHHCTTSTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCCchHHHHHHHHHHHHHHh
Confidence            9886531 11 234566666666654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.51  E-value=7e-07  Score=63.42  Aligned_cols=157  Identities=7%  Similarity=-0.115  Sum_probs=113.3

Q ss_pred             hH-HHhhhcccCCHHHHHHHHHHHHhh----CCCCcc-hhhHHHHHHHhhcccchHHHHHHHHHHHhc----CCCC-CHH
Q 038114           11 FT-FYNSQPIQNLYNEALVAFDFLQNN----TNFRIR-PSTYACLISTCSSLRSLQLGRKVHDHILSS----KSQP-DVV   79 (170)
Q Consensus        11 ~~-li~~~~~~~~~~~a~~~~~~m~~~----~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~   79 (170)
                      |. ....|...|++++|...|++. ..    .|-.++ ..+|+.+-.+|.+.|++++|...|.+..+.    |-.. -..
T Consensus        40 ~~~a~~~~~~~g~~~~A~~~~~~a-l~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~  118 (292)
T 1qqe_A           40 CVQAATIYRLRKELNLAGDSFLKA-ADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (292)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHH-HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH-HHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            44 566788899999999999876 33    232222 458889999999999999999999887653    2111 145


Q ss_pred             HHHHHHHHHHcC-CCHHHHHHHHhhcccCCCCC--CC-ChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHh----
Q 038114           80 LQNYILNMYGKC-GSLEDARVVSDEMPQRNVIE--SP-DLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGL----  151 (170)
Q Consensus        80 ~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~~--~p-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~----  151 (170)
                      +++.+-..|... |++++|...|++..+.....  .+ ...+|+.+...+.+.|++++|...|++...........    
T Consensus       119 ~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  198 (292)
T 1qqe_A          119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (292)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHH
Confidence            888899999996 99999999999765431100  01 13568888999999999999999999988764332221    


Q ss_pred             --hHHHHHHHhcCCCcccc
Q 038114          152 --TVRSLLCACTSPSNVLY  168 (170)
Q Consensus       152 --t~~~ll~~~~~~g~~e~  168 (170)
                        .|..+..++...|+.++
T Consensus       199 ~~~~~~lg~~~~~~g~~~~  217 (292)
T 1qqe_A          199 KDYFLKKGLCQLAATDAVA  217 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHH
Confidence              45666666777776554

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.51  E-value=3.6e-06  Score=64.50  Aligned_cols=142  Identities=8%  Similarity=-0.013  Sum_probs=106.9

Q ss_pred             cCCHH-------HHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHHc
Q 038114           20 QNLYN-------EALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD--VVLQNYILNMYGK   90 (170)
Q Consensus        20 ~~~~~-------~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~   90 (170)
                      .|+++       +|+.+|++. ...-.+-+...|..+...+.+.|++++|..+|+...+.  .|+  ...|..+...+.+
T Consensus       292 ~g~~~~a~~~~~~A~~~~~~A-l~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~  368 (530)
T 2ooe_A          292 KGDMNNAKLFSDEAANIYERA-ISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARR  368 (530)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHH-TTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHH
T ss_pred             ccchhhhhhhhHHHHHHHHHH-HHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHH
Confidence            68877       899999998 54222335778889999999999999999999999985  443  3589999999999


Q ss_pred             CCCHHHHHHHHhhcccCCCCCCCChhhHHHHH-HHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114           91 CGSLEDARVVSDEMPQRNVIESPDLASWNAII-AGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus        91 ~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li-~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      .|++++|.++|+...+...   .+...|-... ..+...|+.++|..+|+...+.. .-+...|..++..+.+.|+.++
T Consensus       369 ~~~~~~A~~~~~~Al~~~~---~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~  443 (530)
T 2ooe_A          369 AEGIKSGRMIFKKAREDAR---TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNN  443 (530)
T ss_dssp             HHHHHHHHHHHHHHHTCTT---CCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHH
T ss_pred             hcCHHHHHHHHHHHHhccC---CchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhh
Confidence            9999999999998876432   1222222221 22335899999999999887653 2256778888888888887764

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.49  E-value=4.2e-06  Score=49.74  Aligned_cols=98  Identities=7%  Similarity=-0.117  Sum_probs=49.9

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHH
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAG  124 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~  124 (170)
                      .+..+-..+...|++++|...|++..+.. +.+...+..+-..+.+.|++++|.+.|++..+.... ..+...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIED-EYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcc-cchHHHHHHHHHH
Confidence            34444444555555555555555554432 223445555555555556666666655555443220 0134455555555


Q ss_pred             HhCC-CChHHHHHHHHHHHhC
Q 038114          125 VASP-SNANEAMSLFSEMRDR  144 (170)
Q Consensus       125 ~~~~-g~~~~a~~l~~~m~~~  144 (170)
                      +... |++++|.+.+.+....
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHhCCHHHHHHHHHHHhhc
Confidence            5566 6666666666555443

>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=98.49  E-value=3.1e-06  Score=55.24  Aligned_cols=126  Identities=12%  Similarity=0.072  Sum_probs=98.5

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH-HHcCC
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNM-YGKCG   92 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~~   92 (170)
                      ...+...|++++|...++.. .... +.+...+..+-.++...|++++|...|....+.. +.+...+..+... |.+.|
T Consensus        17 ~~~~~~~~~~~~A~~~~~~a-l~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~   93 (177)
T 2e2e_A           17 LHQFASQQNPEAQLQALQDK-IRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQAS   93 (177)
T ss_dssp             TCCCC-----CCCCHHHHHH-HHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTT
T ss_pred             hhhhhhccCHHHHHHHHHHH-HHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcC
Confidence            34567889999999999887 4432 2466788889999999999999999999998764 3367788888888 78899


Q ss_pred             CH--HHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC
Q 038114           93 SL--EDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus        93 ~~--~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      ++  ++|...|+.......   -+...+..+...+...|++++|...|++..+..
T Consensus        94 ~~~~~~A~~~~~~al~~~p---~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           94 QHMTAQTRAMIDKALALDS---NEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             TCCCHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             CcchHHHHHHHHHHHHhCC---CcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            98  999999998876533   346778888899999999999999999987653

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.48  E-value=2.9e-06  Score=51.84  Aligned_cols=117  Identities=8%  Similarity=-0.073  Sum_probs=92.4

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNM   87 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~   87 (170)
                      ..+. +...+...|++++|...|++. .... +.+...+..+-.++...|++++|...+....+.. +.+...+..+...
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~-~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~   89 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKA-IELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHH-HHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHH
Confidence            3444 688888999999999999998 5432 2356788888899999999999999999998864 3458889999999


Q ss_pred             HHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCCh
Q 038114           88 YGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNA  131 (170)
Q Consensus        88 ~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~  131 (170)
                      |.+.|++++|.+.|++......   .+...+..+...+...|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p---~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDP---DNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHST---TCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCc---cchHHHHHHHHHHHHHhcC
Confidence            9999999999999998876533   3456666666666655543

>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=98.47  E-value=1.3e-06  Score=61.88  Aligned_cols=150  Identities=9%  Similarity=-0.047  Sum_probs=110.8

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhh-CCCCcchh----hHHHHHHHhhcccchHHHHHHHHHHHhcCC-CCC----HHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNN-TNFRIRPS----TYACLISTCSSLRSLQLGRKVHDHILSSKS-QPD----VVLQN   82 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~-~~~~p~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~   82 (170)
                      .+..+...|++++|..++++. .. ....|+..    .+..+...+...+++++|...|.+..+... .++    ..+++
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~-l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNE-LKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHH-hccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            377889999999999999998 54 33344432    333466667778899999999999987322 222    34799


Q ss_pred             HHHHHHHcCCCHHHHHHHHhhccc----C-CCCCCCC-hhhHHHHHHHHhCCCChHHHHHHHHHHHhC----CCCCC-Hh
Q 038114           83 YILNMYGKCGSLEDARVVSDEMPQ----R-NVIESPD-LASWNAIIAGVASPSNANEAMSLFSEMRDR----ELIPD-GL  151 (170)
Q Consensus        83 ~li~~~~~~~~~~~a~~~~~~m~~----~-~~~~~p~-~~~~~~li~~~~~~g~~~~a~~l~~~m~~~----~~~p~-~~  151 (170)
                      .+-..|...|++++|...|++..+    . +.  .+. ..+|..+...|...|++++|...+++..+.    +-.+. ..
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~--~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~  237 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDN--EEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccc--hhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHH
Confidence            999999999999999999998763    1 12  222 347889999999999999999999877542    32222 56


Q ss_pred             hHHHHHHHhcCCCc
Q 038114          152 TVRSLLCACTSPSN  165 (170)
Q Consensus       152 t~~~ll~~~~~~g~  165 (170)
                      +|..+-.++.+.|+
T Consensus       238 ~~~~lg~~~~~~g~  251 (293)
T 3u3w_A          238 LYYQRGECLRKLEY  251 (293)
T ss_dssp             HHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhCC
Confidence            67777777777774

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.46  E-value=5.6e-06  Score=50.84  Aligned_cols=114  Identities=11%  Similarity=-0.038  Sum_probs=88.6

Q ss_pred             chhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038114            7 TQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYIL   85 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li   85 (170)
                      +...|. +...+.+.|++++|...|++. .... +.+...+..+-.++...|++++|...+++..+.. +.+...+..+-
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a-l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la   91 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEA-IKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKA   91 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHH-HTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHH-HHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHH
Confidence            344555 788899999999999999998 5543 2367788888999999999999999999998864 34688999999


Q ss_pred             HHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHh
Q 038114           86 NMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVA  126 (170)
Q Consensus        86 ~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~  126 (170)
                      ..|.+.|++++|.+.|++......   -+...+..+...+.
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~~p---~~~~~~~~l~~~~~  129 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDLDS---SCKEAADGYQRCMM  129 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCG---GGTHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhCC---CchHHHHHHHHHHH
Confidence            999999999999999998775432   12234444444443

>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=98.45  E-value=3.9e-07  Score=59.77  Aligned_cols=150  Identities=11%  Similarity=0.031  Sum_probs=100.8

Q ss_pred             HHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH-HHc
Q 038114           12 TFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNM-YGK   90 (170)
Q Consensus        12 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~   90 (170)
                      .....+.+.|++++|...|++. .... +-+...+..+-.++...|++++|...++...+..  |++..+..+... +.+
T Consensus        11 ~~a~~~~~~g~~~~A~~~~~~a-l~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A           11 KQVSELLQQGEHAQALNVIQTL-SDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTS-CHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHH-HHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHh
Confidence            3677788889999999999887 3321 1245577778888888999999999988876543  244433332211 112


Q ss_pred             CCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCC-CHhhHHHHHHHhcCCCcccc
Q 038114           91 CGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIP-DGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus        91 ~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p-~~~t~~~ll~~~~~~g~~e~  168 (170)
                      .+....|...|+...+...   -+...+..+-..+...|++++|...|++..+..-.+ +...+..+...+...|+.++
T Consensus        87 ~~~~~~a~~~~~~al~~~P---~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~  162 (176)
T 2r5s_A           87 QAAESPELKRLEQELAANP---DNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNA  162 (176)
T ss_dssp             HHTSCHHHHHHHHHHHHST---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCH
T ss_pred             hcccchHHHHHHHHHHhCC---CCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCc
Confidence            2223346777776665422   346778888888888999999999998887654322 35577788888887777764

>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=98.43  E-value=4e-06  Score=60.88  Aligned_cols=129  Identities=10%  Similarity=-0.067  Sum_probs=104.2

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcc--------------hhhHHHHHHHhhcccchHHHHHHHHHHHhcC
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIR--------------PSTYACLISTCSSLRSLQLGRKVHDHILSSK   73 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~--------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   73 (170)
                      ..|. +-..+.+.|++++|+..|++. ........              ...|..+-.++.+.|++++|...+....+..
T Consensus       148 ~~~~~~g~~~~~~g~~~~A~~~y~~A-l~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  226 (336)
T 1p5q_A          148 TIVKERGTVYFKEGKYKQALLQYKKI-VSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD  226 (336)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHH-HHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHH-HHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            3444 678889999999999999998 54432221              4788889999999999999999999998864


Q ss_pred             CCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHH-HHHHHHHH
Q 038114           74 SQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEA-MSLFSEMR  142 (170)
Q Consensus        74 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a-~~l~~~m~  142 (170)
                       +.+...|..+-.+|.+.|++++|...|++..+...   -+...+..+...+...|+.++| ..++..|.
T Consensus       227 -p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P---~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          227 -SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP---NNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS---SCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             34688999999999999999999999998876533   3557788888889999999888 44666664

>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=98.42  E-value=5.5e-06  Score=61.30  Aligned_cols=150  Identities=9%  Similarity=-0.003  Sum_probs=106.3

Q ss_pred             chhHhH-HHhhhcccCC-HHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            7 TQLRFT-FYNSQPIQNL-YNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~~-~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      +...|+ +-..+...|+ +++|+..|++. ..... -+...|..+-.++...|++++|...|+...+.. +-+...|..+
T Consensus       130 ~~~a~~~~g~~l~~~g~d~~eAl~~~~~a-l~l~P-~~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~l  206 (382)
T 2h6f_A          130 NYTVWHFRRVLLKSLQKDLHEEMNYITAI-IEEQP-KNYQVWHHRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHR  206 (382)
T ss_dssp             CHHHHHHHHHHHHHTTCCHHHHHHHHHHH-HHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcccCHHHHHHHHHHH-HHHCC-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHH
Confidence            345566 6777888886 99999999888 54332 255677777788888888999999998888764 3357888888


Q ss_pred             HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhC-CCChHHH-----HHHHHHHHhCCCCC-CHhhHHHHH
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVAS-PSNANEA-----MSLFSEMRDRELIP-DGLTVRSLL  157 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~-~g~~~~a-----~~l~~~m~~~~~~p-~~~t~~~ll  157 (170)
                      -.++.+.|++++|...|+++.+.+.   -+...|+.+-..+.. .|..++|     +..|++....  .| +...|..+-
T Consensus       207 g~~~~~~g~~~eAl~~~~~al~l~P---~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l--~P~~~~a~~~l~  281 (382)
T 2h6f_A          207 QWVIQEFKLWDNELQYVDQLLKEDV---RNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKL--VPHNESAWNYLK  281 (382)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHH--STTCHHHHHHHH
T ss_pred             HHHHHHcCChHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHH--CCCCHHHHHHHH
Confidence            8888888888888888888876544   355677777777777 5554666     3666655543  23 344566666


Q ss_pred             HHhcCCC
Q 038114          158 CACTSPS  164 (170)
Q Consensus       158 ~~~~~~g  164 (170)
                      ..+.+.|
T Consensus       282 ~ll~~~g  288 (382)
T 2h6f_A          282 GILQDRG  288 (382)
T ss_dssp             HHHTTTC
T ss_pred             HHHHccC
Confidence            6666655

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.42  E-value=4.4e-06  Score=53.74  Aligned_cols=98  Identities=6%  Similarity=-0.117  Sum_probs=81.4

Q ss_pred             hhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHH
Q 038114           44 STYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIA  123 (170)
Q Consensus        44 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~  123 (170)
                      ..+..+-..+.+.|++++|...|+...+.. +-++..|..+-.+|.+.|++++|...|++......   -+...|..+-.
T Consensus        37 ~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P---~~~~~~~~lg~  112 (151)
T 3gyz_A           37 DDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGK---NDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS---SCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCC---CCcHHHHHHHH
Confidence            356667777888999999999999998864 44688999999999999999999999998876544   34567888889


Q ss_pred             HHhCCCChHHHHHHHHHHHhCC
Q 038114          124 GVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus       124 ~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      +|...|++++|...|++..+..
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999887653

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.41  E-value=1.3e-05  Score=49.70  Aligned_cols=95  Identities=6%  Similarity=-0.056  Sum_probs=55.8

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHH
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAG  124 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~  124 (170)
                      .+.-.=..+.+.|++++|...|.+..+.. +.+...|..+-.+|.+.|++++|...|+...+.+.   .+...|..+-..
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p---~~~~a~~~lg~~   90 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDS---KFIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhh---hhhHHHHHHHHH
Confidence            34444455556666666666666665543 23456666666666666666666666666554322   234556666666


Q ss_pred             HhCCCChHHHHHHHHHHHh
Q 038114          125 VASPSNANEAMSLFSEMRD  143 (170)
Q Consensus       125 ~~~~g~~~~a~~l~~~m~~  143 (170)
                      +...|++++|...|++..+
T Consensus        91 ~~~~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQ  109 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            6666666666666665554

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.40  E-value=1.1e-05  Score=57.08  Aligned_cols=155  Identities=9%  Similarity=-0.090  Sum_probs=111.8

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCC-Ccch----hhHHHHHHHhhcccchHHHHHHHHHHHhcC---CCCC--HHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNF-RIRP----STYACLISTCSSLRSLQLGRKVHDHILSSK---SQPD--VVLQN   82 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~-~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~~~--~~~~~   82 (170)
                      .+..+...|++++|.+.+.+. ..... .++.    ..+..+...+...|++++|...+.+..+..   ..+.  ..+|+
T Consensus        81 ~~~~~~~~~~y~~A~~~~~~~-l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 2qfc_A           81 QVIMLCKQKRYKEIYNKVWNE-LKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHH-hccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHH
Confidence            577888999999999999887 44322 2221    123345556678889999999999887532   1222  45899


Q ss_pred             HHHHHHHcCCCHHHHHHHHhhccc---CCCCCCC--ChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC----CCC-CHhh
Q 038114           83 YILNMYGKCGSLEDARVVSDEMPQ---RNVIESP--DLASWNAIIAGVASPSNANEAMSLFSEMRDRE----LIP-DGLT  152 (170)
Q Consensus        83 ~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~----~~p-~~~t  152 (170)
                      .+-..|...|++++|...|++..+   .... .+  ...+|+.+...|...|++++|...+++..+..    ... -..+
T Consensus       160 ~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~-~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~  238 (293)
T 2qfc_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHD-NEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQL  238 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcCc-cccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            999999999999999999998752   1110 11  22588899999999999999999999876432    111 2567


Q ss_pred             HHHHHHHhcCCCccccC
Q 038114          153 VRSLLCACTSPSNVLYL  169 (170)
Q Consensus       153 ~~~ll~~~~~~g~~e~~  169 (170)
                      |..+-..|.+.|+.+++
T Consensus       239 ~~~lg~~y~~~g~~~~A  255 (293)
T 2qfc_A          239 YYQRGECLRKLEYEEAE  255 (293)
T ss_dssp             HHHHHHHHHHTTCCHHH
T ss_pred             HHHHHHHHHHcCCcHHH
Confidence            78888888888887653

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.39  E-value=1.4e-06  Score=61.88  Aligned_cols=149  Identities=13%  Similarity=-0.032  Sum_probs=103.8

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHH-HHHHHHcC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNY-ILNMYGKC   91 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-li~~~~~~   91 (170)
                      +-..+.+.|++++|...|++. .... +-+...+..+-..+.+.|++++|...++.....  .|+...... ....+.+.
T Consensus       123 ~a~~~~~~g~~~~A~~~~~~a-l~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~l~~~  198 (287)
T 3qou_A          123 QAMQLMQESNYTDALPLLXDA-WQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQIELLXQ  198 (287)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHH-HHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHHHHHhh
Confidence            566677788888888888877 4432 124556777777788888888888888877654  334332222 22235556


Q ss_pred             CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCC-CCCHhhHHHHHHHhcCCCcccc
Q 038114           92 GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDREL-IPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~-~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      ++.+.|.+.|+.......   .+...+..+-..+...|++++|...|.+..+..- ..+...+..+...+...|+.++
T Consensus       199 ~~~~~a~~~l~~al~~~P---~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~  273 (287)
T 3qou_A          199 AADTPEIQQLQQQVAENP---EDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDA  273 (287)
T ss_dssp             HTSCHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCH
T ss_pred             cccCccHHHHHHHHhcCC---ccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCc
Confidence            667777777776665433   4567888888999999999999999999887642 2336678888888888887664

>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=98.39  E-value=3.2e-06  Score=51.70  Aligned_cols=99  Identities=9%  Similarity=0.070  Sum_probs=53.4

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCC----hhhHHH
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPD----LASWNA  120 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~----~~~~~~  120 (170)
                      .+..+-..+...|+++.|...|....+.. +.+...+..+...|...|++++|...|+..........++    ..+|..
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            34444455555566666666666555442 2245555566666666666666666666554322100111    445555


Q ss_pred             HHHHHhCCCChHHHHHHHHHHHhC
Q 038114          121 IIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus       121 li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      +...+...|++++|...|++..+.
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHh
Confidence            566666666666666666665543

>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=98.38  E-value=7e-06  Score=55.70  Aligned_cols=123  Identities=11%  Similarity=-0.016  Sum_probs=97.8

Q ss_pred             cchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHH
Q 038114           41 IRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNA  120 (170)
Q Consensus        41 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~  120 (170)
                      .|+..+...-..+...|++++|...|....+....++...+..+-.++.+.|++++|.+.|+.......   -+...|..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p---~~~~~~~~   81 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNY---NLANAYIG   81 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC---SHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCc---chHHHHHH
Confidence            356777778888899999999999999999876446778888899999999999999999999886543   35677888


Q ss_pred             HHHHHhCCCChHHHHHHHHHHHhCCCCCC-H-------hhHHHHHHHhcCCCcccc
Q 038114          121 IIAGVASPSNANEAMSLFSEMRDRELIPD-G-------LTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       121 li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~-------~t~~~ll~~~~~~g~~e~  168 (170)
                      +-..+...|++++|...|++..+..  |+ .       ..|..+-..+.+.|++++
T Consensus        82 l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~~~  135 (228)
T 4i17_A           82 KSAAYRDMKNNQEYIATLTEGIKAV--PGNATIEKLYAIYYLKEGQKFQQAGNIEK  135 (228)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHhHHHHHhccHHH
Confidence            9999999999999999999887653  33 2       345555556666666554

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.38  E-value=8.1e-06  Score=55.59  Aligned_cols=159  Identities=8%  Similarity=-0.050  Sum_probs=106.3

Q ss_pred             chhHhHHHhhhcccCCHHHHHHHHHHHHhhCC-CCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCC-CCH-HHHH
Q 038114            7 TQLRFTFYNSQPIQNLYNEALVAFDFLQNNTN-FRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQ-PDV-VLQN   82 (170)
Q Consensus         7 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~~-~~~~   82 (170)
                      +...|++...+.+.|++++|...|+++ .... -.| ....+..+-.++.+.|++++|...|+.+.+.... +.. ..+-
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~-~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEAL-DNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHH-HHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH-HHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            334455778889999999999999998 5432 222 2356777888899999999999999999875322 221 2333


Q ss_pred             HHHHHHH------------------cCCCHHHHHHHHhhcccCCCCCCCChhhH-----------------HHHHHHHhC
Q 038114           83 YILNMYG------------------KCGSLEDARVVSDEMPQRNVIESPDLASW-----------------NAIIAGVAS  127 (170)
Q Consensus        83 ~li~~~~------------------~~~~~~~a~~~~~~m~~~~~~~~p~~~~~-----------------~~li~~~~~  127 (170)
                      .+-.++.                  ..|++++|...|++..+....   +...+                 -.+...+.+
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~---~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~  159 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPN---SQYTTDATKRLVFLKDRLAKYEYSVAEYYTE  159 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTT---CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcC---ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333                  257899999999988765331   11122                 133456778


Q ss_pred             CCChHHHHHHHHHHHhCCC-CC-CHhhHHHHHHHhcCCCccccC
Q 038114          128 PSNANEAMSLFSEMRDREL-IP-DGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       128 ~g~~~~a~~l~~~m~~~~~-~p-~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      .|++++|...|+++.+.-- .| ....+..+..++.+.|+.+++
T Consensus       160 ~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A  203 (225)
T 2yhc_A          160 RGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQA  203 (225)
T ss_dssp             HTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHH
Confidence            8999999999998876521 11 124677788888888877653

>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=98.36  E-value=2.3e-05  Score=46.85  Aligned_cols=91  Identities=10%  Similarity=-0.092  Sum_probs=45.8

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +...+...|++++|...|+.. .... +.+...+..+-.++...|++++|...+.+..+.. +.+...+..+..++.+.|
T Consensus        10 ~~~~~~~~~~~~~A~~~~~~~-~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~   86 (118)
T 1elw_A           10 KGNKALSVGNIDDALQCYSEA-IKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLN   86 (118)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcccHHHHHHHHHHH-HHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHh
Confidence            455555555555555555555 3221 1233444445555555555555555555554432 223445555555555555


Q ss_pred             CHHHHHHHHhhccc
Q 038114           93 SLEDARVVSDEMPQ  106 (170)
Q Consensus        93 ~~~~a~~~~~~m~~  106 (170)
                      ++++|.+.|+...+
T Consensus        87 ~~~~A~~~~~~~~~  100 (118)
T 1elw_A           87 RFEEAKRTYEEGLK  100 (118)
T ss_dssp             CHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHH
Confidence            55555555555443

>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=98.35  E-value=1.3e-05  Score=49.71  Aligned_cols=98  Identities=8%  Similarity=-0.100  Sum_probs=54.5

Q ss_pred             chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHH
Q 038114           42 RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAI  121 (170)
Q Consensus        42 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~l  121 (170)
                      +...+..+-..+...|++++|...|....+.. +.+...|..+-.+|.+.|++++|...|+.......   .+...|..+
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p---~~~~~~~~l   83 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG---QSVKAHFFL   83 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc---hhHHHHHHH
Confidence            34455555555556666666666666555542 22355566666666666666666666665554322   234455555


Q ss_pred             HHHHhCCCChHHHHHHHHHHHh
Q 038114          122 IAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus       122 i~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      -..+...|++++|...|.+...
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHH
Confidence            5666666666666666655543

>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=98.33  E-value=3.9e-06  Score=53.68  Aligned_cols=98  Identities=5%  Similarity=-0.042  Sum_probs=82.8

Q ss_pred             hhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHH
Q 038114           44 STYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIA  123 (170)
Q Consensus        44 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~  123 (170)
                      ..+..+-..+...|+++.|...|....+.. +.+...+..+...+...|++++|.+.|++......   .+...|..+..
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~---~~~~~~~~~a~   89 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK---KYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc---ccHHHHHHHHH
Confidence            356667777888999999999999998764 34688999999999999999999999998876533   45678888899


Q ss_pred             HHhCCCChHHHHHHHHHHHhCC
Q 038114          124 GVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus       124 ~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      .+...|++++|...|++.....
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~  111 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVK  111 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHhccHHHHHHHHHHHHHhC
Confidence            9999999999999999987653

>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=98.33  E-value=3.7e-05  Score=45.85  Aligned_cols=100  Identities=12%  Similarity=0.003  Sum_probs=84.6

Q ss_pred             chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHH
Q 038114           42 RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAI  121 (170)
Q Consensus        42 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~l  121 (170)
                      ....+..+...+...|++++|...|....+.. +.+...+..+...+.+.|++++|...+++......   .+...+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~~   78 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP---DWGKGYSRK   78 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT---TCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCc---ccHHHHHHH
Confidence            34567778888889999999999999998764 34688899999999999999999999998876533   356788888


Q ss_pred             HHHHhCCCChHHHHHHHHHHHhCC
Q 038114          122 IAGVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus       122 i~~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      ...+...|++++|...+++..+..
T Consensus        79 a~~~~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           79 AAALEFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHcC
Confidence            999999999999999999887653

>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=98.32  E-value=1.1e-05  Score=51.57  Aligned_cols=98  Identities=8%  Similarity=-0.134  Sum_probs=70.1

Q ss_pred             hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHH
Q 038114           43 PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAII  122 (170)
Q Consensus        43 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li  122 (170)
                      ...+..+-..+.+.|++++|...|....+.. +.+...|..+-.+|.+.|++++|...|+.......   -+...|..+-
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p---~~~~~~~~lg   96 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI---XEPRFPFHAA   96 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST---TCTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC---CCchHHHHHH
Confidence            3355556666777788888888888777653 33577777777788888888888888887765433   3445677777


Q ss_pred             HHHhCCCChHHHHHHHHHHHhC
Q 038114          123 AGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus       123 ~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      ..+...|++++|...|+...+.
T Consensus        97 ~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           97 ECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            7788888888888888776653

>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=98.32  E-value=1.2e-05  Score=49.33  Aligned_cols=94  Identities=7%  Similarity=-0.047  Sum_probs=50.2

Q ss_pred             HHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHH
Q 038114           46 YACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGV  125 (170)
Q Consensus        46 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~  125 (170)
                      +..+-..+.+.|++++|...|.+..+.. +.+...|..+-.+|.+.|++++|...|+...+...   -+...|..+-..+
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p---~~~~~~~~lg~~~   82 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP---NFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC---CcHHHHHHHHHHH
Confidence            3344444555555555555555555442 22355555555666666666666666655544322   2344555555555


Q ss_pred             hCCCChHHHHHHHHHHHh
Q 038114          126 ASPSNANEAMSLFSEMRD  143 (170)
Q Consensus       126 ~~~g~~~~a~~l~~~m~~  143 (170)
                      ...|++++|...|++..+
T Consensus        83 ~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           83 IAVKEYASALETLDAART  100 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHH
Confidence            666666666666655543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.31  E-value=1.2e-05  Score=50.69  Aligned_cols=96  Identities=10%  Similarity=-0.122  Sum_probs=58.8

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHH
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAG  124 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~  124 (170)
                      .+..+-..+.+.|++++|...|....+.. +.+...|..+-.+|.+.|++++|...|+.....+.   -+...|..+-..
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p---~~~~~~~~lg~~   95 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDI---NEPRFPFHAAEC   95 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC---CCcHHHHHHHHH
Confidence            33444455566677777777777666543 23466666666667777777777777776654432   233455666666


Q ss_pred             HhCCCChHHHHHHHHHHHhC
Q 038114          125 VASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus       125 ~~~~g~~~~a~~l~~~m~~~  144 (170)
                      +...|++++|...|+.....
T Consensus        96 ~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            66777777777777665543

>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=98.30  E-value=4.2e-06  Score=66.37  Aligned_cols=87  Identities=10%  Similarity=-0.027  Sum_probs=46.3

Q ss_pred             cccCCHHHHHHHHHHHHhh-------CCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc
Q 038114           18 PIQNLYNEALVAFDFLQNN-------TNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK   90 (170)
Q Consensus        18 ~~~~~~~~a~~~~~~m~~~-------~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   90 (170)
                      ...|++++|++.+++. ..       ..-+.+...+..+-.++...|++++|...|++..+.. +-+...|..+-.+|.+
T Consensus       402 ~~~~~~~~A~~~~~~a-l~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAA-RHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHH-HTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHh-hhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            4556666666666655 30       1112233445555555556666666666666655542 2245555555556666


Q ss_pred             CCCHHHHHHHHhhccc
Q 038114           91 CGSLEDARVVSDEMPQ  106 (170)
Q Consensus        91 ~~~~~~a~~~~~~m~~  106 (170)
                      .|++++|.+.|++..+
T Consensus       480 ~g~~~~A~~~~~~al~  495 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLD  495 (681)
T ss_dssp             HTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            6666666666655443

>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=98.30  E-value=1.2e-05  Score=52.65  Aligned_cols=129  Identities=10%  Similarity=-0.031  Sum_probs=93.9

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHH-hhcccchHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLIST-CSSLRSLQLGRKVHDHILSSKSQPDVVLQNYIL   85 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~-~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li   85 (170)
                      ...+. +-..+.+.|++++|...|+.. ....  |++..+..+... +...+....+...++...+.. +-+...+..+-
T Consensus        40 ~~a~~~la~~~~~~g~~~~A~~~~~~a-~~~~--p~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la  115 (176)
T 2r5s_A           40 GDVKLAKADCLLETKQFELAQELLATI-PLEY--QDNSYKSLIAKLELHQQAAESPELKRLEQELAAN-PDNFELACELA  115 (176)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHTTC-CGGG--CCHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHh-hhcc--CChHHHHHHHHHHHHhhcccchHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            33444 788899999999999999998 4432  344333222111 122223344678888877653 33588999999


Q ss_pred             HHHHcCCCHHHHHHHHhhcccCCCCCCC-ChhhHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114           86 NMYGKCGSLEDARVVSDEMPQRNVIESP-DLASWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        86 ~~~~~~~~~~~a~~~~~~m~~~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      ..+.+.|++++|...|++..+...  .+ +...+..+...+...|+.++|...|++..
T Consensus       116 ~~~~~~g~~~~A~~~~~~~l~~~p--~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A          116 VQYNQVGRDEEALELLWNILKVNL--GAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCT--TTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHhCc--ccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            999999999999999999887654  33 35688899999999999999999998654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.30  E-value=2.3e-05  Score=46.40  Aligned_cols=98  Identities=7%  Similarity=-0.042  Sum_probs=81.6

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCC--CHHHHHHHH
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQP--DVVLQNYIL   85 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~li   85 (170)
                      ..|. +...+.+.|++++|...|++. .... +.+...+..+-.++...|++++|...|++..+.. +.  +...+..+.
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a-~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~   83 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKA-IQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKA   83 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHH-HHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHH-HHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHH
Confidence            3444 788889999999999999998 5433 2356678888888999999999999999998864 33  588999999


Q ss_pred             HHHHcC-CCHHHHHHHHhhcccCCC
Q 038114           86 NMYGKC-GSLEDARVVSDEMPQRNV  109 (170)
Q Consensus        86 ~~~~~~-~~~~~a~~~~~~m~~~~~  109 (170)
                      ..+.+. |++++|.+.|+.......
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhccc
Confidence            999999 999999999999876544

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.29  E-value=4.5e-06  Score=61.20  Aligned_cols=155  Identities=9%  Similarity=-0.066  Sum_probs=106.1

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhC----CCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhc--CC---CC-CHHHHH
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNT----NFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSS--KS---QP-DVVLQN   82 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~----~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~---~~-~~~~~~   82 (170)
                      -..+...|++++|...|++. ...    +-.+ ...++..+-.++...|+++.|...+.+..+.  ..   .+ ...+++
T Consensus       110 g~~~~~~g~~~~A~~~~~~a-l~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          110 GMYELDQREYLSAIKFFKKA-ESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH-HTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHH-HHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            44567789999999999887 442    1112 2346777788888889999998888877652  11   11 245777


Q ss_pred             HHHHHHHcCCCHHHHHHHHhhcccCCCC---CCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC----CC-CCCHhhHH
Q 038114           83 YILNMYGKCGSLEDARVVSDEMPQRNVI---ESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR----EL-IPDGLTVR  154 (170)
Q Consensus        83 ~li~~~~~~~~~~~a~~~~~~m~~~~~~---~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~----~~-~p~~~t~~  154 (170)
                      .+-..|...|++++|.+.|++..+....   ......++..+-..|...|++++|...|++..+.    +- .....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            8888888899999999888876532110   0111246777888888889999999888877652    22 33455677


Q ss_pred             HHHHHhcCCCccccC
Q 038114          155 SLLCACTSPSNVLYL  169 (170)
Q Consensus       155 ~ll~~~~~~g~~e~~  169 (170)
                      .+-..+.+.|+.+++
T Consensus       269 ~l~~~~~~~g~~~~A  283 (383)
T 3ulq_A          269 LITQIHYKLGKIDKA  283 (383)
T ss_dssp             HHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHCCCHHHH
Confidence            777778777776543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.28  E-value=1.6e-06  Score=57.46  Aligned_cols=83  Identities=11%  Similarity=-0.040  Sum_probs=34.1

Q ss_pred             ccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHHHcCCC
Q 038114           19 IQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSS----KSQP-DVVLQNYILNMYGKCGS   93 (170)
Q Consensus        19 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~~~   93 (170)
                      ..|++++|.+.++.. .. ........+..+-..+...|++++|...+.+..+.    +..+ ...++..+-..|...|+
T Consensus         4 ~~g~~~~A~~~~~~~-~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            4 EAHDYALAERQAQAL-LA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ---CHHHHHHHHHHH-HT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             ccccHHHHHHHHHHh-cC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            344555555533333 21 11122334444444445555555555555444431    1111 12344444444555555


Q ss_pred             HHHHHHHHhh
Q 038114           94 LEDARVVSDE  103 (170)
Q Consensus        94 ~~~a~~~~~~  103 (170)
                      +++|.+.|++
T Consensus        82 ~~~A~~~~~~   91 (203)
T 3gw4_A           82 WDAARRCFLE   91 (203)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555555443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.27  E-value=1.4e-05  Score=51.47  Aligned_cols=97  Identities=6%  Similarity=-0.083  Sum_probs=71.7

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      ...|. +-..+.+.|++++|+..|++. .... +-+...|..+-.++.+.|++++|...|+...+.. +-+...|..+-.
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~a-l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQA-LSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH-HHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            33444 677788888888888888887 4432 2256677777778888888888888888887764 334778888888


Q ss_pred             HHHcCCCHHHHHHHHhhcccC
Q 038114           87 MYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      +|.+.|++++|.+.|++..+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            888888888888888877654

>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=98.27  E-value=1.6e-05  Score=67.08  Aligned_cols=136  Identities=10%  Similarity=0.084  Sum_probs=98.5

Q ss_pred             cchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            6 KTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         6 ~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      .+..+|. +-.++.+.|++++|...|.+.       -|...|.-++.+|.+.|+++++.+.+...++..  +++...+.+
T Consensus      1103 n~p~vWsqLAKAql~~G~~kEAIdsYiKA-------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~L 1173 (1630)
T 1xi4_A         1103 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETEL 1173 (1630)
T ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHhc-------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHH
Confidence            3445666 889999999999999998666       567788889999999999999999998777653  444445568


Q ss_pred             HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCC
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g  164 (170)
                      ..+|++.+++++......         .|+...|..+-..|...|++++|..+|...         ..|..+..++.+.|
T Consensus      1174 afaYAKl~rleele~fI~---------~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLg 1235 (1630)
T 1xi4_A         1174 IFALAKTNRLAELEEFIN---------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLG 1235 (1630)
T ss_pred             HHHHHhhcCHHHHHHHHh---------CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhC
Confidence            888888888875444321         344456666777777778888888877763         36777777777766


Q ss_pred             cccc
Q 038114          165 NVLY  168 (170)
Q Consensus       165 ~~e~  168 (170)
                      ++++
T Consensus      1236 e~q~ 1239 (1630)
T 1xi4_A         1236 EYQA 1239 (1630)
T ss_pred             CHHH
Confidence            6554

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.27  E-value=3.3e-05  Score=47.86  Aligned_cols=95  Identities=9%  Similarity=-0.077  Sum_probs=81.0

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMY   88 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~   88 (170)
                      .+. .-..|.+.|++++|++.|++. .+.. +.+...|..+-.++.+.|++++|...|+...+.. +.+...|..+-.+|
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~a-l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~   91 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEA-VKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH-HHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHH
Confidence            344 688899999999999999998 5432 2467788889999999999999999999998864 34588999999999


Q ss_pred             HcCCCHHHHHHHHhhcccC
Q 038114           89 GKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        89 ~~~~~~~~a~~~~~~m~~~  107 (170)
                      ...|++++|.+.|++..+.
T Consensus        92 ~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH
Confidence            9999999999999988764

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.26  E-value=8.2e-06  Score=57.85  Aligned_cols=132  Identities=8%  Similarity=-0.108  Sum_probs=100.0

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhC----CCCc-chhhHHHHHHHhhcc-cchHHHHHHHHHHHhc----CCCCC
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNT----NFRI-RPSTYACLISTCSSL-RSLQLGRKVHDHILSS----KSQPD   77 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~----~~~p-~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~----~~~~~   77 (170)
                      ..|+ +-..|.+.|++++|+..|++. ...    |-.. -..++..+-..|... |++++|...|++..+.    +..+.
T Consensus        78 ~~~~~lg~~~~~~g~~~~A~~~~~~A-l~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~  156 (292)
T 1qqe_A           78 NTYVEAYKCFKSGGNSVNAVDSLENA-IQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVAL  156 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHH-HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHH-HHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHH
Confidence            4555 888899999999999999887 432    1111 134788888888886 9999999999988763    11111


Q ss_pred             -HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChh------hHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114           78 -VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLA------SWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus        78 -~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~------~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                       ..+++.+-..|.+.|++++|...|++......  .....      .|..+...+...|++++|...|++...
T Consensus       157 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~--~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  227 (292)
T 1qqe_A          157 SNKCFIKCADLKALDGQYIEASDIYSKLIKSSM--GNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQS  227 (292)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTS--SCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHh--cCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence             45788899999999999999999998876544  22211      567777888899999999999997764

>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=98.26  E-value=4.2e-06  Score=66.37  Aligned_cols=148  Identities=7%  Similarity=-0.106  Sum_probs=115.1

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNM   87 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~   87 (170)
                      ..|. +-..+.+.|++++|+..|++. .+.. +-+...|..+-.++...|++++|...|++..+.. +-+...|..+-.+
T Consensus       434 ~~~~~~a~~~~~~g~~~~A~~~~~~a-l~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~  510 (681)
T 2pzi_A          434 ELPLMEVRALLDLGDVAKATRKLDDL-AERV-GWRWRLVWYRAVAELLTGDYDSATKHFTEVLDTF-PGELAPKLALAAT  510 (681)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHH-HHHH-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHH
T ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHH-hccC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            3444 688899999999999999998 5432 2355678888888999999999999999998864 3357788999999


Q ss_pred             HHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHhcCCCc
Q 038114           88 YGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPD-GLTVRSLLCACTSPSN  165 (170)
Q Consensus        88 ~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~t~~~ll~~~~~~g~  165 (170)
                      |.+.|++++ .+.|++..+.+.   -+...|..+-..+.+.|++++|...|++..+  +.|+ ...+..+..++...|.
T Consensus       511 ~~~~g~~~~-~~~~~~al~~~P---~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          511 AELAGNTDE-HKFYQTVWSTND---GVISAAFGLARARSAEGDRVGAVRTLDEVPP--TSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHTCCCT-TCHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHTSCT--TSTTHHHHHHHHHHHTC----
T ss_pred             HHHcCChHH-HHHHHHHHHhCC---chHHHHHHHHHHHHHcCCHHHHHHHHHhhcc--cCcccHHHHHHHHHHHHccCC
Confidence            999999999 999998876543   3567889999999999999999999986654  4555 4556667777766554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.26  E-value=7e-05  Score=46.73  Aligned_cols=98  Identities=7%  Similarity=-0.069  Sum_probs=63.4

Q ss_pred             chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhh
Q 038114           42 RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD----VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLAS  117 (170)
Q Consensus        42 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~  117 (170)
                      +...+..+-..+...|++++|...|.+..+.  .|+    ...|..+-..|.+.|++++|.+.|+.......   .+...
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~  101 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDG---GDVKA  101 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTS---CCHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCc---cCHHH
Confidence            3445566666666777777777777776654  333    56666666777777777777777776654322   24556


Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114          118 WNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus       118 ~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      |..+...+...|++++|...|++....
T Consensus       102 ~~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          102 LYRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            666666777777777777777766543

>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=98.21  E-value=1.2e-05  Score=53.73  Aligned_cols=116  Identities=7%  Similarity=-0.100  Sum_probs=92.7

Q ss_pred             HHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHH
Q 038114           46 YACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGV  125 (170)
Q Consensus        46 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~  125 (170)
                      +..+-..+...|++++|...|.+.    +.|+...|..+-..|.+.|++++|.+.|+.......   .+...|..+-..+
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~---~~~~~~~~lg~~~   81 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK---HLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc---cchHHHHHHHHHH
Confidence            444555677889999999999877    366889999999999999999999999998876533   4567889999999


Q ss_pred             hCCCChHHHHHHHHHHHhCC--------------CCC-CHhhHHHHHHHhcCCCcccc
Q 038114          126 ASPSNANEAMSLFSEMRDRE--------------LIP-DGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       126 ~~~g~~~~a~~l~~~m~~~~--------------~~p-~~~t~~~ll~~~~~~g~~e~  168 (170)
                      ...|++++|...|++..+..              ..| +...+..+-.++.+.|+.++
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  139 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKK  139 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHH
Confidence            99999999999999988743              112 22567777777877777654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.21  E-value=2.8e-06  Score=51.80  Aligned_cols=85  Identities=13%  Similarity=0.032  Sum_probs=44.7

Q ss_pred             cCCHHHHHHHHHHHHhhCC--CCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHH
Q 038114           20 QNLYNEALVAFDFLQNNTN--FRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDA   97 (170)
Q Consensus        20 ~~~~~~a~~~~~~m~~~~~--~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a   97 (170)
                      .|++++|+..|++. ...+  -+-+...+..+-.++...|++++|...|++..+.. +-+...+..+-.++.+.|++++|
T Consensus         3 ~g~~~~A~~~~~~a-l~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            3 LGLEAQAVPYYEKA-IASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             ----CCCHHHHHHH-HSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCcHHHHHHHHHHH-HHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHH
Confidence            45566666666665 4432  11223345555555666666666666666665543 22355555566666666666666


Q ss_pred             HHHHhhccc
Q 038114           98 RVVSDEMPQ  106 (170)
Q Consensus        98 ~~~~~~m~~  106 (170)
                      ...|++...
T Consensus        81 ~~~~~~al~   89 (117)
T 3k9i_A           81 VELLLKIIA   89 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666665543

>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=98.21  E-value=0.00027  Score=47.61  Aligned_cols=137  Identities=9%  Similarity=-0.008  Sum_probs=104.2

Q ss_pred             HHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhccc----chHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038114           12 TFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLR----SLQLGRKVHDHILSSKSQPDVVLQNYILNM   87 (170)
Q Consensus        12 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~~~~~~~~~~~~li~~   87 (170)
                      ++-..|...+++++|+..|++. ...|   ++..+..|=..|.. +    ++++|..+|....+.|   ++..+..|-..
T Consensus        23 ~lg~~~~~~~~~~~A~~~~~~a-~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg~~   94 (212)
T 3rjv_A           23 YLADTWVSSGDYQKAEYWAQKA-AAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIVLARV   94 (212)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHH-HHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHHhcCCCHHHHHHHHHHH-HHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHH
Confidence            3777778899999999999999 7665   45566666666766 6    8999999999998776   56778888888


Q ss_pred             HHc----CCCHHHHHHHHhhcccCCCCCC-CChhhHHHHHHHHhC----CCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 038114           88 YGK----CGSLEDARVVSDEMPQRNVIES-PDLASWNAIIAGVAS----PSNANEAMSLFSEMRDRELIPDGLTVRSLLC  158 (170)
Q Consensus        88 ~~~----~~~~~~a~~~~~~m~~~~~~~~-p~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~  158 (170)
                      |..    .+++++|.+.|+...+.+.  . .+...+..+-..|..    .+++++|..+|++-.+.+  .+...+..|-.
T Consensus        95 y~~g~g~~~d~~~A~~~~~~A~~~~~--~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~--~~~~a~~~Lg~  170 (212)
T 3rjv_A           95 LVNRQAGATDVAHAITLLQDAARDSE--SDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLS--RTGYAEYWAGM  170 (212)
T ss_dssp             HTCGGGSSCCHHHHHHHHHHHTSSTT--SHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTS--CTTHHHHHHHH
T ss_pred             HHcCCCCccCHHHHHHHHHHHHHcCC--CcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcC--CCHHHHHHHHH
Confidence            877    7899999999999887654  2 125677777777776    789999999999887762  23334444544


Q ss_pred             Hh
Q 038114          159 AC  160 (170)
Q Consensus       159 ~~  160 (170)
                      .|
T Consensus       171 ~y  172 (212)
T 3rjv_A          171 MF  172 (212)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.20  E-value=2.3e-05  Score=50.37  Aligned_cols=92  Identities=12%  Similarity=-0.056  Sum_probs=79.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +-..+.+.|++++|...|++. .... +-++..|..+-.++...|++++|...|+...+.. +-++..|..+-.+|.+.|
T Consensus        42 lg~~~~~~g~~~eA~~~~~~a-l~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~~~lg  118 (151)
T 3gyz_A           42 YAYDFYNKGRIEEAEVFFRFL-CIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQLRLK  118 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcC
Confidence            788899999999999999998 5443 2467788889999999999999999999998864 335778999999999999


Q ss_pred             CHHHHHHHHhhcccC
Q 038114           93 SLEDARVVSDEMPQR  107 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~  107 (170)
                      ++++|...|+...+.
T Consensus       119 ~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          119 APLKAKECFELVIQH  133 (151)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999998765

>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=98.20  E-value=2.8e-05  Score=49.63  Aligned_cols=114  Identities=10%  Similarity=-0.069  Sum_probs=88.3

Q ss_pred             hHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc
Q 038114           11 FTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK   90 (170)
Q Consensus        11 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   90 (170)
                      |++-..|.+.|++++|++.|++. .... +-+...|..+-.++...|++++|...|+...+.. +-++..|..+-..|.+
T Consensus        35 ~~la~~y~~~~~~~~A~~~~~~a-l~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~  111 (150)
T 4ga2_A           35 FYFAKLYYEAKEYDLAKKYICTY-INVQ-ERDPKAHRFLGLLYELEENTDKAVECYRRSVELN-PTQKDLVLKIAELLCK  111 (150)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            45788899999999999999998 5432 2356789999999999999999999999998864 3358899999999999


Q ss_pred             CCCHHHHHHH-HhhcccCCCCCCCChhhHHHHHHHHhCCCC
Q 038114           91 CGSLEDARVV-SDEMPQRNVIESPDLASWNAIIAGVASPSN  130 (170)
Q Consensus        91 ~~~~~~a~~~-~~~m~~~~~~~~p~~~~~~~li~~~~~~g~  130 (170)
                      .|++++|.+. ++...+...   -+...|...-..+.+.|+
T Consensus       112 ~~~~~~aa~~~~~~al~l~P---~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A          112 NDVTDGRAKYWVERAAKLFP---GSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HCSSSSHHHHHHHHHHHHST---TCHHHHHHHHHHHHTCCC
T ss_pred             cCChHHHHHHHHHHHHHhCc---CCHHHHHHHHHHHHHhCc
Confidence            9998876665 466554322   345667766666666653

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.19  E-value=1.6e-05  Score=55.11  Aligned_cols=132  Identities=8%  Similarity=-0.020  Sum_probs=96.8

Q ss_pred             hHHHhhhcccCCHHHHHHHHHHHHhhCCC-Cc-chhhHHHHHHHhhc--------ccchHHHHHHHHHHHhcCCCCCHHH
Q 038114           11 FTFYNSQPIQNLYNEALVAFDFLQNNTNF-RI-RPSTYACLISTCSS--------LRSLQLGRKVHDHILSSKSQPDVVL   80 (170)
Q Consensus        11 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~p-~~~~~~~li~~~~~--------~~~~~~a~~~~~~m~~~~~~~~~~~   80 (170)
                      +.+-..+.+.|++++|+..|++. ..... .| ....+..+-.++..        .|++++|...|++..+.... +...
T Consensus        56 ~~lg~~~~~~~~~~~A~~~~~~~-l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~  133 (261)
T 3qky_A           56 FYLARAYYQNKEYLLAASEYERF-IQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN-HELV  133 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHH-HHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT-CTTH
T ss_pred             HHHHHHHHHhCcHHHHHHHHHHH-HHHCCCCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC-chhH
Confidence            33788999999999999999998 54321 22 24456667777777        99999999999999875321 2223


Q ss_pred             H-----------------HHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCC----------CChHH
Q 038114           81 Q-----------------NYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASP----------SNANE  133 (170)
Q Consensus        81 ~-----------------~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~----------g~~~~  133 (170)
                      .                 -.+-..|.+.|++++|...|+...............+..+..+|...          |++++
T Consensus       134 ~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~  213 (261)
T 3qky_A          134 DDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRR  213 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHH
Confidence            3                 45577889999999999999998765331012344666777777655          88999


Q ss_pred             HHHHHHHHHhC
Q 038114          134 AMSLFSEMRDR  144 (170)
Q Consensus       134 a~~l~~~m~~~  144 (170)
                      |...|++..+.
T Consensus       214 A~~~~~~~~~~  224 (261)
T 3qky_A          214 AVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998765

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.18  E-value=4.2e-06  Score=56.38  Aligned_cols=90  Identities=16%  Similarity=0.057  Sum_probs=63.9

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCc-chhhHHH----------------HHHHhhcccchHHHHHHHHHHHhcCCCC
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRI-RPSTYAC----------------LISTCSSLRSLQLGRKVHDHILSSKSQP   76 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~----------------li~~~~~~~~~~~a~~~~~~m~~~~~~~   76 (170)
                      ...+.+.|++++|...|++. ...  .| +...+..                +-.++.+.|++++|...|++..+.. +-
T Consensus        11 g~~~~~~g~~~~A~~~~~~a-l~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~   86 (208)
T 3urz_A           11 VSAAIEAGQNGQAVSYFRQT-IAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PN   86 (208)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH-HHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHCCCHHHHHHHHHHH-HHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CC
Confidence            45566778888888888877 432  23 2334444                6667778888888888888887753 33


Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           77 DVVLQNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        77 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      +...+..+-..|...|++++|...|++..+.
T Consensus        87 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  117 (208)
T 3urz_A           87 NVDCLEACAEMQVCRGQEKDALRMYEKILQL  117 (208)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            5777888888888888888888888877654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.18  E-value=1.9e-05  Score=57.89  Aligned_cols=155  Identities=10%  Similarity=-0.038  Sum_probs=108.7

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhC----CCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhc----CCCCCHH
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNT----NFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSS----KSQPDVV   79 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~----~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~   79 (170)
                      .++ +-..|...|++++|...|++. ...    +-.+ ...++..+-.++...|++++|...|.+..+.    +.+....
T Consensus       184 ~~~~lg~~y~~~~~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  262 (378)
T 3q15_A          184 SLFVIAGNYDDFKHYDKALPHLEAA-LELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPK  262 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHH-HHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHH
Confidence            444 788899999999999999886 331    2211 2346777888888999999999999988761    2233477


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHhhcccCCC--CCCCChhhHHHHHHHHhCCCC---hHHHHHHHHHHHhCCCCCC-HhhH
Q 038114           80 LQNYILNMYGKCGSLEDARVVSDEMPQRNV--IESPDLASWNAIIAGVASPSN---ANEAMSLFSEMRDRELIPD-GLTV  153 (170)
Q Consensus        80 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~~~p~~~~~~~li~~~~~~g~---~~~a~~l~~~m~~~~~~p~-~~t~  153 (170)
                      ++..+-..|.+.|++++|...+++......  ..+.....++.+-..+...++   ..+|+..+++   .+..|+ ...+
T Consensus       263 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~  339 (378)
T 3q15_A          263 VLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACA  339 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHH
Confidence            889999999999999999999997653211  002234456666677778888   7777777765   333333 3345


Q ss_pred             HHHHHHhcCCCcccc
Q 038114          154 RSLLCACTSPSNVLY  168 (170)
Q Consensus       154 ~~ll~~~~~~g~~e~  168 (170)
                      ..+-..|.+.|+.++
T Consensus       340 ~~la~~y~~~g~~~~  354 (378)
T 3q15_A          340 RSAAAVFESSCHFEQ  354 (378)
T ss_dssp             HHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHCCCHHH
Confidence            667777777777654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.17  E-value=0.0001  Score=45.92  Aligned_cols=97  Identities=12%  Similarity=-0.028  Sum_probs=81.0

Q ss_pred             chhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcc----hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHH
Q 038114            7 TQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIR----PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQ   81 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~   81 (170)
                      +...+. +...+...|++++|...|++. ...  .|+    ...+..+-.++...|++++|...+....+.. +.+...+
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a-~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQA-LGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHH-HTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHH-HHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            344455 688899999999999999998 554  355    5678888888999999999999999998763 3357888


Q ss_pred             HHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           82 NYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        82 ~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      ..+-.+|.+.|++++|...|++....
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            99999999999999999999988754

>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=98.17  E-value=5.6e-06  Score=59.13  Aligned_cols=127  Identities=6%  Similarity=-0.089  Sum_probs=58.4

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhC----CCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhc----CCCC-CHHHHHH
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNT----NFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSS----KSQP-DVVLQNY   83 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~----~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~   83 (170)
                      ...|...|++++|...|.+. ...    +-.+ -..+|+.+-..|...|++++|...|.+..+.    |-.. -..+++.
T Consensus        43 ~~~~~~~g~~~~A~~~~~~a-l~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~  121 (307)
T 2ifu_A           43 AVAFKNAKQLEQAKDAYLQE-AEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDR  121 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH-HHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHH-HHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            44455556666665555544 211    1101 1224555555555555666665555554331    1110 1234555


Q ss_pred             HHHHHHcCCCHHHHHHHHhhcccCCCCC-CC--ChhhHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114           84 ILNMYGKCGSLEDARVVSDEMPQRNVIE-SP--DLASWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        84 li~~~~~~~~~~~a~~~~~~m~~~~~~~-~p--~~~~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      +-..|.+ |++++|...|++........ .+  ...+++.+-..+.+.|++++|+..|++..
T Consensus       122 lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  182 (307)
T 2ifu_A          122 AGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEK  182 (307)
T ss_dssp             HHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5555555 66666555555433211000 00  12345555555555566666665555554

>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=98.17  E-value=2.3e-05  Score=52.09  Aligned_cols=126  Identities=17%  Similarity=0.016  Sum_probs=79.5

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCC-CCcc--------------hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTN-FRIR--------------PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD   77 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~-~~p~--------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~   77 (170)
                      +-..+.+.|++++|...|++. .... -.|+              ...+..+-.++...|++++|...+....+.. +.+
T Consensus        44 ~g~~~~~~~~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~  121 (198)
T 2fbn_A           44 EGNEFFKKNEINEAIVKYKEA-LDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNN  121 (198)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccc
Confidence            566777888888888888887 4322 1121              2566677777778888888888888887753 345


Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHH-HHHHHHHh
Q 038114           78 VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAM-SLFSEMRD  143 (170)
Q Consensus        78 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~-~l~~~m~~  143 (170)
                      ...+..+-.+|...|++++|.+.|+.......   -+...+..+...+...++.+++. ..|..|..
T Consensus       122 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p---~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          122 VKALYKLGVANMYFGFLEEAKENLYKAASLNP---NNLDIRNSYELCVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST---TCHHHHHHHHHHHHHHHHHHC-----------
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC---CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            77777888888888888888888887665422   24455666666666656555555 44444443

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.16  E-value=5e-05  Score=55.59  Aligned_cols=153  Identities=9%  Similarity=-0.154  Sum_probs=108.3

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhC-CCCc-----chhhHHHHHHHhhcccchHHHHHHHHHHHhc----CCCC-C
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNT-NFRI-----RPSTYACLISTCSSLRSLQLGRKVHDHILSS----KSQP-D   77 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~-~~~p-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~   77 (170)
                      .+. +-..|...|+++.|...+++. ... .-.+     ...++..+-.+|...|++++|...|.+..+.    +-.+ .
T Consensus       145 ~~~~lg~~~~~~~~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  223 (383)
T 3ulq_A          145 FFFKMSESYYYMKQTYFSMDYARQA-YEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLM  223 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-HHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH-HHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHH
Confidence            444 788889999999999999887 432 1111     2346777888889999999999999887753    2111 1


Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHhhccc-----CCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC----CCC
Q 038114           78 VVLQNYILNMYGKCGSLEDARVVSDEMPQ-----RNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE----LIP  148 (170)
Q Consensus        78 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~----~~p  148 (170)
                      ..++..+-..|...|++++|.+.|++..+     ...  +....++..+...+...|++++|...+++.....    -..
T Consensus       224 ~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  301 (383)
T 3ulq_A          224 GRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNIL--PSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVI  301 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCG--GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccc--hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            35788889999999999999999987765     332  2235678888899999999999999998876431    111


Q ss_pred             CHhhHHHHHHHhcCCCc
Q 038114          149 DGLTVRSLLCACTSPSN  165 (170)
Q Consensus       149 ~~~t~~~ll~~~~~~g~  165 (170)
                      ....+..+-..+...|+
T Consensus       302 ~~~~~~~l~~~~~~~~~  318 (383)
T 3ulq_A          302 YLSEFEFLKSLYLSGPD  318 (383)
T ss_dssp             HHHHHHHHHHHHTSSCC
T ss_pred             HHHHHHHHHHHHhCCCc
Confidence            22234555556666554

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.14  E-value=3.5e-05  Score=56.41  Aligned_cols=149  Identities=7%  Similarity=-0.059  Sum_probs=108.3

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhC-----CCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhc----CCCC-CHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNT-----NFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSS----KSQP-DVVLQ   81 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~-----~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~   81 (170)
                      +-..|...|+++.|...+++. ...     +..+ ...+++.+-.+|...|++++|...|.+..+.    +-.+ ...++
T Consensus       147 lg~~y~~~~~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  225 (378)
T 3q15_A          147 VAEAYYHMKQTHVSMYHILQA-LDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISL  225 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHcCCcHHHHHHHHHH-HHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            788889999999999999886 431     1122 2446778888899999999999999887652    2111 24578


Q ss_pred             HHHHHHHHcCCCHHHHHHHHhhccc-----CCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCC----CCCHhh
Q 038114           82 NYILNMYGKCGSLEDARVVSDEMPQ-----RNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDREL----IPDGLT  152 (170)
Q Consensus        82 ~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~----~p~~~t  152 (170)
                      +.+-..|...|++++|.+.|++...     ...   ....++..+...+.+.|++++|...+++.....-    ......
T Consensus       226 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~---~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  302 (378)
T 3q15_A          226 LNIANSYDRSGDDQMAVEHFQKAAKVSREKVPD---LLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKEL  302 (378)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGG---GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCCh---hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            8888899999999999999998765     333   2367788888999999999999999998876421    222333


Q ss_pred             HHHHHHHhcCCCc
Q 038114          153 VRSLLCACTSPSN  165 (170)
Q Consensus       153 ~~~ll~~~~~~g~  165 (170)
                      +..+-..+...++
T Consensus       303 ~~~l~~ly~~~~~  315 (378)
T 3q15_A          303 FLFLQAVYKETVD  315 (378)
T ss_dssp             HHHHHHHHSSSCC
T ss_pred             HHHHHHHHhCCCc
Confidence            4555555555544

>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=98.14  E-value=3.7e-05  Score=54.36  Aligned_cols=127  Identities=9%  Similarity=-0.019  Sum_probs=96.8

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCC-Ccc----hhhHHHHHHHhhcccchHHHHHHHHHHHh----c-CCCCC-HHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNF-RIR----PSTYACLISTCSSLRSLQLGRKVHDHILS----S-KSQPD-VVLQ   81 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~-~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~-~~~~~-~~~~   81 (170)
                      +...+...|++++|+..|++. ..... .++    ..+++.+-.+|...|+++.|...|.+..+    . +..+. ..+|
T Consensus       121 l~~~~~~~~~~~~Ai~~~~~a-l~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  199 (293)
T 3u3w_A          121 VAAYVLKKVDYEYCILELKKL-LNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVR  199 (293)
T ss_dssp             HHHHHTTSSCHHHHHHHHHHH-HHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHH
T ss_pred             HHHHHHcccCHHHHHHHHHHH-HHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHH
Confidence            566677788999999999998 65322 233    22688888999999999999999999884    1 22222 3488


Q ss_pred             HHHHHHHHcCCCHHHHHHHHhhccc----CCCCCCCC-hhhHHHHHHHHhCCCC-hHHHHHHHHHHH
Q 038114           82 NYILNMYGKCGSLEDARVVSDEMPQ----RNVIESPD-LASWNAIIAGVASPSN-ANEAMSLFSEMR  142 (170)
Q Consensus        82 ~~li~~~~~~~~~~~a~~~~~~m~~----~~~~~~p~-~~~~~~li~~~~~~g~-~~~a~~l~~~m~  142 (170)
                      ..+-..|.+.|++++|...+++..+    .+.  .+. ..+|..+-..+...|+ +++|...+++..
T Consensus       200 ~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          200 YNHAKALYLDSRYEESLYQVNKAIEISCRINS--MALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTB--CTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCc--HHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            8999999999999999999886643    222  222 5678888899999994 699999888765

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.13  E-value=3.5e-06  Score=51.36  Aligned_cols=105  Identities=7%  Similarity=-0.091  Sum_probs=80.2

Q ss_pred             cccchHHHHHHHHHHHhcC--CCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChH
Q 038114           55 SLRSLQLGRKVHDHILSSK--SQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNAN  132 (170)
Q Consensus        55 ~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~  132 (170)
                      ..|++++|...|++..+.+  -+-+...+..+-..|.+.|++++|.+.|++..+...   -+...+..+...+...|+++
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p---~~~~~~~~l~~~~~~~g~~~   78 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFP---NHQALRVFYAMVLYNLGRYE   78 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHHTCHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC---CchHHHHHHHHHHHHcCCHH
Confidence            4588999999999998864  133467889999999999999999999999886644   34678888899999999999


Q ss_pred             HHHHHHHHHHhC-CCCCCHhhHHHHHHHhcC
Q 038114          133 EAMSLFSEMRDR-ELIPDGLTVRSLLCACTS  162 (170)
Q Consensus       133 ~a~~l~~~m~~~-~~~p~~~t~~~ll~~~~~  162 (170)
                      +|...|++.... .-.|+...|...+..+.+
T Consensus        79 ~A~~~~~~al~~~p~~~~~~~~~~ai~~~~~  109 (117)
T 3k9i_A           79 QGVELLLKIIAETSDDETIQSYKQAILFYAD  109 (117)
T ss_dssp             HHHHHHHHHHHHHCCCHHHHHTHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHHH
Confidence            999999987765 345556666666666654

>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=98.13  E-value=3.7e-05  Score=46.81  Aligned_cols=106  Identities=11%  Similarity=0.020  Sum_probs=83.4

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCC--CCC----HHHHH
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKS--QPD----VVLQN   82 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~~~----~~~~~   82 (170)
                      .|. +...+...|++++|...|++. .... +.+...+..+-..+...|++++|...+....+...  .++    ...+.
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a-~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKA-KELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHH-HhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            444 788889999999999999998 5443 34667888888899999999999999999877531  222    77888


Q ss_pred             HHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHH
Q 038114           83 YILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAI  121 (170)
Q Consensus        83 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~l  121 (170)
                      .+...|.+.|++++|.+.|+.....    .|+......+
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~~l  118 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE----HRTPDVLKKC  118 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH----CCCHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh----CCCHHHHHHH
Confidence            9999999999999999999988764    3444444433

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.12  E-value=1.3e-05  Score=53.00  Aligned_cols=134  Identities=11%  Similarity=-0.007  Sum_probs=98.4

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhh----CCCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhc----CCCC--
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNN----TNFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSS----KSQP--   76 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~----~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~--   76 (170)
                      ..+. +-..+...|++++|...+++. ..    .+..| ....+..+-..+...|++++|...+.+..+.    +-.+  
T Consensus        27 ~~~~~l~~~~~~~g~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  105 (203)
T 3gw4_A           27 GARFMLGYVYAFMDRFDEARASFQAL-QQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLA  105 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHH-HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHH-HHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHH
Confidence            3444 678888999999999999887 43    22222 3446777788889999999999999987653    2122  


Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHhhcccC----CCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           77 DVVLQNYILNMYGKCGSLEDARVVSDEMPQR----NVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        77 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      ....+..+-..+...|++++|.+.+++....    +.. ..-..++..+-..+...|++++|...+++..+.
T Consensus       106 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          106 ASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQ-VAIACAFRGLGDLAQQEKNLLEAQQHWLRARDI  176 (203)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccch-HHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            2456888888999999999999999876532    110 111334677788899999999999999877643

>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=98.11  E-value=4.6e-06  Score=63.45  Aligned_cols=121  Identities=7%  Similarity=-0.110  Sum_probs=93.4

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +-..+.+.|++++|.+.|++. .+.. +-+...|..+-.++.+.|++++|...+++..+.. +-+...|..+-.+|.+.|
T Consensus        12 lg~~~~~~g~~~~A~~~~~~A-l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g   88 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQA-IELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALG   88 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCHHHHHHHHHHH-HHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            567788999999999999998 5432 2357788999999999999999999999999874 345889999999999999


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHH--HhCCCChHHHHHHHH
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAG--VASPSNANEAMSLFS  139 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~--~~~~g~~~~a~~l~~  139 (170)
                      ++++|.+.|++..+...   -+...+..+-.+  +.+.|++++|..+++
T Consensus        89 ~~~eA~~~~~~al~~~p---~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           89 KFRAALRDYETVVKVKP---HDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             CHHHHHHHHHHHHHHST---TCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             CHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999998876533   122345555444  777899999999987

>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=98.10  E-value=5.2e-05  Score=48.30  Aligned_cols=92  Identities=11%  Similarity=-0.009  Sum_probs=78.3

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +-..+.+.|++++|...|++. .... +.+...|..+-.++...|++++|...|+...+.. +.++..+..+-.+|...|
T Consensus        27 ~g~~~~~~g~~~~A~~~~~~a-l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g  103 (148)
T 2vgx_A           27 LAFNQYQSGXYEDAHXVFQAL-CVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLLQXG  103 (148)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCChHHHHHHHHHH-HHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcC
Confidence            788899999999999999998 5433 2466778888889999999999999999998764 335778888999999999


Q ss_pred             CHHHHHHHHhhcccC
Q 038114           93 SLEDARVVSDEMPQR  107 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~  107 (170)
                      ++++|.+.|+...+.
T Consensus       104 ~~~~A~~~~~~al~~  118 (148)
T 2vgx_A          104 ELAEAESGLFLAQEL  118 (148)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999987654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.10  E-value=8.3e-05  Score=47.82  Aligned_cols=100  Identities=8%  Similarity=0.027  Sum_probs=86.5

Q ss_pred             cchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHH
Q 038114           41 IRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNA  120 (170)
Q Consensus        41 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~  120 (170)
                      .+...+..+-..+.+.|++++|...|.+..+.. +-+...|..+-.+|.+.|++++|...|+.......   -+...|..
T Consensus         9 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p---~~~~~~~~   84 (164)
T 3sz7_A            9 PESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDP---KYSKAWSR   84 (164)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC---CCHHHHHH
Confidence            355678888888999999999999999998864 33688999999999999999999999998876543   35678999


Q ss_pred             HHHHHhCCCChHHHHHHHHHHHhC
Q 038114          121 IIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus       121 li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      +-..+...|++++|...|++..+.
T Consensus        85 lg~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           85 LGLARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHh
Confidence            999999999999999999988765

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.10  E-value=9.1e-05  Score=49.74  Aligned_cols=137  Identities=7%  Similarity=-0.031  Sum_probs=97.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +-..+.+.|++++|+..|++. .... +-+...+..+-.++...|++++|...|++..+.. +-+...|..+-..|...|
T Consensus        60 lg~~~~~~g~~~~A~~~~~~a-l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKEL-LQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHH-HHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHh
Confidence            778889999999999999998 5433 2356788889999999999999999999998864 335788888888876655


Q ss_pred             C--HHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 038114           93 S--LEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLC  158 (170)
Q Consensus        93 ~--~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~  158 (170)
                      .  .+.+...|.....  .  .|....+...-.++...|++++|...|++..+  +.|+......+.+
T Consensus       137 ~~~~~~~~~~~~~~~~--~--~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~~l~~  198 (208)
T 3urz_A          137 EQEKKKLETDYKKLSS--P--TKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQKTLDK  198 (208)
T ss_dssp             HHHHHHHHHHHC---C--C--CHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhC--C--CchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHHHHHH
Confidence            3  4556666666532  1  23222333334455567899999999997764  5677665555443

>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=98.09  E-value=1.6e-05  Score=57.64  Aligned_cols=122  Identities=7%  Similarity=-0.118  Sum_probs=96.6

Q ss_pred             chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC--------------HHHHHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           42 RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD--------------VVLQNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        42 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      +...+..+-..+.+.|++++|...|.+..+......              ...|..+-.+|.+.|++++|...|+...+.
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            345677788888999999999999999988643322              589999999999999999999999998765


Q ss_pred             CCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCccc
Q 038114          108 NVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus       108 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e  167 (170)
                      ..   .+...|..+-.+|...|++++|...|++..+.. .-+...+..+-.++.+.|+.+
T Consensus       226 ~p---~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~  281 (336)
T 1p5q_A          226 DS---NNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQL  281 (336)
T ss_dssp             CT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHH
T ss_pred             CC---CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHH
Confidence            43   467889999999999999999999999887653 124456666666666555544

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.09  E-value=6e-05  Score=47.41  Aligned_cols=92  Identities=11%  Similarity=-0.071  Sum_probs=78.0

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +-..+.+.|++++|...|++. .... +.+...|..+-.++...|++++|...|+...+.. +.++..+..+-.+|...|
T Consensus        24 ~a~~~~~~g~~~~A~~~~~~a-l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g  100 (142)
T 2xcb_A           24 LGFNQYQAGKWDDAQKIFQAL-CMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQLG  100 (142)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHccHHHHHHHHHHH-HHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcC
Confidence            678889999999999999998 5433 2466678888888999999999999999998864 345778888999999999


Q ss_pred             CHHHHHHHHhhcccC
Q 038114           93 SLEDARVVSDEMPQR  107 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~  107 (170)
                      ++++|.+.|+.....
T Consensus       101 ~~~~A~~~~~~al~~  115 (142)
T 2xcb_A          101 DLDGAESGFYSARAL  115 (142)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999987654

>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=98.08  E-value=9.8e-05  Score=45.62  Aligned_cols=98  Identities=10%  Similarity=-0.011  Sum_probs=81.7

Q ss_pred             chhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038114            7 TQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYIL   85 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li   85 (170)
                      +...|. +-..+...|++++|...|++. .... +.+...+..+-.++...|++++|...+....+.. +.+...+..+-
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~a-l~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRA-ITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHH-HhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            344455 788999999999999999998 5443 2356788888999999999999999999998864 33688999999


Q ss_pred             HHHHcCCCHHHHHHHHhhcccC
Q 038114           86 NMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        86 ~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      .+|...|++++|...|+.....
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH
Confidence            9999999999999999987643

>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=98.07  E-value=7.6e-05  Score=46.17  Aligned_cols=97  Identities=7%  Similarity=0.031  Sum_probs=51.4

Q ss_pred             HHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCC----hhhHHHH
Q 038114           46 YACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPD----LASWNAI  121 (170)
Q Consensus        46 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~----~~~~~~l  121 (170)
                      +.-+=..+.+.|++++|...|.+..+.. +-+...|+.+-.+|.+.|++++|.+.|++..+.+....++    ..+|..+
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            3344445555566666666666655542 2235566666666666666666666666544321100111    1244455


Q ss_pred             HHHHhCCCChHHHHHHHHHHHh
Q 038114          122 IAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus       122 i~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      -..+...|++++|++.|++-..
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            5556666666666666665543

>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=98.07  E-value=0.0001  Score=45.12  Aligned_cols=95  Identities=8%  Similarity=-0.079  Sum_probs=80.4

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMY   88 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~   88 (170)
                      .|. +-..+.+.|++++|+..|++. .... +.+...|..+-.++.+.|++++|...+....+.. +.+...|..+-.++
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~a-l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEM-IKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHH-HHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            444 678889999999999999998 5433 2366788899999999999999999999998864 33588999999999


Q ss_pred             HcCCCHHHHHHHHhhcccC
Q 038114           89 GKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        89 ~~~~~~~~a~~~~~~m~~~  107 (170)
                      ...|++++|...|++....
T Consensus        83 ~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           83 IAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHh
Confidence            9999999999999987654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.07  E-value=2.6e-06  Score=62.72  Aligned_cols=152  Identities=9%  Similarity=-0.020  Sum_probs=88.5

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcch----hhHHHHHHHhhcccchHHHHHHHHHHHhc----CC-CCCHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRP----STYACLISTCSSLRSLQLGRKVHDHILSS----KS-QPDVVLQNY   83 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~~~~~~~~~   83 (170)
                      +-..+...|++++|+..|++. ...... +.    ..+..+-..+...|++++|...+.+..+.    +- ......+..
T Consensus        54 ~g~~~~~~g~~~~A~~~~~~a-l~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  131 (411)
T 4a1s_A           54 EGERLCNAGDCRAGVAFFQAA-IQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGN  131 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhCcHHHHHHHHHHH-HHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHH
Confidence            456667778888888888777 443211 22    35666777777778888888877776542    11 222456677


Q ss_pred             HHHHHHcCCCHHHHHHHHhhcccC----CCCCCCChhhHHHHHHHHhCCCC-----------------hHHHHHHHHHHH
Q 038114           84 ILNMYGKCGSLEDARVVSDEMPQR----NVIESPDLASWNAIIAGVASPSN-----------------ANEAMSLFSEMR  142 (170)
Q Consensus        84 li~~~~~~~~~~~a~~~~~~m~~~----~~~~~p~~~~~~~li~~~~~~g~-----------------~~~a~~l~~~m~  142 (170)
                      +-..|...|++++|...|++....    +-. .....++..+...|...|+                 +++|...+.+..
T Consensus       132 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al  210 (411)
T 4a1s_A          132 LGNTLKVMGRFDEAAICCERHLTLARQLGDR-LSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENL  210 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH-HHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHhhch-HHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHH
Confidence            777777777877777777765432    100 1223456666666666677                 667766666543


Q ss_pred             hC----CCCC-CHhhHHHHHHHhcCCCccc
Q 038114          143 DR----ELIP-DGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus       143 ~~----~~~p-~~~t~~~ll~~~~~~g~~e  167 (170)
                      ..    +-.| ...++..+-..+...|+++
T Consensus       211 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  240 (411)
T 4a1s_A          211 KLMRDLGDRGAQGRACGNLGNTYYLLGDFQ  240 (411)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChH
Confidence            31    1111 1234555555555555544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.07  E-value=3e-06  Score=62.38  Aligned_cols=155  Identities=10%  Similarity=-0.051  Sum_probs=103.6

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhC----C-CCcchhhHHHHHHHhhcccc-----------------hHHHHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNT----N-FRIRPSTYACLISTCSSLRS-----------------LQLGRKVHDHIL   70 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~----~-~~p~~~~~~~li~~~~~~~~-----------------~~~a~~~~~~m~   70 (170)
                      +-..|...|++++|...|++. ...    + ......++..+-..+...|+                 ++.|...+.+..
T Consensus       132 l~~~~~~~g~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al  210 (411)
T 4a1s_A          132 LGNTLKVMGRFDEAAICCERH-LTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENL  210 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHH-HHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHH
Confidence            677788889999998888876 322    1 11233467777777888888                 888888887765


Q ss_pred             hc----CCCC-CHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCC---CCCChhhHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114           71 SS----KSQP-DVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVI---ESPDLASWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        71 ~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~---~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      +.    +-.+ ....+..+-..|...|++++|.+.|++.......   ......++..+...+...|++++|...+++..
T Consensus       211 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  290 (411)
T 4a1s_A          211 KLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTL  290 (411)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            42    2112 2457778888888889999998888876532110   01112367788888888899999988888775


Q ss_pred             hCCC-----CCCHhhHHHHHHHhcCCCcccc
Q 038114          143 DREL-----IPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       143 ~~~~-----~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      ...-     .....++..+-..+...|+.++
T Consensus       291 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  321 (411)
T 4a1s_A          291 ALAVELGEREVEAQSCYSLGNTYTLLHEFNT  321 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            4321     1124566777777777777654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.06  E-value=1.4e-05  Score=50.46  Aligned_cols=129  Identities=12%  Similarity=-0.011  Sum_probs=95.4

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCC-Ccc----hhhHHHHHHHhhcccchHHHHHHHHHHHhc----CCCC-CHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNF-RIR----PSTYACLISTCSSLRSLQLGRKVHDHILSS----KSQP-DVVLQN   82 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~-~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~   82 (170)
                      +-..+...|++++|...+++. ..... .++    ..++..+-..+...|++++|...+.+..+.    +-.+ ....+.
T Consensus        15 l~~~~~~~~~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   93 (164)
T 3ro3_A           15 LGNTHYLLGNFRDAVIAHEQR-LLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCY   93 (164)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHH-HHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHH
Confidence            677888999999999999887 43211 111    136777888888999999999999987653    2111 145778


Q ss_pred             HHHHHHHcCCCHHHHHHHHhhcccC----CCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114           83 YILNMYGKCGSLEDARVVSDEMPQR----NVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus        83 ~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      .+-..+...|++++|.+.+++....    +.. ......+..+...+...|++++|...+++..+
T Consensus        94 ~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           94 SLGNTYTLLQDYEKAIDYHLKHLAIAQELKDR-IGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHccch-HhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            8888899999999999999876532    110 12245677788889999999999999987654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.05  E-value=7.3e-05  Score=52.93  Aligned_cols=137  Identities=10%  Similarity=-0.062  Sum_probs=100.1

Q ss_pred             HHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC--HHHHHHHHHHHH
Q 038114           12 TFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD--VVLQNYILNMYG   89 (170)
Q Consensus        12 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~   89 (170)
                      .+...+...|++++|.++|+.+ ...+  |+....-.+-..+.+.+++++|+..|....+.. .|.  ...+..+=.++.
T Consensus       107 ayA~~L~~~g~y~eA~~~l~~~-~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~  182 (282)
T 4f3v_A          107 GFAACEAAQGNYADAMEALEAA-PVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAA  182 (282)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTSS-CCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHH-HhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHH
Confidence            3577889999999999999998 6544  544344444557888999999999998554322 121  236777788899


Q ss_pred             cCCCHHHHHHHHhhcccCCCCCCCC--hhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 038114           90 KCGSLEDARVVSDEMPQRNVIESPD--LASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSL  156 (170)
Q Consensus        90 ~~~~~~~a~~~~~~m~~~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~l  156 (170)
                      +.|++++|++.|++......  .|.  .......-.++.+.|+.++|..+|+++...  .|+...+..|
T Consensus       183 ~LG~~~eAl~~l~~a~~g~~--~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~~~~~~aL  247 (282)
T 4f3v_A          183 NLALFTEAERRLTEANDSPA--GEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HPEPKVAAAL  247 (282)
T ss_dssp             HTTCHHHHHHHHHHHHTSTT--TTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCCHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHhcCCC--CccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHHHH
Confidence            99999999999998875433  354  335566667788889999999999999875  3444444444

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.04  E-value=3.3e-05  Score=54.66  Aligned_cols=125  Identities=8%  Similarity=-0.021  Sum_probs=97.4

Q ss_pred             HHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHH-HHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc
Q 038114           12 TFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACL-ISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK   90 (170)
Q Consensus        12 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l-i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   90 (170)
                      ++...+.+.|++++|...+++. ...  .|+....... ...+...++.+.+...+.+..+.. +.+...+..+-..|..
T Consensus       156 ~la~~~~~~g~~~~A~~~l~~~-~~~--~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~  231 (287)
T 3qou_A          156 LLAETLIALNRSEDAEAVLXTI-PLQ--DQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQ  231 (287)
T ss_dssp             HHHHHHHHTTCHHHHHHHHTTS-CGG--GCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHhC-chh--hcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHH
Confidence            3788999999999999999998 443  3444432222 223566777888889998888764 4468899999999999


Q ss_pred             CCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHH
Q 038114           91 CGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEM  141 (170)
Q Consensus        91 ~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m  141 (170)
                      .|++++|.+.|.+..+.... ..+...+..+...+...|+.+.|...+++-
T Consensus       232 ~g~~~~A~~~l~~~l~~~p~-~~~~~a~~~l~~~~~~~g~~~~a~~~~r~a  281 (287)
T 3qou_A          232 VGRNEEALELLFGHLRXDLT-AADGQTRXTFQEILAALGTGDALASXYRRQ  281 (287)
T ss_dssp             TTCHHHHHHHHHHHHHHCTT-GGGGHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHhcccc-cccchHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            99999999999998876441 123578999999999999999998888754

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.02  E-value=0.00011  Score=49.80  Aligned_cols=134  Identities=7%  Similarity=-0.096  Sum_probs=93.2

Q ss_pred             HhHHHhhhcccCCHHHHHHHHHHHHhhCCC-Ccch-hhHHHHHHHhh------------------cccchHHHHHHHHHH
Q 038114           10 RFTFYNSQPIQNLYNEALVAFDFLQNNTNF-RIRP-STYACLISTCS------------------SLRSLQLGRKVHDHI   69 (170)
Q Consensus        10 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~p~~-~~~~~li~~~~------------------~~~~~~~a~~~~~~m   69 (170)
                      .+.+..++.+.|++++|+..|++. ..... .+.. ..+-.+-.++.                  ..|++++|...|+.+
T Consensus        44 ~~~lg~~~~~~~~~~~A~~~~~~~-l~~~P~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  122 (225)
T 2yhc_A           44 QLDLIYAYYKNADLPLAQAAIDRF-IRLNPTHPNIDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKL  122 (225)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH-HHHCTTCTTHHHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHH-HHHCcCCCcHHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHH
Confidence            344788999999999999999998 54322 2221 12322222332                  368899999999999


Q ss_pred             HhcCCCCCHHHH-----------------HHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChH
Q 038114           70 LSSKSQPDVVLQ-----------------NYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNAN  132 (170)
Q Consensus        70 ~~~~~~~~~~~~-----------------~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~  132 (170)
                      .+.-. -+...+                 -.+-..|.+.|++++|...|+.+.+...........+..+..++.+.|+++
T Consensus       123 l~~~P-~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~  201 (225)
T 2yhc_A          123 VRGYP-NSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNA  201 (225)
T ss_dssp             HTTCT-TCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHCc-CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcH
Confidence            87521 122222                 234456888999999999999988653310111356888889999999999


Q ss_pred             HHHHHHHHHHhCC
Q 038114          133 EAMSLFSEMRDRE  145 (170)
Q Consensus       133 ~a~~l~~~m~~~~  145 (170)
                      +|...++.+...+
T Consensus       202 ~A~~~~~~l~~~~  214 (225)
T 2yhc_A          202 QAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHhhC
Confidence            9999999888764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.02  E-value=7.3e-06  Score=59.86  Aligned_cols=155  Identities=11%  Similarity=-0.022  Sum_probs=102.5

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhC-CCCcc----hhhHHHHHHHhhcccc--------------------hHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNT-NFRIR----PSTYACLISTCSSLRS--------------------LQLGRKVHD   67 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~-~~~p~----~~~~~~li~~~~~~~~--------------------~~~a~~~~~   67 (170)
                      +...+...|++++|...+++. ... .-.++    ..++..+-..+...|+                    ++.|...+.
T Consensus        93 la~~~~~~g~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~  171 (406)
T 3sf4_A           93 LGNTLKVLGNFDEAIVCCQRH-LDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYE  171 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHH
Confidence            677788888999888888776 321 11111    3367777777888888                    888888887


Q ss_pred             HHHhc----CCCC-CHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCC---CCCChhhHHHHHHHHhCCCChHHHHHHHH
Q 038114           68 HILSS----KSQP-DVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVI---ESPDLASWNAIIAGVASPSNANEAMSLFS  139 (170)
Q Consensus        68 ~m~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~---~~p~~~~~~~li~~~~~~g~~~~a~~l~~  139 (170)
                      +..+.    +..+ ...++..+-..|...|++++|.+.|++.......   ......+|..+...+...|++++|...++
T Consensus       172 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  251 (406)
T 3sf4_A          172 ENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYK  251 (406)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            76542    2122 2457778888888889999988888876532110   01113367778888888899999988888


Q ss_pred             HHHhC----CCCC-CHhhHHHHHHHhcCCCcccc
Q 038114          140 EMRDR----ELIP-DGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       140 ~m~~~----~~~p-~~~t~~~ll~~~~~~g~~e~  168 (170)
                      +....    +-.+ ...++..+-..+...|++++
T Consensus       252 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  285 (406)
T 3sf4_A          252 KTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEK  285 (406)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHH
Confidence            77543    1111 14566777777777777654

>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=98.02  E-value=0.00016  Score=50.93  Aligned_cols=95  Identities=11%  Similarity=-0.011  Sum_probs=74.9

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMY   88 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~   88 (170)
                      .+. +-..+.+.|++++|...|++. .... +-+...|..+-.++.+.|++++|...+....+.. +-+...+..+-.+|
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~a-l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (281)
T 2c2l_A            6 ELKEQGNRLFVGRKYPEAAACYGRA-ITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQ   82 (281)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH-HHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            344 677888899999999999887 4432 2266678888888889999999999999887753 33577888888899


Q ss_pred             HcCCCHHHHHHHHhhcccC
Q 038114           89 GKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        89 ~~~~~~~~a~~~~~~m~~~  107 (170)
                      .+.|++++|...|+...+.
T Consensus        83 ~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            9999999999999876643

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.01  E-value=4.3e-05  Score=46.95  Aligned_cols=89  Identities=11%  Similarity=-0.011  Sum_probs=44.7

Q ss_pred             HHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCC
Q 038114           50 ISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPS  129 (170)
Q Consensus        50 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g  129 (170)
                      -..+.+.|++++|...|+...+.. +-+...|..+-.++.+.|++++|...|+...+...   -+...+..+...+...|
T Consensus        24 g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P---~~~~~~~~la~~~~~~g   99 (121)
T 1hxi_A           24 GLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP---KDIAVHAALAVSHTNEH   99 (121)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHcC
Confidence            334445555555555555555432 22344555555555555555555555555443322   12344455555555555


Q ss_pred             ChHHHHHHHHHHH
Q 038114          130 NANEAMSLFSEMR  142 (170)
Q Consensus       130 ~~~~a~~l~~~m~  142 (170)
                      ++++|...+++..
T Consensus       100 ~~~~A~~~~~~al  112 (121)
T 1hxi_A          100 NANAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            5555555555444

>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=98.00  E-value=8.9e-05  Score=49.20  Aligned_cols=144  Identities=6%  Similarity=-0.100  Sum_probs=94.5

Q ss_pred             hhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCC-CC--------------HHH
Q 038114           16 SQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQ-PD--------------VVL   80 (170)
Q Consensus        16 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~--------------~~~   80 (170)
                      .....|.++.+.+.|+.- ... ..-....+..+-..+...|++++|...|.+..+.... |+              ...
T Consensus        13 ~~~~~~~~~~~~~~~~~~-~~~-~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~   90 (198)
T 2fbn_A           13 GRENLYFQGAKKSIYDYT-DEE-KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISC   90 (198)
T ss_dssp             ---------CCCSGGGCC-HHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHH
T ss_pred             hhhhhhhccccCchhhCC-HHH-HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHH
Confidence            334445555555555432 111 0112335666677788899999999999999874221 11              378


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHh
Q 038114           81 QNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCAC  160 (170)
Q Consensus        81 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~  160 (170)
                      |..+-.+|.+.|++++|...|+.......   .+...|..+-..+...|++++|...|++..+.. .-+...+..+-.++
T Consensus        91 ~~~la~~~~~~~~~~~A~~~~~~al~~~p---~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  166 (198)
T 2fbn_A           91 NLNLATCYNKNKDYPKAIDHASKVLKIDK---NNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCV  166 (198)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHST---TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCc---ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHH
Confidence            88899999999999999999998876533   466788888999999999999999999887653 11344455555544


Q ss_pred             cCCCc
Q 038114          161 TSPSN  165 (170)
Q Consensus       161 ~~~g~  165 (170)
                      ...++
T Consensus       167 ~~~~~  171 (198)
T 2fbn_A          167 NKLKE  171 (198)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44333

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=97.97  E-value=8.7e-06  Score=57.59  Aligned_cols=155  Identities=11%  Similarity=-0.021  Sum_probs=101.4

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhC-CCCcc----hhhHHHHHHHhhcccc--------------------hHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNT-NFRIR----PSTYACLISTCSSLRS--------------------LQLGRKVHD   67 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~-~~~p~----~~~~~~li~~~~~~~~--------------------~~~a~~~~~   67 (170)
                      +...+...|++++|...+++. ... .-.++    ..++..+-..+...|+                    ++.|...+.
T Consensus        89 l~~~~~~~g~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~  167 (338)
T 3ro2_A           89 LGNTLKVLGNFDEAIVCCQRH-LDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYE  167 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHH-HHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHH
Confidence            677788888999998888776 321 11112    3367777777888888                    888888887


Q ss_pred             HHHhc----CCCC-CHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCC---CCCChhhHHHHHHHHhCCCChHHHHHHHH
Q 038114           68 HILSS----KSQP-DVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVI---ESPDLASWNAIIAGVASPSNANEAMSLFS  139 (170)
Q Consensus        68 ~m~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~---~~p~~~~~~~li~~~~~~g~~~~a~~l~~  139 (170)
                      +..+.    +..+ ....+..+...|...|++++|.+.+++.......   ......++..+...+...|++++|...++
T Consensus       168 ~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  247 (338)
T 3ro2_A          168 ENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYK  247 (338)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            76542    2112 2457777888888889999998888876432110   01113367777888888899999988888


Q ss_pred             HHHhCC----CCC-CHhhHHHHHHHhcCCCcccc
Q 038114          140 EMRDRE----LIP-DGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       140 ~m~~~~----~~p-~~~t~~~ll~~~~~~g~~e~  168 (170)
                      +.....    -.+ ...++..+-..+...|++++
T Consensus       248 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  281 (338)
T 3ro2_A          248 KTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEK  281 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHH
Confidence            775431    111 14456667777777776654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.95  E-value=0.00018  Score=43.90  Aligned_cols=93  Identities=12%  Similarity=-0.040  Sum_probs=50.1

Q ss_pred             HHHhhhcccCCHHHHHHHHHHHHhhCCCCcch---hhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC--HHHHHHHHH
Q 038114           12 TFYNSQPIQNLYNEALVAFDFLQNNTNFRIRP---STYACLISTCSSLRSLQLGRKVHDHILSSKSQPD--VVLQNYILN   86 (170)
Q Consensus        12 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~   86 (170)
                      .+-..+.+.|++++|...|+.. ..... .+.   ..+..+-.++...|++++|...|....+......  ...+..+-.
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~-~~~~p-~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~   84 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSF-LELYP-NGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHH-HHHCS-SSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHH-HHHCC-CCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHH
Confidence            3455556666666666666665 33211 111   2444555555666666666666666655421110  444555555


Q ss_pred             HHHcCCCHHHHHHHHhhccc
Q 038114           87 MYGKCGSLEDARVVSDEMPQ  106 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~  106 (170)
                      +|.+.|++++|...|+....
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666665554

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=97.93  E-value=3.5e-05  Score=56.17  Aligned_cols=156  Identities=11%  Similarity=-0.066  Sum_probs=110.2

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhC-CCCcc----hhhHHHHHHHhhcccchHHHHHHHHHHHhc----CCCCC-H
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNT-NFRIR----PSTYACLISTCSSLRSLQLGRKVHDHILSS----KSQPD-V   78 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~-~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~-~   78 (170)
                      .+. +...+...|++++|...+++. ... .-.++    ..++..+-..+...|++++|...+.+..+.    +..+. .
T Consensus       189 ~~~~la~~~~~~g~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  267 (406)
T 3sf4_A          189 AFGNLGNTHYLLGNFRDAVIAHEQR-LLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA  267 (406)
T ss_dssp             HHHHHHHHHHHHTBHHHHHHHHHHH-HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHH-HHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHH
Confidence            344 688889999999999999887 422 11122    237788888899999999999999988653    21111 5


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHhhcccCCCC---CCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC----CCC-CCH
Q 038114           79 VLQNYILNMYGKCGSLEDARVVSDEMPQRNVI---ESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR----ELI-PDG  150 (170)
Q Consensus        79 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~---~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~----~~~-p~~  150 (170)
                      .++..+-..|.+.|++++|.+.|++.......   ......++..+...|...|++++|...+++..+.    +-. ...
T Consensus       268 ~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  347 (406)
T 3sf4_A          268 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGEL  347 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchh
Confidence            68888999999999999999999976542110   0111457888889999999999999999987543    211 224


Q ss_pred             hhHHHHHHHhcCCCcc
Q 038114          151 LTVRSLLCACTSPSNV  166 (170)
Q Consensus       151 ~t~~~ll~~~~~~g~~  166 (170)
                      .++..+-..+...|+.
T Consensus       348 ~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          348 TARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhhHh
Confidence            4566666666555544

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.93  E-value=0.00019  Score=43.79  Aligned_cols=97  Identities=7%  Similarity=-0.033  Sum_probs=75.6

Q ss_pred             HHHHHHhhcccchHHHHHHHHHHHhcCCCCCH---HHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCC-hhhHHHHH
Q 038114           47 ACLISTCSSLRSLQLGRKVHDHILSSKSQPDV---VLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPD-LASWNAII  122 (170)
Q Consensus        47 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~-~~~~~~li  122 (170)
                      ..+-..+...|++++|...|....+.... +.   ..+..+-.+|.+.|++++|...|+........ .+. ...+..+.
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la   83 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHH
Confidence            34455677889999999999999875322 23   57778888999999999999999998765331 111 45677788


Q ss_pred             HHHhCCCChHHHHHHHHHHHhCC
Q 038114          123 AGVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus       123 ~~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      ..+...|++++|...|++..+..
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC
Confidence            88999999999999999988653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.92  E-value=0.00032  Score=50.97  Aligned_cols=153  Identities=10%  Similarity=-0.042  Sum_probs=103.2

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCC--c--chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCC--CCHHHHH----
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFR--I--RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQ--PDVVLQN----   82 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~--p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~~~~----   82 (170)
                      +-..+...|++++|...+++. ......  +  ...++..+-..+...|++++|...+++..+..-.  .......    
T Consensus       141 la~~~~~~g~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~  219 (373)
T 1hz4_A          141 RAQLLWAWARLDEAEASARSG-IEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANK  219 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHH-HHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHH
Confidence            667788999999999999987 432211  1  2345777778888999999999999988753111  1122111    


Q ss_pred             HHHHHHHcCCCHHHHHHHHhhcccCCCCCCCC---hhhHHHHHHHHhCCCChHHHHHHHHHHHhC----CCCCCHh-hHH
Q 038114           83 YILNMYGKCGSLEDARVVSDEMPQRNVIESPD---LASWNAIIAGVASPSNANEAMSLFSEMRDR----ELIPDGL-TVR  154 (170)
Q Consensus        83 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~---~~~~~~li~~~~~~g~~~~a~~l~~~m~~~----~~~p~~~-t~~  154 (170)
                      .....+...|++++|...+++......  .+.   ...+..+...+...|++++|...+++....    |..++.. .+.
T Consensus       220 ~~~~~~~~~g~~~~A~~~~~~a~~~~~--~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~  297 (373)
T 1hz4_A          220 VRVIYWQMTGDKAAAANWLRHTAKPEF--ANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLL  297 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHSCCCCC--TTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHhCCCCCC--CcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHH
Confidence            233457799999999999998876433  221   234667778899999999999999887543    3222332 455


Q ss_pred             HHHHHhcCCCcccc
Q 038114          155 SLLCACTSPSNVLY  168 (170)
Q Consensus       155 ~ll~~~~~~g~~e~  168 (170)
                      .+-.++...|+.++
T Consensus       298 ~la~~~~~~g~~~~  311 (373)
T 1hz4_A          298 LLNQLYWQAGRKSD  311 (373)
T ss_dssp             HHHHHHHHHTCHHH
T ss_pred             HHHHHHHHhCCHHH
Confidence            55555666665543

>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=97.92  E-value=7e-05  Score=53.39  Aligned_cols=131  Identities=8%  Similarity=-0.101  Sum_probs=95.3

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhh----CCCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhc----CCCC-CH
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNN----TNFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSS----KSQP-DV   78 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~----~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~   78 (170)
                      .|+ +...|.+.|++++|+..|++. ..    .|-.. -..++..+-..|.. |++++|...|.+..+.    |-.. ..
T Consensus        78 ~~~~lg~~~~~~g~~~~A~~~~~~A-l~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~  155 (307)
T 2ifu_A           78 AFEQAGMMLKDLQRMPEAVQYIEKA-SVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAA  155 (307)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHH-HHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHH-HHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHH
Confidence            455 778888999999999999886 32    22211 23467778888888 9999999999987653    2111 14


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHhhcccCCCC--CCCC-hhhHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114           79 VLQNYILNMYGKCGSLEDARVVSDEMPQRNVI--ESPD-LASWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        79 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~~p~-~~~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      .+++.+-..|.+.|++++|...|++.......  ..+. ...+..+...+...|++++|...|++..
T Consensus       156 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          156 ELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            67888999999999999999999987642110  0121 2256666777778899999999999887

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=97.91  E-value=0.00033  Score=49.44  Aligned_cols=128  Identities=9%  Similarity=0.008  Sum_probs=95.3

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCC---Ccc--hhhHHHHHHHhhcccchHHHHHHHHHHHh---c-CCCC--CHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNF---RIR--PSTYACLISTCSSLRSLQLGRKVHDHILS---S-KSQP--DVVLQ   81 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~---~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~-~~~~--~~~~~   81 (170)
                      +...+...|++++|+..+++. .....   .+.  ..+|+.+-..|...|++++|...|.+..+   . +-.+  ...++
T Consensus       121 ~~~~~~~~~~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~  199 (293)
T 2qfc_A          121 VAAYVLKKVDYEYCILELKKL-LNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVR  199 (293)
T ss_dssp             HHHHHHTSSCHHHHHHHHHHH-HTTCCCSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHH
T ss_pred             HHHHHhcCCCHHHHHHHHHHH-HHHHhcCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHH
Confidence            456677889999999999987 53221   111  34788888999999999999999998873   2 2122  22688


Q ss_pred             HHHHHHHHcCCCHHHHHHHHhhcccC----CCCCCCChhhHHHHHHHHhCCCChHHH-HHHHHHHH
Q 038114           82 NYILNMYGKCGSLEDARVVSDEMPQR----NVIESPDLASWNAIIAGVASPSNANEA-MSLFSEMR  142 (170)
Q Consensus        82 ~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~p~~~~~~~li~~~~~~g~~~~a-~~l~~~m~  142 (170)
                      +.+-..|.+.|++++|...|++....    +.. ..-..+|..+-..|...|+.++| ...+++-.
T Consensus       200 ~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~-~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          200 YNHAKALYLDSRYEESLYQVNKAIEISCRINSM-ALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBC-SSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcH-HHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            99999999999999999999876432    210 11256788888999999999999 77676543

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.91  E-value=8.7e-05  Score=45.52  Aligned_cols=93  Identities=13%  Similarity=-0.047  Sum_probs=77.5

Q ss_pred             HHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC
Q 038114           12 TFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC   91 (170)
Q Consensus        12 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~   91 (170)
                      .+-..+.+.|++++|+..|++. .... +-+...+..+-.++...|++++|...|+...+.. +-+...+..+-.+|.+.
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~a-l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAV-CQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHH-HHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHH-HHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            3667888999999999999998 5432 2366678888888999999999999999998864 33577899999999999


Q ss_pred             CCHHHHHHHHhhcccC
Q 038114           92 GSLEDARVVSDEMPQR  107 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~  107 (170)
                      |++++|...|+...+.
T Consensus        99 g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           99 HNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHC-
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            9999999999987654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=97.90  E-value=2.7e-05  Score=54.98  Aligned_cols=131  Identities=11%  Similarity=0.005  Sum_probs=89.3

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhC----CC-CcchhhHHHHHHHhhcccchHHHHHHHHHHHhc----CCCC-CHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNT----NF-RIRPSTYACLISTCSSLRSLQLGRKVHDHILSS----KSQP-DVVLQN   82 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~----~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~   82 (170)
                      +...+...|++++|...+++. ...    +. .....++..+...+...|++++|...+.+..+.    +..+ ...++.
T Consensus       189 l~~~~~~~~~~~~A~~~~~~a-~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  267 (338)
T 3ro2_A          189 LGNTHYLLGNFRDAVIAHEQR-LLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCY  267 (338)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHH-HHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHH-HHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHH
Confidence            677778888899888888876 321    11 111236777777788888888888888877642    1111 155777


Q ss_pred             HHHHHHHcCCCHHHHHHHHhhcccCCCC---CCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           83 YILNMYGKCGSLEDARVVSDEMPQRNVI---ESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        83 ~li~~~~~~~~~~~a~~~~~~m~~~~~~---~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      .+-..|...|++++|...+++.......   ......++..+...+...|++++|...+++..+.
T Consensus       268 ~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          268 SLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            7888888889998888888876432110   0112346777788888888999998888877654

>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=97.90  E-value=0.00015  Score=54.74  Aligned_cols=128  Identities=12%  Similarity=-0.031  Sum_probs=98.5

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcc--------------hhhHHHHHHHhhcccchHHHHHHHHHHHhcCC
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIR--------------PSTYACLISTCSSLRSLQLGRKVHDHILSSKS   74 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~--------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   74 (170)
                      .|. +-..+.+.|++++|+..|++. ........              ...|..+-.++.+.|++++|...+....+.. 
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~A-l~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  347 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKI-VSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-  347 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-HHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHH-HHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-
Confidence            344 678889999999999999988 44321111              4678888889999999999999999998864 


Q ss_pred             CCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHH-HHHHHH
Q 038114           75 QPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMS-LFSEMR  142 (170)
Q Consensus        75 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~-l~~~m~  142 (170)
                      +.+...|..+-.+|.+.|++++|...|+...+...   -+...+..+...+.+.++.+++.. ++..|.
T Consensus       348 p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P---~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          348 SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP---QNKAARLQISMCQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-------CHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34688999999999999999999999999876533   345678888888888888877764 455553

>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=97.88  E-value=9e-05  Score=56.35  Aligned_cols=115  Identities=5%  Similarity=-0.086  Sum_probs=87.1

Q ss_pred             HHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCC
Q 038114           51 STCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSN  130 (170)
Q Consensus        51 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~  130 (170)
                      ..+.+.|++++|.+.|++..+.. +-+...|..+-.+|.+.|++++|.+.|++..+...   -+...|..+-..|...|+
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p---~~~~~~~~lg~~~~~~g~   89 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK---KYIKGYYRRAASNMALGK   89 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT---TCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHcCC
Confidence            34567899999999999998863 33588999999999999999999999999887643   456788899999999999


Q ss_pred             hHHHHHHHHHHHhCC-CCCCHhhHHHHHHHhcCCCccccC
Q 038114          131 ANEAMSLFSEMRDRE-LIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       131 ~~~a~~l~~~m~~~~-~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      +++|...|++..+.. -.++.......+..+.+.|+++++
T Consensus        90 ~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A  129 (477)
T 1wao_1           90 FRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERA  129 (477)
T ss_dssp             HHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999887653 222322222223225555555543

>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=97.88  E-value=0.0003  Score=59.65  Aligned_cols=141  Identities=6%  Similarity=0.028  Sum_probs=83.6

Q ss_pred             chhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038114            7 TQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYIL   85 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li   85 (170)
                      +...|. ++..|.+.|++++|.+.+... +...  +++...+.+..+|++.+++++...+.    +   .++...|..+-
T Consensus      1133 D~say~eVa~~~~~lGkyEEAIeyL~mA-rk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iG 1202 (1630)
T 1xi4_A         1133 DPSSYMEVVQAANTSGNWEELVKYLQMA-RKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVG 1202 (1630)
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHHH-Hhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHH
Confidence            344555 899999999999999999887 5443  33333334777777777766433332    1   23444455555


Q ss_pred             HHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC---------------------
Q 038114           86 NMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR---------------------  144 (170)
Q Consensus        86 ~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~---------------------  144 (170)
                      ..|...|++++|...|...           ..|..+...+++.|++++|.+.+++-...                     
T Consensus      1203 d~le~eg~YeeA~~~Y~kA-----------~ny~rLA~tLvkLge~q~AIEaarKA~n~~aWkev~~acve~~Ef~LA~~ 1271 (1630)
T 1xi4_A         1203 DRCYDEKMYDAAKLLYNNV-----------SNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQM 1271 (1630)
T ss_pred             HHHHhcCCHHHHHHHHHhh-----------hHHHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHHHhhhhHHHHHHH
Confidence            5566666666666666652           24555555555555555555555433110                     


Q ss_pred             ---CCCCCHhhHHHHHHHhcCCCcccc
Q 038114          145 ---ELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       145 ---~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                         ++..+...+..++..|.+.|.+++
T Consensus      1272 cgl~Iiv~~deLeeli~yYe~~G~feE 1298 (1630)
T 1xi4_A         1272 CGLHIVVHADELEELINYYQDRGYFEE 1298 (1630)
T ss_pred             HHHhhhcCHHHHHHHHHHHHHcCCHHH
Confidence               123345556677777777777755

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.85  E-value=0.00012  Score=56.00  Aligned_cols=129  Identities=8%  Similarity=-0.024  Sum_probs=94.9

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhC-----C-CCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhc-----C-CCCC-HH
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNT-----N-FRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSS-----K-SQPD-VV   79 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~-----~-~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~-~~~~-~~   79 (170)
                      +..+...|++++|..++++. ...     | -.| ...+++.|..+|...|++++|..++.+..+-     | -.|+ ..
T Consensus       316 a~~~~~qg~~~eA~~l~~~a-L~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~  394 (490)
T 3n71_A          316 IDKARSEGLYHEVVKLCREC-LEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGM  394 (490)
T ss_dssp             HHHHHTTTCHHHHHHHHHHH-HHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHH-HHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHH
Confidence            34566889999999999776 321     1 122 2347899999999999999999999987642     2 2344 56


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHhhcc-----cCCCCCCCC-hhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           80 LQNYILNMYGKCGSLEDARVVSDEMP-----QRNVIESPD-LASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        80 ~~~~li~~~~~~~~~~~a~~~~~~m~-----~~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      +++.|-..|...|++++|+.++++..     ..|.. -|+ ..+.+.+-.++...+.+++|+.++..+++.
T Consensus       395 ~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~-Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          395 AVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPS-HPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTT-SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            89999999999999999999988653     23432 233 334455567777788899999999999763

>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=97.85  E-value=0.00044  Score=44.77  Aligned_cols=100  Identities=13%  Similarity=0.065  Sum_probs=80.2

Q ss_pred             chhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHH-hhcccch--HHHHHHHHHHHhcCCCCCHHHHH
Q 038114            7 TQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLIST-CSSLRSL--QLGRKVHDHILSSKSQPDVVLQN   82 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~-~~~~~~~--~~a~~~~~~m~~~~~~~~~~~~~   82 (170)
                      +...|. +-..|...|++++|...|++. .... +.+...+..+-.+ +...|++  ++|...+....+.. +.+...+.
T Consensus        43 ~~~~~~~lg~~~~~~~~~~~A~~~~~~a-l~~~-p~~~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~  119 (177)
T 2e2e_A           43 NSEQWALLGEYYLWQNDYSNSLLAYRQA-LQLR-GENAELYAALATVLYYQASQHMTAQTRAMIDKALALD-SNEITALM  119 (177)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHH-CSCHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHH-HHcC-CCCHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhC-CCcHHHHH
Confidence            344555 788899999999999999998 5432 2355667777777 7788998  99999999998864 33578889


Q ss_pred             HHHHHHHcCCCHHHHHHHHhhcccCCC
Q 038114           83 YILNMYGKCGSLEDARVVSDEMPQRNV  109 (170)
Q Consensus        83 ~li~~~~~~~~~~~a~~~~~~m~~~~~  109 (170)
                      .+-..|.+.|++++|...|++......
T Consensus       120 ~la~~~~~~g~~~~A~~~~~~al~~~p  146 (177)
T 2e2e_A          120 LLASDAFMQANYAQAIELWQKVMDLNS  146 (177)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhhCC
Confidence            999999999999999999999876543

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.83  E-value=0.00013  Score=53.07  Aligned_cols=153  Identities=8%  Similarity=-0.048  Sum_probs=104.6

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhh----CCCC--c-chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCC----CCHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNN----TNFR--I-RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQ----PDVVLQ   81 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~----~~~~--p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~----~~~~~~   81 (170)
                      +-..+...|++++|...+++. ..    .+-.  | ....+..+-..+...|++++|...+.+..+....    .....+
T Consensus        99 la~~~~~~G~~~~A~~~~~~a-l~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  177 (373)
T 1hz4_A           99 QSEILFAQGFLQTAWETQEKA-FQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  177 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHH-HHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHH
Confidence            677788999999999999886 33    2222  3 2335666777888999999999999988764221    134678


Q ss_pred             HHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCCh-hhHH-----HHHHHHhCCCChHHHHHHHHHHHhCCCCC---CHhh
Q 038114           82 NYILNMYGKCGSLEDARVVSDEMPQRNVIESPDL-ASWN-----AIIAGVASPSNANEAMSLFSEMRDRELIP---DGLT  152 (170)
Q Consensus        82 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~-~~~~-----~li~~~~~~g~~~~a~~l~~~m~~~~~~p---~~~t  152 (170)
                      ..+-..+...|++++|...+++......  .++. ..+.     .....+...|++++|..++.+.......+   ....
T Consensus       178 ~~la~~~~~~g~~~~A~~~l~~a~~~~~--~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          178 AMLIQCSLARGDLDNARSQLNRLENLLG--NGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHT--TSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHh--ccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            8888899999999999999998754321  1111 1222     23344778999999999998876543221   1224


Q ss_pred             HHHHHHHhcCCCcccc
Q 038114          153 VRSLLCACTSPSNVLY  168 (170)
Q Consensus       153 ~~~ll~~~~~~g~~e~  168 (170)
                      +..+...+...|+.++
T Consensus       256 ~~~la~~~~~~g~~~~  271 (373)
T 1hz4_A          256 WRNIARAQILLGEFEP  271 (373)
T ss_dssp             HHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHcCCHHH
Confidence            5666677777777654

>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=97.83  E-value=0.00021  Score=44.11  Aligned_cols=96  Identities=11%  Similarity=0.005  Sum_probs=76.1

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcC--CCCC----HHHH
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSK--SQPD----VVLQ   81 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~~~----~~~~   81 (170)
                      ..+. +-..+.+.|++++|+..|++. .... +-+...|..+-.+|...|++++|...+....+..  ..++    ..+|
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~A-l~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKA-IELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHH-HHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            4455 788899999999999999998 5432 2356688888899999999999999999887631  1222    2467


Q ss_pred             HHHHHHHHcCCCHHHHHHHHhhccc
Q 038114           82 NYILNMYGKCGSLEDARVVSDEMPQ  106 (170)
Q Consensus        82 ~~li~~~~~~~~~~~a~~~~~~m~~  106 (170)
                      ..+-.++...|++++|.+.|++...
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            7788889999999999999998665

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.81  E-value=0.0013  Score=49.86  Aligned_cols=114  Identities=7%  Similarity=-0.108  Sum_probs=60.8

Q ss_pred             cCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhc----ccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc----C
Q 038114           20 QNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSS----LRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK----C   91 (170)
Q Consensus        20 ~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~   91 (170)
                      .++++.|+..|++. ...|   ++..+..|-..|..    .+++++|..+|.+..+.|   ++..+..|-..|..    .
T Consensus        56 ~~~~~~A~~~~~~a-~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~  128 (490)
T 2xm6_A           56 TKDLTQAMDWFRRA-AEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVK  128 (490)
T ss_dssp             CCCHHHHHHHHHHH-HHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSC
T ss_pred             CcCHHHHHHHHHHH-HHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCC
Confidence            56666666666666 4433   23344444444444    566666666666665554   34455555555555    5


Q ss_pred             CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhC----CCChHHHHHHHHHHHhCC
Q 038114           92 GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVAS----PSNANEAMSLFSEMRDRE  145 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~~  145 (170)
                      +++++|.+.|+...+.+.     ...+..+-..|..    .++.++|...|++..+.|
T Consensus       129 ~~~~~A~~~~~~a~~~~~-----~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~  181 (490)
T 2xm6_A          129 VDKAESVKWFRLAAEQGR-----DSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG  181 (490)
T ss_dssp             CCHHHHHHHHHHHHHTTC-----HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHCCC-----HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            566666666665544332     1333444444433    455666666665555443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.81  E-value=0.00016  Score=52.41  Aligned_cols=125  Identities=10%  Similarity=-0.036  Sum_probs=73.6

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchh------------------hHHHHHHHhhcccchHHHHHHHHHHHhcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPS------------------TYACLISTCSSLRSLQLGRKVHDHILSSKS   74 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~------------------~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   74 (170)
                      +-..+.+.|++++|...|++. ...  .|+..                  .|..+-.++.+.|++++|...+....+.. 
T Consensus       185 ~g~~~~~~g~~~~A~~~y~~A-l~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  260 (338)
T 2if4_A          185 DGNSLFKEEKLEEAMQQYEMA-IAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTEE-  260 (338)
T ss_dssp             HHHHTCSSSCCHHHHHHHHHH-HHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHHC-
T ss_pred             HHHHHHhcCCHHHHHHHHHHH-HHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            677888999999999999987 432  23332                  67777888889999999999999988763 


Q ss_pred             CCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHH-HhCCCChHHHHHHHHHHHhC
Q 038114           75 QPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAG-VASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        75 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~-~~~~g~~~~a~~l~~~m~~~  144 (170)
                      +.+...|..+-.+|...|++++|...|+...+...   -+...+..+... ....+..+++..+|..|...
T Consensus       261 p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p---~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          261 EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAP---DDKAIRRELRALAEQEKALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------------------
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence            33678889999999999999999999998876533   123344444333 23445677778888877643

>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=97.79  E-value=0.00084  Score=42.09  Aligned_cols=117  Identities=10%  Similarity=-0.064  Sum_probs=92.1

Q ss_pred             hhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc----C
Q 038114           16 SQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK----C   91 (170)
Q Consensus        16 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~   91 (170)
                      +....+++++|+..|++. .+.|. |...    |=..|...+.++.|.++|....+.|   ++..+..|-..|..    .
T Consensus         4 G~g~~~d~~~A~~~~~~a-a~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~   74 (138)
T 1klx_A            4 GGTVKKDLKKAIQYYVKA-CELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVK   74 (138)
T ss_dssp             CSSHHHHHHHHHHHHHHH-HHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSC
T ss_pred             CcCCccCHHHHHHHHHHH-HcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCC
Confidence            445567889999999999 77773 3333    5566677778888999999998876   67788888888887    7


Q ss_pred             CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhC----CCChHHHHHHHHHHHhCCC
Q 038114           92 GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVAS----PSNANEAMSLFSEMRDREL  146 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~~~  146 (170)
                      +++++|.+.|+...+.|.     ...+..+-..|..    .++.++|..+|++-.+.|.
T Consensus        75 ~d~~~A~~~~~~Aa~~g~-----~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           75 KDLRKAAQYYSKACGLND-----QDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             CCHHHHHHHHHHHHHTTC-----HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             ccHHHHHHHHHHHHcCCC-----HHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            899999999999877655     2556666666666    7899999999999888774

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.76  E-value=0.0017  Score=49.16  Aligned_cols=113  Identities=11%  Similarity=-0.040  Sum_probs=54.0

Q ss_pred             cCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhc----ccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc----C
Q 038114           20 QNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSS----LRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK----C   91 (170)
Q Consensus        20 ~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~   91 (170)
                      .+++++|...|++. ...|   ++..+..|-..|..    .+++++|...|+...+.|   ++..+..|-..|..    .
T Consensus        92 ~~~~~~A~~~~~~a-~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~  164 (490)
T 2xm6_A           92 PQDYAQAVIWYKKA-ALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVT  164 (490)
T ss_dssp             CCCHHHHHHHHHHH-HHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSC
T ss_pred             CCCHHHHHHHHHHH-HHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCC
Confidence            55666666666665 4433   22333333333433    455556666665555544   33444444444444    4


Q ss_pred             CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhC----CCChHHHHHHHHHHHhC
Q 038114           92 GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVAS----PSNANEAMSLFSEMRDR  144 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~  144 (170)
                      +++++|.+.|+...+.+.     ...+..+-..|..    .++.++|...|++-.+.
T Consensus       165 ~d~~~A~~~~~~a~~~~~-----~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~  216 (490)
T 2xm6_A          165 RDYVMAREWYSKAAEQGN-----VWSCNQLGYMYSRGLGVERNDAISAQWYRKSATS  216 (490)
T ss_dssp             CCHHHHHHHHHHHHHTTC-----HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHCCC-----HHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHC
Confidence            455555555555443321     2333334333333    44555555555544443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.74  E-value=0.00044  Score=44.21  Aligned_cols=92  Identities=14%  Similarity=0.039  Sum_probs=48.1

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhC--------C---------CCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNT--------N---------FRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQ   75 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~--------~---------~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~   75 (170)
                      .-..+.+.|++++|+..|.+. ...        .         -+.+...|..+-.++.+.|++++|...+....+.. +
T Consensus        17 ~G~~~~~~~~~~~A~~~y~~a-l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p   94 (162)
T 3rkv_A           17 KGNELFVQKDYKEAIDAYRDA-LTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKRE-E   94 (162)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-T
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-C
Confidence            566677777777777777776 332        0         00112244444445555555555555555555432 2


Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHhhccc
Q 038114           76 PDVVLQNYILNMYGKCGSLEDARVVSDEMPQ  106 (170)
Q Consensus        76 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  106 (170)
                      .+...|..+-.+|...|++++|...|+....
T Consensus        95 ~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           95 TNEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence            2344555555555555555555555554443

>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=97.68  E-value=0.00028  Score=51.87  Aligned_cols=92  Identities=7%  Similarity=-0.076  Sum_probs=50.8

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhC--------------CCC-cchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNT--------------NFR-IRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD   77 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~--------------~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~   77 (170)
                      +-..+.+.|++++|+..|++. ...              ... .+...|..+-.++.+.|++++|...+++..+.. +-+
T Consensus       229 ~g~~~~~~g~~~~Ai~~y~kA-l~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~  306 (370)
T 1ihg_A          229 IGNTFFKSQNWEMAIKKYTKV-LRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSN  306 (370)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTC
T ss_pred             HHHHHHHhcCHHHHHHHHHHH-HHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-chh
Confidence            456666777777777777766 320              011 123345555555555666666666666555532 223


Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHhhccc
Q 038114           78 VVLQNYILNMYGKCGSLEDARVVSDEMPQ  106 (170)
Q Consensus        78 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~  106 (170)
                      ...|..+-.+|.+.|++++|.+.|++..+
T Consensus       307 ~~a~~~lg~~~~~~g~~~eA~~~l~~Al~  335 (370)
T 1ihg_A          307 TKALYRRAQGWQGLKEYDQALADLKKAQE  335 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            55555555566666666666666655544

>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=97.68  E-value=0.00014  Score=54.94  Aligned_cols=118  Identities=8%  Similarity=-0.113  Sum_probs=90.1

Q ss_pred             hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC--------------HHHHHHHHHHHHcCCCHHHHHHHHhhcccCC
Q 038114           43 PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD--------------VVLQNYILNMYGKCGSLEDARVVSDEMPQRN  108 (170)
Q Consensus        43 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  108 (170)
                      ...+..+-..+.+.|++++|...|.+..+......              ...|..+-.+|.+.|++++|...|++.....
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  347 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD  347 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            34677777888899999999999999987532211              6889999999999999999999999988654


Q ss_pred             CCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCC-CHhhHHHHHHHhcCCCc
Q 038114          109 VIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIP-DGLTVRSLLCACTSPSN  165 (170)
Q Consensus       109 ~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p-~~~t~~~ll~~~~~~g~  165 (170)
                      .   .+...|..+-.+|...|++++|...|++..+.  .| +...+..+-.++.+.++
T Consensus       348 p---~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~  400 (457)
T 1kt0_A          348 S---ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQISMCQKKAKE  400 (457)
T ss_dssp             T---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----CHHHHHHHHHHHHHH
T ss_pred             C---ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHH
Confidence            4   45678888999999999999999999988764  34 33445555555444443

>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=97.61  E-value=0.0009  Score=47.11  Aligned_cols=98  Identities=8%  Similarity=-0.100  Sum_probs=71.6

Q ss_pred             chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHH
Q 038114           42 RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAI  121 (170)
Q Consensus        42 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~l  121 (170)
                      +...+..+-..+.+.|++++|...|.+..+.. +.+...|..+-.+|.+.|++++|...++...+...   -+...+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p---~~~~~~~~l   78 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG---QSVKAHFFL   78 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT---TCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC---CCHHHHHHH
Confidence            34456666677777888888888888877653 23577788888888888888888888887765533   345677777


Q ss_pred             HHHHhCCCChHHHHHHHHHHHh
Q 038114          122 IAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus       122 i~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      -.++...|++++|...|.+..+
T Consensus        79 g~~~~~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           79 GQCQLEMESYDEAIANLQRAYS  100 (281)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH
Confidence            7888888888888888877654

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=97.60  E-value=0.0011  Score=49.57  Aligned_cols=108  Identities=7%  Similarity=-0.063  Sum_probs=59.4

Q ss_pred             hHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChh--hHHHHH-HHHhCCCChHHHH
Q 038114           59 LQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLA--SWNAII-AGVASPSNANEAM  135 (170)
Q Consensus        59 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~--~~~~li-~~~~~~g~~~~a~  135 (170)
                      .+.|...+....+.. +.+...+..+-..|.+.|++++|.+.|++......  .|...  .+..+. ......|+.++|+
T Consensus       316 ~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Ai  392 (472)
T 4g1t_A          316 IGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKEL--TPVAKQLLHLRYGNFQLYQMKCEDKAI  392 (472)
T ss_dssp             HHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCC--CHHHHHHHHHHHHHHHHHTSSCHHHHH
T ss_pred             HHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCC--CChHHHHHHHHHHHHHHHHCCCHHHHH
Confidence            344445555444432 22344566667777888888888888887765443  22211  122221 2234667888888


Q ss_pred             HHHHHHHhCC-----------------------CCCCHhhHHHHHHHhcCCCccccC
Q 038114          136 SLFSEMRDRE-----------------------LIPDGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       136 ~l~~~m~~~~-----------------------~~p~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      ..|.+..+..                       -..+..+|..+-..|...|+.+++
T Consensus       393 ~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A  449 (472)
T 4g1t_A          393 HHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQA  449 (472)
T ss_dssp             HHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC--
T ss_pred             HHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            8777654321                       122345666666666666666654

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.60  E-value=0.0005  Score=40.59  Aligned_cols=65  Identities=8%  Similarity=-0.081  Sum_probs=44.2

Q ss_pred             chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           42 RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        42 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      +...+..+-..+.+.|++++|...|.+..+.. +.+...|..+-.+|.+.|++++|.+.|+.....
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            44556666666777777777777777776653 335667777777777777777777777776654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.59  E-value=0.0017  Score=41.37  Aligned_cols=110  Identities=13%  Similarity=0.066  Sum_probs=85.6

Q ss_pred             hhhHHHHHHHhhcccchHHHHHHHHHHHhc--------C---------CCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcc
Q 038114           43 PSTYACLISTCSSLRSLQLGRKVHDHILSS--------K---------SQPDVVLQNYILNMYGKCGSLEDARVVSDEMP  105 (170)
Q Consensus        43 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------~---------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  105 (170)
                      ...+...-..+.+.|++++|...|....+.        .         -+.+...|..+-.+|.+.|++++|...++...
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            345666667788899999999999988764        1         12235789999999999999999999999887


Q ss_pred             cCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHh-hHHHHH
Q 038114          106 QRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGL-TVRSLL  157 (170)
Q Consensus       106 ~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~-t~~~ll  157 (170)
                      ..+.   .+...|..+-.++...|++++|...|++....  .|+.. .....+
T Consensus        91 ~~~p---~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~l  138 (162)
T 3rkv_A           91 KREE---TNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAAASVVAREM  138 (162)
T ss_dssp             HHST---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGGHHHHHHHH
T ss_pred             hcCC---cchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCCHHHHHHHH
Confidence            6543   45678889999999999999999999988765  45544 433333

>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=97.56  E-value=0.0071  Score=40.53  Aligned_cols=127  Identities=9%  Similarity=-0.112  Sum_probs=94.6

Q ss_pred             HHHhhhcccC----CHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhc----ccchHHHHHHHHHHHhcCCC-CCHHHHH
Q 038114           12 TFYNSQPIQN----LYNEALVAFDFLQNNTNFRIRPSTYACLISTCSS----LRSLQLGRKVHDHILSSKSQ-PDVVLQN   82 (170)
Q Consensus        12 ~li~~~~~~~----~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~-~~~~~~~   82 (170)
                      +|-..|.. +    ++++|...|++. ...|   ++..+..|-..|..    .+++++|..+|....+.|.. .++..+.
T Consensus        55 ~lg~~y~~-~g~~~~~~~A~~~~~~A-~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~  129 (212)
T 3rjv_A           55 LLAQLKIR-NPQQADYPQARQLAEKA-VEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQM  129 (212)
T ss_dssp             HHHHHTTS-STTSCCHHHHHHHHHHH-HHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHH
T ss_pred             HHHHHHHc-CCCCCCHHHHHHHHHHH-HHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHH
Confidence            36555666 6    899999999999 6665   45566666666666    78999999999999887632 1267888


Q ss_pred             HHHHHHHc----CCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhC------CCChHHHHHHHHHHHhCCCC
Q 038114           83 YILNMYGK----CGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVAS------PSNANEAMSLFSEMRDRELI  147 (170)
Q Consensus        83 ~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~------~g~~~~a~~l~~~m~~~~~~  147 (170)
                      .|-..|..    .+++++|...|+...+.+-    +...+..+-..|..      ..+.++|..+|+.-.+.|..
T Consensus       130 ~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~----~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~  200 (212)
T 3rjv_A          130 LLGLIYASGVHGPEDDVKASEYFKGSSSLSR----TGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFD  200 (212)
T ss_dssp             HHHHHHHHTSSSSCCHHHHHHHHHHHHHTSC----TTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHcCC----CHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCH
Confidence            88888888    7899999999999876522    22355555555543      33899999999998888744

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.53  E-value=0.00062  Score=40.82  Aligned_cols=63  Identities=11%  Similarity=-0.069  Sum_probs=34.9

Q ss_pred             chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcc
Q 038114           42 RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMP  105 (170)
Q Consensus        42 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  105 (170)
                      +...+..+-.++...|++++|...|+...+.. +.+...|..+-.+|.+.|++++|...|+...
T Consensus        18 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A           18 NMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34455555555556666666666666555542 2234555555556666666666666655544

>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=97.52  E-value=0.00035  Score=51.38  Aligned_cols=114  Identities=11%  Similarity=-0.011  Sum_probs=87.2

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhc---------------CCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCC
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSS---------------KSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNV  109 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~---------------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  109 (170)
                      .+..+-..+.+.|++++|...|.+..+.               --..+...|..+-.+|.+.|++++|.+.+++..+...
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p  304 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP  304 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCc
Confidence            4666677788899999999999988761               1122467899999999999999999999999887533


Q ss_pred             CCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCC-CHhhHHHHHHHhcCC
Q 038114          110 IESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIP-DGLTVRSLLCACTSP  163 (170)
Q Consensus       110 ~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p-~~~t~~~ll~~~~~~  163 (170)
                         -+...|..+-.+|...|++++|...|++..+.  .| +...+..+-.++.+.
T Consensus       305 ---~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~~~~~~~  354 (370)
T 1ihg_A          305 ---SNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQKI  354 (370)
T ss_dssp             ---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHH
T ss_pred             ---hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHH
Confidence               35678888899999999999999999988765  34 344444444444433

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.47  E-value=0.0026  Score=46.94  Aligned_cols=157  Identities=6%  Similarity=-0.121  Sum_probs=106.2

Q ss_pred             HHHhhhcccCCHHHHHHHHHHHHhhCCCCcchh----hHHHHHHHhhcccchHHHHHHHHHHHh----cCCCCC-HHHHH
Q 038114           12 TFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPS----TYACLISTCSSLRSLQLGRKVHDHILS----SKSQPD-VVLQN   82 (170)
Q Consensus        12 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~~~-~~~~~   82 (170)
                      ++...|...|++++|.+.+.+.....+-.++..    +.+.+=..+...|+++.+..++.....    .+..+. ..++.
T Consensus        60 ~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  139 (434)
T 4b4t_Q           60 ELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSI  139 (434)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHH
Confidence            388999999999999999988733222223322    223333344567889999998887764    233333 56888


Q ss_pred             HHHHHHHcCCCHHHHHHHHhhcccC--CCCCC-CChhhHHHHHHHHhCCCChHHHHHHHHHHHhC--CCC-C-C--HhhH
Q 038114           83 YILNMYGKCGSLEDARVVSDEMPQR--NVIES-PDLASWNAIIAGVASPSNANEAMSLFSEMRDR--ELI-P-D--GLTV  153 (170)
Q Consensus        83 ~li~~~~~~~~~~~a~~~~~~m~~~--~~~~~-p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~--~~~-p-~--~~t~  153 (170)
                      .+...|...|++++|..++.+....  +...+ .....|..+...|...|++++|..++++....  .+. | .  ...+
T Consensus       140 ~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  219 (434)
T 4b4t_Q          140 KLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELD  219 (434)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHH
T ss_pred             HHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHH
Confidence            9999999999999999998876422  11002 22457888899999999999999999877543  121 2 1  2345


Q ss_pred             HHHHHHhcCCCcccc
Q 038114          154 RSLLCACTSPSNVLY  168 (170)
Q Consensus       154 ~~ll~~~~~~g~~e~  168 (170)
                      ..+...+...|++++
T Consensus       220 ~~~g~~~~~~~~y~~  234 (434)
T 4b4t_Q          220 LMSGILHCEDKDYKT  234 (434)
T ss_dssp             HHHHHHTTSSSCHHH
T ss_pred             HHHHHHHHHHHhHHH
Confidence            555555666665543

>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=97.46  E-value=0.0037  Score=49.71  Aligned_cols=144  Identities=9%  Similarity=-0.021  Sum_probs=106.6

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhC--CCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNT--NFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~--~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      .|- .+....+.|..+.|+.+|... ...  ...+......+.+.... .++.+.|..+|+...+. ++-++..|...++
T Consensus       436 vWi~y~~~erR~~~l~~AR~vf~~A-~~~~~~~~~~lyi~~A~lE~~~-~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~  512 (679)
T 4e6h_A          436 VYCVYMNTMKRIQGLAASRKIFGKC-RRLKKLVTPDIYLENAYIEYHI-SKDTKTACKVLELGLKY-FATDGEYINKYLD  512 (679)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHH-HHTGGGSCTHHHHHHHHHHHTT-TSCCHHHHHHHHHHHHH-HTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH-HHhcCCCChHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH-CCCchHHHHHHHH
Confidence            466 577777889999999999999 554  22233333344444332 35689999999999886 3446778889999


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCC--ChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHh
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESP--DLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCAC  160 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~  160 (170)
                      .....|+.+.|..+|+.......  .+  ....|...+.-=...|+.+.+..+.+.+.+.  .|+......+++-|
T Consensus       513 fe~~~~~~~~AR~lferal~~~~--~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~--~P~~~~~~~f~~ry  584 (679)
T 4e6h_A          513 FLIYVNEESQVKSLFESSIDKIS--DSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK--FPEVNKLEEFTNKY  584 (679)
T ss_dssp             HHHHHTCHHHHHHHHHHHTTTSS--STTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH--STTCCHHHHHHHHT
T ss_pred             HHHhCCCHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHh
Confidence            88899999999999998876644  22  3467888888888999999999999999866  45555555555554

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.44  E-value=0.00063  Score=40.13  Aligned_cols=92  Identities=23%  Similarity=0.148  Sum_probs=57.8

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC-------HH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD-------VV   79 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-------~~   79 (170)
                      ...|. +-..+.+.|++++|...|++. .... +.+...+..+-.++...|++++|...+....+..  |+       ..
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~a-l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~   79 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQL-ITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT--STAEHVAIRSK   79 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--SSTTSHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH-HhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCccHHHHHHH
Confidence            34444 677777888888888888777 4432 2355667777777778888888888888877642  32       34


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHhh
Q 038114           80 LQNYILNMYGKCGSLEDARVVSDE  103 (170)
Q Consensus        80 ~~~~li~~~~~~~~~~~a~~~~~~  103 (170)
                      .+..+-.++...|+++.|...|++
T Consensus        80 ~~~~~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           80 LQYRLELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHHHHHhHhhhHhHHHH
Confidence            444455555555555555444443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.44  E-value=0.00011  Score=46.18  Aligned_cols=125  Identities=14%  Similarity=0.004  Sum_probs=87.8

Q ss_pred             hhHHHHHHHhhcccchHHHHHHHHHHHhcCC---CCC--HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCC---CCCCh
Q 038114           44 STYACLISTCSSLRSLQLGRKVHDHILSSKS---QPD--VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVI---ESPDL  115 (170)
Q Consensus        44 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~---~~p~~  115 (170)
                      .++..+-..+...|++++|...+.+..+...   .+.  ..++..+-..|...|++++|.+.|++.......   .....
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            3667777788889999999999998875311   111  257888889999999999999999976532110   01124


Q ss_pred             hhHHHHHHHHhCCCChHHHHHHHHHHHhC----CCC-CCHhhHHHHHHHhcCCCcccc
Q 038114          116 ASWNAIIAGVASPSNANEAMSLFSEMRDR----ELI-PDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       116 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~----~~~-p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      ..+..+-..+...|++++|...+++..+.    +-. ....++..+-..+...|+.++
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  147 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQ  147 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHH
Confidence            56778888899999999999999887643    211 123456667777777776554

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.42  E-value=0.00096  Score=49.28  Aligned_cols=153  Identities=12%  Similarity=0.008  Sum_probs=105.2

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCC-Ccch---------------hhHHHHHHHhhcccchHHHHHHHHHHHhc-CCCC
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNF-RIRP---------------STYACLISTCSSLRSLQLGRKVHDHILSS-KSQP   76 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~-~p~~---------------~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~   76 (170)
                      ...+.+.|++++|++.|..+ ..... ..+.               ..+..+...|...|++++|.+.+....+. +-.+
T Consensus        11 a~~l~~~~~y~eA~~~~~~~-l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~   89 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSL-LDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFA   89 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHH-HHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSC
T ss_pred             HHHHHHCCCHHHHHHHHHHH-HhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcc
Confidence            56678899999999999998 44322 2221               13778889999999999999999988652 1122


Q ss_pred             CH----HHHHHHHHHHHcCCCHHHHHHHHhhccc----CCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC--CC
Q 038114           77 DV----VLQNYILNMYGKCGSLEDARVVSDEMPQ----RNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR--EL  146 (170)
Q Consensus        77 ~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~--~~  146 (170)
                      +.    .+.+.+-..+...|+++.|.+++.....    .+.. ..-..++..+...+...|++++|..++.+....  +.
T Consensus        90 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~  168 (434)
T 4b4t_Q           90 KSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRV-FLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKL  168 (434)
T ss_dssp             HHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCC-SSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTS
T ss_pred             chHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhc
Confidence            22    2333333344456889999998886532    2220 223457888899999999999999999987643  11


Q ss_pred             --CC-CHhhHHHHHHHhcCCCcccc
Q 038114          147 --IP-DGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       147 --~p-~~~t~~~ll~~~~~~g~~e~  168 (170)
                        +| ....|..+.+.|...|++++
T Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~~~~  193 (434)
T 4b4t_Q          169 DDKPSLVDVHLLESKVYHKLRNLAK  193 (434)
T ss_dssp             SCSTHHHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchhHHHHHHHHHHHHHHhCcHHH
Confidence              22 24468888888888887654

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.30  E-value=0.002  Score=36.39  Aligned_cols=52  Identities=12%  Similarity=0.011  Sum_probs=20.0

Q ss_pred             HhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhc
Q 038114           52 TCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEM  104 (170)
Q Consensus        52 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  104 (170)
                      .+...|++++|...|.+..+.. +.+...+..+-..|.+.|++++|.+.|++.
T Consensus        18 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a   69 (91)
T 1na3_A           18 AYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKA   69 (91)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            3333344444444444333321 112333333444444444444444444433

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=97.29  E-value=0.0027  Score=47.36  Aligned_cols=127  Identities=11%  Similarity=-0.047  Sum_probs=81.7

Q ss_pred             hcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC-----
Q 038114           17 QPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC-----   91 (170)
Q Consensus        17 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-----   91 (170)
                      +...+++++|.+.+++. .... +.+...+..+-..+...|++++|...+.+..+.. +-+..++..+-..|...     
T Consensus       223 ~~~~~~~~~a~~~~~~a-l~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~  299 (472)
T 4g1t_A          223 REEGEEEGEGEKLVEEA-LEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVM  299 (472)
T ss_dssp             C------CHHHHHHHHH-HHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhhHHHHHHHHHHHH-HHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhh
Confidence            34456777888888776 4332 2345567777778888888888888888877653 22455666555544321     


Q ss_pred             --------------CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCC
Q 038114           92 --------------GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPD  149 (170)
Q Consensus        92 --------------~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~  149 (170)
                                    +.++.|...|+.....+.   .+..++..+-..+...|++++|+..|++..+....|.
T Consensus       300 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~---~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~  368 (472)
T 4g1t_A          300 NLRENGMYGKRKLLELIGHAVAHLKKADEAND---NLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPV  368 (472)
T ss_dssp             HC------CHHHHHHHHHHHHHHHHHHHHHCT---TTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHH
T ss_pred             hHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCC---chhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCCh
Confidence                          224566666666554332   3446788888999999999999999999887654443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.28  E-value=0.00074  Score=39.69  Aligned_cols=62  Identities=6%  Similarity=0.020  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHH
Q 038114           78 VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus        78 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      +..+..+-..|.+.|++++|.+.|+...+.+.   -+...|..+-..|...|++++|...|++..
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p---~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETDP---DYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST---TCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34444444555555555555555554443322   122344444455555555555555554443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.26  E-value=0.0032  Score=45.56  Aligned_cols=95  Identities=8%  Similarity=-0.095  Sum_probs=78.4

Q ss_pred             hhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCH------------------HHHHHHHHHHHcCCCHHHHHHHHhhcc
Q 038114           44 STYACLISTCSSLRSLQLGRKVHDHILSSKSQPDV------------------VLQNYILNMYGKCGSLEDARVVSDEMP  105 (170)
Q Consensus        44 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~------------------~~~~~li~~~~~~~~~~~a~~~~~~m~  105 (170)
                      ..+..+-..+.+.|++++|...|.+..+.  .|+.                  ..|..+-.+|.+.|++++|...|+...
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al  257 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVL  257 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34666777888999999999999998765  3333                  278889999999999999999999887


Q ss_pred             cCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114          106 QRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus       106 ~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      +...   .+...|..+-.+|...|++++|...|++..+
T Consensus       258 ~~~p---~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~  292 (338)
T 2if4_A          258 TEEE---KNPKALFRRGKAKAELGQMDSARDDFRKAQK  292 (338)
T ss_dssp             HHCT---TCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC
T ss_pred             HhCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6432   3567899999999999999999999997754

>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=97.26  E-value=0.0018  Score=41.87  Aligned_cols=91  Identities=16%  Similarity=0.014  Sum_probs=48.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCC-c-----c-----hhhHHHHHHHhhcccchHHHHHHHHHHHhc-----CCCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFR-I-----R-----PSTYACLISTCSSLRSLQLGRKVHDHILSS-----KSQP   76 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~-p-----~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~~   76 (170)
                      .-..+.+.|++++|+..|++. .+.... |     +     ...|..+-.++.+.|++++|...++...+.     .+.|
T Consensus        17 ~G~~l~~~g~~eeAi~~Y~kA-L~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~p   95 (159)
T 2hr2_A           17 DAQRQLVAGEYDEAAANCRRA-MEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQ   95 (159)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHH-HHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTS
T ss_pred             HHHHHHHCCCHHHHHHHHHHH-HhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCC
Confidence            566677888999999988886 432211 1     1     114455555555555555555555555442     1122


Q ss_pred             C-HHHH----HHHHHHHHcCCCHHHHHHHHhhc
Q 038114           77 D-VVLQ----NYILNMYGKCGSLEDARVVSDEM  104 (170)
Q Consensus        77 ~-~~~~----~~li~~~~~~~~~~~a~~~~~~m  104 (170)
                      + ...|    ...-.++...|++++|...|++.
T Consensus        96 d~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kA  128 (159)
T 2hr2_A           96 DEGKLWISAVYSRALALDGLGRGAEAMPEFKKV  128 (159)
T ss_dssp             THHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             chHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHH
Confidence            2 3344    44445555555555555555543

>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=97.24  E-value=0.0016  Score=51.73  Aligned_cols=149  Identities=13%  Similarity=0.061  Sum_probs=84.0

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCC---------CCcc------------hhhHHHHHHHhhcccchHHHHHHHHHHHh
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTN---------FRIR------------PSTYACLISTCSSLRSLQLGRKVHDHILS   71 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~---------~~p~------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~   71 (170)
                      .+...-+.|+++.|.++|+.+ ....         -.|+            ..+|...++...+.|..+.|.++|....+
T Consensus       384 ~a~~ee~~~~~e~aR~iyek~-l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~  462 (679)
T 4e6h_A          384 LSEQYELNTKIPEIETTILSC-IDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRR  462 (679)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHH-HHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            455556677777787777776 4321         0121            22566666666667777777788777766


Q ss_pred             c-C-CCCCHHHHHHHHHHHHcC-CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCC
Q 038114           72 S-K-SQPDVVLQNYILNMYGKC-GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIP  148 (170)
Q Consensus        72 ~-~-~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p  148 (170)
                      . + ..+...+..+.+.  .+. ++++.|.++|+...+. .  +-+...|...+.-....|+.+.|..+|+........+
T Consensus       463 ~~~~~~~~lyi~~A~lE--~~~~~d~e~Ar~ife~~Lk~-~--p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~  537 (679)
T 4e6h_A          463 LKKLVTPDIYLENAYIE--YHISKDTKTACKVLELGLKY-F--ATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDS  537 (679)
T ss_dssp             TGGGSCTHHHHHHHHHH--HTTTSCCHHHHHHHHHHHHH-H--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSST
T ss_pred             hcCCCChHHHHHHHHHH--HHhCCCHHHHHHHHHHHHHH-C--CCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCH
Confidence            5 2 1222333223222  233 3477777777766544 2  2344455666666666777888888887666543211


Q ss_pred             --CHhhHHHHHHHhcCCCccc
Q 038114          149 --DGLTVRSLLCACTSPSNVL  167 (170)
Q Consensus       149 --~~~t~~~ll~~~~~~g~~e  167 (170)
                        ....|...++-=.+.|+.+
T Consensus       538 ~~~~~lw~~~~~fE~~~G~~~  558 (679)
T 4e6h_A          538 HLLKMIFQKVIFFESKVGSLN  558 (679)
T ss_dssp             THHHHHHHHHHHHHHHTCCSH
T ss_pred             HHHHHHHHHHHHHHHHcCCHH
Confidence              2334555555444455443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.21  E-value=0.0036  Score=37.33  Aligned_cols=80  Identities=8%  Similarity=0.042  Sum_probs=63.4

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHH
Q 038114           61 LGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSE  140 (170)
Q Consensus        61 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~  140 (170)
                      .+...|....+.. +.+...+..+-..|.+.|++++|...|+.......   .+...|..+-..+...|++++|...|++
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p---~~~~~~~~la~~~~~~g~~~~A~~~~~~   78 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDP---TYSVAWKWLGKTLQGQGDRAGARQAWES   78 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC---CcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4566777776653 34678888999999999999999999998876533   3456788888899999999999999998


Q ss_pred             HHhC
Q 038114          141 MRDR  144 (170)
Q Consensus       141 m~~~  144 (170)
                      ....
T Consensus        79 al~~   82 (115)
T 2kat_A           79 GLAA   82 (115)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            7654

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.17  E-value=0.0026  Score=35.92  Aligned_cols=80  Identities=13%  Similarity=0.113  Sum_probs=60.9

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 038114           77 DVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSL  156 (170)
Q Consensus        77 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~l  156 (170)
                      +...+..+-..+.+.|++++|.+.|++......   .+...+..+-..+...|++++|...|++..+.. .-+...+..+
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l   83 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP---NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNL   83 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC---CCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHH
Confidence            356788888899999999999999998876533   356788888899999999999999999887653 1234444444


Q ss_pred             HHHh
Q 038114          157 LCAC  160 (170)
Q Consensus       157 l~~~  160 (170)
                      -.++
T Consensus        84 ~~~~   87 (91)
T 1na3_A           84 GNAK   87 (91)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>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=97.17  E-value=0.006  Score=39.38  Aligned_cols=111  Identities=9%  Similarity=0.049  Sum_probs=82.7

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhcCCCC------C-----HHHHHHHHHHHHcCCCHHHHHHHHhhcccC-----C
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSSKSQP------D-----VVLQNYILNMYGKCGSLEDARVVSDEMPQR-----N  108 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~------~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~  108 (170)
                      .+...-..+.+.|++++|...|+...+.....      +     ...|+.+-.++.+.|++++|...|+...+.     .
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            34455566778899999999999988753221      2     338999999999999999999999987654     2


Q ss_pred             CCCCC-ChhhH----HHHHHHHhCCCChHHHHHHHHHHHh-----CCCCCCHhhHHHHH
Q 038114          109 VIESP-DLASW----NAIIAGVASPSNANEAMSLFSEMRD-----RELIPDGLTVRSLL  157 (170)
Q Consensus       109 ~~~~p-~~~~~----~~li~~~~~~g~~~~a~~l~~~m~~-----~~~~p~~~t~~~ll  157 (170)
                      +  .| +...|    ...-.++...|++++|+..|++-.+     .|+.+........+
T Consensus        93 ~--~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~~~~  149 (159)
T 2hr2_A           93 L--NQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVA  149 (159)
T ss_dssp             T--TSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHHHH
T ss_pred             C--CCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHH
Confidence            2  33 34567    7888899999999999999998753     36666655544443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.11  E-value=0.0017  Score=45.92  Aligned_cols=116  Identities=12%  Similarity=-0.068  Sum_probs=80.1

Q ss_pred             HHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCC--hhhHHHHHHHH
Q 038114           48 CLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPD--LASWNAIIAGV  125 (170)
Q Consensus        48 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~--~~~~~~li~~~  125 (170)
                      .....+...|++++|.++|..+...+  |+....-.+-..+.+.+++++|+..|+......   .|.  ...+..+-.++
T Consensus       107 ayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~---d~~~~~~a~~~LG~al  181 (282)
T 4f3v_A          107 GFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP---DKFLAGAAGVAHGVAA  181 (282)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS---CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC---CcccHHHHHHHHHHHH
Confidence            34566778899999999999887654  443355555668899999999999998554321   111  23566677889


Q ss_pred             hCCCChHHHHHHHHHHHhCCCCCCH--hhHHHHHHHhcCCCcccc
Q 038114          126 ASPSNANEAMSLFSEMRDRELIPDG--LTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       126 ~~~g~~~~a~~l~~~m~~~~~~p~~--~t~~~ll~~~~~~g~~e~  168 (170)
                      .+.|++++|+..|++-......|..  ......-.++.+.|+.++
T Consensus       182 ~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~de  226 (282)
T 4f3v_A          182 ANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESA  226 (282)
T ss_dssp             HHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999988754443642  233444444555555544

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=97.05  E-value=0.041  Score=41.36  Aligned_cols=94  Identities=13%  Similarity=0.158  Sum_probs=46.3

Q ss_pred             hHHHHHHHhhccc---chHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC----CCHHHHHHHHhhcccCCCCCCCChhh
Q 038114           45 TYACLISTCSSLR---SLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC----GSLEDARVVSDEMPQRNVIESPDLAS  117 (170)
Q Consensus        45 ~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~----~~~~~a~~~~~~m~~~~~~~~p~~~~  117 (170)
                      .+..|-..|...|   +.++|...|....+.| .++...+..|-..|...    +++++|.+.|+... .|.   |  ..
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g~---~--~a  250 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PGY---P--AS  250 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GGS---T--HH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CCC---H--HH
Confidence            4444444454455   5666666666665555 33344434444444433    45666666666555 322   1  22


Q ss_pred             HHHHHHH-H--hCCCChHHHHHHHHHHHhCC
Q 038114          118 WNAIIAG-V--ASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus       118 ~~~li~~-~--~~~g~~~~a~~l~~~m~~~~  145 (170)
                      +..+-.. +  ...+++++|..+|++-.+.|
T Consensus       251 ~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g  281 (452)
T 3e4b_A          251 WVSLAQLLYDFPELGDVEQMMKYLDNGRAAD  281 (452)
T ss_dssp             HHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC
Confidence            2222222 2  33556666666666555544

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.05  E-value=0.0023  Score=48.87  Aligned_cols=91  Identities=8%  Similarity=-0.103  Sum_probs=70.1

Q ss_pred             hhcccchHHHHHHHHHHHhc-----C-CCCC-HHHHHHHHHHHHcCCCHHHHHHHHhhcc-----cCCCCCCCChhhHHH
Q 038114           53 CSSLRSLQLGRKVHDHILSS-----K-SQPD-VVLQNYILNMYGKCGSLEDARVVSDEMP-----QRNVIESPDLASWNA  120 (170)
Q Consensus        53 ~~~~~~~~~a~~~~~~m~~~-----~-~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~-----~~~~~~~p~~~~~~~  120 (170)
                      +...|++++|..++++..+.     | -.|+ ..+++.|...|...|++++|+.++++..     ..|..++--..+++.
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            45789999999999888652     1 1333 5689999999999999999999988653     223321223566999


Q ss_pred             HHHHHhCCCChHHHHHHHHHHHh
Q 038114          121 IIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus       121 li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      |-..|...|++++|+.++++-..
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~  421 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYA  421 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999999987653

>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=97.03  E-value=0.005  Score=46.30  Aligned_cols=85  Identities=8%  Similarity=-0.053  Sum_probs=43.4

Q ss_pred             cchHHHHHHHHHHHhc---CC---CCC-HHHHHHHHHHHHcCCCHHHHHHHHhhcc-----cCCCCCCCC-hhhHHHHHH
Q 038114           57 RSLQLGRKVHDHILSS---KS---QPD-VVLQNYILNMYGKCGSLEDARVVSDEMP-----QRNVIESPD-LASWNAIIA  123 (170)
Q Consensus        57 ~~~~~a~~~~~~m~~~---~~---~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~-----~~~~~~~p~-~~~~~~li~  123 (170)
                      |++++|..++++..+.   -+   .|+ ..+++.|..+|...|++++|+.++++..     ..|.. -|+ ..+|+.+-.
T Consensus       312 g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~-Hp~~a~~l~nLa~  390 (433)
T 3qww_A          312 KSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVY-SLNVASMWLKLGR  390 (433)
T ss_dssp             SCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSS-CHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCC-ChHHHHHHHHHHH
Confidence            3455555555554431   11   122 3456666666666666666666655432     12222 222 334666666


Q ss_pred             HHhCCCChHHHHHHHHHHH
Q 038114          124 GVASPSNANEAMSLFSEMR  142 (170)
Q Consensus       124 ~~~~~g~~~~a~~l~~~m~  142 (170)
                      .|...|++++|+.++++-.
T Consensus       391 ~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHH
Confidence            6666666666666665543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.00  E-value=0.0043  Score=36.26  Aligned_cols=60  Identities=10%  Similarity=0.004  Sum_probs=30.7

Q ss_pred             hhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhc
Q 038114           44 STYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEM  104 (170)
Q Consensus        44 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  104 (170)
                      ..+..+-.++...|++++|...|+...+.. +-+...|..+-.+|.+.|++++|.+.|++.
T Consensus         8 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~a   67 (100)
T 3ma5_A            8 FTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQG   67 (100)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            344444455555555555555555555432 112345555555555555555555555543

>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=97.00  E-value=0.0022  Score=48.18  Aligned_cols=87  Identities=8%  Similarity=0.025  Sum_probs=67.6

Q ss_pred             cccCCHHHHHHHHHHHHhh---CCCC---cc-hhhHHHHHHHhhcccchHHHHHHHHHHHhc-----C-CCCC-HHHHHH
Q 038114           18 PIQNLYNEALVAFDFLQNN---TNFR---IR-PSTYACLISTCSSLRSLQLGRKVHDHILSS-----K-SQPD-VVLQNY   83 (170)
Q Consensus        18 ~~~~~~~~a~~~~~~m~~~---~~~~---p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~-~~~~-~~~~~~   83 (170)
                      ...|++++|..++++. ..   .-.-   |+ ..+++.|..+|...|++++|..++++..+-     | -.|+ ..+++.
T Consensus       309 ~~~g~~~eA~~~~~~~-L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  387 (433)
T 3qww_A          309 KHYKSPSELLEICELS-QEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLK  387 (433)
T ss_dssp             TTTSCHHHHHHHHHHH-HHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHH-HHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHH
Confidence            3467899999999886 33   1122   22 247899999999999999999999988752     2 2444 568999


Q ss_pred             HHHHHHcCCCHHHHHHHHhhcc
Q 038114           84 ILNMYGKCGSLEDARVVSDEMP  105 (170)
Q Consensus        84 li~~~~~~~~~~~a~~~~~~m~  105 (170)
                      |-..|...|++++|+.++++..
T Consensus       388 La~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          388 LGRLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhccCHHHHHHHHHHHH
Confidence            9999999999999999998744

>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=96.97  E-value=0.0026  Score=47.80  Aligned_cols=93  Identities=11%  Similarity=-0.048  Sum_probs=68.4

Q ss_pred             HHHhhcccchHHHHHHHHHHHhc---CCCC----CHHHHHHHHHHHHcCCCHHHHHHHHhhccc-----CCCCCCCChhh
Q 038114           50 ISTCSSLRSLQLGRKVHDHILSS---KSQP----DVVLQNYILNMYGKCGSLEDARVVSDEMPQ-----RNVIESPDLAS  117 (170)
Q Consensus        50 i~~~~~~~~~~~a~~~~~~m~~~---~~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~~~p~~~~  117 (170)
                      +..+.+.|++++|..++++..+.   -+.|    ...+++.|...|...|++++|+.++++...     .|..++--..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            44556778899999999888753   1222    256888999999999999999998886532     23321222456


Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHH
Q 038114          118 WNAIIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus       118 ~~~li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      ++.+-..|...|++++|+.++++-.
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            8888899999999999999988765

>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=96.95  E-value=0.0064  Score=45.67  Aligned_cols=91  Identities=12%  Similarity=0.066  Sum_probs=71.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCC---CCc----chhhHHHHHHHhhcccchHHHHHHHHHHHhc-----C-CCCC-H
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTN---FRI----RPSTYACLISTCSSLRSLQLGRKVHDHILSS-----K-SQPD-V   78 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~---~~p----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~-~~~~-~   78 (170)
                      .+..+.+.|++++|..++++. ....   ..|    ...+++.+..+|...|++++|..++.+..+-     | ..|+ .
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~-L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a  371 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAI-ISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRG  371 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHH-HHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHH
Confidence            366777889999999999887 5321   222    2337889999999999999999999987642     2 2444 5


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHhhc
Q 038114           79 VLQNYILNMYGKCGSLEDARVVSDEM  104 (170)
Q Consensus        79 ~~~~~li~~~~~~~~~~~a~~~~~~m  104 (170)
                      .+++.|-..|...|++++|+.++++.
T Consensus       372 ~~l~nLa~~~~~~g~~~eA~~~~~~A  397 (429)
T 3qwp_A          372 VQVMKVGKLQLHQGMFPQAMKNLRLA  397 (429)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            68999999999999999999998864

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=96.34  E-value=0.21  Score=37.43  Aligned_cols=121  Identities=9%  Similarity=-0.025  Sum_probs=83.1

Q ss_pred             hHHHhhhccc----CCHHHHHHHHHHHHhhCCCCcchhhHHHHHHH-h--hcccchHHHHHHHHHHHhcCCCCCHHHHHH
Q 038114           11 FTFYNSQPIQ----NLYNEALVAFDFLQNNTNFRIRPSTYACLIST-C--SSLRSLQLGRKVHDHILSSKSQPDVVLQNY   83 (170)
Q Consensus        11 ~~li~~~~~~----~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~-~--~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~   83 (170)
                      +++-..|...    +++++|+..|++. . .|   ++..+..+-.. +  ...+++++|..+|.+..+.|   ++..+..
T Consensus       217 ~~Lg~~y~~g~~~~~d~~~A~~~~~~a-a-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~  288 (452)
T 3e4b_A          217 DSVARVLGDATLGTPDEKTAQALLEKI-A-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELL  288 (452)
T ss_dssp             HHHHHHHTCGGGSSCCHHHHHHHHHHH-G-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHhCCCCCCCCHHHHHHHHHHH-c-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            4454444443    7899999999998 5 33   33334444333 2  45789999999999998877   5667777


Q ss_pred             HHHHHHcCC-----CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhC----CCChHHHHHHHHHHHhCCC
Q 038114           84 ILNMYGKCG-----SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVAS----PSNANEAMSLFSEMRDREL  146 (170)
Q Consensus        84 li~~~~~~~-----~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~~~  146 (170)
                      |-..|. .|     ++++|.+.|+... .|.     ...+..+-..|..    ..+.++|..+|+.-.+.|.
T Consensus       289 Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g~-----~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  353 (452)
T 3e4b_A          289 LGKLYY-EGKWVPADAKAAEAHFEKAV-GRE-----VAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ  353 (452)
T ss_dssp             HHHHHH-HCSSSCCCHHHHHHHHHTTT-TTC-----HHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHH-cCCCCCCCHHHHHHHHHHHh-CCC-----HHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh
Confidence            777776 44     8999999999887 443     2445555455544    3488999999988776653

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.25  E-value=0.017  Score=33.16  Aligned_cols=58  Identities=14%  Similarity=0.039  Sum_probs=29.8

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchh-hHHHHHHHhhcccchHHHHHHHHHHHhc
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPS-TYACLISTCSSLRSLQLGRKVHDHILSS   72 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~   72 (170)
                      ....+.+.|++++|...|++. .... +-+.. .+..+-.++...|++++|...|.+..+.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~a-l~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEF-LQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHH-HHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            344455556666666666555 3321 11233 4445555555556666666666655544

>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=96.24  E-value=0.0043  Score=39.98  Aligned_cols=115  Identities=12%  Similarity=0.036  Sum_probs=69.5

Q ss_pred             hcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccch----------HHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114           17 QPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSL----------QLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus        17 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~----------~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      ..+.+.+++|+..++.. .+.. +-+...|..+=.++...+++          ++|...|++..+-. +-+...|..+-.
T Consensus        12 ~~r~~~feeA~~~~~~A-i~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~   88 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENT-YKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGN   88 (158)
T ss_dssp             HHHHHHHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHH-HHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHH
Confidence            44556778888888777 4332 23555666565666666554          47777777776653 224667777777


Q ss_pred             HHHcCC-----------CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           87 MYGKCG-----------SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        87 ~~~~~~-----------~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      +|...|           ++++|.+.|++..+.    .|+...|...+..      .++|-+++-+....
T Consensus        89 ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l----~P~~~~y~~al~~------~~ka~el~~~~~~~  147 (158)
T 1zu2_A           89 AYTSFAFLTPDETEAKHNFDLATQFFQQAVDE----QPDNTHYLKSLEM------TAKAPQLHAEAYKQ  147 (158)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH----CTTCHHHHHHHHH------HHTHHHHHHHHHHS
T ss_pred             HHHHhcccCcchhhhhccHHHHHHHHHHHHHh----CCCCHHHHHHHHH------HHhCHhccCccccc
Confidence            777654           677777777776654    5555555444443      23445555444444

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.22  E-value=0.029  Score=32.14  Aligned_cols=59  Identities=14%  Similarity=0.063  Sum_probs=49.1

Q ss_pred             HHHhhcccchHHHHHHHHHHHhcCCCCCHH-HHHHHHHHHHcCCCHHHHHHHHhhcccCCC
Q 038114           50 ISTCSSLRSLQLGRKVHDHILSSKSQPDVV-LQNYILNMYGKCGSLEDARVVSDEMPQRNV  109 (170)
Q Consensus        50 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  109 (170)
                      -..+.+.|++++|...|++..+.. +.+.. .+..+-.+|.+.|++++|.+.|+...+...
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p   66 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNP   66 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            345667899999999999998864 33567 889999999999999999999998876544

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.16  E-value=0.026  Score=45.07  Aligned_cols=27  Identities=4%  Similarity=-0.288  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHhhc
Q 038114           78 VVLQNYILNMYGKCGSLEDARVVSDEM  104 (170)
Q Consensus        78 ~~~~~~li~~~~~~~~~~~a~~~~~~m  104 (170)
                      ...|..|-..+.+.++++.|+++|..+
T Consensus       681 ~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          681 EMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            444444444444444444444444443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=96.09  E-value=0.1  Score=39.85  Aligned_cols=122  Identities=14%  Similarity=0.093  Sum_probs=88.0

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHH--HHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYA--CLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      .|- .+....+.+..+.|+.+|+.. +..+.  +...|.  +.+.... .++.+.|..+|+...+.- +-++..+...++
T Consensus       288 lw~~y~~~~~r~~~~~~AR~i~~~A-~~~~~--~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~-~~~~~~~~~yid  362 (493)
T 2uy1_A          288 LRINHLNYVLKKRGLELFRKLFIEL-GNEGV--GPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKH-PDSTLLKEEFFL  362 (493)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHH-TTSCC--CHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHh-hCCCC--ChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            344 466666778899999999999 54432  333443  3333322 236999999999988753 223556777888


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      ...+.|+.+.|..+|+....       +...|...+.-=...|+.+.+..++++...
T Consensus       363 ~e~~~~~~~~aR~l~er~~k-------~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          363 FLLRIGDEENARALFKRLEK-------TSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHTCHHHHHHHHHHSCC-------BHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH-------HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            88889999999999999732       346788888766777999999998887764

>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=95.91  E-value=0.12  Score=30.60  Aligned_cols=68  Identities=10%  Similarity=0.095  Sum_probs=41.8

Q ss_pred             hhccc-chHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHH
Q 038114           53 CSSLR-SLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIA  123 (170)
Q Consensus        53 ~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~  123 (170)
                      +.+.. +.-+..+.++.+....+.|++.+..+.+++|-|.+++..|.++|+..+.+--   +...+|..+++
T Consensus        19 F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~---~~~~iY~~~lq   87 (109)
T 1v54_E           19 FNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG---PHKEIYPYVIQ   87 (109)
T ss_dssp             HTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT---TCTTHHHHHHH
T ss_pred             cCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc---CchhhHHHHHH
Confidence            33444 4556666666666667777777777777777777777777777776664322   11234555553

>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=95.78  E-value=0.031  Score=36.00  Aligned_cols=103  Identities=14%  Similarity=-0.001  Sum_probs=79.5

Q ss_pred             hcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCC----------HHHHHHHHhhcccCCCCCCCChhhHHHHHH
Q 038114           54 SSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGS----------LEDARVVSDEMPQRNVIESPDLASWNAIIA  123 (170)
Q Consensus        54 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~~~~~p~~~~~~~li~  123 (170)
                      .+.+.+++|.+.++...+.. +-+...|+.+-.++...++          +++|...|++..+.+.   -+...|..+-.
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP---~~~~A~~~LG~   88 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP---KKDEAVWCIGN   88 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT---TCHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCc---CcHHHHHHHHH
Confidence            35577899999999988764 4467888888778887765          4699999999887644   24567888888


Q ss_pred             HHhCC-----------CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcC
Q 038114          124 GVASP-----------SNANEAMSLFSEMRDRELIPDGLTVRSLLCACTS  162 (170)
Q Consensus       124 ~~~~~-----------g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~  162 (170)
                      +|...           |++++|...|++-.+  +.|+..+|..-+...-+
T Consensus        89 ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~~~~k  136 (158)
T 1zu2_A           89 AYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMTAK  136 (158)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHT
T ss_pred             HHHHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHh
Confidence            88766           489999999997775  47888888887776654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=95.62  E-value=0.38  Score=34.33  Aligned_cols=135  Identities=10%  Similarity=0.057  Sum_probs=88.9

Q ss_pred             cchhHhH-HHhhhcccCCHH--HHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccc------hHHHHHHHHHHHhcCCCC
Q 038114            6 KTQLRFT-FYNSQPIQNLYN--EALVAFDFLQNNTNFRIRPSTYACLISTCSSLRS------LQLGRKVHDHILSSKSQP   76 (170)
Q Consensus         6 ~~~~~~~-li~~~~~~~~~~--~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~------~~~a~~~~~~m~~~~~~~   76 (170)
                      ++-..|+ ---.+.+.|.++  ++++.++++ ..... -|-..|+---....+.+.      ++++.+.+....... +-
T Consensus       142 kny~aW~~R~~vl~~l~~~~~~~EL~~~~~~-i~~d~-~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~-p~  218 (306)
T 3dra_A          142 KNHHVWSYRKWLVDTFDLHNDAKELSFVDKV-IDTDL-KNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC-PQ  218 (306)
T ss_dssp             TCHHHHHHHHHHHHHTTCTTCHHHHHHHHHH-HHHCT-TCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC-SS
T ss_pred             CCHHHHHHHHHHHHHhcccChHHHHHHHHHH-HHhCC-CCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC-CC
Confidence            3445555 333344456666  888888888 54433 233445444444444454      778888888877764 44


Q ss_pred             CHHHHHHHHHHHHcCCC-HHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114           77 DVVLQNYILNMYGKCGS-LEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus        77 ~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      |...|+-+-..+.+.|+ .+.+...+.+....+-....+...+..+...+...|+.++|.++++.+.+
T Consensus       219 n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          219 NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            68888888888877776 44455666666554300035667888888999999999999999999875

>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=95.46  E-value=0.67  Score=36.05  Aligned_cols=139  Identities=10%  Similarity=-0.011  Sum_probs=100.8

Q ss_pred             HHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhccc--chHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC-CHHHHHH
Q 038114           23 YNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLR--SLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG-SLEDARV   99 (170)
Q Consensus        23 ~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~   99 (170)
                      +++++..++.+ ..... =+..+|+.---++.+.+  +++++.+.++.+.+.. .-+...|+----.+.+.| .++++.+
T Consensus        89 ~~~eL~~~~~~-l~~~p-K~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~  165 (567)
T 1dce_A           89 VKAELGFLESC-LRVNP-KSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELA  165 (567)
T ss_dssp             HHHHHHHHHHH-HHHCT-TCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHH
T ss_pred             HHHHHHHHHHH-HHhCC-CCHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHH
Confidence            89999999998 55332 24445665555566777  6799999999999875 447888988888888888 8999999


Q ss_pred             HHhhcccCCCCCCCChhhHHHHHHHHhCC--------------CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCc
Q 038114          100 VSDEMPQRNVIESPDLASWNAIIAGVASP--------------SNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSN  165 (170)
Q Consensus       100 ~~~~m~~~~~~~~p~~~~~~~li~~~~~~--------------g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~  165 (170)
                      .++++.+.+.   -|...|+..-..+.+.              +.++++.+.+.+..... .-|...|..+-..+.+.++
T Consensus       166 ~~~~~I~~~p---~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          166 FTDSLITRNF---SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             HHHTTTTTTC---CCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCC
T ss_pred             HHHHHHHHCC---CCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCC
Confidence            9999988766   4566777665554431              45788888888776543 2256667777777777776


Q ss_pred             ccc
Q 038114          166 VLY  168 (170)
Q Consensus       166 ~e~  168 (170)
                      .++
T Consensus       242 ~~~  244 (567)
T 1dce_A          242 HDV  244 (567)
T ss_dssp             CSC
T ss_pred             ccc
Confidence            554

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.36  E-value=0.22  Score=32.61  Aligned_cols=47  Identities=15%  Similarity=0.010  Sum_probs=29.9

Q ss_pred             hcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHH
Q 038114           17 QPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHIL   70 (170)
Q Consensus        17 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~   70 (170)
                      ..+.|+++.|.++-+.+       -+...|..|-......|+++-|.+.|....
T Consensus        15 AL~lg~l~~A~e~a~~l-------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~   61 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL-------NDSITWERLIQEALAQGNASLAEMIYQTQH   61 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             HHhcCCHHHHHHHHHHh-------CCHHHHHHHHHHHHHcCChHHHHHHHHHhC
Confidence            34567777777776665       345566666666666666666666665554

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.21  E-value=0.16  Score=29.70  Aligned_cols=66  Identities=11%  Similarity=0.073  Sum_probs=42.2

Q ss_pred             chhhHHHHHHHhhcccchHHHHHHHHHHHhc------CCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           42 RPSTYACLISTCSSLRSLQLGRKVHDHILSS------KSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        42 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      +...+..+-..+.+.+++..|..+|+...+.      +-.+...++..|-.+|.+.|+++.|...+++....
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            4444555556666667777777777665542      11234567777777777888888888877776643

>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=95.11  E-value=0.12  Score=38.11  Aligned_cols=70  Identities=9%  Similarity=0.133  Sum_probs=57.1

Q ss_pred             HHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh-----CCCCCCHhhHH
Q 038114           82 NYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD-----RELIPDGLTVR  154 (170)
Q Consensus        82 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~-----~~~~p~~~t~~  154 (170)
                      ..++..+...|++++|...+.......   +.+...|-.++.++.+.|+..+|++.|+...+     .|+.|+..+-.
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~---P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEH---PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            345667778899999998888876543   36788999999999999999999999998864     49999887743

>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=95.09  E-value=0.42  Score=34.01  Aligned_cols=95  Identities=12%  Similarity=0.112  Sum_probs=71.5

Q ss_pred             hHHHHHHHHHHHhcCCCCC---HHHHHHHHHHHHc-----CCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCC-C
Q 038114           59 LQLGRKVHDHILSSKSQPD---VVLQNYILNMYGK-----CGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASP-S  129 (170)
Q Consensus        59 ~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~-g  129 (170)
                      ...|...+++..+  +.|+   -..|+.|...|.+     .|+.++|.+.|++-.+.+.  .-+..++......+++. |
T Consensus       179 l~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP--~~~id~~v~YA~~l~~~~g  254 (301)
T 3u64_A          179 VHAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCS--AHDPDHHITYADALCIPLN  254 (301)
T ss_dssp             HHHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCC--TTCSHHHHHHHHHTTTTTT
T ss_pred             HHHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCC--CCCchHHHHHHHHHHHhcC
Confidence            3445555555544  3555   5689999999999     5999999999998876533  22357777788888885 9


Q ss_pred             ChHHHHHHHHHHHhCCCC--CCHhhHHHHH
Q 038114          130 NANEAMSLFSEMRDRELI--PDGLTVRSLL  157 (170)
Q Consensus       130 ~~~~a~~l~~~m~~~~~~--p~~~t~~~ll  157 (170)
                      +.+.+.+++++-......  |+....+.+-
T Consensus       255 d~~~a~~~L~kAL~a~p~~~P~~~lan~~~  284 (301)
T 3u64_A          255 NRAGFDEALDRALAIDPESVPHNKLLVILS  284 (301)
T ss_dssp             CHHHHHHHHHHHHHCCGGGCSSCHHHHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCCCChhHHHHHH
Confidence            999999999999988877  8876666554

>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=95.05  E-value=0.28  Score=30.62  Aligned_cols=47  Identities=11%  Similarity=0.065  Sum_probs=24.6

Q ss_pred             hHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcc
Q 038114           59 LQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMP  105 (170)
Q Consensus        59 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  105 (170)
                      ..+..+-++.+....+.|++.+..+.++++-|.+++..|.++|+..+
T Consensus        69 ~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK  115 (152)
T 2y69_E           69 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK  115 (152)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33444444444444555555555555555555555555555555554

>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=95.03  E-value=0.32  Score=29.97  Aligned_cols=90  Identities=7%  Similarity=-0.163  Sum_probs=70.8

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhc----ccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSS----LRSLQLGRKVHDHILSSKSQPDVVLQNYILNMY   88 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~   88 (170)
                      +-..|...+..+.|++.|++. .+.|   ++..+..|=..|..    .+++++|..+|+...+.|   ++..+..|-..|
T Consensus        31 lg~~y~~g~~~~~A~~~~~~A-a~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y  103 (138)
T 1klx_A           31 LSLVSNSQINKQKLFQYLSKA-CELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQ  103 (138)
T ss_dssp             HHHHTCTTSCHHHHHHHHHHH-HHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHH-HcCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHH
Confidence            555566677888899999998 6665   34555555555655    789999999999998876   567788888888


Q ss_pred             Hc----CCCHHHHHHHHhhcccCCC
Q 038114           89 GK----CGSLEDARVVSDEMPQRNV  109 (170)
Q Consensus        89 ~~----~~~~~~a~~~~~~m~~~~~  109 (170)
                      ..    .+++++|.+.|+...+.|.
T Consensus       104 ~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A          104 YAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            88    7899999999998877665

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=94.90  E-value=0.16  Score=29.76  Aligned_cols=72  Identities=6%  Similarity=-0.050  Sum_probs=57.2

Q ss_pred             CCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCC------CCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCC
Q 038114           75 QPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRN------VIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIP  148 (170)
Q Consensus        75 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p  148 (170)
                      ..+...+-.+-..+.+.++++.|...|+...+..      .  .+....+..+..++.+.|+++.|..++++..+.  .|
T Consensus         2 ~Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~--~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l--~P   77 (104)
T 2v5f_A            2 FLTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEIST--IDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL--DP   77 (104)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCS--SCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CT
T ss_pred             CCCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCc--ccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc--CC
Confidence            3566777888899999999999999998765321      1  245678899999999999999999999988753  45


Q ss_pred             CH
Q 038114          149 DG  150 (170)
Q Consensus       149 ~~  150 (170)
                      +.
T Consensus        78 ~~   79 (104)
T 2v5f_A           78 EH   79 (104)
T ss_dssp             TC
T ss_pred             CC
Confidence            44

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=94.55  E-value=0.84  Score=32.54  Aligned_cols=84  Identities=10%  Similarity=0.083  Sum_probs=48.7

Q ss_pred             cchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHH--HHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCC----
Q 038114           57 RSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLE--DARVVSDEMPQRNVIESPDLASWNAIIAGVASPSN----  130 (170)
Q Consensus        57 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~--~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~----  130 (170)
                      ++++++..+++.+.+.. +-+...|+----.+.+.+.++  ++.+.++.+.+.+.   -|...|+.--..+...|.    
T Consensus       124 ~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~---~N~sAW~~R~~ll~~l~~~~~~  199 (306)
T 3dra_A          124 FDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL---KNNSAWSHRFFLLFSKKHLATD  199 (306)
T ss_dssp             CCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHSSGGGCCH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHhccccchh
Confidence            56666667777666543 335666666655566666665  66666666665444   344555555444445444    


Q ss_pred             --hHHHHHHHHHHHhC
Q 038114          131 --ANEAMSLFSEMRDR  144 (170)
Q Consensus       131 --~~~a~~l~~~m~~~  144 (170)
                        ++++++.+.+....
T Consensus       200 ~~~~eEl~~~~~aI~~  215 (306)
T 3dra_A          200 NTIDEELNYVKDKIVK  215 (306)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHh
Confidence              56666666655543

>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=94.54  E-value=0.78  Score=33.72  Aligned_cols=76  Identities=7%  Similarity=-0.091  Sum_probs=61.4

Q ss_pred             CCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHH
Q 038114           75 QPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVR  154 (170)
Q Consensus        75 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~  154 (170)
                      +.++.+|.++-..+...|++++|...++.....    .|+...|..+-..+...|++++|.+.|.+-...  .|...||.
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~L----n~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~  347 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDL----EMSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLY  347 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH----CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc----CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHH
Confidence            567889988888788889999999999998876    466677777778889999999999999866644  67777765


Q ss_pred             HH
Q 038114          155 SL  156 (170)
Q Consensus       155 ~l  156 (170)
                      -.
T Consensus       348 ~~  349 (372)
T 3ly7_A          348 WI  349 (372)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=94.37  E-value=0.37  Score=27.70  Aligned_cols=67  Identities=12%  Similarity=-0.081  Sum_probs=36.4

Q ss_pred             chhhHHHHHHHhhcccc---hHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCC
Q 038114           42 RPSTYACLISTCSSLRS---LQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNV  109 (170)
Q Consensus        42 ~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  109 (170)
                      ++..+..+-.++...++   .++|..++++..+.. +-++.....+-..+.+.|++++|...|+.+.+...
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p   74 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSND   74 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            34444444444432222   466666666666543 22355555666666666666666666666665433

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=94.24  E-value=0.11  Score=33.06  Aligned_cols=84  Identities=11%  Similarity=-0.043  Sum_probs=47.4

Q ss_pred             CCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhccc---chHHHHHHHHHHHhcCCCC--CHHHHHHHHHHHHcCCCHH
Q 038114           21 NLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLR---SLQLGRKVHDHILSSKSQP--DVVLQNYILNMYGKCGSLE   95 (170)
Q Consensus        21 ~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~~~~~   95 (170)
                      .....+.+-|... ...+. ++..+.-.+--++++++   +.+++..+++...+.. .|  +...+=.|--+|.+.++++
T Consensus        12 ~~l~~~~~~y~~e-~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~   88 (152)
T 1pc2_A           12 EDLLKFEKKFQSE-KAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYE   88 (152)
T ss_dssp             HHHHHHHHHHHHH-HHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHH
T ss_pred             HHHHHHHHHHHHH-HccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHH
Confidence            3445555666555 44444 45554444444455554   5667777777777654 23  2223333444567777777


Q ss_pred             HHHHHHhhcccC
Q 038114           96 DARVVSDEMPQR  107 (170)
Q Consensus        96 ~a~~~~~~m~~~  107 (170)
                      +|.+.++...+.
T Consensus        89 ~A~~y~~~lL~i  100 (152)
T 1pc2_A           89 KALKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc
Confidence            777777776654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=94.11  E-value=0.2  Score=31.90  Aligned_cols=89  Identities=10%  Similarity=-0.001  Sum_probs=64.4

Q ss_pred             ccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC---CHHHHHHHHhhcccCCCCCCC--ChhhHHHHHHHHhCCCC
Q 038114           56 LRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG---SLEDARVVSDEMPQRNVIESP--DLASWNAIIAGVASPSN  130 (170)
Q Consensus        56 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~~~p--~~~~~~~li~~~~~~g~  130 (170)
                      ......+.+-|.+..+.|. ++..+.-.+--++++.+   +.+++..+|++..+.+.   |  +...+=.+--+|.+.|+
T Consensus        11 ~~~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~---p~~~rd~lY~LAv~~~kl~~   86 (152)
T 1pc2_A           11 VEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGS---KEEQRDYVFYLAVGNYRLKE   86 (152)
T ss_dssp             HHHHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSC---HHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCC---ccchHHHHHHHHHHHHHccC
Confidence            3456667777777767664 67888888888899988   57799999998876542   3  23334444556689999


Q ss_pred             hHHHHHHHHHHHhCCCCCCH
Q 038114          131 ANEAMSLFSEMRDRELIPDG  150 (170)
Q Consensus       131 ~~~a~~l~~~m~~~~~~p~~  150 (170)
                      +++|.+.++.+.+.  .|+-
T Consensus        87 Y~~A~~y~~~lL~i--eP~n  104 (152)
T 1pc2_A           87 YEKALKYVRGLLQT--EPQN  104 (152)
T ss_dssp             HHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHHHHHHHhc--CCCC
Confidence            99999999988754  4543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=93.79  E-value=0.61  Score=37.64  Aligned_cols=125  Identities=14%  Similarity=0.104  Sum_probs=76.5

Q ss_pred             HHhhhcccCC-HHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcc--cchHHHHHHHHHHHh-----cCCCC-CH-----
Q 038114           13 FYNSQPIQNL-YNEALVAFDFLQNNTNFRIRPSTYACLISTCSSL--RSLQLGRKVHDHILS-----SKSQP-DV-----   78 (170)
Q Consensus        13 li~~~~~~~~-~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~--~~~~~a~~~~~~m~~-----~~~~~-~~-----   78 (170)
                      ++.-+...++ .+.|..+|+.+ .......+.....++|......  .+++.+.-+.+.+..     ....+ +.     
T Consensus       254 Ll~~~~~t~~~~~~a~~~le~L-~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~  332 (754)
T 4gns_B          254 LKSFIAITPSLVDFTIDYLKGL-TKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARL  332 (754)
T ss_dssp             HHHHHHTCGGGHHHHHHHHHHH-HHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHH
T ss_pred             HHHHHcccccHHHHHHHHHHHH-HhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccccc
Confidence            4555555666 58899999999 5543322332333444444333  334444333333321     01111 11     


Q ss_pred             -----HHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHH
Q 038114           79 -----VLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEM  141 (170)
Q Consensus        79 -----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m  141 (170)
                           ...+.=.+.+...|+++.|+++-+.-...-   +-+-.+|-.|..+|...|+++.|+-.++.+
T Consensus       333 ~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a---PseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          333 MNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA---LDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---SSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             cCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC---chhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence                 122222344667899999999998865431   244789999999999999999999999988

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=93.78  E-value=0.44  Score=37.98  Aligned_cols=49  Identities=6%  Similarity=-0.137  Sum_probs=39.5

Q ss_pred             hhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHH
Q 038114           15 NSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHIL   70 (170)
Q Consensus        15 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~   70 (170)
                      ....+.|+++.|+++.+.+       .+...|..+-..+.+.++++.|.+.|..+.
T Consensus       660 ~~~l~~~~~~~A~~~~~~~-------~~~~~W~~la~~al~~~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          660 ELALKVGQLTLARDLLTDE-------SAEMKWRALGDASLQRFNFKLAIEAFTNAH  708 (814)
T ss_dssp             HHHHHHTCHHHHHHHHTTC-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             ehhhhcCCHHHHHHHHHhh-------CcHhHHHHHHHHHHHcCCHHHHHHHHHHcc
Confidence            3346678999998887666       466788899999999999999999988875

>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=93.63  E-value=0.61  Score=27.54  Aligned_cols=64  Identities=9%  Similarity=0.117  Sum_probs=52.7

Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCA  159 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~  159 (170)
                      +.-+..+-+..+-..++  .|++....+.+.+|-|.+++..|.++|+-.+.+. .+...+|..+++-
T Consensus        25 D~~e~rrglN~l~~~Dl--VP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lqE   88 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDL--VPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQE   88 (109)
T ss_dssp             CHHHHHHHHHHHTTSSB--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhcccc--CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHHH
Confidence            56677788888888888  8999999999999999999999999998887653 3335568877764

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.62  E-value=0.8  Score=28.87  Aligned_cols=63  Identities=16%  Similarity=0.150  Sum_probs=32.6

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 038114           81 QNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDREL  146 (170)
Q Consensus        81 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~  146 (170)
                      .+..++.....|.-++-.+++.++.. +.  +|++...-.+..+|.+.|+..+|.+++.+-=+.|+
T Consensus        94 vd~ALd~lv~~~KkDqLdki~~~~l~-n~--~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           94 VNKALDILVIQGKRDKLEEIGREILK-NN--EVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC---C--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhccHhHHHHHHHHHhc-cC--CCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            33444555555555555555555322 11  34444555555566666666666666655555554

>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=93.56  E-value=0.35  Score=35.72  Aligned_cols=71  Identities=7%  Similarity=-0.084  Sum_probs=56.9

Q ss_pred             HHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcc-----cCCCCCCCChhhHHHH
Q 038114           48 CLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMP-----QRNVIESPDLASWNAI  121 (170)
Q Consensus        48 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~-----~~~~~~~p~~~~~~~l  121 (170)
                      .++.++...|+++++...+..+.... +.+-..|..+|.++.+.|+..+|.+.|+...     +.|+  .|+..+=...
T Consensus       176 ~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~--~P~~~l~~l~  251 (388)
T 2ff4_A          176 AKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGI--DPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSC--CCCHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCC--CCCHHHHHHH
Confidence            34556667899999998888887653 5678899999999999999999999999764     4588  8887664433

>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=93.44  E-value=0.36  Score=35.51  Aligned_cols=74  Identities=7%  Similarity=-0.096  Sum_probs=59.9

Q ss_pred             CcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHH
Q 038114           40 RIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWN  119 (170)
Q Consensus        40 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~  119 (170)
                      +.++.+|.++-..+...|++++|...+++....+  |+...|..+-..+.-.|++++|.+.|++....    .|...||.
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL----~P~~~t~~  347 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL----RPGANTLY  347 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----SCSHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc----CCCcChHH
Confidence            4566677777666666799999999999999875  78888888888899999999999999987665    45656654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=93.10  E-value=0.68  Score=26.55  Aligned_cols=68  Identities=9%  Similarity=-0.036  Sum_probs=51.9

Q ss_pred             CCCHHHHHHHHHHHHcCCC---HHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC
Q 038114           75 QPDVVLQNYILNMYGKCGS---LEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus        75 ~~~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      +.++..+..+-.++...++   .++|..+|++..+.+.   -++.....+-..+...|++++|...|+.+.+..
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp---~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEP---YNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCc---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            3466777777777754443   7999999998876533   345666777788899999999999999998764

>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=92.79  E-value=1.4  Score=31.29  Aligned_cols=114  Identities=8%  Similarity=-0.046  Sum_probs=76.8

Q ss_pred             cchhHhH-H-Hhhhccc--CC---H---HHHHHHHHHHHhhCCCCcc---hhhHHHHHHHhhc-----ccchHHHHHHHH
Q 038114            6 KTQLRFT-F-YNSQPIQ--NL---Y---NEALVAFDFLQNNTNFRIR---PSTYACLISTCSS-----LRSLQLGRKVHD   67 (170)
Q Consensus         6 ~~~~~~~-l-i~~~~~~--~~---~---~~a~~~~~~m~~~~~~~p~---~~~~~~li~~~~~-----~~~~~~a~~~~~   67 (170)
                      .+...|. + ..++...  |.   .   ..|...+++.   -.+-|+   -..|..+-..|..     .|+.++|.+.|+
T Consensus       152 ve~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerA---leLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~fe  228 (301)
T 3u64_A          152 VGTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERA---CDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFE  228 (301)
T ss_dssp             HHHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHH---HHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHH---HHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHH
Confidence            4566777 4 4444332  22   2   3445555554   223444   4478888888888     499999999999


Q ss_pred             HHHhcCCCCCHHHHHHHHHHHHcC-CCHHHHHHHHhhcccCCCCCCCChhhHHHHH
Q 038114           68 HILSSKSQPDVVLQNYILNMYGKC-GSLEDARVVSDEMPQRNVIESPDLASWNAII  122 (170)
Q Consensus        68 ~m~~~~~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li  122 (170)
                      +-.+-+-.-+..++...-..+++. |+.+++.+.+++.........|+....|.+-
T Consensus       229 rAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~~~  284 (301)
T 3u64_A          229 HLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKLLVILS  284 (301)
T ss_dssp             HHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHHHHH
T ss_pred             HHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHHHHH
Confidence            998864322366777777888885 9999999999999887761127766555544

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=91.46  E-value=0.78  Score=34.94  Aligned_cols=122  Identities=14%  Similarity=-0.010  Sum_probs=64.8

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcC---------C---CC
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSK---------S---QP   76 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---------~---~~   76 (170)
                      .|- .+.-+.+.|+.+.|..+|++. ...   |+...+..   .|+...+.++   +++.+.+.-         .   ..
T Consensus       215 lW~~ya~~~~~~~~~~~ar~i~erA-i~~---P~~~~l~~---~y~~~~e~~~---~~~~l~~~~~~~~~~~~~~~~~~~  284 (493)
T 2uy1_A          215 VYFFYSEYLIGIGQKEKAKKVVERG-IEM---SDGMFLSL---YYGLVMDEEA---VYGDLKRKYSMGEAESAEKVFSKE  284 (493)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-HHH---CCSSHHHH---HHHHHTTCTH---HHHHHHHHTC----------CHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH-HhC---CCcHHHHH---HHHhhcchhH---HHHHHHHHHHhhccchhhhhcccc
Confidence            344 456667789999999999998 554   44332221   1222111111   122222210         0   11


Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           77 DVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        77 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      ...+|-..++...+.+.++.|..+|+.....+.  .+.+....+.+...+ .++.+.|..+|+...+.
T Consensus       285 ~~~lw~~y~~~~~r~~~~~~AR~i~~~A~~~~~--~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~  349 (493)
T 2uy1_A          285 LDLLRINHLNYVLKKRGLELFRKLFIELGNEGV--GPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLK  349 (493)
T ss_dssp             HHHHHHHHHHHHHHHHCHHHHHHHHHHHTTSCC--CHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHhhCCCC--ChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHH
Confidence            134566666666677778888888887722111  122222223333333 23688888888877664

>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=91.18  E-value=1.9  Score=27.49  Aligned_cols=111  Identities=5%  Similarity=0.022  Sum_probs=73.4

Q ss_pred             hhHhH-HHhhhcccCCH------HHHHHHHHHHHhhCCCCcchh----hHHHHHHHh---hcccchHHHHHHHHHHHhcC
Q 038114            8 QLRFT-FYNSQPIQNLY------NEALVAFDFLQNNTNFRIRPS----TYACLISTC---SSLRSLQLGRKVHDHILSSK   73 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~------~~a~~~~~~m~~~~~~~p~~~----~~~~li~~~---~~~~~~~~a~~~~~~m~~~~   73 (170)
                      ..+|- .+.-.-+.|++      ++.+++|++. -. .++|+..    .|--+.--|   ...++.+.|.++|..+++.+
T Consensus        13 yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerA-ia-~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           13 PEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQA-IE-ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             HHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHH-HH-HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHH-HH-cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            33454 57777777888      8888888877 33 4555432    111111111   22378899999999987654


Q ss_pred             CCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHH
Q 038114           74 SQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAG  124 (170)
Q Consensus        74 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~  124 (170)
                      -.. ..+|-..-..-.+.|+++.|.+++..-...+.  +|.. ...+.|..
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~--k~~~-~le~a~~n  137 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGA--VPLE-MLEIALRN  137 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC--BCHH-HHHHHHHH
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCC--CcHH-HHHHHHHh
Confidence            455 77888888888889999999999998877666  5543 44444443

>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=91.15  E-value=3.3  Score=30.14  Aligned_cols=45  Identities=9%  Similarity=0.002  Sum_probs=21.0

Q ss_pred             HHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCC-------hHHHHHHHHHHHh
Q 038114           96 DARVVSDEMPQRNVIESPDLASWNAIIAGVASPSN-------ANEAMSLFSEMRD  143 (170)
Q Consensus        96 ~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~-------~~~a~~l~~~m~~  143 (170)
                      ++.+.++++.+.+.   -|...|+.--..+.+.+.       ++++++.+.+...
T Consensus       185 eELe~~~k~I~~dp---~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~  236 (349)
T 3q7a_A          185 SELDWCNEMLRVDG---RNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIH  236 (349)
T ss_dssp             HHHHHHHHHHHHCT---TCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCC---CCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHH
Confidence            45555555544333   233445554444444443       4455555544443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=91.13  E-value=1.7  Score=27.44  Aligned_cols=86  Identities=9%  Similarity=-0.041  Sum_probs=68.0

Q ss_pred             hcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHH
Q 038114           17 QPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLED   96 (170)
Q Consensus        17 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~   96 (170)
                      ....|+......-+-.+      .-++..+...+......|+-++-.++...+.. +.+|++...-.+-.+|.+-|+..+
T Consensus        71 is~C~NlKrVi~C~~~~------n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~  143 (172)
T 1wy6_A           71 LDKCQNLKSVVECGVIN------NTLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERD  143 (172)
T ss_dssp             GGGCSCTHHHHHHHHHT------TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHH
T ss_pred             cHhhhcHHHHHHHHHHh------cchHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhh
Confidence            35567777888877777      35666788888888899999988888888644 347777888888889999999999


Q ss_pred             HHHHHhhcccCCC
Q 038114           97 ARVVSDEMPQRNV  109 (170)
Q Consensus        97 a~~~~~~m~~~~~  109 (170)
                      |.+++.+.-+.|+
T Consensus       144 a~eLl~~AC~kG~  156 (172)
T 1wy6_A          144 ATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhhh
Confidence            9999988888777

>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=90.95  E-value=1.9  Score=26.96  Aligned_cols=64  Identities=9%  Similarity=0.117  Sum_probs=51.8

Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCA  159 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~  159 (170)
                      +.-+..+-+..+-..++  .|++....+.+.+|-|.+++..|.++|+-.+.+- .+....|..+++-
T Consensus        68 D~wElrrglN~l~~~Dl--VPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~lqE  131 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDL--VPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQE  131 (152)
T ss_dssp             CHHHHHHHHHHHTTSSB--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhcccc--CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHHHH
Confidence            45556777777778888  8999999999999999999999999998877653 4446678887764

>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=90.56  E-value=5  Score=31.17  Aligned_cols=133  Identities=8%  Similarity=0.063  Sum_probs=93.4

Q ss_pred             cCCHHHHHHHHHHHHhhCCCCcc-hhhHHHHHHHhhcccc----------hHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 038114           20 QNLYNEALVAFDFLQNNTNFRIR-PSTYACLISTCSSLRS----------LQLGRKVHDHILSSKSQPDVVLQNYILNMY   88 (170)
Q Consensus        20 ~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~   88 (170)
                      ....++|++.++++ ...+  |+ ...|+.-=.++...++          ++++.+.++.+.+.. +-+..+|+----.+
T Consensus        42 ~~~~eeal~~~~~~-l~~n--P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l  117 (567)
T 1dce_A           42 GELDESVLELTSQI-LGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLL  117 (567)
T ss_dssp             TCCSHHHHHHHHHH-HHHC--TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH-HHHC--chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            34456779999888 5433  32 2344433333334444          899999999998865 44688888888888


Q ss_pred             HcCC--CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCC-ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHh
Q 038114           89 GKCG--SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPS-NANEAMSLFSEMRDRELIPDGLTVRSLLCAC  160 (170)
Q Consensus        89 ~~~~--~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g-~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~  160 (170)
                      .+.+  +++++.+.++++.+.+.   -+...|+.---.+.+.| .++++++.+.++.+.... |...|+..-..+
T Consensus       118 ~~l~~~~~~~el~~~~k~l~~d~---~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll  188 (567)
T 1dce_A          118 SRLPEPNWARELELCARFLEADE---RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLL  188 (567)
T ss_dssp             HTCSSCCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHH
T ss_pred             HHcccccHHHHHHHHHHHHhhcc---ccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHH
Confidence            8888  77999999999987655   45678888777777788 899999999888765432 444555444443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=90.35  E-value=0.005  Score=47.00  Aligned_cols=146  Identities=11%  Similarity=0.106  Sum_probs=97.0

Q ss_pred             ccchhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHH
Q 038114            5 LKTQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNY   83 (170)
Q Consensus         5 ~~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~   83 (170)
                      +.+...|. |-.+....+...+|++-|-+.       -|+..|.-+|.++.+.|.+++-...+...++.  .-++.+=+.
T Consensus        51 ~n~p~VWs~LgkAqL~~~~v~eAIdsyIkA-------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~--~ke~~IDte  121 (624)
T 3lvg_A           51 CNEPAVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETE  121 (624)
T ss_dssp             CCCCCCSSSHHHHTTTSSSCTTTTTSSCCC-------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT--CCSTTTTHH
T ss_pred             hCCccHHHHHHHHHHccCchHHHHHHHHhC-------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccHHH
Confidence            34455677 788888888888777666544       46778889999999999999888777766655  334566788


Q ss_pred             HHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC-------------------
Q 038114           84 ILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR-------------------  144 (170)
Q Consensus        84 li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~-------------------  144 (170)
                      |+-+|++.+++.+.++.+.         .|+..-...+-.-|...|.++.|.-+|..+..-                   
T Consensus       122 Li~ayAk~~rL~elEefl~---------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVda  192 (624)
T 3lvg_A          122 LIFALAKTNRLAELEEFIN---------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDG  192 (624)
T ss_dssp             HHHHHHTSCSSSTTTSTTS---------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTT
T ss_pred             HHHHHHhhCcHHHHHHHHc---------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHH
Confidence            9999999988765433322         344444455556666666666666555544311                   


Q ss_pred             -CCCCCHhhHHHHHHHhcCCCcccc
Q 038114          145 -ELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       145 -~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                       ...-+..||--+-.+|...+.+..
T Consensus       193 ArKAns~ktWKeV~~ACvd~~EfrL  217 (624)
T 3lvg_A          193 ARKANSTRTWKEVCFACVDGKEFRL  217 (624)
T ss_dssp             TTTCCSSCSHHHHTHHHHHSCTTTT
T ss_pred             HHhcCChhHHHHHHHHHhCchHHHH
Confidence             113366677777777777666543

>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=90.11  E-value=4.2  Score=29.61  Aligned_cols=141  Identities=10%  Similarity=-0.015  Sum_probs=95.6

Q ss_pred             cccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhccc-chHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC-C-CH
Q 038114           18 PIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLR-SLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC-G-SL   94 (170)
Q Consensus        18 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-~-~~   94 (170)
                      .+....++|+++++.+ ...+. -+...|+.-=..+...+ .+++++.+++.+.... +-+..+|+----.+.+. + ++
T Consensus        65 ~~~e~se~AL~lt~~~-L~~nP-~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~  141 (349)
T 3q7a_A           65 AKEEKSERALELTEII-VRMNP-AHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDP  141 (349)
T ss_dssp             HTTCCSHHHHHHHHHH-HHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCC
T ss_pred             HhCCCCHHHHHHHHHH-HHhCc-hhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCCh
Confidence            3445557899999998 54332 12334554444455556 5999999999999875 44678888877777776 6 88


Q ss_pred             HHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChH--------HHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCc
Q 038114           95 EDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNAN--------EAMSLFSEMRDRELIPDGLTVRSLLCACTSPSN  165 (170)
Q Consensus        95 ~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~--------~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~  165 (170)
                      +++++.++.+.+...   -|...|+.-.-.+.+.|.++        ++++.++++.+.... |...|+..-..+.+.+.
T Consensus       142 ~~EL~~~~k~L~~dp---kNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~  216 (349)
T 3q7a_A          142 VSEIEYIHGSLLPDP---KNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPG  216 (349)
T ss_dssp             HHHHHHHHHHTSSCT---TCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTT
T ss_pred             HHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccc
Confidence            999999999987655   35567766554444444444        888999988876533 56666666666655554

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=89.11  E-value=2.6  Score=25.84  Aligned_cols=83  Identities=11%  Similarity=-0.041  Sum_probs=42.4

Q ss_pred             cchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHH---HHHHHhhcccCCCCCCC--ChhhHHHHHHHHhCCCCh
Q 038114           57 RSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLED---ARVVSDEMPQRNVIESP--DLASWNAIIAGVASPSNA  131 (170)
Q Consensus        57 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~---a~~~~~~m~~~~~~~~p--~~~~~~~li~~~~~~g~~  131 (170)
                      .....+.+-|..-...|. ++..+--.+--++.+..+...   +..++++....+.   |  .....=.+--++.+.|++
T Consensus        15 ~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~---p~~~Rd~lY~LAvg~yklg~Y   90 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGS---KEEQRDYVFYLAVGNYRLKEY   90 (126)
T ss_dssp             HHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSC---HHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCC---cchHHHHHHHHHHHHHHhhhH
Confidence            334444444544444342 455555555555666655444   6666666554432   2  122222333556666777


Q ss_pred             HHHHHHHHHHHh
Q 038114          132 NEAMSLFSEMRD  143 (170)
Q Consensus       132 ~~a~~l~~~m~~  143 (170)
                      ++|.+.++.+.+
T Consensus        91 ~~A~~~~~~lL~  102 (126)
T 1nzn_A           91 EKALKYVRGLLQ  102 (126)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            777777666654

>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=87.46  E-value=3.5  Score=25.29  Aligned_cols=23  Identities=4%  Similarity=0.029  Sum_probs=11.0

Q ss_pred             HHHHHHhhcccchHHHHHHHHHH
Q 038114           47 ACLISTCSSLRSLQLGRKVHDHI   69 (170)
Q Consensus        47 ~~li~~~~~~~~~~~a~~~~~~m   69 (170)
                      ..+|.-|...|+.++|.+.++++
T Consensus        11 ~~ll~EY~~~~D~~Ea~~cl~eL   33 (129)
T 2nsz_A           11 DMLLKEYLLSGDISEAEHCLKEL   33 (129)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHh
Confidence            34444444445555554444444

>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=87.23  E-value=2.4  Score=26.88  Aligned_cols=63  Identities=5%  Similarity=-0.002  Sum_probs=30.6

Q ss_pred             HHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCC--HHHHHHHHhhcccCCC
Q 038114           46 YACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGS--LEDARVVSDEMPQRNV  109 (170)
Q Consensus        46 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~--~~~a~~~~~~m~~~~~  109 (170)
                      ...+|.-|...++.++|.+.++++.... .-+..+..++..++-+.+.  .+.+..++..+...++
T Consensus        12 i~~lL~EY~~~~D~~EA~~cl~EL~~p~-f~~e~V~~~i~~alE~~~~~~re~~~~LL~~L~~~~~   76 (152)
T 2ion_A           12 IDMLLKEYLLSGDISEAEHCLKELEVPH-FHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSST   76 (152)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHTCGG-GHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhCCCc-chHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCC
Confidence            3455555655666666666666653221 1123344444444444321  3445555555555555

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=87.01  E-value=5.5  Score=33.76  Aligned_cols=116  Identities=10%  Similarity=0.006  Sum_probs=73.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcc-----------------------hhhHHHHHHHhhcccchHHHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIR-----------------------PSTYACLISTCSSLRSLQLGRKVHDHI   69 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~-----------------------~~~~~~li~~~~~~~~~~~a~~~~~~m   69 (170)
                      +-.+|...|++++|.+.|.+. . .|+..+                       ..=|.-++..+.+.+.++.+.++-...
T Consensus       848 ~g~~~L~~ge~~~A~~~F~ka-a-~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lA  925 (1139)
T 4fhn_B          848 KALIYLKSKEAVKAVRCFKTT-S-LVLYSHTSQFAVLREFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLA  925 (1139)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTC-C-CSCTTCCCSCSSHHHHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHH-h-hhhcccchhhhhhcccccccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            467778888999999888775 2 122110                       112556677777777777777766655


Q ss_pred             HhcC-CCC-C--HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHH
Q 038114           70 LSSK-SQP-D--VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEA  134 (170)
Q Consensus        70 ~~~~-~~~-~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a  134 (170)
                      .+.. -.+ +  ...|+.+.+++...|++++|...+-.+.....  +  ......++...|..|..+.-
T Consensus       926 i~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r--~~cLr~LV~~lce~~~~~~L  990 (1139)
T 4fhn_B          926 DASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--K--KSCLLDFVNQLTKQGKINQL  990 (1139)
T ss_dssp             HHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--C--HHHHHHHHHHHHHHCCHHHH
T ss_pred             HHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--H--HHHHHHHHHHHHhCCChhhh
Confidence            5432 121 1  23688888888888999888888877765443  2  34566666666655554443

>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=86.96  E-value=3  Score=26.60  Aligned_cols=59  Identities=14%  Similarity=0.026  Sum_probs=44.3

Q ss_pred             CCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhh
Q 038114           91 CGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLT  152 (170)
Q Consensus        91 ~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t  152 (170)
                      .+++++|.++|+.+....-  +. ...|-...+-=.+.|+..+|..++..-...+.+|....
T Consensus        73 i~D~d~aR~vy~~a~~~hK--kF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~l  131 (161)
T 4h7y_A           73 IQEPDDARDYFQMARANCK--KF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEML  131 (161)
T ss_dssp             HHCGGGCHHHHHHHHHHCT--TB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHH
T ss_pred             hcCHHHHHHHHHHHHHHhH--HH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHH
Confidence            3789999999998865444  44 45565556666889999999999998888776665443

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=86.56  E-value=5  Score=26.75  Aligned_cols=76  Identities=9%  Similarity=0.107  Sum_probs=53.6

Q ss_pred             CCCCcchhhHHHHHHHhhc--ccchHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCC
Q 038114           37 TNFRIRPSTYACLISTCSS--LRSLQLGRKVHDHILSSKSQPD-VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESP  113 (170)
Q Consensus        37 ~~~~p~~~~~~~li~~~~~--~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p  113 (170)
                      ...+-|+.-....|.-.-.  .+...++..+|..|...|+.-. ...|-..-..+...|++++|.++|..-.+.+-  +|
T Consensus        71 ~rYkND~RYLklWl~Ya~~~~~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A--~P  148 (202)
T 3esl_A           71 ETYRNDPRFLKIWIWYINLFLSNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNC--RP  148 (202)
T ss_dssp             GGGTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC--BS
T ss_pred             ccccCCHHHHHHHHHHHHhhcccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC--cc
Confidence            3455666644444443322  4446688889999988876544 77888888888889999999999998777776  55


Q ss_pred             C
Q 038114          114 D  114 (170)
Q Consensus       114 ~  114 (170)
                      -
T Consensus       149 ~  149 (202)
T 3esl_A          149 Y  149 (202)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3ygs_P Procaspase 9; apoptosis, caspase activation, caspase recruitment, recognition complex; 2.50A {Homo sapiens} SCOP: a.77.1.3

Probab=84.88  E-value=4  Score=23.60  Aligned_cols=66  Identities=17%  Similarity=0.132  Sum_probs=46.4

Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHH
Q 038114           64 KVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSL  137 (170)
Q Consensus        64 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l  137 (170)
                      .++..+.+.|+- +......+-. .......+.|.++++.+..+|.      ..|..++.++...|+...|..+
T Consensus        25 ~vld~L~~~~vl-t~~~~e~I~~-~~~~t~~~~ar~Lld~L~~rG~------~Af~~F~~aL~et~~~~La~lL   90 (97)
T 3ygs_P           25 QLWDVLLSRELF-RPHMIEDIQR-AGSGSRRDQARQLIIDLETRGS------QALPLFISCLEDTGQDMLASFL   90 (97)
T ss_dssp             TTHHHHHHTTSS-CHHHHHHHHT-STTCCHHHHHHHHHHHHTTSCT------THHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHcCCC-CHHHHHHHHh-ccCCChHHHHHHHHHHHHHcCh------HHHHHHHHHHHHcCcHHHHHHH
Confidence            477777777743 4444444322 1122468899999999998888      7999999999888887776554

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=84.22  E-value=7.2  Score=26.00  Aligned_cols=77  Identities=8%  Similarity=-0.043  Sum_probs=58.5

Q ss_pred             CCCCHHHHHHHHHHHHc--CCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHh
Q 038114           74 SQPDVVLQNYILNMYGK--CGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGL  151 (170)
Q Consensus        74 ~~~~~~~~~~li~~~~~--~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~  151 (170)
                      ..-|+.-....|..--.  +++...+.++|..|...|+- .--..-|......+...|++.+|..+|+.-.+.+-+|-..
T Consensus        73 YkND~RYLklWl~Ya~~~~~~~~~~p~~if~~L~~~~IG-~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~~r  151 (202)
T 3esl_A           73 YRNDPRFLKIWIWYINLFLSNNFHESENTFKYMFNKGIG-TKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPYNR  151 (202)
T ss_dssp             GTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTSS-TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHHH
T ss_pred             ccCCHHHHHHHHHHHHhhcccccCCHHHHHHHHHHCCCc-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccHHH
Confidence            35566555555554444  66688999999999988873 3344568888889999999999999999999888888543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=83.76  E-value=7  Score=25.48  Aligned_cols=51  Identities=8%  Similarity=0.010  Sum_probs=42.9

Q ss_pred             HHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           51 STCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        51 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      ......|+++.|.++.+++      -+...|..|-....+.|+++-|+++|...++.
T Consensus        13 ~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D~   63 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHSF   63 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTCH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCCH
Confidence            3445679999999998776      36889999999999999999999999987654

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=82.96  E-value=3.1  Score=29.16  Aligned_cols=55  Identities=15%  Similarity=0.079  Sum_probs=38.1

Q ss_pred             HhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           52 TCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        52 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      ...+.|+++++.+....-++.. +-|...-..|+..+|-.|+|+.|.+=++...+.
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            4456677777777777666654 556777777888888888888887766655543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=82.35  E-value=5  Score=24.56  Aligned_cols=83  Identities=12%  Similarity=-0.058  Sum_probs=42.9

Q ss_pred             CHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchH---HHHHHHHHHHhcCCCC-CHH-HHHHHHHHHHcCCCHHH
Q 038114           22 LYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQ---LGRKVHDHILSSKSQP-DVV-LQNYILNMYGKCGSLED   96 (170)
Q Consensus        22 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~---~a~~~~~~m~~~~~~~-~~~-~~~~li~~~~~~~~~~~   96 (170)
                      ....+.+-|... ...|. |+..+--.+--+++++....   .+..++.++.+.+ .| +.. -.=.|--++.|.|+++.
T Consensus        16 ~l~~~~~~y~~e-~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~   92 (126)
T 1nzn_A           16 DLLKFEKKFQSE-KAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   92 (126)
T ss_dssp             HHHHHHHHHHHH-HHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHH-hccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHH
Confidence            344555555555 44343 44444333334444444433   3666677666553 22 222 22233346667777777


Q ss_pred             HHHHHhhcccC
Q 038114           97 ARVVSDEMPQR  107 (170)
Q Consensus        97 a~~~~~~m~~~  107 (170)
                      |.+.++.+.+.
T Consensus        93 A~~~~~~lL~~  103 (126)
T 1nzn_A           93 ALKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            77777766543

>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=81.89  E-value=12  Score=26.92  Aligned_cols=134  Identities=6%  Similarity=-0.067  Sum_probs=73.1

Q ss_pred             ccchhHhH-HHhhhcccC--CHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccc-hHHHHHHHHHHHhcCCCCCHHH
Q 038114            5 LKTQLRFT-FYNSQPIQN--LYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRS-LQLGRKVHDHILSSKSQPDVVL   80 (170)
Q Consensus         5 ~~~~~~~~-li~~~~~~~--~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~   80 (170)
                      .++...|+ ---.+.+.+  .+++++.+++.+ ..... -|...|+----+....|. ++++.+.+..+.+.. +-|...
T Consensus       105 PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~-l~~dp-rNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SA  181 (331)
T 3dss_A          105 PKSYGTWHHRCWLLSRLPEPNWARELELCARF-LEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSS  181 (331)
T ss_dssp             TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHH-HHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHH
T ss_pred             CCCHHHHHHHHHHHhccCcccHHHHHHHHHHH-HHhCC-CCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHH
Confidence            34455565 222222333  477788888777 44322 233344433334444555 477777777777664 335666


Q ss_pred             HHHHHHHHHcC--------------CCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCC-----------CChHHHH
Q 038114           81 QNYILNMYGKC--------------GSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASP-----------SNANEAM  135 (170)
Q Consensus        81 ~~~li~~~~~~--------------~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~-----------g~~~~a~  135 (170)
                      |+-.-..+.+.              +.++++.+.+........   -|...|+-+--.+.+.           +.+++++
T Consensus       182 W~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P---~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el  258 (331)
T 3dss_A          182 WHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDP---NDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSEL  258 (331)
T ss_dssp             HHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHST---TCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHhccCccccchHHHHHHHHHH
Confidence            66555554443              346677777776665433   3455555443333333           3467777


Q ss_pred             HHHHHHHhC
Q 038114          136 SLFSEMRDR  144 (170)
Q Consensus       136 ~l~~~m~~~  144 (170)
                      +.++++.+.
T Consensus       259 ~~~~elle~  267 (331)
T 3dss_A          259 ESCKELQEL  267 (331)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhh
Confidence            777777644

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=80.96  E-value=7.3  Score=29.07  Aligned_cols=57  Identities=2%  Similarity=-0.194  Sum_probs=31.5

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCC--CCcchhhHHHHHHHhhcccchHHHHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTN--FRIRPSTYACLISTCSSLRSLQLGRKVHDHIL   70 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~--~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~   70 (170)
                      +...|.+.|+++.|.+.|.++ ....  ...-...+-.+|+.+...+++..+........
T Consensus       137 la~~~~~~Gd~~~A~~~~~~~-~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~  195 (429)
T 4b4t_R          137 LGEYYAQIGDKDNAEKTLGKS-LSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVN  195 (429)
T ss_dssp             HHHHHHHHCCCTTHHHHHHHH-HHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            455566666666666666666 4322  22233345555666666666666666665554

---

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	170
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.99
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.97
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.71
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.65
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.63
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.63
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.62
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.37
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.32
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.3
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.24
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.21
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.21
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.19
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.08
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.07
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.05
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.04
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.03
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.99
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	97.93
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.77
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.75
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.66
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	97.63
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.61
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.59
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.57
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.56
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.49
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.46
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.36
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.34
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.2
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.1
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.04
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.01
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	96.94
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.82
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	96.68
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	96.66
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.59
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.38
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	96.34
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.11
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	95.93
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	95.89
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	95.71
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	95.67
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	95.55
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	95.53
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	94.82
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	94.17
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	94.07
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.43
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	91.39
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	90.72
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	88.41
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	86.9
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	85.52
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	83.77
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	83.12
d1khda1	69	Anthranilate phosphoribosyltransferase (TrpD) {Pec	82.53
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	81.06

>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=98.99  E-value=1.9e-08  Score=71.13  Aligned_cols=144  Identities=13%  Similarity=0.054  Sum_probs=71.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +...+.+.|++++|...|++. .+.. +-++.++..+-.++...|++++|.+.+....... +.+...+..+...+.+.|
T Consensus       243 l~~~~~~~~~~~~A~~~~~~a-l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  319 (388)
T d1w3ba_         243 LACVYYEQGLIDLAIDTYRRA-IELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHCCCHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCC
Confidence            444455555555555555554 3221 1223345555555555555555555555554432 334455555555555556


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHhcCCC
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPD-GLTVRSLLCACTSPS  164 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~t~~~ll~~~~~~g  164 (170)
                      ++++|.+.|++..+...   -+..+|..+-..+...|++++|...|++..+  +.|+ ...|..+-.++.+.|
T Consensus       320 ~~~~A~~~~~~al~~~p---~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~lg~~~~~~~  387 (388)
T d1w3ba_         320 NIEEAVRLYRKALEVFP---EFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             CHHHHHHHHHHHTTSCT---TCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcC
Confidence            66666666555443211   1234455555555666666666666655443  2332 334555555544443

>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=98.97  E-value=5.3e-08  Score=68.75  Aligned_cols=154  Identities=11%  Similarity=0.050  Sum_probs=127.0

Q ss_pred             hhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114            8 QLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus         8 ~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      ...|. +...+...|++++|...++.. .... +.+...+..+-.++.+.|++++|...|++..+.. +-++.++..+..
T Consensus       203 ~~~~~~l~~~~~~~~~~~~A~~~~~~~-~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~  279 (388)
T d1w3ba_         203 LDAYINLGNVLKEARIFDRAVAAYLRA-LSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLAN  279 (388)
T ss_dssp             HHHHHHHHHHHHTTTCTTHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHH
T ss_pred             HHHHHHHhhhhhccccHHHHHHHHHHh-HHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34455 788999999999999999998 5543 2455677788888999999999999999998764 335788999999


Q ss_pred             HHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHhcCCCc
Q 038114           87 MYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPD-GLTVRSLLCACTSPSN  165 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~t~~~ll~~~~~~g~  165 (170)
                      .+.+.|++++|.+.|+......   +.+...+..+...+...|++++|+..|++..+.  .|+ ..++..+-.++.+.|+
T Consensus       280 ~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~  354 (388)
T d1w3ba_         280 ALKEKGSVAEAEDCYNTALRLC---PTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGK  354 (388)
T ss_dssp             HHHHHSCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTC
T ss_pred             HHHHcCCHHHHHHHHHhhhccC---CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCC
Confidence            9999999999999999876543   356778889999999999999999999987653  454 5668888899999999


Q ss_pred             cccC
Q 038114          166 VLYL  169 (170)
Q Consensus       166 ~e~~  169 (170)
                      ++++
T Consensus       355 ~~~A  358 (388)
T d1w3ba_         355 LQEA  358 (388)
T ss_dssp             CHHH
T ss_pred             HHHH
Confidence            8764

>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=98.71  E-value=1.1e-06  Score=57.27  Aligned_cols=147  Identities=10%  Similarity=-0.074  Sum_probs=113.3

Q ss_pred             hHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc
Q 038114           11 FTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK   90 (170)
Q Consensus        11 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   90 (170)
                      |+--..+...|+++.|++.|.++     ..|++.+|..+=.++.+.|++++|.+.|.+..+.. +-++..|..+-.+|.+
T Consensus         9 ~~~g~~~~~~~d~~~Al~~~~~i-----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~   82 (192)
T d1hh8a_           9 WNEGVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQ   82 (192)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHh
Confidence            45556678899999999999887     35778888889999999999999999999999864 3358899999999999


Q ss_pred             CCCHHHHHHHHhhcccC------------CCCCCCC-hhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHH
Q 038114           91 CGSLEDARVVSDEMPQR------------NVIESPD-LASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLL  157 (170)
Q Consensus        91 ~~~~~~a~~~~~~m~~~------------~~~~~p~-~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll  157 (170)
                      .|++++|.+-|++....            +...+++ ..++..+-..+.+.|++++|.+.+.........|+.......+
T Consensus        83 ~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~~~Al  162 (192)
T d1hh8a_          83 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKAM  162 (192)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHHHHHH
Confidence            99999999988875321            1100111 2345566678889999999999999888776666666666666


Q ss_pred             HHhcCC
Q 038114          158 CACTSP  163 (170)
Q Consensus       158 ~~~~~~  163 (170)
                      ....+.
T Consensus       163 ~~~~~~  168 (192)
T d1hh8a_         163 ECVWKQ  168 (192)
T ss_dssp             HHHHTT
T ss_pred             HHHHhh
Confidence            655443

>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=98.65  E-value=8.8e-07  Score=61.69  Aligned_cols=152  Identities=11%  Similarity=0.039  Sum_probs=107.8

Q ss_pred             HhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH-
Q 038114           10 RFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNM-   87 (170)
Q Consensus        10 ~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-   87 (170)
                      .|. ......+.|+++.|..+|+.+ ..........+|...+....+.|+.+.|.++|....+.+.. +...|-..... 
T Consensus       101 l~~~ya~~~~~~~~~~~a~~i~~~~-l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e  178 (308)
T d2onda1         101 LYFAYADYEESRMKYEKVHSIYNRL-LAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALME  178 (308)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-HTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHH-HHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHH
Confidence            344 567777889999999999998 65443333457888888888999999999999998876533 33334333332 


Q ss_pred             HHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC-CCCC--HhhHHHHHHHhcCCC
Q 038114           88 YGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE-LIPD--GLTVRSLLCACTSPS  164 (170)
Q Consensus        88 ~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~-~~p~--~~t~~~ll~~~~~~g  164 (170)
                      +...|+.+.|..+|+.+....   +.+...|...+....+.|+++.|..+|++-.... ..|+  ...|...+.--...|
T Consensus       179 ~~~~~~~~~a~~i~e~~l~~~---p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G  255 (308)
T d2onda1         179 YYCSKDKSVAFKIFELGLKKY---GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIG  255 (308)
T ss_dssp             HHTSCCHHHHHHHHHHHHHHH---TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHS
T ss_pred             HHhccCHHHHHHHHHHHHHhh---hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcC
Confidence            345678999999999887652   3456788889999999999999999999876653 5554  335665555444444


Q ss_pred             cc
Q 038114          165 NV  166 (170)
Q Consensus       165 ~~  166 (170)
                      +.
T Consensus       256 ~~  257 (308)
T d2onda1         256 DL  257 (308)
T ss_dssp             CH
T ss_pred             CH
Confidence            43

>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=98.63  E-value=7.1e-07  Score=62.05  Aligned_cols=87  Identities=9%  Similarity=-0.028  Sum_probs=38.8

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCC
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGS   93 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~   93 (170)
                      -..+.+.|++++|+..|++. .+.. +-+...|..+-.++...|+++.|...|....+.. +-+...|..+...|...|+
T Consensus        26 g~~~~~~g~~~~A~~~~~~a-l~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          26 GLRRLQEGDLPNAVLLFEAA-VQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH-HHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccc
Confidence            33444555555555555554 3221 1123344444444555555555555555444432 1124444444444444555


Q ss_pred             HHHHHHHHhh
Q 038114           94 LEDARVVSDE  103 (170)
Q Consensus        94 ~~~a~~~~~~  103 (170)
                      +++|.+.++.
T Consensus       103 ~~~A~~~~~~  112 (323)
T d1fcha_         103 QRQACEILRD  112 (323)
T ss_dssp             HHHHHHHHHH
T ss_pred             ccccccchhh
Confidence            4444444443

>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=98.63  E-value=1.4e-06  Score=60.49  Aligned_cols=156  Identities=12%  Similarity=0.039  Sum_probs=119.8

Q ss_pred             chhHhH-HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCC-----------
Q 038114            7 TQLRFT-FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKS-----------   74 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-----------   74 (170)
                      +...|. +...+...|++++|...|++. .... +-+...+..+..++...|++++|.+.+........           
T Consensus        52 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a-l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~  129 (323)
T d1fcha_          52 HMEAWQYLGTTQAENEQELLAISALRRC-LELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEE  129 (323)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC----
T ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHhh-hccc-cccccccccccccccccccccccccchhhHHHhccchHHHHHhhhh
Confidence            455666 788999999999999999998 5432 23566788888899999999999999999886421           


Q ss_pred             ---------------------------------------CCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCCh
Q 038114           75 ---------------------------------------QPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDL  115 (170)
Q Consensus        75 ---------------------------------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~  115 (170)
                                                             .++..++..+-..+...|++++|...|++......   -+.
T Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p---~~~  206 (323)
T d1fcha_         130 GAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRP---NDY  206 (323)
T ss_dssp             -----------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCH
T ss_pred             hhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccccc---ccc
Confidence                                                   12345566777778888999999999998765433   346


Q ss_pred             hhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCC-CHhhHHHHHHHhcCCCccccC
Q 038114          116 ASWNAIIAGVASPSNANEAMSLFSEMRDRELIP-DGLTVRSLLCACTSPSNVLYL  169 (170)
Q Consensus       116 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p-~~~t~~~ll~~~~~~g~~e~~  169 (170)
                      ..|..+-..+...|++++|.+.|++..+.  .| +...+..+-.+|.+.|+.+++
T Consensus       207 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A  259 (323)
T d1fcha_         207 LLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREA  259 (323)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cchhhhhhcccccccchhHHHHHHHHHHH--hhccHHHHHHHHHHHHHCCCHHHH
Confidence            67888888899999999999999987764  33 455677788888888877653

>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=98.62  E-value=6.1e-07  Score=62.53  Aligned_cols=143  Identities=7%  Similarity=-0.006  Sum_probs=108.2

Q ss_pred             CCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 038114           21 NLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVV  100 (170)
Q Consensus        21 ~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  100 (170)
                      +..+++..+|++. .....+-+...+........+.|+++.|..+|+.+.+........+|...+....+.|+++.|.++
T Consensus        78 ~~~~~a~~i~~ra-l~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i  156 (308)
T d2onda1          78 LFSDEAANIYERA-ISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMI  156 (308)
T ss_dssp             HHHHHHHHHHHHH-HTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             cchHHHHHHHHHH-HHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHH
Confidence            4457888999988 654444456678888888889999999999999998765444466899999999999999999999


Q ss_pred             HhhcccCCCCCCCChhhHHHHH-HHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCCcccc
Q 038114          101 SDEMPQRNVIESPDLASWNAII-AGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPSNVLY  168 (170)
Q Consensus       101 ~~~m~~~~~~~~p~~~~~~~li-~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g~~e~  168 (170)
                      |+.....+.  . +...|-... .-+...|+.+.|..+|+...+. ..-+...|...++...+.|+.+.
T Consensus       157 ~~~al~~~~--~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~  221 (308)
T d2onda1         157 FKKAREDAR--T-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNN  221 (308)
T ss_dssp             HHHHHTSTT--C-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHHHhCC--C-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHH
Confidence            999876654  2 222332222 2345568999999999999875 23356778888888888887664

>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=98.37  E-value=6.1e-06  Score=53.29  Aligned_cols=90  Identities=11%  Similarity=-0.013  Sum_probs=66.0

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHcC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQP-DVVLQNYILNMYGKC   91 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~   91 (170)
                      .-..|.+.|++++|+..|.+. .... +-++..|..+-.+|.+.|+++.|...|....+.  .| ++..|..+-.+|.+.
T Consensus        10 ~Gn~~~~~g~~~~Ai~~~~ka-l~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~lg~~~~~l   85 (201)
T d2c2la1          10 QGNRLFVGRKYPEAAACYGRA-ITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQCQLEM   85 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHHHHHHHHC
Confidence            466777888888888888776 4332 235667777777788888888888888887754  33 366778888888888


Q ss_pred             CCHHHHHHHHhhccc
Q 038114           92 GSLEDARVVSDEMPQ  106 (170)
Q Consensus        92 ~~~~~a~~~~~~m~~  106 (170)
                      |++++|...|+....
T Consensus        86 ~~~~~A~~~~~~al~  100 (201)
T d2c2la1          86 ESYDEAIANLQRAYS  100 (201)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            888888888876543

>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=98.32  E-value=4.4e-06  Score=50.30  Aligned_cols=106  Identities=9%  Similarity=0.012  Sum_probs=76.6

Q ss_pred             HHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCC---HHHHHHHHhhcccCCCCCCCC-hhhHHHHH
Q 038114           47 ACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGS---LEDARVVSDEMPQRNVIESPD-LASWNAII  122 (170)
Q Consensus        47 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~~~p~-~~~~~~li  122 (170)
                      ..+++.+...+++++|.+.|+.....+ +.++.++..+-.++.+.++   +++|..+|++....+.  .|+ ..+|..+-
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~--~~~~~~~~~~Lg   79 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGS--KEEQRDYVFYLA   79 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSC--HHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccC--CchHHHHHHHHH
Confidence            456777778888888888888888765 4467788888888877654   4568888888776654  444 23667777


Q ss_pred             HHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHH
Q 038114          123 AGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLL  157 (170)
Q Consensus       123 ~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll  157 (170)
                      .+|.+.|++++|...|++..+.  .|+-.-...+.
T Consensus        80 ~~y~~~g~~~~A~~~~~~aL~~--~P~~~~A~~l~  112 (122)
T d1nzna_          80 VGNYRLKEYEKALKYVRGLLQT--EPQNNQAKELE  112 (122)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHh--CcCCHHHHHHH
Confidence            8888889999999988888763  46655444443

>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=98.30  E-value=9.2e-06  Score=48.32  Aligned_cols=87  Identities=9%  Similarity=-0.089  Sum_probs=39.6

Q ss_pred             hhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHH
Q 038114           16 SQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLE   95 (170)
Q Consensus        16 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~   95 (170)
                      .+.+.|++++|+..|++. .... +-+...|..+-.++...|++++|...+....+.. +.++..|..+-.++...|+++
T Consensus        12 ~~~~~g~~~eAi~~~~~a-l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          12 KALSVGNIDDALQCYSEA-IKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHH-HhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHH
Confidence            344445555555555544 2221 1233344444444444455555555555444432 223444444444555555555


Q ss_pred             HHHHHHhhcc
Q 038114           96 DARVVSDEMP  105 (170)
Q Consensus        96 ~a~~~~~~m~  105 (170)
                      +|...|+...
T Consensus        89 ~A~~~~~~a~   98 (117)
T d1elwa_          89 EAKRTYEEGL   98 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555554444

>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=98.24  E-value=6.1e-06  Score=51.76  Aligned_cols=92  Identities=8%  Similarity=-0.096  Sum_probs=75.2

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCC
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGS   93 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~   93 (170)
                      -..|.+.|++++|+..|.+. .... +-+...|..+-.++...|++++|...|....+.. +-+...|..+..+|...|+
T Consensus        17 gn~~~~~~~y~~A~~~~~~a-l~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQA-IELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH-HHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHhhhc-cccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCC
Confidence            45678899999999999988 5543 2366678888888899999999999999998764 4457889999999999999


Q ss_pred             HHHHHHHHhhcccCC
Q 038114           94 LEDARVVSDEMPQRN  108 (170)
Q Consensus        94 ~~~a~~~~~~m~~~~  108 (170)
                      +++|...|++.....
T Consensus        94 ~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          94 FRAALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHcC
Confidence            999999999887653

>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=98.21  E-value=1.3e-05  Score=55.90  Aligned_cols=126  Identities=6%  Similarity=-0.023  Sum_probs=87.1

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCc-chhhHHHHHHHhhccc-chHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRI-RPSTYACLISTCSSLR-SLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK   90 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   90 (170)
                      +-..+.+.+.+++|+++++++ ...  .| +...|+..-.++...+ ++++|...++...+.. +-+..+|+.+-..+.+
T Consensus        49 ~~~~~~~~e~~~~Al~~~~~a-i~l--nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~~~  124 (315)
T d2h6fa1          49 FRAVLQRDERSERAFKLTRDA-IEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEW  124 (315)
T ss_dssp             HHHHHHHTCCCHHHHHHHHHH-HHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCchHHHHHHHHHH-HHH--CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHHHh
Confidence            444566777888888888887 443  23 3335555555555555 4788888888777653 3357778877778888


Q ss_pred             CCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC
Q 038114           91 CGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus        91 ~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      .|++++|...|.++.+...   -+...|+.+...+...|++++|+..+++..+..
T Consensus       125 l~~~~eAl~~~~kal~~dp---~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~  176 (315)
T d2h6fa1         125 LRDPSQELEFIADILNQDA---KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED  176 (315)
T ss_dssp             HTCCTTHHHHHHHHHHHCT---TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC
T ss_pred             hccHHHHHHHHhhhhhhhh---cchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC
Confidence            8888888888887776433   346777777777777788888888888776653

>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=98.21  E-value=1.5e-05  Score=49.94  Aligned_cols=92  Identities=5%  Similarity=-0.036  Sum_probs=80.2

Q ss_pred             HHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCC
Q 038114           50 ISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPS  129 (170)
Q Consensus        50 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g  129 (170)
                      =+.|.+.|++++|...|.+..+.. +-+...|..+-.+|.+.|++++|.+.|+...+.+.   -+...|..+..++...|
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p---~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK---KYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcc---cchHHHHHHHHHHHHcC
Confidence            346778999999999999999875 44689999999999999999999999999876543   45678999999999999


Q ss_pred             ChHHHHHHHHHHHhCC
Q 038114          130 NANEAMSLFSEMRDRE  145 (170)
Q Consensus       130 ~~~~a~~l~~~m~~~~  145 (170)
                      ++++|...+++.....
T Consensus        93 ~~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          93 KFRAALRDYETVVKVK  108 (159)
T ss_dssp             CHHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHHcC
Confidence            9999999999988753

>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=98.19  E-value=3.2e-05  Score=45.85  Aligned_cols=100  Identities=11%  Similarity=0.009  Sum_probs=84.3

Q ss_pred             HHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCC
Q 038114           51 STCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSN  130 (170)
Q Consensus        51 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~  130 (170)
                      +.+.+.|++++|...|.+..+.. +-++..|..+-.+|.+.|++++|...|......+.   .+...|..+..++...|+
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p---~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP---DWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhcc---chhhHHHHHHHHHHHccC
Confidence            45678899999999999998874 44688999999999999999999999999887654   567889999999999999


Q ss_pred             hHHHHHHHHHHHhCCCCCCHhhHHHH
Q 038114          131 ANEAMSLFSEMRDRELIPDGLTVRSL  156 (170)
Q Consensus       131 ~~~a~~l~~~m~~~~~~p~~~t~~~l  156 (170)
                      +++|+..|++..+  ..|+...+...
T Consensus        87 ~~~A~~~~~~a~~--~~p~~~~~~~~  110 (117)
T d1elwa_          87 FEEAKRTYEEGLK--HEANNPQLKEG  110 (117)
T ss_dssp             HHHHHHHHHHHHT--TCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHH--hCCCCHHHHHH
Confidence            9999999998885  45655544433

>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=98.08  E-value=1.7e-05  Score=46.79  Aligned_cols=88  Identities=14%  Similarity=-0.041  Sum_probs=42.4

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +-..+.+.|++++|...|++. ..... -++..|..+-.++.+.|++++|...|....+.. +-+...|..+-..|...|
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~a-l~~~p-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAV-CQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhh-ccccc-ccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCC
Confidence            334444555555555555554 22211 134444555555555555555555555554432 223445555555555555


Q ss_pred             CHHHHHHHHhh
Q 038114           93 SLEDARVVSDE  103 (170)
Q Consensus        93 ~~~~a~~~~~~  103 (170)
                      ++++|.+.|++
T Consensus        99 ~~~~A~~~l~~  109 (112)
T d1hxia_          99 NANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            55555555543

>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=98.07  E-value=0.00012  Score=48.69  Aligned_cols=92  Identities=11%  Similarity=-0.157  Sum_probs=66.6

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +-..|.+.|++++|+..|++. .... +-++.+|..+-.++.+.|++++|...|++..+.. +-+...+..+-.+|...|
T Consensus        43 ~G~~y~~~g~~~~A~~~~~~a-l~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g  119 (259)
T d1xnfa_          43 RGVLYDSLGLRALARNDFSQA-LAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGG  119 (259)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHHHHHHh-hccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHHHHh
Confidence            567777888888888888877 4432 1245577777778888888888888888887753 223567777777788888


Q ss_pred             CHHHHHHHHhhcccC
Q 038114           93 SLEDARVVSDEMPQR  107 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~  107 (170)
                      ++++|.+.|+...+.
T Consensus       120 ~~~~A~~~~~~al~~  134 (259)
T d1xnfa_         120 RDKLAQDDLLAFYQD  134 (259)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhh
Confidence            888888888876654

>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=98.05  E-value=7.7e-05  Score=49.70  Aligned_cols=124  Identities=10%  Similarity=-0.039  Sum_probs=96.6

Q ss_pred             hcccCCHHHHHHHHHHHHhhC-CCCc--chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCC
Q 038114           17 QPIQNLYNEALVAFDFLQNNT-NFRI--RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGS   93 (170)
Q Consensus        17 ~~~~~~~~~a~~~~~~m~~~~-~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~   93 (170)
                      +....+.+.++.-+++. ... ...+  ...+|..+=.+|.+.|++++|...|++..+.. +-++.+|+.+-.+|.+.|+
T Consensus         9 ~~~~~~~e~al~~~~e~-l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~   86 (259)
T d1xnfa_           9 LQPTLQQEVILARMEQI-LASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGN   86 (259)
T ss_dssp             CCCCHHHHHHHHHHHHH-HTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTC
T ss_pred             ccccHHHHHHHHHHHHH-HHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHH
Confidence            34455667777777777 443 2222  22366666778889999999999999998863 3358899999999999999


Q ss_pred             HHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC
Q 038114           94 LEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus        94 ~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      +++|.+.|++......   -+..+|..+...+...|++++|...|+...+..
T Consensus        87 ~~~A~~~~~~al~~~p---~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~  135 (259)
T d1xnfa_          87 FDAAYEAFDSVLELDP---TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD  135 (259)
T ss_dssp             HHHHHHHHHHHHHHCT---TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhhhhhhHHHHHHh---hhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc
Confidence            9999999999886543   234578888889999999999999999887653

>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=98.04  E-value=3.8e-05  Score=49.34  Aligned_cols=99  Identities=8%  Similarity=-0.108  Sum_probs=84.9

Q ss_pred             cchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHH
Q 038114           41 IRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNA  120 (170)
Q Consensus        41 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~  120 (170)
                      |+...+.-.=+.+.+.|++++|...|....+.. +.++..|+.+-.+|.+.|++++|...|+...+...   -+..+|..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p---~~~~a~~~   77 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG---QSVKAHFF   77 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT---TCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCC---CcHHHHHH
Confidence            566667777788899999999999999988764 45688999999999999999999999999876532   24678999


Q ss_pred             HHHHHhCCCChHHHHHHHHHHHh
Q 038114          121 IIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus       121 li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                      +-.+|...|++++|+..|++...
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999999997754

>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=98.03  E-value=1.2e-05  Score=47.44  Aligned_cols=89  Identities=11%  Similarity=-0.014  Sum_probs=76.2

Q ss_pred             HHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCC
Q 038114           49 LISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASP  128 (170)
Q Consensus        49 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~  128 (170)
                      +-..+.+.|++++|...|++..+.. +-++..|..+-.++.+.|++++|...|+...+...   -+...|..+...|...
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p---~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP---KDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhccccccccccc---ccccchHHHHHHHHHC
Confidence            3445678899999999999998864 33689999999999999999999999998876543   4577888999999999


Q ss_pred             CChHHHHHHHHHH
Q 038114          129 SNANEAMSLFSEM  141 (170)
Q Consensus       129 g~~~~a~~l~~~m  141 (170)
                      |++++|.+.+++.
T Consensus        98 g~~~~A~~~l~~~  110 (112)
T d1hxia_          98 HNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            9999999999875

>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=97.99  E-value=0.00011  Score=46.89  Aligned_cols=121  Identities=10%  Similarity=0.116  Sum_probs=82.6

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCC
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGS   93 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~   93 (170)
                      -......|++++|.+.|.+. ...-  ++..        +.......-+...-..+...    ....+..+...+.+.|+
T Consensus        18 g~~~~~~g~~e~A~~~~~~A-L~l~--rG~~--------l~~~~~~~w~~~~r~~l~~~----~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          18 GVHAAAAGRFEQASRHLSAA-LREW--RGPV--------LDDLRDFQFVEPFATALVED----KVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH-HTTC--CSST--------TGGGTTSTTHHHHHHHHHHH----HHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHCCCHHHHHHHHHHH-HhhC--cccc--------cccCcchHHHHHHHHHHHHH----HHHHHHHHHHHHHHCCC
Confidence            45677889999999988887 4421  1110        00001111111111112111    24577888899999999


Q ss_pred             HHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh-----CCCCCCHhh
Q 038114           94 LEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRD-----RELIPDGLT  152 (170)
Q Consensus        94 ~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~-----~~~~p~~~t  152 (170)
                      +++|...++.......   -+...|..++.+|.+.|+.++|++.|+++..     .|+.|+..|
T Consensus        83 ~~~Al~~~~~al~~~P---~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          83 ASAVIAELEALTFEHP---YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHHHST---TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             chHHHHHHHHHHHhCC---ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            9999999998876544   5788899999999999999999999998854     599998776

>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=97.93  E-value=0.00024  Score=49.31  Aligned_cols=151  Identities=8%  Similarity=-0.047  Sum_probs=102.5

Q ss_pred             chhHhH-HHhhhcccC-CHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038114            7 TQLRFT-FYNSQPIQN-LYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYI   84 (170)
Q Consensus         7 ~~~~~~-li~~~~~~~-~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   84 (170)
                      +...|+ .-..+...| ++++|+..++.. ..... =+..+|..+-..+.+.|++++|...+....+.. +-+...|+.+
T Consensus        76 ~~~a~~~r~~~l~~l~~~~~eal~~~~~a-l~~~p-~~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~  152 (315)
T d2h6fa1          76 NYTVWHFRRVLLKSLQKDLHEEMNYITAI-IEEQP-KNYQVWHHRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHR  152 (315)
T ss_dssp             CHHHHHHHHHHHHHTTCCHHHHHHHHHHH-HHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             ChHHHHHHHHHHHHhCcCHHHHHHHHHHH-HHHHH-hhhhHHHHHhHHHHhhccHHHHHHHHhhhhhhh-hcchHHHHHH
Confidence            344555 455566655 589999999887 44332 245577777788888999999999999998764 3458899999


Q ss_pred             HHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCC------hHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSN------ANEAMSLFSEMRDRELIPDGLTVRSLLC  158 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~------~~~a~~l~~~m~~~~~~p~~~t~~~ll~  158 (170)
                      ...+.+.|++++|.+.|+...+.+.   -+...|+.+-..+.+.+.      +++|+..+.+..+.. .-+...|..+-.
T Consensus       153 ~~~~~~~~~~~~Al~~~~~al~~~p---~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~  228 (315)
T d2h6fa1         153 QWVIQEFKLWDNELQYVDQLLKEDV---RNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKG  228 (315)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHCC---ccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhC-CCchHHHHHHHH
Confidence            9999999999999999998887644   345566665544444333      567777777665443 124444555544


Q ss_pred             HhcCCC
Q 038114          159 ACTSPS  164 (170)
Q Consensus       159 ~~~~~g  164 (170)
                      .+...|
T Consensus       229 ll~~~~  234 (315)
T d2h6fa1         229 ILQDRG  234 (315)
T ss_dssp             HHTTTC
T ss_pred             HHHhcC
Confidence            444433

>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=97.77  E-value=0.00022  Score=45.53  Aligned_cols=71  Identities=7%  Similarity=-0.071  Sum_probs=60.9

Q ss_pred             hhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcc-----cCCCCCCCChhh
Q 038114           44 STYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMP-----QRNVIESPDLAS  117 (170)
Q Consensus        44 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~-----~~~~~~~p~~~~  117 (170)
                      ..+..+..++.+.|++++|...++...+.. +.+...|..++.+|.+.|+.++|.+.|+...     +.|+  .|+..+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~--~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGI--DPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSC--CCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCC--CcCHHH
Confidence            467778888999999999999999998864 5578899999999999999999999999873     4688  888765

>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=97.75  E-value=9.7e-05  Score=44.16  Aligned_cols=94  Identities=12%  Similarity=-0.034  Sum_probs=73.2

Q ss_pred             HHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcc---cchHHHHHHHHHHHhcCCCCC-HHHHHHHHHH
Q 038114           12 TFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSL---RSLQLGRKVHDHILSSKSQPD-VVLQNYILNM   87 (170)
Q Consensus        12 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~---~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~   87 (170)
                      ++++.+...+++++|.+.|+.. ...+. .++.++..+-.++.+.   +++++|..+++...+....|+ ...|..|-.+
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~a-L~~~p-~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSE-KAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH-HHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH-HhhCC-CCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            3778888999999999999998 55432 4566777777777654   455678999999877654444 3477888899


Q ss_pred             HHcCCCHHHHHHHHhhcccC
Q 038114           88 YGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        88 ~~~~~~~~~a~~~~~~m~~~  107 (170)
                      |.+.|++++|.+.|+...+.
T Consensus        82 y~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHh
Confidence            99999999999999998864

>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=97.66  E-value=9.7e-05  Score=50.59  Aligned_cols=131  Identities=8%  Similarity=-0.073  Sum_probs=95.7

Q ss_pred             hH-HHhhhcccCCHHHHHHHHHHHHhh----CCCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhc----CC-CCCHH
Q 038114           11 FT-FYNSQPIQNLYNEALVAFDFLQNN----TNFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSS----KS-QPDVV   79 (170)
Q Consensus        11 ~~-li~~~~~~~~~~~a~~~~~~m~~~----~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~~~~~   79 (170)
                      |. .-..|...|++++|.+.|.+. ..    .+-++ -..+|..+-.+|.+.|++++|.+.+....+.    |. .....
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA-~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  118 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKA-ADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHH-HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHH-HHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHH
Confidence            44 677888899999999999887 43    12222 2347888889999999999999999977642    21 11245


Q ss_pred             HHHHHHHHHHc-CCCHHHHHHHHhhccc----CCCCCCC-ChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           80 LQNYILNMYGK-CGSLEDARVVSDEMPQ----RNVIESP-DLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        80 ~~~~li~~~~~-~~~~~~a~~~~~~m~~----~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      ++..+...|.. .|++++|.+.|....+    .+.  .+ -..+|..+...+...|++++|...|++....
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~--~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~  187 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQS--VALSNKCFIKCADLKALDGQYIEASDIYSKLIKS  187 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCc--hhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHh
Confidence            56666666754 5999999999987642    121  11 1345788889999999999999999998765

>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=97.63  E-value=0.00014  Score=46.94  Aligned_cols=85  Identities=9%  Similarity=-0.029  Sum_probs=72.5

Q ss_pred             HhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCCh
Q 038114           52 TCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNA  131 (170)
Q Consensus        52 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~  131 (170)
                      .+...|+++.|.+.|.++    .+|++.+|..+-.+|.+.|++++|.+.|++..+.+.   -+...|..+-..+.+.|++
T Consensus        14 ~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp---~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK---HLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhh---hhhhhHHHHHHHHHhhccH
Confidence            345678999999999865    367888999999999999999999999999876544   4567888899999999999


Q ss_pred             HHHHHHHHHHHh
Q 038114          132 NEAMSLFSEMRD  143 (170)
Q Consensus       132 ~~a~~l~~~m~~  143 (170)
                      ++|...|++-..
T Consensus        87 ~~A~~~~~kAl~   98 (192)
T d1hh8a_          87 DLAIKDLKEALI   98 (192)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988754

>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=97.61  E-value=0.00021  Score=42.83  Aligned_cols=51  Identities=10%  Similarity=0.111  Sum_probs=24.0

Q ss_pred             hhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhc
Q 038114           53 CSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEM  104 (170)
Q Consensus        53 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  104 (170)
                      +.+.|++++|...|.+..+.. +.+...|..+-.+|.+.|++++|.+.++..
T Consensus        14 ~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~a   64 (128)
T d1elra_          14 AYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKA   64 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHH
Confidence            344444455555544444432 223444555555555555555555555443

>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=97.59  E-value=0.00047  Score=43.34  Aligned_cols=93  Identities=11%  Similarity=-0.021  Sum_probs=60.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhC-CCCcc-------------hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNT-NFRIR-------------PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDV   78 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~-~~~p~-------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~   78 (170)
                      .-..+.+.|++++|+..|.+. ... ...+.             ..+|+-+-.+|.+.|++++|...++...+.. +-++
T Consensus        19 ~G~~~~~~~~~~~Ai~~y~~a-l~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~   96 (170)
T d1p5qa1          19 RGTVYFKEGKYKQALLQYKKI-VSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNE   96 (170)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHH-HHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-ccch
Confidence            355788899999999999887 432 21111             1234445555667777777777777776653 2356


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           79 VLQNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        79 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      ..|..+-.+|...|++++|...|+.....
T Consensus        97 ~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          97 KGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            67777777777777777777777776553

>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=97.57  E-value=0.0012  Score=41.41  Aligned_cols=89  Identities=7%  Similarity=-0.126  Sum_probs=68.2

Q ss_pred             hhcccchHHHHHHHHHHHhcC-----CC---------CCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhH
Q 038114           53 CSSLRSLQLGRKVHDHILSSK-----SQ---------PDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASW  118 (170)
Q Consensus        53 ~~~~~~~~~a~~~~~~m~~~~-----~~---------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~  118 (170)
                      +.+.|++++|...|.+..+.-     ..         .-..+|+.+-.+|.+.|++++|...++.....+.   -++..|
T Consensus        23 ~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p---~~~~a~   99 (170)
T d1p5qa1          23 YFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDS---NNEKGL   99 (170)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhccc---cchhhh
Confidence            345567777777776665431     00         1135788888999999999999999998876543   467889


Q ss_pred             HHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114          119 NAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus       119 ~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      ..+-.+|...|++++|...|++..+.
T Consensus       100 ~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1         100 SRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            99999999999999999999998764

>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=97.56  E-value=0.00081  Score=45.79  Aligned_cols=153  Identities=11%  Similarity=-0.016  Sum_probs=99.1

Q ss_pred             hHhH-HHhhhcccCCHHHHHHHHHHHHhh----CC-CCcchhhHHHHHHHhh-cccchHHHHHHHHHHHh----cCCCCC
Q 038114            9 LRFT-FYNSQPIQNLYNEALVAFDFLQNN----TN-FRIRPSTYACLISTCS-SLRSLQLGRKVHDHILS----SKSQPD   77 (170)
Q Consensus         9 ~~~~-li~~~~~~~~~~~a~~~~~~m~~~----~~-~~p~~~~~~~li~~~~-~~~~~~~a~~~~~~m~~----~~~~~~   77 (170)
                      .+|. +-..|.+.|++++|.+.+++. ..    .| ......++..+...|. ..|+++.|.+.|.+..+    .+..+.
T Consensus        78 ~~~~~~g~~y~~~~~~~~A~~~~~~a-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~  156 (290)
T d1qqea_          78 NTYVEAYKCFKSGGNSVNAVDSLENA-IQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVAL  156 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHH-HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHhCCcHHHHHHHHHh-hHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhh
Confidence            3555 788899999999999999875 32    22 1122335666666664 46999999999988754    222222


Q ss_pred             -HHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCC---CCCCh-hhHHHHHHHHhCCCChHHHHHHHHHHHhCCC-CCC--
Q 038114           78 -VVLQNYILNMYGKCGSLEDARVVSDEMPQRNVI---ESPDL-ASWNAIIAGVASPSNANEAMSLFSEMRDREL-IPD--  149 (170)
Q Consensus        78 -~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~---~~p~~-~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~-~p~--  149 (170)
                       ..++..+...|.+.|++++|...|++.......   ..+.. ..|...+..+...|+++.|...+++..+... -++  
T Consensus       157 ~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sr  236 (290)
T d1qqea_         157 SNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSR  236 (290)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC--------
T ss_pred             hhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchH
Confidence             456888899999999999999999987644321   01111 1233444556677999999999998765531 122  


Q ss_pred             -HhhHHHHHHHhcC
Q 038114          150 -GLTVRSLLCACTS  162 (170)
Q Consensus       150 -~~t~~~ll~~~~~  162 (170)
                       ......++.++..
T Consensus       237 e~~~l~~l~~a~~~  250 (290)
T d1qqea_         237 ESNFLKSLIDAVNE  250 (290)
T ss_dssp             -HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHh
Confidence             2344556666543

>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=97.49  E-value=0.00024  Score=48.22  Aligned_cols=121  Identities=7%  Similarity=-0.001  Sum_probs=82.2

Q ss_pred             hcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHcCCCHH
Q 038114           17 QPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD-VVLQNYILNMYGKCGSLE   95 (170)
Q Consensus        17 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~   95 (170)
                      ..+.|++++|+..+++. .+.. +-|...+..+...++..|++++|...++...+.  .|+ ...+..+-..+...+..+
T Consensus         6 aL~~G~l~eAl~~l~~a-l~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEA-IKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             HTTTTCHHHHHHHHHHH-HHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHH-HHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccH
Confidence            45679999999999998 5443 357779999999999999999999999999876  343 445555544444333333


Q ss_pred             HHHHHHhhcccCCCCC-CCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           96 DARVVSDEMPQRNVIE-SPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        96 ~a~~~~~~m~~~~~~~-~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      ++   +.......... .++...+......+.+.|+.++|.+++.+..+.
T Consensus        82 ~a---~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          82 DF---AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HH---TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HH---HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            33   22222222210 233344444556778889999999999988754

>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=97.46  E-value=0.0015  Score=40.22  Aligned_cols=63  Identities=8%  Similarity=-0.053  Sum_probs=46.6

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           79 VLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        79 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      .+|+.+-.+|.+.|++++|.+.+......+.   .++.+|..+..++...|++++|...|+...+.
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p---~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDK---NNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHST---TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccc---hhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4667777778888888888888887665432   45677888888888888888888888776644

>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=97.36  E-value=0.00042  Score=41.43  Aligned_cols=92  Identities=12%  Similarity=0.033  Sum_probs=73.2

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcC---CCC--C-HHHHHHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSK---SQP--D-VVLQNYILN   86 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~~--~-~~~~~~li~   86 (170)
                      +-..+.+.|++++|+..|.+. .... +.+...+..+-.+|.+.|++++|...+....+..   ..+  . ..+|..+-.
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~a-l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKA-KELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            667889999999999999998 6543 2467788889999999999999999999987631   111  1 246777878


Q ss_pred             HHHcCCCHHHHHHHHhhccc
Q 038114           87 MYGKCGSLEDARVVSDEMPQ  106 (170)
Q Consensus        87 ~~~~~~~~~~a~~~~~~m~~  106 (170)
                      .+...+++++|.+.|+.-..
T Consensus        88 ~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHh
Confidence            88889999999999987654

>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=97.34  E-value=0.0038  Score=38.24  Aligned_cols=93  Identities=15%  Similarity=-0.037  Sum_probs=74.7

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhC-CC---Ccc-----------hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNT-NF---RIR-----------PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD   77 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~-~~---~p~-----------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~   77 (170)
                      --..+.+.|++.+|+..|.+. ... ..   .++           ..+|+-+-.+|.+.|++++|...+....+.. +.+
T Consensus        23 ~G~~~f~~~~y~~A~~~Y~~a-l~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~  100 (153)
T d2fbna1          23 EGNEFFKKNEINEAIVKYKEA-LDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNN  100 (153)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-chh
Confidence            456788899999999999886 431 11   111           2356667778889999999999999998874 446


Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           78 VVLQNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        78 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      +..|..+-.+|...|++++|...|+...+.
T Consensus       101 ~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1         101 VKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             hhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            899999999999999999999999988765

>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=97.20  E-value=0.0036  Score=38.90  Aligned_cols=65  Identities=9%  Similarity=-0.052  Sum_probs=48.8

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           77 DVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        77 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      ....|..+-.+|.+.|++++|...|....+...   -+...|..+-.++.+.|++++|...|+...+.
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p---~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP---SNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhh---hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            345666777778888888888888887776543   45667777888888888888888888877764

>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=97.10  E-value=0.007  Score=37.55  Aligned_cols=94  Identities=10%  Similarity=-0.006  Sum_probs=65.4

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhC--CCCcch-----------hhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNT--NFRIRP-----------STYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVV   79 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~--~~~p~~-----------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~   79 (170)
                      .-..+.+.|++.+|...|.+.-...  ...++.           ..|+-+-.++.+.|++++|...+....+.. +.+..
T Consensus        21 ~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~   99 (168)
T d1kt1a1          21 KGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEK   99 (168)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHH
Confidence            4667888999999999998751211  111111           123444556677888888888888887753 44577


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           80 LQNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        80 ~~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      .|..+-.+|...|++++|...|......
T Consensus       100 a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1         100 GLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            7888888888888888888888887654

>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=97.04  E-value=0.0021  Score=40.06  Aligned_cols=93  Identities=6%  Similarity=-0.104  Sum_probs=73.2

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhC--------------CCCc-chhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNT--------------NFRI-RPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPD   77 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~--------------~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~   77 (170)
                      ....+...|+++.|+..|.+. ...              .+.| ....|..+-.++.+.|++++|...+....+.. +-+
T Consensus        33 ~~~~~~~~~~y~~Ai~~y~~a-l~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~  110 (169)
T d1ihga1          33 IGNTFFKSQNWEMAIKKYTKV-LRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSN  110 (169)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-HHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhh
Confidence            456678889999999988775 220              1122 33355666777888999999999999999864 446


Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           78 VVLQNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        78 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      +..|..+-.+|.+.|++++|.+.|+...+.
T Consensus       111 ~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1         111 TKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            889999999999999999999999988765

>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=97.01  E-value=0.01  Score=40.13  Aligned_cols=130  Identities=8%  Similarity=-0.177  Sum_probs=90.8

Q ss_pred             HhhhcccCCHHHHHHHHHHHHhhCCCCcc----hhhHHHHHHHhhcccchHHHHHHHHHHHhc----CCCC-CHHHHHHH
Q 038114           14 YNSQPIQNLYNEALVAFDFLQNNTNFRIR----PSTYACLISTCSSLRSLQLGRKVHDHILSS----KSQP-DVVLQNYI   84 (170)
Q Consensus        14 i~~~~~~~~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~l   84 (170)
                      -..+...|++++|+.++++. .......+    ...+..+-.++...|++++|...|.+..+.    +..+ ....+..+
T Consensus        19 A~~~~~~g~~~~A~~~~~~a-L~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   97 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLA-LEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   97 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH-HHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHH-HhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            55577899999999999987 54322111    235666777888999999999999988753    2111 13466677


Q ss_pred             HHHHHcCCCHHHHHHHHhhccc----CCCCCCCC-hhhHHHHHHHHhCCCChHHHHHHHHHHHhC
Q 038114           85 LNMYGKCGSLEDARVVSDEMPQ----RNVIESPD-LASWNAIIAGVASPSNANEAMSLFSEMRDR  144 (170)
Q Consensus        85 i~~~~~~~~~~~a~~~~~~m~~----~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  144 (170)
                      ...+...|++..+...+.....    ......+. ...+..+-..+...|+++.+...+......
T Consensus        98 ~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~  162 (366)
T d1hz4a_          98 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEV  162 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHH
Confidence            7788899999999988876532    11100111 234556667888999999999999888754

>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=96.94  E-value=0.0034  Score=39.05  Aligned_cols=106  Identities=9%  Similarity=-0.120  Sum_probs=78.4

Q ss_pred             HHHHHHHhhcccchHHHHHHHHHHHhc---CCCC-----------CHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCC
Q 038114           46 YACLISTCSSLRSLQLGRKVHDHILSS---KSQP-----------DVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIE  111 (170)
Q Consensus        46 ~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~  111 (170)
                      +.-.-..+.+.|++++|...|......   ...+           ....|+.+-.+|.+.|++++|...++.....+.  
T Consensus        18 ~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p--   95 (168)
T d1kt1a1          18 VKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDS--   95 (168)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhccc--
Confidence            444455677788999999998776542   1111           124566777889999999999999998876543  


Q ss_pred             CCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 038114          112 SPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSL  156 (170)
Q Consensus       112 ~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~l  156 (170)
                       .+..+|..+..++...|++++|...|.+....  .|+.......
T Consensus        96 -~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~~~~  137 (168)
T d1kt1a1          96 -ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQ  137 (168)
T ss_dssp             -TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHH
T ss_pred             -chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence             56788889999999999999999999998754  4554444333

>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=96.82  E-value=0.0047  Score=37.52  Aligned_cols=117  Identities=12%  Similarity=0.028  Sum_probs=78.0

Q ss_pred             hcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhc----------ccchHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038114           17 QPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSS----------LRSLQLGRKVHDHILSSKSQPDVVLQNYILN   86 (170)
Q Consensus        17 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----------~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~   86 (170)
                      |-+.+.+++|+..|+.. .... +-++..+..+=.++..          .+.+++|...|++..+-. +-+...|..+-.
T Consensus         7 ~~r~~~fe~A~~~~e~a-l~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~   83 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENT-YKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGN   83 (145)
T ss_dssp             HHHHHHHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHH-HhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHH
Confidence            45567789999999998 5443 3455556555555543          344678888888887754 335778888877


Q ss_pred             HHHcCC-----------CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 038114           87 MYGKCG-----------SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDREL  146 (170)
Q Consensus        87 ~~~~~~-----------~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~  146 (170)
                      +|...|           .++.|.+.|+...+.    .|+...|..-+..+      .+|.+++.+..+.|+
T Consensus        84 ~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l----~P~~~~~~~~L~~~------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          84 AYTSFAFLTPDETEAKHNFDLATQFFQQAVDE----QPDNTHYLKSLEMT------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH----CTTCHHHHHHHHHH------HTHHHHHHHHHHSSS
T ss_pred             HHHHcccchhhHHHHHHhHHHhhhhhhccccc----CCCHHHHHHHHHHH------HHHHHHHHHHHHHhc
Confidence            776543           357777777776644    56666666655554      467777777777664

>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=96.68  E-value=0.03  Score=37.61  Aligned_cols=155  Identities=12%  Similarity=-0.026  Sum_probs=104.0

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhC----CCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhc----CCCCC--HHHHH
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNT----NFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSS----KSQPD--VVLQN   82 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~----~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~--~~~~~   82 (170)
                      +-..+...|+++.+...+... ...    +.......+......+...++...+...+.+....    +..+.  ...+.
T Consensus       139 la~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~  217 (366)
T d1hz4a_         139 RAQLLWAWARLDEAEASARSG-IEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANK  217 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-HHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHH
T ss_pred             HHHHHHHhcchhhhHHHHHHH-HHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHH
Confidence            456778889999999999887 432    22223335555566677778888888877766542    21121  33566


Q ss_pred             HHHHHHHcCCCHHHHHHHHhhcccCCCC-CCCChhhHHHHHHHHhCCCChHHHHHHHHHHHh----CCCCCCH-hhHHHH
Q 038114           83 YILNMYGKCGSLEDARVVSDEMPQRNVI-ESPDLASWNAIIAGVASPSNANEAMSLFSEMRD----RELIPDG-LTVRSL  156 (170)
Q Consensus        83 ~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~----~~~~p~~-~t~~~l  156 (170)
                      .+...+...|+++.|...+......... .......+..+...+...|++++|...+++...    .+..|+. .++..+
T Consensus       218 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  297 (366)
T d1hz4a_         218 VRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLL  297 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHH
Confidence            6777788899999999999877654331 022234556677888999999999999988753    3444443 456666


Q ss_pred             HHHhcCCCcccc
Q 038114          157 LCACTSPSNVLY  168 (170)
Q Consensus       157 l~~~~~~g~~e~  168 (170)
                      -..|.+.|+.++
T Consensus       298 a~~~~~~g~~~~  309 (366)
T d1hz4a_         298 NQLYWQAGRKSD  309 (366)
T ss_dssp             HHHHHHHTCHHH
T ss_pred             HHHHHHCCCHHH
Confidence            777777777664

>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=96.66  E-value=0.046  Score=37.29  Aligned_cols=143  Identities=6%  Similarity=-0.000  Sum_probs=97.0

Q ss_pred             ccCCHHHHHHHHHHHHhhCCCCcchh-hHH---HHHHHh-------hcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038114           19 IQNLYNEALVAFDFLQNNTNFRIRPS-TYA---CLISTC-------SSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNM   87 (170)
Q Consensus        19 ~~~~~~~a~~~~~~m~~~~~~~p~~~-~~~---~li~~~-------~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~   87 (170)
                      .....++|+.++++. ...  .|+.. .|+   .++...       ...|.++++..+++...+.. +-+...|..+..+
T Consensus        41 ~~~~~~~al~~~~~~-l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~  116 (334)
T d1dcea1          41 AGELDESVLELTSQI-LGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWL  116 (334)
T ss_dssp             TTCCSHHHHHHHHHH-HHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHH-HHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHH
Confidence            334458999999988 542  35443 232   222222       23456788999999988764 4467777777777


Q ss_pred             HHcCC--CHHHHHHHHhhcccCCCCCCCChhhHHHH-HHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCC
Q 038114           88 YGKCG--SLEDARVVSDEMPQRNVIESPDLASWNAI-IAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus        88 ~~~~~--~~~~a~~~~~~m~~~~~~~~p~~~~~~~l-i~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g  164 (170)
                      +...+  ++++|...+........   ++...+... -..+...+.+++|+..++....... -+...|..+-..+.+.|
T Consensus       117 ~~~~~~~~~~~a~~~~~~al~~~~---~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p-~~~~a~~~l~~~~~~~~  192 (334)
T d1dcea1         117 LSRLPEPNWARELELCARFLEADE---RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLH  192 (334)
T ss_dssp             HHTCSSCCHHHHHHHHHHHHHHCT---TCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHS
T ss_pred             HHHhccccHHHHHHHHHHHHhhCc---hhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhc
Confidence            76665  58999999998876543   344555444 4677788999999999987776543 25666777777887777


Q ss_pred             ccccC
Q 038114          165 NVLYL  169 (170)
Q Consensus       165 ~~e~~  169 (170)
                      +.+++
T Consensus       193 ~~~~A  197 (334)
T d1dcea1         193 PQPDS  197 (334)
T ss_dssp             CCCCS
T ss_pred             CHHHH
Confidence            77654

>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=96.59  E-value=0.021  Score=34.75  Aligned_cols=89  Identities=11%  Similarity=0.115  Sum_probs=57.0

Q ss_pred             hhcccchHHHHHHHHHHHhcC-CCC----------CHHHHHHHHHHHHcCCCHHHHHHHHhhcccC-----CCCCCCC--
Q 038114           53 CSSLRSLQLGRKVHDHILSSK-SQP----------DVVLQNYILNMYGKCGSLEDARVVSDEMPQR-----NVIESPD--  114 (170)
Q Consensus        53 ~~~~~~~~~a~~~~~~m~~~~-~~~----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~~~p~--  114 (170)
                      ....|++++|...|.+..+-. -.|          ....|+.+-.+|.+.|++++|..-+++....     ..  .++  
T Consensus        19 ~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~--~~~~~   96 (156)
T d2hr2a1          19 QLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL--NQDEG   96 (156)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCT--TSTHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccc--ccccc
Confidence            334566666666666665421 011          1457778888888888888888877765421     11  111  


Q ss_pred             ---hhhHHHHHHHHhCCCChHHHHHHHHHHHh
Q 038114          115 ---LASWNAIIAGVASPSNANEAMSLFSEMRD  143 (170)
Q Consensus       115 ---~~~~~~li~~~~~~g~~~~a~~l~~~m~~  143 (170)
                         ...|+.+-.+|...|++++|+..|++..+
T Consensus        97 ~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          97 KLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence               22466677888899999999998887653

>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=96.38  E-value=0.041  Score=33.37  Aligned_cols=96  Identities=15%  Similarity=0.030  Sum_probs=70.2

Q ss_pred             hHhH-H--HhhhcccCCHHHHHHHHHHHHhh-CCCCcc----------hhhHHHHHHHhhcccchHHHHHHHHHHHhc--
Q 038114            9 LRFT-F--YNSQPIQNLYNEALVAFDFLQNN-TNFRIR----------PSTYACLISTCSSLRSLQLGRKVHDHILSS--   72 (170)
Q Consensus         9 ~~~~-l--i~~~~~~~~~~~a~~~~~~m~~~-~~~~p~----------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--   72 (170)
                      .+|. +  ...+.+.|++++|+..|++. .. ..-.|+          ...|+.+-.++.+.|++++|..-+.+..+.  
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~A-l~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~   86 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRA-MEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFN   86 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHH-HHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHH-HHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccc
Confidence            3455 4  55667789999999999987 43 111122          346788888899999999999998887642  


Q ss_pred             ---CCCCC-----HHHHHHHHHHHHcCCCHHHHHHHHhhcc
Q 038114           73 ---KSQPD-----VVLQNYILNMYGKCGSLEDARVVSDEMP  105 (170)
Q Consensus        73 ---~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~  105 (170)
                         ...++     ...|+.+-.+|...|++++|...|++..
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               11222     2356778889999999999999998754

>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=96.34  E-value=0.084  Score=36.58  Aligned_cols=52  Identities=8%  Similarity=0.038  Sum_probs=31.6

Q ss_pred             CCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCC
Q 038114           75 QPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPS  129 (170)
Q Consensus        75 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g  129 (170)
                      ..++.....++..|-..|.+++...+++..... -  .++...++-++..|++.+
T Consensus        96 ~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~--~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          96 VVHADELEELINYYQDRGYFEELITMLEAALGL-E--RAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-T--TCCHHHHHHHHHHHHTTC
T ss_pred             hcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-C--ccchHHHHHHHHHHHHhC
Confidence            445555566677777777777777776654322 1  345556677777777654

>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=96.11  E-value=0.028  Score=31.20  Aligned_cols=74  Identities=9%  Similarity=-0.026  Sum_probs=44.8

Q ss_pred             hHhHHHhhhcccCCHHHHHHHHHHHHhhC-----CCCcc-hhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHH
Q 038114            9 LRFTFYNSQPIQNLYNEALVAFDFLQNNT-----NFRIR-PSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQN   82 (170)
Q Consensus         9 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~   82 (170)
                      ..|++-..+.+.|+++.|...|++. .+.     ...++ ..++..+-.++.+.|++++|...+++..+.. +-+..+++
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~A-l~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~-P~~~~a~~   84 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQA-LRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD-PEHQRANG   84 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-HHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHH-HHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC-cCCHHHHH
Confidence            3455777777778888887777765 321     11122 3456667777777777777777777776653 11244444


Q ss_pred             HH
Q 038114           83 YI   84 (170)
Q Consensus        83 ~l   84 (170)
                      .+
T Consensus        85 Nl   86 (95)
T d1tjca_          85 NL   86 (95)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=95.93  E-value=0.052  Score=30.42  Aligned_cols=49  Identities=10%  Similarity=0.072  Sum_probs=30.7

Q ss_pred             chHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhccc
Q 038114           58 SLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQ  106 (170)
Q Consensus        58 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  106 (170)
                      +.-++.+-+..+....+.|++.+..+.+++|-|.+++..|.++|+..+.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~   69 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   69 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4445555555665666666666666666666666666666666666553

>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=95.89  E-value=0.00062  Score=46.10  Aligned_cols=54  Identities=15%  Similarity=0.077  Sum_probs=47.8

Q ss_pred             hhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           53 CSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        53 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      ..+.|++++|...+++.++.. +-|...+..+...|+..|++++|.+.|+...+.
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l   59 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   59 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            346799999999999999875 557899999999999999999999999988765

>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=95.71  E-value=0.18  Score=34.89  Aligned_cols=128  Identities=9%  Similarity=-0.007  Sum_probs=74.1

Q ss_pred             HHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCC
Q 038114           13 FYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCG   92 (170)
Q Consensus        13 li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~   92 (170)
                      +..-|.+.|.++.|..+|..+ .         -|..++..+.+.++++.|.+++...   +   +..+|..+...+.+..
T Consensus        20 i~~~c~~~~lye~A~~lY~~~-~---------d~~rl~~~~v~l~~~~~avd~~~k~---~---~~~~~k~~~~~l~~~~   83 (336)
T d1b89a_          20 VGDRCYDEKMYDAAKLLYNNV-S---------NFGRLASTLVHLGEYQAAVDGARKA---N---STRTWKEVCFACVDGK   83 (336)
T ss_dssp             ---------CTTTHHHHHHHT-T---------CHHHHHHHHHTTTCHHHHHHHHHHH---T---CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHHHHHhC-C---------CHHHHHHHHHhhccHHHHHHHHHHc---C---CHHHHHHHHHHHHhCc
Confidence            356666778888888888776 2         4566667777777777766655433   1   4667777777777766


Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCCC
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSPS  164 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~g  164 (170)
                      ....|.-+     ....  ..+......++..|-..|.++....+++..... -.++...++-++..|++.+
T Consensus        84 e~~la~i~-----~~~~--~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          84 EFRLAQMC-----GLHI--VVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             CHHHHHHT-----TTTT--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHH-----HHHh--hcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC
Confidence            65544221     2222  233344556777777777777777777765432 2445556667777776654

>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=95.67  E-value=0.056  Score=29.86  Aligned_cols=61  Identities=15%  Similarity=0.095  Sum_probs=37.7

Q ss_pred             HHHHHHhhcccchHHHHHHHHHHHhc-----CCCCC-HHHHHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           47 ACLISTCSSLRSLQLGRKVHDHILSS-----KSQPD-VVLQNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        47 ~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      --+=..+.+.|+++.|...|++..+.     ...++ ..+++.|-.+|.+.|++++|.+.+++..+.
T Consensus         9 ~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            34445566677777777777766542     11122 456667777777777777777777776654

>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=95.55  E-value=0.012  Score=35.70  Aligned_cols=104  Identities=13%  Similarity=-0.015  Sum_probs=72.6

Q ss_pred             hhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcC----------CCHHHHHHHHhhcccCCCCCCCChhhHHHHH
Q 038114           53 CSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKC----------GSLEDARVVSDEMPQRNVIESPDLASWNAII  122 (170)
Q Consensus        53 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~----------~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li  122 (170)
                      |-+.+.+++|...|+...+.. +-++..+..+-.++...          +.+++|...|++..+.+.   -+..+|..+-
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P---~~~~a~~~lG   82 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP---KKDEAVWCIG   82 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT---TCHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcc---hhhHHHhhHH
Confidence            345677999999999998864 44577887777777643          446789999988876533   4456777776


Q ss_pred             HHHhCCC-----------ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcC
Q 038114          123 AGVASPS-----------NANEAMSLFSEMRDRELIPDGLTVRSLLCACTS  162 (170)
Q Consensus       123 ~~~~~~g-----------~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~  162 (170)
                      ..|...|           .+++|.+.|+...  .+.|+-.+|..-+..+.+
T Consensus        83 ~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal--~l~P~~~~~~~~L~~~~k  131 (145)
T d1zu2a1          83 NAYTSFAFLTPDETEAKHNFDLATQFFQQAV--DEQPDNTHYLKSLEMTAK  131 (145)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH--HHCTTCHHHHHHHHHHHT
T ss_pred             HHHHHcccchhhHHHHHHhHHHhhhhhhccc--ccCCCHHHHHHHHHHHHH
Confidence            6665543           3567777777655  456888888777766543

>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=95.53  E-value=0.039  Score=37.64  Aligned_cols=110  Identities=11%  Similarity=0.045  Sum_probs=73.6

Q ss_pred             ccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcc--cchHHHHHHHHHHHhcCCCCCHHHHH-HHHHHHHcCCCHH
Q 038114           19 IQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSL--RSLQLGRKVHDHILSSKSQPDVVLQN-YILNMYGKCGSLE   95 (170)
Q Consensus        19 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~--~~~~~a~~~~~~m~~~~~~~~~~~~~-~li~~~~~~~~~~   95 (170)
                      ..|.+++|+.+++.. .... +-+...|..+-.++...  ++++++...+....+.. +++...+. ..-..+...+.++
T Consensus        85 ~~~~~~~al~~~~~~-l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~  161 (334)
T d1dcea1          85 SAALVKAELGFLESC-LRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPA  161 (334)
T ss_dssp             HHHHHHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHH
T ss_pred             HHHHHHHHHHHHHHH-HHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccH
Confidence            345578889989887 4432 12344555554444444  45789999999988764 33455554 4446777789999


Q ss_pred             HHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHH
Q 038114           96 DARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEA  134 (170)
Q Consensus        96 ~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a  134 (170)
                      .|...++.....+.   -+...|+.+-..+.+.|++++|
T Consensus       162 ~Al~~~~~~i~~~p---~~~~a~~~l~~~~~~~~~~~~A  197 (334)
T d1dcea1         162 EELAFTDSLITRNF---SNYSSWHYRSCLLPQLHPQPDS  197 (334)
T ss_dssp             HHHHHHHTTTTTTC---CCHHHHHHHHHHHHHHSCCCCS
T ss_pred             HHHHHHHHHHHcCC---CCHHHHHHHHHHHHHhcCHHHH
Confidence            99999998887755   3566777777777666665544

>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=94.82  E-value=0.022  Score=41.66  Aligned_cols=112  Identities=9%  Similarity=-0.091  Sum_probs=66.1

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHH
Q 038114           45 TYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAG  124 (170)
Q Consensus        45 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~  124 (170)
                      .+..+-..+.+.|+.+.|...+....+.  . ....+..+-..+...+++++|...|.+......   -+..+|+.+-..
T Consensus       122 ~~~~lg~~~~~~~~~~~A~~~~~~al~~--~-~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P---~~~~~~~~Lg~~  195 (497)
T d1ya0a1         122 KSSQLGIISNKQTHTSAIVKPQSSSCSY--I-CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVP---SNGQPYNQLAIL  195 (497)
T ss_dssp             ---------------------CCHHHHH--H-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TBSHHHHHHHHH
T ss_pred             HHHHhHHHHHhCCCHHHHHHHHHHHhCC--C-HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC---CchHHHHHHHHH
Confidence            3333444444555555555544443321  1 134677777888889999999999998775532   344789999999


Q ss_pred             HhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHhcCC
Q 038114          125 VASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCACTSP  163 (170)
Q Consensus       125 ~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~~~~  163 (170)
                      +...|+..+|...|.+-.... .|-..++..|...+.+.
T Consensus       196 ~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         196 ASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKA  233 (497)
T ss_dssp             HHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHh
Confidence            999999999999988776554 46677777777776543

>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=94.17  E-value=0.055  Score=39.42  Aligned_cols=56  Identities=7%  Similarity=-0.139  Sum_probs=27.3

Q ss_pred             HHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHHHHHHhhc
Q 038114           48 CLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDARVVSDEM  104 (170)
Q Consensus        48 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  104 (170)
                      .+-..+...+++++|...|.+..+.. +-+...|+.|-..|...|+..+|...|.+-
T Consensus       157 ~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ra  212 (497)
T d1ya0a1         157 HLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRS  212 (497)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33344444455555555555554432 223445555555555555555555544443

>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=94.07  E-value=0.22  Score=27.77  Aligned_cols=64  Identities=9%  Similarity=0.111  Sum_probs=52.2

Q ss_pred             CHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 038114           93 SLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCA  159 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~  159 (170)
                      +.-++.+-+..+-..+.  .|++....+.+.+|-|.+++..|.++|+-.+.+ +.++...|..+++-
T Consensus        21 D~we~rrgmN~l~~~Dl--VPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilqe   84 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDL--VPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQE   84 (105)
T ss_dssp             CHHHHHHHHHHHTTSSB--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhcccc--CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHHH
Confidence            56667778888888888  899999999999999999999999999877754 33456677777654

>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=93.43  E-value=0.38  Score=28.37  Aligned_cols=60  Identities=13%  Similarity=0.137  Sum_probs=28.7

Q ss_pred             HHHHHHcCCCHHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCCC
Q 038114           84 ILNMYGKCGSLEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDREL  146 (170)
Q Consensus        84 li~~~~~~~~~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~  146 (170)
                      .++...+.|.-++-.+++.++.+. -  +|++...-.+-.+|.+.|...++.+++.+-=+.|+
T Consensus        92 ALd~lv~~~kkd~Ld~i~~~l~kn-~--~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          92 ALDILVIQGKRDKLEEIGREILKN-N--EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHC---C--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhc-C--CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            344445555555555555553331 1  34444444445555555555555555555544444

>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=91.39  E-value=0.76  Score=27.07  Aligned_cols=85  Identities=9%  Similarity=-0.036  Sum_probs=64.0

Q ss_pred             cccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCHHHH
Q 038114           18 PIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSLEDA   97 (170)
Q Consensus        18 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a   97 (170)
                      +..++.......+-.+      .-++..+...+......|+-+.-.+++..+.+.+ .|++...-.+-.+|.+-|+..++
T Consensus        67 s~C~Nlk~vv~C~~~~------n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~  139 (161)
T d1wy6a1          67 DKCQNLKSVVECGVIN------NTLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDA  139 (161)
T ss_dssp             GGCSCTHHHHHHHHHT------TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hhhhcHHHHHHHHHHh------cchHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhH
Confidence            4556667776666666      2455677788888888888888888888877754 66777777888889999999888


Q ss_pred             HHHHhhcccCCC
Q 038114           98 RVVSDEMPQRNV  109 (170)
Q Consensus        98 ~~~~~~m~~~~~  109 (170)
                      .+++.+.-+.|+
T Consensus       140 nell~~ACe~G~  151 (161)
T d1wy6a1         140 TTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhH
Confidence            888888777776

>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=90.72  E-value=0.85  Score=26.33  Aligned_cols=112  Identities=12%  Similarity=-0.059  Sum_probs=74.3

Q ss_pred             CCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc----CCCHHH
Q 038114           21 NLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK----CGSLED   96 (170)
Q Consensus        21 ~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~   96 (170)
                      .++++|++.|.+. -+.|...   ....|  +.....+.+++..++....+.|   ++..+..|-..|..    ..+.++
T Consensus         7 kd~~~A~~~~~ka-a~~g~~~---a~~~l--~~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~   77 (133)
T d1klxa_           7 KDLKKAIQYYVKA-CELNEMF---GCLSL--VSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   77 (133)
T ss_dssp             HHHHHHHHHHHHH-HHTTCTT---HHHHH--HTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHH-HHCCChh---hhhhh--ccccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHH
Confidence            4678999999998 6666422   22222  2344567889999999888877   44455555555554    457899


Q ss_pred             HHHHHhhcccCCCCCCCChhhHHHHHHHHh----CCCChHHHHHHHHHHHhCCC
Q 038114           97 ARVVSDEMPQRNVIESPDLASWNAIIAGVA----SPSNANEAMSLFSEMRDREL  146 (170)
Q Consensus        97 a~~~~~~m~~~~~~~~p~~~~~~~li~~~~----~~g~~~~a~~l~~~m~~~~~  146 (170)
                      |.+.|+.-.+.|.   |+  ....|-..|.    -..+.++|.++|+.-.+.|.
T Consensus        78 A~~~~~~aa~~g~---~~--a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          78 AAQYYSKACGLND---QD--GCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHHTTC---HH--HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhhhhccCc---ch--HHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            9999999877665   22  2333333332    34589999999988777763

>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=88.41  E-value=0.34  Score=28.26  Aligned_cols=52  Identities=17%  Similarity=0.153  Sum_probs=33.9

Q ss_pred             cccchHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHHcCCCHHHHHHHHhhcccC
Q 038114           55 SLRSLQLGRKVHDHILSSKSQPDV-VLQNYILNMYGKCGSLEDARVVSDEMPQR  107 (170)
Q Consensus        55 ~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~  107 (170)
                      ...+.+.+..++++..+.+ +.+. ..+-.|--+|.+.|+++.|.+.++...+.
T Consensus        50 ~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          50 DVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             CHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            4456777778887777643 2232 34445556677788888888888777654

>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=86.90  E-value=2.5  Score=26.94  Aligned_cols=140  Identities=12%  Similarity=-0.011  Sum_probs=85.2

Q ss_pred             HhHHHhhhcccCCHHHHHHHHHHHHhhCCCCcchhhHHHHHHHhhc----ccchHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038114           10 RFTFYNSQPIQNLYNEALVAFDFLQNNTNFRIRPSTYACLISTCSS----LRSLQLGRKVHDHILSSKSQPDVVLQNYIL   85 (170)
Q Consensus        10 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li   85 (170)
                      .++|-..+-+.+++++|++.|++. .+.|-   ...+..|=..|..    ..+...+...+..-.+.+   ++.....+.
T Consensus         5 ~~~lG~~~~~~~d~~~A~~~~~kA-a~~g~---~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~   77 (265)
T d1ouva_           5 LVGLGAKSYKEKDFTQAKKYFEKA-CDLKE---NSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLG   77 (265)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH-HHTTC---HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHH-HHCCC---HHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhccc
Confidence            345766777889999999999999 77773   2333333333332    567888888888887776   334444444


Q ss_pred             HHHHc----CCCHHHHHHHHhhcccCCCCCCCChhhH-HHHHHHHhCCCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHh
Q 038114           86 NMYGK----CGSLEDARVVSDEMPQRNVIESPDLASW-NAIIAGVASPSNANEAMSLFSEMRDRELIPDGLTVRSLLCAC  160 (170)
Q Consensus        86 ~~~~~----~~~~~~a~~~~~~m~~~~~~~~p~~~~~-~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~t~~~ll~~~  160 (170)
                      ..+..    ..+.+.|...++.-...|.  ....... .....+.........+...+......+   +...+..|-..+
T Consensus        78 ~~~~~~~~~~~~~~~a~~~~~~a~~~g~--~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~L~~~~  152 (265)
T d1ouva_          78 NLYYSGQGVSQNTNKALQYYSKACDLKY--AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLY  152 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             cccccccccchhhHHHHHHHhhhhhhhh--hhHHHhhcccccCCCcccchhHHHHHHhhhhhccc---ccchhhhhhhhh
Confidence            44433    4578999999998777665  2111111 111122233456777778777766554   445555555555


Q ss_pred             c
Q 038114          161 T  161 (170)
Q Consensus       161 ~  161 (170)
                      .
T Consensus       153 ~  153 (265)
T d1ouva_         153 D  153 (265)
T ss_dssp             H
T ss_pred             c
Confidence            4

>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=85.52  E-value=2.1  Score=24.78  Aligned_cols=62  Identities=5%  Similarity=-0.009  Sum_probs=28.0

Q ss_pred             HHHHHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCH--HHHHHHHhhcccCCC
Q 038114           47 ACLISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGKCGSL--EDARVVSDEMPQRNV  109 (170)
Q Consensus        47 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~--~~a~~~~~~m~~~~~  109 (170)
                      ..++.-|...++.++|..-++++...... +..++.++..+.-+.+.-  +.+.+++..+...|+
T Consensus        11 ~~ll~EY~~~~D~~Ea~~~l~eL~~p~~~-~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~   74 (129)
T d2nsza1          11 DMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSST   74 (129)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHTCGGGH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcCCchhh-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCC
Confidence            44555555555555555555555321111 233444444444443332  223445555555544

>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=83.77  E-value=1.1  Score=26.02  Aligned_cols=22  Identities=9%  Similarity=0.040  Sum_probs=11.4

Q ss_pred             HHHHHhCCCChHHHHHHHHHHH
Q 038114          121 IIAGVASPSNANEAMSLFSEMR  142 (170)
Q Consensus       121 li~~~~~~g~~~~a~~l~~~m~  142 (170)
                      +--+|.+.|++++|...++.+.
T Consensus        79 Lav~yyklgdy~~A~~~~~~~L  100 (124)
T d2pqrb1          79 LTIGCYKLGEYSMAKRYVDTLF  100 (124)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHH
Confidence            3334445555555555555544

>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=83.12  E-value=2.7  Score=23.99  Aligned_cols=88  Identities=6%  Similarity=-0.217  Sum_probs=57.1

Q ss_pred             cccCCHHHHHHHHHHHHhhCCCCcchhhHHHH-HHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc----CC
Q 038114           18 PIQNLYNEALVAFDFLQNNTNFRIRPSTYACL-ISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK----CG   92 (170)
Q Consensus        18 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l-i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~   92 (170)
                      ....+.++|+..|++. -+.|..........+ .....-..+.+.|.++|+...+.|   ++..+..|-..|..    ..
T Consensus        34 ~~~~~~~~a~~~~~~a-a~~g~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~  109 (133)
T d1klxa_          34 NSQINKQKLFQYLSKA-CELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVK  109 (133)
T ss_dssp             CTTSCHHHHHHHHHHH-HHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC
T ss_pred             ccccCHHHHHHHHhhh-hcccchhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCC
Confidence            3456788999999998 777653222222211 111222457899999999998887   34445555555554    45


Q ss_pred             CHHHHHHHHhhcccCCC
Q 038114           93 SLEDARVVSDEMPQRNV  109 (170)
Q Consensus        93 ~~~~a~~~~~~m~~~~~  109 (170)
                      +.++|.++|+.-.+.|.
T Consensus       110 d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_         110 NEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             CHHHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHCCC
Confidence            79999999988776665

>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=82.53  E-value=1.9  Score=21.86  Aligned_cols=62  Identities=16%  Similarity=0.080  Sum_probs=29.1

Q ss_pred             HHHHHHHHHcCCC--HHHHHHHHhhcccCCCCCCCChhhHHHHHHHHhCCCChHHHHHHHHHHHhCC
Q 038114           81 QNYILNMYGKCGS--LEDARVVSDEMPQRNVIESPDLASWNAIIAGVASPSNANEAMSLFSEMRDRE  145 (170)
Q Consensus        81 ~~~li~~~~~~~~--~~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~  145 (170)
                      |..+|+-....++  .+++..+++.+-...+   ++...-.-|+....+.-..++...+.+-|++.+
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            3444444444332  4555556665554433   333333333333333334555555555555554

>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=81.06  E-value=4.8  Score=25.52  Aligned_cols=117  Identities=9%  Similarity=-0.000  Sum_probs=64.9

Q ss_pred             cCCHHHHHHHHHHHHhhCCCCcchhhHHHH-HHHhhcccchHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHc----CCCH
Q 038114           20 QNLYNEALVAFDFLQNNTNFRIRPSTYACL-ISTCSSLRSLQLGRKVHDHILSSKSQPDVVLQNYILNMYGK----CGSL   94 (170)
Q Consensus        20 ~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l-i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~   94 (170)
                      ..++..+...+... ...+.......+..+ ..........+.+...+....+.|...   ....+...+..    ....
T Consensus        51 ~~d~~~a~~~~~~a-~~~~~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~---a~~~l~~~~~~~~~~~~~~  126 (265)
T d1ouva_          51 EKNLKKAASFYAKA-CDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAE---GCASLGGIYHDGKVVTRDF  126 (265)
T ss_dssp             CCCHHHHHHHHHHH-HHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHH---HHHHHHHHHHHCSSSCCCH
T ss_pred             chhHHHHHHhhccc-ccccccchhhccccccccccccchhhHHHHHHHhhhhhhhhhh---HHHhhcccccCCCcccchh
Confidence            56778888888777 555532222111111 111223456778888888887766332   22223223332    3456


Q ss_pred             HHHHHHHhhcccCCCCCCCChhhHHHHHHHHhC----CCChHHHHHHHHHHHhCC
Q 038114           95 EDARVVSDEMPQRNVIESPDLASWNAIIAGVAS----PSNANEAMSLFSEMRDRE  145 (170)
Q Consensus        95 ~~a~~~~~~m~~~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~~  145 (170)
                      ..+...+......     .+...+..+...+..    ..+...+...+....+.|
T Consensus       127 ~~a~~~~~~~~~~-----~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g  176 (265)
T d1ouva_         127 KKAVEYFTKACDL-----NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK  176 (265)
T ss_dssp             HHHHHHHHHHHHT-----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhhhhhcc-----cccchhhhhhhhhccCCCcccccccchhhhhcccccc
Confidence            6777777665543     333556666555553    456777777777766665