Citrus Sinensis ID: 025612

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250
Protein Sequence
MESQSALAQMGCLKFHFSQMGFHQRPQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQKHRKTQVDLV
Secondary Structure (PSIPRED)
ccHHHHHHHHHHcccccccccccHHHHHccccccHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHccccccHHHHHHHHHHccccccHHcHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHccccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHccccccccc
Coil and Loop (DISEMBL)
MESQSALAQMGCLKfhfsqmgfhqrpqislpsgkkIQALTVTCglrdankkpmwrsrvlSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKevwykpdlsLYSDMILMLGKNKQIAMAEELFCELKkegldpdtrVYTEMIGVYLQVGMIDKAMETYETmkasgctphkLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQKHRKTQVDLV
Flexible Loop (DISEMBL)
MESQSALAQMGCLKFHFSQMGFHQRPQISLPSGKKIQALTVTCGlrdankkpmwrsrVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMkasgctphKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEevyqkhrktqvdlv
Low Complexity Region (SEG)
MESQSALAQMGCLKFHFSQMGFHQRPQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQKHRKTQVDLV
Disordered region (IsUnstruct)
*********MGCLKFHFSQMGFHQRPQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQAVHA************GFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQ**********
Disordered Region (DISOPRED)
MESQSALAQMGCLKFHFSQMGFHQRPQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQKHRKTQVDLV
Disordered Region (DISEMBL)
********QMGCLKFHFSQMGFHQRPQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQK*********
Disordered Region (DISPRO)
MESQSALAQMGCLKFHFSQMGFHQRPQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQKHRKTQ****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MESQSALAQMGCLKFHFSQMGFHQRPQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQKHRKTQVDLV
Positional Conservation
no confident homologs detected

---

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	250	2.2.26 [Sep-21-2011]
Q9STF9	257	Pentatricopeptide repeat-	no	no	0.628	0.610	0.377	8e-25
Q1PFH7	196	Pentatricopeptide repeat-	no	no	0.6	0.765	0.331	5e-20
Q9SCP4	447	Pentatricopeptide repeat-	no	no	0.62	0.346	0.355	5e-17
Q9FKC3	508	Pentatricopeptide repeat-	no	no	0.596	0.293	0.331	1e-16
Q9SV96	563	Pentatricopeptide repeat-	no	no	0.768	0.341	0.284	2e-13
Q9SQU6	486	Pentatricopeptide repeat-	no	no	0.54	0.277	0.295	4e-13
Q8GYP6	860	Pentatricopeptide repeat-	no	no	0.392	0.113	0.278	2e-11
Q9FNG8	1030	Putative pentatricopeptid	no	no	0.424	0.102	0.317	4e-11
Q9LW84	642	Pentatricopeptide repeat-	no	no	0.672	0.261	0.264	4e-11
Q8S9D1	831	Pentatricopeptide repeat-	no	no	0.48	0.144	0.322	2e-10

>sp|Q9STF9|PP266_ARATH Pentatricopeptide repeat-containing protein At3g46870 OS=Arabidopsis thaliana GN=At3g46870 PE=2 SV=1

 Score =  114 bits (284), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 60/159 (37%), Positives = 100/159 (62%), Gaps = 2/159 (1%)

Query: 52  PMWRSR-VLSSEAIQAVHAMK-LAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELD 109
           P+WR + ++  EA+  +  +K L +   KL++  ++ + RLLK D+L  + EL RQ E  
Sbjct: 65  PLWRGKKLIGKEALFVILGLKRLKEDDEKLDKFIKTHVFRLLKLDMLAVIGELERQEETA 124

Query: 110 LALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEM 169
           LA+K+F  ++K+ WY+PD+ +Y D+I+ L K+K++  A  L+ ++KKE L PD++ YTE+
Sbjct: 125 LAIKMFEVIQKQEWYQPDVFMYKDLIVSLAKSKRMDEAMALWEKMKKENLFPDSQTYTEV 184

Query: 170 IGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNL 208
           I  +L+ G    AM  YE M  S   P +L F +L++ L
Sbjct: 185 IRGFLRDGCPADAMNVYEDMLKSPDPPEELPFRVLLKGL 223

Arabidopsis thaliana (taxid: 3702)

>sp|Q1PFH7|PPR89_ARATH Pentatricopeptide repeat-containing protein At1g62350 OS=Arabidopsis thaliana GN=At1g62350 PE=2 SV=1

 Score = 98.2 bits (243), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 50/151 (33%), Positives = 91/151 (60%), Gaps = 1/151 (0%)

Query: 59  LSSEAIQAVHAMK-LAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNF 117
           +S E + A   +K L   S +L+    S + RLLK+DL+  L E +RQN++ L +K++  
Sbjct: 1   MSKEGLIAAKELKRLQTQSVRLDRFIGSHVSRLLKSDLVSVLAEFQRQNQVFLCMKLYEV 60

Query: 118 VRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG 177
           VR+E+WY+PD+  Y DM++ML +NK++   ++++ +LKKE +  D   + +++  +L   
Sbjct: 61  VRREIWYRPDMFFYRDMLMMLARNKKVDETKKVWEDLKKEEVLFDQHTFGDLVRGFLDNE 120

Query: 178 MIDKAMETYETMKASGCTPHKLTFTILIRNL 208
           +  +AM  Y  M+ S   P  L F ++++ L
Sbjct: 121 LPLEAMRLYGEMRESPDRPLSLPFRVILKGL 151

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SCP4|PP279_ARATH Pentatricopeptide repeat-containing protein At3g53170 OS=Arabidopsis thaliana GN=At3g53170 PE=2 SV=1

 Score = 88.2 bits (217), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 59/166 (35%), Positives = 86/166 (51%), Gaps = 11/166 (6%)

Query: 56  SRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVF 115
           SR+L ++A  AV  ++   +S K           L    +L+ L E  ++N    ALK+F
Sbjct: 32  SRILRTDA--AVKGIERKANSEKY--------LTLWPKAVLEALDEAIKENRWQSALKIF 81

Query: 116 NFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQ 175
           N +RK+ WY+P    Y+ +  +LG  KQ   A  LF  +  EGL P   VYT +I VY +
Sbjct: 82  NLLRKQHWYEPRCKTYTKLFKVLGNCKQPDQASLLFEVMLSEGLKPTIDVYTSLISVYGK 141

Query: 176 VGMIDKAMETYETMKA-SGCTPHKLTFTILIRNLENAGEEELVAAV 220
             ++DKA  T E MK+ S C P   TFT+LI      G  +LV ++
Sbjct: 142 SELLDKAFSTLEYMKSVSDCKPDVFTFTVLISCCCKLGRFDLVKSI 187

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKC3|PP424_ARATH Pentatricopeptide repeat-containing protein At5g48730, chloroplastic OS=Arabidopsis thaliana GN=At5g48730 PE=2 SV=2

 Score = 86.7 bits (213), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 51/154 (33%), Positives = 88/154 (57%), Gaps = 5/154 (3%)

Query: 56  SRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVF 115
           +++ S +AI  +   +  KS  + ++G +  + R +   L + +T LR ++    A++VF
Sbjct: 82  TKIASRKAISIILRREATKSIIEKKKGSKKLLPRTVLESLHERITALRWES----AIQVF 137

Query: 116 NFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQ 175
             +R+++WYKP++ +Y  +I+MLGK KQ   A ELF E+  EG   +  VYT ++  Y +
Sbjct: 138 ELLREQLWYKPNVGIYVKLIVMLGKCKQPEKAHELFQEMINEGCVVNHEVYTALVSAYSR 197

Query: 176 VGMIDKAMETYETMKAS-GCTPHKLTFTILIRNL 208
            G  D A    E MK+S  C P   T++ILI++ 
Sbjct: 198 SGRFDAAFTLLERMKSSHNCQPDVHTYSILIKSF 231

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SV96|PP358_ARATH Pentatricopeptide repeat-containing protein At4g39620, chloroplastic OS=Arabidopsis thaliana GN=EMB2453 PE=2 SV=1

 Score = 76.3 bits (186), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 60/211 (28%), Positives = 100/211 (47%), Gaps = 19/211 (9%)

Query: 25  RPQISLPSGKKIQALTVTCGLRDANKKPMWR------SRVLSSEAIQAVHAMK-LAKSSS 77
           R  ++L   ++     +TCG   + +K   R      +RVL    +  +   + L K+  
Sbjct: 30  RFSVNLGDARRSTRTRITCGAISSRRKLAERESAERENRVLVRSLMSRISDREPLVKTLD 89

Query: 78  KLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILM 137
           K  +  +   C LL         EL + ++    L+VF +++K+ WY PD  +YS +I +
Sbjct: 90  KYVKVVRCDHCFLL-------FEELGKSDKWLQCLEVFRWMQKQRWYIPDNGVYSKLISV 142

Query: 138 LGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETY----ETMKA-S 192
           +GK  Q  MA  LF E+K  G  PD  VY  +I  +L      KA+E      + MK   
Sbjct: 143 MGKKGQTRMAMWLFSEMKNSGCRPDASVYNALITAHLHTRDKAKALEKVRGYLDKMKGIE 202

Query: 193 GCTPHKLTFTILIRNLENAGEEELVAAVRRD 223
            C P+ +T+ IL+R    +G+ + V A+ +D
Sbjct: 203 RCQPNVVTYNILLRAFAQSGKVDQVNALFKD 233

May play a role in embryogenesis.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SQU6|PP216_ARATH Pentatricopeptide repeat-containing protein At3g06430, chloroplastic OS=Arabidopsis thaliana GN=EMB2750 PE=2 SV=1

 Score = 75.1 bits (183), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 42/142 (29%), Positives = 82/142 (57%), Gaps = 7/142 (4%)

Query: 95  LLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCEL 154
           + +TL++L  + +   AL+VF+ +R++ +Y+P    Y  ++++LGK+ Q   A++LF E+
Sbjct: 91  VTETLSDLIAKKQWLQALEVFDMLREQTFYQPKEGTYMKLLVLLGKSGQPNRAQKLFDEM 150

Query: 155 KKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKA-SGCTPHKLTFTILIRNLENAGE 213
            +EGL+P   +YT ++  Y +  +ID A    + MK+   C P   T++ L++   +A +
Sbjct: 151 LEEGLEPTVELYTALLAAYTRSNLIDDAFSILDKMKSFPQCQPDVFTYSTLLKACVDASQ 210

Query: 214 EELVAAVRRDCIQYVEFPERFL 235
            +LV ++      Y E  ER +
Sbjct: 211 FDLVDSL------YKEMDERLI 226

Arabidopsis thaliana (taxid: 3702)

>sp|Q8GYP6|PPR49_ARATH Pentatricopeptide repeat-containing protein At1g18900 OS=Arabidopsis thaliana GN=At1g18900 PE=1 SV=1

 Score = 69.3 bits (168), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 34/122 (27%), Positives = 63/122 (51%)

Query: 91  LKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEEL 150
           L+ D       L++ N+   AL  F +++++  +K D   Y+ M+  LG+ KQ     +L
Sbjct: 327 LRIDAYQANQVLKQMNDYGNALGFFYWLKRQPGFKHDGHTYTTMVGNLGRAKQFGAINKL 386

Query: 151 FCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLEN 210
             E+ ++G  P+T  Y  +I  Y +   +++AM  +  M+ +GC P ++T+  LI     
Sbjct: 387 LDEMVRDGCQPNTVTYNRLIHSYGRANYLNEAMNVFNQMQEAGCKPDRVTYCTLIDIHAK 446

Query: 211 AG 212
           AG
Sbjct: 447 AG 448

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FNG8|PP366_ARATH Putative pentatricopeptide repeat-containing protein At5g06400, mitochondrial OS=Arabidopsis thaliana GN=At5g06400 PE=3 SV=1

 Score = 68.9 bits (167), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 34/107 (31%), Positives = 62/107 (57%)

Query: 110 LALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEM 169
           LA++ FN+V+++  +   + +Y+ M+ + G+ + + M +EL  E++K G D D R +T +
Sbjct: 171 LAMRFFNWVKQKDGFSHRVGIYNTMLSIAGEARNLDMVDELVSEMEKNGCDKDIRTWTIL 230

Query: 170 IGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEEL 216
           I VY +   I K +  +E M+ SG       + I+IR+L  AG  +L
Sbjct: 231 ISVYGKAKKIGKGLLVFEKMRKSGFELDATAYNIMIRSLCIAGRGDL 277

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LW84|PP236_ARATH Pentatricopeptide repeat-containing protein At3g16010 OS=Arabidopsis thaliana GN=At3g16010 PE=2 SV=1

 Score = 68.6 bits (166), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 46/174 (26%), Positives = 87/174 (50%), Gaps = 6/174 (3%)

Query: 56  SRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVF 115
           S  + SE ++A+   K+   +  +    + R C+   +     +  L ++ + +   +V+
Sbjct: 161 SPAVLSELVKALGRAKMVSKALSVFYQAKGRKCKPTSSTYNSVILMLMQEGQHEKVHEVY 220

Query: 116 NFVRKEVWYKPDLSLYSDMILM---LGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGV 172
             +  E    PD   YS +I     LG+N     A  LF E+K   + P  ++YT ++G+
Sbjct: 221 TEMCNEGDCFPDTITYSALISSYEKLGRNDS---AIRLFDEMKDNCMQPTEKIYTTLLGI 277

Query: 173 YLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQ 226
           Y +VG ++KA++ +E MK +GC+P   T+T LI+ L  AG  +      +D ++
Sbjct: 278 YFKVGKVEKALDLFEEMKRAGCSPTVYTYTELIKGLGKAGRVDEAYGFYKDMLR 331

Arabidopsis thaliana (taxid: 3702)

>sp|Q8S9D1|PP395_ARATH Pentatricopeptide repeat-containing protein At5g21222 OS=Arabidopsis thaliana GN=ATC401 PE=2 SV=1

 Score = 65.9 bits (159), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 40/124 (32%), Positives = 64/124 (51%), Gaps = 4/124 (3%)

Query: 92  KADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELF 151
           +  L++ L E  R  E   A  +FN + +E  +KP L  Y+ ++  L + K       L 
Sbjct: 322 RTKLMNGLIERGRPQE---AHSIFNTLIEE-GHKPSLITYTTLVTALTRQKHFHSLLSLI 377

Query: 152 CELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENA 211
            +++K GL PDT ++  +I    + G +D+AM+ +E MK SGC P   TF  LI+     
Sbjct: 378 SKVEKNGLKPDTILFNAIINASSESGNLDQAMKIFEKMKESGCKPTASTFNTLIKGYGKI 437

Query: 212 GEEE 215
           G+ E
Sbjct: 438 GKLE 441

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	250
225434034	237	PREDICTED: pentatricopeptide repeat-cont	0.944	0.995	0.669	7e-88
296084249	242	unnamed protein product [Vitis vinifera]	0.944	0.975	0.669	8e-88
147788707	303	hypothetical protein VITISV_017782 [Viti	0.912	0.752	0.682	1e-86
224092960	241	predicted protein [Populus trichocarpa]	0.9	0.933	0.603	2e-69
255578900	244	ATP binding protein, putative [Ricinus c	0.904	0.926	0.548	1e-66
449469204	245	PREDICTED: pentatricopeptide repeat-cont	0.924	0.942	0.515	2e-63
224286190	274	unknown [Picea sitchensis]	0.8	0.729	0.527	2e-55
388510802	259	unknown [Lotus japonicus]	0.84	0.810	0.544	2e-54
357454525	246	Pentatricopeptide repeat-containing prot	0.892	0.906	0.519	3e-50
388507400	246	unknown [Medicago truncatula]	0.892	0.906	0.515	2e-49

>gi|225434034|ref|XP_002272799.1| PREDICTED: pentatricopeptide repeat-containing protein At3g46870-like [Vitis vinifera]

 Score =  329 bits (843), Expect = 7e-88,   Method: Compositional matrix adjust.
 Identities = 162/242 (66%), Positives = 190/242 (78%), Gaps = 6/242 (2%)

Query: 10  MGCLKFHFSQMGFHQRPQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQAVHA 69
           MG LKF   Q+ F Q PQ   P   KI      CGLR   +KP+WRSRVLS+EAIQ V +
Sbjct: 1   MGSLKFQLPQLRFPQNPQTHKPQFPKI-----ACGLRGGPRKPLWRSRVLSTEAIQVVQS 55

Query: 70  MKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLS 129
           +KLAKSS KLEE F SR+ RLLK+DLLDTL EL+RQ ELDL LKVF F+RKEVWYKPDLS
Sbjct: 56  LKLAKSSIKLEEVFSSRVSRLLKSDLLDTLAELQRQGELDLTLKVFEFIRKEVWYKPDLS 115

Query: 130 LYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETM 189
           LYSDMI++LGK K I MAE LF ELKKEGL+PDTRVYTEMIG YLQVGM +KAME Y  M
Sbjct: 116 LYSDMIMILGKKKLIEMAEGLFSELKKEGLEPDTRVYTEMIGAYLQVGMTEKAMEMYGLM 175

Query: 190 KASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQKH-RKTQVD 248
           KASGC P KLT TILIRNLENAGEEEL A V+++C +YV++P++FLEE+ +K+ ++  V+
Sbjct: 176 KASGCAPDKLTLTILIRNLENAGEEELAAGVKKECEEYVDYPKKFLEEIEKKYPKRRSVN 235

Query: 249 LV 250
           LV
Sbjct: 236 LV 237

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296084249|emb|CBI24637.3| unnamed protein product [Vitis vinifera]

 Score =  329 bits (843), Expect = 8e-88,   Method: Compositional matrix adjust.
 Identities = 162/242 (66%), Positives = 190/242 (78%), Gaps = 6/242 (2%)

Query: 10  MGCLKFHFSQMGFHQRPQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQAVHA 69
           MG LKF   Q+ F Q PQ   P   KI      CGLR   +KP+WRSRVLS+EAIQ V +
Sbjct: 6   MGSLKFQLPQLRFPQNPQTHKPQFPKI-----ACGLRGGPRKPLWRSRVLSTEAIQVVQS 60

Query: 70  MKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLS 129
           +KLAKSS KLEE F SR+ RLLK+DLLDTL EL+RQ ELDL LKVF F+RKEVWYKPDLS
Sbjct: 61  LKLAKSSIKLEEVFSSRVSRLLKSDLLDTLAELQRQGELDLTLKVFEFIRKEVWYKPDLS 120

Query: 130 LYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETM 189
           LYSDMI++LGK K I MAE LF ELKKEGL+PDTRVYTEMIG YLQVGM +KAME Y  M
Sbjct: 121 LYSDMIMILGKKKLIEMAEGLFSELKKEGLEPDTRVYTEMIGAYLQVGMTEKAMEMYGLM 180

Query: 190 KASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQKH-RKTQVD 248
           KASGC P KLT TILIRNLENAGEEEL A V+++C +YV++P++FLEE+ +K+ ++  V+
Sbjct: 181 KASGCAPDKLTLTILIRNLENAGEEELAAGVKKECEEYVDYPKKFLEEIEKKYPKRRSVN 240

Query: 249 LV 250
           LV
Sbjct: 241 LV 242

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147788707|emb|CAN65295.1| hypothetical protein VITISV_017782 [Vitis vinifera]

 Score =  325 bits (832), Expect = 1e-86,   Method: Compositional matrix adjust.
 Identities = 159/233 (68%), Positives = 184/233 (78%), Gaps = 5/233 (2%)

Query: 10  MGCLKFHFSQMGFHQRPQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQAVHA 69
           MG LKF   Q+ F Q PQ   P   KI      CGLR   +KP+WRSRVLS+EAIQ V +
Sbjct: 1   MGSLKFQLPQLRFPQNPQTHKPQFPKI-----ACGLRGGPRKPLWRSRVLSTEAIQVVQS 55

Query: 70  MKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLS 129
           +KLAKSS KLEE F SR+ RLLK+DLLDTL EL+RQ ELDL LKVF F+RKEVWYKPDLS
Sbjct: 56  LKLAKSSIKLEEVFSSRVSRLLKSDLLDTLAELQRQGELDLTLKVFEFIRKEVWYKPDLS 115

Query: 130 LYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETM 189
           LYSDMI++LGK K I MAE LF ELKKEGL+PDTRVYTEMIG YLQVGM +KAME Y  M
Sbjct: 116 LYSDMIMILGKKKLIEMAEGLFSELKKEGLEPDTRVYTEMIGAYLQVGMTEKAMEMYGLM 175

Query: 190 KASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQKH 242
           KASGC P KLT TILIRNLENAGEEEL A V+++C +YV++P++FLEE+ +K+
Sbjct: 176 KASGCAPDKLTLTILIRNLENAGEEELAAGVKKECEEYVDYPKKFLEEIEKKY 228

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224092960|ref|XP_002309772.1| predicted protein [Populus trichocarpa] gi|222852675|gb|EEE90222.1| predicted protein [Populus trichocarpa]

 Score =  268 bits (685), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 143/237 (60%), Positives = 180/237 (75%), Gaps = 12/237 (5%)

Query: 10  MGCLKFHFSQMGFH---QRPQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQA 66
           MG LKF   Q+GFH   Q+P +   S        +TC LR   + P+WR++ LS+EAIQ 
Sbjct: 1   MGSLKFQIPQLGFHKTLQKPHLPRSS-------VITCSLRGKPRPPLWRAKRLSTEAIQV 53

Query: 67  VHAMKLAKSSS-KLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYK 125
           + ++KLA+SS+ +LEE F S++ RLLK DLLDTL  L+ QNELDLALKVF FVRKEVWYK
Sbjct: 54  IQSLKLARSSTPRLEEVFNSKLSRLLKTDLLDTLAVLQNQNELDLALKVFEFVRKEVWYK 113

Query: 126 PDLSLYSDMILMLGKNKQIAMAEELFCELKKE-GLDPDTRVYTEMIGVYLQVGMIDKAME 184
           PD+ LY  MI M+G+NK + MAEE F +L+KE GL PDTR +TEMIG YLQVGMIDKAME
Sbjct: 114 PDILLYHAMIQMVGRNKMVEMAEEFFGKLEKEEGLKPDTRAFTEMIGAYLQVGMIDKAME 173

Query: 185 TYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQK 241
           TYE MKASGC P KLTF ILIRNLE+AG+EELV  ++++C  Y+++P++FLEEV +K
Sbjct: 174 TYERMKASGCDPDKLTFRILIRNLEDAGKEELVDRIKKECGDYMDYPKKFLEEVERK 230

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255578900|ref|XP_002530303.1| ATP binding protein, putative [Ricinus communis] gi|223530159|gb|EEF32070.1| ATP binding protein, putative [Ricinus communis]

 Score =  259 bits (661), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 130/237 (54%), Positives = 166/237 (70%), Gaps = 11/237 (4%)

Query: 10  MGCLKFHFSQMGFHQRPQ----ISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQ 65
           M  LKF F      Q P       +P     +   VTC LR   +KP+WRS+ +S+EAIQ
Sbjct: 1   MASLKFKF------QFPPPLRIFQIPKTPNFKTSFVTCSLRGGPRKPLWRSKRVSTEAIQ 54

Query: 66  AVHAMKLAKSSS-KLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWY 124
           A+ ++KLAKSS+ +L + F +++ RLLK DLLD L  L++QNELDLALKVF FV+KE+WY
Sbjct: 55  AIQSLKLAKSSNPRLHQVFNTKLSRLLKTDLLDVLEILQKQNELDLALKVFEFVQKEIWY 114

Query: 125 KPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAME 184
           KPDL+LY  MI MLGKNK   MAE  F +L+KEGL PDTR + EMIG YL+VG  +KAME
Sbjct: 115 KPDLTLYYGMIEMLGKNKMTEMAEGYFSKLEKEGLKPDTRAFNEMIGAYLKVGTTEKAME 174

Query: 185 TYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQK 241
            Y  MK SGC P KLTF ILIRNLE AG  +LV  ++++C  Y+++PE+FLEEV +K
Sbjct: 175 MYGRMKESGCVPDKLTFVILIRNLEEAGRNDLVDIIKKECGDYMDYPEKFLEEVERK 231

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449469204|ref|XP_004152311.1| PREDICTED: pentatricopeptide repeat-containing protein At3g46870-like [Cucumis sativus] gi|449484870|ref|XP_004157003.1| PREDICTED: pentatricopeptide repeat-containing protein At3g46870-like [Cucumis sativus]

 Score =  248 bits (633), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 120/233 (51%), Positives = 168/233 (72%), Gaps = 2/233 (0%)

Query: 10  MGCLKFHFSQMGFHQR-PQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQAVH 68
           +G L+ HF Q+G  Q     SL  G       + CGLR  + +P+  SRV S+EAIQAV 
Sbjct: 6   VGPLQLHFLQLGLRQNLTNRSLRCGTAAPPPNIICGLRKGSNRPLGLSRVPSNEAIQAVQ 65

Query: 69  AMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDL 128
           ++KLAKS+SK+E+   +++ RLLKADL D L+EL+RQNEL+L+L+VF F++ E W++PDL
Sbjct: 66  SLKLAKSTSKMEDVINTKLGRLLKADLFDALSELQRQNELELSLQVFKFMQNEEWFEPDL 125

Query: 129 SLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYET 188
            LY  MI+++GKNK I MAEE+F +L+K+GL+PDTR + EM+G YLQV MI++A+ETY  
Sbjct: 126 RLYHGMIMLMGKNKMIEMAEEVFHKLRKDGLEPDTRAFNEMMGAYLQVDMIERAVETYRL 185

Query: 189 MKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQK 241
           M ASGCTP +LTF ILI+NLE    EE    V++DC +Y++ P++F  +  QK
Sbjct: 186 MIASGCTPDELTFKILIKNLEKF-REEFAVVVKKDCNEYLDNPQKFFNDNGQK 237

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224286190|gb|ACN40805.1| unknown [Picea sitchensis]

 Score =  221 bits (564), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 107/203 (52%), Positives = 147/203 (72%), Gaps = 3/203 (1%)

Query: 42  TCGLRDA--NKKPMWRSRVLSSEAIQAVHAMKLAKSSS-KLEEGFQSRICRLLKADLLDT 98
            C +RD   N+ P+WR R+LS+EAIQAV A++ AK    +LE+ F ++I RLLK DLL  
Sbjct: 68  VCNMRDKGQNRGPLWRGRILSTEAIQAVQALRRAKGDPQRLEKAFATKIPRLLKKDLLAV 127

Query: 99  LTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEG 158
           L EL+RQ++ DLAL+VF  VRKE+WY+P+LSL++DMI+MLG+NK+I   E +  EL+KEG
Sbjct: 128 LQELQRQDQCDLALQVFKAVRKEMWYRPNLSLHADMIMMLGRNKRIEEVEAVLLELQKEG 187

Query: 159 LDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVA 218
           L PDTRV TE+IG ++ VGM+  AMET+E MK + C P K TFT+LI+ L+  GE +L  
Sbjct: 188 LRPDTRVCTEIIGAFIHVGMVQNAMETFELMKQTDCHPDKSTFTVLIQGLQRLGEIDLAT 247

Query: 219 AVRRDCIQYVEFPERFLEEVYQK 241
           AVR   +QY++ P    E+V Q+
Sbjct: 248 AVREQSVQYLDEPLEIFEDVSQE 270

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388510802|gb|AFK43467.1| unknown [Lotus japonicus]

 Score =  218 bits (555), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 116/213 (54%), Positives = 161/213 (75%), Gaps = 3/213 (1%)

Query: 40  TVTCGLRDANKKPMWRSRVLSSEAIQAVHAMKLAKSS-SKLEEGFQSRICRLLKADLLDT 98
            + CGLR + +K    SRV+S E IQ +HA+KLAKSS  KL +    ++ RLL AD LD 
Sbjct: 48  VIVCGLRASFRK-RRPSRVISKEGIQVIHALKLAKSSEQKLYQVLNEKLTRLLNADALDL 106

Query: 99  LTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEG 158
           L EL+RQNEL L+LKVFNF+R+E  +   L LYSDMIL+LG+NK +  AEELF ++ ++G
Sbjct: 107 LGELQRQNELHLSLKVFNFLREEPGFDALLPLYSDMILLLGRNKMVGEAEELFSQVVEKG 166

Query: 159 LDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVA 218
           L PDTR++TEMIGVYLQ G  +KAME Y +MKASGC+P KLTFTILIR+LE +GE+ELV 
Sbjct: 167 LKPDTRMFTEMIGVYLQGGNTEKAMELYRSMKASGCSPDKLTFTILIRSLEKSGEQELVE 226

Query: 219 AVRRDCIQYVEFPERFLEEVYQKH-RKTQVDLV 250
            ++++C+ Y++ P++F++++ QK  ++  V+LV
Sbjct: 227 TLKQECVDYIDLPDKFIQQIEQKQVKEGHVNLV 259

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357454525|ref|XP_003597543.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355486591|gb|AES67794.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  204 bits (519), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 120/231 (51%), Positives = 161/231 (69%), Gaps = 8/231 (3%)

Query: 26  PQISLPSGKKIQALTVTCGLRDA-NKKPMWRSRVLSSEAIQAVHAMKLAKSSS-KLEEGF 83
           P ++  +  + +A TV CGLR   NKKP   S V+S E++Q +HA+KLAK+S  KL +  
Sbjct: 17  PPLNSTTNNRSKATTVVCGLRSCKNKKP--PSMVISKESVQVIHALKLAKNSEEKLNQVL 74

Query: 84  QSRICRLLKADLLDTLTELRRQNELDLALKVFNFV--RKEVWY-KPDLSLYSDMILMLGK 140
           +S++ RLLK D+L  L EL RQN+L L+LKV  F+   +E  Y K  L LYSD IL+LGK
Sbjct: 75  KSKLLRLLKPDVLIVLAELHRQNQLHLSLKVLEFIISDEEAGYDKLLLPLYSDTILLLGK 134

Query: 141 NKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLT 200
           NK I  AEE+F E+ ++GL PDTR++ EMIGVYLQVG  +KAME Y +MKASGC P  LT
Sbjct: 135 NKMIEKAEEMFYEVVEKGLKPDTRLFNEMIGVYLQVGNTEKAMEVYRSMKASGCLPDALT 194

Query: 201 FTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQKH-RKTQVDLV 250
           FTILIRNL N GE ELV  ++++   YV  P++F+++V  KH +K  ++LV
Sbjct: 195 FTILIRNLMNNGENELVETLKKESFDYVNKPDKFVQKVQLKHPKKRHINLV 245

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388507400|gb|AFK41766.1| unknown [Medicago truncatula]

 Score =  201 bits (512), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 119/231 (51%), Positives = 161/231 (69%), Gaps = 8/231 (3%)

Query: 26  PQISLPSGKKIQALTVTCGLRDA-NKKPMWRSRVLSSEAIQAVHAMKLAKSSS-KLEEGF 83
           P ++  +  + +A TV CGLR   NKKP   S V+S E++Q +HA+KLAK+S  KL +  
Sbjct: 17  PPLNSTTNNRSKATTVVCGLRSCKNKKP--PSMVISKESVQVIHALKLAKNSEEKLNQVL 74

Query: 84  QSRICRLLKADLLDTLTELRRQNELDLALKVFNFV--RKEVWY-KPDLSLYSDMILMLGK 140
           +S++ RLLK D+L  L EL RQN+L L+LKV  F+   +E  Y K  L LYSD IL+LGK
Sbjct: 75  KSKLLRLLKPDVLIVLAELHRQNQLHLSLKVLEFIISDEEAGYDKLLLPLYSDTILLLGK 134

Query: 141 NKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLT 200
           NK I  AEE+F E+ ++GL PDTR++ EMIGVYLQVG  +KAME Y +MKASGC P  LT
Sbjct: 135 NKMIEKAEEMFYEVVEKGLKPDTRLFNEMIGVYLQVGNTEKAMEVYRSMKASGCLPDALT 194

Query: 201 FTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQKH-RKTQVDLV 250
           FTILIRNL N GE ELV  ++++   YV  P++F+++V  K+ +K  ++LV
Sbjct: 195 FTILIRNLMNNGENELVETLKKESFDYVNKPDKFVQKVQLKNPKKRHINLV 245

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	250
TAIR|locus:2184727	712	VPS9B "AT5G09320" [Arabidopsis	0.804	0.282	0.362	2.6e-27
TAIR|locus:2102832	257	AT3G46870 [Arabidopsis thalian	0.628	0.610	0.377	5.2e-26
TAIR|locus:2027149	196	AT1G62350 "AT1G62350" [Arabido	0.676	0.862	0.321	3.9e-21
TAIR|locus:2089154	222	EMB3123 "EMBRYO DEFECTIVE 3123	0.704	0.792	0.298	2.6e-15
TAIR|locus:2122561	563	EMB2453 "EMBRYO DEFECTIVE 2453	0.792	0.351	0.273	1.8e-14
TAIR|locus:2081041	486	PPR2 "pentatricopeptide repeat	0.568	0.292	0.272	2.9e-14
TAIR|locus:2093472	642	AT3G16010 [Arabidopsis thalian	0.684	0.266	0.257	3.5e-13
TAIR|locus:2167898	982	AT5G62370 [Arabidopsis thalian	0.476	0.121	0.316	1.4e-09
TAIR|locus:1005716169	831	AT5G21222 [Arabidopsis thalian	0.48	0.144	0.322	2.8e-09
TAIR|locus:2164300	1030	AT5G06400 "AT5G06400" [Arabido	0.468	0.113	0.290	3.7e-09

TAIR|locus:2184727 VPS9B "AT5G09320" [Arabidopsis thaliana (taxid:3702)]

 Score = 315 (115.9 bits), Expect = 2.6e-27, P = 2.6e-27
 Identities = 79/218 (36%), Positives = 117/218 (53%)

Query:    37 QALTVTCGLRDANKKPMWRSRVLSSEAIQAVHAMKLAK----------------SSSKLE 80
             +A+ +    R  N+KP+ R R+LS EAIQAV A+K A                 SS+ L+
Sbjct:   483 RAMVIKMRDRSKNRKPLQRGRMLSIEAIQAVQALKRANPLLPPPPVPSTSTTSSSSALLD 542

Query:    81 EGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK 140
                 S+  RLLK D++  L EL RQNE  LALKVF  +RKE WYKP + +Y+DMI ++  
Sbjct:   543 RVIISKFRRLLKFDMVAVLRELLRQNECSLALKVFEEIRKEYWYKPQVRMYTDMITVMAD 602

Query:   141 NKQIAMAEELFCELKKE-GLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKL 199
             N  +     L+  +K E GL  +   +  ++ + L   + D  M+ Y  M++ G  P + 
Sbjct:   603 NSLMEEVNYLYSAMKSEKGLMAEIEWFNTLLTILLNHKLFDLVMDCYAFMQSIGYEPDRA 662

Query:   200 TFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEE 237
             +F +L+  LE+ GE  L A VR+D  +Y      F+EE
Sbjct:   663 SFRVLVLGLESNGEMGLSAIVRQDAHEYYGESLEFIEE 700

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0006810 "transport" evidence=ISS

TAIR|locus:2102832 AT3G46870 [Arabidopsis thaliana (taxid:3702)]

 Score = 294 (108.6 bits), Expect = 5.2e-26, P = 5.2e-26
 Identities = 60/159 (37%), Positives = 100/159 (62%)

Query:    52 PMWRSR-VLSSEAIQAVHAMK-LAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELD 109
             P+WR + ++  EA+  +  +K L +   KL++  ++ + RLLK D+L  + EL RQ E  
Sbjct:    65 PLWRGKKLIGKEALFVILGLKRLKEDDEKLDKFIKTHVFRLLKLDMLAVIGELERQEETA 124

Query:   110 LALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEM 169
             LA+K+F  ++K+ WY+PD+ +Y D+I+ L K+K++  A  L+ ++KKE L PD++ YTE+
Sbjct:   125 LAIKMFEVIQKQEWYQPDVFMYKDLIVSLAKSKRMDEAMALWEKMKKENLFPDSQTYTEV 184

Query:   170 IGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNL 208
             I  +L+ G    AM  YE M  S   P +L F +L++ L
Sbjct:   185 IRGFLRDGCPADAMNVYEDMLKSPDPPEELPFRVLLKGL 223

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=IDA

GO:0008270 "zinc ion binding" evidence=IDA

TAIR|locus:2027149 AT1G62350 "AT1G62350" [Arabidopsis thaliana (taxid:3702)]

 Score = 248 (92.4 bits), Expect = 3.9e-21, P = 3.9e-21
 Identities = 56/174 (32%), Positives = 100/174 (57%)

Query:    59 LSSEAIQAVHAMK-LAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNF 117
             +S E + A   +K L   S +L+    S + RLLK+DL+  L E +RQN++ L +K++  
Sbjct:     1 MSKEGLIAAKELKRLQTQSVRLDRFIGSHVSRLLKSDLVSVLAEFQRQNQVFLCMKLYEV 60

Query:   118 VRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG 177
             VR+E+WY+PD+  Y DM++ML +NK++   ++++ +LKKE +  D   + +++  +L   
Sbjct:    61 VRREIWYRPDMFFYRDMLMMLARNKKVDETKKVWEDLKKEEVLFDQHTFGDLVRGFLDNE 120

Query:   178 MIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFP 231
             +  +AM  Y  M+ S   P  L F ++++ L      EL   V+ D ++   FP
Sbjct:   121 LPLEAMRLYGEMRESPDRPLSLPFRVILKGL--VPYPELREKVKDDFLEL--FP 170

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2089154 EMB3123 "EMBRYO DEFECTIVE 3123" [Arabidopsis thaliana (taxid:3702)]

 Score = 193 (73.0 bits), Expect = 2.6e-15, P = 2.6e-15
 Identities = 57/191 (29%), Positives = 101/191 (52%)

Query:    39 LTVTCGLRDANKKPMWRSRVLSSEAIQAVHAMKLA-KSSSKLEEGFQSRICRLLKADLLD 97
             +++ CG RD N+ P+ + R+LS+EAIQ++ ++K A ++   L    +  + RL+K+DL+ 
Sbjct:    29 VSIRCGPRD-NRGPLLKGRILSTEAIQSIQSLKRAHRTGVSLSLTLRP-LRRLIKSDLIS 86

Query:    98 TLTELRRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMILMLGKNKQIAMAEELFCELKK 156
              L EL RQ+   LA+ V + +R E  Y P DL LY+D++  L +NK+    + L  E+  
Sbjct:    87 VLRELLRQDYCTLAVHVLSTLRTE--YPPLDLVLYADIVNALTRNKEFDEIDRLIGEI-- 142

Query:   157 EGLDP--DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPH-----KLTFTILIRNLE 209
             +G+D   D +   ++I   +     +  +  Y  M+ SG         +    +L + L 
Sbjct:   143 DGIDQRSDDKALAKLIRAVVGAERRESVVRVYTLMRESGWGSESWEADEYVAEVLSKGLL 202

Query:   210 NAGEEELVAAV 220
               GE +L + V
Sbjct:   203 RLGEPDLASQV 213

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0000373 "Group II intron splicing" evidence=IMP

GO:0003723 "RNA binding" evidence=IDA

GO:0009658 "chloroplast organization" evidence=IMP

TAIR|locus:2122561 EMB2453 "EMBRYO DEFECTIVE 2453" [Arabidopsis thaliana (taxid:3702)]

 Score = 194 (73.4 bits), Expect = 1.8e-14, P = 1.8e-14
 Identities = 56/205 (27%), Positives = 96/205 (46%)

Query:    25 RPQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQAVHAMKLAKSSSKLEEGFQ 84
             R  ++L   ++     +TCG   + +K   R        +     M        L +   
Sbjct:    30 RFSVNLGDARRSTRTRITCGAISSRRKLAERESAERENRVLVRSLMSRISDREPLVKTLD 89

Query:    85 SRICRLLKADLLDTL-TELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQ 143
               + ++++ D    L  EL + ++    L+VF +++K+ WY PD  +YS +I ++GK  Q
Sbjct:    90 KYV-KVVRCDHCFLLFEELGKSDKWLQCLEVFRWMQKQRWYIPDNGVYSKLISVMGKKGQ 148

Query:   144 IAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMET---Y-ETMKA-SGCTPHK 198
               MA  LF E+K  G  PD  VY  +I  +L      KA+E    Y + MK    C P+ 
Sbjct:   149 TRMAMWLFSEMKNSGCRPDASVYNALITAHLHTRDKAKALEKVRGYLDKMKGIERCQPNV 208

Query:   199 LTFTILIRNLENAGEEELVAAVRRD 223
             +T+ IL+R    +G+ + V A+ +D
Sbjct:   209 VTYNILLRAFAQSGKVDQVNALFKD 233

GO:0009507 "chloroplast" evidence=ISM

GO:0009793 "embryo development ending in seed dormancy" evidence=IMP;NAS

TAIR|locus:2081041 PPR2 "pentatricopeptide repeat 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 191 (72.3 bits), Expect = 2.9e-14, P = 2.9e-14
 Identities = 39/143 (27%), Positives = 83/143 (58%)

Query:    97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKK 156
             +TL++L  + +   AL+VF+ +R++ +Y+P    Y  ++++LGK+ Q   A++LF E+ +
Sbjct:    93 ETLSDLIAKKQWLQALEVFDMLREQTFYQPKEGTYMKLLVLLGKSGQPNRAQKLFDEMLE 152

Query:   157 EGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKA-SGCTPHKLTFTILIRNLENAGEEE 215
             EGL+P   +YT ++  Y +  +ID A    + MK+   C P   T++ L++   +A + +
Sbjct:   153 EGLEPTVELYTALLAAYTRSNLIDDAFSILDKMKSFPQCQPDVFTYSTLLKACVDASQFD 212

Query:   216 LVAAVRRDCIQYVEFPERFLEEV 238
             LV ++ ++  + +  P    + +
Sbjct:   213 LVDSLYKEMDERLITPNTVTQNI 235

GO:0005739 "mitochondrion" evidence=ISM

GO:0009793 "embryo development ending in seed dormancy" evidence=NAS

GO:0048868 "pollen tube development" evidence=IMP

GO:0009507 "chloroplast" evidence=IDA

GO:0009553 "embryo sac development" evidence=IMP

GO:0009555 "pollen development" evidence=IMP

GO:0009790 "embryo development" evidence=IMP

GO:0019843 "rRNA binding" evidence=IDA

TAIR|locus:2093472 AT3G16010 [Arabidopsis thaliana (taxid:3702)]

 Score = 183 (69.5 bits), Expect = 3.5e-13, P = 3.5e-13
 Identities = 44/171 (25%), Positives = 85/171 (49%)

Query:    56 SRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVF 115
             S  + SE ++A+   K+   +  +    + R C+   +     +  L ++ + +   +V+
Sbjct:   161 SPAVLSELVKALGRAKMVSKALSVFYQAKGRKCKPTSSTYNSVILMLMQEGQHEKVHEVY 220

Query:   116 NFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQ 175
               +  E    PD   YS +I    K  +   A  LF E+K   + P  ++YT ++G+Y +
Sbjct:   221 TEMCNEGDCFPDTITYSALISSYEKLGRNDSAIRLFDEMKDNCMQPTEKIYTTLLGIYFK 280

Query:   176 VGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQ 226
             VG ++KA++ +E MK +GC+P   T+T LI+ L  AG  +      +D ++
Sbjct:   281 VGKVEKALDLFEEMKRAGCSPTVYTYTELIKGLGKAGRVDEAYGFYKDMLR 331

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2167898 AT5G62370 [Arabidopsis thaliana (taxid:3702)]

 Score = 165 (63.1 bits), Expect = 1.4e-09, P = 1.4e-09
 Identities = 38/120 (31%), Positives = 63/120 (52%)

Query:    96 LDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELK 155
             L  + EL ++N+ D A  + + + +E+  +P +++YS +I  LGK  ++  AEE F ++ 
Sbjct:   551 LIVVNELCKKNDRDAAFAIIDAM-EELGLRPTVAIYSSIIGSLGKQGRVVEAEETFAKML 609

Query:   156 KEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEE 215
             + G+ PD   Y  MI  Y + G ID+A E  E +      P   T+T+LI      G  E
Sbjct:   610 ESGIQPDEIAYMIMINTYARNGRIDEANELVEEVVKHFLRPSSFTYTVLISGFVKMGMME 669

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:1005716169 AT5G21222 [Arabidopsis thaliana (taxid:3702)]

 Score = 162 (62.1 bits), Expect = 2.8e-09, P = 2.8e-09
 Identities = 40/124 (32%), Positives = 64/124 (51%)

Query:    92 KADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELF 151
             +  L++ L E  R  E   A  +FN + +E  +KP L  Y+ ++  L + K       L 
Sbjct:   322 RTKLMNGLIERGRPQE---AHSIFNTLIEE-GHKPSLITYTTLVTALTRQKHFHSLLSLI 377

Query:   152 CELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENA 211
              +++K GL PDT ++  +I    + G +D+AM+ +E MK SGC P   TF  LI+     
Sbjct:   378 SKVEKNGLKPDTILFNAIINASSESGNLDQAMKIFEKMKESGCKPTASTFNTLIKGYGKI 437

Query:   212 GEEE 215
             G+ E
Sbjct:   438 GKLE 441

GO:0004672 "protein kinase activity" evidence=IEA;ISS

GO:0004674 "protein serine/threonine kinase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0006468 "protein phosphorylation" evidence=IEA

GO:0016772 "transferase activity, transferring phosphorus-containing groups" evidence=IEA

TAIR|locus:2164300 AT5G06400 "AT5G06400" [Arabidopsis thaliana (taxid:3702)]

 Score = 162 (62.1 bits), Expect = 3.7e-09, P = 3.7e-09
 Identities = 34/117 (29%), Positives = 66/117 (56%)

Query:   110 LALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEM 169
             LA++ FN+V+++  +   + +Y+ M+ + G+ + + M +EL  E++K G D D R +T +
Sbjct:   171 LAMRFFNWVKQKDGFSHRVGIYNTMLSIAGEARNLDMVDELVSEMEKNGCDKDIRTWTIL 230

Query:   170 IGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQ 226
             I VY +   I K +  +E M+ SG       + I+IR+L  AG  +L     ++ ++
Sbjct:   231 ISVYGKAKKIGKGLLVFEKMRKSGFELDATAYNIMIRSLCIAGRGDLALEFYKEMME 287

GO:0003674 "molecular_function" evidence=ND

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

Your Input: GSVIVG00034615001 SubName- Full=Chromosome chr5 scaffold_72, whole genome shotgun sequence; (242 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	250
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.004

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

 Score = 52.8 bits (128), Expect = 9e-10
 Identities = 16/48 (33%), Positives = 27/48 (56%)

Query: 161 PDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNL 208
           PD   Y  +I  Y + G +++A++ +  MK  G  P+  T++ILI  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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 46.8 bits (111), Expect = 5e-06
 Identities = 28/103 (27%), Positives = 49/103 (47%), Gaps = 3/103 (2%)

Query: 107 ELDLALKVF-NFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRV 165
           + D AL ++ +  +K V  KPD   +S ++ + G    +  A E+  + +K+G+   T  
Sbjct: 629 DWDFALSIYDDMKKKGV--KPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVS 686

Query: 166 YTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNL 208
           Y+ ++G         KA+E YE +K+    P   T   LI  L
Sbjct: 687 YSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITAL 729

Length = 1060

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

 Score = 40.9 bits (97), Expect = 2e-05
 Identities = 15/45 (33%), Positives = 26/45 (57%)

Query: 126 PDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMI 170
           PD+  Y+ +I    K  ++  A +LF E+KK G+ P+   Y+ +I
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILI 45

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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 42.6 bits (100), Expect = 1e-04
 Identities = 30/122 (24%), Positives = 52/122 (42%), Gaps = 5/122 (4%)

Query: 108 LDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYT 167
           LD A ++    RK+   K     YS ++      K    A EL+ ++K   L P      
Sbjct: 665 LDKAFEILQDARKQ-GIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMN 723

Query: 168 EMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEE----LVAAVRRD 223
            +I    +   + KA+E    MK  G  P+ +T++IL+   E   + +    L++  + D
Sbjct: 724 ALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKED 783

Query: 224 CI 225
            I
Sbjct: 784 GI 785

Length = 1060

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 42.2 bits (99), Expect = 2e-04
 Identities = 37/144 (25%), Positives = 64/144 (44%), Gaps = 9/144 (6%)

Query: 68  HA--MKLAKSSSKLEEGFQSRICRLLKADLLDTLTELR----RQNELDLALKVFNFVRKE 121
           HA   K  K    ++E F  R  +L++   L T   L        ++D AL+V   V +E
Sbjct: 409 HAKFFKACKKQRAVKEAF--RFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLV-QE 465

Query: 122 VWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDK 181
              K D  LY+ +I    K+ ++    E+F E+   G++ +   +  +I    + G + K
Sbjct: 466 AGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAK 525

Query: 182 AMETYETMKASGCTPHKLTFTILI 205
           A   Y  M++    P ++ F  LI
Sbjct: 526 AFGAYGIMRSKNVKPDRVVFNALI 549

Length = 1060

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 35.5 bits (83), Expect = 0.001
 Identities = 9/33 (27%), Positives = 17/33 (51%)

Query: 164 RVYTEMIGVYLQVGMIDKAMETYETMKASGCTP 196
             Y  +I    + G +++A+E ++ MK  G  P
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. 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. Length = 35

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

 Score = 37.9 bits (88), Expect = 0.004
 Identities = 22/77 (28%), Positives = 40/77 (51%), Gaps = 4/77 (5%)

Query: 124 YKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAM 183
           +  D+S+ + +I M         AE++F  ++ +    D   +T MI  Y + G+ DKA+
Sbjct: 319 FAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKAL 374

Query: 184 ETYETMKASGCTPHKLT 200
           ETY  M+    +P ++T
Sbjct: 375 ETYALMEQDNVSPDEIT 391

Length = 857

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	250
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;	99.97
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.97
PLN03077	857	Protein ECB2; Provisional	99.97
PLN03077	857	Protein ECB2; Provisional	99.96
PF13041	50	PPR_2: PPR repeat family	99.67
PF13041	50	PPR_2: PPR repeat family	99.65
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.39
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.34
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.26
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.22
PF12854	34	PPR_1: PPR repeat	99.21
PF12854	34	PPR_1: PPR repeat	99.17
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.07
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.06
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.98
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.92
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.8
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.79
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.75
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.71
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.71
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.64
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.62
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.61
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.57
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.56
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.54
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.54
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.52
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.52
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.52
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.51
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.51
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.5
PRK12370	553	invasion protein regulator; Provisional	98.48
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.45
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.44
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	98.41
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.35
PRK12370	553	invasion protein regulator; Provisional	98.35
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.33
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.33
PRK14574	822	hmsH outer membrane protein; Provisional	98.33
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.29
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.27
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.26
PRK14574	822	hmsH outer membrane protein; Provisional	98.24
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	98.23
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	98.21
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.2
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.19
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	98.17
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	98.17
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.17
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.15
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.11
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.09
KOG1129	478	consensus TPR repeat-containing protein [General f	98.07
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.04
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.03
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	98.03
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.02
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.0
PRK11189	296	lipoprotein NlpI; Provisional	97.96
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	97.9
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.9
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.89
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.89
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.86
KOG1129	478	consensus TPR repeat-containing protein [General f	97.85
PRK11189	296	lipoprotein NlpI; Provisional	97.83
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.83
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.79
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.78
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.77
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.77
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.76
PRK15359	144	type III secretion system chaperone protein SscB;	97.75
PRK15359	144	type III secretion system chaperone protein SscB;	97.75
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	97.73
KOG1126	638	consensus DNA-binding cell division cycle control	97.7
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.69
KOG2003	840	consensus TPR repeat-containing protein [General f	97.68
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.65
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	97.64
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.61
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	97.61
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	97.61
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.6
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.6
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.58
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.55
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.51
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	97.51
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.5
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.49
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.47
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.42
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.41
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.39
KOG1126	638	consensus DNA-binding cell division cycle control	97.36
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.36
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.34
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.33
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	97.32
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.3
KOG1915	677	consensus Cell cycle control protein (crooked neck	97.3
KOG2003	840	consensus TPR repeat-containing protein [General f	97.26
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	97.25
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.24
KOG1915	677	consensus Cell cycle control protein (crooked neck	97.22
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.2
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.19
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.17
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	97.17
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.13
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.13
KOG3941	406	consensus Intermediate in Toll signal transduction	97.1
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.09
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	97.05
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	97.04
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.98
KOG2076	895	consensus RNA polymerase III transcription factor	96.96
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	96.96
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.94
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.91
KOG0547	606	consensus Translocase of outer mitochondrial membr	96.91
PF12688	120	TPR_5: Tetratrico peptide repeat	96.9
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	96.9
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.85
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	96.8
KOG2076	895	consensus RNA polymerase III transcription factor	96.78
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	96.75
PRK10803	263	tol-pal system protein YbgF; Provisional	96.72
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.69
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	96.68
KOG2376	652	consensus Signal recognition particle, subunit Srp	96.63
PRK14720	906	transcript cleavage factor/unknown domain fusion p	96.59
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.58
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.56
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.54
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.53
KOG3941	406	consensus Intermediate in Toll signal transduction	96.52
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.43
KOG3616	1636	consensus Selective LIM binding factor [Transcript	96.39
KOG1128	777	consensus Uncharacterized conserved protein, conta	96.38
KOG3785	557	consensus Uncharacterized conserved protein [Funct	96.37
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.34
PRK14720	906	transcript cleavage factor/unknown domain fusion p	96.34
KOG0547	606	consensus Translocase of outer mitochondrial membr	96.25
PF12688	120	TPR_5: Tetratrico peptide repeat	96.24
KOG3785	557	consensus Uncharacterized conserved protein [Funct	96.24
KOG4340	459	consensus Uncharacterized conserved protein [Funct	96.12
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.11
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	96.1
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	96.09
KOG4570	418	consensus Uncharacterized conserved protein [Funct	95.97
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.97
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.9
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	95.87
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	95.86
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	95.85
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	95.78
PRK04841	903	transcriptional regulator MalT; Provisional	95.76
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.76
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.75
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	95.72
KOG2376	652	consensus Signal recognition particle, subunit Srp	95.62
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.56
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	95.52
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	95.51
KOG1125	579	consensus TPR repeat-containing protein [General f	95.49
PF13371	73	TPR_9: Tetratricopeptide repeat	95.46
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	95.41
PLN02789	320	farnesyltranstransferase	95.31
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.3
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.26
KOG0495	913	consensus HAT repeat protein [RNA processing and m	95.16
PRK10803	263	tol-pal system protein YbgF; Provisional	95.11
KOG2047	835	consensus mRNA splicing factor [RNA processing and	95.08
KOG4340	459	consensus Uncharacterized conserved protein [Funct	94.98
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.66
PF13371	73	TPR_9: Tetratricopeptide repeat	94.65
KOG1128	777	consensus Uncharacterized conserved protein, conta	94.62
KOG0553	304	consensus TPR repeat-containing protein [General f	94.55
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.47
KOG3060	289	consensus Uncharacterized conserved protein [Funct	94.43
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	94.32
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.3
PF13762	145	MNE1: Mitochondrial splicing apparatus component	94.28
KOG2047	835	consensus mRNA splicing factor [RNA processing and	94.23
KOG1125	579	consensus TPR repeat-containing protein [General f	94.12
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	94.05
KOG2796	366	consensus Uncharacterized conserved protein [Funct	93.92
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.86
KOG0553	304	consensus TPR repeat-containing protein [General f	93.8
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	93.65
PRK04841	903	transcriptional regulator MalT; Provisional	93.6
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	93.31
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.24
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	93.1
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	93.07
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	92.84
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	92.47
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	92.36
COG3629	280	DnrI DNA-binding transcriptional activator of the	92.15
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	91.79
PLN02789	320	farnesyltranstransferase	91.78
PF13929	292	mRNA_stabil: mRNA stabilisation	91.73
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	91.73
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	91.7
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.68
KOG0495	913	consensus HAT repeat protein [RNA processing and m	91.22
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	91.21
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	91.09
PF11838	324	ERAP1_C: ERAP1-like C-terminal domain; InterPro: I	90.95
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	90.86
PF13512	142	TPR_18: Tetratricopeptide repeat	90.48
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	90.34
smart00299	140	CLH Clathrin heavy chain repeat homology.	90.23
PF13929	292	mRNA_stabil: mRNA stabilisation	89.96
PRK15331	165	chaperone protein SicA; Provisional	89.92
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	89.65
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	89.56
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	89.54
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	89.46
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	89.43
COG3898	531	Uncharacterized membrane-bound protein [Function u	89.39
COG4700	251	Uncharacterized protein conserved in bacteria cont	89.35
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	89.25
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	89.2
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	89.16
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	89.1
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	88.86
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	88.8
PF13512	142	TPR_18: Tetratricopeptide repeat	88.75
KOG1585	308	consensus Protein required for fusion of vesicles	88.75
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	88.72
KOG4555	175	consensus TPR repeat-containing protein [Function	88.52
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	87.97
PLN03025	319	replication factor C subunit; Provisional	87.63
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	87.32
KOG0687	393	consensus 26S proteasome regulatory complex, subun	87.16
PRK15331	165	chaperone protein SicA; Provisional	87.11
COG3947	361	Response regulator containing CheY-like receiver a	87.04
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	86.8
PF13428	44	TPR_14: Tetratricopeptide repeat	86.71
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	86.54
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	86.49
COG4105	254	ComL DNA uptake lipoprotein [General function pred	86.18
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	86.13
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	86.13
PF13428	44	TPR_14: Tetratricopeptide repeat	85.65
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	85.14
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	84.77
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	84.72
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	84.58
KOG2796	366	consensus Uncharacterized conserved protein [Funct	84.51
PF08542	89	Rep_fac_C: Replication factor C C-terminal domain;	84.23
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	84.19
PF11817	247	Foie-gras_1: Foie gras liver health family 1; Inte	83.79
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	83.78
PF10475	291	DUF2450: Protein of unknown function N-terminal do	83.49
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	83.36
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	82.73
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	82.7
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	82.37
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	82.33
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	82.19
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	81.85
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	81.69
KOG2610	491	consensus Uncharacterized conserved protein [Funct	81.6
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	81.34
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	80.73
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	80.69
KOG2041	1189	consensus WD40 repeat protein [General function pr	80.61
PF02847	113	MA3: MA3 domain; InterPro: IPR003891 This entry re	80.15

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.7e-32  Score=256.39  Aligned_cols=172  Identities=16%  Similarity=0.265  Sum_probs=110.0

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcCcccHH---HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcC
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLLKADLL---DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKN  141 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~---~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~  141 (250)
                      .+|.+|++.|++++|.++|++|.+.|+.||..   ++|.+|++.|++++|.++|++|. +.|+.||..|||+||++|++.
T Consensus       477 sLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~-~~Gv~PD~vTYnsLI~a~~k~  555 (1060)
T PLN03218        477 TLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMR-SKNVKPDRVVFNALISACGQS  555 (1060)
T ss_pred             HHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHHC
Confidence            34666666666666666666666666666555   46666666666666666666665 366666666666666666666


Q ss_pred             CCHHHHHHHHHHHHh--CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 025612          142 KQIAMAEELFCELKK--EGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAA  219 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~--~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~  219 (250)
                      |++++|.++|++|..  .|+.||.+|||+||.+|++.|++++|.++|++|.+.|+.|+..+|+++|.+|++.|++++|.+
T Consensus       556 G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~  635 (1060)
T PLN03218        556 GAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALS  635 (1060)
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHH
Confidence            666666666666654  456666666666666666666666666666666666666666666666666666666666666


Q ss_pred             HHHHHHhccCCchHHHHH
Q 025612          220 VRRDCIQYVEFPERFLEE  237 (250)
Q Consensus       220 ~~~~m~~~g~~pd~~~~~  237 (250)
                      +|++|.+.|+.||..+|.
T Consensus       636 lf~eM~~~Gv~PD~~Tyn  653 (1060)
T PLN03218        636 IYDDMKKKGVKPDEVFFS  653 (1060)
T ss_pred             HHHHHHHcCCCCCHHHHH
Confidence            666666666666655554

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.2e-32  Score=255.57  Aligned_cols=208  Identities=17%  Similarity=0.148  Sum_probs=158.6

Q ss_pred             CCCCCCccceeeeeccccCCCccc---ccc--CCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH---HHHHH
Q 025612           30 LPSGKKIQALTVTCGLRDANKKPM---WRS--RVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL---DTLTE  101 (250)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~~~~~~l---~~~--~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~---~ll~~  101 (250)
                      ...++.++..+..+|..+.+.+.+   ...  ......+..++.+|++.|++++|.++|++|.+.|+.||..   ++|++
T Consensus       579 ~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a  658 (1060)
T PLN03218        579 HITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDV  658 (1060)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            345566666666666655444311   111  1122333445888888888888888888888888888765   58888


Q ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHH
Q 025612          102 LRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDK  181 (250)
Q Consensus       102 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~  181 (250)
                      |++.|++++|.++|++|.+ .|+.||..+||+||.+|++.|++++|.++|++|.+.|+.||..|||+||.+|++.|++++
T Consensus       659 ~~k~G~~eeA~~l~~eM~k-~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~ee  737 (1060)
T PLN03218        659 AGHAGDLDKAFEILQDARK-QGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPK  737 (1060)
T ss_pred             HHhCCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHH
Confidence            8888888888888888864 788888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCchHHHHHH
Q 025612          182 AMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEV  238 (250)
Q Consensus       182 a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~~~~~  238 (250)
                      |.++|++|...|+.||..||+++|.+|++.|+++.|.+++++|.+.|+.||..+|..
T Consensus       738 Alelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tyns  794 (1060)
T PLN03218        738 ALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRC  794 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            888888888888888888888888888888888888888888888888888766653

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

Probab=99.97  E-value=8.5e-32  Score=246.90  Aligned_cols=203  Identities=14%  Similarity=0.120  Sum_probs=181.2

Q ss_pred             cCCCCCCCccceeeeeccccCCCc---cccccCCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH---HHHHH
Q 025612           28 ISLPSGKKIQALTVTCGLRDANKK---PMWRSRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL---DTLTE  101 (250)
Q Consensus        28 ~~~~~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~---~ll~~  101 (250)
                      .+...++.+...+..||..+.+.+   .+......+|+++  +.+|++.|++++|.++|++|.+.|+.||..   +++.+
T Consensus       257 ~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~l--i~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a  334 (697)
T PLN03081        257 GDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSM--LAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRI  334 (697)
T ss_pred             ccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHH--HHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            455667888888889988876665   3444566666665  999999999999999999999999999877   69999


Q ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHH
Q 025612          102 LRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDK  181 (250)
Q Consensus       102 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~  181 (250)
                      |++.|++++|.+++..|.+ .|+.||..+||+||++|+++|++++|.++|++|.+    ||..|||+||.+|++.|+.++
T Consensus       335 ~~~~g~~~~a~~i~~~m~~-~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~  409 (697)
T PLN03081        335 FSRLALLEHAKQAHAGLIR-TGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTK  409 (697)
T ss_pred             HHhccchHHHHHHHHHHHH-hCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHH
Confidence            9999999999999999975 89999999999999999999999999999999964    799999999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-ccCCchHHHHH
Q 025612          182 AMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQ-YVEFPERFLEE  237 (250)
Q Consensus       182 a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~-~g~~pd~~~~~  237 (250)
                      |.++|++|.+.|+.||..||+++|.+|++.|++++|.++|+.|.+ .|+.|+...|.
T Consensus       410 A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~  466 (697)
T PLN03081        410 AVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYA  466 (697)
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchH
Confidence            999999999999999999999999999999999999999999975 69999876665

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

Probab=99.97  E-value=1.4e-30  Score=238.78  Aligned_cols=208  Identities=13%  Similarity=0.173  Sum_probs=185.2

Q ss_pred             CCCCCCcCCCCCCCccceeeeeccccCCCccccc----c-CCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH
Q 025612           22 FHQRPQISLPSGKKIQALTVTCGLRDANKKPMWR----S-RVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL   96 (250)
Q Consensus        22 f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~----~-~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~   96 (250)
                      |+.+++++...|+.+...+...|..+.+...+..    + .+...++..++.+|++.|++++|.+++..|.+.|+.|+..
T Consensus       282 f~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~  361 (697)
T PLN03081        282 FDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIV  361 (697)
T ss_pred             HHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCee
Confidence            8888999999999999999888877665542211    1 2233455567999999999999999999999999999876


Q ss_pred             ---HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 025612           97 ---DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVY  173 (250)
Q Consensus        97 ---~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~  173 (250)
                         +||++|++.|++++|.++|++|.     .||..+||+||.+|++.|+.++|.++|++|.+.|+.||.+||+++|.+|
T Consensus       362 ~~~~Li~~y~k~G~~~~A~~vf~~m~-----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~  436 (697)
T PLN03081        362 ANTALVDLYSKWGRMEDARNVFDRMP-----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSAC  436 (697)
T ss_pred             ehHHHHHHHHHCCCHHHHHHHHHhCC-----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence               79999999999999999999995     3799999999999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCchHHHHH
Q 025612          174 LQVGMIDKAMETYETMKA-SGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEE  237 (250)
Q Consensus       174 ~~~g~~~~a~~~~~~m~~-~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~~~~  237 (250)
                      ++.|.+++|.++|+.|.+ .|+.|+..+|++++++|++.|++++|.+++++|   ++.||..++.
T Consensus       437 ~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~  498 (697)
T PLN03081        437 RYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWA  498 (697)
T ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHH
Confidence            999999999999999976 599999999999999999999999999998765   6778876655

>PLN03077 Protein ECB2; Provisional

Probab=99.97  E-value=1.8e-29  Score=236.44  Aligned_cols=203  Identities=18%  Similarity=0.224  Sum_probs=186.7

Q ss_pred             cCCCCCCCccceeeeeccccCCCc---cccccCCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH---HHHHH
Q 025612           28 ISLPSGKKIQALTVTCGLRDANKK---PMWRSRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL---DTLTE  101 (250)
Q Consensus        28 ~~~~~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~---~ll~~  101 (250)
                      .+...++.+...+..||..+.++.   .+...+..+|+++  +.+|++.|++++|+++|++|.+.|+.||..   ++|.+
T Consensus       220 ~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~l--i~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a  297 (857)
T PLN03077        220 LDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAM--ISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISA  297 (857)
T ss_pred             cccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHH--HHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH
Confidence            455678888888999998876665   4555667777776  999999999999999999999999999987   69999


Q ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHH
Q 025612          102 LRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDK  181 (250)
Q Consensus       102 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~  181 (250)
                      |++.|+++.|.+++..|.+ .|+.||..+||+||++|++.|++++|.++|++|..    ||.++||+||.+|++.|++++
T Consensus       298 ~~~~g~~~~a~~l~~~~~~-~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~~~~  372 (857)
T PLN03077        298 CELLGDERLGREMHGYVVK-TGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDK  372 (857)
T ss_pred             HHhcCChHHHHHHHHHHHH-hCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHH
Confidence            9999999999999999975 89999999999999999999999999999999964    799999999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCchHHHHH
Q 025612          182 AMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEE  237 (250)
Q Consensus       182 a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~~~~  237 (250)
                      |+++|++|.+.|+.||..||+.+|.+|++.|+++.|.++++.|.+.|+.||..+++
T Consensus       373 A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n  428 (857)
T PLN03077        373 ALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVAN  428 (857)
T ss_pred             HHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHH
Confidence            99999999999999999999999999999999999999999999999999987766

>PLN03077 Protein ECB2; Provisional

Probab=99.96  E-value=1.6e-29  Score=236.65  Aligned_cols=207  Identities=17%  Similarity=0.198  Sum_probs=148.4

Q ss_pred             cCCCCCCCccceeeeeccccCCCc---cccccCCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH---HHHHH
Q 025612           28 ISLPSGKKIQALTVTCGLRDANKK---PMWRSRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL---DTLTE  101 (250)
Q Consensus        28 ~~~~~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~---~ll~~  101 (250)
                      .+...++.+...+..||..+.+++   .+......+|+++  +.+|++.|++++|+++|++|.+.|+.|+..   ++|.+
T Consensus       321 ~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~l--i~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a  398 (857)
T PLN03077        321 VDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAM--ISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSA  398 (857)
T ss_pred             cchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHH--HHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHH
Confidence            344556666666777776665554   3334455556555  777777777777888888777777777655   56677


Q ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC------------------------
Q 025612          102 LRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKE------------------------  157 (250)
Q Consensus       102 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~------------------------  157 (250)
                      |++.|+++.|.++++.|.+ .|+.|+..+||+||++|+++|++++|.++|++|.+.                        
T Consensus       399 ~~~~g~~~~a~~l~~~~~~-~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~l  477 (857)
T PLN03077        399 CACLGDLDVGVKLHELAER-KGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIF  477 (857)
T ss_pred             HhccchHHHHHHHHHHHHH-hCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHH
Confidence            7777777777777776653 666666666666666666666666666666555432                        


Q ss_pred             ------CC-----------------------------------------------------------------CCCHHHH
Q 025612          158 ------GL-----------------------------------------------------------------DPDTRVY  166 (250)
Q Consensus       158 ------g~-----------------------------------------------------------------~p~~~ty  166 (250)
                            ++                                                                 .||.+||
T Consensus       478 f~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~  557 (857)
T PLN03077        478 FRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSW  557 (857)
T ss_pred             HHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhH
Confidence                  12                                                                 3456667


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-hccCCchHHHHH
Q 025612          167 TEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCI-QYVEFPERFLEE  237 (250)
Q Consensus       167 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~-~~g~~pd~~~~~  237 (250)
                      |+||.+|++.|+.++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|+.|. +.|+.|+..+|.
T Consensus       558 n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~  629 (857)
T PLN03077        558 NILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYA  629 (857)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHH
Confidence            78888888888888888888888888888888888888888888888888888888888 678888866665

>PF13041 PPR_2: PPR repeat family

Probab=99.67  E-value=2.1e-16  Score=95.26  Aligned_cols=49  Identities=33%  Similarity=0.505  Sum_probs=28.0

Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612          126 PDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYL  174 (250)
Q Consensus       126 ~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~  174 (250)
                      ||+.+||++|++|++.|++++|.++|++|.++|+.||..||++||++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4555555555555555555555555555555555555555555555554

>PF13041 PPR_2: PPR repeat family

Probab=99.65  E-value=3.9e-16  Score=94.03  Aligned_cols=50  Identities=32%  Similarity=0.633  Sum_probs=48.9

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 025612          161 PDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLEN  210 (250)
Q Consensus       161 p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~  210 (250)
                      ||.+|||+||.+|++.|++++|+++|++|.+.|+.||..||++||++|++
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            89999999999999999999999999999999999999999999999975

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.39  E-value=5.8e-11  Score=102.08  Aligned_cols=162  Identities=12%  Similarity=0.003  Sum_probs=109.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccH---H----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADL---L----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDM  134 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~---~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~l  134 (250)
                      ....+...+.+.|++++|.+.++.+.+.+-.+..   .    .+...+.+.|++++|...|+++.+ .. +.+...+..+
T Consensus       143 ~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~-~~-p~~~~~~~~l  220 (389)
T PRK11788        143 ALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALA-AD-PQCVRASILL  220 (389)
T ss_pred             HHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh-HC-cCCHHHHHHH
Confidence            4445577777778888888888887765533321   1    355566677788888888777754 21 2235566777


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 025612          135 ILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEE  214 (250)
Q Consensus       135 i~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~  214 (250)
                      ...|.+.|++++|.++|+++.+.+-.....+++.+...|.+.|++++|...++++.+.  .|+...+..+...+.+.|++
T Consensus       221 a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~  298 (389)
T PRK11788        221 GDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGP  298 (389)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCH
Confidence            7777777888888887777766432222456777777777778888887777777664  36666667777777777777


Q ss_pred             HHHHHHHHHHHhc
Q 025612          215 ELVAAVRRDCIQY  227 (250)
Q Consensus       215 ~~a~~~~~~m~~~  227 (250)
                      ++|.++++++.+.
T Consensus       299 ~~A~~~l~~~l~~  311 (389)
T PRK11788        299 EAAQALLREQLRR  311 (389)
T ss_pred             HHHHHHHHHHHHh
Confidence            7777777776654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.34  E-value=6.3e-10  Score=95.64  Aligned_cols=163  Identities=13%  Similarity=0.050  Sum_probs=111.9

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC----HHHHHHHHHH
Q 025612           64 IQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPD----LSLYSDMILM  137 (250)
Q Consensus        64 ~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~y~~li~~  137 (250)
                      ..+...+.+.|++++|..+|+++.+.... .... .+...+.+.|++++|.+.|+.+.+ .+..+.    ...|..+...
T Consensus       111 ~~La~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~~~~la~~  189 (389)
T PRK11788        111 QELGQDYLKAGLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEK-LGGDSLRVEIAHFYCELAQQ  189 (389)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHH-hcCCcchHHHHHHHHHHHHH
Confidence            34466777778888888888887653211 1111 577778888888888888888764 322221    2245566677


Q ss_pred             HHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 025612          138 LGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELV  217 (250)
Q Consensus       138 ~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a  217 (250)
                      +.+.|++++|...|+++.+.. +.+...+..+...|.+.|++++|.++|+++.+.+-.....+++.+..+|.+.|++++|
T Consensus       190 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A  268 (389)
T PRK11788        190 ALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEG  268 (389)
T ss_pred             HHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHH
Confidence            778888888888888876642 2235567777788888888888888888887653222245677888888888888888


Q ss_pred             HHHHHHHHhcc
Q 025612          218 AAVRRDCIQYV  228 (250)
Q Consensus       218 ~~~~~~m~~~g  228 (250)
                      .+.++.+.+..
T Consensus       269 ~~~l~~~~~~~  279 (389)
T PRK11788        269 LEFLRRALEEY  279 (389)
T ss_pred             HHHHHHHHHhC
Confidence            88888877654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.26  E-value=4.9e-10  Score=93.59  Aligned_cols=173  Identities=16%  Similarity=0.028  Sum_probs=114.2

Q ss_pred             HHHHhcCChhHHHHHHHHHHHhcCcccHH---HHH---HHHHHcCCHHHHHHHHHHHHH------------------hCC
Q 025612           68 HAMKLAKSSSKLEEGFQSRICRLLKADLL---DTL---TELRRQNELDLALKVFNFVRK------------------EVW  123 (250)
Q Consensus        68 ~~~~~~~~~~~a~~l~~~m~~~~~~~~~~---~ll---~~~~~~~~~~~a~~~~~~m~~------------------~~g  123 (250)
                      --+...|.+..+.-+++.|...|.+.+..   .|+   .-|...+-+-.-++-|-.|.+                  ..-
T Consensus       123 ~kmIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~vAdL~~E~  202 (625)
T KOG4422|consen  123 LKMISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAVADLLFET  202 (625)
T ss_pred             HHHHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccHHHHHHhh
Confidence            33456788888888888888877654433   222   222222211111222222321                  001


Q ss_pred             CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 025612          124 YKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTI  203 (250)
Q Consensus       124 ~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~  203 (250)
                      .+-+..||.+||.++|+-...+.|.+++++-.....+.+..+||.+|.+-.-.    ...++..+|....++||..|||+
T Consensus       203 ~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~Pnl~TfNa  278 (625)
T KOG4422|consen  203 LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMTPNLFTFNA  278 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcCCchHhHHH
Confidence            12356788888888888888888888888888877788888888887653332    22677888888888888888888


Q ss_pred             HHHHHHhcCCHHH----HHHHHHHHHhccCCchHHHHHHHHhhhc
Q 025612          204 LIRNLENAGEEEL----VAAVRRDCIQYVEFPERFLEEVYQKHRK  244 (250)
Q Consensus       204 li~~~~~~g~~~~----a~~~~~~m~~~g~~pd~~~~~~~~~~~~  244 (250)
                      ++++.++.|+++.    |.+++.+|++-|+.|.--.|-+..+.++
T Consensus       279 lL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~  323 (625)
T KOG4422|consen  279 LLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFK  323 (625)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhc
Confidence            8888888887654    5677888888888887666665555444

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.22  E-value=3.5e-10  Score=94.41  Aligned_cols=115  Identities=15%  Similarity=0.267  Sum_probs=101.9

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      ++|.++|+--..+.|.+++.+-.. ...+.+..+||.+|.+-+-..+    .+++.+|....++||..|||+++++..+.
T Consensus       212 ~mI~Gl~K~~~~ERA~~L~kE~~~-~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNalL~c~akf  286 (625)
T KOG4422|consen  212 IMIAGLCKFSSLERARELYKEHRA-AKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALLSCAAKF  286 (625)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHH-hhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHHHHHHHh
Confidence            699999999999999999999975 5668899999999987553332    78999999999999999999999999999


Q ss_pred             CChHHH----HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 025612          177 GMIDKA----METYETMKASGCTPHKLTFTILIRNLENAGEEEL  216 (250)
Q Consensus       177 g~~~~a----~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~  216 (250)
                      |+++.|    .+++.+|++-|+.|...+|..+|..+.+.++..+
T Consensus       287 g~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k  330 (625)
T KOG4422|consen  287 GKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQK  330 (625)
T ss_pred             cchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchh
Confidence            987764    6678899999999999999999999999988744

>PF12854 PPR_1: PPR repeat

Probab=99.21  E-value=2.1e-11  Score=66.65  Aligned_cols=32  Identities=34%  Similarity=0.729  Sum_probs=14.8

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 025612          158 GLDPDTRVYTEMIGVYLQVGMIDKAMETYETM  189 (250)
Q Consensus       158 g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m  189 (250)
                      |+.||.+|||+||.+|++.|++++|.++|++|
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            44444444444444444444444444444444

>PF12854 PPR_1: PPR repeat

Probab=99.17  E-value=3.9e-11  Score=65.59  Aligned_cols=34  Identities=32%  Similarity=0.355  Sum_probs=32.3

Q ss_pred             CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 025612          122 VWYKPDLSLYSDMILMLGKNKQIAMAEELFCELK  155 (250)
Q Consensus       122 ~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~  155 (250)
                      .|+.||..|||+||++||+.|++++|.++|++|+
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            4899999999999999999999999999999984

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

Probab=99.07  E-value=8e-08  Score=90.32  Aligned_cols=155  Identities=10%  Similarity=-0.053  Sum_probs=63.0

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCc-ccH-HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCH
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLK-ADL-LDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQI  144 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~-~~~-~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~  144 (250)
                      ...+.+.|+.++|...++++...... ++. ..+...+.+.|++++|..+++.+.+  ..+.+..+|..+..+|.+.|++
T Consensus       540 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~  617 (899)
T TIGR02917       540 AGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAAD--AAPDSPEAWLMLGRAQLAAGDL  617 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHHcCCH
Confidence            44444445555555555544332211 000 1344444444444444444444432  1122344444444444444444


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 025612          145 AMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDC  224 (250)
Q Consensus       145 ~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m  224 (250)
                      ++|...|+++.+.. +.+...|..+...|.+.|++++|..+|+++.+.. ..+..++..+...+...|++++|.++++.+
T Consensus       618 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  695 (899)
T TIGR02917       618 NKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSL  695 (899)
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            44444444443321 1123334444444444444444444444443321 112333333444444444444444444433


Q ss_pred             H
Q 025612          225 I  225 (250)
Q Consensus       225 ~  225 (250)
                      .
T Consensus       696 ~  696 (899)
T TIGR02917       696 Q  696 (899)
T ss_pred             H
Confidence            3

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=99.06  E-value=1.1e-07  Score=89.48  Aligned_cols=157  Identities=9%  Similarity=0.039  Sum_probs=73.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCC
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQ  143 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~  143 (250)
                      +...+...|++++|...++++...... +... .+...+.+.|+.++|..+|+++.+ .+ +.+...+..+...|.+.|+
T Consensus       505 la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~  582 (899)
T TIGR02917       505 LARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAE-LN-PQEIEPALALAQYYLGKGQ  582 (899)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-hC-ccchhHHHHHHHHHHHCCC
Confidence            344444555555555555555432211 0111 344444455555555555555432 11 2234444555555555555


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 025612          144 IAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRD  223 (250)
Q Consensus       144 ~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~  223 (250)
                      +++|..+++++... .+.+..+|..+...|.+.|++++|...|+.+.+.. ..+...+..+...+.+.|++++|.++++.
T Consensus       583 ~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  660 (899)
T TIGR02917       583 LKKALAILNEAADA-APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKR  660 (899)
T ss_pred             HHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            55555555555432 23344455555555555555555555555554432 12334444555555555555555555555


Q ss_pred             HHh
Q 025612          224 CIQ  226 (250)
Q Consensus       224 m~~  226 (250)
                      +.+
T Consensus       661 ~~~  663 (899)
T TIGR02917       661 ALE  663 (899)
T ss_pred             HHh
Confidence            443

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.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.98  E-value=4.7e-07  Score=71.25  Aligned_cols=161  Identities=13%  Similarity=0.006  Sum_probs=129.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILM  137 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~  137 (250)
                      ....+...+...|++++|...+++..+..  |+..    .+...+...|++++|.+.|+...+ .. +.+...+..+...
T Consensus        33 ~~~~la~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~-~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        33 IRVQLALGYLEQGDLEVAKENLDKALEHD--PDDYLAYLALALYYQQLGELEKAEDSFRRALT-LN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh-hC-CCCHHHHHHHHHH
Confidence            44456788888999999999999987543  3222    477788899999999999999865 22 3456778888999


Q ss_pred             HHcCCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 025612          138 LGKNKQIAMAEELFCELKKEGL-DPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEEL  216 (250)
Q Consensus       138 ~~~~~~~~~A~~~~~~m~~~g~-~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~  216 (250)
                      |...|++++|.+.|++...... ......+..+...|...|++++|...|++..+.. ..+...+..+...+...|++++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999877532 2345567778888999999999999999987753 2246788889999999999999


Q ss_pred             HHHHHHHHHhc
Q 025612          217 VAAVRRDCIQY  227 (250)
Q Consensus       217 a~~~~~~m~~~  227 (250)
                      |.+.+++..+.
T Consensus       188 A~~~~~~~~~~  198 (234)
T TIGR02521       188 ARAYLERYQQT  198 (234)
T ss_pred             HHHHHHHHHHh
Confidence            99999998876

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.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.92  E-value=2.4e-06  Score=67.21  Aligned_cols=163  Identities=14%  Similarity=0.103  Sum_probs=129.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK  140 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~  140 (250)
                      ...+...+...|++++|.+.+++..+..-. +... .+...+...|++++|.+.|+...+..........+..+-..|..
T Consensus        68 ~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  147 (234)
T TIGR02521        68 YLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALK  147 (234)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHH
Confidence            334567777889999999999998765432 2222 56777889999999999999987532223345677888889999


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 025612          141 NKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAV  220 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~  220 (250)
                      .|++++|...|++..... +.+...+..+...+...|++++|...+++..+. ...+...+..+...+...|+.+.|..+
T Consensus       148 ~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~  225 (234)
T TIGR02521       148 AGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRY  225 (234)
T ss_pred             cCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHH
Confidence            999999999999987652 234678888999999999999999999998876 345677788888999999999999999


Q ss_pred             HHHHHhc
Q 025612          221 RRDCIQY  227 (250)
Q Consensus       221 ~~~m~~~  227 (250)
                      .+.+.+.
T Consensus       226 ~~~~~~~  232 (234)
T TIGR02521       226 GAQLQKL  232 (234)
T ss_pred             HHHHHhh
Confidence            8887653

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

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.80  E-value=7.9e-09  Score=56.67  Aligned_cols=33  Identities=24%  Similarity=0.535  Sum_probs=19.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 025612          165 VYTEMIGVYLQVGMIDKAMETYETMKASGCTPH  197 (250)
Q Consensus       165 ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  197 (250)
                      |||+||.+|++.|++++|.++|++|++.|++||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            455666666666666666666666655555555

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=98.79  E-value=1.4e-07  Score=77.69  Aligned_cols=154  Identities=11%  Similarity=0.047  Sum_probs=83.9

Q ss_pred             HhcCChhHHHHHHHHHHHhcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHH
Q 025612           71 KLAKSSSKLEEGFQSRICRLLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEE  149 (250)
Q Consensus        71 ~~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~  149 (250)
                      ...+++++|..++....+..-.|... .++..+.+.++++++.++++...+......+...|..+-..+.+.|+.++|.+
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~  167 (280)
T PF13429_consen   88 LQDGDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALR  167 (280)
T ss_dssp             ------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHH
T ss_pred             cccccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            56677777777776654433333333 56677777788888888887765434445667777777777788888888888


Q ss_pred             HHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          150 LFCELKKEGLDPD-TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       150 ~~~~m~~~g~~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      +|++..+.  .|+ ....+.++..+...|+.+++.+++....+.. ..|...+..+-.+|...|+.++|..+++...+.
T Consensus       168 ~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~  243 (280)
T PF13429_consen  168 DYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKL  243 (280)
T ss_dssp             HHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccc
Confidence            88777664  453 6667777777777788777777777766543 344556677777777888888888888776653

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.75  E-value=1.8e-08  Score=55.23  Aligned_cols=35  Identities=34%  Similarity=0.513  Sum_probs=32.9

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH
Q 025612          129 SLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDT  163 (250)
Q Consensus       129 ~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~  163 (250)
                      .+||++|++|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37999999999999999999999999999999983

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

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.71  E-value=2.8e-08  Score=54.20  Aligned_cols=32  Identities=25%  Similarity=0.558  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC
Q 025612          165 VYTEMIGVYLQVGMIDKAMETYETMKASGCTP  196 (250)
Q Consensus       165 ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  196 (250)
                      |||++|.+|++.|+++.|.++|++|++.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            44444444444444444444444444444444

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.71  E-value=2.3e-08  Score=54.51  Aligned_cols=33  Identities=27%  Similarity=0.464  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC
Q 025612          129 SLYSDMILMLGKNKQIAMAEELFCELKKEGLDP  161 (250)
Q Consensus       129 ~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  161 (250)
                      ++||++|++|++.|+++.|.++|++|.+.|++|
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            689999999999999999999999999999988

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

Probab=98.64  E-value=6.9e-07  Score=73.53  Aligned_cols=156  Identities=18%  Similarity=0.172  Sum_probs=106.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcCcc-cHH---HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHH
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLLKA-DLL---DTLTELRRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMILMLG  139 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~~~-~~~---~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~~~~  139 (250)
                      ..+..+...++++++.++++......-.+ +..   .+-..+.+.|+.++|..++++..+.   .| |....+.++..+.
T Consensus       115 ~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~---~P~~~~~~~~l~~~li  191 (280)
T PF13429_consen  115 SALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL---DPDDPDARNALAWLLI  191 (280)
T ss_dssp             ---H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH----TT-HHHHHHHHHHHC
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHH
Confidence            35777888999999999999987533222 222   4556677899999999999998763   45 4778999999999


Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 025612          140 KNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAA  219 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~  219 (250)
                      ..|+.+++.+++....... +.|...|..+..+|...|+.++|+..|++..... +.|+.....+..++...|+.++|.+
T Consensus       192 ~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~  269 (280)
T PF13429_consen  192 DMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALR  269 (280)
T ss_dssp             TTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT----------
T ss_pred             HCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-ccccccccccccccccccccccccc
Confidence            9999999999998887653 4566778899999999999999999999987742 3378888999999999999999999


Q ss_pred             HHHHHH
Q 025612          220 VRRDCI  225 (250)
Q Consensus       220 ~~~~m~  225 (250)
                      +.+..-
T Consensus       270 ~~~~~~  275 (280)
T PF13429_consen  270 LRRQAL  275 (280)
T ss_dssp             ------
T ss_pred             cccccc
Confidence            887653

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.62  E-value=3.6e-05  Score=70.88  Aligned_cols=153  Identities=10%  Similarity=0.005  Sum_probs=89.4

Q ss_pred             HHhcCChhHHHHHHHHHHHhcCcccHH---HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHH
Q 025612           70 MKLAKSSSKLEEGFQSRICRLLKADLL---DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAM  146 (250)
Q Consensus        70 ~~~~~~~~~a~~l~~~m~~~~~~~~~~---~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~  146 (250)
                      +...|++++|..+++.+.+..-.++..   .+..++.+.|++++|...|+...+ .. +.+...+..+-..|...|++++
T Consensus       187 l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~-~~-p~~~~~~~~Lg~~l~~~G~~~e  264 (656)
T PRK15174        187 FLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALA-RG-LDGAALRRSLGLAYYQSGRSRE  264 (656)
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHh-cC-CCCHHHHHHHHHHHHHcCCchh
Confidence            444455555555555544332111111   233455566666666666666653 21 2245556666666666776664


Q ss_pred             ----HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHH
Q 025612          147 ----AEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPH-KLTFTILIRNLENAGEEELVAAVR  221 (250)
Q Consensus       147 ----A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~ty~~li~~~~~~g~~~~a~~~~  221 (250)
                          |...|++..... +-+...+..+...+.+.|++++|...+++..+.  .|+ ...+..+-.++.+.|++++|.+.+
T Consensus       265 A~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~l~~~G~~~eA~~~l  341 (656)
T PRK15174        265 AKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYARALRQVGQYTAASDEF  341 (656)
T ss_pred             hHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence                566666665531 224556677777777777777777777776654  243 445666667777777777777777


Q ss_pred             HHHHhc
Q 025612          222 RDCIQY  227 (250)
Q Consensus       222 ~~m~~~  227 (250)
                      +.+.+.
T Consensus       342 ~~al~~  347 (656)
T PRK15174        342 VQLARE  347 (656)
T ss_pred             HHHHHh
Confidence            776654

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.61  E-value=2.5e-05  Score=71.93  Aligned_cols=157  Identities=6%  Similarity=-0.021  Sum_probs=87.6

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcC-cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCH
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLL-KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQI  144 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~-~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~  144 (250)
                      ..+....|+++.|...++++....- .++.. .+-..+...|++++|...++...+.  -+.+...+..+...|...|++
T Consensus        83 ~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~  160 (656)
T PRK15174         83 VISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKE  160 (656)
T ss_pred             hhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCh
Confidence            4444455666666666666653221 11111 3455556667777777777766531  122355666666677777777


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 025612          145 AMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDC  224 (250)
Q Consensus       145 ~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m  224 (250)
                      ++|...++.+....-. +...+..+ ..+...|++++|..+++.+.+..-.++...+..+..++.+.|++++|.+.++..
T Consensus       161 ~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~a  238 (656)
T PRK15174        161 LQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESA  238 (656)
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            7777777666543211 12222222 235666777777777776655432233444445556666777777777777776


Q ss_pred             Hhc
Q 025612          225 IQY  227 (250)
Q Consensus       225 ~~~  227 (250)
                      .+.
T Consensus       239 l~~  241 (656)
T PRK15174        239 LAR  241 (656)
T ss_pred             Hhc
Confidence            654

>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=1.4e-06  Score=60.09  Aligned_cols=78  Identities=13%  Similarity=0.349  Sum_probs=53.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHcCCC--------HHHHHHHHHHHHhCCCCCCHHHHH
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWY-KPDLSLYSDMILMLGKNKQ--------IAMAEELFCELKKEGLDPDTRVYT  167 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~-~~~~~~y~~li~~~~~~~~--------~~~A~~~~~~m~~~g~~p~~~ty~  167 (250)
                      .-|..|...+++.....+|+.++ +.|+ .|++.+||.++.+.++..-        +-.++.+|+.|...+++|+..|||
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslk-RN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLK-RNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHH-hcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            35666666677888888888775 4777 7788888888877765432        334556667777667777777777


Q ss_pred             HHHHHHHh
Q 025612          168 EMIGVYLQ  175 (250)
Q Consensus       168 ~li~~~~~  175 (250)
                      .+|..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            77766654

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 [, , ].

>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=98.56  E-value=3.3e-05  Score=70.68  Aligned_cols=154  Identities=12%  Similarity=-0.020  Sum_probs=124.5

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCC
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNK  142 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~  142 (250)
                      -..+...|++++|...+++..+.  .|+..    .+-..+...|++++|...|+...+. . +-+...|..+-..|...|
T Consensus       338 g~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-~-p~~~~~~~~lg~~~~~~g  413 (615)
T TIGR00990       338 GTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKL-N-SEDPDIYYHRAQLHFIKG  413 (615)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHHcC
Confidence            44555679999999999998754  34322    4666778899999999999998752 2 335788999999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHH
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVAAVR  221 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~  221 (250)
                      ++++|...|++..+.. +.+...|..+...+.+.|++++|+..|++..+.  .| +...|+.+-..+...|++++|.+.|
T Consensus       414 ~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~  490 (615)
T TIGR00990       414 EFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKF  490 (615)
T ss_pred             CHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHH
Confidence            9999999999987742 235677888888999999999999999998764  34 4678889999999999999999999


Q ss_pred             HHHHhc
Q 025612          222 RDCIQY  227 (250)
Q Consensus       222 ~~m~~~  227 (250)
                      +...+.
T Consensus       491 ~~Al~l  496 (615)
T TIGR00990       491 DTAIEL  496 (615)
T ss_pred             HHHHhc
Confidence            997654

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

Probab=98.54  E-value=1e-06  Score=75.63  Aligned_cols=118  Identities=14%  Similarity=0.039  Sum_probs=99.4

Q ss_pred             cHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 025612           94 DLLDTLTELRRQNELDLALKVFNFVRKEVW-YKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGV  172 (250)
Q Consensus        94 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g-~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~  172 (250)
                      |+..+++.+....+++.+..++...+.+.. ...-..|..++|+.|.+.|..+.++.+++.=...|+-||.+|||.||..
T Consensus        68 dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~  147 (429)
T PF10037_consen   68 DLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDH  147 (429)
T ss_pred             HHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHH
Confidence            334788888888899999999999875322 1122345679999999999999999999988888999999999999999


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 025612          173 YLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENA  211 (250)
Q Consensus       173 ~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~  211 (250)
                      +.+.|++..|.++..+|...+...+..|+..-+.+|.+.
T Consensus       148 fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  148 FLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            999999999999999998887778889988888888876

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 [].

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

Probab=98.54  E-value=8.8e-07  Score=76.07  Aligned_cols=119  Identities=12%  Similarity=0.137  Sum_probs=102.5

Q ss_pred             CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH
Q 025612          122 VWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKE--GLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKL  199 (250)
Q Consensus       122 ~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~--g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  199 (250)
                      .+...+......+++.+....+++.+.+++......  ....-..|..++|+.|.+.|..++++++++.=...|+-||.+
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~  139 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNF  139 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChh
Confidence            445668889999999999999999999999998775  333444566799999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCCchHHHHHHHH
Q 025612          200 TFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQ  240 (250)
Q Consensus       200 ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~~~~~~~  240 (250)
                      |||.||+.+.+.|++..|.++..+|...+...+..++.+.-
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l  180 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALAL  180 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHH
Confidence            99999999999999999999999999887776666666543

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 [].

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

Probab=98.52  E-value=3.8e-06  Score=58.07  Aligned_cols=82  Identities=17%  Similarity=0.325  Sum_probs=70.7

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcC--------ChHHHHHHHHHHHHCCCCCCHHH
Q 025612          130 LYSDMILMLGKNKQIAMAEELFCELKKEGL-DPDTRVYTEMIGVYLQVG--------MIDKAMETYETMKASGCTPHKLT  200 (250)
Q Consensus       130 ~y~~li~~~~~~~~~~~A~~~~~~m~~~g~-~p~~~ty~~li~~~~~~g--------~~~~a~~~~~~m~~~g~~p~~~t  200 (250)
                      |-..-|..+...+++.....+|+.++..|+ .|+..+||.++.+-+++.        ++-+++.+|++|...+++|+..|
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            335566667777999999999999999999 999999999999988854        24467889999999999999999


Q ss_pred             HHHHHHHHHhc
Q 025612          201 FTILIRNLENA  211 (250)
Q Consensus       201 y~~li~~~~~~  211 (250)
                      |++++..+.+.
T Consensus       107 Ynivl~~Llkg  117 (120)
T PF08579_consen  107 YNIVLGSLLKG  117 (120)
T ss_pred             HHHHHHHHHHh
Confidence            99999988753

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 [, , ].

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.52  E-value=6.4e-05  Score=60.08  Aligned_cols=186  Identities=14%  Similarity=0.065  Sum_probs=127.8

Q ss_pred             eeeeccccCCCccccccCCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcC-ccc---H-HHHHHHHHHcCCHHHHHHH
Q 025612           40 TVTCGLRDANKKPMWRSRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLL-KAD---L-LDTLTELRRQNELDLALKV  114 (250)
Q Consensus        40 ~~~~~~~~~~~~~l~~~~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~-~~~---~-~~ll~~~~~~~~~~~a~~~  114 (250)
                      ...|+...+.... +.........+.....+...|+++.|...|++.....- .|.   . ..+-.++.+.|++++|...
T Consensus        14 ~~~~~~~~~~~~~-~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~   92 (235)
T TIGR03302        14 LAGCSSKKKKEAD-PVEEWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAA   92 (235)
T ss_pred             HhhccCCcccccC-CcccCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHH
Confidence            4567766433222 22233334455667888899999999999999875432 121   1 1467788899999999999


Q ss_pred             HHHHHHhCCCCCCH-HHHHHHHHHHHcC--------CCHHHHHHHHHHHHhCCCCCCHH-HH-----------------H
Q 025612          115 FNFVRKEVWYKPDL-SLYSDMILMLGKN--------KQIAMAEELFCELKKEGLDPDTR-VY-----------------T  167 (250)
Q Consensus       115 ~~~m~~~~g~~~~~-~~y~~li~~~~~~--------~~~~~A~~~~~~m~~~g~~p~~~-ty-----------------~  167 (250)
                      ++.+.+...-.|.. .++..+-.++.+.        |+.++|.+.|+.....  .|+.. .+                 -
T Consensus        93 ~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~~~~~~~~~~~  170 (235)
T TIGR03302        93 ADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDYLRNRLAGKEL  170 (235)
T ss_pred             HHHHHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHHHHHHHHHHHH
Confidence            99997533222221 2344444445443        7789999999998765  34321 11                 1


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          168 EMIGVYLQVGMIDKAMETYETMKASG--CTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       168 ~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      .+-..|.+.|++++|...|+...+..  -......+..+..++...|++++|..+++.+....
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            34456788899999999999987652  22245788999999999999999999999887643

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).

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

Probab=98.52  E-value=1.1e-07  Score=50.60  Aligned_cols=27  Identities=30%  Similarity=0.365  Sum_probs=11.4

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhC
Q 025612          131 YSDMILMLGKNKQIAMAEELFCELKKE  157 (250)
Q Consensus       131 y~~li~~~~~~~~~~~A~~~~~~m~~~  157 (250)
                      ||++|++|++.|++++|.++|++|.+.
T Consensus         3 y~~li~~~~~~~~~~~a~~~~~~M~~~   29 (31)
T PF01535_consen    3 YNSLISGYCKMGQFEEALEVFDEMRER   29 (31)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHhHC
Confidence            444444444444444444444444433

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.

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.51  E-value=5.3e-05  Score=72.25  Aligned_cols=150  Identities=12%  Similarity=0.041  Sum_probs=85.2

Q ss_pred             HHHHhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCC
Q 025612           68 HAMKLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQ  143 (250)
Q Consensus        68 ~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~  143 (250)
                      ..+.+.|+.++|...+++..+..  |+..    .+...+.+.|++++|...|++..+   +.|+...|..+-..+.+.|+
T Consensus       550 ~all~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~---l~P~~~a~~~LA~~l~~lG~  624 (987)
T PRK09782        550 NTAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPELALNDLTRSLN---IAPSANAYVARATIYRQRHN  624 (987)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH---hCCCHHHHHHHHHHHHHCCC
Confidence            33444555555555555554332  2222    112222234666666666666543   23456666666666666777


Q ss_pred             HHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHH
Q 025612          144 IAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVAAVR  221 (250)
Q Consensus       144 ~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~  221 (250)
                      +++|...|++....  .| +...++.+-..+...|+.++|...|++..+.  .| +...+..+-.++...|++++|...+
T Consensus       625 ~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l--~P~~~~a~~nLA~al~~lGd~~eA~~~l  700 (987)
T PRK09782        625 VPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLERAHKG--LPDDPALIRQLAYVNQRLDDMAATQHYA  700 (987)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            77777666666553  23 3445555556666667777777776666553  23 4455666666667777777777766


Q ss_pred             HHHHh
Q 025612          222 RDCIQ  226 (250)
Q Consensus       222 ~~m~~  226 (250)
                      +...+
T Consensus       701 ~~Al~  705 (987)
T PRK09782        701 RLVID  705 (987)
T ss_pred             HHHHh
Confidence            66654

>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=98.51  E-value=9.8e-05  Score=67.63  Aligned_cols=131  Identities=17%  Similarity=0.086  Sum_probs=85.2

Q ss_pred             CCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcC-cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 025612           58 VLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLL-KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMI  135 (250)
Q Consensus        58 ~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~-~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li  135 (250)
                      ......+.+...+...|++++|...|++..+..- .++.. .+-..+...|++++|...|+...+ .. +.+...|..+-
T Consensus       363 ~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~-l~-P~~~~~~~~la  440 (615)
T TIGR00990       363 RVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSID-LD-PDFIFSHIQLG  440 (615)
T ss_pred             CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-cC-ccCHHHHHHHH
Confidence            3344445556667778888899988888765421 12222 455566677888888888877754 21 22456666677


Q ss_pred             HHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 025612          136 LMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       136 ~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  191 (250)
                      ..+.+.|++++|+..|++.... .+-+...|+.+-..+...|++++|.+.|++..+
T Consensus       441 ~~~~~~g~~~eA~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~  495 (615)
T TIGR00990       441 VTQYKEGSIASSMATFRRCKKN-FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIE  495 (615)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            7777777777777777776553 122456667777777777777777777766554

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

Probab=98.50  E-value=1.4e-07  Score=50.18  Aligned_cols=31  Identities=26%  Similarity=0.636  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 025612          164 RVYTEMIGVYLQVGMIDKAMETYETMKASGC  194 (250)
Q Consensus       164 ~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~  194 (250)
                      +|||+||++|++.|++++|.++|++|++.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4899999999999999999999999999885

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.

>PRK12370 invasion protein regulator; Provisional

Probab=98.48  E-value=4.9e-05  Score=68.64  Aligned_cols=147  Identities=12%  Similarity=-0.010  Sum_probs=106.9

Q ss_pred             CChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHH
Q 025612           74 KSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEE  149 (250)
Q Consensus        74 ~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~  149 (250)
                      ++.++|...+++..+.  .|+..    .+-..+...|++++|...|++..+ .+ +.+...|..+-..|...|++++|..
T Consensus       318 ~~~~~A~~~~~~Al~l--dP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~-l~-P~~~~a~~~lg~~l~~~G~~~eAi~  393 (553)
T PRK12370        318 NAMIKAKEHAIKATEL--DHNNPQALGLLGLINTIHSEYIVGSLLFKQANL-LS-PISADIKYYYGWNLFMAGQLEEALQ  393 (553)
T ss_pred             hHHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHH-hC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            3467888888887654  33322    344566788999999999999875 22 2246678888888999999999999


Q ss_pred             HHHHHHhCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          150 LFCELKKEGLDPDT-RVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       150 ~~~~m~~~g~~p~~-~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      .+++..+.  .|+. ..+..+...+...|++++|...+++..... .| +...+..+-.++...|++++|.+.+..+...
T Consensus       394 ~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~  470 (553)
T PRK12370        394 TINECLKL--DPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ  470 (553)
T ss_pred             HHHHHHhc--CCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc
Confidence            99998775  3443 233344555677899999999999887653 24 3445677778888999999999999886544

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

Probab=98.45  E-value=2e-05  Score=71.82  Aligned_cols=172  Identities=16%  Similarity=0.090  Sum_probs=95.3

Q ss_pred             CCCcHHHHHHHHHHHhcCChhH---HHHHHHHHH----Hhc-----------------CcccHHHHHHHHHHcCCHHHHH
Q 025612           57 RVLSSEAIQAVHAMKLAKSSSK---LEEGFQSRI----CRL-----------------LKADLLDTLTELRRQNELDLAL  112 (250)
Q Consensus        57 ~~~~~~~~~ll~~~~~~~~~~~---a~~l~~~m~----~~~-----------------~~~~~~~ll~~~~~~~~~~~a~  112 (250)
                      .+.+.++..++.+|...|+...   +.+.+..+.    ..|                 ..||....+.-....|.++.+.
T Consensus        80 ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqll  159 (1088)
T KOG4318|consen   80 EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLL  159 (1088)
T ss_pred             CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHH
Confidence            4555667778999999998774   222111111    112                 2233334555555566666666


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 025612          113 KVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS  192 (250)
Q Consensus       113 ~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  192 (250)
                      ++...+.......|..+    +|+-+.....  -.+++.+.-..-.-.||+.+|.+++.+-..+|+++.|..++.+|++.
T Consensus       160 kll~~~Pvsa~~~p~~v----fLrqnv~~nt--pvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~  233 (1088)
T KOG4318|consen  160 KLLAKVPVSAWNAPFQV----FLRQNVVDNT--PVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEK  233 (1088)
T ss_pred             HHHhhCCcccccchHHH----HHHHhccCCc--hHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHc
Confidence            66655543222222222    2333332222  12223222222111467777777777777777777777777777777


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCchHHHHH
Q 025612          193 GCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEE  237 (250)
Q Consensus       193 g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~~~~  237 (250)
                      |+..+.+-|..|+-+   .++..-++.+++.|.+.|+.|+.-++.
T Consensus       234 gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~a  275 (1088)
T KOG4318|consen  234 GFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQA  275 (1088)
T ss_pred             CCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhH
Confidence            777777666666655   556666667777777777777655443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.44  E-value=0.00018  Score=68.82  Aligned_cols=156  Identities=12%  Similarity=-0.005  Sum_probs=111.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcCcc-cHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCH
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLLKA-DLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQI  144 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~  144 (250)
                      +...+...|++++|...|+++......+ ....+..++.+.|++++|...|+...+ .. ..+...+..+...+.+.|++
T Consensus       515 lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~-l~-P~~~~l~~~La~~l~~~Gr~  592 (987)
T PRK09782        515 VAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQ-RG-LGDNALYWWLHAQRYIPGQP  592 (987)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHh-cC-CccHHHHHHHHHHHHhCCCH
Confidence            3444457788888888888865432211 122455667788888888888888864 32 22333333333444556899


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 025612          145 AMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVAAVRRD  223 (250)
Q Consensus       145 ~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~  223 (250)
                      ++|...|++..+.  .|+...|..+-..+.+.|+.++|...|++....  .| +...++.+-.++...|++++|.+.++.
T Consensus       593 ~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~  668 (987)
T PRK09782        593 ELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLER  668 (987)
T ss_pred             HHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999998887764  567888888888899999999999999988775  35 445667777788889999999998888


Q ss_pred             HHhc
Q 025612          224 CIQY  227 (250)
Q Consensus       224 m~~~  227 (250)
                      ..+.
T Consensus       669 AL~l  672 (987)
T PRK09782        669 AHKG  672 (987)
T ss_pred             HHHh
Confidence            7764

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

Probab=98.41  E-value=7.1e-05  Score=62.57  Aligned_cols=171  Identities=18%  Similarity=0.124  Sum_probs=128.7

Q ss_pred             CCCcHHHHHH-HHHHHhcCChhHHHHHHHHHHHhcCcccHH----------HHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Q 025612           57 RVLSSEAIQA-VHAMKLAKSSSKLEEGFQSRICRLLKADLL----------DTLTELRRQNELDLALKVFNFVRKEVWYK  125 (250)
Q Consensus        57 ~~~~~~~~~l-l~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----------~ll~~~~~~~~~~~a~~~~~~m~~~~g~~  125 (250)
                      .+-.++.+.+ .+.|.+.|++..+..+...+.+.|.-.+..          .+++-+...+..+.-...++....  ..+
T Consensus       183 ~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr--~lr  260 (400)
T COG3071         183 TPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPR--KLR  260 (400)
T ss_pred             CcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccH--Hhh
Confidence            3344556655 888889999999999999998888755443          255666666666665566666643  234


Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC------------------------------HHHHHHHHHHHHh
Q 025612          126 PDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPD------------------------------TRVYTEMIGVYLQ  175 (250)
Q Consensus       126 ~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~------------------------------~~ty~~li~~~~~  175 (250)
                      -++..-.+++.-+.++|+.++|.++..+-.+++..|+                              .-.+.+|-.-|.+
T Consensus       261 ~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~tLG~L~~k  340 (400)
T COG3071         261 NDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLSTLGRLALK  340 (400)
T ss_pred             cChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHHHHHHHHH
Confidence            4566677888888888888888888877766665443                              3447888889999


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCc
Q 025612          176 VGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFP  231 (250)
Q Consensus       176 ~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  231 (250)
                      .+.|.+|...|+.-.+  ..|+.++|+.+-+++.+.|+.++|.++.++-...-.+|
T Consensus       341 ~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~  394 (400)
T COG3071         341 NKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREALLLTRQP  394 (400)
T ss_pred             hhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCC
Confidence            9999999999996655  56999999999999999999999999998866443333

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.35  E-value=0.00011  Score=69.05  Aligned_cols=155  Identities=6%  Similarity=-0.101  Sum_probs=68.9

Q ss_pred             HhcCChhHHHHHHHHHHHhcCc-ccHH--HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHcCCCHH
Q 025612           71 KLAKSSSKLEEGFQSRICRLLK-ADLL--DTLTELRRQNELDLALKVFNFVRKEVWYKP--DLSLYSDMILMLGKNKQIA  145 (250)
Q Consensus        71 ~~~~~~~~a~~l~~~m~~~~~~-~~~~--~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~--~~~~y~~li~~~~~~~~~~  145 (250)
                      ...|+.++|...|+.+.+.+-. |+..  .+-.++...|++++|...|+.+.+.....+  ....+..|..++...|+++
T Consensus       248 l~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~  327 (765)
T PRK10049        248 LARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYP  327 (765)
T ss_pred             HHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHH
Confidence            3445555555555555544321 3221  234445555555555555555432111110  1223444444555555555


Q ss_pred             HHHHHHHHHHhCC-----------CCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 025612          146 MAEELFCELKKEG-----------LDPD---TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENA  211 (250)
Q Consensus       146 ~A~~~~~~m~~~g-----------~~p~---~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~  211 (250)
                      +|..+++.+....           -.|+   ...+..+...+...|+.++|+++++++... ..-+...+..+...+...
T Consensus       328 eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~-~P~n~~l~~~lA~l~~~~  406 (765)
T PRK10049        328 GALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN-APGNQGLRIDYASVLQAR  406 (765)
T ss_pred             HHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhc
Confidence            5555555554421           0112   112233344445555555555555555432 112334444444445555


Q ss_pred             CCHHHHHHHHHHHHh
Q 025612          212 GEEELVAAVRRDCIQ  226 (250)
Q Consensus       212 g~~~~a~~~~~~m~~  226 (250)
                      |++++|++.++...+
T Consensus       407 g~~~~A~~~l~~al~  421 (765)
T PRK10049        407 GWPRAAENELKKAEV  421 (765)
T ss_pred             CCHHHHHHHHHHHHh
Confidence            555555555554443

>PRK12370 invasion protein regulator; Provisional

Probab=98.35  E-value=0.00016  Score=65.36  Aligned_cols=157  Identities=11%  Similarity=-0.046  Sum_probs=111.6

Q ss_pred             cHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHH
Q 025612           60 SSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPD-LSLYSDM  134 (250)
Q Consensus        60 ~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~l  134 (250)
                      ......+-..+...|++++|...|++..+..  |+..    .+-..+...|++++|...++...+.   .|+ ...+..+
T Consensus       338 ~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~--P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l---~P~~~~~~~~~  412 (553)
T PRK12370        338 PQALGLLGLINTIHSEYIVGSLLFKQANLLS--PISADIKYYYGWNLFMAGQLEEALQTINECLKL---DPTRAAAGITK  412 (553)
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCChhhHHHH
Confidence            3333334556677899999999999987654  4322    4667788999999999999998753   343 2233444


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcC
Q 025612          135 ILMLGKNKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHK-LTFTILIRNLENAG  212 (250)
Q Consensus       135 i~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~ty~~li~~~~~~g  212 (250)
                      ...+...|++++|...+++..... .| +...+..+-..|...|+.++|...+.++...  .|+. ...+.+...|...|
T Consensus       413 ~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g  489 (553)
T PRK12370        413 LWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS  489 (553)
T ss_pred             HHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH
Confidence            555677899999999999987653 34 4455777778888999999999999987664  3444 34455556667777


Q ss_pred             CHHHHHHHHHHHHh
Q 025612          213 EEELVAAVRRDCIQ  226 (250)
Q Consensus       213 ~~~~a~~~~~~m~~  226 (250)
                        +.|...++.+.+
T Consensus       490 --~~a~~~l~~ll~  501 (553)
T PRK12370        490 --ERALPTIREFLE  501 (553)
T ss_pred             --HHHHHHHHHHHH
Confidence              467776666554

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.33  E-value=0.00014  Score=71.40  Aligned_cols=160  Identities=9%  Similarity=0.067  Sum_probs=123.4

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCC
Q 025612           64 IQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNK  142 (250)
Q Consensus        64 ~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~  142 (250)
                      +.....+...|+.++|..+++.   ..-.+... .+-..+.+.|++++|...|+...+. . +.+...+..+...|...|
T Consensus       577 l~~a~~l~~~G~~~eA~~~l~~---~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~-~-P~~~~a~~~la~~~~~~g  651 (1157)
T PRK11447        577 LETANRLRDSGKEAEAEALLRQ---QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR-E-PGNADARLGLIEVDIAQG  651 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHh---CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHHCC
Confidence            3456778889999999999882   11122222 5777888999999999999998753 2 335888999999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC--CC---CHHHHHHHHHHHHhcCCHHH
Q 025612          143 QIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKASGC--TP---HKLTFTILIRNLENAGEEEL  216 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p---~~~ty~~li~~~~~~g~~~~  216 (250)
                      ++++|.+.|+...+.  .| +..++..+...+...|++++|.++|+......-  .|   +...+..+-..+...|+.++
T Consensus       652 ~~~eA~~~l~~ll~~--~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~  729 (1157)
T PRK11447        652 DLAAARAQLAKLPAT--ANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQ  729 (1157)
T ss_pred             CHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHH
Confidence            999999999987653  34 455667778888999999999999999876421  22   23466667788899999999


Q ss_pred             HHHHHHHHH-hccCC
Q 025612          217 VAAVRRDCI-QYVEF  230 (250)
Q Consensus       217 a~~~~~~m~-~~g~~  230 (250)
                      |.+.|+... ..|+.
T Consensus       730 A~~~y~~Al~~~~~~  744 (1157)
T PRK11447        730 ALETYKDAMVASGIT  744 (1157)
T ss_pred             HHHHHHHHHhhcCCC
Confidence            999999875 44554

>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=98.33  E-value=1.6e-05  Score=61.60  Aligned_cols=87  Identities=16%  Similarity=0.316  Sum_probs=49.9

Q ss_pred             CHHHHHHHHHHHHc-----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----------------CChHHHHHH
Q 025612          127 DLSLYSDMILMLGK-----NKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV----------------GMIDKAMET  185 (250)
Q Consensus       127 ~~~~y~~li~~~~~-----~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~----------------g~~~~a~~~  185 (250)
                      +-.+|..+|+.|.+     .|.++-....+..|.+-|+.-|..+|+.||+.+=+.                .+-+-|+++
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~l  125 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDL  125 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHH
Confidence            44555555555542     244455555555555555555555555555544331                134556777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 025612          186 YETMKASGCTPHKLTFTILIRNLENAGE  213 (250)
Q Consensus       186 ~~~m~~~g~~p~~~ty~~li~~~~~~g~  213 (250)
                      +++|...|+.||..|+..|++.+.+.+.
T Consensus       126 L~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  126 LEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            7777777777777777777777766554

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

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.33  E-value=0.00023  Score=66.77  Aligned_cols=162  Identities=10%  Similarity=0.038  Sum_probs=129.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH--HHHHHHHHcCCHHHHHHHHHHHHHhCC----CCCCHHHHHHHHHH
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL--DTLTELRRQNELDLALKVFNFVRKEVW----YKPDLSLYSDMILM  137 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~--~ll~~~~~~~~~~~a~~~~~~m~~~~g----~~~~~~~y~~li~~  137 (250)
                      .-+-++...++..+|.+.++.+...+.+ |+..  ++-++|...+++++|+.+|..+....+    ..++......|.-+
T Consensus       297 Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA  376 (822)
T PRK14574        297 DRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYS  376 (822)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHH
Confidence            4577888999999999999999988854 7666  799999999999999999999865432    23345557889999


Q ss_pred             HHcCCCHHHHHHHHHHHHhCC-------------CCCCHHH-HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 025612          138 LGKNKQIAMAEELFCELKKEG-------------LDPDTRV-YTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTI  203 (250)
Q Consensus       138 ~~~~~~~~~A~~~~~~m~~~g-------------~~p~~~t-y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~  203 (250)
                      |...+++++|..+++.+.+.-             -.||-.. +..++..+...|++.+|++.++.+.... .-|......
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            999999999999999998731             1123333 3445677889999999999999997752 347788889


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          204 LIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       204 li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      +-+.+...|++..|+++++.....
T Consensus       456 ~A~v~~~Rg~p~~A~~~~k~a~~l  479 (822)
T PRK14574        456 LASIYLARDLPRKAEQELKAVESL  479 (822)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHhhh
Confidence            999999999999999999665543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.29  E-value=0.00014  Score=64.07  Aligned_cols=163  Identities=16%  Similarity=0.119  Sum_probs=121.5

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHH---h--cC-cccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCC--CCC----
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRIC---R--LL-KADLL----DTLTELRRQNELDLALKVFNFVRKEVW--YKP----  126 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~---~--~~-~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g--~~~----  126 (250)
                      ...+-..|++.|++++|...++...+   .  |. .|.+.    .+...|+..+++++|..++....+..-  ..+    
T Consensus       286 l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~  365 (508)
T KOG1840|consen  286 LNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVN  365 (508)
T ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchH
Confidence            33456679999999999888888642   1  22 23333    477888899999999999987543211  122    


Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC----CC--CC-CHHHHHHHHHHHHhcCChHHHHHHHHH----HHHCCC-
Q 025612          127 DLSLYSDMILMLGKNKQIAMAEELFCELKKE----GL--DP-DTRVYTEMIGVYLQVGMIDKAMETYET----MKASGC-  194 (250)
Q Consensus       127 ~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~----g~--~p-~~~ty~~li~~~~~~g~~~~a~~~~~~----m~~~g~-  194 (250)
                      -..+|+.|-..|-+.|++++|.++|.+..+.    +-  .+ .-..+|.|-..|.+.+..++|.++|.+    |+..|. 
T Consensus       366 ~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~  445 (508)
T KOG1840|consen  366 LAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPD  445 (508)
T ss_pred             HHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCC
Confidence            2578999999999999999999999886432    22  22 245678888999999999999999876    433332 


Q ss_pred             CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025612          195 TPHK-LTFTILIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       195 ~p~~-~ty~~li~~~~~~g~~~~a~~~~~~m~  225 (250)
                      .|+. .+|..|...|.+.|+++.|.++.+...
T Consensus       446 ~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  446 HPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             CCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            3333 789999999999999999999988775

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.27  E-value=0.00022  Score=61.85  Aligned_cols=79  Identities=18%  Similarity=0.260  Sum_probs=47.2

Q ss_pred             CCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 025612          142 KQIAMAEELFCELKKEGLDPD-TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAV  220 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~~g~~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~  220 (250)
                      ++.+++.+..+...+.  .|+ ...+.++-..|.+.|++++|.+.|+...+.  .|+..+|..+-..+.+.|+.++|.++
T Consensus       308 ~~~~~al~~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~  383 (398)
T PRK10747        308 NNPEQLEKVLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAM  383 (398)
T ss_pred             CChHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            4444444444444332  232 333555566666677777777777766653  46776666777777777777777666


Q ss_pred             HHHH
Q 025612          221 RRDC  224 (250)
Q Consensus       221 ~~~m  224 (250)
                      +++-
T Consensus       384 ~~~~  387 (398)
T PRK10747        384 RRDG  387 (398)
T ss_pred             HHHH
Confidence            6654

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

Probab=98.26  E-value=1.8e-06  Score=78.33  Aligned_cols=94  Identities=15%  Similarity=0.189  Sum_probs=83.6

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 025612          113 KVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS  192 (250)
Q Consensus       113 ~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  192 (250)
                      .++..+. ..|+.|+.+||.++|.-||..|+++.|- +|..|+-+.+..+...|+.++.+...+++.+.+.         
T Consensus        11 nfla~~e-~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk---------   79 (1088)
T KOG4318|consen   11 NFLALHE-ISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK---------   79 (1088)
T ss_pred             hHHHHHH-HhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC---------
Confidence            4556675 5999999999999999999999999999 9999999989999999999999999999998887         


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 025612          193 GCTPHKLTFTILIRNLENAGEEELVAA  219 (250)
Q Consensus       193 g~~p~~~ty~~li~~~~~~g~~~~a~~  219 (250)
                        .|...||..|+.+|.+.||+..-+.
T Consensus        80 --ep~aDtyt~Ll~ayr~hGDli~fe~  104 (1088)
T KOG4318|consen   80 --EPLADTYTNLLKAYRIHGDLILFEV  104 (1088)
T ss_pred             --CCchhHHHHHHHHHHhccchHHHHH
Confidence              7899999999999999999766333

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.24  E-value=0.00074  Score=63.39  Aligned_cols=157  Identities=9%  Similarity=-0.005  Sum_probs=100.1

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCc--ccHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCH
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLK--ADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQI  144 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~  144 (250)
                      +-...+.|+++.|+..|++..+..-.  |.+..++..+...|+.++|...+++...  .-.......-.+...|...|++
T Consensus        41 aii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~--p~n~~~~~llalA~ly~~~gdy  118 (822)
T PRK14574         41 LIIRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQS--SMNISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhcc--CCCCCHHHHHHHHHHHHHcCCH
Confidence            44456778888888888887644322  2233667777777888888888877641  1111223333335567777888


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 025612          145 AMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDC  224 (250)
Q Consensus       145 ~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m  224 (250)
                      ++|.++|+++.+.. +-|...+..++..|...++.++|++.++.....  .|+...|..++..+...++..+|.+.++++
T Consensus       119 d~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekl  195 (822)
T PRK14574        119 DQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEA  195 (822)
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            88888888876642 123455556677777888888888888877664  466666655544444455665577777777


Q ss_pred             Hhcc
Q 025612          225 IQYV  228 (250)
Q Consensus       225 ~~~g  228 (250)
                      .+..
T Consensus       196 l~~~  199 (822)
T PRK14574        196 VRLA  199 (822)
T ss_pred             HHhC
Confidence            7654

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

Probab=98.23  E-value=0.00023  Score=63.06  Aligned_cols=179  Identities=13%  Similarity=0.177  Sum_probs=144.4

Q ss_pred             cccccCCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcC-cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-H
Q 025612           52 PMWRSRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLL-KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPD-L  128 (250)
Q Consensus        52 ~l~~~~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~-~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~  128 (250)
                      .+...+........+..++...|++.+|...+++...... .+|.. .|-..+...|.+++|..+|....+   +.|. .
T Consensus       312 al~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~---v~p~~a  388 (966)
T KOG4626|consen  312 ALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNIYREQGKIEEATRLYLKALE---VFPEFA  388 (966)
T ss_pred             HHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhccchHHHHHHHHHHh---hChhhh
Confidence            5555677777777889999999999999999999775432 23333 588889999999999999998754   3444 6


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHH
Q 025612          129 SLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDT-RVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHK-LTFTILIR  206 (250)
Q Consensus       129 ~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~ty~~li~  206 (250)
                      ..+|.|-..|-..|++++|...|++...  ++|+. ..|+.+-..|-..|+++.|...+.+..+  +.|.- ..++.|-.
T Consensus       389 aa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~--~nPt~AeAhsNLas  464 (966)
T KOG4626|consen  389 AAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQ--INPTFAEAHSNLAS  464 (966)
T ss_pred             hhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHh--cCcHHHHHHhhHHH
Confidence            6789999999999999999999998765  67874 6799999999999999999999988777  44643 67889999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhc-cCCchHHHHH
Q 025612          207 NLENAGEEELVAAVRRDCIQY-VEFPERFLEE  237 (250)
Q Consensus       207 ~~~~~g~~~~a~~~~~~m~~~-g~~pd~~~~~  237 (250)
                      .|-..|++.+|.+-+++..+. --.||++-+-
T Consensus       465 i~kDsGni~~AI~sY~~aLklkPDfpdA~cNl  496 (966)
T KOG4626|consen  465 IYKDSGNIPEAIQSYRTALKLKPDFPDAYCNL  496 (966)
T ss_pred             HhhccCCcHHHHHHHHHHHccCCCCchhhhHH
Confidence            999999999999999887653 3446655443

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

Probab=98.21  E-value=0.00035  Score=57.20  Aligned_cols=169  Identities=15%  Similarity=0.102  Sum_probs=101.1

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhc-CcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHc
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRL-LKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPD----LSLYSDMILMLGK  140 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~-~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~y~~li~~~~~  140 (250)
                      -+-|-..|-+++|+.+|..+.+.+ +.+... .|+..|-...+|++|.++-..+.+ .+-.+.    ..-|--|-..+..
T Consensus       114 ~~Dym~aGl~DRAE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k-~~~q~~~~eIAqfyCELAq~~~~  192 (389)
T COG2956         114 GRDYMAAGLLDRAEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVK-LGGQTYRVEIAQFYCELAQQALA  192 (389)
T ss_pred             HHHHHHhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHH-cCCccchhHHHHHHHHHHHHHhh
Confidence            444445566666666666655433 222222 466666666666666666665543 221111    1112222222233


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 025612          141 NKQIAMAEELFCELKKEGLDPDTRVYTEMI-GVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAA  219 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~~g~~p~~~ty~~li-~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~  219 (250)
                      ..+++.|..++.+-.+.  .|+-+--++++ +.+...|++..|.+.++...+.+..--..+...|..+|...|+.++...
T Consensus       193 ~~~~d~A~~~l~kAlqa--~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~  270 (389)
T COG2956         193 SSDVDRARELLKKALQA--DKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLN  270 (389)
T ss_pred             hhhHHHHHHHHHHHHhh--CccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHH
Confidence            45566666666655443  23332233333 5667789999999999999988766666788999999999999999999


Q ss_pred             HHHHHHhc--cCCchHHHHHH
Q 025612          220 VRRDCIQY--VEFPERFLEEV  238 (250)
Q Consensus       220 ~~~~m~~~--g~~pd~~~~~~  238 (250)
                      ++..+.+.  |..+--.++.+
T Consensus       271 fL~~~~~~~~g~~~~l~l~~l  291 (389)
T COG2956         271 FLRRAMETNTGADAELMLADL  291 (389)
T ss_pred             HHHHHHHccCCccHHHHHHHH
Confidence            99998765  55554444443

>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=98.20  E-value=2.8e-05  Score=64.24  Aligned_cols=150  Identities=17%  Similarity=0.111  Sum_probs=105.7

Q ss_pred             HHHHhcCChhHHHHHHHHHHHhcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH----HcCC
Q 025612           68 HAMKLAKSSSKLEEGFQSRICRLLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILML----GKNK  142 (250)
Q Consensus        68 ~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~----~~~~  142 (250)
                      ..+...|++++|+++++..    -.+... -.+..+.+.++++.|.+.++.|.+   +..|. +-..|..++    .-.+
T Consensus       110 ~i~~~~~~~~~AL~~l~~~----~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~---~~eD~-~l~qLa~awv~l~~g~e  181 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKG----GSLELLALAVQILLKMNRPDLAEKELKNMQQ---IDEDS-ILTQLAEAWVNLATGGE  181 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT----TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC---CSCCH-HHHHHHHHHHHHHHTTT
T ss_pred             HHHHHcCCHHHHHHHHHcc----CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCcH-HHHHHHHHHHHHHhCch
Confidence            3344568888888887652    223333 478889999999999999999963   23453 333344433    3345


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHH
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEE-ELVAAVR  221 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~-~~a~~~~  221 (250)
                      .+.+|..+|+++.++ ..++..+.|.+..++...|++++|.+++.+..+.. .-|..|...++-+..-.|+. +.+.+.+
T Consensus       182 ~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l  259 (290)
T PF04733_consen  182 KYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYL  259 (290)
T ss_dssp             CCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHH
Confidence            689999999998664 66888999999999999999999999998876543 22556777788888888877 7788888


Q ss_pred             HHHHhc
Q 025612          222 RDCIQY  227 (250)
Q Consensus       222 ~~m~~~  227 (250)
                      .+++..
T Consensus       260 ~qL~~~  265 (290)
T PF04733_consen  260 SQLKQS  265 (290)
T ss_dssp             HHCHHH
T ss_pred             HHHHHh
Confidence            888765

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.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.19  E-value=0.00056  Score=59.27  Aligned_cols=125  Identities=6%  Similarity=-0.019  Sum_probs=61.0

Q ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHH
Q 025612          101 ELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDT-------RVYTEMIGVY  173 (250)
Q Consensus       101 ~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-------~ty~~li~~~  173 (250)
                      .+...|+++.|...++...+ .. +-+...+..+...|.+.|++++|.+++..+.+.+..++.       .+|..++...
T Consensus       162 l~l~~g~~~~Al~~l~~~~~-~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~  239 (398)
T PRK10747        162 IQLARNENHAARHGVDKLLE-VA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQA  239 (398)
T ss_pred             HHHHCCCHHHHHHHHHHHHh-cC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHH
Confidence            44445555555555555532 11 223444455555555555555555555555544332211       1222222222


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          174 LQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       174 ~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      ....+.+...++++...+. .+.++.....+..++.+.|+.+.|.+++.+..+..
T Consensus       240 ~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~  293 (398)
T PRK10747        240 MADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQ  293 (398)
T ss_pred             HHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            2223333333333333221 12345556667777888888888888887776643

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

Probab=98.17  E-value=0.0001  Score=65.11  Aligned_cols=164  Identities=13%  Similarity=0.172  Sum_probs=99.8

Q ss_pred             ccccCCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-
Q 025612           53 MWRSRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPD-  127 (250)
Q Consensus        53 l~~~~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-  127 (250)
                      +...+...+.++.+-..|...+.+++|...+.+..  ...|+..    .+-..|...|.+|.|.+.|++..+   +.|+ 
T Consensus       245 vkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl--~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~---~~P~F  319 (966)
T KOG4626|consen  245 VKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRAL--NLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALE---LQPNF  319 (966)
T ss_pred             hcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHH--hcCCcchhhccceEEEEeccccHHHHHHHHHHHHh---cCCCc
Confidence            33355566677777778888888888888887754  2334332    244445566777777777776653   3444 


Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPD-TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHK-LTFTILI  205 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~ty~~li  205 (250)
                      ...||.|-.++-..|++.+|.+.|++...-  .|+ ....|.|-..|...|.+++|..+|..-.+  +.|.. ..++.|-
T Consensus       320 ~~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa  395 (966)
T KOG4626|consen  320 PDAYNNLANALKDKGSVTEAVDCYNKALRL--CPNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLA  395 (966)
T ss_pred             hHHHhHHHHHHHhccchHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHH
Confidence            456777777777777777777777765542  222 34455566666666666666666655544  33433 3455555


Q ss_pred             HHHHhcCCHHHHHHHHHHHH
Q 025612          206 RNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       206 ~~~~~~g~~~~a~~~~~~m~  225 (250)
                      ..|-..|++++|...+++..
T Consensus       396 ~i~kqqgnl~~Ai~~Ykeal  415 (966)
T KOG4626|consen  396 SIYKQQGNLDDAIMCYKEAL  415 (966)
T ss_pred             HHHHhcccHHHHHHHHHHHH
Confidence            55555666666555555544

>TIGR00540 hemY_coli hemY protein

Probab=98.17  E-value=0.00068  Score=58.96  Aligned_cols=56  Identities=16%  Similarity=0.275  Sum_probs=31.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 025612          168 EMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRD  223 (250)
Q Consensus       168 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~  223 (250)
                      ++-..|.+.|++++|.+.|+........||...+..+-..+.+.|+.++|.+++++
T Consensus       340 sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~  395 (409)
T TIGR00540       340 ALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQD  395 (409)
T ss_pred             HHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            44455555666666666665332222345655555666666666666666666554

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.

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.17  E-value=0.00064  Score=63.86  Aligned_cols=156  Identities=11%  Similarity=0.029  Sum_probs=123.3

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcCccc--HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCC
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLLKAD--LLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNK  142 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~--~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~  142 (250)
                      ..+......|+.++|+++|.+.....-.+.  ...+-.++.+.|++++|..+|+...+.  -+.+...+..+...+...|
T Consensus        20 d~~~ia~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~l~~~g   97 (765)
T PRK10049         20 DWLQIALWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL--EPQNDDYQRGLILTLADAG   97 (765)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCC
Confidence            346668889999999999999876332222  236778889999999999999998652  1334667788889999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHH
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVAAVR  221 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~  221 (250)
                      ++++|...+++..+. -+.+.. +..+...+...|+.++|+..+++..+.  .| +...+..+..++.+.+..+.|.+.+
T Consensus        98 ~~~eA~~~l~~~l~~-~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~--~P~~~~~~~~la~~l~~~~~~e~Al~~l  173 (765)
T PRK10049         98 QYDEALVKAKQLVSG-APDKAN-LLALAYVYKRAGRHWDELRAMTQALPR--APQTQQYPTEYVQALRNNRLSAPALGAI  173 (765)
T ss_pred             CHHHHHHHHHHHHHh-CCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCChHHHHHHH
Confidence            999999999998775 223444 888888999999999999999999885  45 4455667788888899999998888


Q ss_pred             HHHHh
Q 025612          222 RDCIQ  226 (250)
Q Consensus       222 ~~m~~  226 (250)
                      +....
T Consensus       174 ~~~~~  178 (765)
T PRK10049        174 DDANL  178 (765)
T ss_pred             HhCCC
Confidence            75443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.15  E-value=0.0011  Score=65.09  Aligned_cols=50  Identities=24%  Similarity=0.195  Sum_probs=26.0

Q ss_pred             hcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          175 QVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       175 ~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      ..|++++|.+.|++..+.  .| +...+..+...|.+.|++++|...++...+
T Consensus       473 ~~g~~~eA~~~~~~Al~~--~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~  523 (1157)
T PRK11447        473 NQGKWAQAAELQRQRLAL--DPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQ  523 (1157)
T ss_pred             HCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345555555555555442  23 234444555555566666666666655543

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

Probab=98.11  E-value=0.00066  Score=54.19  Aligned_cols=128  Identities=15%  Similarity=0.187  Sum_probs=82.0

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----
Q 025612          100 TELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQ----  175 (250)
Q Consensus       100 ~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~----  175 (250)
                      ..|+..|++++|++..+.. .      +....-.=+..+.+..+++.|...++.|.+-   -+..|-+.|-.++++    
T Consensus       116 ~i~~~~~~~deAl~~~~~~-~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~g  185 (299)
T KOG3081|consen  116 IIYMHDGDFDEALKALHLG-E------NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATG  185 (299)
T ss_pred             HHhhcCCChHHHHHHHhcc-c------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhcc
Confidence            3466777788777777652 1      2333333334455667777777777777764   255666666666655    


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC-CchHHHHHH
Q 025612          176 VGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVE-FPERFLEEV  238 (250)
Q Consensus       176 ~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~-~pd~~~~~~  238 (250)
                      .+.+.+|.-+|++|-+. ..|++.+.+....++...|++++|+.++++...... .|+...+.+
T Consensus       186 gek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nli  248 (299)
T KOG3081|consen  186 GEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLI  248 (299)
T ss_pred             chhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHH
Confidence            34577777777777664 457777777777777777888888777777664433 355555544

>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=98.09  E-value=0.00026  Score=60.73  Aligned_cols=121  Identities=17%  Similarity=0.140  Sum_probs=99.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      +|+..+...++++.|..+|+++.+.   .|+.  .-.+.+.+...++-.+|.+++++.... .+-|....+.-...|.+.
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~---~pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~-~p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRER---DPEV--AVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhc---CCcH--HHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhc
Confidence            5888888889999999999999753   3553  455888888889999999999988754 233555556566778899


Q ss_pred             CChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025612          177 GMIDKAMETYETMKASGCTPHK-LTFTILIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g~~p~~-~ty~~li~~~~~~g~~~~a~~~~~~m~  225 (250)
                      ++.+.|+.+.++..+.  .|+. .+|..|..+|...|+++.|.-.++.+.
T Consensus       248 ~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  248 KKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            9999999999999984  5765 599999999999999999999888765

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

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

Probab=98.07  E-value=0.00011  Score=60.21  Aligned_cols=148  Identities=12%  Similarity=-0.015  Sum_probs=121.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHH-HHHHHHh
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTE-MIGVYLQ  175 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~-li~~~~~  175 (250)
                      .+-++|.+.|.+.+|++.|+.-.++   .|-+.||--|-+.|.+...++.|+.+|.+-.++  .|-.+||-. +.+.+-.
T Consensus       228 Q~gkCylrLgm~r~AekqlqssL~q---~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  228 QMGKCYLRLGMPRRAEKQLQSSLTQ---FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHhcChhhhHHHHHHHhhc---CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHH
Confidence            5888999999999999999987654   577889999999999999999999999987764  677777654 4466667


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCchHHHHHHHHhhhcc-cCcCC
Q 025612          176 VGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQKHRKT-QVDLV  250 (250)
Q Consensus       176 ~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~~~~~~~~~~~~-~~d~~  250 (250)
                      .++.++|.++|+...+.. .-|+....++-..|.-.++.|.|.+.++.+.+.|+.......++--.++-. ++||+
T Consensus       303 m~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~yaqQ~D~~  377 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCLYAQQIDLV  377 (478)
T ss_pred             HHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhhcchhhh
Confidence            899999999999987752 236667777888888899999999999999999999777777776666655 77774

>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=98.04  E-value=5.6e-05  Score=58.58  Aligned_cols=87  Identities=17%  Similarity=0.269  Sum_probs=73.0

Q ss_pred             HcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCC----------------CHHHHHHHHHHHHhCCCCCCHHHHH
Q 025612          104 RQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNK----------------QIAMAEELFCELKKEGLDPDTRVYT  167 (250)
Q Consensus       104 ~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~----------------~~~~A~~~~~~m~~~g~~p~~~ty~  167 (250)
                      +.|.++-....+..|. +.|+.-|..+|+.||+.+=+..                +-+-|++++++|+..|+.||..|+.
T Consensus        64 RRGHVeFI~aAL~~M~-efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~  142 (228)
T PF06239_consen   64 RRGHVEFIYAALKKMD-EFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDLLEQMENNGVMPDKETEQ  142 (228)
T ss_pred             CcChHHHHHHHHHHHH-HcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHHHHHHHHcCCCCcHHHHH
Confidence            6788888889999997 5999999999999999987632                2367899999999999999999999


Q ss_pred             HHHHHHHhcCCh-HHHHHHHHHHHH
Q 025612          168 EMIGVYLQVGMI-DKAMETYETMKA  191 (250)
Q Consensus       168 ~li~~~~~~g~~-~~a~~~~~~m~~  191 (250)
                      .|++.|++.+.. .+.++++-+|.+
T Consensus       143 ~ll~iFG~~s~p~~K~~rmmYWmpk  167 (228)
T PF06239_consen  143 MLLNIFGRKSHPMKKYRRMMYWMPK  167 (228)
T ss_pred             HHHHHhccccHHHHHHHHHHHHHHH
Confidence            999999998764 355666666654

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=98.03  E-value=0.00032  Score=60.16  Aligned_cols=119  Identities=17%  Similarity=0.130  Sum_probs=99.4

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCH
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQI  144 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~  144 (250)
                      +++.+...++++.|..+++++.+..  |++. .+...+...++-.+|.++.++..++  .+-|....+.-.+.|.+.++.
T Consensus       175 Ll~~l~~t~~~~~ai~lle~L~~~~--pev~~~LA~v~l~~~~E~~AI~ll~~aL~~--~p~d~~LL~~Qa~fLl~k~~~  250 (395)
T PF09295_consen  175 LLKYLSLTQRYDEAIELLEKLRERD--PEVAVLLARVYLLMNEEVEAIRLLNEALKE--NPQDSELLNLQAEFLLSKKKY  250 (395)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHhcC--CcHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCH
Confidence            5777778899999999999998766  6666 4777777888888999999998753  234677777778889999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHH
Q 025612          145 AMAEELFCELKKEGLDPDTR-VYTEMIGVYLQVGMIDKAMETYETMK  190 (250)
Q Consensus       145 ~~A~~~~~~m~~~g~~p~~~-ty~~li~~~~~~g~~~~a~~~~~~m~  190 (250)
                      +.|.++.+++.+.  .|+.+ +|..|..+|.+.|++++|+-.++.+-
T Consensus       251 ~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  251 ELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            9999999998874  56655 99999999999999999999888764

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

>TIGR00540 hemY_coli hemY protein

Probab=98.03  E-value=0.001  Score=57.87  Aligned_cols=162  Identities=11%  Similarity=0.025  Sum_probs=103.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcCcccH--H-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCC
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLLKADL--L-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNK  142 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~--~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~  142 (250)
                      ........|+.+.|...+.+..+..-.+..  . +....+...|+++.|...++.+.+. . +-+...+..+...|...|
T Consensus       124 aA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~-~-P~~~~~l~ll~~~~~~~~  201 (409)
T TIGR00540       124 AAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEM-A-PRHKEVLKLAEEAYIRSG  201 (409)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHHHh
Confidence            355566678888888888887543322222  1 3466667788888888888888652 2 235667778888888888


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHH-HHHHHH---HhcCChHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHhcCCHH
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYT-EMIGVY---LQVGMIDKAMETYETMKASG---CTPHKLTFTILIRNLENAGEEE  215 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~-~li~~~---~~~g~~~~a~~~~~~m~~~g---~~p~~~ty~~li~~~~~~g~~~  215 (250)
                      ++++|.+++..+.+.++.+.. .+. .-..++   ...+..+++.+.+..+.+..   .+.+...+..+...+...|+.+
T Consensus       202 d~~~a~~~l~~l~k~~~~~~~-~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~  280 (409)
T TIGR00540       202 AWQALDDIIDNMAKAGLFDDE-EFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHD  280 (409)
T ss_pred             hHHHHHHHHHHHHHcCCCCHH-HHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChH
Confidence            888888888888877654322 221 111111   22233333333444444331   1137778888888999999999


Q ss_pred             HHHHHHHHHHhccCC
Q 025612          216 LVAAVRRDCIQYVEF  230 (250)
Q Consensus       216 ~a~~~~~~m~~~g~~  230 (250)
                      .|.+++++..+..-.
T Consensus       281 ~A~~~l~~~l~~~pd  295 (409)
T TIGR00540       281 SAQEIIFDGLKKLGD  295 (409)
T ss_pred             HHHHHHHHHHhhCCC
Confidence            999999888765433

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.

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

Probab=98.02  E-value=0.0016  Score=62.46  Aligned_cols=163  Identities=12%  Similarity=0.105  Sum_probs=119.0

Q ss_pred             hcCChhHHHHHHHHHHHhcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 025612           72 LAKSSSKLEEGFQSRICRLLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEEL  150 (250)
Q Consensus        72 ~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~  150 (250)
                      .-|.-+...++|++..+.--...+. .|...|.+.+++++|-++++.|.+..+  .....|...+..+.++.+-++|..+
T Consensus      1509 ~yG~eesl~kVFeRAcqycd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~l 1586 (1710)
T KOG1070|consen 1509 AYGTEESLKKVFERACQYCDAYTVHLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAAREL 1586 (1710)
T ss_pred             hhCcHHHHHHHHHHHHHhcchHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHH
Confidence            3355556666666665543333333 688888888888899999999887655  5677888888888888888888888


Q ss_pred             HHHHHhCCCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          151 FCELKKEGLDPD---TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       151 ~~~m~~~g~~p~---~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      +.+..+.  -|-   .....-.+..=.+.|+.+++..+|+...... .--...|+..|+.=.++|+.+.+..+|+.....
T Consensus      1587 L~rAL~~--lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l 1663 (1710)
T KOG1070|consen 1587 LKRALKS--LPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIEL 1663 (1710)
T ss_pred             HHHHHhh--cchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhc
Confidence            8876553  233   2223334444567899999999999887652 224567999999999999999999999999999


Q ss_pred             cCCch--HHHHHHH
Q 025612          228 VEFPE--RFLEEVY  239 (250)
Q Consensus       228 g~~pd--~~~~~~~  239 (250)
                      ++.|-  .|.|..-
T Consensus      1664 ~l~~kkmKfffKkw 1677 (1710)
T KOG1070|consen 1664 KLSIKKMKFFFKKW 1677 (1710)
T ss_pred             CCChhHhHHHHHHH
Confidence            99876  4455433

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

Probab=98.00  E-value=0.0028  Score=49.69  Aligned_cols=175  Identities=12%  Similarity=0.039  Sum_probs=131.4

Q ss_pred             cHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHH
Q 025612           60 SSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKP-DLSLYSDM  134 (250)
Q Consensus        60 ~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~l  134 (250)
                      ...-+.+--+|...|+...|..-+++..+..  |+..    .+-..|-+.|+.+.|.+-|+...+   +.| +..+.|.-
T Consensus        35 a~arlqLal~YL~~gd~~~A~~nlekAL~~D--Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls---l~p~~GdVLNNY  109 (250)
T COG3063          35 AKARLQLALGYLQQGDYAQAKKNLEKALEHD--PSYYLAHLVRAHYYQKLGENDLADESYRKALS---LAPNNGDVLNNY  109 (250)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCChhhHHHHHHHHHh---cCCCccchhhhh
Confidence            3445567788889999999999999987653  4333    466777799999999999998764   233 35566777


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 025612          135 ILMLGKNKQIAMAEELFCELKKE-GLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGE  213 (250)
Q Consensus       135 i~~~~~~~~~~~A~~~~~~m~~~-g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~  213 (250)
                      =..+|..|++++|...|++-... ...--..||..+.-+..+.|+.+.|.+.|++-.+.. .-...+...+.+.....|+
T Consensus       110 G~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~  188 (250)
T COG3063         110 GAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGD  188 (250)
T ss_pred             hHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhccc
Confidence            77789999999999999987765 333346788888888889999999999999877642 1133677788888999999


Q ss_pred             HHHHHHHHHHHHhccCC-chHHHHHHHH
Q 025612          214 EELVAAVRRDCIQYVEF-PERFLEEVYQ  240 (250)
Q Consensus       214 ~~~a~~~~~~m~~~g~~-pd~~~~~~~~  240 (250)
                      +-.|...++.....|.. -+.+.=.++.
T Consensus       189 y~~Ar~~~~~~~~~~~~~A~sL~L~iri  216 (250)
T COG3063         189 YAPARLYLERYQQRGGAQAESLLLGIRI  216 (250)
T ss_pred             chHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            99999999888876553 3333333433

>PRK11189 lipoprotein NlpI; Provisional

Probab=97.96  E-value=0.0076  Score=50.08  Aligned_cols=159  Identities=14%  Similarity=0.041  Sum_probs=99.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHcCC
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMILMLGKNK  142 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~~~~~~~  142 (250)
                      .-..+...|+.++|...|++..+..-. |... .+-..+...|++++|...|+...+   +.| +...|..+-..+...|
T Consensus        70 ~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~---l~P~~~~a~~~lg~~l~~~g  146 (296)
T PRK11189         70 RGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLE---LDPTYNYAYLNRGIALYYGG  146 (296)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCC
Confidence            344566778888888888887653321 1122 456667788888888888888764   234 3566777777777888


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC-----------------------------
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASG-----------------------------  193 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g-----------------------------  193 (250)
                      ++++|.+.|+.....  .|+..........+...++.++|...|.+.....                             
T Consensus       147 ~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~~~~~~~~~~~~~~lg~~~~~~~~~~~~~~  224 (296)
T PRK11189        147 RYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKLDKEQWGWNIVEFYLGKISEETLMERLKAG  224 (296)
T ss_pred             CHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhCCccccHHHHHHHHccCCCHHHHHHHHHhc
Confidence            888888888776653  3433222222222334556666666664432110                             


Q ss_pred             CC------C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC
Q 025612          194 CT------P-HKLTFTILIRNLENAGEEELVAAVRRDCIQYVE  229 (250)
Q Consensus       194 ~~------p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~  229 (250)
                      +.      | ....|..+-..+.+.|++++|...|+...+.+.
T Consensus       225 ~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        225 ATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             CCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            00      0 113566677778888999999999988876553

>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=97.90  E-value=0.00047  Score=56.98  Aligned_cols=134  Identities=16%  Similarity=0.101  Sum_probs=97.4

Q ss_pred             CcHHHHHH-HHHHHhcCChhHHHHHHHHHHHhcCcccHHHHHHHHH----HcCCHHHHHHHHHHHHHhCCCCCCHHHHHH
Q 025612           59 LSSEAIQA-VHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELR----RQNELDLALKVFNFVRKEVWYKPDLSLYSD  133 (250)
Q Consensus        59 ~~~~~~~l-l~~~~~~~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~----~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~  133 (250)
                      .+-+.+.+ +..+.+.++++.|.+.++.|.+..-.-....+..++.    -.+.+.+|..+|+++.  ....++..+.|.
T Consensus       129 ~~lE~~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  129 GSLELLALAVQILLKMNRPDLAEKELKNMQQIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEELS--DKFGSTPKLLNG  206 (290)
T ss_dssp             TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHH--CCS--SHHHHHH
T ss_pred             CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHH--hccCCCHHHHHH
Confidence            45566655 8899999999999999999986543222223444433    3457999999999995  446688999999


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh-HHHHHHHHHHHHCCCCCC
Q 025612          134 MILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMI-DKAMETYETMKASGCTPH  197 (250)
Q Consensus       134 li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~-~~a~~~~~~m~~~g~~p~  197 (250)
                      +..++...|++++|.+++.+..+.. +-|..|...+|......|+. +.+.+++.+++..  .|+
T Consensus       207 ~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~--~p~  268 (290)
T PF04733_consen  207 LAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS--NPN  268 (290)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH--TTT
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh--CCC
Confidence            9999999999999999999976543 23556666778777788887 7788899998874  354

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

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

Probab=97.90  E-value=0.00099  Score=49.14  Aligned_cols=116  Identities=13%  Similarity=0.089  Sum_probs=69.9

Q ss_pred             HcCCHHHHHHHHHHHHHhCCCCCCHHH---HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCC
Q 025612          104 RQNELDLALKVFNFVRKEVWYKPDLSL---YSDMILMLGKNKQIAMAEELFCELKKEGLDPDT--RVYTEMIGVYLQVGM  178 (250)
Q Consensus       104 ~~~~~~~a~~~~~~m~~~~g~~~~~~~---y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~--~ty~~li~~~~~~g~  178 (250)
                      ..++...+...++.+.++.  +.+...   .=.+-..+...|++++|...|+......-.|+.  ...-.|...+...|+
T Consensus        23 ~~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~  100 (145)
T PF09976_consen   23 QAGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQ  100 (145)
T ss_pred             HCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCC
Confidence            4677777777777776432  112111   122335566777888888888777776522221  233334566677778


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 025612          179 IDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRD  223 (250)
Q Consensus       179 ~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~  223 (250)
                      +++|+..++.......  ....+...-+.|.+.|+.++|...|+.
T Consensus       101 ~d~Al~~L~~~~~~~~--~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  101 YDEALATLQQIPDEAF--KALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHHhccCcch--HHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            8888877766444332  334555666777778888887777764

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

Probab=97.89  E-value=0.00079  Score=48.70  Aligned_cols=95  Identities=15%  Similarity=0.098  Sum_probs=50.1

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 025612          131 YSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLEN  210 (250)
Q Consensus       131 y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~  210 (250)
                      ...+...+...|++++|.+.|+.....+ +.+...|..+-..|.+.|++++|..+++...+.+ ..+..++..+-..|..
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~   97 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLA   97 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHH
Confidence            3444455555566666666665554432 2244555555555555566666666665554432 2234445555555555


Q ss_pred             cCCHHHHHHHHHHHHhc
Q 025612          211 AGEEELVAAVRRDCIQY  227 (250)
Q Consensus       211 ~g~~~~a~~~~~~m~~~  227 (250)
                      .|+++.|.+.|+...+.
T Consensus        98 ~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        98 LGEPESALKALDLAIEI  114 (135)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            66666666666555443

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

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

Probab=97.89  E-value=0.0026  Score=50.64  Aligned_cols=123  Identities=10%  Similarity=-0.016  Sum_probs=101.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  177 (250)
                      ......+.|++..|...|++..  ..-++|...||.+=-+|-+.|++++|..-|.+..+- ..-+...+|.|.-.|.-.|
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 QGKNQIRNGNFGEAVSVLRKAA--RLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALEL-APNEPSIANNLGMSLLLRG  182 (257)
T ss_pred             HHHHHHHhcchHHHHHHHHHHh--ccCCCChhhhhHHHHHHHHccChhHHHHHHHHHHHh-ccCCchhhhhHHHHHHHcC
Confidence            5677778899999999999985  445778999999999999999999999999887764 1224567888888888899


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 025612          178 MIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDC  224 (250)
Q Consensus       178 ~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m  224 (250)
                      +.+.|..++..-...+-. |...-..+.-+....|+++.|+.+...-
T Consensus       183 d~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~~~e  228 (257)
T COG5010         183 DLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIAVQE  228 (257)
T ss_pred             CHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhcccc
Confidence            999999999998887643 5666777888888999999999876543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.86  E-value=0.0044  Score=54.89  Aligned_cols=162  Identities=12%  Similarity=0.097  Sum_probs=117.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHh-----cC-cccHHHH----HHHHHHcCCHHHHHHHHHHHHH----hCC-CCC-CH
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICR-----LL-KADLLDT----LTELRRQNELDLALKVFNFVRK----EVW-YKP-DL  128 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~-----~~-~~~~~~l----l~~~~~~~~~~~a~~~~~~m~~----~~g-~~~-~~  128 (250)
                      .+...|...|+++.|..++.+..+.     |. .|.+.++    -..|...+++++|..+|+.+..    ..| -.| -.
T Consensus       204 ~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va  283 (508)
T KOG1840|consen  204 NLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVA  283 (508)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHH
Confidence            3678888999999999999997643     32 3444444    4466688999999999998642    112 122 25


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHh---C--CCC-CCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHC---CCCCC-
Q 025612          129 SLYSDMILMLGKNKQIAMAEELFCELKK---E--GLD-PDT-RVYTEMIGVYLQVGMIDKAMETYETMKAS---GCTPH-  197 (250)
Q Consensus       129 ~~y~~li~~~~~~~~~~~A~~~~~~m~~---~--g~~-p~~-~ty~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p~-  197 (250)
                      .+++.|-..|++.|++++|...++...+   +  |.. |.. .-++.+...|...+++++|..+++.-.+.   -..++ 
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            6778888899999999988887766422   1  222 222 33677788899999999999999875432   12232 


Q ss_pred             ---HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          198 ---KLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       198 ---~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                         ..+|+.|-..|...|++++|+++++....
T Consensus       364 ~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~  395 (508)
T KOG1840|consen  364 VNLAKIYANLAELYLKMGKYKEAEELYKKAIQ  395 (508)
T ss_pred             hHHHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence               26799999999999999999999998754

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

Probab=97.85  E-value=0.00095  Score=54.93  Aligned_cols=165  Identities=14%  Similarity=0.026  Sum_probs=129.3

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHcCC
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLY-SDMILMLGKNK  142 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y-~~li~~~~~~~  142 (250)
                      .+-++|.+.|.+.+|...+..-.+.--.||.. -|-++|.+..+.+.|+.+|.+-.+.   -|-.+|| .-.-+.+-..+
T Consensus       228 Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~---fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  228 QMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS---FPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc---CCchhhhhhhhHHHHHHHH
Confidence            46788889999999999999887776667777 4778899999999999999987642   3444555 44557777788


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRR  222 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~  222 (250)
                      +.++|.++|....+. -..+.....++-.+|.-.++.+-|+++|+++.+.|+. ++..|+.+--+|.-.+++|.+.--|.
T Consensus       305 ~~~~a~~lYk~vlk~-~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKL-HPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             hHHHHHHHHHHHHhc-CCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            999999999987664 1335666777778899999999999999999999985 78888888888888889988877766


Q ss_pred             HHHh----ccCCchHH
Q 025612          223 DCIQ----YVEFPERF  234 (250)
Q Consensus       223 ~m~~----~g~~pd~~  234 (250)
                      ....    .|...|.+
T Consensus       383 RAlstat~~~~aaDvW  398 (478)
T KOG1129|consen  383 RALSTATQPGQAADVW  398 (478)
T ss_pred             HHHhhccCcchhhhhh
Confidence            6543    44445444

>PRK11189 lipoprotein NlpI; Provisional

Probab=97.83  E-value=0.0088  Score=49.68  Aligned_cols=146  Identities=11%  Similarity=0.023  Sum_probs=106.4

Q ss_pred             CChhHHHHHHHHHHHhc-CcccHH-----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHH
Q 025612           74 KSSSKLEEGFQSRICRL-LKADLL-----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMA  147 (250)
Q Consensus        74 ~~~~~a~~l~~~m~~~~-~~~~~~-----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A  147 (250)
                      ++.+.+..-+.++.... ..|+..     .+-..+.+.|+.++|...|++..+ .. +.+...|+.+-..|...|++++|
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~-l~-P~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALA-LR-PDMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-cC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            44455666666665432 333321     244467789999999999999875 22 33588999999999999999999


Q ss_pred             HHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025612          148 EELFCELKKEGLDPD-TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       148 ~~~~~~m~~~g~~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~  225 (250)
                      ...|+...+.  .|+ ..+|..+...+...|++++|.+.|+...+.  .|+..........+...++.++|.+.+....
T Consensus       118 ~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        118 YEAFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            9999998764  454 677888888899999999999999998774  4654322233333456778999999997654

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

Probab=97.83  E-value=0.00067  Score=55.87  Aligned_cols=124  Identities=15%  Similarity=0.178  Sum_probs=52.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhc-CcccHH-H-HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcC
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRL-LKADLL-D-TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKN  141 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~-~~~~~~-~-ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~  141 (250)
                      .+++.+.+.+..+.|..+|.+..+.+ +..++. . -.-.+...++.+.|.++|+...+.  +..+...|..-|+.+.+.
T Consensus         6 ~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~--f~~~~~~~~~Y~~~l~~~   83 (280)
T PF05843_consen    6 QYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK--FPSDPDFWLEYLDFLIKL   83 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH--HTT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHh
Confidence            33444444444555555555554322 122222 1 111122234444455555554432  223444455555555555


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 025612          142 KQIAMAEELFCELKKEGLDPDT---RVYTEMIGVYLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~~g~~p~~---~ty~~li~~~~~~g~~~~a~~~~~~m~~  191 (250)
                      ++.+.|..+|+..... +.++.   ..|...|.-=.+.|+++.+.++.+++.+
T Consensus        84 ~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   84 NDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             T-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555555554433 11111   2455555555555555555555555544

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.

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

Probab=97.79  E-value=0.0021  Score=46.46  Aligned_cols=105  Identities=15%  Similarity=0.132  Sum_probs=80.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      .+...+...|++++|...|+...+ .+ +.+...|..+-..|.+.|++++|...|++....+ +.+..+|..+-..|...
T Consensus        22 ~~a~~~~~~~~~~~A~~~~~~~~~-~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~   98 (135)
T TIGR02552        22 ALAYNLYQQGRYDEALKLFQLLAA-YD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLAL   98 (135)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHH-hC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHc
Confidence            466677788999999999998864 22 3467788888889999999999999999876653 44567777777888899


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 025612          177 GMIDKAMETYETMKASGCTPHKLTFTILIR  206 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g~~p~~~ty~~li~  206 (250)
                      |+.++|...|+...+.  .|+...+..+..
T Consensus        99 g~~~~A~~~~~~al~~--~p~~~~~~~~~~  126 (135)
T TIGR02552        99 GEPESALKALDLAIEI--CGENPEYSELKE  126 (135)
T ss_pred             CCHHHHHHHHHHHHHh--ccccchHHHHHH
Confidence            9999999999888774  466655544433

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

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.78  E-value=0.0023  Score=44.83  Aligned_cols=97  Identities=18%  Similarity=0.112  Sum_probs=42.6

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC--CCCCHHHHHHHHH
Q 025612          131 YSDMILMLGKNKQIAMAEELFCELKKEGL--DPDTRVYTEMIGVYLQVGMIDKAMETYETMKASG--CTPHKLTFTILIR  206 (250)
Q Consensus       131 y~~li~~~~~~~~~~~A~~~~~~m~~~g~--~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~ty~~li~  206 (250)
                      +-.+...+.+.|++++|.+.|+++....-  ......+..+...+.+.|++++|...|+......  .......+..+-.
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            33444444455555555555555443210  0012233334445555555555555555544321  1111233444444


Q ss_pred             HHHhcCCHHHHHHHHHHHHhc
Q 025612          207 NLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       207 ~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      ++.+.|+.++|.+.+++..+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            455555555555555555444

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.

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

Probab=97.77  E-value=0.0079  Score=49.53  Aligned_cols=161  Identities=13%  Similarity=0.020  Sum_probs=111.0

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcCcccHH------HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLLKADLL------DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILML  138 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~------~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~  138 (250)
                      .+-+.|-+.|..++|+.+...+.++---+...      .|-.-|-..|-+|.|+++|..+..+..  --...--.|+..|
T Consensus        74 tLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~e--fa~~AlqqLl~IY  151 (389)
T COG2956          74 TLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGE--FAEGALQQLLNIY  151 (389)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchh--hhHHHHHHHHHHH
Confidence            44566667789999998888876543222111      366667788889999999998864221  2245567888889


Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHhcCC
Q 025612          139 GKNKQIAMAEELFCELKKEGLDPDT----RVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFT-ILIRNLENAGE  213 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~~g~~p~~----~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~-~li~~~~~~g~  213 (250)
                      -...+|++|+++-.++...|-.+..    ..|.-|-..+....+++.|...+.+-.+..  |+.+--+ .+=+.+...|+
T Consensus       152 Q~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~--~~cvRAsi~lG~v~~~~g~  229 (389)
T COG2956         152 QATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQAD--KKCVRASIILGRVELAKGD  229 (389)
T ss_pred             HHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhC--ccceehhhhhhHHHHhccc
Confidence            9999999999988888776433332    234445555555678888888888877653  4443333 34467778999


Q ss_pred             HHHHHHHHHHHHhccC
Q 025612          214 EELVAAVRRDCIQYVE  229 (250)
Q Consensus       214 ~~~a~~~~~~m~~~g~  229 (250)
                      +..|.+.+....+.+.
T Consensus       230 y~~AV~~~e~v~eQn~  245 (389)
T COG2956         230 YQKAVEALERVLEQNP  245 (389)
T ss_pred             hHHHHHHHHHHHHhCh
Confidence            9999999988877654

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

Probab=97.77  E-value=0.0047  Score=52.38  Aligned_cols=152  Identities=16%  Similarity=0.061  Sum_probs=105.7

Q ss_pred             HHHhcCChhHHHHHHHHHHHhcCcccHHHHHH---HHHH----cCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHc
Q 025612           69 AMKLAKSSSKLEEGFQSRICRLLKADLLDTLT---ELRR----QNELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGK  140 (250)
Q Consensus        69 ~~~~~~~~~~a~~l~~~m~~~~~~~~~~~ll~---~~~~----~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~  140 (250)
                      .+...|++++|..++++..+.  .|+....+.   .+..    .+..+.+.+.+...   ....|+ ......+-..+..
T Consensus        52 ~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~~~~~~a~~~~~  126 (355)
T cd05804          52 SAWIAGDLPKALALLEQLLDD--YPRDLLALKLHLGAFGLGDFSGMRDHVARVLPLW---APENPDYWYLLGMLAFGLEE  126 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHhHHHHHhcccccCchhHHHHHhcc---CcCCCCcHHHHHHHHHHHHH
Confidence            345679999999999998764  233321111   2222    34555555555441   222333 3444556677889


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCCCH--HHHHHHHHHHHhcCCHHHH
Q 025612          141 NKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASG-CTPHK--LTFTILIRNLENAGEEELV  217 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~--~ty~~li~~~~~~g~~~~a  217 (250)
                      .|++++|...+++..+.. +.+...+..+-..|...|++++|...+++..... ..|+.  ..|..+...+...|++++|
T Consensus       127 ~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A  205 (355)
T cd05804         127 AGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAA  205 (355)
T ss_pred             cCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHH
Confidence            999999999999988753 3346677888889999999999999999877642 12333  3466788899999999999


Q ss_pred             HHHHHHHHh
Q 025612          218 AAVRRDCIQ  226 (250)
Q Consensus       218 ~~~~~~m~~  226 (250)
                      .+++++...
T Consensus       206 ~~~~~~~~~  214 (355)
T cd05804         206 LAIYDTHIA  214 (355)
T ss_pred             HHHHHHHhc
Confidence            999999854

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.

>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=0.0011  Score=43.42  Aligned_cols=93  Identities=14%  Similarity=0.141  Sum_probs=50.0

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 025612          131 YSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLEN  210 (250)
Q Consensus       131 y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~  210 (250)
                      |..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|.+.|+.....+ ..+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            3344455555666666666666554431 1222445555555566666666666666555432 1233455555566666


Q ss_pred             cCCHHHHHHHHHHHH
Q 025612          211 AGEEELVAAVRRDCI  225 (250)
Q Consensus       211 ~g~~~~a~~~~~~m~  225 (250)
                      .|+++.|.+.+....
T Consensus        81 ~~~~~~a~~~~~~~~   95 (100)
T cd00189          81 LGKYEEALEAYEKAL   95 (100)
T ss_pred             HHhHHHHHHHHHHHH
Confidence            666666666655544

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.75  E-value=0.0072  Score=44.51  Aligned_cols=90  Identities=14%  Similarity=0.015  Sum_probs=39.4

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 025612          134 MILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGE  213 (250)
Q Consensus       134 li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~  213 (250)
                      +-..+...|++++|...|+...... +.+...|..+-..+.+.|++++|...|+...... ..+...+..+-.++.+.|+
T Consensus        30 ~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~  107 (144)
T PRK15359         30 SGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGE  107 (144)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCC
Confidence            3334444444444444444443321 1233444444444444444444444444444321 1133444444444444444


Q ss_pred             HHHHHHHHHHHH
Q 025612          214 EELVAAVRRDCI  225 (250)
Q Consensus       214 ~~~a~~~~~~m~  225 (250)
                      +++|.+.|+...
T Consensus       108 ~~eAi~~~~~Al  119 (144)
T PRK15359        108 PGLAREAFQTAI  119 (144)
T ss_pred             HHHHHHHHHHHH
Confidence            444444444443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.75  E-value=0.0035  Score=46.19  Aligned_cols=101  Identities=8%  Similarity=-0.066  Sum_probs=82.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      ..-.++...|++++|...|+.... .. +.+...|..+-.++.+.|++++|...|+..... -+.+..++..+-.++.+.
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~-~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l-~p~~~~a~~~lg~~l~~~  105 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVM-AQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALML-DASHPEPVYQTGVCLKMM  105 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH-cC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-CCCCcHHHHHHHHHHHHc
Confidence            455677899999999999999864 22 346888899999999999999999999998874 244778889999999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHH
Q 025612          177 GMIDKAMETYETMKASGCTPHKLTFT  202 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g~~p~~~ty~  202 (250)
                      |+.++|...|+...+.  .|+...|.
T Consensus       106 g~~~eAi~~~~~Al~~--~p~~~~~~  129 (144)
T PRK15359        106 GEPGLAREAFQTAIKM--SYADASWS  129 (144)
T ss_pred             CCHHHHHHHHHHHHHh--CCCChHHH
Confidence            9999999999998774  46554444

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

Probab=97.73  E-value=0.014  Score=45.94  Aligned_cols=168  Identities=14%  Similarity=0.072  Sum_probs=130.1

Q ss_pred             cCCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHHH----HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHH
Q 025612           56 SRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLD----TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLY  131 (250)
Q Consensus        56 ~~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~~----ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y  131 (250)
                      .+...-....+...|-+.|+.+.|.+-|++..+  +.|+...    .=.-+|..|++++|.+.|+.......+..-..||
T Consensus        65 DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls--l~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~  142 (250)
T COG3063          65 DPSYYLAHLVRAHYYQKLGENDLADESYRKALS--LAPNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTL  142 (250)
T ss_pred             CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHh--cCCCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhh
Confidence            333333333447777888999999999999764  3343333    3344678999999999999987654444456789


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 025612          132 SDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENA  211 (250)
Q Consensus       132 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~  211 (250)
                      ..+--+..++|+++.|.+.|.+-.+.. +-...+.-.+-....+.|++-.|..+++.....|. ++..+....|+.-.+.
T Consensus       143 eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~  220 (250)
T COG3063         143 ENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPARLYLERYQQRGG-AQAESLLLGIRIAKRL  220 (250)
T ss_pred             hhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHHHHHHHHHhccc-ccHHHHHHHHHHHHHh
Confidence            999888999999999999999877651 11345566777888899999999999999888876 9999999999999999


Q ss_pred             CCHHHHHHHHHHHHhc
Q 025612          212 GEEELVAAVRRDCIQY  227 (250)
Q Consensus       212 g~~~~a~~~~~~m~~~  227 (250)
                      |+.+.+.+.=..+.+.
T Consensus       221 gd~~~a~~Y~~qL~r~  236 (250)
T COG3063         221 GDRAAAQRYQAQLQRL  236 (250)
T ss_pred             ccHHHHHHHHHHHHHh
Confidence            9999998887777654

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

Probab=97.70  E-value=0.00069  Score=60.18  Aligned_cols=158  Identities=15%  Similarity=0.058  Sum_probs=79.9

Q ss_pred             CcHHHHHHHHHHHhcCChhHHHHHHHHHHHhc-Ccc---cHH--------------------------------HHHHHH
Q 025612           59 LSSEAIQAVHAMKLAKSSSKLEEGFQSRICRL-LKA---DLL--------------------------------DTLTEL  102 (250)
Q Consensus        59 ~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~-~~~---~~~--------------------------------~ll~~~  102 (250)
                      .+|-...+-++|...+++++|.++|+...+.. ...   ++.                                ++=+.|
T Consensus       352 t~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~sPesWca~GNcf  431 (638)
T KOG1126|consen  352 TGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLIDTDPNSPESWCALGNCF  431 (638)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHhhCCCCcHHHHHhcchh
Confidence            34555667777888888888888888775321 111   110                                122334


Q ss_pred             HHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHH---HHHHHhcCC
Q 025612          103 RRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEM---IGVYLQVGM  178 (250)
Q Consensus       103 ~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~l---i~~~~~~g~  178 (250)
                      .-.++.+.|.+.|+....   +.| .+.+|+-+=+-+.....+|.|...|..-.    .+|...||++   -..|.+.++
T Consensus       432 SLQkdh~~Aik~f~RAiQ---ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al----~~~~rhYnAwYGlG~vy~Kqek  504 (638)
T KOG1126|consen  432 SLQKDHDTAIKCFKRAIQ---LDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL----GVDPRHYNAWYGLGTVYLKQEK  504 (638)
T ss_pred             hhhhHHHHHHHHHHHhhc---cCCccchhhhhcCChhhhhHHHHhHHHHHHhhh----cCCchhhHHHHhhhhheeccch
Confidence            445667777777776542   233 34444444444444445555555544432    2344445443   234445555


Q ss_pred             hHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025612          179 IDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       179 ~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~  225 (250)
                      ++.|+-.|+...+  +.| |.+....+-..+.+.|+.|+|.+++++..
T Consensus       505 ~e~Ae~~fqkA~~--INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~  550 (638)
T KOG1126|consen  505 LEFAEFHFQKAVE--INPSNSVILCHIGRIQHQLKRKDKALQLYEKAI  550 (638)
T ss_pred             hhHHHHHHHhhhc--CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHH
Confidence            5555555554444  223 33444444444445555555555554443

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

Probab=97.69  E-value=0.0062  Score=48.80  Aligned_cols=151  Identities=14%  Similarity=0.055  Sum_probs=110.9

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH----cC
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG----KN  141 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~----~~  141 (250)
                      ..-|+..+++++|++....    +...+.. .=+..+.|..+++.|.+..+.|..    --+..|.+-|-.++.    -.
T Consensus       115 a~i~~~~~~~deAl~~~~~----~~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~----ided~tLtQLA~awv~la~gg  186 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHL----GENLEAAALNVQILLKMHRFDLAEKELKKMQQ----IDEDATLTQLAQAWVKLATGG  186 (299)
T ss_pred             hHHhhcCCChHHHHHHHhc----cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHc----cchHHHHHHHHHHHHHHhccc
Confidence            4557788999999988776    2222222 234556688999999999999974    235677776666665    35


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-HHHHHHH
Q 025612          142 KQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGE-EELVAAV  220 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~-~~~a~~~  220 (250)
                      +.+.+|.-+|++|.++ ..|+..+-|-...++...|++++|..++++.....-. ++.|...+|-+-.-.|. .+-..+.
T Consensus       187 ek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~  264 (299)
T KOG3081|consen  187 EKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVTERN  264 (299)
T ss_pred             hhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHHHHH
Confidence            6789999999999764 7899999999999999999999999999998776433 45666556555555555 4556677


Q ss_pred             HHHHHhc
Q 025612          221 RRDCIQY  227 (250)
Q Consensus       221 ~~~m~~~  227 (250)
                      +..++..
T Consensus       265 l~QLk~~  271 (299)
T KOG3081|consen  265 LSQLKLS  271 (299)
T ss_pred             HHHHHhc
Confidence            7776654

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

Probab=97.68  E-value=0.0071  Score=51.99  Aligned_cols=152  Identities=11%  Similarity=0.132  Sum_probs=95.2

Q ss_pred             HhcCChhHHHHHHHHHHHhcCc-cc-HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHH
Q 025612           71 KLAKSSSKLEEGFQSRICRLLK-AD-LLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAE  148 (250)
Q Consensus        71 ~~~~~~~~a~~l~~~m~~~~~~-~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~  148 (250)
                      ...|+.++|++.|-++..--.. .. .+.+-..|-...+...|.+++.+..  .-++-|....+.|-+.|-+.|+-..|.
T Consensus       535 e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~--slip~dp~ilskl~dlydqegdksqaf  612 (840)
T KOG2003|consen  535 EALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQAN--SLIPNDPAILSKLADLYDQEGDKSQAF  612 (840)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhc--ccCCCCHHHHHHHHHHhhcccchhhhh
Confidence            3457777777777665321110 01 1134555555666677777766652  334556777778888888888877777


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHhc
Q 025612          149 ELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLEN-AGEEELVAAVRRDCIQY  227 (250)
Q Consensus       149 ~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~-~g~~~~a~~~~~~m~~~  227 (250)
                      .++-+--. =++.|..|...|-..|....-++++..+|++..-  +.|+..-|..+|..|.| .|++..|.+++++..+.
T Consensus       613 q~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk  689 (840)
T KOG2003|consen  613 QCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK  689 (840)
T ss_pred             hhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            66543211 2444666666677777777777777777776544  56777777777777664 67777777777776543

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

Probab=97.65  E-value=0.013  Score=45.75  Aligned_cols=151  Identities=9%  Similarity=0.053  Sum_probs=109.5

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHH
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAM  146 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~  146 (250)
                      +-.|...|++..+..-...+.    .|.     ..+...++.+++...++...+..  +.|...|..|-..|...|++++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~----~~~-----~~~~~~~~~~~~i~~l~~~L~~~--P~~~~~w~~Lg~~~~~~g~~~~   91 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLA----DPL-----HQFASQQTPEAQLQALQDKIRAN--PQNSEQWALLGEYYLWRNDYDN   91 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHh----Ccc-----ccccCchhHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHCCCHHH
Confidence            556778899888643332211    111     12223566677777777765422  4578899999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCC--hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 025612          147 AEELFCELKKEGLDPDTRVYTEMIGV-YLQVGM--IDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRD  223 (250)
Q Consensus       147 A~~~~~~m~~~g~~p~~~ty~~li~~-~~~~g~--~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~  223 (250)
                      |...|++..... +-+...+..+-.+ |...|+  .++|.+++++..+..- -+...+..+-..+.+.|++++|...|+.
T Consensus        92 A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP-~~~~al~~LA~~~~~~g~~~~Ai~~~~~  169 (198)
T PRK10370         92 ALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDA-NEVTALMLLASDAFMQADYAQAIELWQK  169 (198)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCC-CChhHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999887742 2366677777765 467777  5999999999988642 2667888888999999999999999999


Q ss_pred             HHhccCC
Q 025612          224 CIQYVEF  230 (250)
Q Consensus       224 m~~~g~~  230 (250)
                      +.+..-+
T Consensus       170 aL~l~~~  176 (198)
T PRK10370        170 VLDLNSP  176 (198)
T ss_pred             HHhhCCC
Confidence            9765443

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

Probab=97.64  E-value=0.019  Score=48.40  Aligned_cols=132  Identities=8%  Similarity=0.022  Sum_probs=74.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH-------HHHHHHH
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDT-------RVYTEMI  170 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-------~ty~~li  170 (250)
                      .-......|+++.|..-.+++.+ .+ +-+.........+|.+.|++..+..++..|.+.|+--|.       .+|+.++
T Consensus       159 rarlll~~~d~~aA~~~v~~ll~-~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL  236 (400)
T COG3071         159 RARLLLNRRDYPAARENVDQLLE-MT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLL  236 (400)
T ss_pred             HHHHHHhCCCchhHHHHHHHHHH-hC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHH
Confidence            33334444555555544444432 11 223445555555666666666666666666555544332       3455555


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCch
Q 025612          171 GVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPE  232 (250)
Q Consensus       171 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd  232 (250)
                      +-....+..+.-...|++.... .+-++..-.+++.-+.++|+.+.|.++..+-.+.+..|.
T Consensus       237 ~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~  297 (400)
T COG3071         237 QQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR  297 (400)
T ss_pred             HHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh
Confidence            5544444444444444444322 233445566788888889999999999888887777776

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

Probab=97.61  E-value=0.006  Score=44.92  Aligned_cols=119  Identities=17%  Similarity=0.110  Sum_probs=86.9

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcCcccHH-----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHH
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLLKADLL-----DTLTELRRQNELDLALKVFNFVRKEVWYKPDL--SLYSDMILML  138 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~--~~y~~li~~~  138 (250)
                      ++..+ ..++...+...++.+.+..-.....     .+-..+...|++++|...|+.... ....|+.  ...-.|-..+
T Consensus        18 ~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~-~~~d~~l~~~a~l~LA~~~   95 (145)
T PF09976_consen   18 ALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALA-NAPDPELKPLARLRLARIL   95 (145)
T ss_pred             HHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-hCCCHHHHHHHHHHHHHHH
Confidence            34444 4799999999999988653322122     366788899999999999999975 4322321  2344567888


Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 025612          139 GKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYET  188 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~  188 (250)
                      ...|++++|...++......  .....+...-..|.+.|+.++|...|+.
T Consensus        96 ~~~~~~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   96 LQQGQYDEALATLQQIPDEA--FKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHcCCHHHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            89999999999997754332  3445566777899999999999999975

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

Probab=97.61  E-value=0.016  Score=49.93  Aligned_cols=154  Identities=18%  Similarity=0.169  Sum_probs=94.2

Q ss_pred             HHHHhcCChhHHHHHHHHHHHhc-Cccc---HHH--------------------------------HHHHHHHcCCHHHH
Q 025612           68 HAMKLAKSSSKLEEGFQSRICRL-LKAD---LLD--------------------------------TLTELRRQNELDLA  111 (250)
Q Consensus        68 ~~~~~~~~~~~a~~l~~~m~~~~-~~~~---~~~--------------------------------ll~~~~~~~~~~~a  111 (250)
                      .+.-..++++.|+.+|+++.+.. ...+   ..+                                +-+=|+-.++.++|
T Consensus       270 ~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKA  349 (559)
T KOG1155|consen  270 AASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKA  349 (559)
T ss_pred             HHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHH
Confidence            34446699999999999998752 1111   110                                11112233567899


Q ss_pred             HHHHHHHHHhCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCC--------------------------------
Q 025612          112 LKVFNFVRKEVWYKPD-LSLYSDMILMLGKNKQIAMAEELFCELKKEG--------------------------------  158 (250)
Q Consensus       112 ~~~~~~m~~~~g~~~~-~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g--------------------------------  158 (250)
                      ...|+...+   +.|. ...|+.+=+-|....+...|.+-++...+-+                                
T Consensus       350 v~YFkRALk---LNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~  426 (559)
T KOG1155|consen  350 VMYFKRALK---LNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALE  426 (559)
T ss_pred             HHHHHHHHh---cCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHh
Confidence            999998765   2333 5667777788888888888877777655421                                


Q ss_pred             CCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025612          159 LDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       159 ~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~  225 (250)
                      ++| |...|.+|-.+|.+.++.++|.+.|......|-. +...|..|-+.|-+.++.++|.+.+..-.
T Consensus       427 ~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~LakLye~l~d~~eAa~~yek~v  493 (559)
T KOG1155|consen  427 LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAKLYEELKDLNEAAQYYEKYV  493 (559)
T ss_pred             cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            122 4556666666666666666666666665554422 44556666666666666666655555443

>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=97.61  E-value=0.014  Score=52.12  Aligned_cols=159  Identities=11%  Similarity=0.057  Sum_probs=112.2

Q ss_pred             HHHHHHHHHHHhcCcccHHHHHHHHHHcCCHHHHHHHHHHHHHh---C----------CCCCCHHHH--HHHHHHHHcCC
Q 025612           78 KLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKE---V----------WYKPDLSLY--SDMILMLGKNK  142 (250)
Q Consensus        78 ~a~~l~~~m~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~----------g~~~~~~~y--~~li~~~~~~~  142 (250)
                      .+...+..+...|+++-...|-..|....+.+-..+++.....+   .          .-.|+...|  .-+-..|-+.|
T Consensus       129 ~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g  208 (517)
T PF12569_consen  129 RLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLG  208 (517)
T ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhC
Confidence            34455555556665443334555555555566666666665421   1          123444444  44556688899


Q ss_pred             CHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 025612          143 QIAMAEELFCELKKEGLDPD-TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVR  221 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~  221 (250)
                      ++++|++.+++-.+.  .|+ ...|..-.+.|-+.|++.+|.+.++.-+.... -|.+.=+-....+.|+|++++|++++
T Consensus       209 ~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~~e~A~~~~  285 (517)
T PF12569_consen  209 DYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDL-ADRYINSKCAKYLLRAGRIEEAEKTA  285 (517)
T ss_pred             CHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCh-hhHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999988776  466 55677778888899999999999999988754 37888888899999999999999999


Q ss_pred             HHHHhccCCchHHHHHHH
Q 025612          222 RDCIQYVEFPERFLEEVY  239 (250)
Q Consensus       222 ~~m~~~g~~pd~~~~~~~  239 (250)
                      ..-.+.+..|-..++.++
T Consensus       286 ~~Ftr~~~~~~~~L~~mQ  303 (517)
T PF12569_consen  286 SLFTREDVDPLSNLNDMQ  303 (517)
T ss_pred             HhhcCCCCCcccCHHHHH
Confidence            998888776655554443

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 [], [].

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.60  E-value=0.0096  Score=45.18  Aligned_cols=62  Identities=26%  Similarity=0.230  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 025612          130 LYSDMILMLGKNKQIAMAEELFCELKKEGLDPD--TRVYTEMIGVYLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       130 ~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~--~~ty~~li~~~~~~g~~~~a~~~~~~m~~  191 (250)
                      .|..+-..|...|++++|...|++....+-.+.  ...|..+...|.+.|++++|...+++..+
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  100 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE  100 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344444445555555555555555443221111  23444555555555555555555555444

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.60  E-value=0.015  Score=53.91  Aligned_cols=124  Identities=12%  Similarity=0.094  Sum_probs=99.0

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHh
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDT-RVYTEMIGVYLQ  175 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~ty~~li~~~~~  175 (250)
                      |-......|.+++|..+++...+   +.|+ ....-.+...+.+.+++++|...+++....  .|+. ...+.+-.++.+
T Consensus        92 La~i~~~~g~~~ea~~~l~~~~~---~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~~a~~l~~  166 (694)
T PRK15179         92 VARALEAAHRSDEGLAVWRGIHQ---RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILLEAKSWDE  166 (694)
T ss_pred             HHHHHHHcCCcHHHHHHHHHHHh---hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHH
Confidence            55566678999999999998864   4565 566677888999999999999999998775  4554 455666678888


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          176 VGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       176 ~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      .|++++|..+|++....+ .-+..++..+-.++-..|+.++|...|+...+.
T Consensus       167 ~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        167 IGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             hcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999998743 223688888889999999999999999987653

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

Probab=97.58  E-value=0.012  Score=50.92  Aligned_cols=122  Identities=14%  Similarity=0.089  Sum_probs=89.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHh
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPD-TRVYTEMIGVYLQ  175 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~ty~~li~~~~~  175 (250)
                      .--.+...|+++.|+..++.+.+.   .|+ ..-+......+.+.++.++|.+.++.+...  .|+ ...+-.+-.+|.+
T Consensus       312 ~A~~~~~~~~~d~A~~~l~~L~~~---~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~  386 (484)
T COG4783         312 RALQTYLAGQYDEALKLLQPLIAA---QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLK  386 (484)
T ss_pred             HHHHHHHhcccchHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHh
Confidence            333455778889999999988752   444 444555667888999999999999888774  566 4455556678888


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025612          176 VGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       176 ~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~  225 (250)
                      .|+..+|..++++-... .+-|+..|..|-++|...|+..++..-..+..
T Consensus       387 ~g~~~eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~  435 (484)
T COG4783         387 GGKPQEAIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARAEGY  435 (484)
T ss_pred             cCChHHHHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            99999999888887665 34477889999988888877666655555543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.55  E-value=0.016  Score=53.73  Aligned_cols=139  Identities=11%  Similarity=-0.043  Sum_probs=106.8

Q ss_pred             HHHHH-HHHHHHhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 025612           61 SEAIQ-AVHAMKLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMI  135 (250)
Q Consensus        61 ~~~~~-ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li  135 (250)
                      .+++. +.+.....|..++|..+|+....  +.|+..    .+..++.+.+++++|...+++... .. +-+....+.+-
T Consensus        86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~-~~-p~~~~~~~~~a  161 (694)
T PRK15179         86 ELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS-GG-SSSAREILLEA  161 (694)
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh-cC-CCCHHHHHHHH
Confidence            34443 35556677999999999999874  566665    588899999999999999999874 22 33566777888


Q ss_pred             HHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 025612          136 LMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILI  205 (250)
Q Consensus       136 ~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li  205 (250)
                      .++.+.|++++|.++|++.... -.-+..++..+-..+-+.|+.++|...|+...+. ..|...-|+..+
T Consensus       162 ~~l~~~g~~~~A~~~y~~~~~~-~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~-~~~~~~~~~~~~  229 (694)
T PRK15179        162 KSWDEIGQSEQADACFERLSRQ-HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDA-IGDGARKLTRRL  229 (694)
T ss_pred             HHHHHhcchHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-hCcchHHHHHHH
Confidence            8899999999999999999873 2234788888888999999999999999998664 124444554443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.51  E-value=0.034  Score=44.81  Aligned_cols=161  Identities=11%  Similarity=0.051  Sum_probs=112.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH-----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL-----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILM  137 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~  137 (250)
                      .......+...|++++|.+.|+++...--.+...     .+..++.+.+++++|...|++..+...-.|++ .|--.+.+
T Consensus        35 ~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~-~~a~Y~~g  113 (243)
T PRK10866         35 IYATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNI-DYVLYMRG  113 (243)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCch-HHHHHHHH
Confidence            3355666677899999999999998644333222     37788899999999999999998754444443 44444444


Q ss_pred             HHc-----------------CCCH---HHHHHHHHHHHhCCCCCCH------HHH------------HHHHHHHHhcCCh
Q 025612          138 LGK-----------------NKQI---AMAEELFCELKKEGLDPDT------RVY------------TEMIGVYLQVGMI  179 (250)
Q Consensus       138 ~~~-----------------~~~~---~~A~~~~~~m~~~g~~p~~------~ty------------~~li~~~~~~g~~  179 (250)
                      .+.                 ..+.   ..|...|+++.+.  -|++      ...            -.+.+-|.+.|.+
T Consensus       114 ~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y  191 (243)
T PRK10866        114 LTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAY  191 (243)
T ss_pred             HhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCch
Confidence            331                 1123   3455666666553  3432      111            1233468899999


Q ss_pred             HHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          180 DKAMETYETMKAS--GCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       180 ~~a~~~~~~m~~~--g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      ..|..-|+.+.+.  +........-.++++|...|..++|.++...+..
T Consensus       192 ~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~~  240 (243)
T PRK10866        192 VAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIAA  240 (243)
T ss_pred             HHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHhc
Confidence            9999999999876  5556667888999999999999999998877653

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

Probab=97.51  E-value=0.0051  Score=54.04  Aligned_cols=193  Identities=10%  Similarity=0.016  Sum_probs=126.8

Q ss_pred             cCCCCCCCccceeeeeccccCCCccccc----cCCCcHHHHHHHHHHHhcCChhHHHHHHHHHHH--hcCc-ccHHHHHH
Q 025612           28 ISLPSGKKIQALTVTCGLRDANKKPMWR----SRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRIC--RLLK-ADLLDTLT  100 (250)
Q Consensus        28 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~----~~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~--~~~~-~~~~~ll~  100 (250)
                      ....+|-++..-+...+....+|+-+.+    .+...+.++..-+.++-.+..+.|...+...-+  .|.. |.. =+--
T Consensus       310 ~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~L-Ylgm  388 (611)
T KOG1173|consen  310 SKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSL-YLGM  388 (611)
T ss_pred             CCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHH-HHHH
Confidence            3344566655555555666656553222    556677788788888888999988888887643  2222 222 2333


Q ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC--CCCC----CHHHHHHHHHHHH
Q 025612          101 ELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKE--GLDP----DTRVYTEMIGVYL  174 (250)
Q Consensus       101 ~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~--g~~p----~~~ty~~li~~~~  174 (250)
                      -|.+.++.+.|.++|.+...  -.+-|+...+-+=-..-..+.+.+|...|+.-.+.  .+.+    -..+++.|-..|.
T Consensus       389 ey~~t~n~kLAe~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~R  466 (611)
T KOG1173|consen  389 EYMRTNNLKLAEKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYR  466 (611)
T ss_pred             HHHHhccHHHHHHHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHH
Confidence            56678888888888887642  22335666666655555677888888888776521  1111    2345667777788


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 025612          175 QVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDC  224 (250)
Q Consensus       175 ~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m  224 (250)
                      +.+..++|+..|+.-.... .-|..||.++--.|.-.|+++.|.+.|++-
T Consensus       467 kl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKa  515 (611)
T KOG1173|consen  467 KLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKA  515 (611)
T ss_pred             HHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            8888888888888776642 236677777777788888888888887754

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.50  E-value=0.013  Score=40.96  Aligned_cols=96  Identities=13%  Similarity=-0.019  Sum_probs=65.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHH
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWY-KPDLSLYSDMILMLGKNKQIAMAEELFCELKKEG--LDPDTRVYTEMIGVY  173 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~-~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g--~~p~~~ty~~li~~~  173 (250)
                      .+...+.+.|++++|.+.|..+.+...- ......+..+...+.+.|+++.|...|+......  -......+..+...+
T Consensus         7 ~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~   86 (119)
T TIGR02795         7 DAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSL   86 (119)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHH
Confidence            4556667788888888888887643211 1113455667778888888888888888876531  111245566677777


Q ss_pred             HhcCChHHHHHHHHHHHHC
Q 025612          174 LQVGMIDKAMETYETMKAS  192 (250)
Q Consensus       174 ~~~g~~~~a~~~~~~m~~~  192 (250)
                      .+.|+.++|...+++..+.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        87 QELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHhCChHHHHHHHHHHHHH
Confidence            8888888888888888775

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

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

Probab=97.49  E-value=0.00028  Score=46.83  Aligned_cols=20  Identities=15%  Similarity=0.041  Sum_probs=9.6

Q ss_pred             HHHHHHcCCCHHHHHHHHHH
Q 025612          134 MILMLGKNKQIAMAEELFCE  153 (250)
Q Consensus       134 li~~~~~~~~~~~A~~~~~~  153 (250)
                      +-.+|.+.|++++|..+++.
T Consensus        31 la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen   31 LAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             HHHHHHHTTHHHHHHHHHHC
T ss_pred             HHHHHHHCCCHHHHHHHHHH
Confidence            44444444555555444444

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

Probab=97.47  E-value=0.00034  Score=46.38  Aligned_cols=81  Identities=16%  Similarity=0.167  Sum_probs=59.5

Q ss_pred             CCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 025612          141 NKQIAMAEELFCELKKEGL-DPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAA  219 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~~g~-~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~  219 (250)
                      .|+++.|..+|+++.+..- .|+...+-.+..+|.+.|++++|..+++. .+.+. .+....-.+-.+|.+.|++++|.+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            5789999999999987632 22455555689999999999999999998 32221 122444455788999999999999


Q ss_pred             HHHH
Q 025612          220 VRRD  223 (250)
Q Consensus       220 ~~~~  223 (250)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            9875

>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=97.42  E-value=0.0031  Score=45.29  Aligned_cols=85  Identities=15%  Similarity=0.159  Sum_probs=55.2

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHH---------------HhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCEL---------------KKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS  192 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m---------------~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  192 (250)
                      ..++.++|-++++.|+++....+++..               ..+.+.|+..+-.+++.+|+..|++..|+++.+...+.
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~   81 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRK   81 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            445556666666666666555555432               12245677777788888888888888888887776543


Q ss_pred             -CCCCCHHHHHHHHHHHHhcC
Q 025612          193 -GCTPHKLTFTILIRNLENAG  212 (250)
Q Consensus       193 -g~~p~~~ty~~li~~~~~~g  212 (250)
                       ++..+..+|..|++-+...-
T Consensus        82 Y~I~i~~~~W~~Ll~W~~v~s  102 (126)
T PF12921_consen   82 YPIPIPKEFWRRLLEWAYVLS  102 (126)
T ss_pred             cCCCCCHHHHHHHHHHHHHhc
Confidence             77777777777777665443

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

>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=97.41  E-value=0.0044  Score=40.44  Aligned_cols=91  Identities=15%  Similarity=0.141  Sum_probs=65.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  177 (250)
                      +...+...|++++|..+|+...+. . +.+...+..+...|...+++++|.+.|+...... +.+..++..+...+...|
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           6 LGNLYYKLGDYDEALEYYEKALEL-D-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHhcHHHHHHHHHHHHhc-C-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHH
Confidence            445566778888888888887642 1 2234667777788888888888888888876642 234457777788888888


Q ss_pred             ChHHHHHHHHHHHH
Q 025612          178 MIDKAMETYETMKA  191 (250)
Q Consensus       178 ~~~~a~~~~~~m~~  191 (250)
                      +.++|...+....+
T Consensus        83 ~~~~a~~~~~~~~~   96 (100)
T cd00189          83 KYEEALEAYEKALE   96 (100)
T ss_pred             hHHHHHHHHHHHHc
Confidence            88888888877655

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

Probab=97.39  E-value=0.047  Score=43.64  Aligned_cols=138  Identities=15%  Similarity=0.051  Sum_probs=107.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  177 (250)
                      +-..+.-.|+-+....+.....  ....-|...-+..+....+.|++..|...|.+.... -++|..+||.+--+|-+.|
T Consensus        72 ~a~a~~~~G~a~~~l~~~~~~~--~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          72 LATALYLRGDADSSLAVLQKSA--IAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHhcccccchHHHHhhhh--ccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHcc
Confidence            3344455677777766666653  233446677778999999999999999999998663 5789999999999999999


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCchHHHHHHH
Q 025612          178 MIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVY  239 (250)
Q Consensus       178 ~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~~~~~~  239 (250)
                      +.++|..-|.+..+.-. -+...+|.|--.|.-.|+.+.|+.++......+-.......++.
T Consensus       149 r~~~Ar~ay~qAl~L~~-~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLA  209 (257)
T COG5010         149 RFDEARRAYRQALELAP-NEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLA  209 (257)
T ss_pred             ChhHHHHHHHHHHHhcc-CCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHH
Confidence            99999999998877521 24466778888888899999999999998877776665555544

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

Probab=97.36  E-value=0.012  Score=52.55  Aligned_cols=155  Identities=17%  Similarity=0.088  Sum_probs=88.2

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcCcccHH-H-HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHH---HHHHH
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLLKADLL-D-TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDM---ILMLG  139 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-~-ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~l---i~~~~  139 (250)
                      .+-.+|.-.++.+.|++.|++.+...-.-... + +=..+.....+|.|...|+...     ..|...||+.   --.|.
T Consensus       426 a~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al-----~~~~rhYnAwYGlG~vy~  500 (638)
T KOG1126|consen  426 ALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL-----GVDPRHYNAWYGLGTVYL  500 (638)
T ss_pred             HhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhh-----cCCchhhHHHHhhhhhee
Confidence            34667777788888888888866432111111 2 3334445556666766666543     2455555543   34466


Q ss_pred             cCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 025612          140 KNKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVA  218 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~  218 (250)
                      |.++++.|+-.|+...+  +.| +.+.-..+...+.+.|+.|+|+++|++.....-+ |+..----...+...+++++|.
T Consensus       501 Kqek~e~Ae~~fqkA~~--INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~~~~~~~eal  577 (638)
T KOG1126|consen  501 KQEKLEFAEFHFQKAVE--INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILFSLGRYVEAL  577 (638)
T ss_pred             ccchhhHHHHHHHhhhc--CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHHhhcchHHHH
Confidence            77777777777766554  333 3444555555666667777777777665543211 3333334445555666666666


Q ss_pred             HHHHHHHhc
Q 025612          219 AVRRDCIQY  227 (250)
Q Consensus       219 ~~~~~m~~~  227 (250)
                      +.++++++.
T Consensus       578 ~~LEeLk~~  586 (638)
T KOG1126|consen  578 QELEELKEL  586 (638)
T ss_pred             HHHHHHHHh
Confidence            666666653

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

Probab=97.36  E-value=0.011  Score=48.73  Aligned_cols=128  Identities=20%  Similarity=0.233  Sum_probs=99.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      .+++..-+.+.++.|.++|.+.++...+..++....++|..+ ..++.+.|.++|+...+. +.-+..-|..-|..+.+.
T Consensus         6 ~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~-~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l~~~   83 (280)
T PF05843_consen    6 QYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYY-CNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFLIKL   83 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHH-TCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHh
Confidence            567778888889999999999986444556666666666544 346778899999998765 556778899999999999


Q ss_pred             CChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          177 GMIDKAMETYETMKASGCTP---HKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g~~p---~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      |+.+.|..+|++.... +.+   ....|...++-=.+.|+++.+.++.+.+.+.
T Consensus        84 ~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   84 NDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             T-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999998876 322   2258999999999999999999999998875

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.

>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=97.34  E-value=0.019  Score=42.17  Aligned_cols=76  Identities=14%  Similarity=0.195  Sum_probs=53.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----hccCCchHHHHHHH
Q 025612          165 VYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCI-----QYVEFPERFLEEVY  239 (250)
Q Consensus       165 ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~-----~~g~~pd~~~~~~~  239 (250)
                      ....++..+...|++++|..+.+...... ..|...|..+|.+|.+.|+...|.++|+.+.     +.|+.|+.-+..+.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~l~  142 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRALY  142 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHHHH
Confidence            45566667778899999999998887742 2366789999999999999999999888774     35999988887776


Q ss_pred             Hh
Q 025612          240 QK  241 (250)
Q Consensus       240 ~~  241 (250)
                      +.
T Consensus       143 ~~  144 (146)
T PF03704_consen  143 RE  144 (146)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

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

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

Probab=97.33  E-value=0.029  Score=43.72  Aligned_cols=128  Identities=11%  Similarity=0.077  Sum_probs=91.5

Q ss_pred             cCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHcCCC--HH
Q 025612           73 AKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILM-LGKNKQ--IA  145 (250)
Q Consensus        73 ~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~-~~~~~~--~~  145 (250)
                      .++.+++...++...+.  .|+..    .+-..|...|++++|...|+...+. . .-+...+..+-.+ |...|+  .+
T Consensus        52 ~~~~~~~i~~l~~~L~~--~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l-~-P~~~~~~~~lA~aL~~~~g~~~~~  127 (198)
T PRK10370         52 QQTPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWRNDYDNALLAYRQALQL-R-GENAELYAALATVLYYQAGQHMTP  127 (198)
T ss_pred             chhHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHHhcCCCCcH
Confidence            34445666666554432  23222    4667788999999999999998752 2 2357778887776 467777  59


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 025612          146 MAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRN  207 (250)
Q Consensus       146 ~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~  207 (250)
                      +|.+++++..+.. +-+...+..+-..+.+.|++++|...|+.+.+.. .|+..-+. +|++
T Consensus       128 ~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~-~~~~~r~~-~i~~  186 (198)
T PRK10370        128 QTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDLN-SPRVNRTQ-LVES  186 (198)
T ss_pred             HHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCccHHH-HHHH
Confidence            9999999988753 2266788888899999999999999999998763 45554443 3344

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=97.32  E-value=0.021  Score=45.50  Aligned_cols=129  Identities=13%  Similarity=0.055  Sum_probs=91.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCC-CCCH-HHHHHHHHHH
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGKNKQIAMAEELFCELKKEGL-DPDT-RVYTEMIGVY  173 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~-~p~~-~ty~~li~~~  173 (250)
                      .+...+.+.|+++.|...|+.+.+...-.|. ...+..+-..|.+.|++++|...|+++.+..- .|.. .++..+-.++
T Consensus        38 ~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~  117 (235)
T TIGR03302        38 EEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSN  117 (235)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHH
Confidence            5677888999999999999998753211121 24677788899999999999999999977421 1111 2344444455


Q ss_pred             Hhc--------CChHHHHHHHHHHHHCCCCCCHH-HH-----------------HHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          174 LQV--------GMIDKAMETYETMKASGCTPHKL-TF-----------------TILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       174 ~~~--------g~~~~a~~~~~~m~~~g~~p~~~-ty-----------------~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      ...        |+.++|.+.|+.+...  .|+.. .+                 ..+-..|.+.|+++.|...+....+.
T Consensus       118 ~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~  195 (235)
T TIGR03302       118 YNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVEN  195 (235)
T ss_pred             HHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            544        7899999999998765  24331 21                 13445678889999999999998765

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).

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

Probab=97.30  E-value=0.084  Score=44.68  Aligned_cols=162  Identities=9%  Similarity=-0.022  Sum_probs=101.0

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCcc-cHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHcCC
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLKA-DLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDL--SLYSDMILMLGKNK  142 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~~-~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~--~~y~~li~~~~~~~  142 (250)
                      ...+...|++++|...+++..+..-.- ... .+-..+...|++++|...++...+.....|+.  ..|-.+...+...|
T Consensus       121 a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G  200 (355)
T cd05804         121 AFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERG  200 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCC
Confidence            446677899999999999988654221 121 57778889999999999999876422112332  34667888899999


Q ss_pred             CHHHHHHHHHHHHhCCC-CCCHHHH-H--HHHHHHHhcCChHHHHHH--HHHHHHCCC--CCCHHHHHHHHHHHHhcCCH
Q 025612          143 QIAMAEELFCELKKEGL-DPDTRVY-T--EMIGVYLQVGMIDKAMET--YETMKASGC--TPHKLTFTILIRNLENAGEE  214 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~-~p~~~ty-~--~li~~~~~~g~~~~a~~~--~~~m~~~g~--~p~~~ty~~li~~~~~~g~~  214 (250)
                      ++++|..+|++...... .+..... +  .++.-+...|..+.+.+.  .........  ......-.....++...|+.
T Consensus       201 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  280 (355)
T cd05804         201 DYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDK  280 (355)
T ss_pred             CHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCH
Confidence            99999999999754321 1222222 2  333444444543333332  211111111  11122223567777888999


Q ss_pred             HHHHHHHHHHHhcc
Q 025612          215 ELVAAVRRDCIQYV  228 (250)
Q Consensus       215 ~~a~~~~~~m~~~g  228 (250)
                      +.|.+++..+....
T Consensus       281 ~~a~~~L~~l~~~~  294 (355)
T cd05804         281 DALDKLLAALKGRA  294 (355)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999987643

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.

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

Probab=97.30  E-value=0.025  Score=49.05  Aligned_cols=145  Identities=19%  Similarity=0.213  Sum_probs=78.6

Q ss_pred             CChhHHHHHHHHHHHhcC--cccHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHcCCCHHHHHHH
Q 025612           74 KSSSKLEEGFQSRICRLL--KADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGKNKQIAMAEEL  150 (250)
Q Consensus        74 ~~~~~a~~l~~~m~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~~~~~~~A~~~  150 (250)
                      ++..+|.++|++......  .|-....+..=.++..+..|..+++.... .  -|- -..|---+.+=-..|++..|..+
T Consensus        87 ~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt-~--lPRVdqlWyKY~ymEE~LgNi~gaRqi  163 (677)
T KOG1915|consen   87 KEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVT-I--LPRVDQLWYKYIYMEEMLGNIAGARQI  163 (677)
T ss_pred             HHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHH-h--cchHHHHHHHHHHHHHHhcccHHHHHH
Confidence            334467777776654322  12222455555566666666666666542 1  121 12233333333345666666666


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025612          151 FCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       151 ~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~  225 (250)
                      |+.-.+  ..|+...|++.|+.=.+.+.++.|..+|++..-  +.|++.+|--..+-=-++|.+..+..++....
T Consensus       164 ferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAi  234 (677)
T KOG1915|consen  164 FERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAI  234 (677)
T ss_pred             HHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            665443  256666666666666666666666666666655  33666666555555555666655555555443

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

Probab=97.26  E-value=0.051  Score=46.94  Aligned_cols=140  Identities=11%  Similarity=0.109  Sum_probs=106.8

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCC
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNK  142 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~  142 (250)
                      ...|-...++..|.+++.+..  .+.|+..    .|-+.|-+.|+-..|++.+-+-.  +-++-++.|..=|-..|....
T Consensus       565 aniye~led~aqaie~~~q~~--slip~dp~ilskl~dlydqegdksqafq~~ydsy--ryfp~nie~iewl~ayyidtq  640 (840)
T KOG2003|consen  565 ANIYELLEDPAQAIELLMQAN--SLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSY--RYFPCNIETIEWLAAYYIDTQ  640 (840)
T ss_pred             HHHHHHhhCHHHHHHHHHHhc--ccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcc--cccCcchHHHHHHHHHHHhhH
Confidence            334444566667777765543  3444332    47777788999999998877653  334557888888888899889


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQ-VGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGE  213 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~-~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~  213 (250)
                      -+++|...|+...-  +.|+..-|..||..|.+ .|++.+|+++|.+.... +.-|.....-|++.+...|-
T Consensus       641 f~ekai~y~ekaal--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  641 FSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            99999999988654  68999999999977775 79999999999998765 56688888999999888774

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

Probab=97.25  E-value=0.0052  Score=57.11  Aligned_cols=153  Identities=12%  Similarity=0.082  Sum_probs=109.8

Q ss_pred             CChhHHHHHHHHHHHhcCccc-HH---HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHH
Q 025612           74 KSSSKLEEGFQSRICRLLKAD-LL---DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEE  149 (250)
Q Consensus        74 ~~~~~a~~l~~~m~~~~~~~~-~~---~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~  149 (250)
                      +..++|+++|.+..+.  .|. ..   -+--.++..|++.+|..||.++++ .+- -...+|-.+-++|.-+|++..|++
T Consensus       626 k~~~KAlq~y~kvL~~--dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrE-a~~-~~~dv~lNlah~~~e~~qy~~AIq  701 (1018)
T KOG2002|consen  626 KHQEKALQLYGKVLRN--DPKNMYAANGIGIVLAEKGRFSEARDIFSQVRE-ATS-DFEDVWLNLAHCYVEQGQYRLAIQ  701 (1018)
T ss_pred             HHHHHHHHHHHHHHhc--CcchhhhccchhhhhhhccCchHHHHHHHHHHH-HHh-hCCceeeeHHHHHHHHHHHHHHHH
Confidence            3445777777776543  222 22   255567788999999999999986 332 244578899999999999999999


Q ss_pred             HHHHHHh-CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH------------------Hh
Q 025612          150 LFCELKK-EGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNL------------------EN  210 (250)
Q Consensus       150 ~~~~m~~-~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~------------------~~  210 (250)
                      +|+.-.. ..-.-+...-+.|-+++.++|.+.+|.+...........-...-||..+-..                  ..
T Consensus       702 mYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a  781 (1018)
T KOG2002|consen  702 MYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEA  781 (1018)
T ss_pred             HHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHH
Confidence            9987544 4556678888899999999999999999887776654333345566554322                  12


Q ss_pred             cCCHHHHHHHHHHHHhccCC
Q 025612          211 AGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       211 ~g~~~~a~~~~~~m~~~g~~  230 (250)
                      .+..+.|.++|.+|...+-.
T Consensus       782 ~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  782 VKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHHHHHHHHHHHHhcCCC
Confidence            24577788899999877665

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

Probab=97.24  E-value=0.044  Score=47.52  Aligned_cols=136  Identities=15%  Similarity=0.037  Sum_probs=106.4

Q ss_pred             HHHHhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHcCC
Q 025612           68 HAMKLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGKNK  142 (250)
Q Consensus        68 ~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~~~  142 (250)
                      ......|+.++|+..++.+..  ..|+..    ...+.+.+.++.++|.+.++.+..   ..|+ ....-++-.+|.+.|
T Consensus       314 ~~~~~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~~a~all~~g  388 (484)
T COG4783         314 LQTYLAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLNLAQALLKGG  388 (484)
T ss_pred             HHHHHhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHHHHHHHHhcC
Confidence            344567999999999999764  344433    577888899999999999999874   3566 555667778999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRR  222 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~  222 (250)
                      ++.+|..+++..... .+-|...|.-|-.+|...|+..++..-..+                  .|...|++++|...+.
T Consensus       389 ~~~eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A~~~l~  449 (484)
T COG4783         389 KPQEAIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQAIIFLM  449 (484)
T ss_pred             ChHHHHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHHHHHHH
Confidence            999999999987554 566899999999999999999888765544                  4556777777777777


Q ss_pred             HHHhc
Q 025612          223 DCIQY  227 (250)
Q Consensus       223 ~m~~~  227 (250)
                      ...+.
T Consensus       450 ~A~~~  454 (484)
T COG4783         450 RASQQ  454 (484)
T ss_pred             HHHHh
Confidence            66654

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

Probab=97.22  E-value=0.042  Score=47.75  Aligned_cols=158  Identities=14%  Similarity=0.145  Sum_probs=116.8

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH--HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcC
Q 025612           64 IQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL--DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKN  141 (250)
Q Consensus        64 ~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~--~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~  141 (250)
                      +..+..=.+++.+..|..+|++.+.---..|-.  ..+..=-..|++..|.++|+.-.+   ..|+...|++.|+.=.+.
T Consensus       111 lkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRqiferW~~---w~P~eqaW~sfI~fElRy  187 (677)
T KOG1915|consen  111 LKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGARQIFERWME---WEPDEQAWLSFIKFELRY  187 (677)
T ss_pred             HHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHHHHHHHHHc---CCCcHHHHHHHHHHHHHh
Confidence            334555667889999999999987543333322  455555578999999999997643   689999999999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-CC-CCCHHHHHHHHHHHHhcCCHHHHHH
Q 025612          142 KQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS-GC-TPHKLTFTILIRNLENAGEEELVAA  219 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~-g~-~p~~~ty~~li~~~~~~g~~~~a~~  219 (250)
                      +.++.|..+++...-  +.|+..+|--...-=-++|.+..+..+|....+. |- .-+...|.++-.-=.++..++.|.-
T Consensus       188 keieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~  265 (677)
T KOG1915|consen  188 KEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARF  265 (677)
T ss_pred             hHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999876  4699999988888888899999999999887653 21 1122233333333345666777777


Q ss_pred             HHHHHHh
Q 025612          220 VRRDCIQ  226 (250)
Q Consensus       220 ~~~~m~~  226 (250)
                      +++-..+
T Consensus       266 iykyAld  272 (677)
T KOG1915|consen  266 IYKYALD  272 (677)
T ss_pred             HHHHHHH
Confidence            7665544

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

Probab=97.20  E-value=0.018  Score=49.13  Aligned_cols=104  Identities=15%  Similarity=0.088  Sum_probs=72.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 025612          100 TELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMI  179 (250)
Q Consensus       100 ~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~  179 (250)
                      ..+...|++++|.+.|++..+. . .-+...|..+-.+|.+.|++++|...+++..... +.+...|..+-.+|...|++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~-~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDL-D-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCH
Confidence            3455778888888888887642 1 2346677777788888888888888888876642 22556677777888888888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 025612          180 DKAMETYETMKASGCTPHKLTFTILIRNL  208 (250)
Q Consensus       180 ~~a~~~~~~m~~~g~~p~~~ty~~li~~~  208 (250)
                      ++|...|++..+.  .|+......++..|
T Consensus        87 ~eA~~~~~~al~l--~P~~~~~~~~l~~~  113 (356)
T PLN03088         87 QTAKAALEKGASL--APGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            8888888887763  46555555444333

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.19  E-value=0.0044  Score=56.29  Aligned_cols=78  Identities=21%  Similarity=0.163  Sum_probs=48.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCH
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQI  144 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~  144 (250)
                      .+.+-...++|++|+.+++.+.......... .+-+-|+..|+++.|+++|-+--          .++--|..|+++|++
T Consensus       738 aieaai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~----------~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  738 AIEAAIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEAD----------LFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHHhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcc----------hhHHHHHHHhccccH
Confidence            3444555666777777777666655544444 45666777777777777765331          256667777777777


Q ss_pred             HHHHHHHHH
Q 025612          145 AMAEELFCE  153 (250)
Q Consensus       145 ~~A~~~~~~  153 (250)
                      +.|.++-.+
T Consensus       808 ~da~kla~e  816 (1636)
T KOG3616|consen  808 EDAFKLAEE  816 (1636)
T ss_pred             HHHHHHHHH
Confidence            777766544

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.17  E-value=0.085  Score=42.19  Aligned_cols=83  Identities=16%  Similarity=0.187  Sum_probs=36.8

Q ss_pred             CCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 025612          106 NELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMET  185 (250)
Q Consensus       106 ~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~  185 (250)
                      |++++|.++++.+.++ . +-|.++|--=+-..-..|+--+|++-+++..+. +.-|...|--+-..|...|++++|.-.
T Consensus       100 ~~~~~A~e~y~~lL~d-d-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fC  176 (289)
T KOG3060|consen  100 GNYKEAIEYYESLLED-D-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFC  176 (289)
T ss_pred             hchhhHHHHHHHHhcc-C-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHH
Confidence            4444455555444421 1 223444433333333334434444444443332 333455555555555555555555555


Q ss_pred             HHHHHH
Q 025612          186 YETMKA  191 (250)
Q Consensus       186 ~~~m~~  191 (250)
                      +++|.-
T Consensus       177 lEE~ll  182 (289)
T KOG3060|consen  177 LEELLL  182 (289)
T ss_pred             HHHHHH
Confidence            555444

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

Probab=97.17  E-value=0.085  Score=45.69  Aligned_cols=119  Identities=16%  Similarity=0.152  Sum_probs=85.9

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCcc-cHH---HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHcC
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLKA-DLL---DTLTELRRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMILMLGKN  141 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~~-~~~---~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~~~~~~  141 (250)
                      -+.|....+.+.|.+-++..++  +-| |..   .|=.+|.-.+-+.=|+-.|++..+   ++| |...|.+|=.+|.+.
T Consensus       371 GHEyvEmKNt~AAi~sYRrAvd--i~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~---~kPnDsRlw~aLG~CY~kl  445 (559)
T KOG1155|consen  371 GHEYVEMKNTHAAIESYRRAVD--INPRDYRAWYGLGQAYEIMKMHFYALYYFQKALE---LKPNDSRLWVALGECYEKL  445 (559)
T ss_pred             hHHHHHhcccHHHHHHHHHHHh--cCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHh---cCCCchHHHHHHHHHHHHh
Confidence            4555555555555555555442  222 222   366666666666777777776653   344 689999999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 025612          142 KQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  191 (250)
                      ++.++|.++|.....-| ..+...|..|-+.|-+.++.++|...|..-.+
T Consensus       446 ~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  446 NRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             ccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            99999999999987754 22558899999999999999999999887654

>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=97.13  E-value=0.0047  Score=45.45  Aligned_cols=116  Identities=15%  Similarity=0.081  Sum_probs=71.0

Q ss_pred             HHhcCChhHHHHHHHHHHH---hcCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHH
Q 025612           70 MKLAKSSSKLEEGFQSRIC---RLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAM  146 (250)
Q Consensus        70 ~~~~~~~~~a~~l~~~m~~---~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~  146 (250)
                      ....++.+.+...+.+...   ..+-|+..       ...-+.....-++...        ......++..+...|++++
T Consensus        16 ~~~~~~~~~~~~~~~~al~ly~G~~l~~~~-------~~~W~~~~r~~l~~~~--------~~~~~~l~~~~~~~~~~~~   80 (146)
T PF03704_consen   16 AARAGDPEEAIELLEEALALYRGDFLPDLD-------DEEWVEPERERLRELY--------LDALERLAEALLEAGDYEE   80 (146)
T ss_dssp             HHHTT-HHHHHHHHHHHHTT--SSTTGGGT-------TSTTHHHHHHHHHHHH--------HHHHHHHHHHHHHTT-HHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHhCCCCCCCCC-------ccHHHHHHHHHHHHHH--------HHHHHHHHHHHHhccCHHH
Confidence            3455677777777777753   22222221       1223333334444432        3467777888888899999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH-----HCCCCCCHHHH
Q 025612          147 AEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMK-----ASGCTPHKLTF  201 (250)
Q Consensus       147 A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~-----~~g~~p~~~ty  201 (250)
                      |..+...+... -+.|...|-.+|.+|...|+..+|.++|+.+.     +.|+.|+..|-
T Consensus        81 a~~~~~~~l~~-dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   81 ALRLLQRALAL-DPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHH-STT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHhc-CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            99988887764 23467888899999999999999999988764     24888888663

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

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.13  E-value=0.024  Score=42.77  Aligned_cols=97  Identities=14%  Similarity=0.083  Sum_probs=68.8

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 025612          127 DLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDP--DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTIL  204 (250)
Q Consensus       127 ~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p--~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~l  204 (250)
                      ....|..+...+...|++++|...|++.....-.|  ...+|..+-..|.+.|+.++|...++...... .....++..+
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~l  112 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHH
Confidence            35667777778888899999999888876542222  23578888888888999999999988877642 2234556666


Q ss_pred             HHHHH-------hcCCHHHHHHHHHHH
Q 025612          205 IRNLE-------NAGEEELVAAVRRDC  224 (250)
Q Consensus       205 i~~~~-------~~g~~~~a~~~~~~m  224 (250)
                      ...+.       ..|+++.|...+++-
T Consensus       113 a~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        113 AVICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            66666       778888777666654

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

Probab=97.10  E-value=0.0059  Score=49.40  Aligned_cols=81  Identities=19%  Similarity=0.207  Sum_probs=46.4

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----------------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 025612          144 IAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV----------------GMIDKAMETYETMKASGCTPHKLTFTILIRN  207 (250)
Q Consensus       144 ~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~----------------g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~  207 (250)
                      ++-....+..|.+-|+..|..+|+.||+.+=+-                ..-+-+.+++++|...|+.||..+-..|+++
T Consensus        88 veFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~  167 (406)
T KOG3941|consen   88 VEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNA  167 (406)
T ss_pred             HHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHH
Confidence            344444445555555555555555555543332                1234467777777777777777777777777


Q ss_pred             HHhcCCH-HHHHHHHHHH
Q 025612          208 LENAGEE-ELVAAVRRDC  224 (250)
Q Consensus       208 ~~~~g~~-~~a~~~~~~m  224 (250)
                      +.+.+-. .+..++.--|
T Consensus       168 FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  168 FGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             hccccccHHHHHHHHHhh
Confidence            7776652 3334443334

>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=97.09  E-value=0.0079  Score=43.19  Aligned_cols=57  Identities=12%  Similarity=0.111  Sum_probs=49.4

Q ss_pred             hCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcC
Q 025612          121 EVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKE-GLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus       121 ~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~-g~~p~~~ty~~li~~~~~~g  177 (250)
                      ...+.|+..+..+++.+|+..|++..|+++.+...+. +++.+..+|..|+.-....-
T Consensus        45 ~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~s  102 (126)
T PF12921_consen   45 SSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVLS  102 (126)
T ss_pred             CCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhc
Confidence            4667899999999999999999999999999998775 89989999999997665543

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

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

Probab=97.05  E-value=0.023  Score=50.05  Aligned_cols=141  Identities=16%  Similarity=0.076  Sum_probs=107.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcCcccHHHHHH----HHHHcCCHHHHHHHHHHHH---HhCCC-C-CCHHHHHHHHH
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLT----ELRRQNELDLALKVFNFVR---KEVWY-K-PDLSLYSDMIL  136 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~~ll~----~~~~~~~~~~a~~~~~~m~---~~~g~-~-~~~~~y~~li~  136 (250)
                      +---|.+.++.+.|.+.|.+..  ++-|...-+++    .....+.+.+|...|....   ++.+- . --..+++.|=+
T Consensus       386 lgmey~~t~n~kLAe~Ff~~A~--ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH  463 (611)
T KOG1173|consen  386 LGMEYMRTNNLKLAEKFFKQAL--AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGH  463 (611)
T ss_pred             HHHHHHHhccHHHHHHHHHHHH--hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHH
Confidence            4555778899999999999865  44454332222    2336788999999998764   11111 1 13456888999


Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 025612          137 MLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENA  211 (250)
Q Consensus       137 ~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~  211 (250)
                      +|.+.+++++|+..|++-... .+-|..||+++--.|...|+++.|.+.|.+-.-  +.||..+...++..+...
T Consensus       464 ~~Rkl~~~~eAI~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~aie~  535 (611)
T KOG1173|consen  464 AYRKLNKYEEAIDYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLAIED  535 (611)
T ss_pred             HHHHHhhHHHHHHHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHHHHh
Confidence            999999999999999987664 355889999999999999999999999987665  789999988888876654

>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=97.04  E-value=0.19  Score=45.06  Aligned_cols=126  Identities=15%  Similarity=0.137  Sum_probs=98.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      +-..|-..|++++|+++.+...+.   .|+ +..|..--+.|-+.|++.+|.+.+++..+.. .-|...=+-.+..+.++
T Consensus       200 lAqhyd~~g~~~~Al~~Id~aI~h---tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa  275 (517)
T PF12569_consen  200 LAQHYDYLGDYEKALEYIDKAIEH---TPTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRA  275 (517)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhc---CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHC
Confidence            344456889999999999988753   566 7788899999999999999999999887642 12566667778899999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHH--------HHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          177 GMIDKAMETYETMKASGCTPHKLTF--------TILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g~~p~~~ty--------~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      |++++|.+++......+..|-...+        .-.-.+|.+.|++..|.+-|....+.
T Consensus       276 ~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~  334 (517)
T PF12569_consen  276 GRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLKH  334 (517)
T ss_pred             CCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            9999999999999887764443332        34457888999998888777766543

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 [], [].

>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=96.98  E-value=0.0058  Score=38.38  Aligned_cols=62  Identities=24%  Similarity=0.270  Sum_probs=30.1

Q ss_pred             HcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 025612          104 RQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEM  169 (250)
Q Consensus       104 ~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~l  169 (250)
                      ..|++++|.++|+.+.+..  +-+...+-.+..+|.+.|++++|..+++.+...  .|+...|..+
T Consensus         3 ~~~~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l   64 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN--PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQL   64 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT--TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHH
Confidence            4455555555555554321  114444455555555555555555555555443  3443444333

...

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

Probab=96.96  E-value=0.11  Score=48.31  Aligned_cols=163  Identities=15%  Similarity=0.105  Sum_probs=120.7

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH-----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 025612           64 IQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL-----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILML  138 (250)
Q Consensus        64 ~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~  138 (250)
                      +.+.-++......+....+........+.|+..     .+-+++.+.|++++|..+|..+.. .-...+.+.|-.+-.+|
T Consensus       381 ~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~-~~~~~~~~vw~~~a~c~  459 (895)
T KOG2076|consen  381 IRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITN-REGYQNAFVWYKLARCY  459 (895)
T ss_pred             HhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhc-CccccchhhhHHHHHHH
Confidence            445556666655555555566566666544332     588999999999999999999985 33344688999999999


Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHH--------HCCCCCCHHHHHHHHHHHH
Q 025612          139 GKNKQIAMAEELFCELKKEGLDPD-TRVYTEMIGVYLQVGMIDKAMETYETMK--------ASGCTPHKLTFTILIRNLE  209 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~~g~~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~--------~~g~~p~~~ty~~li~~~~  209 (250)
                      ...|..++|...|+.....  .|+ .-.--+|-.-|-+.|+.++|.+++..|.        ..+..|+...--.....+.
T Consensus       460 ~~l~e~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~  537 (895)
T KOG2076|consen  460 MELGEYEEAIEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILF  537 (895)
T ss_pred             HHHhhHHHHHHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHH
Confidence            9999999999999998774  333 2223344456678999999999999954        3356677777777788888


Q ss_pred             hcCCHHHHHHHHHHHHhccC
Q 025612          210 NAGEEELVAAVRRDCIQYVE  229 (250)
Q Consensus       210 ~~g~~~~a~~~~~~m~~~g~  229 (250)
                      ..|+.++-..+-.+|...+.
T Consensus       538 ~~gk~E~fi~t~~~Lv~~~~  557 (895)
T KOG2076|consen  538 QVGKREEFINTASTLVDDFL  557 (895)
T ss_pred             HhhhHHHHHHHHHHHHHHHH
Confidence            99999998777777766443

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

Probab=96.96  E-value=0.13  Score=50.11  Aligned_cols=160  Identities=15%  Similarity=0.118  Sum_probs=122.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHH-hcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCC
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRIC-RLLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQ  143 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~-~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~  143 (250)
                      +..-|.+..++++|.++++.|.+ -|-.+.+. ...+.+.+.++-++|..++.+..+..--.-.+....-.+..=-+.|+
T Consensus      1536 L~~iy~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GD 1615 (1710)
T KOG1070|consen 1536 LLGIYEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGD 1615 (1710)
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCC
Confidence            56667788899999999999975 44344444 68899999999999999999876531111134444455555568999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHH
Q 025612          144 IAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHK--LTFTILIRNLENAGEEELVAAVR  221 (250)
Q Consensus       144 ~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~ty~~li~~~~~~g~~~~a~~~~  221 (250)
                      .+.+..+|+..... .+--.-.|+..|.+=.++|+.+.+..+|++....++.|-.  .-|.-.+..=-..|+-+.++.+=
T Consensus      1616 aeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~VK 1694 (1710)
T KOG1070|consen 1616 AERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYVK 1694 (1710)
T ss_pred             chhhHHHHHHHHhh-CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHHH
Confidence            99999999998765 2335678999999999999999999999999999887754  66777777777788877777665


Q ss_pred             HHHHh
Q 025612          222 RDCIQ  226 (250)
Q Consensus       222 ~~m~~  226 (250)
                      ....+
T Consensus      1695 arA~E 1699 (1710)
T KOG1070|consen 1695 ARAKE 1699 (1710)
T ss_pred             HHHHH
Confidence            55443

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

Probab=96.94  E-value=0.05  Score=46.49  Aligned_cols=92  Identities=10%  Similarity=0.051  Sum_probs=76.8

Q ss_pred             HHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCH
Q 025612          136 LMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEE  214 (250)
Q Consensus       136 ~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~  214 (250)
                      ..+...|++++|.++|++..... +-+...|..+-.+|.+.|++++|+..+++..+.  .| +...|..+-.+|...|++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhCCH
Confidence            44567899999999999987742 235677888889999999999999999999875  34 567888889999999999


Q ss_pred             HHHHHHHHHHHhccCC
Q 025612          215 ELVAAVRRDCIQYVEF  230 (250)
Q Consensus       215 ~~a~~~~~~m~~~g~~  230 (250)
                      +.|.+.|+...+..-.
T Consensus        87 ~eA~~~~~~al~l~P~  102 (356)
T PLN03088         87 QTAKAALEKGASLAPG  102 (356)
T ss_pred             HHHHHHHHHHHHhCCC
Confidence            9999999998876543

>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=96.91  E-value=0.0053  Score=38.56  Aligned_cols=62  Identities=21%  Similarity=0.252  Sum_probs=34.2

Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 025612          140 KNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTIL  204 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~l  204 (250)
                      ..|++++|.++|++..... +-+...+-.+..+|.+.|++++|..+++.+...  .|+...|..+
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l   64 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQL   64 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHH
Confidence            4566666666666665431 114555555666666666666666666666553  3554444433

...

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

Probab=96.91  E-value=0.048  Score=47.49  Aligned_cols=120  Identities=14%  Similarity=0.132  Sum_probs=81.1

Q ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC-----CCCCCHH--HHHHHHHHHH
Q 025612          102 LRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKE-----GLDPDTR--VYTEMIGVYL  174 (250)
Q Consensus       102 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~-----g~~p~~~--ty~~li~~~~  174 (250)
                      ..|.+++++++..|++..+  .++-....||-.-..+...++++.|.+-|+.-.+.     ++..+..  ..-+++-.--
T Consensus       438 ~Yr~~k~~~~m~~Fee~kk--kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~qw  515 (606)
T KOG0547|consen  438 LYRQHKIAESMKTFEEAKK--KFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQW  515 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHH--hCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhch
Confidence            3477788888888888864  34555778888888888888888888888765432     2222222  2223332223


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          175 QVGMIDKAMETYETMKASGCTPHK-LTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       175 ~~g~~~~a~~~~~~m~~~g~~p~~-~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      + ++++.|.++++.-.+  +.|-. ..|-+|-..-...|++++|.++|++-..
T Consensus       516 k-~d~~~a~~Ll~KA~e--~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  516 K-EDINQAENLLRKAIE--LDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             h-hhHHHHHHHHHHHHc--cCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            3 778888888877766  33433 5688888888888999999999877543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.90  E-value=0.084  Score=37.56  Aligned_cols=102  Identities=19%  Similarity=0.107  Sum_probs=61.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcCcccHH-----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC----HHHHHHHHH
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLLKADLL-----DTLTELRRQNELDLALKVFNFVRKEVWYKPD----LSLYSDMIL  136 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~y~~li~  136 (250)
                      .-.++-..|+.++|..+|++....|......     .+-..+-..|++++|..+++....+.   |+    ....-.+--
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~---p~~~~~~~l~~f~Al   83 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF---PDDELNAALRVFLAL   83 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC---CCccccHHHHHHHHH
Confidence            3445556688888888888887777665433     35566667788888888888776431   32    111111223


Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612          137 MLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYL  174 (250)
Q Consensus       137 ~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~  174 (250)
                      ++...|+.++|...+-...-    ++...|.--|..|.
T Consensus        84 ~L~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   84 ALYNLGRPKEALEWLLEALA----ETLPRYRRAIRFYA  117 (120)
T ss_pred             HHHHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            55677888887777655443    24445555555554

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=96.90  E-value=0.12  Score=39.17  Aligned_cols=81  Identities=15%  Similarity=0.174  Sum_probs=59.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHH
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPD--LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYL  174 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~--~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~  174 (250)
                      +-..+...|++++|...|++..+ ....+.  ...|..+-..|.+.|++++|...+++....  .| +...+..+...|.
T Consensus        41 lg~~~~~~g~~~~A~~~~~~al~-~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~  117 (172)
T PRK02603         41 DGMSAQADGEYAEALENYEEALK-LEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNNIAVIYH  117 (172)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH-HhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHH
Confidence            55567788999999999998864 222221  467888889999999999999999987764  33 4556666677777


Q ss_pred             hcCChHH
Q 025612          175 QVGMIDK  181 (250)
Q Consensus       175 ~~g~~~~  181 (250)
                      ..|+...
T Consensus       118 ~~g~~~~  124 (172)
T PRK02603        118 KRGEKAE  124 (172)
T ss_pred             HcCChHh
Confidence            7776433

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.85  E-value=0.042  Score=41.42  Aligned_cols=91  Identities=11%  Similarity=0.015  Sum_probs=62.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH--
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYL--  174 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~--  174 (250)
                      +...+...|++++|...|....+...-.+ ...+|..+-..|...|++++|.+.++...... +....+++.+...|.  
T Consensus        41 ~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~i~~~~  119 (168)
T CHL00033         41 DGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAVICHYR  119 (168)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHh
Confidence            44556678999999999998864221111 23578888888999999999999998877641 223455666666666  


Q ss_pred             -----hcCChHHHHHHHHHH
Q 025612          175 -----QVGMIDKAMETYETM  189 (250)
Q Consensus       175 -----~~g~~~~a~~~~~~m  189 (250)
                           ..|++++|...+++-
T Consensus       120 ~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        120 GEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             hHHHHHcccHHHHHHHHHHH
Confidence                 778888776666543

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

Probab=96.80  E-value=0.2  Score=44.26  Aligned_cols=144  Identities=16%  Similarity=0.166  Sum_probs=109.8

Q ss_pred             HHHHHHHHHHH-hcCcccHH--HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHH
Q 025612           78 KLEEGFQSRIC-RLLKADLL--DTLTELRRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMILMLGKNKQIAMAEELFCE  153 (250)
Q Consensus        78 ~a~~l~~~m~~-~~~~~~~~--~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~~~~~~~~~~~A~~~~~~  153 (250)
                      .....+++... ....|+..  .+++..-|...++.|..+|.+.++ .+..+ ++++++++|..||. ++.+-|.++|+-
T Consensus       349 ~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~-~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeL  426 (656)
T KOG1914|consen  349 KVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKARE-DKRTRHHVFVAAALMEYYCS-KDKETAFRIFEL  426 (656)
T ss_pred             hhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhh-ccCCcchhhHHHHHHHHHhc-CChhHHHHHHHH
Confidence            34444444432 22344444  588888889999999999999986 56566 89999999998885 666899999986


Q ss_pred             -HHhCCCCCCHHH-HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          154 -LKKEGLDPDTRV-YTEMIGVYLQVGMIDKAMETYETMKASGCTPHK--LTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       154 -m~~~g~~p~~~t-y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                       |+..   +|... -..-+.-+...++-..|..+|++....++.||.  ..|..+|+-=+.-|+...+.++-+.+..
T Consensus       427 GLkkf---~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  427 GLKKF---GDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHHhc---CCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence             4443   34433 466788888899999999999999888777655  7899999999999999999888777654

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

Probab=96.78  E-value=0.2  Score=46.60  Aligned_cols=90  Identities=14%  Similarity=-0.004  Sum_probs=64.6

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCcccHH-------HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLKADLL-------DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-------~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      ...|.+.|+..+|..-|.++....-+.|..       .+++.+...++-+.|.+.++......+-..+..++|+++..|.
T Consensus       248 s~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l  327 (895)
T KOG2076|consen  248 SSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFL  327 (895)
T ss_pred             HHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHH
Confidence            455777788888888888876544333332       3566677777778888888876543444556777888888888


Q ss_pred             cCCCHHHHHHHHHHHHh
Q 025612          140 KNKQIAMAEELFCELKK  156 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~  156 (250)
                      +...++.|......+..
T Consensus       328 ~~~q~d~~~~~i~~~~~  344 (895)
T KOG2076|consen  328 KNKQSDKALMKIVDDRN  344 (895)
T ss_pred             HhHHHHHhhHHHHHHhc
Confidence            88888888888777765

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

Probab=96.75  E-value=0.13  Score=45.51  Aligned_cols=121  Identities=12%  Similarity=0.158  Sum_probs=96.5

Q ss_pred             HHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHH
Q 025612          108 LDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMETY  186 (250)
Q Consensus       108 ~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~  186 (250)
                      .+.....++.+.....+.|+ .+|-..|+.--|..-++.|..+|.+..+.+..+ +.+.++++|.-||. ++..-|.++|
T Consensus       347 ~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIF  424 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIF  424 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHH
Confidence            55566667766554555665 578889999999999999999999999998888 88999999999887 7789999999


Q ss_pred             HH-HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCch
Q 025612          187 ET-MKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPE  232 (250)
Q Consensus       187 ~~-m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd  232 (250)
                      +- |+..|-.|  .--...++-+++.++-..+..+|+.....++.||
T Consensus       425 eLGLkkf~d~p--~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~  469 (656)
T KOG1914|consen  425 ELGLKKFGDSP--EYVLKYLDFLSHLNDDNNARALFERVLTSVLSAD  469 (656)
T ss_pred             HHHHHhcCCCh--HHHHHHHHHHHHhCcchhHHHHHHHHHhccCChh
Confidence            86 66655433  4445677778888888889999998887777766

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.72  E-value=0.053  Score=44.21  Aligned_cols=99  Identities=14%  Similarity=0.099  Sum_probs=76.3

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHCC--CCCCHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDT----RVYTEMIGVYLQVGMIDKAMETYETMKASG--CTPHKLTF  201 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~----~ty~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~ty  201 (250)
                      ...|+..+..+.+.|++++|...|+.+...  .|+.    ..+-.+-..|...|++++|...|+.+.+.-  -......+
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl  220 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHH
Confidence            456777777777789999999999999875  3443    466677889999999999999999998641  11123445


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          202 TILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      -.+...+...|+.+.|.++++...+.-
T Consensus       221 ~klg~~~~~~g~~~~A~~~~~~vi~~y  247 (263)
T PRK10803        221 FKVGVIMQDKGDTAKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            555667788999999999999887653

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

Probab=96.69  E-value=0.031  Score=46.90  Aligned_cols=103  Identities=18%  Similarity=0.133  Sum_probs=82.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      ..|.-|...|+...|.++-.+. +    .|+..-|-.-|++|+..++|++-.++-..      +-.++-|-.++..|.+.
T Consensus       182 ~Ti~~li~~~~~k~A~kl~k~F-k----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~  250 (319)
T PF04840_consen  182 DTIRKLIEMGQEKQAEKLKKEF-K----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKY  250 (319)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHc-C----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHC
Confidence            4677788889988888887766 2    47888999999999999999987775432      22558899999999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 025612          177 GMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAV  220 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~  220 (250)
                      |...+|..++..          .++..-+..|.++|++.+|.+.
T Consensus       251 ~~~~eA~~yI~k----------~~~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  251 GNKKEASKYIPK----------IPDEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             CCHHHHHHHHHh----------CChHHHHHHHHHCCCHHHHHHH
Confidence            999999988877          2335677888899998888665

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

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

Probab=96.68  E-value=0.073  Score=49.87  Aligned_cols=121  Identities=14%  Similarity=0.180  Sum_probs=82.8

Q ss_pred             CHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 025612          107 ELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETY  186 (250)
Q Consensus       107 ~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~  186 (250)
                      ..++|+++|.+..+ . -+-|...-|-+=-.++..|++++|.++|.+..+... -+..+|-.+-.+|...|++..|.++|
T Consensus       627 ~~~KAlq~y~kvL~-~-dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmY  703 (1018)
T KOG2002|consen  627 HQEKALQLYGKVLR-N-DPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMY  703 (1018)
T ss_pred             HHHHHHHHHHHHHh-c-CcchhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHH
Confidence            45677777777653 2 133555556666667777888888888888777532 23356777778888888888888888


Q ss_pred             HHH-HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 025612          187 ETM-KASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       187 ~~m-~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      +.. +..+-.-+....+.|-+++-++|++.+|.+..-...+....
T Consensus       704 e~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~  748 (1018)
T KOG2002|consen  704 ENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPS  748 (1018)
T ss_pred             HHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCc
Confidence            764 44455557777888888888888888887776665554433

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

Probab=96.63  E-value=0.15  Score=45.48  Aligned_cols=149  Identities=13%  Similarity=0.139  Sum_probs=103.1

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHHH----HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHH--
Q 025612           61 SEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLD----TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDM--  134 (250)
Q Consensus        61 ~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~~----ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~l--  134 (250)
                      +..+.=++...+.+++++|....+++...+  |+...    =+-++...+++++|+.+.+.-    +   -..++|..  
T Consensus        13 ~~l~t~ln~~~~~~e~e~a~k~~~Kil~~~--pdd~~a~~cKvValIq~~ky~~ALk~ikk~----~---~~~~~~~~~f   83 (652)
T KOG2376|consen   13 EALLTDLNRHGKNGEYEEAVKTANKILSIV--PDDEDAIRCKVVALIQLDKYEDALKLIKKN----G---ALLVINSFFF   83 (652)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHHHHhcC--CCcHhhHhhhHhhhhhhhHHHHHHHHHHhc----c---hhhhcchhhH
Confidence            355555788888999999999999998766  44442    445566889999998554422    1   12334444  


Q ss_pred             HHHHH--cCCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHHCC------------------
Q 025612          135 ILMLG--KNKQIAMAEELFCELKKEGLDPDTR-VYTEMIGVYLQVGMIDKAMETYETMKASG------------------  193 (250)
Q Consensus       135 i~~~~--~~~~~~~A~~~~~~m~~~g~~p~~~-ty~~li~~~~~~g~~~~a~~~~~~m~~~g------------------  193 (250)
                      =++||  +.++.++|...++     |+.++.. +-..=-..+.+.|++++|+++|+.+.+++                  
T Consensus        84 EKAYc~Yrlnk~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~  158 (652)
T KOG2376|consen   84 EKAYCEYRLNKLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAA  158 (652)
T ss_pred             HHHHHHHHcccHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHh
Confidence            57777  6789999999888     3444443 44444567788999999999999995433                  


Q ss_pred             ----------CCCCHHHHHHHHHH---HHhcCCHHHHHHHHHHH
Q 025612          194 ----------CTPHKLTFTILIRN---LENAGEEELVAAVRRDC  224 (250)
Q Consensus       194 ----------~~p~~~ty~~li~~---~~~~g~~~~a~~~~~~m  224 (250)
                                ..| ..||..+.+-   ++..|++.+|++++...
T Consensus       159 l~~~~~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA  201 (652)
T KOG2376|consen  159 LQVQLLQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKA  201 (652)
T ss_pred             hhHHHHHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence                      122 2256666543   45789999999999887

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

Probab=96.59  E-value=0.26  Score=46.88  Aligned_cols=147  Identities=7%  Similarity=0.006  Sum_probs=99.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHH------------------HHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLA------------------LKVFNFVR  119 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a------------------~~~~~~m~  119 (250)
                      ....++..+...+++++|.++.+...+  ..|+..    .+-..+...++.+++                  ..+...|.
T Consensus        33 a~~~Li~~~~~~~~~deai~i~~~~l~--~~P~~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve~~~~~i~  110 (906)
T PRK14720         33 ELDDLIDAYKSENLTDEAKDICEEHLK--EHKKSISALYISGILSLSRRPLNDSNLLNLIDSFSQNLKWAIVEHICDKIL  110 (906)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH--hCCcceehHHHHHHHHHhhcchhhhhhhhhhhhcccccchhHHHHHHHHHH
Confidence            455678888899999999999986543  223222    111133334444333                  33333333


Q ss_pred             HhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH
Q 025612          120 KEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKL  199 (250)
Q Consensus       120 ~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  199 (250)
                      + .  .-+...+-.+-.+|-+.|+.++|..+++++.+.. +-|...-|.+-..|... ++++|.+++......       
T Consensus       111 ~-~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~-------  178 (906)
T PRK14720        111 L-Y--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR-------  178 (906)
T ss_pred             h-h--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH-------
Confidence            2 1  1233566677788888899999999999998865 45778888998999988 999999988876654       


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 025612          200 TFTILIRNLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       200 ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                              |....++..+.++|.++.+....
T Consensus       179 --------~i~~kq~~~~~e~W~k~~~~~~~  201 (906)
T PRK14720        179 --------FIKKKQYVGIEEIWSKLVHYNSD  201 (906)
T ss_pred             --------HHhhhcchHHHHHHHHHHhcCcc
Confidence                    66666777777777777766544

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

Probab=96.58  E-value=0.015  Score=36.14  Aligned_cols=21  Identities=29%  Similarity=0.406  Sum_probs=7.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHH
Q 025612          169 MIGVYLQVGMIDKAMETYETM  189 (250)
Q Consensus       169 li~~~~~~g~~~~a~~~~~~m  189 (250)
                      +-..+...|++++|...|++.
T Consensus        37 lg~~~~~~g~~~~A~~~~~~a   57 (65)
T PF13432_consen   37 LGRILYQQGRYDEALAYYERA   57 (65)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHH
Confidence            333333444444444444333

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

Probab=96.56  E-value=0.33  Score=39.98  Aligned_cols=179  Identities=16%  Similarity=0.186  Sum_probs=110.4

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcC----cccHH---HHHHHHHHcCCHHHHHHHHHHHHH---hCCC-CCCHHHHHH
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLL----KADLL---DTLTELRRQNELDLALKVFNFVRK---EVWY-KPDLSLYSD  133 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~----~~~~~---~ll~~~~~~~~~~~a~~~~~~m~~---~~g~-~~~~~~y~~  133 (250)
                      .....|...+++++|.+.|.+......    .....   .-...+.+..++++|.+.++...+   ..|- ..-...+..
T Consensus        40 ~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~  119 (282)
T PF14938_consen   40 KAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKGDPDEAIECYEKAIEIYREAGRFSQAAKCLKE  119 (282)
T ss_dssp             HHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            356677788999999999998753222    11111   122334455588888888887532   2331 112556777


Q ss_pred             HHHHHHcC-CCHHHHHHHHHHHHh----CCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-----CCCHH-H
Q 025612          134 MILMLGKN-KQIAMAEELFCELKK----EGLDPD--TRVYTEMIGVYLQVGMIDKAMETYETMKASGC-----TPHKL-T  200 (250)
Q Consensus       134 li~~~~~~-~~~~~A~~~~~~m~~----~g~~p~--~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~-----~p~~~-t  200 (250)
                      +-..|-.. |+++.|.+.|++-.+    .| .+.  ..++..+...+.+.|++++|.++|++....-.     +++.. .
T Consensus       120 lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~  198 (282)
T PF14938_consen  120 LAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEY  198 (282)
T ss_dssp             HHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHH
Confidence            88888888 999999999987543    23 111  34567778889999999999999999876422     23332 2


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhc--cCCch---HHHHHHHHhhhc
Q 025612          201 FTILIRNLENAGEEELVAAVRRDCIQY--VEFPE---RFLEEVYQKHRK  244 (250)
Q Consensus       201 y~~li~~~~~~g~~~~a~~~~~~m~~~--g~~pd---~~~~~~~~~~~~  244 (250)
                      |-..+-.+...||+..|.+.++.....  ++...   .++..+....-.
T Consensus       199 ~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~  247 (282)
T PF14938_consen  199 FLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEE  247 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHh
Confidence            333344666679999999999998754  34322   445554444433

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.54  E-value=0.21  Score=44.85  Aligned_cols=117  Identities=19%  Similarity=0.156  Sum_probs=81.6

Q ss_pred             CHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHc----C----CCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhc
Q 025612          107 ELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGK----N----KQIAMAEELFCELKKE-GLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus       107 ~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~----~----~~~~~A~~~~~~m~~~-g~~p~~~ty~~li~~~~~~  176 (250)
                      ..+.|..+|++..+   ..|+ ...|..+..+|..    .    .++..+.+........ ....+...|.++--.+...
T Consensus       357 ~~~~A~~lle~Ai~---ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~  433 (517)
T PRK10153        357 SLNKASDLLEEILK---SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVALPELNVLPRIYEILAVQALVK  433 (517)
T ss_pred             HHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhc
Confidence            36788999998875   3565 3344433332221    1    2244555555554332 2344667888886666678


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          177 GMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      |++++|...+++....+  |+...|..+-+.+...|+.++|.+.+.+..+..
T Consensus       434 g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        434 GKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             CCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            99999999999988865  788899999999999999999999998876543

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.53  E-value=0.21  Score=41.53  Aligned_cols=152  Identities=13%  Similarity=0.148  Sum_probs=95.7

Q ss_pred             hHHHHHHHHHHHhcCcccHHHHHHHHHH-----cC----CHHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHcCCC--
Q 025612           77 SKLEEGFQSRICRLLKADLLDTLTELRR-----QN----ELDLALKVFNFVRKEVWY--KPDLSLYSDMILMLGKNKQ--  143 (250)
Q Consensus        77 ~~a~~l~~~m~~~~~~~~~~~ll~~~~~-----~~----~~~~a~~~~~~m~~~~g~--~~~~~~y~~li~~~~~~~~--  143 (250)
                      .+...+++.+.+.|+.-+..+.+.++.-     ..    ....|..+|+.|++.+.+  .++-.++.+|+..  ..++  
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e  156 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVE  156 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHH
Confidence            3788889999999988766644443332     22    356899999999875543  3345566666555  4444  


Q ss_pred             --HHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhc-CC--hHHHHHHHHHHHHCCCCCCHHHHHHHHH-HHHhcCC---
Q 025612          144 --IAMAEELFCELKKEGLDPDTR-VYTEMIGVYLQV-GM--IDKAMETYETMKASGCTPHKLTFTILIR-NLENAGE---  213 (250)
Q Consensus       144 --~~~A~~~~~~m~~~g~~p~~~-ty~~li~~~~~~-g~--~~~a~~~~~~m~~~g~~p~~~ty~~li~-~~~~~g~---  213 (250)
                        .+.++.+|+.+...|+..+-. .+-+-|-+++.. ..  ..++.++++.+++.|+++....|..+== ++...+.   
T Consensus       157 ~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~~~~~  236 (297)
T PF13170_consen  157 ELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLEDPEEKI  236 (297)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCCchHHH
Confidence              356788999999988877533 333334343332 22  4578899999999999988877765422 2223333   


Q ss_pred             HHHHHHHHHHHHh-ccCC
Q 025612          214 EELVAAVRRDCIQ-YVEF  230 (250)
Q Consensus       214 ~~~a~~~~~~m~~-~g~~  230 (250)
                      ++...++.+.+.+ .|..
T Consensus       237 ~~~i~ev~~~L~~~k~~~  254 (297)
T PF13170_consen  237 VEEIKEVIDELKEQKGFG  254 (297)
T ss_pred             HHHHHHHHHHHhhCcccC
Confidence            4445555555553 3433

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

Probab=96.52  E-value=0.034  Score=45.21  Aligned_cols=87  Identities=14%  Similarity=0.265  Sum_probs=68.9

Q ss_pred             HcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCC----------------HHHHHHHHHHHHhCCCCCCHHHHH
Q 025612          104 RQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQ----------------IAMAEELFCELKKEGLDPDTRVYT  167 (250)
Q Consensus       104 ~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~----------------~~~A~~~~~~m~~~g~~p~~~ty~  167 (250)
                      +.++++-....+..|. +.|+.-|..+|+.||+.+=+..-                -+=+.+++++|+..|+.||..+-.
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 GRTHVEFIYTALKYMK-EYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIED  162 (406)
T ss_pred             ccchHHHHHHHHHHHH-HhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHH
Confidence            3466777777778886 59999999999999998866432                144789999999999999999999


Q ss_pred             HHHHHHHhcCC-hHHHHHHHHHHHH
Q 025612          168 EMIGVYLQVGM-IDKAMETYETMKA  191 (250)
Q Consensus       168 ~li~~~~~~g~-~~~a~~~~~~m~~  191 (250)
                      .||++|++.+- ..+.+++.-+|-+
T Consensus       163 ~lvn~FGr~~~p~~K~~Rm~yWmPk  187 (406)
T KOG3941|consen  163 ILVNAFGRWNFPTKKVKRMLYWMPK  187 (406)
T ss_pred             HHHHHhccccccHHHHHHHHHhhhh
Confidence            99999999775 3456666666644

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.43  E-value=0.08  Score=45.96  Aligned_cols=64  Identities=14%  Similarity=-0.002  Sum_probs=41.1

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 025612          127 DLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDT----RVYTEMIGVYLQVGMIDKAMETYETMKAS  192 (250)
Q Consensus       127 ~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~----~ty~~li~~~~~~g~~~~a~~~~~~m~~~  192 (250)
                      +...|+.+-.+|.+.|++++|+..|++-.+.  .|+.    .+|..+-.+|.+.|+.++|...+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3566666666677777777777777665542  3543    34666677777777777777777666653

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=96.39  E-value=0.038  Score=50.52  Aligned_cols=110  Identities=15%  Similarity=0.257  Sum_probs=80.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  177 (250)
                      -|.+-.....|.+|..+++.++. ..  .-..-|.-+-+-|+..|+++.|+++|-+-.         .++--|.+|.++|
T Consensus       738 aieaai~akew~kai~ildniqd-qk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~  805 (1636)
T KOG3616|consen  738 AIEAAIGAKEWKKAISILDNIQD-QK--TASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAG  805 (1636)
T ss_pred             HHHHHhhhhhhhhhHhHHHHhhh-hc--cccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccc
Confidence            44455567788899999998864 22  223457788899999999999999997642         3567789999999


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 025612          178 MIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVR  221 (250)
Q Consensus       178 ~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~  221 (250)
                      +|++|.++-.+..  |-+.....|-+--.-+-+.|++.+|++++
T Consensus       806 kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  806 KWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             cHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            9999998865543  33345566666666677788888887765

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

Probab=96.38  E-value=0.075  Score=48.33  Aligned_cols=157  Identities=13%  Similarity=0.087  Sum_probs=80.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHh--CC-------------------
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLLKADLL-DTLTELRRQNELDLALKVFNFVRKE--VW-------------------  123 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~--~g-------------------  123 (250)
                      ++-+|+..|+..+|..+..+-.+..-.|... .+.+...+..-+++|+++++.....  .-                   
T Consensus       430 vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle  509 (777)
T KOG1128|consen  430 VILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLE  509 (777)
T ss_pred             HHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHH
Confidence            4666777777777777766665532222222 2333333333344444444443210  00                   


Q ss_pred             ----C-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 025612          124 ----Y-KPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPD-TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPH  197 (250)
Q Consensus       124 ----~-~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  197 (250)
                          + .....+|-.+=.+..+.++++.|.+.|..-..  ..|| ...||.+-.+|.+.|+-.+|...+++-.+.+ .-+
T Consensus       510 ~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvt--L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~  586 (777)
T KOG1128|consen  510 RSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVT--LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQH  586 (777)
T ss_pred             HHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhh--cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCC
Confidence                0 00122333333333445555566655555433  2333 4456777777777776667766666665554 233


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025612          198 KLTFTILIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       198 ~~ty~~li~~~~~~g~~~~a~~~~~~m~  225 (250)
                      ...|..-+-.....|.+++|.+.+..+.
T Consensus       587 w~iWENymlvsvdvge~eda~~A~~rll  614 (777)
T KOG1128|consen  587 WQIWENYMLVSVDVGEFEDAIKAYHRLL  614 (777)
T ss_pred             CeeeechhhhhhhcccHHHHHHHHHHHH
Confidence            4455555556666666777666666654

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.37  E-value=0.085  Score=44.28  Aligned_cols=130  Identities=14%  Similarity=0.130  Sum_probs=91.7

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHHh
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMI-GVYLQ  175 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li-~~~~~  175 (250)
                      ++-..+.-..+++++.-.++.+. +--..-|.+-|| +-.+++..|++.+|+++|-......+ .|..+|-+++ ++|.+
T Consensus       364 smAs~fFL~~qFddVl~YlnSi~-sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~i-kn~~~Y~s~LArCyi~  440 (557)
T KOG3785|consen  364 SMASYFFLSFQFDDVLTYLNSIE-SYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEI-KNKILYKSMLARCYIR  440 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-HHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhh-hhhHHHHHHHHHHHHh
Confidence            56666677778888888887774 344445555555 66788889999999999977654332 3667776665 78889


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHhccCCch
Q 025612          176 VGMIDKAMETYETMKASGCTPHKLT-FTILIRNLENAGEEELVAAVRRDCIQYVEFPE  232 (250)
Q Consensus       176 ~g~~~~a~~~~~~m~~~g~~p~~~t-y~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd  232 (250)
                      +|..+-|+++|-.+...+   +..+ ...+-+-|-+++.+--|.+.|++++...-.|.
T Consensus       441 nkkP~lAW~~~lk~~t~~---e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~pE  495 (557)
T KOG3785|consen  441 NKKPQLAWDMMLKTNTPS---ERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTPE  495 (557)
T ss_pred             cCCchHHHHHHHhcCCch---hHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCcc
Confidence            999999998876665432   3333 33444667788888888888888877655554

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

Probab=96.34  E-value=0.03  Score=34.75  Aligned_cols=57  Identities=19%  Similarity=0.258  Sum_probs=48.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          169 MIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       169 li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      +-..+.+.|++++|...|++..+..  | +...+..+-.++...|++++|.+.|+...+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQD--PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCS--TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3467889999999999999999875  5 6678888889999999999999999998753

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

Probab=96.34  E-value=0.39  Score=45.68  Aligned_cols=171  Identities=8%  Similarity=-0.047  Sum_probs=94.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHH
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIA  145 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~  145 (250)
                      +.......++..+..+...+...+-..... .+-.+|-+.|+.++|..+++++.+ .. .-|+...|.+-..|+.. +++
T Consensus        90 l~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~-~D-~~n~~aLNn~AY~~ae~-dL~  166 (906)
T PRK14720         90 IDSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVK-AD-RDNPEIVKKLATSYEEE-DKE  166 (906)
T ss_pred             hhhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHh-cC-cccHHHHHHHHHHHHHh-hHH
Confidence            333444444444444444444433222222 567777788888888888888875 33 44677788888888888 888


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHH---HHHh--cCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 025612          146 MAEELFCELKKEGLDPDTRVYTEMIG---VYLQ--VGMIDKAMETYETMKAS-GCTPHKLTFTILIRNLENAGEEELVAA  219 (250)
Q Consensus       146 ~A~~~~~~m~~~g~~p~~~ty~~li~---~~~~--~g~~~~a~~~~~~m~~~-g~~p~~~ty~~li~~~~~~g~~~~a~~  219 (250)
                      +|..++.+....-  .+..-|+.+..   .++.  -.+.+.-.++.+.+... |..--..++--+...|-...+++++.+
T Consensus       167 KA~~m~~KAV~~~--i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~  244 (906)
T PRK14720        167 KAITYLKKAIYRF--IKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIY  244 (906)
T ss_pred             HHHHHHHHHHHHH--HhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHH
Confidence            8888777765431  11112222222   1111  12333334444444333 444444556666666777777777777


Q ss_pred             HHHHHHhccCCchHHHHHHHHhh
Q 025612          220 VRRDCIQYVEFPERFLEEVYQKH  242 (250)
Q Consensus       220 ~~~~m~~~g~~pd~~~~~~~~~~  242 (250)
                      +++...+..-....-.+.+...+
T Consensus       245 iLK~iL~~~~~n~~a~~~l~~~y  267 (906)
T PRK14720        245 ILKKILEHDNKNNKAREELIRFY  267 (906)
T ss_pred             HHHHHHhcCCcchhhHHHHHHHH
Confidence            77777665544443344444433

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

Probab=96.25  E-value=0.43  Score=41.86  Aligned_cols=149  Identities=15%  Similarity=0.088  Sum_probs=111.6

Q ss_pred             cCChhHHHHHHHHHHHhcCcccH-H-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 025612           73 AKSSSKLEEGFQSRICRLLKADL-L-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEEL  150 (250)
Q Consensus        73 ~~~~~~a~~l~~~m~~~~~~~~~-~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~  150 (250)
                      .|+...|..-|+..++..-.+.. . .+-.+|....+.++.++.|+...+-..-.  ..+|.---..+.-.+++++|..=
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n--~dvYyHRgQm~flL~q~e~A~aD  416 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPEN--PDVYYHRGQMRFLLQQYEEAIAD  416 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCC--CchhHhHHHHHHHHHHHHHHHHH
Confidence            47777888888888865544433 3 46677888999999999999886433233  44555444455555788999999


Q ss_pred             HHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          151 FCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       151 ~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      |++-.+-  .| +...|-.+-.+..+.+.+++++..|++.++. +.--+..|+..-..+...++++.|.+-|+..++
T Consensus       417 F~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  417 FQKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            9887663  34 4566777777777889999999999998775 333458899999999999999999999988764

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.24  E-value=0.22  Score=35.42  Aligned_cols=84  Identities=13%  Similarity=0.024  Sum_probs=39.1

Q ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC---HHHH-HHHHHHHHh
Q 025612          102 LRRQNELDLALKVFNFVRKEVWYKPD--LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPD---TRVY-TEMIGVYLQ  175 (250)
Q Consensus       102 ~~~~~~~~~a~~~~~~m~~~~g~~~~--~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~---~~ty-~~li~~~~~  175 (250)
                      +-..|+.++|..+|+.... .|+..+  ...+-.+-+.|...|++++|..+|++....  .|+   .... ..+--++..
T Consensus        11 ~d~~G~~~~Ai~~Y~~Al~-~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~--~p~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen   11 HDSLGREEEAIPLYRRALA-AGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEE--FPDDELNAALRVFLALALYN   87 (120)
T ss_pred             HHhcCCHHHHHHHHHHHHH-cCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCccccHHHHHHHHHHHHH
Confidence            3345566666666666543 444433  223333444555556666666666554432  122   1111 111224445


Q ss_pred             cCChHHHHHHHHH
Q 025612          176 VGMIDKAMETYET  188 (250)
Q Consensus       176 ~g~~~~a~~~~~~  188 (250)
                      .|+.++|+..+-.
T Consensus        88 ~gr~~eAl~~~l~  100 (120)
T PF12688_consen   88 LGRPKEALEWLLE  100 (120)
T ss_pred             CCCHHHHHHHHHH
Confidence            5666665555544

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.24  E-value=0.61  Score=39.37  Aligned_cols=169  Identities=14%  Similarity=0.074  Sum_probs=115.2

Q ss_pred             HHhcCChhHHHHHHHHHHHhcCcccHH--HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHH-HHHHHcCCCHHH
Q 025612           70 MKLAKSSSKLEEGFQSRICRLLKADLL--DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDM-ILMLGKNKQIAM  146 (250)
Q Consensus        70 ~~~~~~~~~a~~l~~~m~~~~~~~~~~--~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~l-i~~~~~~~~~~~  146 (250)
                      +.-..++++++-.++.+.+.-..-|..  .+-.+.+..|++.+|+++|-.+. ...+ -|..+|-++ -++|.+++.++.
T Consensus       369 fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N~AQAk~atgny~eaEelf~~is-~~~i-kn~~~Y~s~LArCyi~nkkP~l  446 (557)
T KOG3785|consen  369 FFLSFQFDDVLTYLNSIESYFTNDDDFNLNLAQAKLATGNYVEAEELFIRIS-GPEI-KNKILYKSMLARCYIRNKKPQL  446 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCcchhhhHHHHHHHHhcChHHHHHHHhhhc-Chhh-hhhHHHHHHHHHHHHhcCCchH
Confidence            334456667777776665544444444  58889999999999999999884 2333 356777554 588999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHH-HHHHhcCChHHHHHHHHHHHHCCCCCCHHHH-------HHHHHHHHhcCC----H
Q 025612          147 AEELFCELKKEGLDPDTRVYTEMI-GVYLQVGMIDKAMETYETMKASGCTPHKLTF-------TILIRNLENAGE----E  214 (250)
Q Consensus       147 A~~~~~~m~~~g~~p~~~ty~~li-~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty-------~~li~~~~~~g~----~  214 (250)
                      |-+++-.+..   .-+.++.-.+| +-|.+++.+=-|-+.|+.+...  .|++.-|       ..++..++....    .
T Consensus       447 AW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~l--DP~pEnWeGKRGACaG~f~~l~~~~~~~~p~  521 (557)
T KOG3785|consen  447 AWDMMLKTNT---PSERFSLLQLIANDCYKANEFYYAAKAFDELEIL--DPTPENWEGKRGACAGLFRQLANHKTDPIPI  521 (557)
T ss_pred             HHHHHHhcCC---chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHcc--CCCccccCCccchHHHHHHHHHcCCCCCCch
Confidence            9887766644   23455544444 6788899988888888888763  4555443       345555554432    5


Q ss_pred             HHHHHHHHHHHhccCCchHHHHHHHHhhhcc
Q 025612          215 ELVAAVRRDCIQYVEFPERFLEEVYQKHRKT  245 (250)
Q Consensus       215 ~~a~~~~~~m~~~g~~pd~~~~~~~~~~~~~  245 (250)
                      ....++...+...+-.--.++-.+.++..+.
T Consensus       522 ~~~rEVvhllr~~~nsq~E~mikvvrkwa~~  552 (557)
T KOG3785|consen  522 SQMREVVHLLRMKPNSQCEFMIKVVRKWAET  552 (557)
T ss_pred             hHHHHHHHHHHhCCCchHHHHHHHHHHHHHh
Confidence            5667777777777776667777777777766

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.12  E-value=0.37  Score=39.73  Aligned_cols=170  Identities=11%  Similarity=0.010  Sum_probs=90.5

Q ss_pred             hcCChhHHHHHHHHHHH-hcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC-------------CHH-------
Q 025612           72 LAKSSSKLEEGFQSRIC-RLLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKP-------------DLS-------  129 (250)
Q Consensus        72 ~~~~~~~a~~l~~~m~~-~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-------------~~~-------  129 (250)
                      +.|+.+.|.+=|+.... .|..|-+. .+--+..+.|+.+.|++...++.+ +|+..             |+.       
T Consensus       156 kegqyEaAvqkFqaAlqvsGyqpllAYniALaHy~~~qyasALk~iSEIie-RG~r~HPElgIGm~tegiDvrsvgNt~~  234 (459)
T KOG4340|consen  156 KEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHYSSRQYASALKHISEIIE-RGIRQHPELGIGMTTEGIDVRSVGNTLV  234 (459)
T ss_pred             ccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHHhhhhHHHHHHHHHHHHH-hhhhcCCccCccceeccCchhcccchHH
Confidence            55666766666666543 45555554 555566666777777766666653 33311             110       


Q ss_pred             -HHHHHHHH-------HHcCCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH
Q 025612          130 -LYSDMILM-------LGKNKQIAMAEELFCELKKE-GLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLT  200 (250)
Q Consensus       130 -~y~~li~~-------~~~~~~~~~A~~~~~~m~~~-g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t  200 (250)
                       .-+.++.+       +-+.|+++.|.+-+-.|.-+ .-..|.+|...+.-.- ..+++.+..+-++-+.+.+ ..-..|
T Consensus       235 lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~n-PfP~ET  312 (459)
T KOG4340|consen  235 LHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQN-PFPPET  312 (459)
T ss_pred             HHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcC-CCChHH
Confidence             01222222       23556666666666666432 2233455544332221 1233444444444444332 124578


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhccCC-chHHHHHHHHhhhc
Q 025612          201 FTILIRNLENAGEEELVAAVRRDCIQYVEF-PERFLEEVYQKHRK  244 (250)
Q Consensus       201 y~~li~~~~~~g~~~~a~~~~~~m~~~g~~-pd~~~~~~~~~~~~  244 (250)
                      |..++-.||++.-++.|.+++.+=...-.. -+.+.|++-.....
T Consensus       313 FANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~LLdaLIt  357 (459)
T KOG4340|consen  313 FANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYDLLDALIT  357 (459)
T ss_pred             HHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHHHHHHHHh
Confidence            888888899888888888887665444333 44555555444433

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.11  E-value=0.48  Score=36.98  Aligned_cols=154  Identities=15%  Similarity=0.100  Sum_probs=94.2

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcC----cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLL----KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMIL  136 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~----~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~  136 (250)
                      ........+...|++.+|...|+.+...--    .++.. .+..++.+.|+++.|...|+...+...-.|.. .+--.+.
T Consensus         7 ~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~-~~A~Y~~   85 (203)
T PF13525_consen    7 ALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKA-DYALYML   85 (203)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTH-HHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcch-hhHHHHH
Confidence            344456677789999999999999986432    22222 58999999999999999999987654434432 2222222


Q ss_pred             HHHc----------C---CCHHHHHHHHHHHHhCCCCCCH------HHH------------HHHHHHHHhcCChHHHHHH
Q 025612          137 MLGK----------N---KQIAMAEELFCELKKEGLDPDT------RVY------------TEMIGVYLQVGMIDKAMET  185 (250)
Q Consensus       137 ~~~~----------~---~~~~~A~~~~~~m~~~g~~p~~------~ty------------~~li~~~~~~g~~~~a~~~  185 (250)
                      +.+.          .   +...+|...|+.+...  -|++      ...            -.+..-|.+.|.+..|..-
T Consensus        86 g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~--yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r  163 (203)
T PF13525_consen   86 GLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKR--YPNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIR  163 (203)
T ss_dssp             HHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH---TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHH
T ss_pred             HHHHHHhCccchhcccChHHHHHHHHHHHHHHHH--CcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHH
Confidence            2221          1   2235667777776653  2331      111            1234567788889999888


Q ss_pred             HHHHHHC--CCCCCHHHHHHHHHHHHhcCCHHHHH
Q 025612          186 YETMKAS--GCTPHKLTFTILIRNLENAGEEELVA  218 (250)
Q Consensus       186 ~~~m~~~--g~~p~~~ty~~li~~~~~~g~~~~a~  218 (250)
                      ++.+.+.  +..-.....-.++.+|.+.|..+.+.
T Consensus       164 ~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  164 FQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            8888775  22222345678888888888877544

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

Probab=96.10  E-value=0.25  Score=46.12  Aligned_cols=109  Identities=18%  Similarity=0.195  Sum_probs=58.2

Q ss_pred             HcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH--cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHH
Q 025612          104 RQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG--KNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDK  181 (250)
Q Consensus       104 ~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~--~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~  181 (250)
                      ..+++.+|.+....+.+..   |+ ..|..+++++.  |.|+.++|..+++....-+.. |..|-.++-..|.+.|..++
T Consensus        21 d~~qfkkal~~~~kllkk~---Pn-~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKH---PN-ALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHC---CC-cHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhH
Confidence            4455555555555554432   23 23444444432  555666666666555444333 55666666666666666666


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 025612          182 AMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAA  219 (250)
Q Consensus       182 a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~  219 (250)
                      |..+|++..+.  -|+..-...+..+|+|.+.+.+-.+
T Consensus        96 ~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQk  131 (932)
T KOG2053|consen   96 AVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQK  131 (932)
T ss_pred             HHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666655543  3555555555666666555555333

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=96.09  E-value=0.7  Score=41.82  Aligned_cols=128  Identities=14%  Similarity=0.151  Sum_probs=93.5

Q ss_pred             CCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHHHHH----HHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHH
Q 025612           57 RVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTL----TELRRQNELDLALKVFNFVRKEVWYKPDLSLYS  132 (250)
Q Consensus        57 ~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~~ll----~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~  132 (250)
                      ..+-|....+...+-..|+++.|+...+..+  +-.|+...+.    +.+..+|.+++|..++++.++ -. .||...-.
T Consensus       368 ttllWt~y~laqh~D~~g~~~~A~~yId~AI--dHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~e-lD-~aDR~INs  443 (700)
T KOG1156|consen  368 TTLLWTLYFLAQHYDKLGDYEVALEYIDLAI--DHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQE-LD-TADRAINS  443 (700)
T ss_pred             hHHHHHHHHHHHHHHHcccHHHHHHHHHHHh--ccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHh-cc-chhHHHHH
Confidence            3455777788999999999999999999876  5567776544    677889999999999999864 32 45666555


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHH--------HHHH--HHHHHhcCChHHHHHHHHHHH
Q 025612          133 DMILMLGKNKQIAMAEELFCELKKEGLDPDTRV--------YTEM--IGVYLQVGMIDKAMETYETMK  190 (250)
Q Consensus       133 ~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t--------y~~l--i~~~~~~g~~~~a~~~~~~m~  190 (250)
                      --.+...++++.++|.++.......|.  +..-        |-.+  -.+|.+.|++..|++=|..+.
T Consensus       444 KcAKYmLrAn~i~eA~~~~skFTr~~~--~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~  509 (700)
T KOG1156|consen  444 KCAKYMLRANEIEEAEEVLSKFTREGF--GAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIE  509 (700)
T ss_pred             HHHHHHHHccccHHHHHHHHHhhhccc--chhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHH
Confidence            677778899999999999988877765  3332        2222  236677777777766554443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.97  E-value=0.19  Score=41.53  Aligned_cols=115  Identities=16%  Similarity=0.143  Sum_probs=63.0

Q ss_pred             CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH
Q 025612          122 VWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKE---GLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHK  198 (250)
Q Consensus       122 ~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~---g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  198 (250)
                      .|...+..+...++..-....+++.+...+-++..+   ...|+...| ++++-|.+ -+.++++.+...=.+.|+-||.
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irlllk-y~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHHHc-cChHHHHHHHhCcchhccccch
Confidence            344455555555555555556666666666665443   122222222 22232222 2355666666666666666777


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCchHHHHHH
Q 025612          199 LTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEV  238 (250)
Q Consensus       199 ~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~~~~~  238 (250)
                      .|++.+|+.+.+.+++..|.++.-.|.......+..+..+
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~qe~~~nell~~L  175 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMMQEAFENELLQLL  175 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            7777777777777766666666666665554444444443

>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=95.97  E-value=0.02  Score=36.98  Aligned_cols=61  Identities=16%  Similarity=0.305  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhC----C-CCCC-HHHHHHHHHHHHhcCChHHHHHHHHHH
Q 025612          129 SLYSDMILMLGKNKQIAMAEELFCELKKE----G-LDPD-TRVYTEMIGVYLQVGMIDKAMETYETM  189 (250)
Q Consensus       129 ~~y~~li~~~~~~~~~~~A~~~~~~m~~~----g-~~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m  189 (250)
                      .+|+.+-..|...|++++|++.|++..+-    | -.|+ ..+++.+-..|...|++++|++.+++-
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            45566666666666666666666654321    1 0121 345555556666666666666666543

...

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.90  E-value=0.87  Score=40.49  Aligned_cols=183  Identities=13%  Similarity=0.045  Sum_probs=120.4

Q ss_pred             CCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhc-CcccHH--------HHHHHHH----HcCCHHHHHHHHHHHHHhCCC
Q 025612           58 VLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRL-LKADLL--------DTLTELR----RQNELDLALKVFNFVRKEVWY  124 (250)
Q Consensus        58 ~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~-~~~~~~--------~ll~~~~----~~~~~~~a~~~~~~m~~~~g~  124 (250)
                      .+.+....++..++-.|+-+.+++++.+..+.+ +.....        .++..++    .....+.|.++++.+.+.   
T Consensus       186 lLPp~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---  262 (468)
T PF10300_consen  186 LLPPKVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---  262 (468)
T ss_pred             hCCHHHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---
Confidence            355777888999999999999999988865433 332222        1222222    256788999999999753   


Q ss_pred             CCCHHHHHHHH-HHHHcCCCHHHHHHHHHHHHhCC-C--CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH
Q 025612          125 KPDLSLYSDMI-LMLGKNKQIAMAEELFCELKKEG-L--DPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLT  200 (250)
Q Consensus       125 ~~~~~~y~~li-~~~~~~~~~~~A~~~~~~m~~~g-~--~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t  200 (250)
                      -|+...|.-.- +.+...|++++|.+.|++..... -  +.....|=-+.-.+.-.++|++|.+.|..+.+.. ..+..+
T Consensus       263 yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~  341 (468)
T PF10300_consen  263 YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAF  341 (468)
T ss_pred             CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHH
Confidence            57766665444 45667899999999999754311 1  1122333344555777899999999999998763 235566


Q ss_pred             HHHHHHHHH-hcCCH-------HHHHHHHHHHHh-------ccCCchHHHHHHHHhhhc
Q 025612          201 FTILIRNLE-NAGEE-------ELVAAVRRDCIQ-------YVEFPERFLEEVYQKHRK  244 (250)
Q Consensus       201 y~~li~~~~-~~g~~-------~~a~~~~~~m~~-------~g~~pd~~~~~~~~~~~~  244 (250)
                      |..+.-+|. ..|+.       ++|.++|.+...       ..++.|.|...-.++..+
T Consensus       342 Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~l~~k~~gk~lp~E~Fv~RK~~~~~~  400 (468)
T PF10300_consen  342 YAYLAAACLLMLGREEEAKEHKKEAEELFRKVPKLKQKKAGKSLPLEKFVIRKAQKYEK  400 (468)
T ss_pred             HHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHHHHhhhccCCCChHHHHHHHHHHHHh
Confidence            666665554 46777       888888887643       244456776554444433

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.

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

Probab=95.87  E-value=0.4  Score=45.68  Aligned_cols=86  Identities=14%  Similarity=0.092  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRN  207 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~  207 (250)
                      ...|+.+-.+-...|.+.+|.+-|-+..      |...|.-+|....+.|.+++..+++...++..-+|...+  .||-+
T Consensus      1104 p~vWsqlakAQL~~~~v~dAieSyikad------Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~--eLi~A 1175 (1666)
T KOG0985|consen 1104 PAVWSQLAKAQLQGGLVKDAIESYIKAD------DPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDS--ELIFA 1175 (1666)
T ss_pred             hHHHHHHHHHHHhcCchHHHHHHHHhcC------CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchH--HHHHH
Confidence            4567777777777777777766554321      667788888888888888888888877777766776655  77778


Q ss_pred             HHhcCCHHHHHHHH
Q 025612          208 LENAGEEELVAAVR  221 (250)
Q Consensus       208 ~~~~g~~~~a~~~~  221 (250)
                      |++.+++.+.++++
T Consensus      1176 yAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1176 YAKTNRLTELEEFI 1189 (1666)
T ss_pred             HHHhchHHHHHHHh
Confidence            88888777766665

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=95.86  E-value=0.57  Score=42.17  Aligned_cols=137  Identities=12%  Similarity=-0.009  Sum_probs=87.8

Q ss_pred             cHHHHHH-HHHHHhcC--C---hhHHHHHHHHHHHhcCcccHH---H-HHHHHHHc--------CCHHHHHHHHHHHHHh
Q 025612           60 SSEAIQA-VHAMKLAK--S---SSKLEEGFQSRICRLLKADLL---D-TLTELRRQ--------NELDLALKVFNFVRKE  121 (250)
Q Consensus        60 ~~~~~~l-l~~~~~~~--~---~~~a~~l~~~m~~~~~~~~~~---~-ll~~~~~~--------~~~~~a~~~~~~m~~~  121 (250)
                      +.+++.+ +++.....  +   ...|..+|++..+  ..|+..   + +..++...        .++..+.+........
T Consensus       336 ~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~--ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al  413 (517)
T PRK10153        336 QGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK--SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVAL  413 (517)
T ss_pred             CHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhc
Confidence            3344443 55544322  2   4578888888764  345543   2 22222211        1123344444433221


Q ss_pred             CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHH
Q 025612          122 VWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTF  201 (250)
Q Consensus       122 ~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty  201 (250)
                      .....+...|.++--.+...|++++|...|++....+  |+...|..+-..|...|+.++|.+.|++-..  +.|...||
T Consensus       414 ~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~--L~P~~pt~  489 (517)
T PRK10153        414 PELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFN--LRPGENTL  489 (517)
T ss_pred             ccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCCchH
Confidence            1233456778877666667899999999999988864  7899999999999999999999999998766  34665565


Q ss_pred             H
Q 025612          202 T  202 (250)
Q Consensus       202 ~  202 (250)
                      .
T Consensus       490 ~  490 (517)
T PRK10153        490 Y  490 (517)
T ss_pred             H
Confidence            4

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

Probab=95.85  E-value=0.73  Score=37.93  Aligned_cols=151  Identities=11%  Similarity=0.069  Sum_probs=91.7

Q ss_pred             hcCChhHHHHHHHHHHHhc---CcccHH-----HHHHHHHHc-CCHHHHHHHHHHHHH---hCCCCC--CHHHHHHHHHH
Q 025612           72 LAKSSSKLEEGFQSRICRL---LKADLL-----DTLTELRRQ-NELDLALKVFNFVRK---EVWYKP--DLSLYSDMILM  137 (250)
Q Consensus        72 ~~~~~~~a~~l~~~m~~~~---~~~~~~-----~ll~~~~~~-~~~~~a~~~~~~m~~---~~g~~~--~~~~y~~li~~  137 (250)
                      +..++++|...+++....-   -.|+..     .+-..|-.. |++++|.+.|.+..+   ..+ .+  -..++..+...
T Consensus        86 k~~~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l  164 (282)
T PF14938_consen   86 KKGDPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADL  164 (282)
T ss_dssp             HHTTHHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHH
T ss_pred             HhhCHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHH
Confidence            3448888888888765321   122221     244445566 799999999988532   233 11  14566788888


Q ss_pred             HHcCCCHHHHHHHHHHHHhCCC-----CCCHH--HHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCCC--HHHHHHHHH
Q 025612          138 LGKNKQIAMAEELFCELKKEGL-----DPDTR--VYTEMIGVYLQVGMIDKAMETYETMKAS--GCTPH--KLTFTILIR  206 (250)
Q Consensus       138 ~~~~~~~~~A~~~~~~m~~~g~-----~p~~~--ty~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~--~~ty~~li~  206 (250)
                      +.+.|++++|.++|++....-+     +.+..  .++++| ++...||...|.+.|++....  ++..+  ......||.
T Consensus       165 ~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l-~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~  243 (282)
T PF14938_consen  165 YARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAIL-CHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLE  243 (282)
T ss_dssp             HHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHH-HHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHH-HHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHH
Confidence            9999999999999999876432     22232  234444 556679999999999998754  44433  355667777


Q ss_pred             HHHhc--CCHHHHHHHHHHH
Q 025612          207 NLENA--GEEELVAAVRRDC  224 (250)
Q Consensus       207 ~~~~~--g~~~~a~~~~~~m  224 (250)
                      +|-..  ..+..+..=|+.+
T Consensus       244 A~~~~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  244 AYEEGDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             HHHTT-CCCHHHHCHHHTTS
T ss_pred             HHHhCCHHHHHHHHHHHccc
Confidence            77643  2355555444443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=95.78  E-value=0.5  Score=35.19  Aligned_cols=90  Identities=11%  Similarity=0.057  Sum_probs=57.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      +-..+...|++++|.++|+.+..   +.|. ..-|-.|=-+|-..|++++|...|.....-. +-|...+-.+-.+|...
T Consensus        41 ~A~~ly~~G~l~~A~~~f~~L~~---~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~l  116 (157)
T PRK15363         41 YAMQLMEVKEFAGAARLFQLLTI---YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHc
Confidence            44444567777777777777654   2333 3444556666666777777777777765543 23556666667777777


Q ss_pred             CChHHHHHHHHHHHH
Q 025612          177 GMIDKAMETYETMKA  191 (250)
Q Consensus       177 g~~~~a~~~~~~m~~  191 (250)
                      |+.+.|.+-|+....
T Consensus       117 G~~~~A~~aF~~Ai~  131 (157)
T PRK15363        117 DNVCYAIKALKAVVR  131 (157)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            777777777776544

>PRK04841 transcriptional regulator MalT; Provisional

Probab=95.76  E-value=1.6  Score=42.06  Aligned_cols=157  Identities=11%  Similarity=-0.045  Sum_probs=104.0

Q ss_pred             HHhcCChhHHHHHHHHHHHhcCcccHH-------HHHHHHHHcCCHHHHHHHHHHHHHh---CCC-CCCHHHHHHHHHHH
Q 025612           70 MKLAKSSSKLEEGFQSRICRLLKADLL-------DTLTELRRQNELDLALKVFNFVRKE---VWY-KPDLSLYSDMILML  138 (250)
Q Consensus        70 ~~~~~~~~~a~~l~~~m~~~~~~~~~~-------~ll~~~~~~~~~~~a~~~~~~m~~~---~g~-~~~~~~y~~li~~~  138 (250)
                      +...|++++|...+++.....-..+..       .+-..+...|++++|...+.+....   .|- .....+++.+-..+
T Consensus       462 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~  541 (903)
T PRK04841        462 AINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEIL  541 (903)
T ss_pred             HHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHH
Confidence            446799999999999876531111111       2444566789999999999886531   111 11134456666778


Q ss_pred             HcCCCHHHHHHHHHHHHh----CCCC--C-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCC--CHHHHHHHHHH
Q 025612          139 GKNKQIAMAEELFCELKK----EGLD--P-DTRVYTEMIGVYLQVGMIDKAMETYETMKAS--GCTP--HKLTFTILIRN  207 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~----~g~~--p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p--~~~ty~~li~~  207 (250)
                      ...|++++|...+++...    .|..  + ....+..+-..+...|++++|...+++....  ...+  ....+..+-..
T Consensus       542 ~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  621 (903)
T PRK04841        542 FAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKI  621 (903)
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHH
Confidence            889999999998887543    2321  1 2334555556677789999999999886542  1112  23445556677


Q ss_pred             HHhcCCHHHHHHHHHHHHh
Q 025612          208 LENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       208 ~~~~g~~~~a~~~~~~m~~  226 (250)
                      +...|+++.|.+.+.....
T Consensus       622 ~~~~G~~~~A~~~l~~a~~  640 (903)
T PRK04841        622 SLARGDLDNARRYLNRLEN  640 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            8899999999998888754

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.76  E-value=0.15  Score=46.01  Aligned_cols=98  Identities=14%  Similarity=0.127  Sum_probs=72.8

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH------
Q 025612          127 DLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLT------  200 (250)
Q Consensus       127 ~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t------  200 (250)
                      +..+.-.+-..+.+...+..|-++|..|-..         -++++.....++|.+|..+-+...+  +.||++.      
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe--~~~dVy~pyaqwL  814 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPE--FKDDVYMPYAQWL  814 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCcc--ccccccchHHHHh
Confidence            3445555555566677788899999988653         4678888899999999998877655  4455532      


Q ss_pred             -----HHHHHHHHHhcCCHHHHHHHHHHHHhccCCchHHH
Q 025612          201 -----FTILIRNLENAGEEELVAAVRRDCIQYVEFPERFL  235 (250)
Q Consensus       201 -----y~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~~  235 (250)
                           |.---++|.++|+-.+|.++++++....+..++|.
T Consensus       815 AE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnnav~E~Rf~  854 (1081)
T KOG1538|consen  815 AENDRFEEAQKAFHKAGRQREAVQVLEQLTNNAVAESRFN  854 (1081)
T ss_pred             hhhhhHHHHHHHHHHhcchHHHHHHHHHhhhhhhhhhhhc
Confidence                 55566889999999999999999988777665543

>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=95.75  E-value=0.043  Score=35.45  Aligned_cols=64  Identities=22%  Similarity=0.316  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CC-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          163 TRVYTEMIGVYLQVGMIDKAMETYETMKAS----GC-TPH-KLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       163 ~~ty~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      ..+|+.+-..|...|++++|+..|++..+.    |- .|+ ..++..+-..|...|++++|.+.+++..+
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            357889999999999999999999987542    21 233 56788899999999999999999987643

...

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=95.72  E-value=0.58  Score=34.82  Aligned_cols=92  Identities=11%  Similarity=-0.019  Sum_probs=68.6

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 025612          133 DMILMLGKNKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENA  211 (250)
Q Consensus       133 ~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~  211 (250)
                      .+-.-+...|++++|.++|+-+..-  .| +..-|-.|-.+|-..|++++|...|........ -|+..+-.+-.++...
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~~--Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~l  116 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTIY--DAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHc
Confidence            3444556788889999888887653  33 445566666777778889999998888877653 3667788888888888


Q ss_pred             CCHHHHHHHHHHHHhc
Q 025612          212 GEEELVAAVRRDCIQY  227 (250)
Q Consensus       212 g~~~~a~~~~~~m~~~  227 (250)
                      |+.+.|.+-|+.....
T Consensus       117 G~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        117 DNVCYAIKALKAVVRI  132 (157)
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            9999998888877654

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

Probab=95.62  E-value=0.24  Score=44.15  Aligned_cols=123  Identities=15%  Similarity=0.101  Sum_probs=91.2

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHH--HHHH
Q 025612           95 LLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTE--MIGV  172 (250)
Q Consensus        95 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~--li~~  172 (250)
                      ..+=++-+.+.+++++|.+..+.+.. . .+-|...+.+-+-++...+.+++|.++.+.-..      ..+++.  +=.+
T Consensus        15 l~t~ln~~~~~~e~e~a~k~~~Kil~-~-~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~------~~~~~~~~fEKA   86 (652)
T KOG2376|consen   15 LLTDLNRHGKNGEYEEAVKTANKILS-I-VPDDEDAIRCKVVALIQLDKYEDALKLIKKNGA------LLVINSFFFEKA   86 (652)
T ss_pred             HHHHHHHhccchHHHHHHHHHHHHHh-c-CCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch------hhhcchhhHHHH
Confidence            33556777788999999999999963 3 345677788888899999999999966654321      123333  3455


Q ss_pred             HH--hcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 025612          173 YL--QVGMIDKAMETYETMKASGCTPHK-LTFTILIRNLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       173 ~~--~~g~~~~a~~~~~~m~~~g~~p~~-~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      ||  +.++.|+|+..++     |..++. .+-..=-..+-+.|++++|.++++.+.+++..
T Consensus        87 Yc~Yrlnk~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d  142 (652)
T KOG2376|consen   87 YCEYRLNKLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD  142 (652)
T ss_pred             HHHHHcccHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc
Confidence            55  5899999999988     444443 35556667788999999999999999887765

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.56  E-value=0.91  Score=40.37  Aligned_cols=145  Identities=17%  Similarity=0.111  Sum_probs=103.0

Q ss_pred             cccHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-----HHHHHHHHHHHHc----CCCHHHHHHHHHHHHhCCCCCC
Q 025612           92 KADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPD-----LSLYSDMILMLGK----NKQIAMAEELFCELKKEGLDPD  162 (250)
Q Consensus        92 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-----~~~y~~li~~~~~----~~~~~~A~~~~~~m~~~g~~p~  162 (250)
                      +|.+..++...+=.|+-+.+.+.+..-.+..++.-.     .-.|+.++..++-    ....+.|.++++.+..+  -|+
T Consensus       188 Pp~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~  265 (468)
T PF10300_consen  188 PPKVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPN  265 (468)
T ss_pred             CHHHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCC
Confidence            444446888888889999999999988765555443     2446666655554    45688999999999885  789


Q ss_pred             HHHHHHHH-HHHHhcCChHHHHHHHHHHHHC--CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-cCCchHHHHH
Q 025612          163 TRVYTEMI-GVYLQVGMIDKAMETYETMKAS--GC-TPHKLTFTILIRNLENAGEEELVAAVRRDCIQY-VEFPERFLEE  237 (250)
Q Consensus       163 ~~ty~~li-~~~~~~g~~~~a~~~~~~m~~~--g~-~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~-g~~pd~~~~~  237 (250)
                      ..-|.-.- +.+...|++++|.+.|++....  .. ......|--+.-.+.-.+++++|.+.|..+.+. ...+--+.|.
T Consensus       266 s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~  345 (468)
T PF10300_consen  266 SALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYL  345 (468)
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHH
Confidence            88887775 4555689999999999975432  11 112234455556677889999999999999875 4445444444


Q ss_pred             H
Q 025612          238 V  238 (250)
Q Consensus       238 ~  238 (250)
                      -
T Consensus       346 ~  346 (468)
T PF10300_consen  346 A  346 (468)
T ss_pred             H
Confidence            3

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.

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

Probab=95.52  E-value=0.81  Score=42.89  Aligned_cols=157  Identities=11%  Similarity=0.033  Sum_probs=114.1

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCcccHHHHHHHHH--HcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCH
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELR--RQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQI  144 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~--~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~  144 (250)
                      |-.....+++..|+...++..+.--......++.++.  |.|+.++|..+++.... .+.. |..|...+-.+|-..+..
T Consensus        16 i~d~ld~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~-~~~~-D~~tLq~l~~~y~d~~~~   93 (932)
T KOG2053|consen   16 IYDLLDSSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKGDEALKLLEALYG-LKGT-DDLTLQFLQNVYRDLGKL   93 (932)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCchhHHHHHhhhcc-CCCC-chHHHHHHHHHHHHHhhh
Confidence            3344566888999999988775543333345677665  88999999999998743 4433 899999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC----------H
Q 025612          145 AMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGE----------E  214 (250)
Q Consensus       145 ~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~----------~  214 (250)
                      ++|..+|+.....  .|+..--..+..+|++.+++.+-.++=-+|-+. +.-+.+.|..+++.+...-.          .
T Consensus        94 d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l  170 (932)
T KOG2053|consen   94 DEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILL  170 (932)
T ss_pred             hHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhH
Confidence            9999999998764  688888888889999998887766555444432 33456888888887765321          3


Q ss_pred             HHHHHHHHHHHhcc
Q 025612          215 ELVAAVRRDCIQYV  228 (250)
Q Consensus       215 ~~a~~~~~~m~~~g  228 (250)
                      -.|++.++.+.+.+
T Consensus       171 ~LA~~m~~~~l~~~  184 (932)
T KOG2053|consen  171 ALAEKMVQKLLEKK  184 (932)
T ss_pred             HHHHHHHHHHhccC
Confidence            34666677766543

>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=95.51  E-value=0.12  Score=32.29  Aligned_cols=60  Identities=15%  Similarity=0.225  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHH
Q 025612          129 SLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG-MIDKAMETYETM  189 (250)
Q Consensus       129 ~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g-~~~~a~~~~~~m  189 (250)
                      .+|..+=..+...|++++|+..|.+..+.. +-+...|..+-.+|.+.| ++++|++.|+..
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~a   64 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKA   64 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHH
Confidence            344444444445555555555554444321 112334444444444444 344554444443

...

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

Probab=95.49  E-value=0.22  Score=44.22  Aligned_cols=112  Identities=13%  Similarity=0.115  Sum_probs=88.8

Q ss_pred             HHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHH
Q 025612          108 LDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMETY  186 (250)
Q Consensus       108 ~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~  186 (250)
                      +.+..++|-++....+..+|..++..|=-.|--.|++++|.++|+.....  +| |...||-|-..++...+.++|+.-|
T Consensus       410 l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY  487 (579)
T KOG1125|consen  410 LAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAY  487 (579)
T ss_pred             HHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHH
Confidence            34566777777666775677777888877888889999999999998763  55 5788999999999999999999999


Q ss_pred             HHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHH
Q 025612          187 ETMKASGCTPHK--LTFTILIRNLENAGEEELVAAVRRDC  224 (250)
Q Consensus       187 ~~m~~~g~~p~~--~ty~~li~~~~~~g~~~~a~~~~~~m  224 (250)
                      ++.++  ++|+-  +=||. -=+|.+.|.+++|.+.|-..
T Consensus       488 ~rALq--LqP~yVR~RyNl-gIS~mNlG~ykEA~~hlL~A  524 (579)
T KOG1125|consen  488 NRALQ--LQPGYVRVRYNL-GISCMNLGAYKEAVKHLLEA  524 (579)
T ss_pred             HHHHh--cCCCeeeeehhh-hhhhhhhhhHHHHHHHHHHH
Confidence            99988  45654  33544 44688999999998887653

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=95.46  E-value=0.18  Score=31.90  Aligned_cols=52  Identities=15%  Similarity=0.178  Sum_probs=21.5

Q ss_pred             HHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 025612          138 LGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMK  190 (250)
Q Consensus       138 ~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~  190 (250)
                      |.+.+++++|.++++.+...+ +-+...|...-..|.+.|++++|.+.|+...
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            344444444444444443321 1123333333444444444444444444444

>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=95.41  E-value=0.13  Score=32.16  Aligned_cols=63  Identities=16%  Similarity=0.228  Sum_probs=45.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcC-CHHHHHHHHHHHHh
Q 025612          162 DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAG-EEELVAAVRRDCIQ  226 (250)
Q Consensus       162 ~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g-~~~~a~~~~~~m~~  226 (250)
                      +..+|..+-..+...|++++|+..|++..+..  | +...|..+-.+|.+.| ++++|.+.++...+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~--p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD--PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS--TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            45667777777888888888888887776642  4 4466777777777777 67888777776543

...

>PLN02789 farnesyltranstransferase

Probab=95.31  E-value=1.5  Score=36.90  Aligned_cols=143  Identities=9%  Similarity=0.019  Sum_probs=96.8

Q ss_pred             HHHHHHHHH-hcCChhHHHHHHHHHHHhcCcccHHH----HHHHHHHcC-CHHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 025612           63 AIQAVHAMK-LAKSSSKLEEGFQSRICRLLKADLLD----TLTELRRQN-ELDLALKVFNFVRKEVWYKPDLSLYSDMIL  136 (250)
Q Consensus        63 ~~~ll~~~~-~~~~~~~a~~l~~~m~~~~~~~~~~~----ll~~~~~~~-~~~~a~~~~~~m~~~~g~~~~~~~y~~li~  136 (250)
                      ++..++++. ..++.++|+.+.++.+..  .|+..+    --.++.+.| .+++++..++.+.+ .+ +-+..+|+..-.
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~-~n-pknyqaW~~R~~  114 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAE-DN-PKNYQIWHHRRW  114 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHH-HC-CcchHHhHHHHH
Confidence            333444444 457889999999998743  343331    111223345 57999999999875 32 234556776555


Q ss_pred             HHHcCCC--HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 025612          137 MLGKNKQ--IAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENA  211 (250)
Q Consensus       137 ~~~~~~~--~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~  211 (250)
                      .+.+.|+  .+++..+++++.+.. .-|...|+.--..+.+.|+++++++.++++.+.... |...|+.....+.+.
T Consensus       115 ~l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~  189 (320)
T PLN02789        115 LAEKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRS  189 (320)
T ss_pred             HHHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhc
Confidence            5556665  367888888887642 236788988888888999999999999999887644 556677766665554

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.30  E-value=0.65  Score=40.89  Aligned_cols=150  Identities=14%  Similarity=0.095  Sum_probs=88.6

Q ss_pred             HHHHHhcCChhHHHHHHHH-HHHhcCcccHH-HHHHHHHHcCCHHHHHHHHHHHH----------------HhCCCCCCH
Q 025612           67 VHAMKLAKSSSKLEEGFQS-RICRLLKADLL-DTLTELRRQNELDLALKVFNFVR----------------KEVWYKPDL  128 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~-m~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~----------------~~~g~~~~~  128 (250)
                      ++...-.++++.+.+.... -.-..++++.. +++.-+-+.|..+.|+++-.+-.                +...-..+.
T Consensus       268 fk~av~~~d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~~rFeLAl~lg~L~~A~~~a~~~~~~  347 (443)
T PF04053_consen  268 FKTAVLRGDFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELALQFVTDPDHRFELALQLGNLDIALEIAKELDDP  347 (443)
T ss_dssp             HHHHHHTT-HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHHHHSS-HHHHHHHHHHCT-HHHHHHHCCCCSTH
T ss_pred             HHHHHHcCChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHHhhcCChHHHhHHHHhcCCHHHHHHHHHhcCcH
Confidence            4555566777776555541 11112222222 45555556666665555433221                112223478


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 025612          129 SLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNL  208 (250)
Q Consensus       129 ~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~  208 (250)
                      ..|..|-+...+.|+++-|++.|++...         |..|+--|.-.|+.+...++-+.-...|-      ++....++
T Consensus       348 ~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~  412 (443)
T PF04053_consen  348 EKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAA  412 (443)
T ss_dssp             HHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHH
Confidence            8999999999999999999999998765         67788888889999888888877777652      56666777


Q ss_pred             HhcCCHHHHHHHHHHHHhccCCchHH
Q 025612          209 ENAGEEELVAAVRRDCIQYVEFPERF  234 (250)
Q Consensus       209 ~~~g~~~~a~~~~~~m~~~g~~pd~~  234 (250)
                      .-.|++++..+++.   +.|-.|-+.
T Consensus       413 ~~lgd~~~cv~lL~---~~~~~~~A~  435 (443)
T PF04053_consen  413 LLLGDVEECVDLLI---ETGRLPEAA  435 (443)
T ss_dssp             HHHT-HHHHHHHHH---HTT-HHHHH
T ss_pred             HHcCCHHHHHHHHH---HcCCchHHH
Confidence            77788877776654   444444433

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.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.26  E-value=0.77  Score=33.28  Aligned_cols=109  Identities=15%  Similarity=0.132  Sum_probs=62.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      .++..+.+.+.......+++.+.+ .+ ..+...+|.+|..|++.+. ++..+.+..  .    .+......+++.|-+.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~-~~-~~~~~~~~~li~ly~~~~~-~~ll~~l~~--~----~~~yd~~~~~~~c~~~   82 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALK-LN-SENPALQTKLIELYAKYDP-QKEIERLDN--K----SNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHc-cC-ccchhHHHHHHHHHHHHCH-HHHHHHHHh--c----cccCCHHHHHHHHHHc
Confidence            566677677777777777777764 34 2566677777777776533 333344432  1    2334444466777777


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHH
Q 025612          177 GMIDKAMETYETMKASGCTPHKLTFTILIRNLENA-GEEELVAAVRRD  223 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~-g~~~~a~~~~~~  223 (250)
                      +.++++.-++..+..         |...++.+... ++++.|.+++..
T Consensus        83 ~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~  121 (140)
T smart00299       83 KLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVK  121 (140)
T ss_pred             CcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHh
Confidence            777777777666532         11222223333 566666666554

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

Probab=95.16  E-value=2.5  Score=38.67  Aligned_cols=151  Identities=13%  Similarity=0.058  Sum_probs=91.2

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCH
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQI  144 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~  144 (250)
                      .+..-.+|++..|..++.+..+..-. -+.- +-+.....+.+++.|..+|.+.+.   ..|+...|.--++.---.++.
T Consensus       591 ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~---~sgTeRv~mKs~~~er~ld~~  667 (913)
T KOG0495|consen  591 AKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARS---ISGTERVWMKSANLERYLDNV  667 (913)
T ss_pred             HHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhc---cCCcchhhHHHhHHHHHhhhH
Confidence            44455668888888888776643322 1111 566677788888888888887743   467778887777766667888


Q ss_pred             HHHHHHHHHHHhCCCCCCHH-----------------------------------HHHHHHHHHHhcCChHHHHHHHHHH
Q 025612          145 AMAEELFCELKKEGLDPDTR-----------------------------------VYTEMIGVYLQVGMIDKAMETYETM  189 (250)
Q Consensus       145 ~~A~~~~~~m~~~g~~p~~~-----------------------------------ty~~li~~~~~~g~~~~a~~~~~~m  189 (250)
                      ++|.+++++-.+.  -|+-.                                   .|-.|.+-=-+.|.+-+|..++++-
T Consensus       668 eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildra  745 (913)
T KOG0495|consen  668 EEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRA  745 (913)
T ss_pred             HHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHH
Confidence            8888887765542  23322                                   1222323333344555555555555


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 025612          190 KASGCTPHKLTFTILIRNLENAGEEELVAAVRRD  223 (250)
Q Consensus       190 ~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~  223 (250)
                      +-.+ .-|...|...|+.=.|.|..++|..+...
T Consensus       746 rlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmak  778 (913)
T KOG0495|consen  746 RLKN-PKNALLWLESIRMELRAGNKEQAELLMAK  778 (913)
T ss_pred             HhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4433 12445666666666666666666655443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=95.11  E-value=0.7  Score=37.70  Aligned_cols=85  Identities=16%  Similarity=0.112  Sum_probs=53.4

Q ss_pred             HHcCCHHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHH
Q 025612          103 RRQNELDLALKVFNFVRKEVWYKPD----LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPD----TRVYTEMIGVYL  174 (250)
Q Consensus       103 ~~~~~~~~a~~~~~~m~~~~g~~~~----~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~----~~ty~~li~~~~  174 (250)
                      .+.|++++|...|+.+.+.   .|+    ...+--+-..|...|++++|...|+.+.+.  .|+    ...+-.+...|.
T Consensus       154 ~~~~~y~~Ai~af~~fl~~---yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~--yP~s~~~~dAl~klg~~~~  228 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKK---YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKN--YPKSPKAADAMFKVGVIMQ  228 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHH---CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhHHHHHHHHHHH
Confidence            4567777777777777642   232    234555666677778888888887777653  122    222333445566


Q ss_pred             hcCChHHHHHHHHHHHHC
Q 025612          175 QVGMIDKAMETYETMKAS  192 (250)
Q Consensus       175 ~~g~~~~a~~~~~~m~~~  192 (250)
                      ..|+.++|..+|+...+.
T Consensus       229 ~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        229 DKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            778888888888777664

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

Probab=95.08  E-value=2.3  Score=38.75  Aligned_cols=128  Identities=15%  Similarity=0.128  Sum_probs=72.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      ..+..+.+.|++......|+.....--+......|.-.|...-..+-++.+.+++....+-    +...-+--|..+++.
T Consensus       107 ~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L~~~  182 (835)
T KOG2047|consen  107 DYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYLAKS  182 (835)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHHHhc
Confidence            3455555667776667777665433333344455666666666666666666666655442    333345555555555


Q ss_pred             CChHHHHHHHHHHHHC----------------------------------------C--CCCCH--HHHHHHHHHHHhcC
Q 025612          177 GMIDKAMETYETMKAS----------------------------------------G--CTPHK--LTFTILIRNLENAG  212 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~----------------------------------------g--~~p~~--~ty~~li~~~~~~g  212 (250)
                      +++++|-+.+......                                        |  .-+|.  ..|+.|-+-|.+.|
T Consensus       183 d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g  262 (835)
T KOG2047|consen  183 DRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSG  262 (835)
T ss_pred             cchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhh
Confidence            5555555544444320                                        1  11222  33777778888888


Q ss_pred             CHHHHHHHHHHHHhcc
Q 025612          213 EEELVAAVRRDCIQYV  228 (250)
Q Consensus       213 ~~~~a~~~~~~m~~~g  228 (250)
                      +++.|..++.+-...-
T Consensus       263 ~~ekarDvyeeai~~v  278 (835)
T KOG2047|consen  263 LFEKARDVYEEAIQTV  278 (835)
T ss_pred             hhHHHHHHHHHHHHhh
Confidence            8888888877765543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.98  E-value=1.3  Score=36.65  Aligned_cols=66  Identities=9%  Similarity=0.126  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 025612          163 TRVYTEMIGVYLQVGMIDKAMETYETMKAS-GCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       163 ~~ty~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      ..+-+..-.-..+.|++++|.+-|+...+- |..| ...||.-+..| +.|+++.|.+...+.+++|+.
T Consensus       144 Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqp-llAYniALaHy-~~~qyasALk~iSEIieRG~r  210 (459)
T KOG4340|consen  144 ADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQP-LLAYNLALAHY-SSRQYASALKHISEIIERGIR  210 (459)
T ss_pred             cchhccchheeeccccHHHHHHHHHHHHhhcCCCc-hhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhh
Confidence            334444444556789999999999987765 6665 45788777655 457899999999999999886

>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=94.66  E-value=1.2  Score=32.29  Aligned_cols=68  Identities=7%  Similarity=0.063  Sum_probs=51.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 025612          162 DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       162 ~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      +....+.-+......|+-|...+++.++.+ +-.+++...--+-.||.+.|+..++.+++++.=+.|+.
T Consensus        85 ~se~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   85 LSEYVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             --HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            455567778888999999999999999876 34678888889999999999999999999999888875

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

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=94.65  E-value=0.23  Score=31.37  Aligned_cols=59  Identities=17%  Similarity=0.086  Sum_probs=49.2

Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 025612          171 GVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       171 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      ..|.+.+++++|.++++.+...+ +.+...+...-..+.+.|++++|.+.++...+.+-.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~   61 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALELSPD   61 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCC
Confidence            56889999999999999998863 225567777888999999999999999998865543

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

Probab=94.62  E-value=0.43  Score=43.69  Aligned_cols=118  Identities=14%  Similarity=0.159  Sum_probs=84.5

Q ss_pred             HcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHH
Q 025612          104 RQNELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKA  182 (250)
Q Consensus       104 ~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a  182 (250)
                      +.++++.|.+.|..-..   +.|| ...||++-.+|.+.++-.+|...+.+-.+.+ .-+...|-.-+-...+.|.+++|
T Consensus       531 qlek~q~av~aF~rcvt---L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda  606 (777)
T KOG1128|consen  531 QLEKEQAAVKAFHRCVT---LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDA  606 (777)
T ss_pred             HHhhhHHHHHHHHHHhh---cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHH
Confidence            66788888888887752   3454 7789999999999999999999999988775 44455566667777899999999


Q ss_pred             HHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHH
Q 025612          183 METYETMKASG-CTPHKLTFTILIRNLENAGE---EELVAAVRRDCI  225 (250)
Q Consensus       183 ~~~~~~m~~~g-~~p~~~ty~~li~~~~~~g~---~~~a~~~~~~m~  225 (250)
                      .+.+.+|.... -.-|...-..++....+..-   -+++.......+
T Consensus       607 ~~A~~rll~~~~~~~d~~vl~~iv~~~~~~~~d~s~de~~~~k~~~k  653 (777)
T KOG1128|consen  607 IKAYHRLLDLRKKYKDDEVLLIIVRTVLEGMTDESGDEATGLKGKLK  653 (777)
T ss_pred             HHHHHHHHHhhhhcccchhhHHHHHHHHhhccccccchhhhhhHHHH
Confidence            99999876531 11255666666666665433   444444444443

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

Probab=94.55  E-value=1.2  Score=36.70  Aligned_cols=100  Identities=16%  Similarity=0.265  Sum_probs=71.2

Q ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCh
Q 025612          102 LRRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPD-TRVYTEMIGVYLQVGMI  179 (250)
Q Consensus       102 ~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~ty~~li~~~~~~g~~  179 (250)
                      ..+.+++.+|.+.|.+..+   +.| |.+-|-.=--+|++.|.++.|.+=-+.-..  +.|. ..+|..|-.+|...|++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~---l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~--iDp~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIE---LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHh---cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHHHccCcH
Confidence            4577888888888888764   344 466666777788888888888765554433  2333 46788888888888888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 025612          180 DKAMETYETMKASGCTPHKLTFTILIRNL  208 (250)
Q Consensus       180 ~~a~~~~~~m~~~g~~p~~~ty~~li~~~  208 (250)
                      ++|.+.|+.-.+  +.|+..+|..=++..
T Consensus       166 ~~A~~aykKaLe--ldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  166 EEAIEAYKKALE--LDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHHHHHhhhc--cCCCcHHHHHHHHHH
Confidence            888888887776  678777776655544

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

Probab=94.47  E-value=0.85  Score=37.42  Aligned_cols=79  Identities=16%  Similarity=0.171  Sum_probs=62.7

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH-----CCCCCCHHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKA-----SGCTPHKLTFT  202 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~ty~  202 (250)
                      ..++..++..+...|+.+.+.+.++++.... +-|...|..+|.+|.+.|+...|++.|+.+.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            3556778888888888888888888887642 44778889999999999999999888888764     48888888877


Q ss_pred             HHHHH
Q 025612          203 ILIRN  207 (250)
Q Consensus       203 ~li~~  207 (250)
                      ...+.
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            77666

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.43  E-value=2.2  Score=34.45  Aligned_cols=149  Identities=14%  Similarity=0.120  Sum_probs=89.4

Q ss_pred             hcCChhHHHHHHHHHHH---hc-CcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHcCC
Q 025612           72 LAKSSSKLEEGFQSRIC---RL-LKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMIL-MLGKNK  142 (250)
Q Consensus        72 ~~~~~~~a~~l~~~m~~---~~-~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~-~~~~~~  142 (250)
                      ..++++++.+++.++..   .| ..++.-    .++-+....|+.+.|...++.+..+.   |...-...|=- -+-..|
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f---p~S~RV~~lkam~lEa~~  100 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF---PGSKRVGKLKAMLLEATG  100 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC---CCChhHHHHHHHHHHHhh
Confidence            35667777777777652   33 444443    35556667777777777777775432   22111111111 122356


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRR  222 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~  222 (250)
                      .+++|++.++.+.+.. +.|.++|--=|...-..|+--+|.+-+....+. +.-|...|.-+-+.|...|+++.|.-.++
T Consensus       101 ~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClE  178 (289)
T KOG3060|consen  101 NYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLE  178 (289)
T ss_pred             chhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHH
Confidence            7777777777777664 445566654444444556655666666555544 44577777778788887777777777777


Q ss_pred             HHH
Q 025612          223 DCI  225 (250)
Q Consensus       223 ~m~  225 (250)
                      ++.
T Consensus       179 E~l  181 (289)
T KOG3060|consen  179 ELL  181 (289)
T ss_pred             HHH
Confidence            765

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=94.32  E-value=0.4  Score=41.80  Aligned_cols=65  Identities=12%  Similarity=0.082  Sum_probs=57.4

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          161 PDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHK----LTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       161 p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      .+...|+.+-.+|.+.|++++|...|++-.+.  .|+.    .+|..+-.+|...|++++|.+.++...+.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            35788999999999999999999999998774  5774    46999999999999999999999998875

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.30  E-value=2.7  Score=34.99  Aligned_cols=135  Identities=15%  Similarity=0.212  Sum_probs=89.9

Q ss_pred             HHHHHHHHcCC-----HHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc--CCC----HHHHHHHHHHHHhCC---CCCC
Q 025612           97 DTLTELRRQNE-----LDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK--NKQ----IAMAEELFCELKKEG---LDPD  162 (250)
Q Consensus        97 ~ll~~~~~~~~-----~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~--~~~----~~~A~~~~~~m~~~g---~~p~  162 (250)
                      ++...++-.++     +++...+++.|.+ .|+.-+..+|-+..-....  ..+    ...|..+|+.|++..   ..++
T Consensus        62 ~la~~l~~~~~~p~~~~~~~~~~y~~L~~-~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~  140 (297)
T PF13170_consen   62 ILAALLDISFEDPEEAFKEVLDIYEKLKE-AGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPE  140 (297)
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHHHHH-hccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCcc
Confidence            34444444444     4567788888974 8899888888663333333  333    467899999999874   2467


Q ss_pred             HHHHHHHHHHHHhcCC----hHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHH-hcCC--HHHHHHHHHHHHhccCCchHH
Q 025612          163 TRVYTEMIGVYLQVGM----IDKAMETYETMKASGCTPHKL-TFTILIRNLE-NAGE--EELVAAVRRDCIQYVEFPERF  234 (250)
Q Consensus       163 ~~ty~~li~~~~~~g~----~~~a~~~~~~m~~~g~~p~~~-ty~~li~~~~-~~g~--~~~a~~~~~~m~~~g~~pd~~  234 (250)
                      ..++.+|+..  ..++    .++++.+|+.+.+.|+..+.. .+.+-+-++. ....  +.++.++++.+.+.|+++...
T Consensus       141 D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~  218 (297)
T PF13170_consen  141 DYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYM  218 (297)
T ss_pred             chhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccc
Confidence            7889999876  3333    467788899999988877543 3333333333 2222  557899999999999985433

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=94.28  E-value=1.2  Score=32.79  Aligned_cols=95  Identities=7%  Similarity=0.013  Sum_probs=70.7

Q ss_pred             hCCCCCCH--HHHHHHHHHHHcCCCHHHHHHHHHHHHhCC---C--CCCHHHHHHHHHHHHhcCC-hHHHHHHHHHHHHC
Q 025612          121 EVWYKPDL--SLYSDMILMLGKNKQIAMAEELFCELKKEG---L--DPDTRVYTEMIGVYLQVGM-IDKAMETYETMKAS  192 (250)
Q Consensus       121 ~~g~~~~~--~~y~~li~~~~~~~~~~~A~~~~~~m~~~g---~--~p~~~ty~~li~~~~~~g~-~~~a~~~~~~m~~~  192 (250)
                      +.+..++.  ...|++++-.+..+++.....+++.+.--.   +  ..+..+|.+++.+.+.... --.+..+|..|++.
T Consensus        30 ~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~  109 (145)
T PF13762_consen   30 EENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKN  109 (145)
T ss_pred             hcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHc
Confidence            35566664  345888888888888888888888774311   0  2355679999999977666 33577889999998


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHH
Q 025612          193 GCTPHKLTFTILIRNLENAGEEE  215 (250)
Q Consensus       193 g~~p~~~ty~~li~~~~~~g~~~  215 (250)
                      +.++++.-|..||+++.+....+
T Consensus       110 ~~~~t~~dy~~li~~~l~g~~~~  132 (145)
T PF13762_consen  110 DIEFTPSDYSCLIKAALRGYFHD  132 (145)
T ss_pred             CCCCCHHHHHHHHHHHHcCCCCc
Confidence            89999999999999998864433

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

Probab=94.23  E-value=4.3  Score=37.12  Aligned_cols=165  Identities=13%  Similarity=0.179  Sum_probs=97.7

Q ss_pred             HhcCChhHHHHHHHHHHHhcC-cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHc---CCCH
Q 025612           71 KLAKSSSKLEEGFQSRICRLL-KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGK---NKQI  144 (250)
Q Consensus        71 ~~~~~~~~a~~l~~~m~~~~~-~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~---~~~~  144 (250)
                      -..|-++.-..+++++++..+ .|... ..--.+-.+..+++++++|+.-..-.. -|+ -..||+-+.-+.+   ...+
T Consensus       488 Es~gtfestk~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk-~p~v~diW~tYLtkfi~rygg~kl  566 (835)
T KOG2047|consen  488 ESLGTFESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFK-WPNVYDIWNTYLTKFIKRYGGTKL  566 (835)
T ss_pred             HHhccHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCC-CccHHHHHHHHHHHHHHHhcCCCH
Confidence            344677777888888877664 34433 122223355668888888886542111 233 3467776665554   2358


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHH--hcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHHHHH
Q 025612          145 AMAEELFCELKKEGLDPDTRVYTEMIGVYL--QVGMIDKAMETYETMKASGCTPHK--LTFTILIRNLENAGEEELVAAV  220 (250)
Q Consensus       145 ~~A~~~~~~m~~~g~~p~~~ty~~li~~~~--~~g~~~~a~~~~~~m~~~g~~p~~--~ty~~li~~~~~~g~~~~a~~~  220 (250)
                      +.|..+|++..+ |++|...-+--|+.+-.  +.|....|..++++... ++++..  ..||+.|+--+..=-+-...++
T Consensus       567 EraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~-~v~~a~~l~myni~I~kaae~yGv~~TR~i  644 (835)
T KOG2047|consen  567 ERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS-AVKEAQRLDMYNIYIKKAAEIYGVPRTREI  644 (835)
T ss_pred             HHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHHhCCcccHHH
Confidence            999999999888 77776544433332222  25888889999988543 344433  5677777665554444445555


Q ss_pred             HHHHHhccCCchHHHHHHHH
Q 025612          221 RRDCIQYVEFPERFLEEVYQ  240 (250)
Q Consensus       221 ~~~m~~~g~~pd~~~~~~~~  240 (250)
                      +++..+.  .||.-...+..
T Consensus       645 YekaIe~--Lp~~~~r~mcl  662 (835)
T KOG2047|consen  645 YEKAIES--LPDSKAREMCL  662 (835)
T ss_pred             HHHHHHh--CChHHHHHHHH
Confidence            5555544  45544444443

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

Probab=94.12  E-value=2.6  Score=37.76  Aligned_cols=138  Identities=16%  Similarity=0.178  Sum_probs=98.1

Q ss_pred             HHHHHHHHHH-Hhc--CcccHHHHHHH-HHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHH
Q 025612           78 KLEEGFQSRI-CRL--LKADLLDTLTE-LRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCE  153 (250)
Q Consensus        78 ~a~~l~~~m~-~~~--~~~~~~~ll~~-~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~  153 (250)
                      .+.++|-++. ..+  ..||+...|.. |.-.|++++|.+.|+.... .. +-|..+||-|=-.++...+.++|+..|++
T Consensus       412 ~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~-v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~r  489 (579)
T KOG1125|consen  412 HIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQ-VK-PNDYLLWNRLGATLANGNRSEEAISAYNR  489 (579)
T ss_pred             HHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHh-cC-CchHHHHHHhhHHhcCCcccHHHHHHHHH
Confidence            4455555553 344  56777765554 4567999999999999864 21 33688999999999999999999999999


Q ss_pred             HHhCCCCCCH--HHHHHHHHHHHhcCChHHHHHHHHHH---HHC------CCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 025612          154 LKKEGLDPDT--RVYTEMIGVYLQVGMIDKAMETYETM---KAS------GCTPHKLTFTILIRNLENAGEEELVAAV  220 (250)
Q Consensus       154 m~~~g~~p~~--~ty~~li~~~~~~g~~~~a~~~~~~m---~~~------g~~p~~~ty~~li~~~~~~g~~~~a~~~  220 (250)
                      ..+  ++|+-  +=||.-| +|...|.+++|.+.|-..   ...      +-.++...|.+|=.+++-.++.|.+.+.
T Consensus       490 ALq--LqP~yVR~RyNlgI-S~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  490 ALQ--LQPGYVRVRYNLGI-SCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             HHh--cCCCeeeeehhhhh-hhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            887  46763  3455444 678889999999887653   332      1223456777777777777777755543

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=94.05  E-value=3.8  Score=35.86  Aligned_cols=136  Identities=17%  Similarity=0.090  Sum_probs=92.8

Q ss_pred             HhcCChhHHHHHHHHHHHhcCc-ccHH-------HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH--c
Q 025612           71 KLAKSSSKLEEGFQSRICRLLK-ADLL-------DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG--K  140 (250)
Q Consensus        71 ~~~~~~~~a~~l~~~m~~~~~~-~~~~-------~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~--~  140 (250)
                      -+.+++.++.++|.+..+..-. |...       .+|++|.- ++++..........+..|-    ..|-.|..++.  +
T Consensus        17 qkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~~~----s~~l~LF~~L~~Y~   91 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQFGK----SAYLPLFKALVAYK   91 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhcCC----chHHHHHHHHHHHH
Confidence            3679999999999998754432 2222       37777764 4577777777777765553    34555555543  6


Q ss_pred             CCCHHHHHHHHHHHHhC--CCCC------------CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC----CCCHHHHH
Q 025612          141 NKQIAMAEELFCELKKE--GLDP------------DTRVYTEMIGVYLQVGMIDKAMETYETMKASGC----TPHKLTFT  202 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~~--g~~p------------~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~----~p~~~ty~  202 (250)
                      .+.+.+|.+.|..=.+.  +-.|            |.+-=++.+.++...|++.++..++++|...=+    ..|..+|+
T Consensus        92 ~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd  171 (549)
T PF07079_consen   92 QKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYD  171 (549)
T ss_pred             hhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHH
Confidence            67888888877665443  3322            223336677888999999999999998876533    48999999


Q ss_pred             HHHHHHHhc
Q 025612          203 ILIRNLENA  211 (250)
Q Consensus       203 ~li~~~~~~  211 (250)
                      .++-.+++.
T Consensus       172 ~~vlmlsrS  180 (549)
T PF07079_consen  172 RAVLMLSRS  180 (549)
T ss_pred             HHHHHHhHH
Confidence            877666553

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.92  E-value=2.9  Score=34.03  Aligned_cols=100  Identities=19%  Similarity=0.183  Sum_probs=55.5

Q ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHH-----HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612          102 LRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMIL-----MLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus       102 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~-----~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      --..|+.+.|...|+...++.| ..|..+++.++.     .|.-++++..|...|++..... .-|.+.-|.=.-+..-.
T Consensus       222 ~MQ~GD~k~a~~yf~~vek~~~-kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYl  299 (366)
T KOG2796|consen  222 SMQIGDIKTAEKYFQDVEKVTQ-KLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYL  299 (366)
T ss_pred             HHhcccHHHHHHHHHHHHHHHh-hhhccchhHHHHhhhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHH
Confidence            3355777777777776654333 334444444432     2344566777777776655431 11333333323333345


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 025612          177 GMIDKAMETYETMKASGCTPHKLTFTILI  205 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g~~p~~~ty~~li  205 (250)
                      |+..+|.+.++.|++.  .|...+-++++
T Consensus       300 g~l~DAiK~~e~~~~~--~P~~~l~es~~  326 (366)
T KOG2796|consen  300 GKLKDALKQLEAMVQQ--DPRHYLHESVL  326 (366)
T ss_pred             HHHHHHHHHHHHHhcc--CCccchhhhHH
Confidence            7788888888888773  46666555444

>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=93.86  E-value=1.4  Score=33.71  Aligned_cols=98  Identities=12%  Similarity=0.050  Sum_probs=64.6

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCChHHHHHHHHHHHHC---CCCCCHHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDT--RVYTEMIGVYLQVGMIDKAMETYETMKAS---GCTPHKLTFT  202 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~--~ty~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p~~~ty~  202 (250)
                      ...+..+.+.|++.|+.+.|.+.|.++.+....|..  ..+-.+|+.....|++..+.....+....   |-.++...--
T Consensus        36 r~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrl  115 (177)
T PF10602_consen   36 RMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRL  115 (177)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHH
Confidence            356778888888888888888888888876544443  34667778888888888888887766543   2222222222


Q ss_pred             HHHHHH--HhcCCHHHHHHHHHHHH
Q 025612          203 ILIRNL--ENAGEEELVAAVRRDCI  225 (250)
Q Consensus       203 ~li~~~--~~~g~~~~a~~~~~~m~  225 (250)
                      ....++  ...+++..|-+.|-+..
T Consensus       116 k~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  116 KVYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHccC
Confidence            222222  23568888888776654

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.

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

Probab=93.80  E-value=2.4  Score=34.89  Aligned_cols=87  Identities=18%  Similarity=0.216  Sum_probs=69.5

Q ss_pred             HHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHH
Q 025612          138 LGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPH-KLTFTILIRNLENAGEEEL  216 (250)
Q Consensus       138 ~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~ty~~li~~~~~~g~~~~  216 (250)
                      ..+.+++++|+..|.+..+- .+-|.+-|..=-.+|.+.|.++.|++=-+.-..  +-|. ..+|..|=.+|...|++++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l-~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~--iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIEL-DPTNAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhc-CCCcchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHHHccCcHHH
Confidence            45678999999999998774 233667777779999999999999877666555  3343 3789999999999999999


Q ss_pred             HHHHHHHHHhc
Q 025612          217 VAAVRRDCIQY  227 (250)
Q Consensus       217 a~~~~~~m~~~  227 (250)
                      |.+.|+...+.
T Consensus       168 A~~aykKaLel  178 (304)
T KOG0553|consen  168 AIEAYKKALEL  178 (304)
T ss_pred             HHHHHHhhhcc
Confidence            99998876654

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

Probab=93.65  E-value=2.1  Score=37.49  Aligned_cols=123  Identities=21%  Similarity=0.225  Sum_probs=89.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHH-HHhCCCCCCHHHH-HHHHHHHHh
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCE-LKKEGLDPDTRVY-TEMIGVYLQ  175 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~-m~~~g~~p~~~ty-~~li~~~~~  175 (250)
                      .|+..-+...++.|..+|-+.++..-+.+++..|+++|..++. |+..-|.++|+- |..   .||...| +--+.-+..
T Consensus       403 ~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~---f~d~~~y~~kyl~fLi~  478 (660)
T COG5107         403 HLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK---FPDSTLYKEKYLLFLIR  478 (660)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh---CCCchHHHHHHHHHHHH
Confidence            5666667788899999999998633377889999999988874 666788888875 333   3455444 566777788


Q ss_pred             cCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025612          176 VGMIDKAMETYETMKASGCTPH--KLTFTILIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       176 ~g~~~~a~~~~~~m~~~g~~p~--~~ty~~li~~~~~~g~~~~a~~~~~~m~  225 (250)
                      .++-..|..+|+.-... +.-+  ...|..+|+-=+.-|+...|..+=+.|.
T Consensus       479 inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~  529 (660)
T COG5107         479 INDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFR  529 (660)
T ss_pred             hCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHH
Confidence            89999999999843322 1112  3589999998888998877766555554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=93.60  E-value=7.3  Score=37.57  Aligned_cols=160  Identities=10%  Similarity=0.048  Sum_probs=102.4

Q ss_pred             HHHHhcCChhHHHHHHHHHHHh--cCcccHH-----HHHHHHHHcCCHHHHHHHHHHHHHh---CCCCCCH-HHH-HHHH
Q 025612           68 HAMKLAKSSSKLEEGFQSRICR--LLKADLL-----DTLTELRRQNELDLALKVFNFVRKE---VWYKPDL-SLY-SDMI  135 (250)
Q Consensus        68 ~~~~~~~~~~~a~~l~~~m~~~--~~~~~~~-----~ll~~~~~~~~~~~a~~~~~~m~~~---~g~~~~~-~~y-~~li  135 (250)
                      ..+...|++++|...+.+....  ...+...     .+-......|+++.|...++....-   .+..... ... ...+
T Consensus       581 ~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~  660 (903)
T PRK04841        581 QLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRL  660 (903)
T ss_pred             HHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHH
Confidence            3455569999999999887542  1112211     2445666889999999998887431   1111111 111 1123


Q ss_pred             HHHHcCCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCCCH-HHHHHHHHH
Q 025612          136 LMLGKNKQIAMAEELFCELKKEGLDPDT---RVYTEMIGVYLQVGMIDKAMETYETMKAS----GCTPHK-LTFTILIRN  207 (250)
Q Consensus       136 ~~~~~~~~~~~A~~~~~~m~~~g~~p~~---~ty~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~-~ty~~li~~  207 (250)
                      ..+...|+.+.|..++............   ..+..+...+...|+.++|...+++....    |..++. .+...+-.+
T Consensus       661 ~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a  740 (903)
T PRK04841        661 IYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQL  740 (903)
T ss_pred             HHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHH
Confidence            4556689999999998775542211111   11345667788899999999999887543    433322 456667778


Q ss_pred             HHhcCCHHHHHHHHHHHHhc
Q 025612          208 LENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       208 ~~~~g~~~~a~~~~~~m~~~  227 (250)
                      +.+.|+.++|.+.+.+..+.
T Consensus       741 ~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        741 YWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            88999999999998887654

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

Probab=93.31  E-value=0.76  Score=38.64  Aligned_cols=85  Identities=18%  Similarity=0.103  Sum_probs=69.9

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 025612          129 SLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNL  208 (250)
Q Consensus       129 ~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~  208 (250)
                      -+.+.-|.-+...|....|.++-.+..    .||..-|-.-|.+|+..|+|++..++...      +-++.-|..++.+|
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~  247 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEAC  247 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHH
Confidence            345666778888899999988877663    37999999999999999999998876542      22458899999999


Q ss_pred             HhcCCHHHHHHHHHH
Q 025612          209 ENAGEEELVAAVRRD  223 (250)
Q Consensus       209 ~~~g~~~~a~~~~~~  223 (250)
                      .+.|...+|..+...
T Consensus       248 ~~~~~~~eA~~yI~k  262 (319)
T PF04840_consen  248 LKYGNKKEASKYIPK  262 (319)
T ss_pred             HHCCCHHHHHHHHHh
Confidence            999999999988877

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

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.24  E-value=0.81  Score=37.98  Aligned_cols=94  Identities=16%  Similarity=0.189  Sum_probs=65.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEV--WYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYL  174 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~--g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~  174 (250)
                      .++..-....+++.+...+-.++.+.  ...|+...| +.++-|.+ -++++++-++..=.+-|+-||.+|++.+|..+.
T Consensus        69 ~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irlllk-y~pq~~i~~l~npIqYGiF~dqf~~c~l~D~fl  146 (418)
T KOG4570|consen   69 RLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFL  146 (418)
T ss_pred             hhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHHHc-cChHHHHHHHhCcchhccccchhhHHHHHHHHH
Confidence            45555556678888888888886421  223332221 22333332 356788888887778899999999999999999


Q ss_pred             hcCChHHHHHHHHHHHHC
Q 025612          175 QVGMIDKAMETYETMKAS  192 (250)
Q Consensus       175 ~~g~~~~a~~~~~~m~~~  192 (250)
                      +.+++.+|..+..+|...
T Consensus       147 k~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  147 KKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hcccHHHHHHHHHHHHHH
Confidence            999999999988777654

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

Probab=93.10  E-value=4  Score=39.39  Aligned_cols=49  Identities=6%  Similarity=0.017  Sum_probs=23.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH-HHHHHHHHcCCHHHH
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL-DTLTELRRQNELDLA  111 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~~~~~~~~~~~a  111 (250)
                      +..+++...+.|.+++....+.-..+..-.|.+. .||-+|++.+++.+.
T Consensus      1136 y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~eLi~AyAkt~rl~el 1185 (1666)
T KOG0985|consen 1136 YLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDSELIFAYAKTNRLTEL 1185 (1666)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchHHHHHHHHHhchHHHH
Confidence            3344555555555555555444444444444444 355555555554443

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

Probab=93.07  E-value=4.3  Score=33.40  Aligned_cols=105  Identities=10%  Similarity=-0.011  Sum_probs=74.6

Q ss_pred             CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHh---cCChHHHHHHHHHHHHCCCCCCHHH
Q 025612          125 KPDLSLYSDMILMLGKNKQIAMAEELFCELKKE-GLDPDTRVYTEMIGVYLQ---VGMIDKAMETYETMKASGCTPHKLT  200 (250)
Q Consensus       125 ~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~-g~~p~~~ty~~li~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~t  200 (250)
                      +-|...|--|=..|.+.|+.+.|..-|..-..- |-  |...+..+-.++..   ..+..++.++|+++.... .-|..+
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~--n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~ira  229 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGD--NPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRA  229 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHH
Confidence            346888999999999999999999999876553 43  33344444333333   334568888999887742 225566


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhccCCch
Q 025612          201 FTILIRNLENAGEEELVAAVRRDCIQYVEFPE  232 (250)
Q Consensus       201 y~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd  232 (250)
                      -..|--.+...|++.+|...|+.|.+..-.-+
T Consensus       230 l~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~  261 (287)
T COG4235         230 LSLLAFAAFEQGDYAEAAAAWQMLLDLLPADD  261 (287)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCCCCC
Confidence            66777788899999999999999987655433

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.84  E-value=2.9  Score=33.91  Aligned_cols=95  Identities=17%  Similarity=0.093  Sum_probs=69.1

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcC----cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHH
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLL----KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPD-LSLYSDMIL  136 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~----~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~  136 (250)
                      .+...-.+.+.|++..|...|...++..-    .|+.. =|-.++...|+++.|-.+|..+.++.+-.|- ....=-|-.
T Consensus       144 ~Y~~A~~~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~  223 (262)
T COG1729         144 LYNAALDLYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGV  223 (262)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHH
Confidence            55555566677889999999999876442    23322 3788888999999999999998765443333 355666667


Q ss_pred             HHHcCCCHHHHHHHHHHHHhC
Q 025612          137 MLGKNKQIAMAEELFCELKKE  157 (250)
Q Consensus       137 ~~~~~~~~~~A~~~~~~m~~~  157 (250)
                      ...+.|+.++|..+|++..+.
T Consensus       224 ~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         224 SLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHhcCHHHHHHHHHHHHHH
Confidence            778888889999888888764

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=92.47  E-value=5.6  Score=38.26  Aligned_cols=81  Identities=10%  Similarity=0.086  Sum_probs=43.5

Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH--HhcCCHHHH
Q 025612          140 KNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNL--ENAGEEELV  217 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~--~~~g~~~~a  217 (250)
                      +.+++..|..-|+.-..- =+-|...|..+..+|.+.|.+..|.++|++...  +.|+. +|.-.-.+-  +..|.++++
T Consensus       574 ea~n~h~aV~~fQsALR~-dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~--LrP~s-~y~~fk~A~~ecd~GkYkea  649 (1238)
T KOG1127|consen  574 EAHNLHGAVCEFQSALRT-DPKDYNLWLGLGEAYPESGRYSHALKVFTKASL--LRPLS-KYGRFKEAVMECDNGKYKEA  649 (1238)
T ss_pred             CccchhhHHHHHHHHhcC-CchhHHHHHHHHHHHHhcCceehHHHhhhhhHh--cCcHh-HHHHHHHHHHHHHhhhHHHH
Confidence            344444444444433221 012556677777777777777777777776655  34543 333333332  234566666


Q ss_pred             HHHHHHH
Q 025612          218 AAVRRDC  224 (250)
Q Consensus       218 ~~~~~~m  224 (250)
                      ...+...
T Consensus       650 ld~l~~i  656 (1238)
T KOG1127|consen  650 LDALGLI  656 (1238)
T ss_pred             HHHHHHH
Confidence            5555544

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=92.36  E-value=8.7  Score=35.14  Aligned_cols=102  Identities=15%  Similarity=0.109  Sum_probs=56.9

Q ss_pred             CCCHHHHH--HHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHH
Q 025612          125 KPDLSLYS--DMILMLGKNKQIAMAEELFCELKKEGLDPDTR-VYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTF  201 (250)
Q Consensus       125 ~~~~~~y~--~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~-ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty  201 (250)
                      .|++..|+  -++..|-+.|+++.|...++....+  .|+.+ -|-+=-+.+..+|++++|..++++..+.. .||.+.=
T Consensus       366 ~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~IN  442 (700)
T KOG1156|consen  366 PPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAIN  442 (700)
T ss_pred             CchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHH
Confidence            44444443  3445566667777777766665553  33332 22233356666677777777776665543 2444443


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhccC
Q 025612          202 TILIRNLENAGEEELVAAVRRDCIQYVE  229 (250)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~m~~~g~  229 (250)
                      .--.+-..+++++++|+++.....+.|.
T Consensus       443 sKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  443 SKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            3444455566667777766666665554

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

Probab=92.15  E-value=3  Score=34.23  Aligned_cols=81  Identities=14%  Similarity=0.175  Sum_probs=66.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----ccCCchHHHHHH
Q 025612          164 RVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQ-----YVEFPERFLEEV  238 (250)
Q Consensus       164 ~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~pd~~~~~~  238 (250)
                      .++..++..+...|+.+.+.+.+++..... .-|...|..++.+|.+.|+...|.+.++.+.+     .|+.|..-+..+
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            456778888889999999999999998753 34778999999999999999999999988765     599888777666


Q ss_pred             HHhhhcc
Q 025612          239 YQKHRKT  245 (250)
Q Consensus       239 ~~~~~~~  245 (250)
                      +.+-.++
T Consensus       233 y~~~~~~  239 (280)
T COG3629         233 YEEILRQ  239 (280)
T ss_pred             HHHHhcc
Confidence            6655443

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=91.79  E-value=8.2  Score=33.58  Aligned_cols=144  Identities=14%  Similarity=0.063  Sum_probs=83.0

Q ss_pred             HHhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHH----HHHHHHHHHcC
Q 025612           70 MKLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSL----YSDMILMLGKN  141 (250)
Q Consensus        70 ~~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~----y~~li~~~~~~  141 (250)
                      .+-.++...+...+--......-|+..    ++-+.+...|+.++|...|++.+-   +.|+..+    |.-|   +++.
T Consensus       206 q~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~---~dpy~i~~MD~Ya~L---L~~e  279 (564)
T KOG1174|consen  206 QMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLC---ANPDNVEAMDLYAVL---LGQE  279 (564)
T ss_pred             HHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhh---CChhhhhhHHHHHHH---HHhc
Confidence            333455556666665555555555544    466667778888888888887742   2343222    2222   2344


Q ss_pred             CCHHHHHHHHHHHHhC------------------------------CCCCCHHHHHHHH---HHHHhcCChHHHHHHHHH
Q 025612          142 KQIAMAEELFCELKKE------------------------------GLDPDTRVYTEMI---GVYLQVGMIDKAMETYET  188 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~~------------------------------g~~p~~~ty~~li---~~~~~~g~~~~a~~~~~~  188 (250)
                      |+.+....+-..+...                              .+..|....-.+|   +.+...|+.++|.--|+.
T Consensus       280 g~~e~~~~L~~~Lf~~~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~  359 (564)
T KOG1174|consen  280 GGCEQDSALMDYLFAKVKYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRT  359 (564)
T ss_pred             cCHhhHHHHHHHHHhhhhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHH
Confidence            4444444433333221                              1222333333333   345556778888777776


Q ss_pred             HHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHH
Q 025612          189 MKASGCTP-HKLTFTILIRNLENAGEEELVAAVR  221 (250)
Q Consensus       189 m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~  221 (250)
                      -..  +.| +...|..|+..|...|++.+|.-+-
T Consensus       360 Aq~--Lap~rL~~Y~GL~hsYLA~~~~kEA~~~A  391 (564)
T KOG1174|consen  360 AQM--LAPYRLEIYRGLFHSYLAQKRFKEANALA  391 (564)
T ss_pred             HHh--cchhhHHHHHHHHHHHHhhchHHHHHHHH
Confidence            554  344 6688999999999999988875443

>PLN02789 farnesyltranstransferase

Probab=91.78  E-value=7.1  Score=32.87  Aligned_cols=123  Identities=10%  Similarity=0.030  Sum_probs=74.2

Q ss_pred             HcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHcCC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC--h
Q 025612          104 RQNELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGKNK-QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGM--I  179 (250)
Q Consensus       104 ~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~~~-~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~--~  179 (250)
                      ..++.++|+.+.+++.+.   .|+ ...|+.-=.++.+.| +++++++.++++.+..- -+..+|+.--..+.+.|.  .
T Consensus        49 ~~e~serAL~lt~~aI~l---nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~np-knyqaW~~R~~~l~~l~~~~~  124 (320)
T PLN02789         49 SDERSPRALDLTADVIRL---NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNP-KNYQIWHHRRWLAEKLGPDAA  124 (320)
T ss_pred             cCCCCHHHHHHHHHHHHH---CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCC-cchHHhHHHHHHHHHcCchhh
Confidence            455667777777776642   333 334544444445555 56778877777766422 233445544333444454  2


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCc
Q 025612          180 DKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFP  231 (250)
Q Consensus       180 ~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  231 (250)
                      ++++.+++.+.+..- -|...|+..--++.+.|+++++.+.++.+.+.+...
T Consensus       125 ~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N  175 (320)
T PLN02789        125 NKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRN  175 (320)
T ss_pred             HHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCc
Confidence            566777777766432 256777777777777777888888888777765553

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=91.73  E-value=3.8  Score=33.68  Aligned_cols=127  Identities=11%  Similarity=0.048  Sum_probs=91.7

Q ss_pred             HHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcC-C-CHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 025612          108 LDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKN-K-QIAMAEELFCELKK-EGLDPDTRVYTEMIGVYLQVGMIDKAME  184 (250)
Q Consensus       108 ~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~-~-~~~~A~~~~~~m~~-~g~~p~~~ty~~li~~~~~~g~~~~a~~  184 (250)
                      +-+|+++|+...-+..+--|..+-..|++..... + ....-.++.+-+.. .|-.++..+.-.+|..+++.+++.+.++
T Consensus       144 Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~  223 (292)
T PF13929_consen  144 VVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQ  223 (292)
T ss_pred             HHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHH
Confidence            4566666664311123555777788888877762 2 23333444444443 3678899999999999999999999999


Q ss_pred             HHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-----HHhccCCchHH
Q 025612          185 TYETMKAS-GCTPHKLTFTILIRNLENAGEEELVAAVRRD-----CIQYVEFPERF  234 (250)
Q Consensus       185 ~~~~m~~~-g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~-----m~~~g~~pd~~  234 (250)
                      +++.-... +-.-|...|..+|+.....|+..-...+..+     +++.|+..+.-
T Consensus       224 fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~  279 (292)
T PF13929_consen  224 FWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDE  279 (292)
T ss_pred             HHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHH
Confidence            99887665 6667889999999999999999988888776     35667764433

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

Probab=91.73  E-value=6.2  Score=32.49  Aligned_cols=107  Identities=12%  Similarity=-0.027  Sum_probs=76.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc---CCCHHHHHHHHHHHHhCCCCCCHHH-HHHHHHH
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK---NKQIAMAEELFCELKKEGLDPDTRV-YTEMIGV  172 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~---~~~~~~A~~~~~~m~~~g~~p~~~t-y~~li~~  172 (250)
                      -|=.+|.+.|+.+.|..-|....+-.|-+  ...+..+-.++..   ..+..++..+|+++...  .|+.++ -.-|-..
T Consensus       161 ~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n--~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~--D~~~iral~lLA~~  236 (287)
T COG4235         161 LLGRAYMALGRASDALLAYRNALRLAGDN--PEILLGLAEALYYQAGQQMTAKARALLRQALAL--DPANIRALSLLAFA  236 (287)
T ss_pred             HHHHHHHHhcchhHHHHHHHHHHHhCCCC--HHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc--CCccHHHHHHHHHH
Confidence            37778899999999999999987655544  4445555444433   33467899999998874  455544 4444578


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 025612          173 YLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLE  209 (250)
Q Consensus       173 ~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~  209 (250)
                      +...|++.+|...|+.|.+..  |....+..+|+...
T Consensus       237 afe~g~~~~A~~~Wq~lL~~l--p~~~~rr~~ie~~i  271 (287)
T COG4235         237 AFEQGDYAEAAAAWQMLLDLL--PADDPRRSLIERSI  271 (287)
T ss_pred             HHHcccHHHHHHHHHHHHhcC--CCCCchHHHHHHHH
Confidence            889999999999999999863  55556666665543

>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=91.70  E-value=2  Score=37.87  Aligned_cols=132  Identities=14%  Similarity=0.117  Sum_probs=74.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHH-------HhCC----------CCCC
Q 025612          100 TELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCEL-------KKEG----------LDPD  162 (250)
Q Consensus       100 ~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m-------~~~g----------~~p~  162 (250)
                      ....-.++++++.+..+.=.--..+  +..-.+.+++.+-+.|..+.|+.+-..-       .+.|          -..+
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~~~rFeLAl~lg~L~~A~~~a~~~~~  346 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNI--PKDQGQSIARFLEKKGYPELALQFVTDPDHRFELALQLGNLDIALEIAKELDD  346 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HHHHHHHHHHCT-HHHHHHHCCCCST
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccC--ChhHHHHHHHHHHHCCCHHHHHhhcCChHHHhHHHHhcCCHHHHHHHHHhcCc
Confidence            3444567788766665411000112  2456888999999999998888764332       2211          2346


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCchHHHHHHHHhh
Q 025612          163 TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQKH  242 (250)
Q Consensus       163 ~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~~~~~~~~~  242 (250)
                      ...|..|-....+.|+++-|.+.|++..+         |..|+=.|.-.|+.+...++-+.....|-..-+|...+..-.
T Consensus       347 ~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~~n~af~~~~~lgd  417 (443)
T PF04053_consen  347 PEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGDINIAFQAALLLGD  417 (443)
T ss_dssp             HHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-HHHHHHHHHHHT-
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccCHHHHHHHHHHcCC
Confidence            77788888888888888888887776543         445555666667776666666666666655545554444333

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.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.68  E-value=0.53  Score=25.36  Aligned_cols=23  Identities=35%  Similarity=0.514  Sum_probs=12.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHH
Q 025612          166 YTEMIGVYLQVGMIDKAMETYET  188 (250)
Q Consensus       166 y~~li~~~~~~g~~~~a~~~~~~  188 (250)
                      |+.|-..|.+.|++++|.++|++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            45555555566666666665555

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

Probab=91.22  E-value=12  Score=34.51  Aligned_cols=163  Identities=9%  Similarity=0.006  Sum_probs=91.8

Q ss_pred             HHHhcCChhHHHHHHHHHHHhcCcccHH-----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCC
Q 025612           69 AMKLAKSSSKLEEGFQSRICRLLKADLL-----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQ  143 (250)
Q Consensus        69 ~~~~~~~~~~a~~l~~~m~~~~~~~~~~-----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~  143 (250)
                      .|-..|.+.-+..+....+.-|+.-.-.     .--+.|.+.+.++-|..+|....+  .++-+...|......=-..|.
T Consensus       488 ~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alq--vfp~k~slWlra~~~ek~hgt  565 (913)
T KOG0495|consen  488 ACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQ--VFPCKKSLWLRAAMFEKSHGT  565 (913)
T ss_pred             HHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHh--hccchhHHHHHHHHHHHhcCc
Confidence            3344444444444444444444332111     233445566666667777766542  234456666666666666677


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 025612          144 IAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRD  223 (250)
Q Consensus       144 ~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~  223 (250)
                      .++...+|++.... ++-...-|--...-+-.+|++..|..++...-+.+- -+...|-.-++.-.++..++.|..+|..
T Consensus       566 ~Esl~Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~p-nseeiwlaavKle~en~e~eraR~llak  643 (913)
T KOG0495|consen  566 RESLEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANP-NSEEIWLAAVKLEFENDELERARDLLAK  643 (913)
T ss_pred             HHHHHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC-CcHHHHHHHHHHhhccccHHHHHHHHHH
Confidence            77777777776654 333344454445556667777777777776665431 1446666667777777777777777766


Q ss_pred             HHhccCCchHHH
Q 025612          224 CIQYVEFPERFL  235 (250)
Q Consensus       224 m~~~g~~pd~~~  235 (250)
                      ....+=.+-.++
T Consensus       644 ar~~sgTeRv~m  655 (913)
T KOG0495|consen  644 ARSISGTERVWM  655 (913)
T ss_pred             HhccCCcchhhH
Confidence            655433333333

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=91.21  E-value=9.5  Score=33.20  Aligned_cols=63  Identities=8%  Similarity=-0.049  Sum_probs=48.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 025612          166 YTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       166 y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      -+.+..-|...|..+++..+++.-..  ..||....+.|-+.+...+.+.+|++-|....+.+-.
T Consensus       441 V~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~  503 (564)
T KOG1174|consen  441 VNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPK  503 (564)
T ss_pred             HHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCcc
Confidence            45555677778999999999888766  3589988889888888888888888887766554433

>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=91.09  E-value=4.4  Score=29.40  Aligned_cols=118  Identities=14%  Similarity=0.122  Sum_probs=71.5

Q ss_pred             HhcCChhHHHHHHHHHHHhcCc--ccHH-----------H---HHHHHH------HcCCHHHHHHHHHHHHHhCCCCCCH
Q 025612           71 KLAKSSSKLEEGFQSRICRLLK--ADLL-----------D---TLTELR------RQNELDLALKVFNFVRKEVWYKPDL  128 (250)
Q Consensus        71 ~~~~~~~~a~~l~~~m~~~~~~--~~~~-----------~---ll~~~~------~~~~~~~a~~~~~~m~~~~g~~~~~  128 (250)
                      .-.|..++..++..+.....-.  .++.           .   .++..+      .+|++......+..+-      -+.
T Consensus        13 ildG~V~qGveii~k~v~Ssni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~NlKrVi~C~~~~n------~~s   86 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNSSNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCGNLKRVIECYAKRN------KLS   86 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHHS-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S-THHHHHHHHHTT---------
T ss_pred             HHhchHHHHHHHHHHHcCcCCccccceeeeecchhhchhHHHHHHHHHhhhcCchhhcchHHHHHHHHHhc------chH
Confidence            3457777777777776543221  1221           1   222222      2344555555554432      134


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC
Q 025612          129 SLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCT  195 (250)
Q Consensus       129 ~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~  195 (250)
                      .-.+.-++.+.+.|+-+.-.++++++.. +-.++....-.+-.+|.+.|+..++-+++.+.-+.|++
T Consensus        87 e~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   87 EYVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            5667888999999999999999999865 44678888888899999999999999999998888875

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

>PF11838 ERAP1_C: ERAP1-like C-terminal domain; InterPro: IPR024571 This entry represents the uncharacterised C-terminal domain of zinc metallopeptidases belonging to MEROPS peptidase family M1 (aminopeptidase N, clan MA), with a single member characterised in Streptomyces lividans: aminopeptidase G []

Probab=90.95  E-value=8.3  Score=32.10  Aligned_cols=149  Identities=9%  Similarity=0.072  Sum_probs=88.7

Q ss_pred             HHHHHhcCChh---HHHHHHHHHHHh------cCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 025612           67 VHAMKLAKSSS---KLEEGFQSRICR------LLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMIL  136 (250)
Q Consensus        67 l~~~~~~~~~~---~a~~l~~~m~~~------~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~  136 (250)
                      +...|  |+.+   .|.+.|......      .++|+.. .++....+.|..+.-..+++...+    ..+...-+.++.
T Consensus       136 ~~~a~--~~~~~~~~a~~~~~~~~~~~~~~~~~i~~dlr~~v~~~~~~~g~~~~~~~l~~~~~~----~~~~~~k~~~l~  209 (324)
T PF11838_consen  136 LSLAC--GDPECVAEARELFKAWLDGNDSPESSIPPDLRWAVYCAGVRNGDEEEWDFLWELYKN----STSPEEKRRLLS  209 (324)
T ss_dssp             HHHHH--T-HHHHHHHHHHHHHHHHTTT-TTSTS-HHHHHHHHHHHTTS--HHHHHHHHHHHHT----TSTHHHHHHHHH
T ss_pred             HHHhc--cchhHHHHHHHHHHHHhcCCcccccccchHHHHHHHHHHHHHhhHhhHHHHHHHHhc----cCCHHHHHHHHH
Confidence            44444  4444   778888887764      3456665 678888888887776666666643    357888999999


Q ss_pred             HHHcCCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCh--HHHHHHHHH----HHHCCCCCCHHHHHHHHHHHH
Q 025612          137 MLGKNKQIAMAEELFCELKKEG-LDPDTRVYTEMIGVYLQVGMI--DKAMETYET----MKASGCTPHKLTFTILIRNLE  209 (250)
Q Consensus       137 ~~~~~~~~~~A~~~~~~m~~~g-~~p~~~ty~~li~~~~~~g~~--~~a~~~~~~----m~~~g~~p~~~ty~~li~~~~  209 (250)
                      +++...+.+...++++.....+ +++..  ...++.++...+..  +.+++++..    +.+ ....+..+...++..+.
T Consensus       210 aLa~~~d~~~~~~~l~~~l~~~~v~~~d--~~~~~~~~~~~~~~~~~~~~~~~~~n~~~i~~-~~~~~~~~~~~~~~~~~  286 (324)
T PF11838_consen  210 ALACSPDPELLKRLLDLLLSNDKVRSQD--IRYVLAGLASSNPVGRDLAWEFFKENWDAIIK-KFGTNSSALSRVIKSFA  286 (324)
T ss_dssp             HHTT-S-HHHHHHHHHHHHCTSTS-TTT--HHHHHHHHH-CSTTCHHHHHHHHHHCHHHHHC-HC-TTSHCCHHHHHCCC
T ss_pred             hhhccCCHHHHHHHHHHHcCCcccccHH--HHHHHHHHhcCChhhHHHHHHHHHHHHHHHHH-HhcCCChHHHHHHHHHh
Confidence            9999999999999999988864 55544  34445555534443  677776643    322 22233235555555543


Q ss_pred             h----cCCHHHHHHHHHHH
Q 025612          210 N----AGEEELVAAVRRDC  224 (250)
Q Consensus       210 ~----~g~~~~a~~~~~~m  224 (250)
                      .    ....++++++|+.-
T Consensus       287 ~~~~t~~~~~~~~~f~~~~  305 (324)
T PF11838_consen  287 GNFSTEEQLDELEEFFEDK  305 (324)
T ss_dssp             TT--SHHHHHHHHHHHHHH
T ss_pred             ccCCCHHHHHHHHHHHhhC
Confidence            3    33455555555443

The rest of the members of this family are identified as aminopeptidase N of the actinomycete-type. The spectrum of activity may differ somewhat from the aminopeptidase N clade of Escherichia coli and most other proteobacteria, which are well separated phylogenetically within the M1 family. ; PDB: 3MDJ_A 2YD0_A 3QNF_C 3RJO_A 1Z5H_A 3Q7J_A 1Z1W_A 3SE6_B.

>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=90.86  E-value=0.071  Score=38.92  Aligned_cols=86  Identities=9%  Similarity=0.137  Sum_probs=57.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      .+|..+.+.+.++....+++.+.+ .+...+....|.++..|++.+..++..++++.  .     +..-...++..|-+.
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~-~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~--~-----~~yd~~~~~~~c~~~   83 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVK-ENKENNPDLHTLLLELYIKYDPYEKLLEFLKT--S-----NNYDLDKALRLCEKH   83 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHH-TSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTS--S-----SSS-CTHHHHHHHTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHh-cccccCHHHHHHHHHHHHhcCCchHHHHHccc--c-----cccCHHHHHHHHHhc
Confidence            466667777777777777777764 44455677778888888888777777777661  1     223335667777777


Q ss_pred             CChHHHHHHHHHHH
Q 025612          177 GMIDKAMETYETMK  190 (250)
Q Consensus       177 g~~~~a~~~~~~m~  190 (250)
                      |.++++.-++.++-
T Consensus        84 ~l~~~a~~Ly~~~~   97 (143)
T PF00637_consen   84 GLYEEAVYLYSKLG   97 (143)
T ss_dssp             TSHHHHHHHHHCCT
T ss_pred             chHHHHHHHHHHcc
Confidence            77777777777654

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.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=90.48  E-value=5.4  Score=29.19  Aligned_cols=80  Identities=11%  Similarity=0.031  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCc----ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLK----ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMIL  136 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~----~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~  136 (250)
                      +...--....+.|++++|.+.|+.+..+--.    +... .++.++.+.+++++|...++...+-+--.|+ ..|--.+.
T Consensus        12 ~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~-vdYa~Y~~   90 (142)
T PF13512_consen   12 ELYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN-VDYAYYMR   90 (142)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC-ccHHHHHH
Confidence            3344455566789999999999998754322    1122 5999999999999999999998764433443 45666666


Q ss_pred             HHHcCC
Q 025612          137 MLGKNK  142 (250)
Q Consensus       137 ~~~~~~  142 (250)
                      +++.-.
T Consensus        91 gL~~~~   96 (142)
T PF13512_consen   91 GLSYYE   96 (142)
T ss_pred             HHHHHH
Confidence            655433

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=90.34  E-value=0.8  Score=24.62  Aligned_cols=26  Identities=8%  Similarity=0.043  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHH
Q 025612          130 LYSDMILMLGKNKQIAMAEELFCELK  155 (250)
Q Consensus       130 ~y~~li~~~~~~~~~~~A~~~~~~m~  155 (250)
                      +|+.|-+.|.+.|++++|.++|++..
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            47788899999999999999998843

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=90.23  E-value=5.4  Score=28.75  Aligned_cols=123  Identities=13%  Similarity=0.118  Sum_probs=84.6

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcC-cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCC
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLL-KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNK  142 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~-~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~  142 (250)
                      .++..+...+.+..+..+++.+...+. .++.. .++..|++.+. .+..+.+..       ..+......+++.|-+.+
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~li~ly~~~~~-~~ll~~l~~-------~~~~yd~~~~~~~c~~~~   83 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLNSENPALQTKLIELYAKYDP-QKEIERLDN-------KSNHYDIEKVGKLCEKAK   83 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccCccchhHHHHHHHHHHHHCH-HHHHHHHHh-------ccccCCHHHHHHHHHHcC
Confidence            348888888999999999999887753 33344 68888887643 334444442       123344556888999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV-GMIDKAMETYETMKASGCTPHKLTFTILIRNLEN  210 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~-g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~  210 (250)
                      .++++.-++..+..         |...+..+... ++.+.|.+++.+-      -+...|..++..+..
T Consensus        84 l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l~  137 (140)
T smart00299       84 LYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALLD  137 (140)
T ss_pred             cHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHHc
Confidence            99999999988754         33344444444 8888888887751      266788888877764

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=89.96  E-value=5.8  Score=32.67  Aligned_cols=113  Identities=11%  Similarity=0.132  Sum_probs=83.6

Q ss_pred             HHHHHHH-c-CCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHH
Q 025612           98 TLTELRR-Q-NELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKE-GLDPDTRVYTEMIGVYL  174 (250)
Q Consensus        98 ll~~~~~-~-~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~-g~~p~~~ty~~li~~~~  174 (250)
                      +++.... . .....-.++.+-+....+-.++..+--++|..++..+++.+-.++++.-... +..-|...|..+|..-.
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            5555554 2 2344445555666555667888999999999999999999999999876554 66779999999999999


Q ss_pred             hcCChHHHHHHHHH-----HHHCCCCCCHHHHHHHHHHHHh
Q 025612          175 QVGMIDKAMETYET-----MKASGCTPHKLTFTILIRNLEN  210 (250)
Q Consensus       175 ~~g~~~~a~~~~~~-----m~~~g~~p~~~ty~~li~~~~~  210 (250)
                      ..|+..-+..+.++     +++.|+..+...-..+-+.+.+
T Consensus       250 ~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~~  290 (292)
T PF13929_consen  250 ESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFKK  290 (292)
T ss_pred             HcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHHh
Confidence            99999888877764     3556777666665555544433

>PRK15331 chaperone protein SicA; Provisional

Probab=89.92  E-value=4.5  Score=30.37  Aligned_cols=91  Identities=19%  Similarity=0.075  Sum_probs=60.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  177 (250)
                      .-.-+...|++++|..+|.-+.- .+. -+..-|..|-.+|-..+++++|..+|...-.-+. -|...+--.-.+|...|
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~-~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~  119 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCI-YDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMR  119 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH-hCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhC
Confidence            33344577899999999998764 221 1333455666666677888999888876544321 23333444567778889


Q ss_pred             ChHHHHHHHHHHHH
Q 025612          178 MIDKAMETYETMKA  191 (250)
Q Consensus       178 ~~~~a~~~~~~m~~  191 (250)
                      +.+.|...|+...+
T Consensus       120 ~~~~A~~~f~~a~~  133 (165)
T PRK15331        120 KAAKARQCFELVNE  133 (165)
T ss_pred             CHHHHHHHHHHHHh
Confidence            99999988887776

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=89.65  E-value=4.4  Score=35.91  Aligned_cols=77  Identities=21%  Similarity=0.156  Sum_probs=54.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHH
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLD-PDTRVYTEMIGVYL  174 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~-p~~~ty~~li~~~~  174 (250)
                      +-.++-+.|+.++|.+.|.+|.+.....-.......||.+|...+.+.++..++.+-.+-..+ --...|++.+-.+-
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHH
Confidence            444455779999999999998764433334567788999999999999999999887543322 23466777664433

The molecular function of this protein is uncertain.

>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=89.56  E-value=3.9  Score=31.16  Aligned_cols=64  Identities=14%  Similarity=0.179  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          164 RVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHK--LTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       164 ~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      ..+..+..-|++.|+.++|.+.|.++++....|..  ..+-.+|+...-.+++..+.....+....
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~  102 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESL  102 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            56888899999999999999999999987655544  56788999999999999999888777654

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.

>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=89.54  E-value=7.5  Score=29.37  Aligned_cols=56  Identities=21%  Similarity=0.268  Sum_probs=25.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025612          166 YTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       166 y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~  225 (250)
                      +..++..+...|++-+|.++.+.....    +......++++..+.+|...-..+++-..
T Consensus        92 ~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~  147 (167)
T PF07035_consen   92 YEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFE  147 (167)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            444455555555555555555443221    11122344555555555444444444333

>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=89.46  E-value=7.3  Score=29.15  Aligned_cols=111  Identities=21%  Similarity=0.290  Sum_probs=63.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPD---LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYL  174 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~---~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~  174 (250)
                      ++..-.+.++.+++..+++-++-   +.|.   ..++...  .+.+.|++.+|..+|+++.+.+  |...--.+|+..|.
T Consensus        16 ~~~~al~~~~~~D~e~lL~ALrv---LRP~~~e~~~~~~~--l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL   88 (160)
T PF09613_consen   16 VLSVALRLGDPDDAEALLDALRV---LRPEFPELDLFDGW--LHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCL   88 (160)
T ss_pred             HHHHHHccCChHHHHHHHHHHHH---hCCCchHHHHHHHH--HHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHH
Confidence            44445577888888888888864   3454   3333333  3567788999999998887652  33333344444444


Q ss_pred             hcCChHHHHHHH-HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 025612          175 QVGMIDKAMETY-ETMKASGCTPHKLTFTILIRNLENAGEEELVAA  219 (250)
Q Consensus       175 ~~g~~~~a~~~~-~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~  219 (250)
                      . ..-|-.++.+ +++.+.+-.|+.   ..+++.+....+...|.+
T Consensus        89 ~-~~~D~~Wr~~A~evle~~~d~~a---~~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   89 Y-ALGDPSWRRYADEVLESGADPDA---RALVRALLARADLEPAHE  130 (160)
T ss_pred             H-HcCChHHHHHHHHHHhcCCChHH---HHHHHHHHHhccccchhh
Confidence            3 3344455554 446666533333   245555555555444443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=89.43  E-value=13  Score=32.03  Aligned_cols=96  Identities=14%  Similarity=0.059  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRN  207 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~  207 (250)
                      ..+++.|.-+|.+.+++..|+..-+...+.+ .+|.-.-=-=-.+|...|+++.|+..|+.+.+  +.|+....+.=|..
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~  333 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIK  333 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHH
Confidence            4578888999999999999998888776642 23433333334567778999999999999988  56877666665555


Q ss_pred             HHh-cCCHH-HHHHHHHHHHh
Q 025612          208 LEN-AGEEE-LVAAVRRDCIQ  226 (250)
Q Consensus       208 ~~~-~g~~~-~a~~~~~~m~~  226 (250)
                      |.+ ..+.+ ...++|..|-.
T Consensus       334 l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  334 LKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHHhh
Confidence            554 33333 34777877753

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=89.39  E-value=13  Score=32.09  Aligned_cols=99  Identities=13%  Similarity=-0.042  Sum_probs=56.6

Q ss_pred             cCCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcC-cccHH-----HHHHHHHH---cCCHHHHHHHHHHHHHhCCCCC
Q 025612           56 SRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLL-KADLL-----DTLTELRR---QNELDLALKVFNFVRKEVWYKP  126 (250)
Q Consensus        56 ~~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~-~~~~~-----~ll~~~~~---~~~~~~a~~~~~~m~~~~g~~~  126 (250)
                      -+.+.|.+...+...|..|+|+.|+++.+.-....+ .++..     .|+.+-+-   .-+...|...-.+-   ..+.|
T Consensus       184 Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a---~KL~p  260 (531)
T COG3898         184 APQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEA---NKLAP  260 (531)
T ss_pred             ccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHH---hhcCC
Confidence            677889999999999999999999999998765443 34433     23333221   11233333332222   22444


Q ss_pred             CHHHHHH-HHHHHHcCCCHHHHHHHHHHHHhC
Q 025612          127 DLSLYSD-MILMLGKNKQIAMAEELFCELKKE  157 (250)
Q Consensus       127 ~~~~y~~-li~~~~~~~~~~~A~~~~~~m~~~  157 (250)
                      |...--. --+.|.+.|++.++-.+++.+=+.
T Consensus       261 dlvPaav~AAralf~d~~~rKg~~ilE~aWK~  292 (531)
T COG3898         261 DLVPAAVVAARALFRDGNLRKGSKILETAWKA  292 (531)
T ss_pred             ccchHHHHHHHHHHhccchhhhhhHHHHHHhc
Confidence            4322211 124455666666666666665544

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=89.35  E-value=8.5  Score=29.78  Aligned_cols=157  Identities=11%  Similarity=0.026  Sum_probs=100.5

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH---HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL---DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~---~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      +-.+..+..+.=++++..+-..+  +-...|++.   .|-.++...|+..+|...|++-. +.-+--|....-.+-++..
T Consensus        59 a~~~~~a~~q~ldP~R~~Rea~~--~~~~ApTvqnr~rLa~al~elGr~~EA~~hy~qal-sG~fA~d~a~lLglA~Aqf  135 (251)
T COG4700          59 AHTLLMALQQKLDPERHLREATE--ELAIAPTVQNRYRLANALAELGRYHEAVPHYQQAL-SGIFAHDAAMLLGLAQAQF  135 (251)
T ss_pred             hHHHHHHHHHhcChhHHHHHHHH--HHhhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHh-ccccCCCHHHHHHHHHHHH
Confidence            34445666666666654433222  222334443   68889999999999999999885 2444556777777778888


Q ss_pred             cCCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 025612          140 KNKQIAMAEELFCELKKE---GLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEEL  216 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~---g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~  216 (250)
                      ..+++..|...++.+-+.   +-.||  +.-.+-+.|...|...+|+.-|+.....  -|+...-..--..+++.|+.++
T Consensus       136 a~~~~A~a~~tLe~l~e~~pa~r~pd--~~Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~e  211 (251)
T COG4700         136 AIQEFAAAQQTLEDLMEYNPAFRSPD--GHLLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLRE  211 (251)
T ss_pred             hhccHHHHHHHHHHHhhcCCccCCCC--chHHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhH
Confidence            889999999999887664   23333  3445567888889999999999988875  3444332222233445554444


Q ss_pred             ----HHHHHHHHHh
Q 025612          217 ----VAAVRRDCIQ  226 (250)
Q Consensus       217 ----a~~~~~~m~~  226 (250)
                          ..++++...+
T Consensus       212 a~aq~~~v~d~~~r  225 (251)
T COG4700         212 ANAQYVAVVDTAKR  225 (251)
T ss_pred             HHHHHHHHHHHHHh
Confidence                3455555543

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=89.25  E-value=15  Score=35.03  Aligned_cols=144  Identities=15%  Similarity=0.038  Sum_probs=86.1

Q ss_pred             hcCChhHHHHHHHHHHHhcCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHH
Q 025612           72 LAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELF  151 (250)
Q Consensus        72 ~~~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~  151 (250)
                      ..|..++|..++++.++..+      |=..|-..|.+++|.++-+.=-   .+. =..||-.--..+-..++++.|++.|
T Consensus       812 eLgMlEeA~~lYr~ckR~DL------lNKlyQs~g~w~eA~eiAE~~D---RiH-Lr~Tyy~yA~~Lear~Di~~Aleyy  881 (1416)
T KOG3617|consen  812 ELGMLEEALILYRQCKRYDL------LNKLYQSQGMWSEAFEIAETKD---RIH-LRNTYYNYAKYLEARRDIEAALEYY  881 (1416)
T ss_pred             HHhhHHHHHHHHHHHHHHHH------HHHHHHhcccHHHHHHHHhhcc---cee-hhhhHHHHHHHHHhhccHHHHHHHH
Confidence            33566666666665543321      2334456678888877765421   111 1345655555555667777776666


Q ss_pred             HHHH-----------hC--------CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC--------------------
Q 025612          152 CELK-----------KE--------GLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS--------------------  192 (250)
Q Consensus       152 ~~m~-----------~~--------g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~--------------------  192 (250)
                      ++-.           +.        .-+.|...|...-...-..|++|.|+.+|...++.                    
T Consensus       882 EK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~kAa~iA  961 (1416)
T KOG3617|consen  882 EKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTDKAARIA  961 (1416)
T ss_pred             HhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCchHHHHHH
Confidence            5421           11        01235555666666666788888888888776541                    


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025612          193 GCTPHKLTFTILIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       193 g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~  225 (250)
                      .-.-|....-.|-+.|-+.|++-+|..+|-...
T Consensus       962 ~esgd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  962 EESGDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             HhcccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            113355566677888888888888888876553

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=89.20  E-value=1.3  Score=24.17  Aligned_cols=26  Identities=19%  Similarity=0.336  Sum_probs=13.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHH
Q 025612          164 RVYTEMIGVYLQVGMIDKAMETYETM  189 (250)
Q Consensus       164 ~ty~~li~~~~~~g~~~~a~~~~~~m  189 (250)
                      .+++.|-..|...|++++|..++++.
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~a   28 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEA   28 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHH
Confidence            34555555555555555555555544

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=89.16  E-value=11  Score=30.89  Aligned_cols=157  Identities=17%  Similarity=0.046  Sum_probs=95.4

Q ss_pred             HhcCChhHHHHHHHHHHHhc--CcccHH-H-------HHHHHHHcC-CHHHHHHHHHHHHHh-------CCCCCC-----
Q 025612           71 KLAKSSSKLEEGFQSRICRL--LKADLL-D-------TLTELRRQN-ELDLALKVFNFVRKE-------VWYKPD-----  127 (250)
Q Consensus        71 ~~~~~~~~a~~l~~~m~~~~--~~~~~~-~-------ll~~~~~~~-~~~~a~~~~~~m~~~-------~g~~~~-----  127 (250)
                      -+.|+.+.|...+.+.....  ..|+.. .       +-....+.+ +++.|...+++..+-       ....|+     
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr   83 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELR   83 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHH
Confidence            36799999999999986533  345444 2       233333556 899998888875431       123333     


Q ss_pred             HHHHHHHHHHHHcCCCHH---HHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC--CCCCHHHH
Q 025612          128 LSLYSDMILMLGKNKQIA---MAEELFCELKKE-GLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASG--CTPHKLTF  201 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~---~A~~~~~~m~~~-g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~ty  201 (250)
                      ..+...++.+|...+..+   +|.++++.+... |-+|  ..|-.=|..+.+.++.+++.+++.+|...-  ...+....
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~~--~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~  161 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLESEYGNKP--EVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSI  161 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCCc--HHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHH
Confidence            356677888888877755   556666666543 3333  333344555556899999999999998762  23333334


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 025612          202 TILIRNLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      ...++-+..... ..|...++.+...-+.
T Consensus       162 l~~i~~l~~~~~-~~a~~~ld~~l~~r~~  189 (278)
T PF08631_consen  162 LHHIKQLAEKSP-ELAAFCLDYLLLNRFK  189 (278)
T ss_pred             HHHHHHHHhhCc-HHHHHHHHHHHHHHhC
Confidence            444444455444 4566666666544333

It is also involved in sporulation [].

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

Probab=89.10  E-value=15  Score=32.37  Aligned_cols=138  Identities=16%  Similarity=0.207  Sum_probs=101.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcC-cccHH--HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHcC
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLL-KADLL--DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLY-SDMILMLGKN  141 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~-~~~~~--~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y-~~li~~~~~~  141 (250)
                      .+....+..-.+.|..+|.+..+.++ .+++.  ...-.+...|+...|..+|+.-.+.   -||...| +-.+..+.+.
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 HLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYATGDRATAYNIFELGLLK---FPDSTLYKEKYLLFLIRI  479 (660)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhcCCcchHHHHHHHHHHh---CCCchHHHHHHHHHHHHh
Confidence            47777777888999999999999884 45555  3333455678888999999985432   3454444 6788888999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 025612          142 KQIAMAEELFCELKKEGLDPD--TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLE  209 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~~g~~p~--~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~  209 (250)
                      ++-+.|..+|+.-.++ +.-+  ...|..+|..=...|++..+..+=++|.+  +-|-..+...+.+-|.
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 NDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFTSRYA  546 (660)
T ss_pred             CcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHHHHHh
Confidence            9999999999954432 2223  56799999999999999999888888877  3566656555555554

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=88.86  E-value=1.3  Score=24.10  Aligned_cols=29  Identities=17%  Similarity=0.070  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKK  156 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~  156 (250)
                      ..+++.|-..|...|++++|..++++...
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            46789999999999999999999988654

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.80  E-value=2.2  Score=39.47  Aligned_cols=105  Identities=18%  Similarity=0.134  Sum_probs=85.7

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      ..+..+..-|+..+|.++-.+.+     -||-..|--=+.+++..+++++-+++-+.+.      ...-|-.++..|.+.
T Consensus       689 dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~  757 (829)
T KOG2280|consen  689 DTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQ  757 (829)
T ss_pred             HHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhc
Confidence            57788889999999999988874     5899999999999999999998877666554      256678899999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 025612          177 GMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVR  221 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~  221 (250)
                      |+.++|.+++-+....     .    -...+|.+.|++.+|.++-
T Consensus       758 ~n~~EA~KYiprv~~l-----~----ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  758 GNKDEAKKYIPRVGGL-----Q----EKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             ccHHHHhhhhhccCCh-----H----HHHHHHHHhccHHHHHHHH
Confidence            9999999998765432     1    6788999999998887654

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=88.75  E-value=7.6  Score=28.44  Aligned_cols=54  Identities=9%  Similarity=0.048  Sum_probs=24.7

Q ss_pred             HHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 025612          103 RRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMILMLGKNKQIAMAEELFCELKK  156 (250)
Q Consensus       103 ~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~~~~~~~~~~~A~~~~~~m~~  156 (250)
                      .+.|++++|.+.|+.+..+.-..+ ....-=.|+.+|-+.+++++|...+++..+
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFir   75 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIR   75 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            345555555555555532211111 122233444555555555555555555444

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.75  E-value=7.7  Score=31.31  Aligned_cols=149  Identities=14%  Similarity=0.092  Sum_probs=93.5

Q ss_pred             hcCChhHHHHHHHHHHH---hcCcccHH--HHHHH--HHHcCCHHHHHHHHHHHHH----hCCCCCCHHHHHHHHHHHHc
Q 025612           72 LAKSSSKLEEGFQSRIC---RLLKADLL--DTLTE--LRRQNELDLALKVFNFVRK----EVWYKPDLSLYSDMILMLGK  140 (250)
Q Consensus        72 ~~~~~~~a~~l~~~m~~---~~~~~~~~--~ll~~--~~~~~~~~~a~~~~~~m~~----~~g~~~~~~~y~~li~~~~~  140 (250)
                      ....+.+|..++++...   ..-.|+..  +|=.+  ...+-++++|.++|.+-..    +.....-...|..+-+.|++
T Consensus        83 e~~klsEvvdl~eKAs~lY~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVr  162 (308)
T KOG1585|consen   83 ELSKLSEVVDLYEKASELYVECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVR  162 (308)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhh
Confidence            44777788888887642   12234443  22221  2356788999999987431    11112234567788888889


Q ss_pred             CCCHHHHHHHHHHHHhCC----CCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHhcC
Q 025612          141 NKQIAMAEELFCELKKEG----LDPDT-RVYTEMIGVYLQVGMIDKAMETYETMKASG---CTPHKLTFTILIRNLENAG  212 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~~g----~~p~~-~ty~~li~~~~~~g~~~~a~~~~~~m~~~g---~~p~~~ty~~li~~~~~~g  212 (250)
                      ..++++|-..|.+-....    -.++. ..|-+.|-.|....++..|...++.--+.+   -.-+..+...||.+|- .|
T Consensus       163 l~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd-~g  241 (308)
T KOG1585|consen  163 LEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYD-EG  241 (308)
T ss_pred             hHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhc-cC
Confidence            899888776665432211    11222 335666667777889999999999855442   2336688888888884 57


Q ss_pred             CHHHHHHHH
Q 025612          213 EEELVAAVR  221 (250)
Q Consensus       213 ~~~~a~~~~  221 (250)
                      +.+++.+++
T Consensus       242 D~E~~~kvl  250 (308)
T KOG1585|consen  242 DIEEIKKVL  250 (308)
T ss_pred             CHHHHHHHH
Confidence            888877765

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=88.72  E-value=5.7  Score=26.99  Aligned_cols=62  Identities=18%  Similarity=0.208  Sum_probs=40.2

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHH
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS-GCTPHKLTFTILIR  206 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~ty~~li~  206 (250)
                      +.-++.+-++.+....+.|+....++-+++|-+.+++.-|.++|+-.+.. |.  +...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHH
Confidence            45566667777777777777777777777777777777777777766532 32  3345555543

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.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=88.52  E-value=7.6  Score=28.18  Aligned_cols=90  Identities=19%  Similarity=0.154  Sum_probs=67.2

Q ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC-CCCCCHHHHHHHH---HHHHhc
Q 025612          101 ELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKE-GLDPDTRVYTEMI---GVYLQV  176 (250)
Q Consensus       101 ~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~-g~~p~~~ty~~li---~~~~~~  176 (250)
                      +++..|+++.|++.|.+...  -.+.....||.--.+|--.|+.++|.+=+++..+- |-+ +.....+.+   .-|-..
T Consensus        52 alaE~g~Ld~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHh
Confidence            56788999999999998753  23446889999999999999999999999887664 433 333333332   345567


Q ss_pred             CChHHHHHHHHHHHHCC
Q 025612          177 GMIDKAMETYETMKASG  193 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g  193 (250)
                      |+-+.|..=|+.--+.|
T Consensus       129 g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLG  145 (175)
T ss_pred             CchHHHHHhHHHHHHhC
Confidence            89999998888877766

>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=87.97  E-value=0.099  Score=38.16  Aligned_cols=80  Identities=14%  Similarity=0.068  Sum_probs=44.0

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcC--cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCC
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLL--KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQ  143 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~--~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~  143 (250)
                      ++.+.+.+.+..+..+++.+...+.  .+... .++..|++.+..++..+++...   .+     .-...+++.|-+.|.
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~---~~-----yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS---NN-----YDLDKALRLCEKHGL   85 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS---SS-----S-CTHHHHHHHTTTS
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc---cc-----cCHHHHHHHHHhcch
Confidence            5556666666666666666665432  23333 4666666666656555555511   11     223456666666666


Q ss_pred             HHHHHHHHHHH
Q 025612          144 IAMAEELFCEL  154 (250)
Q Consensus       144 ~~~A~~~~~~m  154 (250)
                      +++|.-++..+
T Consensus        86 ~~~a~~Ly~~~   96 (143)
T PF00637_consen   86 YEEAVYLYSKL   96 (143)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHHHc
Confidence            66666665554

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.

>PLN03025 replication factor C subunit; Provisional

Probab=87.63  E-value=16  Score=30.71  Aligned_cols=95  Identities=13%  Similarity=0.136  Sum_probs=60.9

Q ss_pred             HHHHHHHHHH-HhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-C-----------CCCCHHHHHHHHHHHHhc
Q 025612          145 AMAEELFCEL-KKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS-G-----------CTPHKLTFTILIRNLENA  211 (250)
Q Consensus       145 ~~A~~~~~~m-~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~-g-----------~~p~~~ty~~li~~~~~~  211 (250)
                      ++....+... ...|+..+......++..+  .|++..+...++..... +           -.|.......++++.. .
T Consensus       161 ~~l~~~L~~i~~~egi~i~~~~l~~i~~~~--~gDlR~aln~Lq~~~~~~~~i~~~~v~~~~~~~~~~~i~~~i~~~~-~  237 (319)
T PLN03025        161 QEILGRLMKVVEAEKVPYVPEGLEAIIFTA--DGDMRQALNNLQATHSGFGFVNQENVFKVCDQPHPLHVKNIVRNCL-K  237 (319)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHc--CCCHHHHHHHHHHHHhcCCCCCHHHHHHHcCCCCHHHHHHHHHHHH-c
Confidence            4445555544 3447777777777776543  47888887777643321 1           1233344455555554 4


Q ss_pred             CCHHHHHHHHHHHHhccCCchHHHHHHHHhh
Q 025612          212 GEEELVAAVRRDCIQYVEFPERFLEEVYQKH  242 (250)
Q Consensus       212 g~~~~a~~~~~~m~~~g~~pd~~~~~~~~~~  242 (250)
                      ++++.|...+.+|...|+.|..++..+....
T Consensus       238 ~~~~~a~~~l~~ll~~g~~~~~Il~~l~~~~  268 (319)
T PLN03025        238 GKFDDACDGLKQLYDLGYSPTDIITTLFRVV  268 (319)
T ss_pred             CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            7899999999999888999988888775443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=87.32  E-value=11  Score=36.49  Aligned_cols=124  Identities=11%  Similarity=0.012  Sum_probs=85.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH--HH
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIG--VY  173 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~--~~  173 (250)
                      .|=.-|....+...|.+.|+...+   +.+ +...+-...+.|++..+++.|..+.-.-.+. -+.-...+|.+-.  .|
T Consensus       497 ~LG~iYrd~~Dm~RA~kCf~KAFe---LDatdaeaaaa~adtyae~~~we~a~~I~l~~~qk-a~a~~~k~nW~~rG~yy  572 (1238)
T KOG1127|consen  497 FLGQIYRDSDDMKRAKKCFDKAFE---LDATDAEAAAASADTYAEESTWEEAFEICLRAAQK-APAFACKENWVQRGPYY  572 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhc---CCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhh-chHHHHHhhhhhccccc
Confidence            455555566677778888887653   333 4666778889999999999998883222221 1112233444433  45


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          174 LQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       174 ~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      .+.++..++..-|+.-...  .| |...|..+..+|.+.|++..|.++|.....
T Consensus       573 Lea~n~h~aV~~fQsALR~--dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~  624 (1238)
T KOG1127|consen  573 LEAHNLHGAVCEFQSALRT--DPKDYNLWLGLGEAYPESGRYSHALKVFTKASL  624 (1238)
T ss_pred             cCccchhhHHHHHHHHhcC--CchhHHHHHHHHHHHHhcCceehHHHhhhhhHh
Confidence            5678888888888776663  34 778899999999999999999999976543

>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]

Probab=87.16  E-value=17  Score=30.62  Aligned_cols=152  Identities=11%  Similarity=0.035  Sum_probs=88.8

Q ss_pred             CChhHHHHHHHHHHHhcCcccHH------------HHHHHHHHcCC--HHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           74 KSSSKLEEGFQSRICRLLKADLL------------DTLTELRRQNE--LDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        74 ~~~~~a~~l~~~m~~~~~~~~~~------------~ll~~~~~~~~--~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      ++......++..+.+.+..|=..            .++....+.++  +++-.+..++..+..|-.--...+-..-..||
T Consensus        36 ~~~~~~e~l~~~Ird~~Map~Ye~lce~~~i~~D~~~l~~m~~~neeki~eld~~iedaeenlGE~ev~ea~~~kaeYyc  115 (393)
T KOG0687|consen   36 QKAAAREKLLAAIRDEDMAPLYEYLCESLVIKLDQDLLNSMKKANEEKIKELDEKIEDAEENLGESEVREAMLRKAEYYC  115 (393)
T ss_pred             cCHHHHHHHHHHHHhcccchHHHHHHhhcceeccHHHHHHHHHhhHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHH
Confidence            35555566666666666655322            35666655543  34444444555432333333455566667788


Q ss_pred             cCCCHHHHHHHHHHHHh----CCCCCCHHHHHHHHHHHH-hcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHh
Q 025612          140 KNKQIAMAEELFCELKK----EGLDPDTRVYTEMIGVYL-QVGMIDKAMETYETMKASGCTPHK----LTFTILIRNLEN  210 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~----~g~~p~~~ty~~li~~~~-~~g~~~~a~~~~~~m~~~g~~p~~----~ty~~li~~~~~  210 (250)
                      +.|+-+.|++.+....+    -|.+.|.+.+-+=+.-+. ...-+.+-.+.-+.+.+.|...+.    .+|..+...-.|
T Consensus       116 qigDkena~~~~~~t~~ktvs~g~kiDVvf~~iRlglfy~D~~lV~~~iekak~liE~GgDWeRrNRlKvY~Gly~msvR  195 (393)
T KOG0687|consen  116 QIGDKENALEALRKTYEKTVSLGHKIDVVFYKIRLGLFYLDHDLVTESIEKAKSLIEEGGDWERRNRLKVYQGLYCMSVR  195 (393)
T ss_pred             HhccHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCChhhhhhHHHHHHHHHHHHH
Confidence            99998888887766543    477777777665554332 333344555555666666654433    566666655555


Q ss_pred             cCCHHHHHHHHHHHHhc
Q 025612          211 AGEEELVAAVRRDCIQY  227 (250)
Q Consensus       211 ~g~~~~a~~~~~~m~~~  227 (250)
                        ++.+|..+|-+...-
T Consensus       196 --~Fk~Aa~Lfld~vsT  210 (393)
T KOG0687|consen  196 --NFKEAADLFLDSVST  210 (393)
T ss_pred             --hHHHHHHHHHHHccc
Confidence              788888887766543

>PRK15331 chaperone protein SicA; Provisional

Probab=87.11  E-value=11  Score=28.37  Aligned_cols=87  Identities=9%  Similarity=-0.114  Sum_probs=59.8

Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 025612          139 GKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVA  218 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~  218 (250)
                      -..|++++|..+|.-+..-+. -|..-|..|-.+|-..+.+++|...|...-..+. -|+..+-..-.+|...|+.+.|.
T Consensus        48 y~~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         48 YNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKAR  125 (165)
T ss_pred             HHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHHH
Confidence            357888999998888765321 2344456666677778889999888877544332 23344445567778888888888


Q ss_pred             HHHHHHHhc
Q 025612          219 AVRRDCIQY  227 (250)
Q Consensus       219 ~~~~~m~~~  227 (250)
                      ..|....+.
T Consensus       126 ~~f~~a~~~  134 (165)
T PRK15331        126 QCFELVNER  134 (165)
T ss_pred             HHHHHHHhC
Confidence            888887763

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=87.04  E-value=16  Score=30.28  Aligned_cols=161  Identities=16%  Similarity=0.143  Sum_probs=103.8

Q ss_pred             HHHHHHHHHHHhc-CcccHHHHHHHHHHcCCHHHHHHHHHHH----HH---------------------hCCCCCCHHHH
Q 025612           78 KLEEGFQSRICRL-LKADLLDTLTELRRQNELDLALKVFNFV----RK---------------------EVWYKPDLSLY  131 (250)
Q Consensus        78 ~a~~l~~~m~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m----~~---------------------~~g~~~~~~~y  131 (250)
                      +|+++|.-+.... -..+...++.++....+..+|...++..    ++                     -.+...|..-|
T Consensus       151 KA~ELFayLv~hkgk~v~~~~~ie~lwpe~D~kka~s~lhTtvyqlRKaLs~L~~ne~vts~d~~Ykld~~~~k~Dv~e~  230 (361)
T COG3947         151 KALELFAYLVEHKGKEVTSWEAIEALWPEKDEKKASSLLHTTVYQLRKALSRLNANEAVTSQDRKYKLDAGLPKYDVQEY  230 (361)
T ss_pred             HHHHHHHHHHHhcCCcccHhHHHHHHccccchhhHHHHHHHHHHHHHHHhchhccCceEEEcCCceEEecCCccccHHHH
Confidence            5677777665433 3334446777777777766666655542    11                     12345566667


Q ss_pred             HHHHHHHHcCC-CHHHHHHHHHHHHhCCCCCC-----------------HHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 025612          132 SDMILMLGKNK-QIAMAEELFCELKKEGLDPD-----------------TRVYTEMIGVYLQVGMIDKAMETYETMKASG  193 (250)
Q Consensus       132 ~~li~~~~~~~-~~~~A~~~~~~m~~~g~~p~-----------------~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  193 (250)
                      -+.++-.-+.. .++++.++....+. +.-|+                 ..+++..-+.|..+|.+.+|.++.+......
T Consensus       231 es~~rqi~~inltide~kelv~~ykg-dyl~e~~y~Waedererle~ly~kllgkva~~yle~g~~neAi~l~qr~ltld  309 (361)
T COG3947         231 ESLARQIEAINLTIDELKELVGQYKG-DYLPEADYPWAEDERERLEQLYMKLLGKVARAYLEAGKPNEAIQLHQRALTLD  309 (361)
T ss_pred             HHHhhhhhccccCHHHHHHHHHHhcC-CcCCccccccccchHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHhhcC
Confidence            77766655433 35666666655432 23232                 1234555678889999999999999887753


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----hccCCchHHHHHHHH
Q 025612          194 CTPHKLTFTILIRNLENAGEEELVAAVRRDCI-----QYVEFPERFLEEVYQ  240 (250)
Q Consensus       194 ~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~-----~~g~~pd~~~~~~~~  240 (250)
                       +.+...|..|++.++..|+--.|.+-+..+.     +.|+..|.-+++.+.
T Consensus       310 -pL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsieewy~  360 (361)
T COG3947         310 -PLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSIEEWYK  360 (361)
T ss_pred             -hhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhHHHHhh
Confidence             4577889999999999999666666555553     458888887777653

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=86.80  E-value=8.1  Score=26.56  Aligned_cols=47  Identities=15%  Similarity=0.137  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 025612          146 MAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS  192 (250)
Q Consensus       146 ~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  192 (250)
                      +..+-++.+....+.|+.....+.+++|-+.+++.-|.++|+-.+..
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            55666666666666777777777777777777777777777666543

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 ....

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=86.71  E-value=2.8  Score=23.54  Aligned_cols=25  Identities=20%  Similarity=0.227  Sum_probs=11.0

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHH
Q 025612          167 TEMIGVYLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       167 ~~li~~~~~~g~~~~a~~~~~~m~~  191 (250)
                      ..+-..|.+.|++++|.++|++..+
T Consensus         5 ~~la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    5 LALARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3334444444444444444444443

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=86.54  E-value=4.7  Score=31.07  Aligned_cols=52  Identities=10%  Similarity=-0.088  Sum_probs=26.1

Q ss_pred             hcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          175 QVGMIDKAMETYETMKAS-GCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       175 ~~g~~~~a~~~~~~m~~~-g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      ..++.+......+...+. ...|+..+|..++.++...|+.++|.++.+++..
T Consensus       120 ~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~  172 (193)
T PF11846_consen  120 LPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARR  172 (193)
T ss_pred             CCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            334444444433333322 3455666666666666666666666555555443

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=86.49  E-value=16  Score=29.72  Aligned_cols=99  Identities=16%  Similarity=0.133  Sum_probs=75.3

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-CCCCCH-HHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEG--LDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS-GCTPHK-LTFTI  203 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g--~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~-~ty~~  203 (250)
                      ...|+.-+..|. .|++..|...|....+..  =.-..-.+=.|-.++...|+.++|..+|..+.+. +-.|-. .++--
T Consensus       142 ~~~Y~~A~~~~k-sgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         142 TKLYNAALDLYK-SGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             hHHHHHHHHHHH-cCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            346888887765 566999999999987752  1112233455889999999999999999998765 433433 66777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          204 LIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       204 li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      |-....+.|+.+.|..+|++..+.
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHH
Confidence            788888999999999999998754

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=86.18  E-value=16  Score=29.49  Aligned_cols=165  Identities=15%  Similarity=0.112  Sum_probs=112.3

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhc-CcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRL-LKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMIL  136 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~-~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~  136 (250)
                      +.+.-...-.+.|++++|.+.|+.+.+.- ..|-..    .++.++.+.+++++|....++..+..+-.||+ -|---|.
T Consensus        36 ~LY~~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~-dY~~Ylk  114 (254)
T COG4105          36 ELYNEGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNA-DYAYYLK  114 (254)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCCh-hHHHHHH
Confidence            44444555567899999999999997543 222222    47788889999999999999987766666663 4544555


Q ss_pred             HHHc-------CCCHHHHHHHHHHHHh-------CCCCCCHHH-----------H-HHHHHHHHhcCChHHHHHHHHHHH
Q 025612          137 MLGK-------NKQIAMAEELFCELKK-------EGLDPDTRV-----------Y-TEMIGVYLQVGMIDKAMETYETMK  190 (250)
Q Consensus       137 ~~~~-------~~~~~~A~~~~~~m~~-------~g~~p~~~t-----------y-~~li~~~~~~g~~~~a~~~~~~m~  190 (250)
                      +++.       .++...+..-|+.|.+       +...||...           + -.+-+-|.+.|.+..|..-+++|.
T Consensus       115 gLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~  194 (254)
T COG4105         115 GLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVL  194 (254)
T ss_pred             HHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            5442       2445555555555543       233444433           2 233467889999999999999999


Q ss_pred             HC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          191 AS--GCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       191 ~~--g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      +.  ...-.....-.+..+|-..|-.++|.+.-+-+..+
T Consensus       195 e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         195 ENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             hccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            87  11222345677889999999999998887766544

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=86.13  E-value=24  Score=31.46  Aligned_cols=72  Identities=14%  Similarity=0.195  Sum_probs=51.4

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH--HHHHHHH
Q 025612          133 DMILMLGKNKQIAMAEELFCELKKE-GLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHK--LTFTILI  205 (250)
Q Consensus       133 ~li~~~~~~~~~~~A~~~~~~m~~~-g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~ty~~li  205 (250)
                      .|-.++-+.|+.++|.+.|.+|.+. ...-+....-.||.++...+.+.++..++.+-.+.. .|..  ..|+..+
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~-lpkSAti~YTaAL  338 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDIS-LPKSATICYTAAL  338 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcccc-CCchHHHHHHHHH
Confidence            3445555789999999999998653 222244577889999999999999999998875433 3444  3466544

The molecular function of this protein is uncertain.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=86.13  E-value=2.5  Score=21.97  Aligned_cols=26  Identities=27%  Similarity=0.516  Sum_probs=12.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHH
Q 025612          165 VYTEMIGVYLQVGMIDKAMETYETMK  190 (250)
Q Consensus       165 ty~~li~~~~~~g~~~~a~~~~~~m~  190 (250)
                      +|..+-..|...|++++|+..|++..
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            34444444455555555555554443

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 ....

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=85.65  E-value=2  Score=24.15  Aligned_cols=29  Identities=14%  Similarity=0.258  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          199 LTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       199 ~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      .++..+-.+|.+.|++++|.++++...+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            46778899999999999999999999875

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=85.14  E-value=18  Score=29.11  Aligned_cols=101  Identities=13%  Similarity=0.193  Sum_probs=63.8

Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-C-----------CCCCHHHHHHH
Q 025612          137 MLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS-G-----------CTPHKLTFTIL  204 (250)
Q Consensus       137 ~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~-g-----------~~p~~~ty~~l  204 (250)
                      -|.+..+-.--.++.+-.+..+++-+..-..++|  +...|+..+|+.-++.-... |           -.|.+.....+
T Consensus       168 Rysklsd~qiL~Rl~~v~k~Ekv~yt~dgLeaii--fta~GDMRQalNnLQst~~g~g~Vn~enVfKv~d~PhP~~v~~m  245 (333)
T KOG0991|consen  168 RYSKLSDQQILKRLLEVAKAEKVNYTDDGLEAII--FTAQGDMRQALNNLQSTVNGFGLVNQENVFKVCDEPHPLLVKKM  245 (333)
T ss_pred             hhcccCHHHHHHHHHHHHHHhCCCCCcchHHHhh--hhccchHHHHHHHHHHHhccccccchhhhhhccCCCChHHHHHH
Confidence            3444444444444554444456665555555554  33567777777766654322 2           15777777778


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhccCCchHHHHHHHH
Q 025612          205 IRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQ  240 (250)
Q Consensus       205 i~~~~~~g~~~~a~~~~~~m~~~g~~pd~~~~~~~~  240 (250)
                      +..|.+ +++++|.++++++-+.|..|..++..+.+
T Consensus       246 l~~~~~-~~~~~A~~il~~lw~lgysp~Dii~~~FR  280 (333)
T KOG0991|consen  246 LQACLK-RNIDEALKILAELWKLGYSPEDIITTLFR  280 (333)
T ss_pred             HHHHHh-ccHHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            877765 47888888888888888888877666544

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.77  E-value=32  Score=31.58  Aligned_cols=105  Identities=11%  Similarity=0.065  Sum_probs=76.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  177 (250)
                      -.....+.|+++.|.++..+..       +..-|..|=++..+.+++..|.++|..-..         |..|+-.+...|
T Consensus       643 rFelal~lgrl~iA~~la~e~~-------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g  706 (794)
T KOG0276|consen  643 RFELALKLGRLDIAFDLAVEAN-------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSG  706 (794)
T ss_pred             hhhhhhhcCcHHHHHHHHHhhc-------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcC
Confidence            4445567788888888776552       567799999999999999999999887554         567777778888


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 025612          178 MIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDC  224 (250)
Q Consensus       178 ~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m  224 (250)
                      +.+....+-..-++.|.      .|.-.-+|...|+++++.+++-.-
T Consensus       707 ~~~~l~~la~~~~~~g~------~N~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  707 NAEGLAVLASLAKKQGK------NNLAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             ChhHHHHHHHHHHhhcc------cchHHHHHHHcCCHHHHHHHHHhc
Confidence            87766666666666663      233344666778888887776543

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=84.72  E-value=4.8  Score=23.33  Aligned_cols=31  Identities=10%  Similarity=0.236  Sum_probs=14.8

Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 025612          175 QVGMIDKAMETYETMKASGCTPHKLTFTILI  205 (250)
Q Consensus       175 ~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li  205 (250)
                      +.|.+.++..++++|.+.|+..+...|..++
T Consensus        14 ~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L   44 (48)
T PF11848_consen   14 RRGLISEVKPLLDRLQQAGFRISPKLIEEIL   44 (48)
T ss_pred             HcCChhhHHHHHHHHHHcCcccCHHHHHHHH
Confidence            3444444555555555555544444444443

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=84.58  E-value=12  Score=35.57  Aligned_cols=48  Identities=21%  Similarity=0.359  Sum_probs=37.7

Q ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 025612          102 LRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKK  156 (250)
Q Consensus       102 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~  156 (250)
                      |...|+.|.|.+-.+.++       +...|..+-+.|.+..+++-|.-++-.|..
T Consensus       738 yvtiG~MD~AfksI~~Ik-------S~~vW~nmA~McVkT~RLDVAkVClGhm~~  785 (1416)
T KOG3617|consen  738 YVTIGSMDAAFKSIQFIK-------SDSVWDNMASMCVKTRRLDVAKVCLGHMKN  785 (1416)
T ss_pred             EEEeccHHHHHHHHHHHh-------hhHHHHHHHHHhhhhccccHHHHhhhhhhh
Confidence            446688888888777773       467899999999998888888887777754

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.51  E-value=21  Score=29.28  Aligned_cols=127  Identities=15%  Similarity=0.035  Sum_probs=89.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-----H
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIG-----V  172 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~-----~  172 (250)
                      ++..+.-.+.+.--...+++.++ ..-+.++..-..|.+.-...|+.+.|...|+..++..-+.|..+++.++.     .
T Consensus       183 ~~~~llG~kEy~iS~d~~~~vi~-~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i  261 (366)
T KOG2796|consen  183 MANCLLGMKEYVLSVDAYHSVIK-YYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFL  261 (366)
T ss_pred             HHHHHhcchhhhhhHHHHHHHHH-hCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhh
Confidence            44444455777778888888876 55566788888888888899999999999998877666677777777663     2


Q ss_pred             HHhcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          173 YLQVGMIDKAMETYETMKAS-GCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       173 ~~~~g~~~~a~~~~~~m~~~-g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      |.-.+++.+|...|++.... .-.|-..--.+|+..|.  |+...|.+....|++.
T Consensus       262 ~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYl--g~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  262 HLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYL--GKLKDALKQLEAMVQQ  315 (366)
T ss_pred             eecccchHHHHHHHhhccccCCCchhhhchHHHHHHHH--HHHHHHHHHHHHHhcc
Confidence            33467788888888877653 21222222234555554  5888899988888765

>PF08542 Rep_fac_C: Replication factor C C-terminal domain; InterPro: IPR013748 Replication factor C (RFC) is a multimeric AAA+ protein complex that loads the DNA polymerase processivity clamp PCNA (Proliferating Cell Nuclear Antigen) onto DNA using ATP to drive the reaction []

Probab=84.23  E-value=6.9  Score=25.75  Aligned_cols=29  Identities=3%  Similarity=-0.120  Sum_probs=11.9

Q ss_pred             CHHHHHHHHHHHHhccCCchHHHHHHHHh
Q 025612          213 EEELVAAVRRDCIQYVEFPERFLEEVYQK  241 (250)
Q Consensus       213 ~~~~a~~~~~~m~~~g~~pd~~~~~~~~~  241 (250)
                      +++++...+.++...|+.++.++..+...
T Consensus        19 ~~~~~~~~~~~l~~~G~s~~~Il~~l~~~   47 (89)
T PF08542_consen   19 DFKEARKKLYELLVEGYSASDILKQLHEV   47 (89)
T ss_dssp             CHHHHHHHHHHHHHTT--HHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            44444444444444444444444444433

PCNA functions at multiple levels in directing DNA metabolic pathways []. When bound to DNA, PCNA organises various proteins involved in DNA replication, DNA repair, DNA modification, and chromatin modelling. Replication factor C consists of five subunits in a spiral arrangement: Rfc1, Rfc2, Rfc3, Rfc4, and Rfc5 subunits. Rfc1 and Rfc2 load the PCNA sliding clamp onto DNA, while Rfc3 binds ATP and also acts as a checkpoint sensor. The RFC complex contains four ATP sites (sites A, B, C, and D) located at subunit interfaces. In each ATP site, an arginine residue from one subunit is located near the gamma-phosphate of ATP bound in the adjacent subunit. These arginine residues act as "arginine fingers" that can potentially perform two functions: sensing that ATP is bound and catalyzing ATP hydrolysis []. This entry represents the core domain found in Rfc1-5.; GO: 0003689 DNA clamp loader activity, 0005524 ATP binding, 0006260 DNA replication, 0005663 DNA replication factor C complex; PDB: 1SXJ_B 2CHG_B 2CHV_F 2CHQ_C 1IQP_A.

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=84.19  E-value=4.8  Score=23.36  Aligned_cols=33  Identities=15%  Similarity=0.317  Sum_probs=19.5

Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 025612          139 GKNKQIAMAEELFCELKKEGLDPDTRVYTEMIG  171 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~  171 (250)
                      .+.|-++++..++++|.+.|+..+...|+.++.
T Consensus        13 k~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~   45 (48)
T PF11848_consen   13 KRRGLISEVKPLLDRLQQAGFRISPKLIEEILR   45 (48)
T ss_pred             HHcCChhhHHHHHHHHHHcCcccCHHHHHHHHH
Confidence            344555566666666666666666666655553

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PF11817 Foie-gras_1: Foie gras liver health family 1; InterPro: IPR021773 Mutating the gene foie gras in zebrafish has been shown to affect development; the mutants develop large, lipid-filled hepatocytes in the liver, resembling those in individuals with fatty liver disease []

Probab=83.79  E-value=6.6  Score=31.66  Aligned_cols=59  Identities=17%  Similarity=0.150  Sum_probs=43.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHH----HhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 025612           97 DTLTELRRQNELDLALKVFNFVR----KEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELK  155 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~----~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~  155 (250)
                      .+-..|.+.|++++|.++|+.+.    ++.+..+...+...+..++.+.|+.+....+--+|.
T Consensus       183 ~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~~~l~~~leLl  245 (247)
T PF11817_consen  183 EMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDVEDYLTTSLELL  245 (247)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence            46777888888888888888763    234556667777778888888888887776655543

Foie-gras protein is long and has several well-defined domains though none of them has a known function. We have annotated this one as the first []. THe C terminus of this region contains TPR repeats.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=83.78  E-value=17  Score=27.77  Aligned_cols=128  Identities=12%  Similarity=0.052  Sum_probs=86.6

Q ss_pred             HHhcCChhHHHHHHHHHHHhcCcc--cHH--HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHH-HHHHHHHH--HHcCC
Q 025612           70 MKLAKSSSKLEEGFQSRICRLLKA--DLL--DTLTELRRQNELDLALKVFNFVRKEVWYKPDLS-LYSDMILM--LGKNK  142 (250)
Q Consensus        70 ~~~~~~~~~a~~l~~~m~~~~~~~--~~~--~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~-~y~~li~~--~~~~~  142 (250)
                      +++.+..++|+.-|.++.+-|...  ...  ..-......|+...|...|+++-+ ..-.|-+. -.-.|=.+  +..+|
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~-dt~~P~~~rd~ARlraa~lLvD~g  146 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAA-DTSIPQIGRDLARLRAAYLLVDNG  146 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhc-cCCCcchhhHHHHHHHHHHHhccc
Confidence            567788899999999998776542  222  344456678899999999999865 33334333 22223233  35678


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHK  198 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  198 (250)
                      .++......+-+...|-+.-...-.+|--+-.+.|++.+|...|..+...--.|-.
T Consensus       147 sy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~aprn  202 (221)
T COG4649         147 SYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAPRN  202 (221)
T ss_pred             cHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCcHH
Confidence            88888877777766555555555667766777889999999999888765444533

>PF10475 DUF2450: Protein of unknown function N-terminal domain (DUF2450) ; InterPro: IPR019515 This entry represents Vacuolar protein sorting-associated protein 54, and is thought to be involved in retrograde transport from early and late endosomes to late Golgi found in eukaryotes, but its function is not known

Probab=83.49  E-value=18  Score=30.02  Aligned_cols=109  Identities=12%  Similarity=0.062  Sum_probs=64.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  177 (250)
                      ++...-+..++....+.+..+.       ....-..-|..+...|++.+|.++..+..+.     ...|+.+=..-.-..
T Consensus       104 Il~~~rkr~~l~~ll~~L~~i~-------~v~~~~~~l~~ll~~~dy~~Al~li~~~~~~-----l~~l~~~~c~~~L~~  171 (291)
T PF10475_consen  104 ILRLQRKRQNLKKLLEKLEQIK-------TVQQTQSRLQELLEEGDYPGALDLIEECQQL-----LEELKGYSCVRHLSS  171 (291)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH-----HHhcccchHHHHHhH
Confidence            4555555555666666666663       3556677788888999999999998887652     111111100000112


Q ss_pred             ChHHHHHHHHHHHHC---C--CCCCHHHHHHHHHHHHhcCCHHHHH
Q 025612          178 MIDKAMETYETMKAS---G--CTPHKLTFTILIRNLENAGEEELVA  218 (250)
Q Consensus       178 ~~~~a~~~~~~m~~~---g--~~p~~~ty~~li~~~~~~g~~~~a~  218 (250)
                      ++++.....+++.+.   +  ...|+..|..++.||.-.|+...+.
T Consensus       172 ~L~e~~~~i~~~ld~~l~~~~~~Fd~~~Y~~v~~AY~lLgk~~~~~  217 (291)
T PF10475_consen  172 QLQETLELIEEQLDSDLSKVCQDFDPDKYSKVQEAYQLLGKTQSAM  217 (291)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhhHHHH
Confidence            344444444443322   1  1578888999999998888766544

>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=83.36  E-value=17  Score=27.25  Aligned_cols=110  Identities=14%  Similarity=0.173  Sum_probs=51.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcCcccHH--HHHHH--HHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLLKADLL--DTLTE--LRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK  140 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~--~ll~~--~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~  140 (250)
                      .++..-...++.+.+..++..+.  .+.|...  .+..+  +.+.|++.+|..+|+++.++   .|.......|+..|..
T Consensus        15 e~~~~al~~~~~~D~e~lL~ALr--vLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~---~~~~p~~kALlA~CL~   89 (160)
T PF09613_consen   15 EVLSVALRLGDPDDAEALLDALR--VLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEER---APGFPYAKALLALCLY   89 (160)
T ss_pred             HHHHHHHccCChHHHHHHHHHHH--HhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc---CCCChHHHHHHHHHHH
Confidence            34444445566667777776664  3334333  23333  34667777777777776432   2333333444444443


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHH
Q 025612          141 NKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKA  182 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a  182 (250)
                      ...-..=...-++..+.+-.|+..   .+++.+....+...|
T Consensus        90 ~~~D~~Wr~~A~evle~~~d~~a~---~Lv~~Ll~~~~~~~a  128 (160)
T PF09613_consen   90 ALGDPSWRRYADEVLESGADPDAR---ALVRALLARADLEPA  128 (160)
T ss_pred             HcCChHHHHHHHHHHhcCCChHHH---HHHHHHHHhccccch
Confidence            332222222233444444333332   334444444444333

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=82.73  E-value=17  Score=26.89  Aligned_cols=90  Identities=12%  Similarity=0.052  Sum_probs=45.4

Q ss_pred             HcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 025612          104 RQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAM  183 (250)
Q Consensus       104 ~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~  183 (250)
                      ..++++++..+++.|+--+--.+...++...|  +...|++++|.++|++..+.+.   ...|..-+.++|-...-|-.+
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l--~i~rg~w~eA~rvlr~l~~~~~---~~p~~kAL~A~CL~al~Dp~W   96 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWL--LIARGNYDEAARILRELLSSAG---APPYGKALLALCLNAKGDAEW   96 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHH--HHHcCCHHHHHHHHHhhhccCC---CchHHHHHHHHHHHhcCChHH
Confidence            46677777777776643111122233333332  4566777777777777766531   224444444555444444444


Q ss_pred             HHH-HHHHHCCCCCCH
Q 025612          184 ETY-ETMKASGCTPHK  198 (250)
Q Consensus       184 ~~~-~~m~~~g~~p~~  198 (250)
                      +.+ +++...|-.|+.
T Consensus        97 r~~A~~~le~~~~~~a  112 (153)
T TIGR02561        97 HVHADEVLARDADADA  112 (153)
T ss_pred             HHHHHHHHHhCCCHhH
Confidence            444 334444433333

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=82.70  E-value=44  Score=32.18  Aligned_cols=85  Identities=12%  Similarity=0.112  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHH---------------HHHHHH
Q 025612          108 LDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVY---------------TEMIGV  172 (250)
Q Consensus       108 ~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty---------------~~li~~  172 (250)
                      .+...+++.++.+..|+..+......++....  |++..++.+++++... ...+.+|+               ..++.+
T Consensus       181 ~~~l~~~L~~il~~EGv~id~eal~lLa~~sg--GdlR~Al~eLEKLia~-~~~~~IT~e~V~allg~~~~~~I~~lidA  257 (824)
T PRK07764        181 PEVMRGYLERICAQEGVPVEPGVLPLVIRAGG--GSVRDSLSVLDQLLAG-AGPEGVTYERAVALLGVTDSALIDEAVDA  257 (824)
T ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC--CCHHHHHHHHHHHHhh-cCCCCCCHHHHHHHhcCCCHHHHHHHHHH
Confidence            34455555555455677777777666655553  7788888888776531 11222222               234444


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCC
Q 025612          173 YLQVGMIDKAMETYETMKASGCTP  196 (250)
Q Consensus       173 ~~~~g~~~~a~~~~~~m~~~g~~p  196 (250)
                      .. .|+...++.+++++.+.|..|
T Consensus       258 L~-~~D~a~al~~l~~Li~~G~dp  280 (824)
T PRK07764        258 LA-AGDGAALFGTVDRVIEAGHDP  280 (824)
T ss_pred             HH-cCCHHHHHHHHHHHHHcCCCH
Confidence            33 467777888888887777653

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=82.37  E-value=44  Score=31.42  Aligned_cols=123  Identities=19%  Similarity=0.116  Sum_probs=88.7

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcC
Q 025612           99 LTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPD-TRVYTEMIGVYLQVG  177 (250)
Q Consensus        99 l~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~ty~~li~~~~~~g  177 (250)
                      -..+.+.+..++|...+.+..+  ........|.-.=..+...|.+++|...|..-..  +.|+ ....+++-..+.+.|
T Consensus       657 a~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~--ldP~hv~s~~Ala~~lle~G  732 (799)
T KOG4162|consen  657 ADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALA--LDPDHVPSMTALAELLLELG  732 (799)
T ss_pred             HHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHh--cCCCCcHHHHHHHHHHHHhC
Confidence            3445567777788777777643  2334455566555666677888888888877655  3454 456777888888888


Q ss_pred             ChHHHHH--HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          178 MIDKAME--TYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       178 ~~~~a~~--~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      +-.-|..  +..++.+-+ .-+...|-.+=..+-..|+.++|.+.|+...+
T Consensus       733 ~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~q  782 (799)
T KOG4162|consen  733 SPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQAALQ  782 (799)
T ss_pred             CcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHHHHh
Confidence            8777777  888888754 23678888898999999999999999887654

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=82.33  E-value=9.6  Score=29.31  Aligned_cols=60  Identities=15%  Similarity=0.126  Sum_probs=41.6

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 025612          133 DMILMLGKNKQIAMAEELFCELKKE-GLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS  192 (250)
Q Consensus       133 ~li~~~~~~~~~~~A~~~~~~m~~~-g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  192 (250)
                      ..+.......+.+......+..++. ...|+..+|..++..+...|+.++|.+..+++...
T Consensus       113 ~~l~~~~~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  113 ALLLLARLPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             HHHHhhcCCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3333333555655555555554442 56789999999999999999999998888888764

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>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=82.19  E-value=22  Score=27.75  Aligned_cols=79  Identities=9%  Similarity=-0.039  Sum_probs=60.6

Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHhcCCHH
Q 025612          139 GKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS---GCTPHKLTFTILIRNLENAGEEE  215 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p~~~ty~~li~~~~~~g~~~  215 (250)
                      .+.|+ +.|.+.|-.+...+.--|+..--+| .+|....+.+++..++-...+.   +-.+|+..+..|...|-+.|+++
T Consensus       118 sr~~d-~~A~~~fL~~E~~~~l~t~elq~aL-AtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e  195 (203)
T PF11207_consen  118 SRFGD-QEALRRFLQLEGTPELETAELQYAL-ATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYE  195 (203)
T ss_pred             hccCc-HHHHHHHHHHcCCCCCCCHHHHHHH-HHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchh
Confidence            44455 7888899999888766555544444 4555568899999999887653   44789999999999999999999


Q ss_pred             HHHH
Q 025612          216 LVAA  219 (250)
Q Consensus       216 ~a~~  219 (250)
                      .|.-
T Consensus       196 ~AYi  199 (203)
T PF11207_consen  196 QAYI  199 (203)
T ss_pred             hhhh
Confidence            8863

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=81.85  E-value=14  Score=25.39  Aligned_cols=71  Identities=10%  Similarity=0.073  Sum_probs=46.3

Q ss_pred             HHHHHHHHHhcCChH--HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-ccCCchHHHH
Q 025612          166 YTEMIGVYLQVGMID--KAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQ-YVEFPERFLE  236 (250)
Q Consensus       166 y~~li~~~~~~g~~~--~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~-~g~~pd~~~~  236 (250)
                      |++=-..|....+.|  +..+-++.+....+.|++....+.++||-|.+++..|.++|...+. .|-.-+.+-|
T Consensus        11 F~ary~~~F~~~~iD~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~   84 (108)
T PF02284_consen   11 FDARYEKYFNRPDIDGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPY   84 (108)
T ss_dssp             HHHHHHHHHH-TT--HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHH
T ss_pred             HHHHHHHHhCCccccHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHH
Confidence            333334444444443  6667777777888999999999999999999999999999999874 4544433333

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 ....

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=81.69  E-value=47  Score=31.26  Aligned_cols=94  Identities=12%  Similarity=0.080  Sum_probs=60.8

Q ss_pred             HHHHHHHHHH-HhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC---C----------CCCHHHHHHHHHHHHh
Q 025612          145 AMAEELFCEL-KKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASG---C----------TPHKLTFTILIRNLEN  210 (250)
Q Consensus       145 ~~A~~~~~~m-~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g---~----------~p~~~ty~~li~~~~~  210 (250)
                      ++....+... ...|+..+......|+...  .|++..+..++++....|   +          ..+...+..|++++.+
T Consensus       181 eeI~~~L~~Il~kEgi~id~eAL~~Ia~~A--~GslRdAlnLLDqaia~g~g~It~e~V~~lLG~~d~~~If~LldAL~~  258 (709)
T PRK08691        181 QQVADHLAHVLDSEKIAYEPPALQLLGRAA--AGSMRDALSLLDQAIALGSGKVAENDVRQMIGAVDKQYLYELLTGIIN  258 (709)
T ss_pred             HHHHHHHHHHHHHcCCCcCHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcCCCcCHHHHHHHHcccCHHHHHHHHHHHHc
Confidence            4444455443 3347777777776666544  478888888887654422   1          1233345556666665


Q ss_pred             cCCHHHHHHHHHHHHhccCCchHHHHHHHHh
Q 025612          211 AGEEELVAAVRRDCIQYVEFPERFLEEVYQK  241 (250)
Q Consensus       211 ~g~~~~a~~~~~~m~~~g~~pd~~~~~~~~~  241 (250)
                       ++...+.+++++|...|+.+..++..+...
T Consensus       259 -~d~~~al~~l~~L~~~G~d~~~~l~~L~~~  288 (709)
T PRK08691        259 -QDGAALLAKAQEMAACAVGFDNALGELAIL  288 (709)
T ss_pred             -CCHHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence             788889999999999999888777666443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.60  E-value=32  Score=29.28  Aligned_cols=147  Identities=11%  Similarity=-0.067  Sum_probs=85.4

Q ss_pred             CChhHHHHHHHHHHHhcCcccHHH---HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHH----HHHHHHcCCCHHH
Q 025612           74 KSSSKLEEGFQSRICRLLKADLLD---TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSD----MILMLGKNKQIAM  146 (250)
Q Consensus        74 ~~~~~a~~l~~~m~~~~~~~~~~~---ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~----li~~~~~~~~~~~  146 (250)
                      |+..+|-..|+++.+ ..+.|..+   .-++|.-+|+.+.-...++.+.-  ...||...|.-    .--++..+|-+++
T Consensus       117 g~~h~a~~~wdklL~-d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip--~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  117 GKHHEAAIEWDKLLD-DYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIP--KWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccHHHHHHHHHHH-hCchhhhhhhhhhhHHHhccchhhhhhHHHHhcc--ccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            444455555555543 23333332   45677778888777777777752  23455433332    2233446788888


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 025612          147 AEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS---GCTPHKLTFTILIRNLENAGEEELVAAVRRD  223 (250)
Q Consensus       147 A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~  223 (250)
                      |++.-++-.+-+ +-|.-.-.++-..+-..|+..++.+++.+=...   +--.-.+-|-..--.+...+.++.|.++|+.
T Consensus       194 AEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  194 AEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            888777655432 234445555555666678888888887654322   2222223344444456667899999999876


Q ss_pred             H
Q 025612          224 C  224 (250)
Q Consensus       224 m  224 (250)
                      -
T Consensus       273 e  273 (491)
T KOG2610|consen  273 E  273 (491)
T ss_pred             H
Confidence            3

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=81.34  E-value=30  Score=31.00  Aligned_cols=103  Identities=17%  Similarity=0.171  Sum_probs=79.0

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCC
Q 025612          100 TELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDT-RVYTEMIGVYLQVGM  178 (250)
Q Consensus       100 ~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~ty~~li~~~~~~g~  178 (250)
                      ++.+..|+++.|...|-+... -. ++|...|..-..+|++.|++++|.+=-.+-.  .+.|+- .-|+-.-.+..-.|+
T Consensus        10 naa~s~~d~~~ai~~~t~ai~-l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~--~l~p~w~kgy~r~Gaa~~~lg~   85 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIM-LS-PTNHVLYSNRSAAYASLGSYEKALKDATKTR--RLNPDWAKGYSRKGAALFGLGD   85 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHc-cC-CCccchhcchHHHHHHHhhHHHHHHHHHHHH--hcCCchhhHHHHhHHHHHhccc
Confidence            455678999999999998763 22 3478889999999999999999876444433  467774 568888888888999


Q ss_pred             hHHHHHHHHHHHHCCCCC-CHHHHHHHHHHH
Q 025612          179 IDKAMETYETMKASGCTP-HKLTFTILIRNL  208 (250)
Q Consensus       179 ~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~  208 (250)
                      +++|+.-|.+=.+.  .| |...++.+.+++
T Consensus        86 ~~eA~~ay~~GL~~--d~~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   86 YEEAILAYSEGLEK--DPSNKQLKTGLAQAY  114 (539)
T ss_pred             HHHHHHHHHHHhhc--CCchHHHHHhHHHhh
Confidence            99999999886663  35 456677777777

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=80.73  E-value=13  Score=28.49  Aligned_cols=22  Identities=14%  Similarity=0.090  Sum_probs=13.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Q 025612           98 TLTELRRQNELDLALKVFNFVR  119 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~  119 (250)
                      .+-.|.++|.+++|.++++...
T Consensus       117 aV~VCm~~g~Fk~A~eiLkr~~  138 (200)
T cd00280         117 AVAVCMENGEFKKAEEVLKRLF  138 (200)
T ss_pred             HHHHHHhcCchHHHHHHHHHHh
Confidence            4455666666666666666654

Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability, protecting the chromosome ends from degradation and end-to-end fusion. Proteins TRF1, TRF2 and Taz1 bind telomeric DNA and are also involved in recruiting interacting proteins, TIN2, and Rap1, to the telomeres. It has also been demonstrated that PARP1 associates with TRF2 and is capable of poly(ADP-ribosyl)ation of TRF2, which affects binding of TRF2 to telomeric DNA. TRF1, TRF2 and Taz1 proteins contain three functional domains: an N-terminal acidic domain, a central TRF-specific/dimerization domain, and a C-terminal DNA binding domain with a single Myb-like repeat. Homodimerization, a prerequisite to DNA binding, results in the juxtaposition of two Myb DNA binding domains.

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=80.69  E-value=30  Score=28.37  Aligned_cols=157  Identities=10%  Similarity=-0.012  Sum_probs=91.4

Q ss_pred             HHHHHHhcCChh---HHHHHHHHHHH-hcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-
Q 025612           66 AVHAMKLAKSSS---KLEEGFQSRIC-RLLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG-  139 (250)
Q Consensus        66 ll~~~~~~~~~~---~a~~l~~~m~~-~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~-  139 (250)
                      ++.++...+..+   +|..+.+.+.+ .+-+|.+. --++.+.+.++.+.+.+++..|....  .-....+..+++.+- 
T Consensus        90 La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~--~~~e~~~~~~l~~i~~  167 (278)
T PF08631_consen   90 LANAYLEWDTYESVEKALNALRLLESEYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV--DHSESNFDSILHHIKQ  167 (278)
T ss_pred             HHHHHHcCCChHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc--ccccchHHHHHHHHHH
Confidence            356666666655   56666666654 34445555 45666666899999999999998643  223455666666652 


Q ss_pred             -cCCCHHHHHHHHHHHHhCCCCCCHH-HHHH-HHHHH---HhcC------ChHHHHHHHHHHHHC-CCCCCHHHHHHHH-
Q 025612          140 -KNKQIAMAEELFCELKKEGLDPDTR-VYTE-MIGVY---LQVG------MIDKAMETYETMKAS-GCTPHKLTFTILI-  205 (250)
Q Consensus       140 -~~~~~~~A~~~~~~m~~~g~~p~~~-ty~~-li~~~---~~~g------~~~~a~~~~~~m~~~-g~~p~~~ty~~li-  205 (250)
                       .......|...++.+....+.|... .... ++...   .+.+      .++.+.++++...+. +-..+..+-.++. 
T Consensus       168 l~~~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~~a~~~  247 (278)
T PF08631_consen  168 LAEKSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAASAIHT  247 (278)
T ss_pred             HHhhCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence             2233467777777776665666653 1111 11111   1111      255555666654333 4445555544443 


Q ss_pred             ------HHHHhcCCHHHHHHHHHHH
Q 025612          206 ------RNLENAGEEELVAAVRRDC  224 (250)
Q Consensus       206 ------~~~~~~g~~~~a~~~~~~m  224 (250)
                            ..+.+.++++.|.++|+--
T Consensus       248 LLW~~~~~~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  248 LLWNKGKKHYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHH
Confidence                  3345678999999998753

It is also involved in sporulation [].

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=80.61  E-value=13  Score=34.65  Aligned_cols=166  Identities=15%  Similarity=0.133  Sum_probs=86.2

Q ss_pred             ceeeeeccccCCCccccccCCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHHHHHHHHHHcCCHHHHH-----
Q 025612           38 ALTVTCGLRDANKKPMWRSRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLAL-----  112 (250)
Q Consensus        38 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~~~~~~~~a~-----  112 (250)
                      .++++|+.....+ ...+-+.+......-...-+--|++++|.+++-++-++.+..      ..+-+.|++-...     
T Consensus       713 ~AFVrc~dY~Gik-~vkrl~~i~s~~~q~aei~~~~g~feeaek~yld~drrDLAi------elr~klgDwfrV~qL~r~  785 (1189)
T KOG2041|consen  713 HAFVRCGDYAGIK-LVKRLRTIHSKEQQRAEISAFYGEFEEAEKLYLDADRRDLAI------ELRKKLGDWFRVYQLIRN  785 (1189)
T ss_pred             hhhhhhccccchh-HHHHhhhhhhHHHHhHhHhhhhcchhHhhhhhhccchhhhhH------HHHHhhhhHHHHHHHHHc
Confidence            4566777665332 222323222222322222233488999999888876554432      2222333333222     


Q ss_pred             -----------HHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC--------CCCCCHHHHHHHHHHH
Q 025612          113 -----------KVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKE--------GLDPDTRVYTEMIGVY  173 (250)
Q Consensus       113 -----------~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~--------g~~p~~~ty~~li~~~  173 (250)
                                 +.|+.|-+.   -.+...|-.-...|..+|+.+.-.+.+-.+..-        .++-|....-.|-.++
T Consensus       786 g~~d~dD~~~e~A~r~ig~~---fa~~~~We~A~~yY~~~~~~e~~~ecly~le~f~~LE~la~~Lpe~s~llp~~a~mf  862 (1189)
T KOG2041|consen  786 GGSDDDDEGKEDAFRNIGET---FAEMMEWEEAAKYYSYCGDTENQIECLYRLELFGELEVLARTLPEDSELLPVMADMF  862 (1189)
T ss_pred             cCCCcchHHHHHHHHHHHHH---HHHHHHHHHHHHHHHhccchHhHHHHHHHHHhhhhHHHHHHhcCcccchHHHHHHHH
Confidence                       233333210   123344666667777777766554443332221        2344556666777888


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 025612          174 LQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRR  222 (250)
Q Consensus       174 ~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~  222 (250)
                      .+.|.-++|.+.|-+--.    |-     .-+..|....++.+|.++-+
T Consensus       863 ~svGMC~qAV~a~Lr~s~----pk-----aAv~tCv~LnQW~~avelaq  902 (1189)
T KOG2041|consen  863 TSVGMCDQAVEAYLRRSL----PK-----AAVHTCVELNQWGEAVELAQ  902 (1189)
T ss_pred             HhhchHHHHHHHHHhccC----cH-----HHHHHHHHHHHHHHHHHHHH
Confidence            888888888877644322    22     33456666666666666543

>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]

Probab=80.15  E-value=7.8  Score=26.76  Aligned_cols=22  Identities=18%  Similarity=0.253  Sum_probs=11.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHH
Q 025612           97 DTLTELRRQNELDLALKVFNFV  118 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m  118 (250)
                      .+|..|...++.++|...+.++
T Consensus         7 ~~l~ey~~~~d~~ea~~~l~el   28 (113)
T PF02847_consen    7 SILMEYFSSGDVDEAVECLKEL   28 (113)
T ss_dssp             HHHHHHHHHT-HHHHHHHHHHT
T ss_pred             HHHHHHhcCCCHHHHHHHHHHh
Confidence            3455555555555555555544

It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....

---

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	250
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-06
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-06

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 47.9 bits (112), Expect = 1e-06
 Identities = 22/132 (16%), Positives = 43/132 (32%), Gaps = 3/132 (2%)

Query: 104 RQNELDLALKVFNFVRKEVWYK--PDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDP 161
             ++L LA  +      +   +    L +Y+ ++L   +         +   +K  GL P
Sbjct: 139 LTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTP 198

Query: 162 DTRVYTEMIGVYLQVGMIDKAMETY-ETMKASGCTPHKLTFTILIRNLENAGEEELVAAV 220
           D   Y   +    +       +E   E M   G     L   +L+   + A   + V  V
Sbjct: 199 DLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV 258

Query: 221 RRDCIQYVEFPE 232
           +       + P 
Sbjct: 259 KPTFSLPPQLPP 270

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 46.7 bits (109), Expect = 4e-06
 Identities = 24/196 (12%), Positives = 57/196 (29%), Gaps = 19/196 (9%)

Query: 23  HQRPQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQAVHAMKLAKSSSKLEEG 82
             R Q       K+Q    +   +   ++     R+LS +    +         S  EE 
Sbjct: 38  QMRMQ---RLKAKLQMPFQSGEFKALTRRLQVEPRLLSKQMAGCLEDCTRQAPESPWEE- 93

Query: 83  FQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNK 142
                   L   L +   +L    E     +  +    +                     
Sbjct: 94  -------QLARLLQEAPGKLSLDVE-----QAPSGQHSQAQLSGQQQRLLAFFKCCLLTD 141

Query: 143 QIAMAEELFCELK---KEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKL 199
           Q+ +A  L        ++       +Y  ++  + + G   + +     +K +G TP  L
Sbjct: 142 QLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLL 201

Query: 200 TFTILIRNLENAGEEE 215
           ++   ++ +    ++ 
Sbjct: 202 SYAAALQCMGRQDQDA 217

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	250
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.9
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.9
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.63
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.62
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.26
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.26
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.24
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.23
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.23
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.21
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.19
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.17
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.17
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.16
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.15
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.14
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.13
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.13
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.11
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.09
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.08
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.08
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.07
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.07
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.06
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.06
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.05
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.03
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.03
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.0
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.99
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.98
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.98
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.96
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.95
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	98.94
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.93
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.93
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.9
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.9
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.88
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.88
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.84
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.84
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.83
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.83
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.81
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.79
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.79
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.78
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.77
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.77
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.76
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.75
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.65
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.64
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.61
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.61
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.61
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.6
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.6
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	98.54
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.54
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.54
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.53
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.52
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.51
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.49
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.48
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.47
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.46
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.46
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.45
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.42
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.41
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.41
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.41
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.38
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.37
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.36
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.35
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.35
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.35
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.33
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.31
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.3
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	98.29
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.27
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.27
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.27
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.25
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.24
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.23
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	98.23
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.21
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.2
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.2
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.2
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.19
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.16
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.16
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.15
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.15
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.15
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.13
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.13
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.13
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.12
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.12
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.12
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.11
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.11
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.11
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.08
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.08
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.06
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.06
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.06
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.05
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.05
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	98.04
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.04
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.01
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.01
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.0
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.0
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.0
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.0
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	97.96
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.95
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.95
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	97.94
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.93
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.91
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.9
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	97.89
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.89
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.87
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.87
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	97.86
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.86
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.86
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.86
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.83
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.83
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.83
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.83
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.82
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.82
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	97.82
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.81
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.79
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.78
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.77
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	97.77
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.74
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.7
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.7
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.67
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.67
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.65
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.64
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.62
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	97.61
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.61
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.56
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.56
4g1t_A	472	Interferon-induced protein with tetratricopeptide	97.53
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.46
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.44
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.43
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.42
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.39
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	97.36
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.3
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.26
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.25
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.23
4g1t_A	472	Interferon-induced protein with tetratricopeptide	97.21
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.17
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.16
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.12
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.11
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.1
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.05
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.96
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.93
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.91
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	96.9
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.89
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.88
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.8
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.75
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.75
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.74
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	96.74
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.55
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	96.54
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.37
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.26
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	95.85
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	95.83
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.56
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.32
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	95.27
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	95.15
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	95.07
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	94.98
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	94.95
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	94.71
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	94.57
1pc2_A	152	Mitochondria fission protein; unknown function; NM	94.47
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	93.99
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	93.93
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.82
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.73
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	93.71
1pc2_A	152	Mitochondria fission protein; unknown function; NM	93.46
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	92.98
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	92.6
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	92.24
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	91.99
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	91.98
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	91.94
2nsz_A	129	Programmed cell death protein 4; PDCD4, tumor supp	91.43
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	91.02
3rjo_A	419	Endoplasmic reticulum aminopeptidase 1; ERAP1, hyd	91.0
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	90.68
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	90.6
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	89.42
2ion_A	152	PDCD4, programmed cell death 4, PDCD4; alpha-helic	87.9
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	87.76
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	87.69
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	87.66
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	87.3
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	86.8
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	86.48
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	86.05
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	85.89
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	85.05
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	84.97
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	83.78
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	83.24
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	81.84
4fke_A	909	Aminopeptidase N; zinc aminopeptidase, hydrolase;	81.6

>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=1.6e-35  Score=260.37  Aligned_cols=180  Identities=13%  Similarity=0.092  Sum_probs=171.1

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH---HHHHHHHHcCC---------HHHHHHHHHHHHHhCCCCCCHHHH
Q 025612           64 IQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL---DTLTELRRQNE---------LDLALKVFNFVRKEVWYKPDLSLY  131 (250)
Q Consensus        64 ~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~---~ll~~~~~~~~---------~~~a~~~~~~m~~~~g~~~~~~~y  131 (250)
                      ..+|.+|++.|++++|+++|++|.+.|+.||..   +||.+|++.+.         ++.|.++|++|.+ .|+.||..||
T Consensus        30 ~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~-~G~~Pd~~ty  108 (501)
T 4g26_A           30 KQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIV-DKVVPNEATF  108 (501)
T ss_dssp             HHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHH-TTCCCCHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHH-hCCCCCHHHH
Confidence            356999999999999999999999999999987   69999998765         7899999999974 9999999999


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 025612          132 SDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENA  211 (250)
Q Consensus       132 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~  211 (250)
                      |+||++|++.|++++|.++|++|.+.|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||++||++|++.
T Consensus       109 n~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~  188 (501)
T 4g26_A          109 TNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDT  188 (501)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHhccCCchHHHHHHHHhhhc
Q 025612          212 GEEELVAAVRRDCIQYVEFPERFLEEVYQKHRK  244 (250)
Q Consensus       212 g~~~~a~~~~~~m~~~g~~pd~~~~~~~~~~~~  244 (250)
                      |++++|.+++++|++.|+.|+..++.+....+.
T Consensus       189 g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~  221 (501)
T 4g26_A          189 KNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFK  221 (501)
T ss_dssp             TCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHh
Confidence            999999999999999999999999987766553

>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=99.97  E-value=6.7e-31  Score=230.97  Aligned_cols=162  Identities=13%  Similarity=0.165  Sum_probs=138.0

Q ss_pred             hHHHHHHHHHHHhcCc--ccHH--HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCC---------
Q 025612           77 SKLEEGFQSRICRLLK--ADLL--DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQ---------  143 (250)
Q Consensus        77 ~~a~~l~~~m~~~~~~--~~~~--~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~---------  143 (250)
                      ..+..+.+++.+.+..  |+..  .+|++|++.|++++|.++|++|.+ .|+.||..|||+||++|++.+.         
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~-~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~   85 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARR-NGVQLSQYHYNVLLYVCSLAEAATESSPNPG   85 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTCCCCHHHHHHHHHHHTTCCCCSSSSCCHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH-cCCCCCHhHHHHHHHHHHhCCchhhhhhcch
Confidence            4566677777776654  4432  689999999999999999999975 8999999999999999998765         


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 025612          144 IAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRD  223 (250)
Q Consensus       144 ~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~  223 (250)
                      +++|.++|++|...|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||++||.+|++.|++++|.++|++
T Consensus        86 l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~  165 (501)
T 4g26_A           86 LSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAH  165 (501)
T ss_dssp             HHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhccCCchHHHHHHH
Q 025612          224 CIQYVEFPERFLEEVY  239 (250)
Q Consensus       224 m~~~g~~pd~~~~~~~  239 (250)
                      |.+.|+.||..+|..-
T Consensus       166 M~~~G~~Pd~~ty~~L  181 (501)
T 4g26_A          166 MVESEVVPEEPELAAL  181 (501)
T ss_dssp             HHHTTCCCCHHHHHHH
T ss_pred             HHhcCCCCCHHHHHHH
Confidence            9999999999988844

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.90  E-value=1.4e-23  Score=192.01  Aligned_cols=116  Identities=16%  Similarity=0.161  Sum_probs=89.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH--hCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           97 DTLTELRRQNELDLALKVFNFVRK--EVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYL  174 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~--~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~  174 (250)
                      ++|++||+.|++++|.++|++|.+  ..|+.||+.|||+||++||+.|++++|.++|++|.+.|+.||.+|||+||.+++
T Consensus       132 aLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI~glc  211 (1134)
T 3spa_A          132 AFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMG  211 (1134)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHH
Confidence            688888888888888888877642  246778888888888888888888888888888888888888888888888888


Q ss_pred             hcCCh-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 025612          175 QVGMI-DKAMETYETMKASGCTPHKLTFTILIRNLENAG  212 (250)
Q Consensus       175 ~~g~~-~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  212 (250)
                      +.|+. ++|.++|++|.+.|+.||..||+++++++.+.+
T Consensus       212 K~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~  250 (1134)
T 3spa_A          212 RQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT  250 (1134)
T ss_dssp             HHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHH
T ss_pred             hCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHH
Confidence            87764 677788888888888888888888777666543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.90  E-value=2.6e-24  Score=196.74  Aligned_cols=116  Identities=9%  Similarity=0.068  Sum_probs=108.2

Q ss_pred             CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHh---CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH
Q 025612          122 VWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKK---EGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHK  198 (250)
Q Consensus       122 ~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~---~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  198 (250)
                      ....--..|||+||++||++|++++|.++|++|.+   +|+.||.+|||+||.+||+.|++++|.++|++|++.|+.||.
T Consensus       121 ~~~~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDv  200 (1134)
T 3spa_A          121 AQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDL  200 (1134)
T ss_dssp             -CCCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCH
T ss_pred             hHHHhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcH
Confidence            33444578999999999999999999999998864   589999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCC-HHHHHHHHHHHHhccCCchHHHHH
Q 025612          199 LTFTILIRNLENAGE-EELVAAVRRDCIQYVEFPERFLEE  237 (250)
Q Consensus       199 ~ty~~li~~~~~~g~-~~~a~~~~~~m~~~g~~pd~~~~~  237 (250)
                      +|||+||+++++.|+ .+.|.++|++|.+.|+.||..+|.
T Consensus       201 vTYntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~  240 (1134)
T 3spa_A          201 LSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTA  240 (1134)
T ss_dssp             HHHHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcc
Confidence            999999999999998 588999999999999999999998

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.63  E-value=8.3e-14  Score=123.91  Aligned_cols=164  Identities=9%  Similarity=-0.003  Sum_probs=112.3

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-c-cHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-A-DLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      ....+...+.+.|++++|.++|+++.+..-. + ....+...+.+.|++++|.++|+++.+ .+ +.+..+|+.+..+|.
T Consensus       375 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~~~l~~~~~  452 (597)
T 2xpi_A          375 TWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAAR-LF-QGTHLPYLFLGMQHM  452 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH-TT-TTCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-hC-ccchHHHHHHHHHHH
Confidence            3344567777777777777777777653211 1 112577777777777777777777754 22 336677777777777


Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCCC--HHHHHHHHHHHHhcCC
Q 025612          140 KNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS----GCTPH--KLTFTILIRNLENAGE  213 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~--~~ty~~li~~~~~~g~  213 (250)
                      +.|++++|.++|+++.+.. +.+..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..+..+|.+.|+
T Consensus       453 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  531 (597)
T 2xpi_A          453 QLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKM  531 (597)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTC
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcC
Confidence            7777777777777776542 235677777777777777777777777777654    56676  6677777777777777


Q ss_pred             HHHHHHHHHHHHhcc
Q 025612          214 EELVAAVRRDCIQYV  228 (250)
Q Consensus       214 ~~~a~~~~~~m~~~g  228 (250)
                      +++|.++++++.+.+
T Consensus       532 ~~~A~~~~~~~~~~~  546 (597)
T 2xpi_A          532 YDAAIDALNQGLLLS  546 (597)
T ss_dssp             HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHhC
Confidence            777777777776654

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.62  E-value=1e-13  Score=123.36  Aligned_cols=165  Identities=11%  Similarity=-0.098  Sum_probs=108.9

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcC
Q 025612           64 IQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKN  141 (250)
Q Consensus        64 ~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~  141 (250)
                      ..++.++.+.|++++|..+++++.+.... +... .+...|.+.|++++|.++|+++.+. . +.+..+|+.++.+|.+.
T Consensus       343 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~-~~~~~~~~~l~~~~~~~  420 (597)
T 2xpi_A          343 PLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTM-D-PQFGPAWIGFAHSFAIE  420 (597)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHHc
Confidence            34466677777777777777777643211 1111 4667777777777777777777542 1 23466777777777777


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 025612          142 KQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVR  221 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~  221 (250)
                      |++++|.++|+++.+.+ +.+..+|+.++.+|.+.|++++|.++|++|.+.. ..+..+|+.+...|.+.|++++|.++|
T Consensus       421 g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  498 (597)
T 2xpi_A          421 GEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHF  498 (597)
T ss_dssp             TCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHH
Confidence            77777777777776542 3366777777777777777777777777776542 235677777777777777777777777


Q ss_pred             HHHHhc----cCCch
Q 025612          222 RDCIQY----VEFPE  232 (250)
Q Consensus       222 ~~m~~~----g~~pd  232 (250)
                      +++.+.    +..|+
T Consensus       499 ~~~~~~~~~~~~~p~  513 (597)
T 2xpi_A          499 QNALLLVKKTQSNEK  513 (597)
T ss_dssp             HHHHHHHHHSCCCSG
T ss_pred             HHHHHhhhccccchh
Confidence            777655    55555

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.26  E-value=3.9e-09  Score=83.23  Aligned_cols=161  Identities=14%  Similarity=-0.006  Sum_probs=117.0

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCC
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNK  142 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~  142 (250)
                      .+...+...|++++|...|++..+..-. +... .+...+.+.|++++|.+.|++..+. . +.+...|..+...|...|
T Consensus        42 ~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~-~-~~~~~~~~~la~~~~~~g  119 (252)
T 2ho1_A           42 QLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALAS-D-SRNARVLNNYGGFLYEQK  119 (252)
T ss_dssp             HHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-C-cCcHHHHHHHHHHHHHHh
Confidence            3466677788888888888887754321 1122 4667777888888888888887643 2 235777888888888888


Q ss_pred             CHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 025612          143 QIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVR  221 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~  221 (250)
                      ++++|.+.|++....+..| +...|..+...|...|++++|...|++..+.. ..+...+..+...|...|++++|.+.+
T Consensus       120 ~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~  198 (252)
T 2ho1_A          120 RYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYY  198 (252)
T ss_dssp             CHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            8888888888877643445 45667777788888888888888888876643 225677788888888888888888888


Q ss_pred             HHHHhcc
Q 025612          222 RDCIQYV  228 (250)
Q Consensus       222 ~~m~~~g  228 (250)
                      +...+..
T Consensus       199 ~~~~~~~  205 (252)
T 2ho1_A          199 DLFAQGG  205 (252)
T ss_dssp             HHHHTTS
T ss_pred             HHHHHhC
Confidence            8877644

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.26  E-value=7.9e-09  Score=79.54  Aligned_cols=164  Identities=12%  Similarity=-0.055  Sum_probs=126.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK  140 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~  140 (250)
                      ...+...+...|++++|...+++..+..-. +... .+...+...|++++|.+.|+...+. . +.+..+|..+...|..
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-~-~~~~~~~~~l~~~~~~   88 (225)
T 2vq2_A           11 KTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSI-K-PDSAEINNNYGWFLCG   88 (225)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHh-C-CCChHHHHHHHHHHHH
Confidence            334567778889999999999988764322 2222 5777788899999999999988653 2 3367788888899999


Q ss_pred             C-CCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 025612          141 N-KQIAMAEELFCELKKEGLDPD-TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVA  218 (250)
Q Consensus       141 ~-~~~~~A~~~~~~m~~~g~~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~  218 (250)
                      . |++++|...|+++.+.+..|+ ...|..+...|...|++++|...|+++.+.. ..+...+..+...+.+.|++++|.
T Consensus        89 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~  167 (225)
T 2vq2_A           89 RLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDAD  167 (225)
T ss_dssp             TTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             hcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHH
Confidence            9 999999999998877433443 5778888888999999999999998887643 224778888888999999999999


Q ss_pred             HHHHHHHhccC
Q 025612          219 AVRRDCIQYVE  229 (250)
Q Consensus       219 ~~~~~m~~~g~  229 (250)
                      +.++...+..-
T Consensus       168 ~~~~~~~~~~~  178 (225)
T 2vq2_A          168 YYFKKYQSRVE  178 (225)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHhCC
Confidence            99988876543

>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=99.24  E-value=3.7e-09  Score=88.96  Aligned_cols=127  Identities=13%  Similarity=0.148  Sum_probs=88.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      .+...+.+.|++++|.+.|+.+.+ .. +.+..+|+.+...|.+.|++++|.+.|+++.+. .+.+..+|+.+...|.+.
T Consensus       242 ~l~~~~~~~g~~~~A~~~~~~al~-~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~  318 (388)
T 1w3b_A          242 NLACVYYEQGLIDLAIDTYRRAIE-LQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQ  318 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH-TC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh-hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHc
Confidence            466667777777777777777764 21 224566777777777777777777777777654 244667777777777777


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          177 GMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      |++++|...|+++.+.. ..+..++..+...|.+.|++++|.+.++++.+.
T Consensus       319 g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          319 GNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             TCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            77777777777776642 234667777777777777777777777777653

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.23  E-value=2.2e-09  Score=87.67  Aligned_cols=159  Identities=13%  Similarity=0.163  Sum_probs=109.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcC
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKN  141 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~  141 (250)
                      +...+...++.++|.+.++++...+..|+..    .+-..+...|++++|.+.++.       ..+...+..+...|.+.
T Consensus        71 la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~-------~~~~~~~~~l~~~~~~~  143 (291)
T 3mkr_A           71 FAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ-------GDSLECMAMTVQILLKL  143 (291)
T ss_dssp             HHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT-------CCSHHHHHHHHHHHHHT
T ss_pred             HHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC-------CCCHHHHHHHHHHHHHC
Confidence            3556666788888888888887766545433    344667788888888888775       34677788888888888


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHH---HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 025612          142 KQIAMAEELFCELKKEGLDPDTRVY---TEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVA  218 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~~g~~p~~~ty---~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~  218 (250)
                      |++++|.+.|+++.+.  .|+...+   .+++..+...|++++|..+|+++.+. ...+...|+.+-.++.+.|++++|+
T Consensus       144 g~~~~A~~~l~~~~~~--~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~  220 (291)
T 3mkr_A          144 DRLDLARKELKKMQDQ--DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAE  220 (291)
T ss_dssp             TCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CCHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHH
Confidence            8888888888888765  3553211   12233334457888888888888765 3456777888888888888888888


Q ss_pred             HHHHHHHhc-cCCchHH
Q 025612          219 AVRRDCIQY-VEFPERF  234 (250)
Q Consensus       219 ~~~~~m~~~-g~~pd~~  234 (250)
                      +.+++..+. .-.|+.+
T Consensus       221 ~~l~~al~~~p~~~~~l  237 (291)
T 3mkr_A          221 GVLQEALDKDSGHPETL  237 (291)
T ss_dssp             HHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHhCCCCHHHH
Confidence            888886653 3334443

>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=99.23  E-value=7e-09  Score=81.74  Aligned_cols=167  Identities=13%  Similarity=0.086  Sum_probs=137.1

Q ss_pred             cHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHHHH
Q 025612           60 SSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMIL  136 (250)
Q Consensus        60 ~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~  136 (250)
                      ......+...+...|++++|...+++..+..-. +... .+...+...|++++|.++|+...+ .+..| +...|..+..
T Consensus        71 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~  149 (252)
T 2ho1_A           71 ADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGL  149 (252)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHH
Confidence            334445677888999999999999998765422 2222 577888999999999999999864 33445 5778889999


Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 025612          137 MLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEEL  216 (250)
Q Consensus       137 ~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~  216 (250)
                      .|.+.|++++|...|++..+.. +.+...|..+...|...|++++|...|++..+.. ..+...+..+...+...|++++
T Consensus       150 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~  227 (252)
T 2ho1_A          150 VSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDT  227 (252)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHH
Confidence            9999999999999999987753 3358889999999999999999999999988753 3567888999999999999999


Q ss_pred             HHHHHHHHHhccC
Q 025612          217 VAAVRRDCIQYVE  229 (250)
Q Consensus       217 a~~~~~~m~~~g~  229 (250)
                      |.++++.+.+..-
T Consensus       228 A~~~~~~~~~~~p  240 (252)
T 2ho1_A          228 AASYGLQLKRLYP  240 (252)
T ss_dssp             HHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHCC
Confidence            9999999987643

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.21  E-value=7.4e-09  Score=80.87  Aligned_cols=193  Identities=10%  Similarity=0.001  Sum_probs=140.2

Q ss_pred             CCccceeeeeccccCCCcccc----ccCCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCC
Q 025612           34 KKIQALTVTCGLRDANKKPMW----RSRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNE  107 (250)
Q Consensus        34 ~~~~~~~~~~~~~~~~~~~l~----~~~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~  107 (250)
                      ..+...+...+....+...+.    ..+........+...+...|++++|...+++..+..-. +... .+...+...|+
T Consensus        27 ~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~  106 (243)
T 2q7f_A           27 GQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEM  106 (243)
T ss_dssp             ---------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhcc
Confidence            333334444555444443222    22333344445677888999999999999998765422 2222 57788889999


Q ss_pred             HHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 025612          108 LDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYE  187 (250)
Q Consensus       108 ~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~  187 (250)
                      +++|.+.|+...+. . +.+...|..+...|.+.|++++|...|++..+.. +.+...|..+...|.+.|++++|.+.|+
T Consensus       107 ~~~A~~~~~~~~~~-~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  183 (243)
T 2q7f_A          107 YKEAKDMFEKALRA-G-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQFA  183 (243)
T ss_dssp             HHHHHHHHHHHHHH-T-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999998753 2 3467889999999999999999999999987642 3467889999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 025612          188 TMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       188 ~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      +..+.. ..+..++..+...|...|++++|.+.++...+..-.
T Consensus       184 ~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~  225 (243)
T 2q7f_A          184 AVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPD  225 (243)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTT
T ss_pred             HHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcc
Confidence            987753 235788999999999999999999999999875443

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.19  E-value=6.3e-09  Score=88.98  Aligned_cols=161  Identities=11%  Similarity=-0.003  Sum_probs=100.6

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      ....+...+.+.|++++|..+|+++.+..-. +... .+..++.+.|++++|...|+.+.+. + +.+...|..+...|.
T Consensus        28 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~-p~~~~~~~~l~~~~~  105 (450)
T 2y4t_A           28 KHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQL-K-MDFTAARLQRGHLLL  105 (450)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-C-CCcHHHHHHHHHHHH
Confidence            4445567777778888888888877654211 1111 4666777778888888888777642 2 234667777777777


Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHH------------HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 025612          140 KNKQIAMAEELFCELKKEGLDPDT----RVYTEMIG------------VYLQVGMIDKAMETYETMKASGCTPHKLTFTI  203 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~g~~p~~----~ty~~li~------------~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~  203 (250)
                      +.|++++|.+.|+++.+.  .|+.    ..|..++.            .|.+.|++++|..+|+++.+.. ..+..++..
T Consensus       106 ~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  182 (450)
T 2y4t_A          106 KQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELREL  182 (450)
T ss_dssp             HTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHH
Confidence            777777777777777653  3433    34444433            2666666666666666665532 224555666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          204 LIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       204 li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      +..+|.+.|++++|.++++.+.+.
T Consensus       183 l~~~~~~~g~~~~A~~~~~~~~~~  206 (450)
T 2y4t_A          183 RAECFIKEGEPRKAISDLKAASKL  206 (450)
T ss_dssp             HHHHHHHTTCGGGGHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh
Confidence            666666666666666666665543

>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=99.17  E-value=1.8e-08  Score=84.75  Aligned_cols=156  Identities=12%  Similarity=0.079  Sum_probs=100.0

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHcCCC
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMILMLGKNKQ  143 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~~~~~~~~  143 (250)
                      ...+...|++++|...|+++.+..-. ++.. .+-..+...|++++|...|.+..+.   .| +..+|+.+...|.+.|+
T Consensus       176 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~  252 (388)
T 1w3b_A          176 GCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSL---SPNHAVVHGNLACVYYEQGL  252 (388)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CcCCHHHHHHHHHHHHHcCC
Confidence            33444444444444444444432110 0011 2344444555555555555554431   23 46777888888888888


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 025612          144 IAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRD  223 (250)
Q Consensus       144 ~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~  223 (250)
                      +++|.+.|+++.+.+ +.+..+|+.+...|.+.|++++|.+.|+++.+.. ..+..+|..+...+.+.|++++|.+.+++
T Consensus       253 ~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  330 (388)
T 1w3b_A          253 IDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRK  330 (388)
T ss_dssp             HHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            888888888877642 2246678888888888888888888888877652 44677888888888888888888888888


Q ss_pred             HHhc
Q 025612          224 CIQY  227 (250)
Q Consensus       224 m~~~  227 (250)
                      +.+.
T Consensus       331 al~~  334 (388)
T 1w3b_A          331 ALEV  334 (388)
T ss_dssp             HTTS
T ss_pred             HHhc
Confidence            7664

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.17  E-value=2.3e-08  Score=76.88  Aligned_cols=166  Identities=10%  Similarity=0.016  Sum_probs=134.7

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHc-CCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHH
Q 025612           61 SEAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQ-NELDLALKVFNFVRKEVWYKPD-LSLYSDMIL  136 (250)
Q Consensus        61 ~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~-~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~  136 (250)
                      .....+...+...|++++|...+++.....-. +... .+...+... |++++|...|+.+.+ .+..|+ ...|..+..
T Consensus        43 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~  121 (225)
T 2vq2_A           43 LAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGI  121 (225)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHH
Confidence            34445577888999999999999998765422 2222 577888899 999999999999975 333343 678899999


Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 025612          137 MLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEEL  216 (250)
Q Consensus       137 ~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~  216 (250)
                      .|...|++++|...|++..+.. +.+...|..+...|.+.|++++|..++++..+..-..+...+..+...+...|+.+.
T Consensus       122 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  200 (225)
T 2vq2_A          122 CSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQA  200 (225)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHH
Confidence            9999999999999999987752 235788999999999999999999999998775322477788888899999999999


Q ss_pred             HHHHHHHHHhcc
Q 025612          217 VAAVRRDCIQYV  228 (250)
Q Consensus       217 a~~~~~~m~~~g  228 (250)
                      +..+++.+.+..
T Consensus       201 a~~~~~~~~~~~  212 (225)
T 2vq2_A          201 AYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhC
Confidence            999999987643

>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=99.16  E-value=8.3e-09  Score=76.80  Aligned_cols=160  Identities=9%  Similarity=0.003  Sum_probs=132.3

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcC
Q 025612           64 IQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKN  141 (250)
Q Consensus        64 ~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~  141 (250)
                      ..+...+...|++++|...+++..+..-. +... .+...+...|++++|...++...+.  .+.+...|..+...|...
T Consensus        12 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~   89 (186)
T 3as5_A           12 RDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTYVQV   89 (186)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHh
Confidence            34567778889999999999987654221 2222 5778888999999999999998753  234688899999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 025612          142 KQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVR  221 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~  221 (250)
                      |++++|.+.|++.... .+.+...|..+...|...|++++|.+.+++..+.. ..+...+..+...+...|++++|.+.+
T Consensus        90 ~~~~~A~~~~~~~~~~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~  167 (186)
T 3as5_A           90 QKYDLAVPLLIKVAEA-NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHF  167 (186)
T ss_dssp             TCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhc-CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999998765 23477889999999999999999999999987753 346789999999999999999999999


Q ss_pred             HHHHhc
Q 025612          222 RDCIQY  227 (250)
Q Consensus       222 ~~m~~~  227 (250)
                      +...+.
T Consensus       168 ~~~~~~  173 (186)
T 3as5_A          168 KKANEL  173 (186)
T ss_dssp             HHHHHH
T ss_pred             HHHHHc
Confidence            998754

>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=99.15  E-value=1.1e-08  Score=87.58  Aligned_cols=164  Identities=15%  Similarity=0.075  Sum_probs=134.4

Q ss_pred             cHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-H---HHHHH
Q 025612           60 SSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPD-L---SLYSD  133 (250)
Q Consensus        60 ~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~---~~y~~  133 (250)
                      ......+...+...|++++|...|+++.+.+-. +... .+...+.+.|++++|.+.|+.+.+   ..|+ .   ..+..
T Consensus        60 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~~~~~  136 (450)
T 2y4t_A           60 YIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLK---SNPSENEEKEAQSQ  136 (450)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCCChhhHHHHHH
Confidence            344455688888999999999999999875422 2222 688899999999999999999974   2444 3   56666


Q ss_pred             HHHH------------HHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHH
Q 025612          134 MILM------------LGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTF  201 (250)
Q Consensus       134 li~~------------~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty  201 (250)
                      +...            |.+.|++++|...|+++.+. .+.+..++..+...|.+.|++++|.++|+++.+.. ..+..+|
T Consensus       137 l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~  214 (450)
T 2y4t_A          137 LIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEV-CVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAF  214 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHH
Confidence            6444            88999999999999999874 23478899999999999999999999999997752 3468999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          202 TILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      ..+...|...|++++|.+.++.+.+..
T Consensus       215 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  241 (450)
T 2y4t_A          215 YKISTLYYQLGDHELSLSEVRECLKLD  241 (450)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999999999999999999999998653

>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=3.8e-11  Score=102.56  Aligned_cols=175  Identities=11%  Similarity=0.066  Sum_probs=61.3

Q ss_pred             CCCCCCcCCCCCCCccceeeeeccccCCCccccccCCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH-HHHH
Q 025612           22 FHQRPQISLPSGKKIQALTVTCGLRDANKKPMWRSRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL-DTLT  100 (250)
Q Consensus        22 f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~  100 (250)
                      +++.+.+  ..|..+.......+....+-....+..- ......++.++...|++++|...++...+..-.|.+. .++.
T Consensus        26 ae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika~D-~~~y~~V~~~ae~~g~~EeAi~yl~~ark~~~~~~i~~~Li~  102 (449)
T 1b89_A           26 AERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKADD-PSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIF  102 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcCCC-HHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCccchhHHHHHH
Confidence            4444333  4787777777777777666554444332 2255567888888899999999777665532222333 5888


Q ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChH
Q 025612          101 ELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMID  180 (250)
Q Consensus       101 ~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~  180 (250)
                      +|.+.|+++++.++++        .|+..+|+.+-..|...|++++|...|..+         ..|..+..++++.|+++
T Consensus       103 ~Y~Klg~l~e~e~f~~--------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq  165 (449)
T 1b89_A          103 ALAKTNRLAELEEFIN--------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQ  165 (449)
T ss_dssp             ------CHHHHTTTTT--------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHH
T ss_pred             HHHHhCCHHHHHHHHc--------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHH
Confidence            8899999888887774        256668888888888888888888888876         37888888888888888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 025612          181 KAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRR  222 (250)
Q Consensus       181 ~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~  222 (250)
                      +|.+.++.+      -++.||..++.+|...|+++.|.....
T Consensus       166 ~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l  201 (449)
T 1b89_A          166 AAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGL  201 (449)
T ss_dssp             HHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTT
T ss_pred             HHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHH
Confidence            888888877      267888888888888888888855443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.13  E-value=4.4e-08  Score=76.14  Aligned_cols=161  Identities=11%  Similarity=-0.029  Sum_probs=131.2

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      ....+-..+.+.|++++|...|++..+..-. +... .+-..+.+.|++++|...|+...+. . +-+...|..+-..|.
T Consensus         7 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~-~-P~~~~a~~~lg~~~~   84 (217)
T 2pl2_A            7 NPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVAR-T-PRYLGGYMVLSEAYV   84 (217)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-C-CCcHHHHHHHHHHHH
Confidence            4445567788899999999999998754321 2222 5777788999999999999998753 2 235778888889999


Q ss_pred             cC-----------CCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 025612          140 KN-----------KQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRN  207 (250)
Q Consensus       140 ~~-----------~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~  207 (250)
                      +.           |++++|...|++..+.  .| +...|..+-..|...|++++|...|++..+..  .+...+..+-.+
T Consensus        85 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~  160 (217)
T 2pl2_A           85 ALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAEL  160 (217)
T ss_dssp             HHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHH
T ss_pred             HhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHH
Confidence            99           9999999999988764  34 57788888899999999999999999988876  788899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhcc
Q 025612          208 LENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       208 ~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      |...|++++|.+.++...+..
T Consensus       161 ~~~~g~~~~A~~~~~~al~~~  181 (217)
T 2pl2_A          161 YLSMGRLDEALAQYAKALEQA  181 (217)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHcCCHHHHHHHHHHHHHhC
Confidence            999999999999999987754

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.13  E-value=2.7e-08  Score=82.86  Aligned_cols=163  Identities=10%  Similarity=0.002  Sum_probs=124.2

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK  140 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~  140 (250)
                      .+.....+.+.|++++|..+|+++.+..-. +... .+...+.+.|++++|...|++..+. . +.+..+|..+...|.+
T Consensus        68 ~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~-p~~~~~~~~l~~~~~~  145 (365)
T 4eqf_A           68 AFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLEL-Q-PNNLKALMALAVSYTN  145 (365)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-C-CCCHHHHHHHHHHHHc
Confidence            555677788889999999999988764321 1222 5777888889999999999988753 1 3357788888888888


Q ss_pred             CCCHHHHHHHHHHHHhCC------------------------------------------CCC---CHHHHHHHHHHHHh
Q 025612          141 NKQIAMAEELFCELKKEG------------------------------------------LDP---DTRVYTEMIGVYLQ  175 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~~g------------------------------------------~~p---~~~ty~~li~~~~~  175 (250)
                      .|++++|...|+++.+..                                          ..|   +..+|..+...|.+
T Consensus       146 ~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~  225 (365)
T 4eqf_A          146 TSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHL  225 (365)
T ss_dssp             TTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHH
Confidence            888888888888765421                                          012   57788888888888


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          176 VGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       176 ~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      .|++++|.+.|++..+.. ..+..+|..+..+|.+.|++++|.+.++...+..
T Consensus       226 ~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  277 (365)
T 4eqf_A          226 SGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ  277 (365)
T ss_dssp             HTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            999999999998887642 2357888888899999999999999988887653

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.11  E-value=5.8e-09  Score=86.96  Aligned_cols=169  Identities=9%  Similarity=-0.079  Sum_probs=128.7

Q ss_pred             CCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHH--------------
Q 025612           57 RVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRK--------------  120 (250)
Q Consensus        57 ~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~--------------  120 (250)
                      +........+...+...|++++|...|++..+..-. +... .+...+.+.|++++|...|+.+.+              
T Consensus        96 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~  175 (365)
T 4eqf_A           96 PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKG  175 (365)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC------
T ss_pred             cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhcc
Confidence            334444555677778888888888888887754321 1121 466666677777777776666542              


Q ss_pred             ------------------------------hCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 025612          121 ------------------------------EVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMI  170 (250)
Q Consensus       121 ------------------------------~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li  170 (250)
                                                    ...-.++..+|..+...|.+.|++++|.+.|++..+.. +.+..+|+.+.
T Consensus       176 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  254 (365)
T 4eqf_A          176 SPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLG  254 (365)
T ss_dssp             -------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             chHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence                                          11111168899999999999999999999999987752 34688999999


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          171 GVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       171 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      ..|.+.|++++|...|++..+.. ..+..+|..+..+|.+.|++++|.+.++...+.
T Consensus       255 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  310 (365)
T 4eqf_A          255 ATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVSNFLTALSL  310 (365)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999999999999999988752 224788999999999999999999999998764

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.09  E-value=1.5e-08  Score=82.61  Aligned_cols=157  Identities=13%  Similarity=0.100  Sum_probs=123.9

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHH---HHHHHHHH
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSL---YSDMILML  138 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~---y~~li~~~  138 (250)
                      .+.+-..+...|++++|++.+++    +..++.. .+...+.+.|++++|.+.|+.+.+.   .|+...   ....+..+
T Consensus       104 ~~~la~~~~~~g~~~~Al~~l~~----~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~l~~a~~~l~  176 (291)
T 3mkr_A          104 LLMAASIYFYDQNPDAALRTLHQ----GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ---DEDATLTQLATAWVSLA  176 (291)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHTT----CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHhC----CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh---CcCcHHHHHHHHHHHHH
Confidence            33446788899999999999997    2222333 5788899999999999999999763   355321   23344555


Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH-H
Q 025612          139 GKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEEL-V  217 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~-a  217 (250)
                      ...|++++|..+|+++.+. .+.+...|+.+..+|.+.|++++|...|++..+.. .-+..++..+...+...|+.++ +
T Consensus       177 ~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa  254 (291)
T 3mkr_A          177 AGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVT  254 (291)
T ss_dssp             HCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHH
T ss_pred             hCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHH
Confidence            6679999999999999886 45688999999999999999999999999987742 2367889999999999999865 6


Q ss_pred             HHHHHHHHhcc
Q 025612          218 AAVRRDCIQYV  228 (250)
Q Consensus       218 ~~~~~~m~~~g  228 (250)
                      .++++.+.+..
T Consensus       255 ~~~~~~~~~~~  265 (291)
T 3mkr_A          255 NRYLSQLKDAH  265 (291)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHhC
Confidence            78888877544

>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=99.08  E-value=5.3e-08  Score=79.34  Aligned_cols=163  Identities=11%  Similarity=0.015  Sum_probs=95.1

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      ....+...+...|++++|...+++..+..-. +... .+...+...|++++|.+.|+...+ . .+.+...+..+...|.
T Consensus       127 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~-~-~~~~~~~~~~l~~~~~  204 (330)
T 3hym_B          127 AWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALS-I-APEDPFVMHEVGVVAF  204 (330)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHT-T-CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHH-h-CCCChHHHHHHHHHHH
Confidence            3344455566666666666666666543321 1111 355556666666666666666643 1 1334566666666666


Q ss_pred             cCCCHHHHHHHHHHHHhCC--------CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 025612          140 KNKQIAMAEELFCELKKEG--------LDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENA  211 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~g--------~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~  211 (250)
                      +.|++++|...|++..+..        ...+..+|..+...|.+.|++++|...|++..+.. ..+...|..+-..|.+.
T Consensus       205 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~  283 (330)
T 3hym_B          205 QNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLM  283 (330)
T ss_dssp             HTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHH
T ss_pred             HcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHh
Confidence            7777777766666654421        12234566666666667777777777776665532 12445666666666677


Q ss_pred             CCHHHHHHHHHHHHhc
Q 025612          212 GEEELVAAVRRDCIQY  227 (250)
Q Consensus       212 g~~~~a~~~~~~m~~~  227 (250)
                      |++++|.+.+++..+.
T Consensus       284 g~~~~A~~~~~~al~~  299 (330)
T 3hym_B          284 GNFENAVDYFHTALGL  299 (330)
T ss_dssp             TCHHHHHHHHHTTTTT
T ss_pred             ccHHHHHHHHHHHHcc
Confidence            7777777766666544

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.08  E-value=1.4e-08  Score=79.29  Aligned_cols=164  Identities=13%  Similarity=0.005  Sum_probs=122.2

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      ..+.+...+...|++++|..+|++..+..-. +... .+...+.+.|++++|...|+...+. . +.+...|..+...|.
T Consensus        25 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~la~~~~  102 (243)
T 2q7f_A           25 TGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALEL-D-SSAATAYYGAGNVYV  102 (243)
T ss_dssp             -----------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-C-CcchHHHHHHHHHHH
Confidence            3444566778889999999999998764322 2222 5777888999999999999998753 2 346888999999999


Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 025612          140 KNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAA  219 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~  219 (250)
                      ..|++++|.+.|++..+.. +.+...|..+...|.+.|++++|...+++..+.. ..+...+..+...+.+.|++++|.+
T Consensus       103 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  180 (243)
T 2q7f_A          103 VKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALS  180 (243)
T ss_dssp             HTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999987753 3467889999999999999999999999987753 2367889999999999999999999


Q ss_pred             HHHHHHhccC
Q 025612          220 VRRDCIQYVE  229 (250)
Q Consensus       220 ~~~~m~~~g~  229 (250)
                      .++...+..-
T Consensus       181 ~~~~~~~~~~  190 (243)
T 2q7f_A          181 QFAAVTEQDP  190 (243)
T ss_dssp             HHHHHHHHCT
T ss_pred             HHHHHHHhCc
Confidence            9999887643

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.07  E-value=4.9e-08  Score=76.66  Aligned_cols=161  Identities=9%  Similarity=-0.011  Sum_probs=89.6

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhc--Cccc------HH-HHHHHHHHcCCHHHHHHHHHHHHHhCC------------
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRL--LKAD------LL-DTLTELRRQNELDLALKVFNFVRKEVW------------  123 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~--~~~~------~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g------------  123 (250)
                      .+...+...|++++|...+++..+..  ..++      .. .+-..+.+.|++++|...|+...+...            
T Consensus        43 ~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  122 (258)
T 3uq3_A           43 NRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAE  122 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHH
Confidence            34555556666666666666655322  1111      11 355555666666666666666543110            


Q ss_pred             -----------CCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 025612          124 -----------YKP-DLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       124 -----------~~~-~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  191 (250)
                                 ..| +...|..+...|...|++++|...|++..+.. +.+..+|..+...|.+.|++++|...|++..+
T Consensus       123 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  201 (258)
T 3uq3_A          123 KELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIE  201 (258)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence                       111 23445555666666666666666666655431 22455666666666666666666666666655


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          192 SGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       192 ~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      .. ..+...|..+-..+...|++++|.+.++...+.
T Consensus       202 ~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          202 KD-PNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            32 223556666666666666666666666665543

>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=99.07  E-value=4.1e-08  Score=81.56  Aligned_cols=169  Identities=7%  Similarity=-0.056  Sum_probs=126.1

Q ss_pred             CCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCC-----------
Q 025612           57 RVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVW-----------  123 (250)
Q Consensus        57 ~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g-----------  123 (250)
                      +........+...+...|++++|...|++..+..-. +... .+...+...|++++|...|+.+.+...           
T Consensus        95 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  174 (368)
T 1fch_A           95 PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEE  174 (368)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC----
T ss_pred             CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHH
Confidence            333444555677788889999999999888765321 2222 466667777777777777776543110           


Q ss_pred             -----------------------------------CCC---CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHH
Q 025612          124 -----------------------------------YKP---DLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRV  165 (250)
Q Consensus       124 -----------------------------------~~~---~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t  165 (250)
                                                         ..|   +..+|..+...|.+.|++++|...|++..... +.+..+
T Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~  253 (368)
T 1fch_A          175 GAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLL  253 (368)
T ss_dssp             -----------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHH
Confidence                                               012   47888899999999999999999999887642 335788


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          166 YTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       166 y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      |..+...|.+.|++++|...|++..+.. ..+...+..+...|.+.|++++|.+.++...+.
T Consensus       254 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          254 WNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999987742 235788999999999999999999999888754

>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=2.1e-07  Score=77.18  Aligned_cols=164  Identities=13%  Similarity=0.074  Sum_probs=130.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      ..+.+...+...|++++|...|+++.+..-. +... .+...+.+.|++++|...|+...+. . +.+..+|..+...|.
T Consensus        66 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~-~~~~~~~~~l~~~~~  143 (368)
T 1fch_A           66 QPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLEL-K-PDNQTALMALAVSFT  143 (368)
T ss_dssp             SHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhc-C-CCCHHHHHHHHHHHH
Confidence            3455678889999999999999999865321 1222 5788889999999999999998753 2 347889999999999


Q ss_pred             cCCCHHHHHHHHHHHHhCCC-----------------------------------------------CC---CHHHHHHH
Q 025612          140 KNKQIAMAEELFCELKKEGL-----------------------------------------------DP---DTRVYTEM  169 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~g~-----------------------------------------------~p---~~~ty~~l  169 (250)
                      ..|++++|.+.|+++....-                                               .|   +..+|..+
T Consensus       144 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l  223 (368)
T 1fch_A          144 NESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGL  223 (368)
T ss_dssp             HTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHH
Confidence            99999999999988765321                                               12   47788888


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          170 IGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       170 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      ...|.+.|++++|...|++..+.. ..+..+|..+...|.+.|++++|.+.++...+..
T Consensus       224 ~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  281 (368)
T 1fch_A          224 GVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ  281 (368)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            889999999999999998887642 2356788888999999999999999998887653

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.06  E-value=1.2e-07  Score=71.04  Aligned_cols=161  Identities=10%  Similarity=-0.036  Sum_probs=131.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcC-cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLL-KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK  140 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~-~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~  140 (250)
                      ...+-..+.+.|++++|...|++..+..- .++.. .+-.++.+.|++++|...+....+. . .-+...+..+-..+..
T Consensus         8 y~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~~~~~~~   85 (184)
T 3vtx_A            8 YMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL-D-TTSAEAYYILGSANFM   85 (184)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-CCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-C-chhHHHHHHHHHHHHH
Confidence            44567778889999999999999876431 12222 5778888999999999999998653 2 3357778888889999


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 025612          141 NKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAV  220 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~  220 (250)
                      .++++.|...+.+.... .+-+...+..+-..|.+.|++++|.+.|++..+.. .-+..+|..+-.+|.+.|++++|.+.
T Consensus        86 ~~~~~~a~~~~~~a~~~-~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~  163 (184)
T 3vtx_A           86 IDEKQAAIDALQRAIAL-NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEAVKY  163 (184)
T ss_dssp             TTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh-CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHHHHH
Confidence            99999999999987764 23367888999999999999999999999988753 23678899999999999999999999


Q ss_pred             HHHHHhc
Q 025612          221 RRDCIQY  227 (250)
Q Consensus       221 ~~~m~~~  227 (250)
                      |++..+.
T Consensus       164 ~~~al~~  170 (184)
T 3vtx_A          164 FKKALEK  170 (184)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhC
Confidence            9998764

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.05  E-value=9.9e-08  Score=74.88  Aligned_cols=168  Identities=11%  Similarity=0.013  Sum_probs=137.3

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCCC----HHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL-DTLTELRRQNELDLALKVFNFVRKEV-WYKPD----LSLYSDMI  135 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~-g~~~~----~~~y~~li  135 (250)
                      ....+-..+...|++++|...|++..+....+... .+-.++...|++++|.+.|+...+.. ...++    ..+|..+.
T Consensus         7 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~   86 (258)
T 3uq3_A            7 KEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIG   86 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHH
Confidence            34455777888999999999999987655667766 68888999999999999999976421 11122    58899999


Q ss_pred             HHHHcCCCHHHHHHHHHHHHhCC------------------------CCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 025612          136 LMLGKNKQIAMAEELFCELKKEG------------------------LDP-DTRVYTEMIGVYLQVGMIDKAMETYETMK  190 (250)
Q Consensus       136 ~~~~~~~~~~~A~~~~~~m~~~g------------------------~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~  190 (250)
                      ..|.+.|++++|.+.|++.....                        ..| +...|..+...|...|++++|...|++..
T Consensus        87 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~  166 (258)
T 3uq3_A           87 NAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMI  166 (258)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            99999999999999999987731                        233 45678888999999999999999999988


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 025612          191 ASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       191 ~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      +.. ..+..+|..+...|.+.|++++|.+.++...+..-.
T Consensus       167 ~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~  205 (258)
T 3uq3_A          167 KRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN  205 (258)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             hcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHH
Confidence            753 336788999999999999999999999999876533

>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=99.03  E-value=1.2e-07  Score=77.26  Aligned_cols=163  Identities=11%  Similarity=-0.031  Sum_probs=98.7

Q ss_pred             HHHHHHHHHhcC-ChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           63 AIQAVHAMKLAK-SSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        63 ~~~ll~~~~~~~-~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      ...+...+...| ++++|...|++..+..-. +... .+...+...|++++|.+.|+...+. . +.+...+..+...|.
T Consensus        93 ~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-~-~~~~~~~~~l~~~~~  170 (330)
T 3hym_B           93 WFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQL-M-KGCHLPMLYIGLEYG  170 (330)
T ss_dssp             HHHHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-T-TTCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-c-cccHHHHHHHHHHHH
Confidence            333455555566 666666666666543211 1111 4556666667777777777766542 1 123445555666677


Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC--------CCCCHHHHHHHHHHHHhc
Q 025612          140 KNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASG--------CTPHKLTFTILIRNLENA  211 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g--------~~p~~~ty~~li~~~~~~  211 (250)
                      ..|++++|.+.|++..+.. +.+...|..+...|...|++++|...|++..+..        ...+..+|..+...|...
T Consensus       171 ~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~  249 (330)
T 3hym_B          171 LTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKL  249 (330)
T ss_dssp             HTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHT
T ss_pred             HHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHh
Confidence            7777777777777665542 3345667777777777777777777777665421        122345677777777777


Q ss_pred             CCHHHHHHHHHHHHhcc
Q 025612          212 GEEELVAAVRRDCIQYV  228 (250)
Q Consensus       212 g~~~~a~~~~~~m~~~g  228 (250)
                      |++++|.+.++...+..
T Consensus       250 g~~~~A~~~~~~a~~~~  266 (330)
T 3hym_B          250 KKYAEALDYHRQALVLI  266 (330)
T ss_dssp             TCHHHHHHHHHHHHHHS
T ss_pred             cCHHHHHHHHHHHHhhC
Confidence            77777777777766543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.03  E-value=3.5e-08  Score=76.69  Aligned_cols=162  Identities=13%  Similarity=0.010  Sum_probs=119.3

Q ss_pred             CcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHc-----------CCHHHHHHHHHHHHHhCCCC
Q 025612           59 LSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQ-----------NELDLALKVFNFVRKEVWYK  125 (250)
Q Consensus        59 ~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~-----------~~~~~a~~~~~~m~~~~g~~  125 (250)
                      .......+-..+.+.|++++|...+++..+..-. +... .+-..+.+.           |++++|...|+...+.   .
T Consensus        38 ~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~  114 (217)
T 2pl2_A           38 DPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERV---N  114 (217)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH---C
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh---C
Confidence            3344445677788899999999999998764321 1222 466677788           9999999999998753   3


Q ss_pred             C-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 025612          126 P-DLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTIL  204 (250)
Q Consensus       126 ~-~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~l  204 (250)
                      | +...|..+-..|...|++++|...|++..+..  .+...|..+-..|...|++++|...|++..+.. .-+...+..+
T Consensus       115 P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~l  191 (217)
T 2pl2_A          115 PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRY  191 (217)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHH
Confidence            4 57889999999999999999999999998876  788999999999999999999999999988742 2266888899


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh
Q 025612          205 IRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       205 i~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      ...+.+.|++++|.+.++....
T Consensus       192 a~~~~~~g~~~~A~~~~~~~~~  213 (217)
T 2pl2_A          192 ASALLLKGKAEEAARAAALEHH  213 (217)
T ss_dssp             HHHHTC----------------
T ss_pred             HHHHHHccCHHHHHHHHHHHhh
Confidence            9999999999999999887654

>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=99.00  E-value=3.8e-08  Score=69.02  Aligned_cols=126  Identities=11%  Similarity=0.081  Sum_probs=86.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  177 (250)
                      +...+...|++++|..+|+.+.+. . +.+...|..+...+...|++++|...|+++...+ +.+...|..+...|...|
T Consensus         7 l~~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~   83 (136)
T 2fo7_A            7 LGNAYYKQGDYDEAIEYYQKALEL-D-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQG   83 (136)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHcCcHHHHHHHHHHHHHc-C-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHhc
Confidence            445566777777777777776542 2 2356667777777777777788877777776542 335666777777777778


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          178 MIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       178 ~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      ++++|.++++++.+.. ..+..++..+...+.+.|++++|.+.++++.+.
T Consensus        84 ~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           84 DYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            8888888877776643 235667777777777888888888877776643

>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=98.99  E-value=6.9e-07  Score=72.53  Aligned_cols=160  Identities=9%  Similarity=-0.002  Sum_probs=89.4

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCC
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQ  143 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~  143 (250)
                      ....+...|++++|..+|+++.+..-. +... .+...+.+.|++++|.+.|+...+. . +.+..+|..+...|...|+
T Consensus        27 ~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-~-~~~~~~~~~la~~~~~~~~  104 (327)
T 3cv0_A           27 EGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARML-D-PKDIAVHAALAVSHTNEHN  104 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-C-cCCHHHHHHHHHHHHHcCC
Confidence            344455556666666666555443211 1111 3444555555566666555555432 1 2234555555555555555


Q ss_pred             HHHHHHHHHHHHhC-------------------------C-----------------------CCCCHHHHHHHHHHHHh
Q 025612          144 IAMAEELFCELKKE-------------------------G-----------------------LDPDTRVYTEMIGVYLQ  175 (250)
Q Consensus       144 ~~~A~~~~~~m~~~-------------------------g-----------------------~~p~~~ty~~li~~~~~  175 (250)
                      +++|.+.|++....                         |                       .+.+...+..+...|.+
T Consensus       105 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~  184 (327)
T 3cv0_A          105 ANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHASLGVLYNL  184 (327)
T ss_dssp             HHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHH
Confidence            55555555544321                         0                       01245566667777777


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          176 VGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       176 ~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      .|++++|.+.+++..+.. ..+..+|..+...+.+.|++++|.+.++...+..
T Consensus       185 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  236 (327)
T 3cv0_A          185 SNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN  236 (327)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            777777777777766542 2245667777777777777777777777766543

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.98  E-value=3.8e-08  Score=79.51  Aligned_cols=162  Identities=9%  Similarity=0.063  Sum_probs=125.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHh------cCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhC-----CCCC-CH
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICR------LLKADLL----DTLTELRRQNELDLALKVFNFVRKEV-----WYKP-DL  128 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~------~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~-----g~~~-~~  128 (250)
                      .+...+...|++++|...+++....      +..|...    .+-..+...|++++|...|++..+..     +-.| ..
T Consensus        74 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~  153 (311)
T 3nf1_A           74 ILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVA  153 (311)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHH
Confidence            4567777889999999999998754      2233332    47778889999999999999976421     2222 35


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC---------
Q 025612          129 SLYSDMILMLGKNKQIAMAEELFCELKKE------GLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKAS---------  192 (250)
Q Consensus       129 ~~y~~li~~~~~~~~~~~A~~~~~~m~~~------g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~---------  192 (250)
                      ..+..+-..|...|++++|.+.|++....      +-.| ...++..+...|...|++++|.+.|++..+.         
T Consensus       154 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  233 (311)
T 3nf1_A          154 KQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSV  233 (311)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCC
Confidence            67888999999999999999999988653      2233 3457888999999999999999999988752         


Q ss_pred             ---------------------------------------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          193 ---------------------------------------GCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       193 ---------------------------------------g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                                                             .-..+..++..+..+|.+.|++++|.+.+++..+
T Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          234 DDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ----CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                                                   1122446788899999999999999999988764

>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=98.98  E-value=3.6e-08  Score=78.33  Aligned_cols=164  Identities=10%  Similarity=0.044  Sum_probs=126.5

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHh------cCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhC-----C-CCC
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICR------LLKADLL----DTLTELRRQNELDLALKVFNFVRKEV-----W-YKP  126 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~------~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~-----g-~~~  126 (250)
                      ...+...+...|++++|...+++..+.      +..|...    .+-..+...|++++|...|.+..+..     . -..
T Consensus        46 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  125 (283)
T 3edt_B           46 LNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPD  125 (283)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChH
Confidence            334577778889999999999998754      2334333    47778889999999999999876421     1 122


Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC------C
Q 025612          127 DLSLYSDMILMLGKNKQIAMAEELFCELKKE------GLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKAS------G  193 (250)
Q Consensus       127 ~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~------g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~------g  193 (250)
                      ...+|..+-..|...|++++|...|++....      +-.| ...++..+...|.+.|++++|..+|++..+.      +
T Consensus       126 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~  205 (283)
T 3edt_B          126 VAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFG  205 (283)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCC
Confidence            3678889999999999999999999987653      1123 3567889999999999999999999987652      0


Q ss_pred             -----------------------------------------CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          194 -----------------------------------------CTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       194 -----------------------------------------~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                                                               ..| ...++..+...|...|++++|.+++++..+
T Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          206 SVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             SCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                                                     112 335788899999999999999999988764

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.96  E-value=5.8e-08  Score=78.44  Aligned_cols=165  Identities=12%  Similarity=0.008  Sum_probs=128.1

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhc------CcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhC-----C-CCC
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRL------LKADLL----DTLTELRRQNELDLALKVFNFVRKEV-----W-YKP  126 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~------~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~-----g-~~~  126 (250)
                      ...+...+...|++++|..++++..+..      ..|...    .+-..+...|++++|...|+...+..     + ...
T Consensus        30 ~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  109 (311)
T 3nf1_A           30 LHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPA  109 (311)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChH
Confidence            3345777888999999999999987531      122222    47778889999999999999876421     1 122


Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC------C
Q 025612          127 DLSLYSDMILMLGKNKQIAMAEELFCELKKE------GLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKAS------G  193 (250)
Q Consensus       127 ~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~------g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~------g  193 (250)
                      ...+|..+...|...|++++|.+.|++..+.      +-.| ....|..+...|...|++++|.++|++..+.      +
T Consensus       110 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~  189 (311)
T 3nf1_A          110 VAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGP  189 (311)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCT
T ss_pred             HHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCC
Confidence            4678899999999999999999999987653      2222 4566888899999999999999999998664      2


Q ss_pred             CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          194 CTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       194 ~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      -.| ...++..+...|...|++++|.+.+++..+.
T Consensus       190 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  224 (311)
T 3nf1_A          190 DDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTR  224 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            233 3467888999999999999999999998763

>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=98.95  E-value=7.4e-07  Score=71.16  Aligned_cols=153  Identities=9%  Similarity=-0.083  Sum_probs=88.3

Q ss_pred             HHHHHHh----cCChhHHHHHHHHHHHhcCcccHHHHHHHHHH----cCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 025612           66 AVHAMKL----AKSSSKLEEGFQSRICRLLKADLLDTLTELRR----QNELDLALKVFNFVRKEVWYKPDLSLYSDMILM  137 (250)
Q Consensus        66 ll~~~~~----~~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~  137 (250)
                      +-..+..    .+++++|...|++..+.+.......+-..+..    .+++++|...|+...+ .+   +...+..+-..
T Consensus        44 lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~  119 (273)
T 1ouv_A           44 LGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACD-LK---YAEGCASLGGI  119 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHH
T ss_pred             HHHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHH-cC---CccHHHHHHHH
Confidence            3444445    56666666666666555422222234444555    6666666666666553 22   45556666666


Q ss_pred             HHc----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 025612          138 LGK----NKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQ----VGMIDKAMETYETMKASGCTPHKLTFTILIRNLE  209 (250)
Q Consensus       138 ~~~----~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~  209 (250)
                      |..    .+++++|.+.|++..+.+   +...+..+-..|..    .+++++|...|++..+.+   +...+..+-..|.
T Consensus       120 ~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~  193 (273)
T 1ouv_A          120 YHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYH  193 (273)
T ss_dssp             HHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             HHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH
Confidence            666    666666666666665544   45555555555555    666666666666665543   3455556666666


Q ss_pred             h----cCCHHHHHHHHHHHHhcc
Q 025612          210 N----AGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       210 ~----~g~~~~a~~~~~~m~~~g  228 (250)
                      .    .+++++|.+.++...+.+
T Consensus       194 ~g~~~~~~~~~A~~~~~~a~~~~  216 (273)
T 1ouv_A          194 HGEGATKNFKEALARYSKACELE  216 (273)
T ss_dssp             HTCSSCCCHHHHHHHHHHHHHTT
T ss_pred             cCCCCCccHHHHHHHHHHHHhCC
Confidence            6    666666666666666554

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=98.94  E-value=3.3e-10  Score=96.77  Aligned_cols=141  Identities=16%  Similarity=0.165  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcC
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKN  141 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~  141 (250)
                      .+..+..++.+.|++++|.+.|.+.   ........++.++...|++++|...++..++ .  .+++.+.+.|+.+|.+.
T Consensus        34 vWs~La~A~l~~g~~~eAIdsfika---~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark-~--~~~~~i~~~Li~~Y~Kl  107 (449)
T 1b89_A           34 VWSQLAKAQLQKGMVKEAIDSYIKA---DDPSSYMEVVQAANTSGNWEELVKYLQMARK-K--ARESYVETELIFALAKT  107 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHcC---CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH-h--CccchhHHHHHHHHHHh
Confidence            3445699999999999999999753   2222333688999999999999998887764 2  45678999999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 025612          142 KQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVR  221 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~  221 (250)
                      |+++++.++++       .|+..+|+.+...|...|.+++|..+|..+         ..|..+..++.+.|+++.|.+.+
T Consensus       108 g~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~  171 (449)
T 1b89_A          108 NRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGA  171 (449)
T ss_dssp             -CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHH
T ss_pred             CCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHH
Confidence            99999998885       378889999999999999999999999977         48999999999999999999999


Q ss_pred             HHH
Q 025612          222 RDC  224 (250)
Q Consensus       222 ~~m  224 (250)
                      ..+
T Consensus       172 ~KA  174 (449)
T 1b89_A          172 RKA  174 (449)
T ss_dssp             HHH
T ss_pred             HHc
Confidence            988

>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=98.93  E-value=1.3e-07  Score=76.97  Aligned_cols=167  Identities=8%  Similarity=-0.047  Sum_probs=121.7

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhC----------------
Q 025612           61 SEAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEV----------------  122 (250)
Q Consensus        61 ~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~----------------  122 (250)
                      .....+...+...|++++|...+++..+..-. +... .+...+...|++++|.+.|+...+..                
T Consensus        56 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  135 (327)
T 3cv0_A           56 EAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVD  135 (327)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC----------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHH
Confidence            33344466666777777777777777654211 1111 35555556666666665555543210                


Q ss_pred             --------C-----------------------CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 025612          123 --------W-----------------------YKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIG  171 (250)
Q Consensus       123 --------g-----------------------~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~  171 (250)
                              +                       .+.+...+..+...|.+.|++++|.+.|++..+.. +.+..+|..+..
T Consensus       136 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  214 (327)
T 3cv0_A          136 IDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGA  214 (327)
T ss_dssp             ----------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence                    0                       12357788899999999999999999999987652 346788999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC
Q 025612          172 VYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVE  229 (250)
Q Consensus       172 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~  229 (250)
                      .|...|++++|...|++..+.. ..+..++..+...|.+.|++++|.+.++...+..-
T Consensus       215 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~  271 (327)
T 3cv0_A          215 TLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQV  271 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            9999999999999999987753 23678899999999999999999999999876543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.93  E-value=9.2e-07  Score=72.58  Aligned_cols=158  Identities=15%  Similarity=0.105  Sum_probs=87.0

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcC-cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC----CHHHHHHH----
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLL-KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKP----DLSLYSDM----  134 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~-~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~----~~~~y~~l----  134 (250)
                      .+...+...|++++|...+++..+..- .+... .+-..+.+.|++++|...|+...+   ..|    +...+..+    
T Consensus        42 ~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~~~l~~~~  118 (359)
T 3ieg_A           42 RRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLK---SNPSEQEEKEAESQLVKAD  118 (359)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCcccChHHHHHHHHHHH
Confidence            344555555666666666666554321 11111 355555566666666666666543   123    23333333    


Q ss_pred             --------HHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 025612          135 --------ILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIR  206 (250)
Q Consensus       135 --------i~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~  206 (250)
                              ...+...|++++|.++|++..+.. +.+...+..+...|...|++++|...+++..+.. ..+..++..+..
T Consensus       119 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~  196 (359)
T 3ieg_A          119 EMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKIST  196 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence                    355556666666666666655431 2345556666666666666666666666665542 234566666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhc
Q 025612          207 NLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       207 ~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      .+...|++++|.+.++...+.
T Consensus       197 ~~~~~~~~~~A~~~~~~a~~~  217 (359)
T 3ieg_A          197 LYYQLGDHELSLSEVRECLKL  217 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhh
Confidence            666666666666666666543

>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=98.90  E-value=2.4e-07  Score=64.82  Aligned_cols=127  Identities=13%  Similarity=0.054  Sum_probs=103.9

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK  140 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~  140 (250)
                      ...+...+...|++++|..+++++.+.... +... .+...+...|++++|...|+.+.+. + +.+...|..+...|..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL-D-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH-C-CCchHHHHHHHHHHHH
Confidence            344577788899999999999998765422 1222 5777888999999999999998753 2 3467889999999999


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 025612          141 NKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS  192 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  192 (250)
                      .|++++|.+.|+++.... +.+..++..+...|.+.|++++|...|+++.+.
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            999999999999987752 346788999999999999999999999998764

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.90  E-value=6.1e-07  Score=73.69  Aligned_cols=162  Identities=10%  Similarity=-0.037  Sum_probs=131.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK  140 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~  140 (250)
                      .+.+...+...|++++|...|++..+..-. +... .+-..+...|++++|...|+...+..  +-+...|..+...|.+
T Consensus         6 ~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~   83 (359)
T 3ieg_A            6 HLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK--MDFTAARLQRGHLLLK   83 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCcchHHHHHHHHHHH
Confidence            445577788999999999999998864322 2222 57788889999999999999987532  2367889999999999


Q ss_pred             CCCHHHHHHHHHHHHhCCCCC----CHHHHHHH------------HHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 025612          141 NKQIAMAEELFCELKKEGLDP----DTRVYTEM------------IGVYLQVGMIDKAMETYETMKASGCTPHKLTFTIL  204 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~~g~~p----~~~ty~~l------------i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~l  204 (250)
                      .|++++|...|++..+.  .|    +...+..+            ...+...|++++|.++|++..+.. ..+...+..+
T Consensus        84 ~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~  160 (359)
T 3ieg_A           84 QGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELR  160 (359)
T ss_dssp             HTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            99999999999998875  45    34444444            578899999999999999988753 3467889999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhccC
Q 025612          205 IRNLENAGEEELVAAVRRDCIQYVE  229 (250)
Q Consensus       205 i~~~~~~g~~~~a~~~~~~m~~~g~  229 (250)
                      ...+...|++++|.+.++...+..-
T Consensus       161 ~~~~~~~~~~~~A~~~~~~~~~~~~  185 (359)
T 3ieg_A          161 AECFIKEGEPRKAISDLKAASKLKS  185 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            9999999999999999999987643

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.88  E-value=1.4e-07  Score=74.88  Aligned_cols=153  Identities=9%  Similarity=-0.023  Sum_probs=64.5

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCH
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQI  144 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~  144 (250)
                      ...+...|++++|...|++..+..-. +... .+-..+...|++++|...|+...+..  +.+...|..+...|.+.|++
T Consensus        50 ~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~la~~~~~~g~~  127 (275)
T 1xnf_A           50 GVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD--PTYNYAHLNRGIALYYGGRD  127 (275)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC--ccccHHHHHHHHHHHHhccH
Confidence            33444445555555555554432211 1111 34444445555555555555544311  11244445555555555555


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 025612          145 AMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDC  224 (250)
Q Consensus       145 ~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m  224 (250)
                      ++|.+.|+++.+.  .|+...+...+..+...|++++|...+++..... .++...+ .+...+...++.+.|.+.+...
T Consensus       128 ~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~  203 (275)
T 1xnf_A          128 KLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKAD  203 (275)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHH
Confidence            5555555554432  2333333333333344455555555554433321 1122222 2344444444445555544444


Q ss_pred             H
Q 025612          225 I  225 (250)
Q Consensus       225 ~  225 (250)
                      .
T Consensus       204 ~  204 (275)
T 1xnf_A          204 A  204 (275)
T ss_dssp             C
T ss_pred             h
Confidence            3

>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=98.88  E-value=2.8e-06  Score=67.77  Aligned_cols=154  Identities=9%  Similarity=-0.043  Sum_probs=102.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcCcccHHHHHHHHHH----cCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRR----QNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK  140 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~  140 (250)
                      .+-..+...|++++|...|++..+.+.......+-..+..    .+++++|...|++..+ .+   +...+..+-..|..
T Consensus        11 ~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~~~~   86 (273)
T 1ouv_A           11 GLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACD-LN---YSNGCHLLGNLYYS   86 (273)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHH-CC---CHHHHHHHHHHHhC
Confidence            3455566667777777777777664333222245555666    7777777777777654 33   56667777777777


Q ss_pred             ----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh--
Q 025612          141 ----NKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQ----VGMIDKAMETYETMKASGCTPHKLTFTILIRNLEN--  210 (250)
Q Consensus       141 ----~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~--  210 (250)
                          .+++++|.+.|++..+.+   +...+..+-..|..    .|++++|...|++..+.+   +...+..+-..|..  
T Consensus        87 g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~  160 (273)
T 1ouv_A           87 GQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGR  160 (273)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTS
T ss_pred             CCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCC
Confidence                777777777777766654   66667777777777    777777777777776654   45566666666666  


Q ss_pred             --cCCHHHHHHHHHHHHhcc
Q 025612          211 --AGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       211 --~g~~~~a~~~~~~m~~~g  228 (250)
                        .+++++|.+.++...+.+
T Consensus       161 ~~~~~~~~A~~~~~~a~~~~  180 (273)
T 1ouv_A          161 GTPKDLKKALASYDKACDLK  180 (273)
T ss_dssp             SSCCCHHHHHHHHHHHHHTT
T ss_pred             CCCCCHHHHHHHHHHHHHCC
Confidence              677777777777766654

>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=98.84  E-value=4.4e-07  Score=82.99  Aligned_cols=155  Identities=13%  Similarity=0.122  Sum_probs=130.5

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHHHHH
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMILM  137 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~~  137 (250)
                      ...+-..+.+.|++++|...|++..+..  |+..    .+-.+|.+.|++++|.+.|++..+.   .| +...|+.+-.+
T Consensus        12 l~nLG~~~~~~G~~~eAi~~~~kAl~l~--P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l---~P~~~~a~~nLg~~   86 (723)
T 4gyw_A           12 LNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI---SPTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHH
Confidence            3345677888999999999999987643  3322    5778888999999999999998753   34 48899999999


Q ss_pred             HHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHH
Q 025612          138 LGKNKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEE  215 (250)
Q Consensus       138 ~~~~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~  215 (250)
                      |.+.|++++|.+.|++..+.  .| +...|+.+-..|.+.|++++|++.|++..+.  .| +...|..+..+|...|+++
T Consensus        87 l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcccHH
Confidence            99999999999999998764  34 5788999999999999999999999998874  45 4688999999999999999


Q ss_pred             HHHHHHHHHHh
Q 025612          216 LVAAVRRDCIQ  226 (250)
Q Consensus       216 ~a~~~~~~m~~  226 (250)
                      +|.+.+++..+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99888877654

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.84  E-value=7.6e-07  Score=70.59  Aligned_cols=162  Identities=12%  Similarity=0.003  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 025612           61 SEAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILML  138 (250)
Q Consensus        61 ~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~  138 (250)
                      .....+...+...|++++|...|++..+..-. +... .+...+.+.|++++|...|+.+.+.   .|+...+...+..+
T Consensus        78 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~  154 (275)
T 1xnf_A           78 EVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLA  154 (275)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh---CCCChHHHHHHHHH
Confidence            33344455666667777777777766653221 2222 4556666677777777777766542   33433444444444


Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC--C-CHHHHHHHHHHHHhcCCHH
Q 025612          139 GKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCT--P-HKLTFTILIRNLENAGEEE  215 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~--p-~~~ty~~li~~~~~~g~~~  215 (250)
                      ...|++++|...|++.... .+++...|. ++..+...++.++|...++........  | +..+|..+...|.+.|+++
T Consensus       155 ~~~~~~~~A~~~~~~~~~~-~~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  232 (275)
T 1xnf_A          155 EQKLDEKQAKEVLKQHFEK-SDKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLD  232 (275)
T ss_dssp             HHHHCHHHHHHHHHHHHHH-SCCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHhcCHHHHHHHHHHHHhc-CCcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHH
Confidence            5556777777777655443 123333333 555555666666666666665443211  0 1356666666777777777


Q ss_pred             HHHHHHHHHHhc
Q 025612          216 LVAAVRRDCIQY  227 (250)
Q Consensus       216 ~a~~~~~~m~~~  227 (250)
                      +|.+.++...+.
T Consensus       233 ~A~~~~~~al~~  244 (275)
T 1xnf_A          233 SATALFKLAVAN  244 (275)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhC
Confidence            777777766654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.83  E-value=4.4e-07  Score=78.97  Aligned_cols=160  Identities=7%  Similarity=-0.035  Sum_probs=133.1

Q ss_pred             HHHHHHHHHhcCCh-hHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           63 AIQAVHAMKLAKSS-SKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        63 ~~~ll~~~~~~~~~-~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      ...+-..+...|++ ++|...|++..+..-. ++.. .+-.+|.+.|++++|.+.|+...+   +.|+...|..+-..|.
T Consensus       105 ~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~lg~~~~  181 (474)
T 4abn_A          105 LMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALT---HCKNKVSLQNLSMVLR  181 (474)
T ss_dssp             HHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT---TCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCHHHHHHHHHHHH
Confidence            33446667788999 9999999998765322 2222 577888899999999999999875   3577889999999999


Q ss_pred             cC---------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc--------CChHHHHHHHHHHHHCCCCC----CH
Q 025612          140 KN---------KQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV--------GMIDKAMETYETMKASGCTP----HK  198 (250)
Q Consensus       140 ~~---------~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~--------g~~~~a~~~~~~m~~~g~~p----~~  198 (250)
                      ..         |++++|.+.|++..+.. +-+...|..+-..|...        |++++|.+.|++..+.  .|    +.
T Consensus       182 ~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~  258 (474)
T 4abn_A          182 QLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKV--DRKASSNP  258 (474)
T ss_dssp             TCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH--CGGGGGCH
T ss_pred             HhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHh--CCCcccCH
Confidence            99         99999999999987742 33578899999999998        9999999999998874  35    78


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          199 LTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       199 ~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      ..|..+-.+|...|++++|.+.|++..+..
T Consensus       259 ~~~~~lg~~~~~~g~~~~A~~~~~~al~l~  288 (474)
T 4abn_A          259 DLHLNRATLHKYEESYGEALEGFSQAAALD  288 (474)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            899999999999999999999999987653

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.83  E-value=5.1e-07  Score=78.14  Aligned_cols=168  Identities=8%  Similarity=-0.064  Sum_probs=125.6

Q ss_pred             cHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 025612           60 SSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILM  137 (250)
Q Consensus        60 ~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~  137 (250)
                      ......+...+...|++++|...+++..+..-. +... .+...+.+.|++++|...|+.+.+..  +.+...|..+...
T Consensus       304 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~  381 (514)
T 2gw1_A          304 SSVYYHRGQMNFILQNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF--PEAPEVPNFFAEI  381 (514)
T ss_dssp             THHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS--TTCSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc--ccCHHHHHHHHHH
Confidence            344445577778888899999988888754322 2222 57777788899999999999886532  2356778888888


Q ss_pred             HHcCCCHHHHHHHHHHHHhCC-CCCC----HHHHHHHHHHHHh---cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 025612          138 LGKNKQIAMAEELFCELKKEG-LDPD----TRVYTEMIGVYLQ---VGMIDKAMETYETMKASGCTPHKLTFTILIRNLE  209 (250)
Q Consensus       138 ~~~~~~~~~A~~~~~~m~~~g-~~p~----~~ty~~li~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~  209 (250)
                      |.+.|++++|...|+++.... -.++    ..+|..+...|..   .|++++|...|+...+.. ..+..++..+...|.
T Consensus       382 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~  460 (514)
T 2gw1_A          382 LTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKL  460 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            999999999999988876531 1122    4478888888888   899999999998887643 235678888889999


Q ss_pred             hcCCHHHHHHHHHHHHhccCC
Q 025612          210 NAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       210 ~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      +.|++++|.+.++...+..-.
T Consensus       461 ~~g~~~~A~~~~~~a~~~~~~  481 (514)
T 2gw1_A          461 QQEDIDEAITLFEESADLART  481 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHHCSS
T ss_pred             HhcCHHHHHHHHHHHHHhccc
Confidence            999999999999888876544

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.81  E-value=9.6e-07  Score=76.40  Aligned_cols=91  Identities=7%  Similarity=-0.163  Sum_probs=66.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH---HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL---DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~---~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      ....-..+.+.|++++|...|+++.+..  |+..   .+..++.+.|++++|...|+.+.+. . +.+...|..+..+|.
T Consensus         9 ~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~-~-p~~~~~~~~l~~~~~   84 (514)
T 2gw1_A            9 LKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALEL-K-PDYSKVLLRRASANE   84 (514)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-C-SCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhcc-C-hHHHHHHHHHHHHHH
Confidence            3444666777788888888888887655  3433   4677777888888888888887642 2 335677888888888


Q ss_pred             cCCCHHHHHHHHHHHHhC
Q 025612          140 KNKQIAMAEELFCELKKE  157 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~  157 (250)
                      +.|++++|...|+++...
T Consensus        85 ~~g~~~~A~~~~~~~~~~  102 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLN  102 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHS
T ss_pred             HHhhHHHHHHHHHHHHhc
Confidence            888888888888877654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.79  E-value=2e-06  Score=70.25  Aligned_cols=163  Identities=12%  Similarity=0.062  Sum_probs=126.9

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-cc-HH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-AD-LL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILML  138 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~-~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~  138 (250)
                      .+......+.+.|++++|..+|++..+..-. ++ .. .+...+.+.|++++|..+|+...+ .. +.+...|.......
T Consensus       101 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~-~~-p~~~~~~~~~a~~~  178 (308)
T 2ond_A          101 LYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARE-DA-RTRHHVYVTAALME  178 (308)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHT-ST-TCCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHh-cC-CCCHHHHHHHHHHH
Confidence            4445577788899999999999999874321 22 22 577778889999999999999875 22 23455555444332


Q ss_pred             -HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCC--CHHHHHHHHHHHHhcCCH
Q 025612          139 -GKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASG-CTP--HKLTFTILIRNLENAGEE  214 (250)
Q Consensus       139 -~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p--~~~ty~~li~~~~~~g~~  214 (250)
                       ...|++++|..+|+...+. .+-+...|..++..+.+.|+.++|..+|++..... +.|  ....|..++....+.|+.
T Consensus       179 ~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~  257 (308)
T 2ond_A          179 YYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDL  257 (308)
T ss_dssp             HHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCH
T ss_pred             HHHcCCHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCH
Confidence             2379999999999988764 12367889999999999999999999999998863 555  467889999999999999


Q ss_pred             HHHHHHHHHHHhc
Q 025612          215 ELVAAVRRDCIQY  227 (250)
Q Consensus       215 ~~a~~~~~~m~~~  227 (250)
                      +.|..+++.+.+.
T Consensus       258 ~~a~~~~~~a~~~  270 (308)
T 2ond_A          258 ASILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998764

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.79  E-value=3e-06  Score=67.13  Aligned_cols=162  Identities=11%  Similarity=-0.009  Sum_probs=121.4

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhcC-ccc-HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHH
Q 025612           64 IQAVHAMKLAKSSSKLEEGFQSRICRLL-KAD-LLDTLTELRRQNELDLALKVFNFVRKEVWYKPD--LSLYSDMILMLG  139 (250)
Q Consensus        64 ~~ll~~~~~~~~~~~a~~l~~~m~~~~~-~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~--~~~y~~li~~~~  139 (250)
                      +.....+...|++++|...|++..+..- .+. ...+...+...|++++|.+.|+...+ ..-.++  ...|..+-..|.
T Consensus         7 ~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~-~~~~~~~~~~~~~~lg~~~~   85 (272)
T 3u4t_A            7 FRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFS-KVNATKAKSADFEYYGKILM   85 (272)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHT-TSCTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh-ccCchhHHHHHHHHHHHHHH
Confidence            3446677888999999999999876432 222 22577788899999999999999875 332222  445888889999


Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 025612          140 KNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAA  219 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~  219 (250)
                      ..|++++|.+.|++..+.. +-+..+|..+...|...|++++|...|++..+.. .-+...|..+-..+...+++++|.+
T Consensus        86 ~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  163 (272)
T 3u4t_A           86 KKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADS  163 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999887642 2355788899999999999999999998887752 2345666666624445569999999


Q ss_pred             HHHHHHhcc
Q 025612          220 VRRDCIQYV  228 (250)
Q Consensus       220 ~~~~m~~~g  228 (250)
                      .++...+..
T Consensus       164 ~~~~a~~~~  172 (272)
T 3u4t_A          164 SFVKVLELK  172 (272)
T ss_dssp             HHHHHHHHS
T ss_pred             HHHHHHHhC
Confidence            999887654

>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=98.78  E-value=9.5e-07  Score=65.36  Aligned_cols=129  Identities=14%  Similarity=0.038  Sum_probs=109.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      .+...+...|++++|...|+.+.+ . .+.+...|..+...|...|++++|.+.|++..+. .+.+...|..+...|...
T Consensus        13 ~~~~~~~~~~~~~~A~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~a~~~~~~   89 (186)
T 3as5_A           13 DKGISHAKAGRYSQAVMLLEQVYD-A-DAFDVDVALHLGIAYVKTGAVDRGTELLERSLAD-APDNVKVATVLGLTYVQV   89 (186)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTTTCC-T-TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHH-h-CccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHh
Confidence            356677889999999999998853 2 2346888999999999999999999999998765 234678899999999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC
Q 025612          177 GMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVE  229 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~  229 (250)
                      |++++|.+.|++..+.. ..+...+..+...+...|++++|.+.++...+..-
T Consensus        90 ~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~  141 (186)
T 3as5_A           90 QKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRP  141 (186)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             cCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCc
Confidence            99999999999987753 34678899999999999999999999999887643

>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=98.77  E-value=5.3e-07  Score=78.63  Aligned_cols=158  Identities=11%  Similarity=-0.033  Sum_probs=130.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCH
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQI  144 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~  144 (250)
                      +-..+...|++++|...+++..+..-.+... .+-..+...|++++|...|+...+..  +.+..+|..+...|...|++
T Consensus       249 ~g~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~  326 (537)
T 3fp2_A          249 TGIFHFLKNNLLDAQVLLQESINLHPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN--PEYPPTYYHRGQMYFILQDY  326 (537)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC--CCCHHHHHHHHHHHHhcCCH
Confidence            4566778899999999999998754332222 56777789999999999999987532  34688899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 025612          145 AMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDC  224 (250)
Q Consensus       145 ~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m  224 (250)
                      ++|...|++..... +-+...|..+...|...|++++|..+|++..+.. ..+...+..+...+...|++++|.+.++..
T Consensus       327 ~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  404 (537)
T 3fp2_A          327 KNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIA  404 (537)
T ss_dssp             HHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            99999999987752 2246789999999999999999999999988753 335678999999999999999999999998


Q ss_pred             Hhc
Q 025612          225 IQY  227 (250)
Q Consensus       225 ~~~  227 (250)
                      .+.
T Consensus       405 ~~~  407 (537)
T 3fp2_A          405 KRL  407 (537)
T ss_dssp             HHH
T ss_pred             HHc
Confidence            754

>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=98.77  E-value=1.9e-07  Score=74.08  Aligned_cols=157  Identities=11%  Similarity=0.006  Sum_probs=118.5

Q ss_pred             HhcCChhHHHHHHHHHHHhc------CcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhC-----CC-CCCHHHHHHH
Q 025612           71 KLAKSSSKLEEGFQSRICRL------LKADLL----DTLTELRRQNELDLALKVFNFVRKEV-----WY-KPDLSLYSDM  134 (250)
Q Consensus        71 ~~~~~~~~a~~l~~~m~~~~------~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~-----g~-~~~~~~y~~l  134 (250)
                      ...|++++|..++++..+.-      -.|...    .+-..+...|++++|...|++..+..     +- .....+|+.+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            34577777777777765421      123222    47778889999999999999976431     21 2236788999


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhC------CC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC------CCCC-CHHH
Q 025612          135 ILMLGKNKQIAMAEELFCELKKE------GL-DPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS------GCTP-HKLT  200 (250)
Q Consensus       135 i~~~~~~~~~~~A~~~~~~m~~~------g~-~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~------g~~p-~~~t  200 (250)
                      -..|...|++++|.+.|++....      .- +....+|..+...|...|++++|...|++..+.      +-.| ...+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999987653      11 224677889999999999999999999988764      2233 3467


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          201 FTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       201 y~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      +..+-..|...|++++|.+++++..+.
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~  198 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTR  198 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            889999999999999999999988754

>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=98.76  E-value=4.5e-06  Score=64.67  Aligned_cols=160  Identities=15%  Similarity=0.040  Sum_probs=126.9

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH---HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL---DTLTELRRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMILM  137 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~---~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~~  137 (250)
                      .....-..+...|++++|...|++..+..-.++..   .+-.++.+.|++++|.+.|+...+ .  .| +...|..+-..
T Consensus         9 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~-~--~p~~~~~~~~l~~~   85 (228)
T 4i17_A            9 QLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIK-K--NYNLANAYIGKSAA   85 (228)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-T--TCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHH-h--CcchHHHHHHHHHH
Confidence            34455677888999999999999998765323333   466778899999999999999875 2  34 46788999999


Q ss_pred             HHcCCCHHHHHHHHHHHHhCCCCCC-H-------HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC---HHHHHHHHH
Q 025612          138 LGKNKQIAMAEELFCELKKEGLDPD-T-------RVYTEMIGVYLQVGMIDKAMETYETMKASGCTPH---KLTFTILIR  206 (250)
Q Consensus       138 ~~~~~~~~~A~~~~~~m~~~g~~p~-~-------~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~ty~~li~  206 (250)
                      |...|++++|...|++..+.  .|+ .       ..|..+-..+...|++++|.+.|++..+.  .|+   ...|..+-.
T Consensus        86 ~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           86 YRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHH
Confidence            99999999999999998764  333 3       45777888889999999999999999874  575   467777888


Q ss_pred             HHHhcCCH---------------------------HHHHHHHHHHHhcc
Q 025612          207 NLENAGEE---------------------------ELVAAVRRDCIQYV  228 (250)
Q Consensus       207 ~~~~~g~~---------------------------~~a~~~~~~m~~~g  228 (250)
                      .|...|+.                           ++|.+.++...+..
T Consensus       162 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          162 LFYNNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHHHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence            88877777                           77888887777654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.75  E-value=1.7e-06  Score=70.70  Aligned_cols=158  Identities=13%  Similarity=0.016  Sum_probs=97.4

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhcC---cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC-----CHHHHHHH
Q 025612           64 IQAVHAMKLAKSSSKLEEGFQSRICRLL---KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKP-----DLSLYSDM  134 (250)
Q Consensus        64 ~~ll~~~~~~~~~~~a~~l~~~m~~~~~---~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-----~~~~y~~l  134 (250)
                      ..+...+...|++++|++++.+.+..+-   ..... .++..+.+.|+.+.|.+.++.|.+.   .|     +..+...|
T Consensus       104 ~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~---~~d~~~~~d~~l~~L  180 (310)
T 3mv2_B          104 YLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA---IEDTVSGDNEMILNL  180 (310)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---SCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CccccccchHHHHHH
Confidence            4446666777888888888877655442   22222 4777777888888888888877642   44     24555555


Q ss_pred             HHHHH--c--CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-----CC---CC-CHHHH
Q 025612          135 ILMLG--K--NKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS-----GC---TP-HKLTF  201 (250)
Q Consensus       135 i~~~~--~--~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~-----g~---~p-~~~ty  201 (250)
                      ..++.  .  .++..+|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+.     +.   .| |..++
T Consensus       181 aea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~L  258 (310)
T 3mv2_B          181 AESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFL  258 (310)
T ss_dssp             HHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHH
T ss_pred             HHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHH
Confidence            55522  2  33777888888887654  355444445555777778888888887765442     11   13 44555


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          202 TILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      ..+|......|+  .|.+++.++++..
T Consensus       259 aN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          259 ANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            455555555666  6777777777654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.65  E-value=1.2e-05  Score=65.55  Aligned_cols=155  Identities=10%  Similarity=0.043  Sum_probs=119.8

Q ss_pred             hcCCh-------hHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HH-HHHHHHHHH
Q 025612           72 LAKSS-------SKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPD-LS-LYSDMILML  138 (250)
Q Consensus        72 ~~~~~-------~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~-~y~~li~~~  138 (250)
                      +.|+.       ++|..+|++..+. +.|+..    .+...+.+.|++++|..+|+...+   +.|+ .. .|..+...+
T Consensus        69 ~~g~~~~~~~~~~~A~~~~~rAl~~-~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~~  144 (308)
T 2ond_A           69 EKGDMNNAKLFSDEAANIYERAIST-LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA---IEDIDPTLVYIQYMKFA  144 (308)
T ss_dssp             HTSCCHHHHHHHHHHHHHHHHHHTT-TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---SSSSCTHHHHHHHHHHH
T ss_pred             hccchhhcccchHHHHHHHHHHHHH-hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHh---ccccCccHHHHHHHHHH
Confidence            35886       8999999998763 233322    577888899999999999999975   3453 33 899999999


Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 025612          139 GKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYL-QVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELV  217 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~-~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a  217 (250)
                      .+.|++++|..+|++..+.+ +++...|........ ..|+.++|..+|+...+.. .-+...|..++..+.+.|++++|
T Consensus       145 ~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A  222 (308)
T 2ond_A          145 RRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNT  222 (308)
T ss_dssp             HHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHH
Confidence            99999999999999988753 234445544433322 3699999999999987642 22678899999999999999999


Q ss_pred             HHHHHHHHhcc-CCch
Q 025612          218 AAVRRDCIQYV-EFPE  232 (250)
Q Consensus       218 ~~~~~~m~~~g-~~pd  232 (250)
                      ..+|+...+.. +.|+
T Consensus       223 ~~~~~~al~~~~l~p~  238 (308)
T 2ond_A          223 RVLFERVLTSGSLPPE  238 (308)
T ss_dssp             HHHHHHHHHSSSSCGG
T ss_pred             HHHHHHHHhccCCCHH
Confidence            99999999864 4554

>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=98.64  E-value=7.7e-06  Score=71.21  Aligned_cols=162  Identities=8%  Similarity=-0.043  Sum_probs=86.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCC
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQ  143 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~  143 (250)
                      +...+...|++++|...+++..+..-. +... .+...+...|++++|...|+...+..  +.+...|..+...|...|+
T Consensus       316 l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~  393 (537)
T 3fp2_A          316 RGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF--PTLPEVPTFFAEILTDRGD  393 (537)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCC
Confidence            344445555555555555555433211 1111 34455555566666666665554321  2234455555555566666


Q ss_pred             HHHHHHHHHHHHhCC-----CCCCHHHHHHHHHHHHhc----------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 025612          144 IAMAEELFCELKKEG-----LDPDTRVYTEMIGVYLQV----------GMIDKAMETYETMKASGCTPHKLTFTILIRNL  208 (250)
Q Consensus       144 ~~~A~~~~~~m~~~g-----~~p~~~ty~~li~~~~~~----------g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~  208 (250)
                      +++|.+.|++..+..     .......+......|.+.          |++++|...|++..+.. ..+...+..+...|
T Consensus       394 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~  472 (537)
T 3fp2_A          394 FDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLK  472 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            666666655543321     111112223333444444          66666666666655532 23567788888888


Q ss_pred             HhcCCHHHHHHHHHHHHhccCC
Q 025612          209 ENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       209 ~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      .+.|++++|.+.|+...+..-.
T Consensus       473 ~~~g~~~~A~~~~~~al~~~~~  494 (537)
T 3fp2_A          473 LQMEKIDEAIELFEDSAILART  494 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--
T ss_pred             HHhccHHHHHHHHHHHHHhCCC
Confidence            8888888888888887765444

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.61  E-value=3.6e-06  Score=68.80  Aligned_cols=154  Identities=12%  Similarity=0.007  Sum_probs=114.1

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH---HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHH
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL---DTLTELRRQNELDLALKVFNFVRKEVWY-KPDLSLYSDMILML  138 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~---~ll~~~~~~~~~~~a~~~~~~m~~~~g~-~~~~~~y~~li~~~  138 (250)
                      ++.++..|...+    |...|++....+ .++..   .+-.++...|++++|++++.+... .+- .-+...+-.++..|
T Consensus        73 a~~~la~~~~~~----a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~-~~~~~~~lea~~l~vqi~  146 (310)
T 3mv2_B           73 VLDLYVQFLDTK----NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGID-NDEAEGTTELLLLAIEVA  146 (310)
T ss_dssp             HHHHHHHHHTTT----CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT-SSCSTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccc----HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhc-cCCCcCcHHHHHHHHHHH
Confidence            344444444422    677777776554 22222   566778889999999999998753 332 23678888999999


Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCC-----CHHHHHHHHHHHHh--cC--ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 025612          139 GKNKQIAMAEELFCELKKEGLDP-----DTRVYTEMIGVYLQ--VG--MIDKAMETYETMKASGCTPHKLTFTILIRNLE  209 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~~g~~p-----~~~ty~~li~~~~~--~g--~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~  209 (250)
                      .+.|+++.|.+.+++|.+.  .|     +..+...|..+++.  .|  +..+|..+|+++.+.  .|+..+-..++.++.
T Consensus       147 L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~  222 (310)
T 3mv2_B          147 LLNNNVSTASTIFDNYTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHL  222 (310)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHH
Confidence            9999999999999999874  56     35666666666333  34  899999999999775  366555566667999


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 025612          210 NAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       210 ~~g~~~~a~~~~~~m~~  226 (250)
                      +.|++++|++.++.+.+
T Consensus       223 ~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          223 QQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HHTCHHHHHHHHHHHHS
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            99999999999997665

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.61  E-value=2.9e-06  Score=67.20  Aligned_cols=161  Identities=10%  Similarity=0.063  Sum_probs=126.6

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccH-----HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADL-----LDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMIL  136 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~-----~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~  136 (250)
                      ....+...+...|++++|...+++..+..-.++.     ..+-..+...|++++|.+.|+...+..  +.+...|..+-.
T Consensus        39 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~  116 (272)
T 3u4t_A           39 IYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD--TTRLDMYGQIGS  116 (272)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC--cccHHHHHHHHH
Confidence            3445577888999999999999999874433333     257788889999999999999987532  235678999999


Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCC--
Q 025612          137 MLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGE--  213 (250)
Q Consensus       137 ~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~--  213 (250)
                      .|...|++++|...|++..+. -+-+...|..+...+...+++++|.+.|++..+.  .| +...+..+-..+...|+  
T Consensus       117 ~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~  193 (272)
T 3u4t_A          117 YFYNKGNFPLAIQYMEKQIRP-TTTDPKVFYELGQAYYYNKEYVKADSSFVKVLEL--KPNIYIGYLWRARANAAQDPDT  193 (272)
T ss_dssp             HHHHTTCHHHHHHHHGGGCCS-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHccCHHHHHHHHHHHhhc-CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCcch
Confidence            999999999999999998765 2335666777763455567999999999998874  34 46778888888888888  


Q ss_pred             -HHHHHHHHHHHHhc
Q 025612          214 -EELVAAVRRDCIQY  227 (250)
Q Consensus       214 -~~~a~~~~~~m~~~  227 (250)
                       +++|...+++..+.
T Consensus       194 ~~~~A~~~~~~a~~~  208 (272)
T 3u4t_A          194 KQGLAKPYYEKLIEV  208 (272)
T ss_dssp             SSCTTHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHH
Confidence             77788888887654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.61  E-value=6.2e-06  Score=65.35  Aligned_cols=163  Identities=15%  Similarity=0.059  Sum_probs=124.1

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHhcCc----ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHH
Q 025612           61 SEAIQAVHAMKLAKSSSKLEEGFQSRICRLLK----ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPD-LSLYSDM  134 (250)
Q Consensus        61 ~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~----~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~l  134 (250)
                      ...+.....+.+.|++++|...|++..+..-.    +... .+-.++.+.|++++|...|+...+...-.|. ...+..+
T Consensus        16 ~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l   95 (261)
T 3qky_A           16 QEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYER   95 (261)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHH
Confidence            34555677788999999999999999865322    2222 4777888999999999999999764222223 4567777


Q ss_pred             HHHHHc--------CCCHHHHHHHHHHHHhCCCCCC-HHHH-----------------HHHHHHHHhcCChHHHHHHHHH
Q 025612          135 ILMLGK--------NKQIAMAEELFCELKKEGLDPD-TRVY-----------------TEMIGVYLQVGMIDKAMETYET  188 (250)
Q Consensus       135 i~~~~~--------~~~~~~A~~~~~~m~~~g~~p~-~~ty-----------------~~li~~~~~~g~~~~a~~~~~~  188 (250)
                      -.+|.+        .|++++|...|++..+.  .|+ ...+                 -.+-..|.+.|++++|...|+.
T Consensus        96 g~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  173 (261)
T 3qky_A           96 AMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEA  173 (261)
T ss_dssp             HHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            788888        99999999999998774  233 2223                 4457788999999999999999


Q ss_pred             HHHCCCCCC----HHHHHHHHHHHHhc----------CCHHHHHHHHHHHHhc
Q 025612          189 MKASGCTPH----KLTFTILIRNLENA----------GEEELVAAVRRDCIQY  227 (250)
Q Consensus       189 m~~~g~~p~----~~ty~~li~~~~~~----------g~~~~a~~~~~~m~~~  227 (250)
                      ..+..  |+    ...+..+..+|.+.          |++++|.+.++...+.
T Consensus       174 ~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          174 VFDAY--PDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHC--TTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHC--CCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            87742  43    45777888888866          8999999999998864

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.60  E-value=6.8e-06  Score=63.85  Aligned_cols=162  Identities=11%  Similarity=0.037  Sum_probs=118.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCc-c---cHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCH-HHHHHHHH
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLK-A---DLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDL-SLYSDMIL  136 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~---~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~-~~y~~li~  136 (250)
                      .+.....+.+.|++++|...|+++.+..-. |   +.. .+..++.+.|++++|...|+...+...-.+.. ..+-.+-.
T Consensus         7 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~   86 (225)
T 2yhc_A            7 IYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGL   86 (225)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHH
Confidence            344566788899999999999999864322 2   122 57788999999999999999987643222322 13333333


Q ss_pred             HHH------------------cCCCHHHHHHHHHHHHhCCCCCCHH-HH-----------------HHHHHHHHhcCChH
Q 025612          137 MLG------------------KNKQIAMAEELFCELKKEGLDPDTR-VY-----------------TEMIGVYLQVGMID  180 (250)
Q Consensus       137 ~~~------------------~~~~~~~A~~~~~~m~~~g~~p~~~-ty-----------------~~li~~~~~~g~~~  180 (250)
                      +|.                  ..|++++|...|++..+.  .|+.. .+                 -.+...|.+.|+++
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~  164 (225)
T 2yhc_A           87 TNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWV  164 (225)
T ss_dssp             HHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHH
Confidence            333                  367899999999998875  34421 22                 23455788899999


Q ss_pred             HHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          181 KAMETYETMKASGCTPHK----LTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       181 ~a~~~~~~m~~~g~~p~~----~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      +|...|+++.+.  -|+.    ..+..+..+|.+.|+.++|.+.++.+...+
T Consensus       165 ~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          165 AVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            999999998874  2442    568889999999999999999999887654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.60  E-value=4.8e-06  Score=67.47  Aligned_cols=161  Identities=9%  Similarity=-0.057  Sum_probs=120.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHh----cCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHh---CCCCC-CHHHHHH
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICR----LLKADLL----DTLTELRRQNELDLALKVFNFVRKE---VWYKP-DLSLYSD  133 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~----~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~---~g~~~-~~~~y~~  133 (250)
                      ....+...|++++|...|.+....    |..+...    .+-.+|.+.|++++|...|+...+-   .|-.. -..+|+.
T Consensus        43 a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~  122 (292)
T 1qqe_A           43 AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFE  122 (292)
T ss_dssp             HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            455677889999999999988643    3222222    4777788999999999999986531   11110 1467889


Q ss_pred             HHHHHHcC-CCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH------HHH
Q 025612          134 MILMLGKN-KQIAMAEELFCELKKE----GLDPD-TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHK------LTF  201 (250)
Q Consensus       134 li~~~~~~-~~~~~A~~~~~~m~~~----g~~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~------~ty  201 (250)
                      +-..|... |++++|...|++..+.    +-.+. ..+|+.+...|.+.|++++|...|++..+..-....      ..|
T Consensus       123 lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  202 (292)
T 1qqe_A          123 LGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYF  202 (292)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHH
T ss_pred             HHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHH
Confidence            99999996 9999999999987552    11111 457889999999999999999999998875322211      257


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          202 TILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      ..+..++...|+++.|.+.+++..+
T Consensus       203 ~~lg~~~~~~g~~~~A~~~~~~al~  227 (292)
T 1qqe_A          203 LKKGLCQLAATDAVAAARTLQEGQS  227 (292)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            7788889999999999999998765

>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=98.54  E-value=1.2e-05  Score=67.91  Aligned_cols=159  Identities=8%  Similarity=0.039  Sum_probs=125.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCC-HHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNE-LDLALKVFNFVRKEVWYKPDLSLYSDMILM  137 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~-~~~a~~~~~~m~~~~g~~~~~~~y~~li~~  137 (250)
                      ...+-..+.+.|++++|+..+++.+...  |+..    .+-.++.+.|+ +++|...|++..+. . +-+...|+.+-.+
T Consensus       100 ~~~lg~~~~~~g~~~~Al~~~~~al~l~--P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l-~-P~~~~a~~~~g~~  175 (382)
T 2h6f_A          100 YDYFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE-Q-PKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHhC--ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHH-C-CCCHHHHHHHHHH
Confidence            3344566777899999999999988543  3322    46667778897 99999999998753 2 2368899999999


Q ss_pred             HHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-cCCHHH
Q 025612          138 LGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLEN-AGEEEL  216 (250)
Q Consensus       138 ~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~-~g~~~~  216 (250)
                      |.+.|++++|+..|++..+.. +-+...|..+-..+.+.|++++|+..|+++.+..- -+...|+.+-.++.+ .|..++
T Consensus       176 ~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcchH
Confidence            999999999999999988742 23678899999999999999999999999988542 267889999999999 666566


Q ss_pred             H-----HHHHHHHHhc
Q 025612          217 V-----AAVRRDCIQY  227 (250)
Q Consensus       217 a-----~~~~~~m~~~  227 (250)
                      |     .+.++...+.
T Consensus       254 A~~~~el~~~~~Al~l  269 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKL  269 (382)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            6     4667666553

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.54  E-value=5.2e-06  Score=67.30  Aligned_cols=162  Identities=10%  Similarity=0.035  Sum_probs=113.2

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhc----CcccHH----HHHHHHHHc-CCHHHHHHHHHHHHHh---CCCCCC-HH
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRL----LKADLL----DTLTELRRQ-NELDLALKVFNFVRKE---VWYKPD-LS  129 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~----~~~~~~----~ll~~~~~~-~~~~~a~~~~~~m~~~---~g~~~~-~~  129 (250)
                      ...+-..+.+.|++++|...+++.....    -.....    .+-..|... |++++|...|++..+-   .+-.+. ..
T Consensus        80 ~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~  159 (292)
T 1qqe_A           80 YVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNK  159 (292)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHH
Confidence            3345677788899999999999886432    111111    466677786 9999999999987541   111001 45


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH------HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-----
Q 025612          130 LYSDMILMLGKNKQIAMAEELFCELKKEGLDPDT------RVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHK-----  198 (250)
Q Consensus       130 ~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~------~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-----  198 (250)
                      +|+.+-..|.+.|++++|...|++..+.......      .+|..+..+|...|++++|...|++..+.  .|+.     
T Consensus       160 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~  237 (292)
T 1qqe_A          160 CFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRE  237 (292)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHH
Confidence            7889999999999999999999998875332222      25777888899999999999999998762  3432     


Q ss_pred             -HHHHHHHHHHH--hcCCHHHHHHHHHHHHh
Q 025612          199 -LTFTILIRNLE--NAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       199 -~ty~~li~~~~--~~g~~~~a~~~~~~m~~  226 (250)
                       ..+..++.+|.  ..+++++|.+.|+.+.+
T Consensus       238 ~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          238 SNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhccCCc
Confidence             23455666665  45678888887766544

>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=98.54  E-value=1.9e-05  Score=60.15  Aligned_cols=84  Identities=18%  Similarity=0.150  Sum_probs=38.1

Q ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHH
Q 025612          102 LRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDK  181 (250)
Q Consensus       102 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~  181 (250)
                      +...|++++|...|++.     +.|+...|..+-..|.+.|++++|.+.|++..... +.+...|..+-..|...|++++
T Consensus        16 ~~~~~~~~~A~~~~~~a-----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~   89 (213)
T 1hh8_A           16 AADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDL   89 (213)
T ss_dssp             HHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhCCHHHHHHHHHHH-----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHHH
Confidence            33444455544444433     12344444444444555555555555544443321 1233444444444455555555


Q ss_pred             HHHHHHHHHH
Q 025612          182 AMETYETMKA  191 (250)
Q Consensus       182 a~~~~~~m~~  191 (250)
                      |...|++..+
T Consensus        90 A~~~~~~al~   99 (213)
T 1hh8_A           90 AIKDLKEALI   99 (213)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555544443

>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=98.53  E-value=6.9e-06  Score=72.81  Aligned_cols=152  Identities=6%  Similarity=-0.082  Sum_probs=96.4

Q ss_pred             cCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 025612           73 AKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEEL  150 (250)
Q Consensus        73 ~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~  150 (250)
                      .|++++|...+++..+..-. +... .+-..+.+.|++++|.+.|++..+ .. +.+...|..+-..|...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~-~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLA-LH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT-TS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-hC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            36677777777776543211 1111 466677788888888888888764 21 23577788888888888888888888


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHhc
Q 025612          151 FCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENA---GEEELVAAVRRDCIQY  227 (250)
Q Consensus       151 ~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~---g~~~~a~~~~~~m~~~  227 (250)
                      |++..+.. +-+...|..+-..|.+.|++++|.+.|++..+.. .-+...+..+...+...   |++++|.+.+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            88876642 2346778888888888888888888888876642 22467777888888888   8888888888887655


Q ss_pred             c
Q 025612          228 V  228 (250)
Q Consensus       228 g  228 (250)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            4

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.52  E-value=4.3e-05  Score=56.85  Aligned_cols=128  Identities=13%  Similarity=0.044  Sum_probs=107.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      .+=..+.+.|++++|.+.|++..+..  +-+...|..+-..|.+.|++++|...+....... +-+...+..+...+...
T Consensus        10 ~lG~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   86 (184)
T 3vtx_A           10 DIGDKKRTKGDFDGAIRAYKKVLKAD--PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSANFMI   86 (184)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHc
Confidence            46677889999999999999987632  2368889999999999999999999999887642 33567788888889999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          177 GMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      ++++.+...+.+..... .-+...+..+-..|.+.|++++|.+.|++..+..
T Consensus        87 ~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~  137 (184)
T 3vtx_A           87 DEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK  137 (184)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc
Confidence            99999999999987743 2367888999999999999999999999988754

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.51  E-value=1.4e-05  Score=54.88  Aligned_cols=98  Identities=11%  Similarity=0.109  Sum_probs=53.9

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRN  207 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~  207 (250)
                      ...|..+...|...|++++|.++|+++.... +.+..+|..+...|.+.|++++|..+|+++.+.. ..+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            3455555555566666666666665554431 2244555555556666666666666666555432 2244555555666


Q ss_pred             HHhcCCHHHHHHHHHHHHhc
Q 025612          208 LENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       208 ~~~~g~~~~a~~~~~~m~~~  227 (250)
                      |...|++++|.+.++.+.+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHh
Confidence            66666666666666655543

>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=98.49  E-value=3.8e-05  Score=62.06  Aligned_cols=161  Identities=7%  Similarity=0.013  Sum_probs=120.6

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhc-CcccHH-------HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC----HHHHHH
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRL-LKADLL-------DTLTELRRQNELDLALKVFNFVRKEVWYKPD----LSLYSD  133 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~-~~~~~~-------~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~y~~  133 (250)
                      .+..+...|++++|..++++..+.. ..|+..       .+...+...+++++|...|+...+...-.++    ..+|+.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            4677888999999999999987633 233322       2444555678999999999998752222233    447999


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHh----C-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHH----CCCCCC-HHHHH
Q 025612          134 MILMLGKNKQIAMAEELFCELKK----E-GLDPD-TRVYTEMIGVYLQVGMIDKAMETYETMKA----SGCTPH-KLTFT  202 (250)
Q Consensus       134 li~~~~~~~~~~~A~~~~~~m~~----~-g~~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~-~~ty~  202 (250)
                      +-..|...|++++|...|++..+    . +..+. ..+|..+...|.+.|++++|...+++..+    .+..+. ..+|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            99999999999999999998763    1 22222 34788899999999999999999987653    343343 57888


Q ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHh
Q 025612          203 ILIRNLENAG-EEELVAAVRRDCIQ  226 (250)
Q Consensus       203 ~li~~~~~~g-~~~~a~~~~~~m~~  226 (250)
                      .+-.+|.+.| ++++|.+.+++...
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            9999999999 57999988887653

>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=98.48  E-value=2e-05  Score=72.10  Aligned_cols=124  Identities=15%  Similarity=0.155  Sum_probs=108.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHh
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQ  175 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~  175 (250)
                      +=..+.+.|++++|.+.|++..+.   .| +...|+.|-.+|.+.|++++|...|++..+.  .| +...|+.+-..|.+
T Consensus        15 LG~~~~~~G~~~eAi~~~~kAl~l---~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg~~l~~   89 (723)
T 4gyw_A           15 LANIKREQGNIEEAVRLYRKALEV---FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNTLKE   89 (723)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            566788999999999999998753   34 4889999999999999999999999998764  44 47889999999999


Q ss_pred             cCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          176 VGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       176 ~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      .|++++|.+.|++..+.  .| +...|+.+-.+|.+.|++++|.+.|++..+..
T Consensus        90 ~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~  141 (723)
T 4gyw_A           90 MQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLK  141 (723)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999998774  35 56889999999999999999999999987654

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.47  E-value=1.9e-05  Score=66.19  Aligned_cols=161  Identities=7%  Similarity=-0.078  Sum_probs=120.8

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHh----cCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC-----CHHHHHH
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICR----LLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKP-----DLSLYSD  133 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~----~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-----~~~~y~~  133 (250)
                      -..+...|++++|...+++..+.    +-.+...    .+-..+...|++++|...+.+..+...-.+     ...+++.
T Consensus       110 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  189 (383)
T 3ulq_A          110 GMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSL  189 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHH
Confidence            34456779999999999998754    1122111    467778899999999999998653211112     2567888


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCC-CCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CC-CCCHHHHHH
Q 025612          134 MILMLGKNKQIAMAEELFCELKKEG-LDPD----TRVYTEMIGVYLQVGMIDKAMETYETMKAS----GC-TPHKLTFTI  203 (250)
Q Consensus       134 li~~~~~~~~~~~A~~~~~~m~~~g-~~p~----~~ty~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~p~~~ty~~  203 (250)
                      +-..|...|++++|.+.|++..+.. -.++    ..+|+.+-..|...|++++|.+.|++..+.    +. .....++..
T Consensus       190 lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  269 (383)
T 3ulq_A          190 FATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFL  269 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHH
Confidence            8899999999999999998865420 0122    257888999999999999999999987652    33 334577999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          204 LIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       204 li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      +-..|.+.|++++|.+.+++..+.
T Consensus       270 l~~~~~~~g~~~~A~~~~~~al~~  293 (383)
T 3ulq_A          270 ITQIHYKLGKIDKAHEYHSKGMAY  293 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHH
Confidence            999999999999999999887653

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.46  E-value=2.3e-05  Score=63.30  Aligned_cols=161  Identities=7%  Similarity=0.007  Sum_probs=118.6

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-------HHHHHHHHcCCHHHHHHHHHHHHHhCC--CCCC--HHHHH
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-------DTLTELRRQNELDLALKVFNFVRKEVW--YKPD--LSLYS  132 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-------~ll~~~~~~~~~~~a~~~~~~m~~~~g--~~~~--~~~y~  132 (250)
                      ..+..+...|++++|.+.+.+..+..-. ++..       .+...+...|++++|...|.+..+...  ..+.  ..+|+
T Consensus        80 ~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 2qfc_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHH
Confidence            4577788899999999999987754322 2111       244455677899999999998753211  1122  55899


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHh---C-CCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCCC-HHHH
Q 025612          133 DMILMLGKNKQIAMAEELFCELKK---E-GLDP--DTRVYTEMIGVYLQVGMIDKAMETYETMKAS----GCTPH-KLTF  201 (250)
Q Consensus       133 ~li~~~~~~~~~~~A~~~~~~m~~---~-g~~p--~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~ty  201 (250)
                      .+-..|...|++++|...|++..+   . +-.+  ...+|+.+...|.+.|++++|...+++..+.    +.... ..+|
T Consensus       160 ~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~  239 (293)
T 2qfc_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            999999999999999999998762   1 1111  1268899999999999999999999986542    22222 5778


Q ss_pred             HHHHHHHHhcCCHHHH-HHHHHHHH
Q 025612          202 TILIRNLENAGEEELV-AAVRRDCI  225 (250)
Q Consensus       202 ~~li~~~~~~g~~~~a-~~~~~~m~  225 (250)
                      ..+-..|.+.|++++| ...++...
T Consensus       240 ~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          240 YQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            8999999999999999 77677654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.46  E-value=2.5e-06  Score=74.22  Aligned_cols=164  Identities=10%  Similarity=-0.071  Sum_probs=130.5

Q ss_pred             cCCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH-HHHHHHHHc---------CCHHHHHHHHHHHHHhCCCC
Q 025612           56 SRVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL-DTLTELRRQ---------NELDLALKVFNFVRKEVWYK  125 (250)
Q Consensus        56 ~~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~~~~~~---------~~~~~a~~~~~~m~~~~g~~  125 (250)
                      .+........+-..+...|++++|...|++..+..-.+... .+-..+...         |++++|.+.|++..+. . +
T Consensus       133 ~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~-~-p  210 (474)
T 4abn_A          133 EPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM-D-V  210 (474)
T ss_dssp             CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH-C-T
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh-C-C
Confidence            33444555567888889999999999999998654322222 466667777         9999999999998753 2 3


Q ss_pred             CCHHHHHHHHHHHHcC--------CCHHHHHHHHHHHHhCCCCC----CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 025612          126 PDLSLYSDMILMLGKN--------KQIAMAEELFCELKKEGLDP----DTRVYTEMIGVYLQVGMIDKAMETYETMKASG  193 (250)
Q Consensus       126 ~~~~~y~~li~~~~~~--------~~~~~A~~~~~~m~~~g~~p----~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  193 (250)
                      -+...|..+-.+|...        |++++|.+.|++..+.  .|    +...|..+-..|...|++++|.+.|++..+..
T Consensus       211 ~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~  288 (474)
T 4abn_A          211 LDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKV--DRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD  288 (474)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH--CGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            3588899999999988        9999999999998774  34    78999999999999999999999999987742


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 025612          194 CTPHKLTFTILIRNLENAGEEELVAAVRRDC  224 (250)
Q Consensus       194 ~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m  224 (250)
                       .-+...+..+-.++...|++++|.+.+..+
T Consensus       289 -p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          289 -PAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             -TTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             -CCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence             225567888999999999999988765444

>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=98.45  E-value=3.1e-05  Score=59.85  Aligned_cols=126  Identities=11%  Similarity=0.058  Sum_probs=104.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHh
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQ  175 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~  175 (250)
                      ..-..+.+.|++++|...|+...+ ....++...+..+-.+|.+.|++++|.+.|++..+.  .| +...|..+-..|..
T Consensus        12 ~~g~~~~~~~~~~~A~~~~~~al~-~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~   88 (228)
T 4i17_A           12 NEGNDALNAKNYAVAFEKYSEYLK-LTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK--NYNLANAYIGKSAAYRD   88 (228)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH-HTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHh-ccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh--CcchHHHHHHHHHHHHH
Confidence            355677899999999999999875 332367777777999999999999999999998874  34 46778889999999


Q ss_pred             cCChHHHHHHHHHHHHCCCCCC-H-------HHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          176 VGMIDKAMETYETMKASGCTPH-K-------LTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       176 ~g~~~~a~~~~~~m~~~g~~p~-~-------~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      .|++++|...|++..+.  .|+ .       ..|..+-..+...|++++|.+.++...+.
T Consensus        89 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  146 (228)
T 4i17_A           89 MKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV  146 (228)
T ss_dssp             TTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS
T ss_pred             cccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc
Confidence            99999999999998774  343 3       45777778888999999999999998875

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.42  E-value=2.8e-05  Score=68.28  Aligned_cols=162  Identities=12%  Similarity=0.070  Sum_probs=116.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCc-cc-H-HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HH
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLK-AD-L-LDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMIL-ML  138 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~-~-~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~-~~  138 (250)
                      +......+.+.|++++|..+|++..+..-. |. . ..+...+.+.|++++|.++|+...+...  .+...|-.... .+
T Consensus       324 ~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~--~~~~~~~~~a~~~~  401 (530)
T 2ooe_A          324 YFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR--TRHHVYVTAALMEY  401 (530)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTT--CCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccC--CchHHHHHHHHHHH
Confidence            344566677889999999999998864321 11 1 1466667788999999999999875221  12233322221 23


Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCCC--HHHHHHHHHHHHhcCCHH
Q 025612          139 GKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASG-CTPH--KLTFTILIRNLENAGEEE  215 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~--~~ty~~li~~~~~~g~~~  215 (250)
                      ...|++++|..+|+...+.. +-+...|..++..+.+.|+.++|..+|++....+ ..|+  ...|...+......|+.+
T Consensus       402 ~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~  480 (530)
T 2ooe_A          402 YCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLA  480 (530)
T ss_dssp             HHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHH
T ss_pred             HHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            36899999999999876641 2357889999999999999999999999988763 3332  457888888888899999


Q ss_pred             HHHHHHHHHHhc
Q 025612          216 LVAAVRRDCIQY  227 (250)
Q Consensus       216 ~a~~~~~~m~~~  227 (250)
                      .+..+.+.+.+.
T Consensus       481 ~~~~~~~r~~~~  492 (530)
T 2ooe_A          481 SILKVEKRRFTA  492 (530)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999998887654

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.41  E-value=5.1e-05  Score=58.14  Aligned_cols=157  Identities=12%  Similarity=0.011  Sum_probs=113.9

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH----H----------------HHHHHHHcCCHHHHHHHHHHHHHhC
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL----D----------------TLTELRRQNELDLALKVFNFVRKEV  122 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----~----------------ll~~~~~~~~~~~a~~~~~~m~~~~  122 (250)
                      .+.....+...|++++|...|++..+..  |+..    .                +-.++.+.|++++|...|+...+. 
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-   83 (208)
T 3urz_A            7 MLQKVSAAIEAGQNGQAVSYFRQTIALN--IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK-   83 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-
Confidence            3344556778899999999999987542  3222    3                666788999999999999998753 


Q ss_pred             CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCC--hHHHHHHHHHHHHCCCCCCHH
Q 025612          123 WYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVGM--IDKAMETYETMKASGCTPHKL  199 (250)
Q Consensus       123 g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~--~~~a~~~~~~m~~~g~~p~~~  199 (250)
                      . +-+...|..+-..|...|++++|...|++..+.  .| +..+|..+-..|...|.  ...+...++...    .|+..
T Consensus        84 ~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~----~~~~~  156 (208)
T 3urz_A           84 A-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTAEQEKKKLETDYKKLS----SPTKM  156 (208)
T ss_dssp             C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC-------CCCHH
T ss_pred             C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHh----CCCch
Confidence            2 236888999999999999999999999998774  34 57788888888776654  344555555543    34443


Q ss_pred             --HHHHHHHHHHhcCCHHHHHHHHHHHHhccC
Q 025612          200 --TFTILIRNLENAGEEELVAAVRRDCIQYVE  229 (250)
Q Consensus       200 --ty~~li~~~~~~g~~~~a~~~~~~m~~~g~  229 (250)
                        .+...-.++...|++++|.+.|++..+..-
T Consensus       157 ~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P  188 (208)
T 3urz_A          157 QYARYRDGLSKLFTTRYEKARNSLQKVILRFP  188 (208)
T ss_dssp             HHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSC
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence              333344556678899999999999886543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.41  E-value=3.3e-05  Score=67.83  Aligned_cols=152  Identities=11%  Similarity=0.063  Sum_probs=116.7

Q ss_pred             cCChh-------HHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHH
Q 025612           73 AKSSS-------KLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPD--LSLYSDMILMLG  139 (250)
Q Consensus        73 ~~~~~-------~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~--~~~y~~li~~~~  139 (250)
                      .|+.+       +|..++++..+. ..|+..    .+...+.+.|++++|..+|+...+   +.|+  ...|......+.
T Consensus       292 ~g~~~~a~~~~~~A~~~~~~Al~~-~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~~~  367 (530)
T 2ooe_A          292 KGDMNNAKLFSDEAANIYERAIST-LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA---IEDIDPTLVYIQYMKFAR  367 (530)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTT-TCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---SSSSCHHHHHHHHHHHHH
T ss_pred             ccchhhhhhhhHHHHHHHHHHHHH-hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhC---ccccCchHHHHHHHHHHH
Confidence            68877       899999987752 234322    577788899999999999999975   2454  358999999999


Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHH-HHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHH
Q 025612          140 KNKQIAMAEELFCELKKEGLDPD-TRVYTEMIG-VYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEEL  216 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~g~~p~-~~ty~~li~-~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~  216 (250)
                      +.|++++|.++|++..+.  .|+ ...|-.... .+...|+.++|..+|+...+.  .| +...|..++..+.+.|+.+.
T Consensus       368 ~~~~~~~A~~~~~~Al~~--~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~--~p~~~~~~~~~~~~~~~~g~~~~  443 (530)
T 2ooe_A          368 RAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNN  443 (530)
T ss_dssp             HHHHHHHHHHHHHHHHTC--TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHTTTTCHHH
T ss_pred             HhcCHHHHHHHHHHHHhc--cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhCCCHhh
Confidence            999999999999998775  232 222322222 234689999999999988764  24 57889999999999999999


Q ss_pred             HHHHHHHHHhcc-CCch
Q 025612          217 VAAVRRDCIQYV-EFPE  232 (250)
Q Consensus       217 a~~~~~~m~~~g-~~pd  232 (250)
                      |..+|+.....+ ..|+
T Consensus       444 Ar~~~~~al~~~~~~~~  460 (530)
T 2ooe_A          444 TRVLFERVLTSGSLPPE  460 (530)
T ss_dssp             HHHHHHHHHHSCCSCGG
T ss_pred             HHHHHHHHHhccCCCHH
Confidence            999999988764 3444

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.41  E-value=2.1e-05  Score=65.89  Aligned_cols=158  Identities=9%  Similarity=-0.072  Sum_probs=119.4

Q ss_pred             HHhcCChhHHHHHHHHHHHhcC-ccc---HH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC-----CHHHHHHHHH
Q 025612           70 MKLAKSSSKLEEGFQSRICRLL-KAD---LL----DTLTELRRQNELDLALKVFNFVRKEVWYKP-----DLSLYSDMIL  136 (250)
Q Consensus        70 ~~~~~~~~~a~~l~~~m~~~~~-~~~---~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-----~~~~y~~li~  136 (250)
                      +...|++++|...|++..+..- .++   ..    .+-..+...|+++.|...+.+..+...-.+     ...+++.+-.
T Consensus       111 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~  190 (378)
T 3q15_A          111 EFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAG  190 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHH
Confidence            4577999999999999875421 122   11    467778899999999999988653211111     2567888899


Q ss_pred             HHHcCCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCCCHHHHHHHHHH
Q 025612          137 MLGKNKQIAMAEELFCELKKE----GLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKAS----GCTPHKLTFTILIRN  207 (250)
Q Consensus       137 ~~~~~~~~~~A~~~~~~m~~~----g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~~ty~~li~~  207 (250)
                      .|...|++++|.+.|++..+.    |-.+ ...+++.+-..|...|++++|.+.|++..+.    +......++..+-..
T Consensus       191 ~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  270 (378)
T 3q15_A          191 NYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWT  270 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHH
Confidence            999999999999999886542    1111 2357888889999999999999999987651    222336788899999


Q ss_pred             HHhcCCHHHHHHHHHHHHhc
Q 025612          208 LENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       208 ~~~~g~~~~a~~~~~~m~~~  227 (250)
                      |.+.|++++|.+.+++..+.
T Consensus       271 ~~~~g~~~~A~~~~~~al~~  290 (378)
T 3q15_A          271 LCKAGQTQKAFQFIEEGLDH  290 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH
Confidence            99999999999999998764

>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=98.38  E-value=0.00019  Score=55.18  Aligned_cols=164  Identities=10%  Similarity=-0.134  Sum_probs=126.5

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHHHHHHHHHHcC----CHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQN----ELDLALKVFNFVRKEVWYKPDLSLYSDMILM  137 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~~~~----~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~  137 (250)
                      ....+-..+...+++++|...|++..+.|.......+=..|.. +    ++++|.+.|....+ .|   +...+..|-..
T Consensus        20 a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~-~g---~~~a~~~Lg~~   94 (212)
T 3rjv_A           20 AQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAVE-AG---SKSGEIVLARV   94 (212)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHH-TT---CHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHH-CC---CHHHHHHHHHH
Confidence            3445566677789999999999999887754433344444545 6    89999999999865 33   67788888888


Q ss_pred             HHc----CCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 025612          138 LGK----NKQIAMAEELFCELKKEGLD-PDTRVYTEMIGVYLQ----VGMIDKAMETYETMKASGCTPHKLTFTILIRNL  208 (250)
Q Consensus       138 ~~~----~~~~~~A~~~~~~m~~~g~~-p~~~ty~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~  208 (250)
                      |..    .+++++|.++|++..+.|.. -+...+..|-..|..    .++.++|...|++-.+.+  .+...+..|-..|
T Consensus        95 y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~--~~~~a~~~Lg~~y  172 (212)
T 3rjv_A           95 LVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLS--RTGYAEYWAGMMF  172 (212)
T ss_dssp             HTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTS--CTTHHHHHHHHHH
T ss_pred             HHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHH
Confidence            887    89999999999998876521 126788888888888    889999999999988762  3445666777777


Q ss_pred             Hhc-C-----CHHHHHHHHHHHHhccCCch
Q 025612          209 ENA-G-----EEELVAAVRRDCIQYVEFPE  232 (250)
Q Consensus       209 ~~~-g-----~~~~a~~~~~~m~~~g~~pd  232 (250)
                      ... |     ++++|.++|+...+.|...-
T Consensus       173 ~~g~gg~~~~d~~~A~~~~~~A~~~g~~~A  202 (212)
T 3rjv_A          173 QQGEKGFIEPNKQKALHWLNVSCLEGFDTG  202 (212)
T ss_dssp             HHCBTTTBCCCHHHHHHHHHHHHHHTCHHH
T ss_pred             HcCCCCCCCCCHHHHHHHHHHHHHcCCHHH
Confidence            653 3     89999999999999887543

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.37  E-value=1.7e-05  Score=64.18  Aligned_cols=155  Identities=13%  Similarity=-0.018  Sum_probs=106.6

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhcC-cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHHc
Q 025612           64 IQAVHAMKLAKSSSKLEEGFQSRICRLL-KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMI-LMLGK  140 (250)
Q Consensus        64 ~~ll~~~~~~~~~~~a~~l~~~m~~~~~-~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li-~~~~~  140 (250)
                      +.+...+...|++++|...|++.....- .++.. .+-..+.+.|++++|...++...+.   .|+........ ..+..
T Consensus       121 ~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~~~~~~~l~~  197 (287)
T 3qou_A          121 AQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ---DQDTRYQGLVAQIELLX  197 (287)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG---GCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh---hcchHHHHHHHHHHHHh
Confidence            3445666778888888888888765332 12222 5777778888888888888877532   35543333222 23556


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHHH
Q 025612          141 NKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPH---KLTFTILIRNLENAGEEELV  217 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~ty~~li~~~~~~g~~~~a  217 (250)
                      .++.++|...|++..... +-+...+..+-..|...|++++|...|++..+..  |+   ...+..+...+...|+.+.|
T Consensus       198 ~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~--p~~~~~~a~~~l~~~~~~~g~~~~a  274 (287)
T 3qou_A          198 QAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXD--LTAADGQTRXTFQEILAALGTGDAL  274 (287)
T ss_dssp             HHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTGGGGHHHHHHHHHHHHHCTTCHH
T ss_pred             hcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc--cccccchHHHHHHHHHHHcCCCCcH
Confidence            677777888887766541 3356778888888888888888888888877642  33   56788888888888888888


Q ss_pred             HHHHHHH
Q 025612          218 AAVRRDC  224 (250)
Q Consensus       218 ~~~~~~m  224 (250)
                      ...++.-
T Consensus       275 ~~~~r~a  281 (287)
T 3qou_A          275 ASXYRRQ  281 (287)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7777654

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.36  E-value=3.1e-05  Score=52.99  Aligned_cols=109  Identities=12%  Similarity=0.081  Sum_probs=79.7

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      .+...+...|++++|.+.|+++.+..  +.+..++..+...|.+.|++++|...|+++.... +.+..+|..+...|...
T Consensus        14 ~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~   90 (125)
T 1na0_A           14 NLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQ   90 (125)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHC--cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHh
Confidence            35567778888888888888876531  3457788888888889999999999998887642 34677888888888999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 025612          177 GMIDKAMETYETMKASGCTPHKLTFTILIRNLE  209 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~  209 (250)
                      |++++|...|+++.+.. .-+...+..+-..+.
T Consensus        91 ~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  122 (125)
T 1na0_A           91 GDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQ  122 (125)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            99999999998887642 123444444444443

>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=98.35  E-value=3.9e-05  Score=61.98  Aligned_cols=129  Identities=12%  Similarity=0.062  Sum_probs=99.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHcCCCHHHHHHHHHHHHhCCC-CCC----HHHHHH
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDL----SLYSDMILMLGKNKQIAMAEELFCELKKEGL-DPD----TRVYTE  168 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~----~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~-~p~----~~ty~~  168 (250)
                      .+..+.+.|++++|..++++..+.....|+.    ..|..+...|...+++++|...|++...... .++    ..+|+.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            4677889999999999999987533333332    2344577777888899999999999877322 223    347999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHH----C-CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          169 MIGVYLQVGMIDKAMETYETMKA----S-GCTPHK-LTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       169 li~~~~~~g~~~~a~~~~~~m~~----~-g~~p~~-~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      +-..|...|++++|...|++..+    . +..+.. .+|..+-..|.+.|++++|.+.+++..+
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~  224 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIE  224 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            99999999999999999999874    2 222323 4788999999999999999999988754

>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=98.35  E-value=3.4e-05  Score=55.98  Aligned_cols=125  Identities=11%  Similarity=0.029  Sum_probs=93.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  177 (250)
                      +-..+...|++++|...|....+..  +.+...|..+...|...|++++|...|++..... +.+...|..+...|...|
T Consensus        19 ~a~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~   95 (166)
T 1a17_A           19 QANDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALG   95 (166)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhc
Confidence            4556778899999999998876531  3357888888889999999999999998876642 335778888888999999


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHH--HHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          178 MIDKAMETYETMKASGCTPHKLTF--TILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       178 ~~~~a~~~~~~m~~~g~~p~~~ty--~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      ++++|...|++..+.. .-+...+  ..+...+.+.|++++|.+.+.....
T Consensus        96 ~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           96 KFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            9999999999887642 1234444  3444447788899999888877643

>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=98.35  E-value=1.3e-05  Score=59.63  Aligned_cols=158  Identities=15%  Similarity=0.117  Sum_probs=113.9

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhc-CcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HH
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRL-LKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILM-LG  139 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~-~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~-~~  139 (250)
                      .+.....+...|++++|...|++..+.. -.+... .+-..+.+.|++++|...|+...+.   .|+...+..+... +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHHHHH
Confidence            4455677888999999999999875422 112222 5777888999999999999987643   2344433322211 12


Q ss_pred             cCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHH
Q 025612          140 KNKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELV  217 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a  217 (250)
                      ..+...+|...|++..+.  .| +...+..+-..|...|++++|...|++..+..=.+ +...+..+...+...|+.++|
T Consensus        86 ~~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             hhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            222333578888887663  35 57889999999999999999999999998753221 356888999999999999999


Q ss_pred             HHHHHHHH
Q 025612          218 AAVRRDCI  225 (250)
Q Consensus       218 ~~~~~~m~  225 (250)
                      ...|+...
T Consensus       164 ~~~y~~al  171 (176)
T 2r5s_A          164 ASKYRRQL  171 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988754

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.33  E-value=1.5e-05  Score=66.47  Aligned_cols=151  Identities=9%  Similarity=-0.109  Sum_probs=112.4

Q ss_pred             hhHHHHHHHHHHHh----cCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHcCCC
Q 025612           76 SSKLEEGFQSRICR----LLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPD----LSLYSDMILMLGKNKQ  143 (250)
Q Consensus        76 ~~~a~~l~~~m~~~----~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~y~~li~~~~~~~~  143 (250)
                      +++|...+.+....    +..+...    .+-..+...|++++|...|++..+...-.++    ..+|..+-..|...|+
T Consensus       163 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  242 (406)
T 3sf4_A          163 LQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE  242 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            89999998886532    2222222    4677788999999999999987532111222    3478889999999999


Q ss_pred             HHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCC
Q 025612          144 IAMAEELFCELKKE----GLDPD-TRVYTEMIGVYLQVGMIDKAMETYETMKAS----GCTP-HKLTFTILIRNLENAGE  213 (250)
Q Consensus       144 ~~~A~~~~~~m~~~----g~~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~ty~~li~~~~~~g~  213 (250)
                      +++|...|++....    +-.+. ..++..+...|...|++++|...|++..+.    +-.+ ...++..+-..|...|+
T Consensus       243 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~  322 (406)
T 3sf4_A          243 FETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGN  322 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            99999999887542    11111 567888999999999999999999987643    2111 15678889999999999


Q ss_pred             HHHHHHHHHHHHh
Q 025612          214 EELVAAVRRDCIQ  226 (250)
Q Consensus       214 ~~~a~~~~~~m~~  226 (250)
                      +++|.+.+++..+
T Consensus       323 ~~~A~~~~~~al~  335 (406)
T 3sf4_A          323 HDQAMHFAEKHLE  335 (406)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.31  E-value=1.2e-05  Score=65.04  Aligned_cols=152  Identities=9%  Similarity=-0.096  Sum_probs=112.0

Q ss_pred             hhHHHHHHHHHHHh----cCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHcCCC
Q 025612           76 SSKLEEGFQSRICR----LLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPD----LSLYSDMILMLGKNKQ  143 (250)
Q Consensus        76 ~~~a~~l~~~m~~~----~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~y~~li~~~~~~~~  143 (250)
                      +++|...+++....    +..+...    .+-..+...|++++|.+.+++..+...-.++    ..++..+...|...|+
T Consensus       159 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  238 (338)
T 3ro2_A          159 LQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE  238 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCC
Confidence            88898888886532    2222222    4677788899999999999987532111112    3478889999999999


Q ss_pred             HHHHHHHHHHHHhCC-CCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCC
Q 025612          144 IAMAEELFCELKKEG-LDPD----TRVYTEMIGVYLQVGMIDKAMETYETMKAS----GCTP-HKLTFTILIRNLENAGE  213 (250)
Q Consensus       144 ~~~A~~~~~~m~~~g-~~p~----~~ty~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~ty~~li~~~~~~g~  213 (250)
                      +++|.+.|++..... -..+    ..++..+...|...|++++|...+++..+.    +-.+ ...++..+-..|.+.|+
T Consensus       239 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~  318 (338)
T 3ro2_A          239 FETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGN  318 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            999999998865421 0112    567888889999999999999999987543    2111 24578889999999999


Q ss_pred             HHHHHHHHHHHHhc
Q 025612          214 EELVAAVRRDCIQY  227 (250)
Q Consensus       214 ~~~a~~~~~~m~~~  227 (250)
                      +++|.+.+++..+.
T Consensus       319 ~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          319 HDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             hHHHHHHHHHHHHH
Confidence            99999999988754

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.30  E-value=2.4e-05  Score=58.96  Aligned_cols=155  Identities=14%  Similarity=-0.019  Sum_probs=108.6

Q ss_pred             HhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHH---hCCCCC-CHHHHHHHHHHHHcCC
Q 025612           71 KLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRK---EVWYKP-DLSLYSDMILMLGKNK  142 (250)
Q Consensus        71 ~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~---~~g~~~-~~~~y~~li~~~~~~~  142 (250)
                      ...|++++|.++++....  .++...    .+-..+...|++++|...|++..+   ..+..+ ...+++.+-..|...|
T Consensus         3 ~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g   80 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA--HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAG   80 (203)
T ss_dssp             ----CHHHHHHHHHHHHT--STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             cccccHHHHHHHHHHhcC--ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcC
Confidence            456889999985555432  222222    466777889999999999998653   122222 3567888889999999


Q ss_pred             CHHHHHHHHHHHHhC----CCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhc
Q 025612          143 QIAMAEELFCELKKE----GLDP--DTRVYTEMIGVYLQVGMIDKAMETYETMKAS----GCTP-HKLTFTILIRNLENA  211 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~----g~~p--~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~ty~~li~~~~~~  211 (250)
                      ++++|.+.|++....    |-.|  ....++.+-..|...|++++|...+++....    +-.+ -..++..+-..+...
T Consensus        81 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  160 (203)
T 3gw4_A           81 NWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQE  160 (203)
T ss_dssp             CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHC
Confidence            999999999886542    2121  2456788888999999999999999886532    2111 123467888899999


Q ss_pred             CCHHHHHHHHHHHHhc
Q 025612          212 GEEELVAAVRRDCIQY  227 (250)
Q Consensus       212 g~~~~a~~~~~~m~~~  227 (250)
                      |++++|.+.+++..+.
T Consensus       161 g~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          161 KNLLEAQQHWLRARDI  176 (203)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHH
Confidence            9999999999887653

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=98.29  E-value=0.00047  Score=59.76  Aligned_cols=154  Identities=10%  Similarity=-0.029  Sum_probs=96.3

Q ss_pred             HHHHHHHh----cCChhHHHHHHHHHHHhcCcccHHHHHHHHHH----cCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 025612           65 QAVHAMKL----AKSSSKLEEGFQSRICRLLKADLLDTLTELRR----QNELDLALKVFNFVRKEVWYKPDLSLYSDMIL  136 (250)
Q Consensus        65 ~ll~~~~~----~~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~  136 (250)
                      .+-..+..    .++.++|...|++..+.|.......+-..|..    .+++++|.+.|+...+ .|   +...+..|-.
T Consensus        44 ~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~-~~---~~~a~~~Lg~  119 (490)
T 2xm6_A           44 ELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAAL-KG---LPQAQQNLGV  119 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHH
T ss_pred             HHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH-CC---CHHHHHHHHH
Confidence            34444555    67777777777777666544333345555555    6777777777777654 32   4555666666


Q ss_pred             HHHc----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 025612          137 MLGK----NKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQ----VGMIDKAMETYETMKASGCTPHKLTFTILIRNL  208 (250)
Q Consensus       137 ~~~~----~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~  208 (250)
                      .|..    .+++++|.+.|++..+.|   +...+..|-..|..    .++.++|.+.|++..+.|   +...+..|-..|
T Consensus       120 ~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y  193 (490)
T 2xm6_A          120 MYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMY  193 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHH
Confidence            6666    667777777777766654   45556666666665    566777777777666653   455666666666


Q ss_pred             Hh----cCCHHHHHHHHHHHHhcc
Q 025612          209 EN----AGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       209 ~~----~g~~~~a~~~~~~m~~~g  228 (250)
                      ..    .+++++|.++|+...+.|
T Consensus       194 ~~g~g~~~~~~~A~~~~~~a~~~~  217 (490)
T 2xm6_A          194 SRGLGVERNDAISAQWYRKSATSG  217 (490)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             hcCCCCCcCHHHHHHHHHHHHHCC
Confidence            65    566666666666665554

>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=98.27  E-value=5.6e-05  Score=61.60  Aligned_cols=159  Identities=9%  Similarity=-0.024  Sum_probs=114.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhc----CcccHH----HHHHHHHHcCCHHHHHHHHHHHHHh---CCCCC-CHHHHHH
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRL----LKADLL----DTLTELRRQNELDLALKVFNFVRKE---VWYKP-DLSLYSD  133 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~----~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~---~g~~~-~~~~y~~  133 (250)
                      +...+...|++++|...|.+.....    -.+...    .+-..|.+.|++++|...|++..+-   .|-.. ...+|+.
T Consensus        42 a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~  121 (307)
T 2ifu_A           42 AAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDR  121 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3556778899999999999876432    111111    3667777889999999999875431   22111 1467888


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCCCH-HHHHH
Q 025612          134 MILMLGKNKQIAMAEELFCELKKE----GLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKAS----GCTPHK-LTFTI  203 (250)
Q Consensus       134 li~~~~~~~~~~~A~~~~~~m~~~----g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~-~ty~~  203 (250)
                      +-..|.. |++++|+..|++..+.    |-.+ ...+|+.+-..|.+.|++++|...|++....    +..++. .++..
T Consensus       122 lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  200 (307)
T 2ifu_A          122 AGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIA  200 (307)
T ss_dssp             HHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHH
Confidence            8888988 9999999999886542    1111 1467888899999999999999999987652    322222 36777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHH
Q 025612          204 LIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       204 li~~~~~~g~~~~a~~~~~~m~  225 (250)
                      +...+...|++++|.+.|++..
T Consensus       201 ~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          201 QVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHh
Confidence            7778888899999999999877

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.27  E-value=1.5e-05  Score=67.03  Aligned_cols=162  Identities=11%  Similarity=-0.045  Sum_probs=113.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcCc-ccH----H-HHHHHHHHcCCHHHHHHHHHHHHHh---CCC-CCCHHHHHHH
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLLK-ADL----L-DTLTELRRQNELDLALKVFNFVRKE---VWY-KPDLSLYSDM  134 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~----~-~ll~~~~~~~~~~~a~~~~~~m~~~---~g~-~~~~~~y~~l  134 (250)
                      .+-..+...|++++|...|++..+..-. +..    . .+-..+...|++++|...|++..+.   .+- ......|..+
T Consensus        53 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  132 (411)
T 4a1s_A           53 LEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNL  132 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHH
Confidence            3456677889999999999998875332 211    1 4666777889999999998886531   111 1235677888


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhcCC-----------------hHHHHHHHHHHHHC
Q 025612          135 ILMLGKNKQIAMAEELFCELKKE----GL-DPDTRVYTEMIGVYLQVGM-----------------IDKAMETYETMKAS  192 (250)
Q Consensus       135 i~~~~~~~~~~~A~~~~~~m~~~----g~-~p~~~ty~~li~~~~~~g~-----------------~~~a~~~~~~m~~~  192 (250)
                      -..|...|++++|...|++....    +- .....+|..+-..|...|+                 +++|.+.+++..+.
T Consensus       133 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~  212 (411)
T 4a1s_A          133 GNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKL  212 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHH
Confidence            88889999999999988876542    11 1124567788888888888                 88888888775432


Q ss_pred             ----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          193 ----GCTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       193 ----g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                          +-.| ...++..+-..|...|++++|.+.+++..+
T Consensus       213 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  251 (411)
T 4a1s_A          213 MRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLR  251 (411)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence                2212 234677788888888888888888887654

>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=98.27  E-value=9.6e-05  Score=49.96  Aligned_cols=99  Identities=13%  Similarity=-0.001  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRN  207 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~  207 (250)
                      ...|..+...+...|++++|...|++..... +.+...|..+...|...|++++|...+++..+.. ..+...+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            3455556666666666666666666655431 2245556666666666666666666666665532 1245566666666


Q ss_pred             HHhcCCHHHHHHHHHHHHhcc
Q 025612          208 LENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       208 ~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      +...|++++|.+.++...+.+
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHhhHHHHHHHHHHHHHcC
Confidence            666667777766666665543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.25  E-value=3.2e-05  Score=65.01  Aligned_cols=165  Identities=11%  Similarity=-0.061  Sum_probs=121.5

Q ss_pred             HHHHHHHhcCC-----------------hhHHHHHHHHHHHh----cCcccHH----HHHHHHHHcCCHHHHHHHHHHHH
Q 025612           65 QAVHAMKLAKS-----------------SSKLEEGFQSRICR----LLKADLL----DTLTELRRQNELDLALKVFNFVR  119 (250)
Q Consensus        65 ~ll~~~~~~~~-----------------~~~a~~l~~~m~~~----~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~  119 (250)
                      .+...+...|+                 +++|...+.+..+.    +..+...    .+-..+...|++++|...|++..
T Consensus       171 ~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  250 (411)
T 4a1s_A          171 NLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERL  250 (411)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            34566777788                 88999888886532    2222222    47777889999999999999875


Q ss_pred             HhCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCC--CC---CCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 025612          120 KEVWYKPD----LSLYSDMILMLGKNKQIAMAEELFCELKKEG--LD---PDTRVYTEMIGVYLQVGMIDKAMETYETMK  190 (250)
Q Consensus       120 ~~~g~~~~----~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g--~~---p~~~ty~~li~~~~~~g~~~~a~~~~~~m~  190 (250)
                      +...-.++    ...|..+...|...|++++|...|++.....  ..   ....+|..+...|...|++++|...|++..
T Consensus       251 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  330 (411)
T 4a1s_A          251 RIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHL  330 (411)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            42111112    3478899999999999999999998875431  10   125678888999999999999999999876


Q ss_pred             HC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC
Q 025612          191 AS----GCTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQYVE  229 (250)
Q Consensus       191 ~~----g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~  229 (250)
                      ..    +..+ ...+|..+-..|...|++++|.+.+++..+..-
T Consensus       331 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  374 (411)
T 4a1s_A          331 AIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAX  374 (411)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHh
Confidence            53    2111 235788899999999999999999999876543

>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=98.24  E-value=0.00021  Score=54.21  Aligned_cols=123  Identities=11%  Similarity=-0.042  Sum_probs=99.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcCcccHH---HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcC
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLLKADLL---DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKN  141 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~---~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~  141 (250)
                      .....+...|++++|...|++..    .|+..   .+-..+.+.|++++|...|+...+..  +.+...|..+-.+|...
T Consensus        11 ~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~lg~~~~~~   84 (213)
T 1hh8_A           11 NEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGMLYYQT   84 (213)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHc
Confidence            34566778899999999999864    33333   57778889999999999999987532  34678899999999999


Q ss_pred             CCHHHHHHHHHHHHhCC--------------CCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 025612          142 KQIAMAEELFCELKKEG--------------LDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKASG  193 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~~g--------------~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  193 (250)
                      |++++|...|++..+..              ..| +...|..+-..|.+.|++++|...|+...+..
T Consensus        85 ~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           85 EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             ccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            99999999999987742              111 23678888999999999999999999988753

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.23  E-value=8.1e-05  Score=51.68  Aligned_cols=97  Identities=12%  Similarity=0.078  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRN  207 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~  207 (250)
                      ...|..+-..|.+.|++++|.+.|++..... +.+...|..+...|...|++++|...|++..+.. ..+...+..+-..
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   93 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            4445555555555555555555555544321 1234455555555555555555555555544421 1234455555555


Q ss_pred             HHhcCCHHHHHHHHHHHHh
Q 025612          208 LENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       208 ~~~~g~~~~a~~~~~~m~~  226 (250)
                      +.+.|++++|.+.++...+
T Consensus        94 ~~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            5555555555555555543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=98.23  E-value=0.00066  Score=58.82  Aligned_cols=157  Identities=10%  Similarity=-0.026  Sum_probs=101.8

Q ss_pred             HHHHHHHHHh----cCChhHHHHHHHHHHHhcCcccHHHHHHHHHH----cCCHHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 025612           63 AIQAVHAMKL----AKSSSKLEEGFQSRICRLLKADLLDTLTELRR----QNELDLALKVFNFVRKEVWYKPDLSLYSDM  134 (250)
Q Consensus        63 ~~~ll~~~~~----~~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~g~~~~~~~y~~l  134 (250)
                      ...+-..+..    .++.++|...|++..+.|.......+-..|..    .+++++|...|+...+ .|   +...+..|
T Consensus        78 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~-~~---~~~a~~~L  153 (490)
T 2xm6_A           78 EYVLGLRYMNGEGVPQDYAQAVIWYKKAALKGLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAE-QG---RDSGQQSM  153 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH-CC---CHHHHHHH
Confidence            3334455555    67888888888887776643333344445555    6778888888887754 33   45666666


Q ss_pred             HHHHHc----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 025612          135 ILMLGK----NKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQ----VGMIDKAMETYETMKASGCTPHKLTFTILIR  206 (250)
Q Consensus       135 i~~~~~----~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~  206 (250)
                      -..|..    .+++++|.+.|++..+.|   +...+..|-..|..    .++.++|.+.|++..+.|   +...+..+-.
T Consensus       154 g~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~  227 (490)
T 2xm6_A          154 GDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLAD  227 (490)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHH
Confidence            666665    677777877777776654   56666666666666    677777777777766654   4455556666


Q ss_pred             HHHh----cCCHHHHHHHHHHHHhccC
Q 025612          207 NLEN----AGEEELVAAVRRDCIQYVE  229 (250)
Q Consensus       207 ~~~~----~g~~~~a~~~~~~m~~~g~  229 (250)
                      .|..    .+++++|.++|+...+.|.
T Consensus       228 ~y~~g~g~~~~~~~A~~~~~~a~~~~~  254 (490)
T 2xm6_A          228 MYYFGIGVTQDYTQSRVLFSQSAEQGN  254 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHTTTC
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCCC
Confidence            6654    5666777766666655543

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.21  E-value=5e-05  Score=61.22  Aligned_cols=160  Identities=11%  Similarity=-0.044  Sum_probs=89.8

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCc-cc----HH-HHHHHHHHcCCHHHHHHHHHHHHHh---CCCCC-CHHHHHHHHH
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLK-AD----LL-DTLTELRRQNELDLALKVFNFVRKE---VWYKP-DLSLYSDMIL  136 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~-~~----~~-~ll~~~~~~~~~~~a~~~~~~m~~~---~g~~~-~~~~y~~li~  136 (250)
                      -..+...|++++|...|++..+.... +.    .. .+-..+...|++++|.+.++...+.   .+-.| ....+..+-.
T Consensus        12 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~   91 (338)
T 3ro2_A           12 GERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGN   91 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHH
Confidence            44555667777777777776654321 11    01 3555666677777777777664321   11111 2445666666


Q ss_pred             HHHcCCCHHHHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCC--------------------hHHHHHHHHHHHH
Q 025612          137 MLGKNKQIAMAEELFCELKKE-GLDPD----TRVYTEMIGVYLQVGM--------------------IDKAMETYETMKA  191 (250)
Q Consensus       137 ~~~~~~~~~~A~~~~~~m~~~-g~~p~----~~ty~~li~~~~~~g~--------------------~~~a~~~~~~m~~  191 (250)
                      .|...|++++|...|++..+. .-.++    ..+|..+...|...|+                    +++|.+.+++...
T Consensus        92 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~  171 (338)
T 3ro2_A           92 TLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLS  171 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            777777777777777665331 00112    3356666666667777                    6777766665432


Q ss_pred             C----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          192 S----GCTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       192 ~----g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      .    +-.| ...++..+-..+...|++++|.+.+++..+
T Consensus       172 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  211 (338)
T 3ro2_A          172 LVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLL  211 (338)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            1    1111 123566666666677777777777666543

>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=98.20  E-value=0.00025  Score=54.48  Aligned_cols=143  Identities=6%  Similarity=-0.071  Sum_probs=114.9

Q ss_pred             hHHHHHHHHHHHhcCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCC----CHHHHHHHHH
Q 025612           77 SKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNK----QIAMAEELFC  152 (250)
Q Consensus        77 ~~a~~l~~~m~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~----~~~~A~~~~~  152 (250)
                      ++|...|.+..+.|.......+-..+...+++++|.+.|....+ .|   +...+..|=..|.. +    ++++|.+.|+
T Consensus         3 ~eA~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~-~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~   77 (212)
T 3rjv_A            3 TEPGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAA-QG---DGDALALLAQLKIR-NPQQADYPQARQLAE   77 (212)
T ss_dssp             -CTTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH-TT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHH
T ss_pred             chHHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH-cC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHH
Confidence            35667777777766554444566677789999999999999875 44   67778888888887 6    8999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHh----cCCHHHHHHHHHH
Q 025612          153 ELKKEGLDPDTRVYTEMIGVYLQ----VGMIDKAMETYETMKASGCT-PHKLTFTILIRNLEN----AGEEELVAAVRRD  223 (250)
Q Consensus       153 ~m~~~g~~p~~~ty~~li~~~~~----~g~~~~a~~~~~~m~~~g~~-p~~~ty~~li~~~~~----~g~~~~a~~~~~~  223 (250)
                      +..+.|   +...+..|-..|..    .++.++|.+.|++..+.|.. -+...+..|-..|..    .+++++|.++|+.
T Consensus        78 ~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           78 KAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            998765   67788888888877    88999999999999887632 026788888888888    7899999999999


Q ss_pred             HHhc
Q 025612          224 CIQY  227 (250)
Q Consensus       224 m~~~  227 (250)
                      ..+.
T Consensus       155 A~~~  158 (212)
T 3rjv_A          155 SSSL  158 (212)
T ss_dssp             HHHT
T ss_pred             HHHc
Confidence            9877

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.20  E-value=6.8e-05  Score=51.70  Aligned_cols=112  Identities=10%  Similarity=-0.039  Sum_probs=69.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  177 (250)
                      +-..+...|++++|...|+...+..  +.+...|..+...|...|++++|.+.+++..... +.+...|..+...|.+.|
T Consensus        18 ~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~   94 (131)
T 2vyi_A           18 EGNEQMKVENFEAAVHFYGKAIELN--PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALSSLN   94 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHHHhC
Confidence            4455566777777777777765421  2346666777777777777777777777665531 224566666677777777


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 025612          178 MIDKAMETYETMKASGCTPHKLTFTILIRNLENAGE  213 (250)
Q Consensus       178 ~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~  213 (250)
                      ++++|...|++..+.. ..+...+..+..++.+.|+
T Consensus        95 ~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           95 KHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            7777777777765542 1244555566666655554

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.20  E-value=3.7e-05  Score=64.14  Aligned_cols=162  Identities=12%  Similarity=-0.016  Sum_probs=105.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHh----cCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC----HHHHH
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICR----LLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPD----LSLYS  132 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~----~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~y~  132 (250)
                      .+...+...|++++|...+++....    +..|...    .+-..+...|++++|...|++..+...-.++    ..++.
T Consensus        52 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  131 (406)
T 3sf4_A           52 QLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALY  131 (406)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHH
Confidence            4466677778888888888876532    2223222    3566677888888888888876431111112    44677


Q ss_pred             HHHHHHHcCCC--------------------HHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhcCChHHHHHHHH
Q 025612          133 DMILMLGKNKQ--------------------IAMAEELFCELKK----EGLDP-DTRVYTEMIGVYLQVGMIDKAMETYE  187 (250)
Q Consensus       133 ~li~~~~~~~~--------------------~~~A~~~~~~m~~----~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~  187 (250)
                      .+-..|...|+                    +++|.+.+++...    .+-.| ...+|..+...|...|++++|...|+
T Consensus       132 ~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  211 (406)
T 3sf4_A          132 NLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHE  211 (406)
T ss_dssp             HHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHH
T ss_pred             HHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            77788888888                    8888888776533    11111 13467777788888888888888887


Q ss_pred             HHHHC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          188 TMKAS-GCTPH----KLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       188 ~m~~~-g~~p~----~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      +..+. .-.++    ..+|..+-..|...|++++|.+.+++..+
T Consensus       212 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  255 (406)
T 3sf4_A          212 QRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLL  255 (406)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            76532 00122    23677777888888888888888877654

>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=98.19  E-value=6.3e-05  Score=68.36  Aligned_cols=152  Identities=10%  Similarity=-0.003  Sum_probs=123.2

Q ss_pred             HhcCChhHHHHHHHHHHH------hcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc
Q 025612           71 KLAKSSSKLEEGFQSRIC------RLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK  140 (250)
Q Consensus        71 ~~~~~~~~a~~l~~~m~~------~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~  140 (250)
                      ...|++++|.+.+++...      ....|+..    .+-.++...|++++|.+.|++..+..  +-+...|..+-.+|..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV--GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC--cchHHHHHHHHHHHHH
Confidence            667999999999999871      11223221    46677889999999999999987532  3367889999999999


Q ss_pred             CCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 025612          141 NKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAA  219 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~  219 (250)
                      .|++++|.+.|++..+.  .| +...|..+-..|.+.|++++ .+.|++..+.. .-+...|..+-.++.+.|++++|.+
T Consensus       480 ~g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             HTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999998764  34 56788899999999999999 99999987743 2256789999999999999999999


Q ss_pred             HHHHHHhcc
Q 025612          220 VRRDCIQYV  228 (250)
Q Consensus       220 ~~~~m~~~g  228 (250)
                      .|++..+..
T Consensus       556 ~~~~al~l~  564 (681)
T 2pzi_A          556 TLDEVPPTS  564 (681)
T ss_dssp             HHHTSCTTS
T ss_pred             HHHhhcccC
Confidence            998876644

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.16  E-value=0.00026  Score=50.06  Aligned_cols=99  Identities=12%  Similarity=0.001  Sum_probs=66.5

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 025612          127 DLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPD----TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFT  202 (250)
Q Consensus       127 ~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~----~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~  202 (250)
                      +...+..+-..+...|++++|...|++..+.  .|+    ...|..+...|...|++++|...+++..+.. ..+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            4566667777777777777777777776653  355    5666666777777777777777777765532 12456666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          203 ILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       203 ~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      .+-.+|...|++++|.+.|+...+..
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            77777777777777777777766543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.16  E-value=0.00019  Score=49.34  Aligned_cols=101  Identities=8%  Similarity=0.028  Sum_probs=86.1

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 025612          127 DLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIR  206 (250)
Q Consensus       127 ~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~  206 (250)
                      +...|..+...+...|++++|...|++..... +.+...|..+...|...|++++|...++...+.. ..+...+..+-.
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            46678888899999999999999999987642 3367889999999999999999999999987753 235788899999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhccC
Q 025612          207 NLENAGEEELVAAVRRDCIQYVE  229 (250)
Q Consensus       207 ~~~~~g~~~~a~~~~~~m~~~g~  229 (250)
                      .+.+.|+++.|.+.++...+..-
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~p  111 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELDP  111 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCc
Confidence            99999999999999999887643

>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=98.15  E-value=9.2e-05  Score=53.65  Aligned_cols=134  Identities=13%  Similarity=0.041  Sum_probs=93.4

Q ss_pred             hcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHH
Q 025612           72 LAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMA  147 (250)
Q Consensus        72 ~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A  147 (250)
                      ..|++++|...+.....  ..|+..    .+-..|.+.|++++|.+.|+...+. . +-+...|..+-.+|.+.|++++|
T Consensus         9 ~~~~~e~ai~~~~~a~~--~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~-~-p~~~~a~~~lg~~~~~~~~~~~A   84 (150)
T 4ga2_A            9 SKADVERYIASVQGSTP--SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV-Q-ERDPKAHRFLGLLYELEENTDKA   84 (150)
T ss_dssp             CHHHHHHHHHHHHHHSC--SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HcChHHHHHHHHHHhcc--cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHHcCchHHH
Confidence            34667777777776542  233322    4667788889999999999887653 1 23578888888889999999999


Q ss_pred             HHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHH-HHHHHHCCCCC-CHHHHHHHHHHHHhcCC
Q 025612          148 EELFCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMET-YETMKASGCTP-HKLTFTILIRNLENAGE  213 (250)
Q Consensus       148 ~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~-~~~m~~~g~~p-~~~ty~~li~~~~~~g~  213 (250)
                      ...|++..+.  .| +...|..+-..|.+.|+.+++.+. +++..+.  .| +...|...-..+.+.|+
T Consensus        85 ~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l--~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           85 VECYRRSVEL--NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL--FPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH--STTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhCc
Confidence            9998887763  34 467788888888888888776654 4666552  35 45666666666666553

>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=98.15  E-value=0.00012  Score=50.39  Aligned_cols=96  Identities=13%  Similarity=0.059  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC--CCCC----HHHHHH
Q 025612          130 LYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASG--CTPH----KLTFTI  203 (250)
Q Consensus       130 ~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~----~~ty~~  203 (250)
                      .|..+-..|...|++++|...|++..... +.+...|..+...|...|++++|...|++.....  ..++    ..+|..
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            34444444444555555555554443321 1234444444444455555555555554443321  0111    344444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh
Q 025612          204 LIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       204 li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      +-.++.+.|+++.|.+.++...+
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHH
Confidence            44555555555555555555444

>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=98.15  E-value=0.00012  Score=52.94  Aligned_cols=125  Identities=11%  Similarity=-0.073  Sum_probs=94.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK  140 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~  140 (250)
                      ...+...+...|++++|...|++..+..-. +... .+-..+...|++++|...|+...+..  +.+...|..+-..|.+
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~~~   93 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHH
Confidence            334566777889999999999998764322 2222 57777889999999999999987532  3467889999999999


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHH--HHHHHHhcCChHHHHHHHHHHH
Q 025612          141 NKQIAMAEELFCELKKEGLDPDTRVYTE--MIGVYLQVGMIDKAMETYETMK  190 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~~g~~p~~~ty~~--li~~~~~~g~~~~a~~~~~~m~  190 (250)
                      .|++++|...|++..+.. +-+...+..  +...+.+.|++++|...+....
T Consensus        94 ~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           94 LGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             TTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            999999999999987642 224445533  3444778899999999988764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.13  E-value=0.00017  Score=60.23  Aligned_cols=161  Identities=13%  Similarity=-0.020  Sum_probs=109.5

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhcC-----cccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC----HHH
Q 025612           64 IQAVHAMKLAKSSSKLEEGFQSRICRLL-----KADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPD----LSL  130 (250)
Q Consensus        64 ~~ll~~~~~~~~~~~a~~l~~~m~~~~~-----~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~  130 (250)
                      ..+-..+...|++++|...+.+..+..-     .+...    .+-..|...|++++|...|++..+...-.++    ..+
T Consensus       147 ~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  226 (383)
T 3ulq_A          147 FKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRT  226 (383)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHH
Confidence            3456677788999999999998764211     22222    3567778889999999999886531111122    357


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCCCHHHH
Q 025612          131 YSDMILMLGKNKQIAMAEELFCELKKE----GL-DPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS----GCTPHKLTF  201 (250)
Q Consensus       131 y~~li~~~~~~~~~~~A~~~~~~m~~~----g~-~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~~ty  201 (250)
                      |+.+-..|...|++++|.+.|++..+.    +- +....++..+-..|.+.|++++|...+++..+.    +-......+
T Consensus       227 ~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  306 (383)
T 3ulq_A          227 LYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEF  306 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            888889999999999999999887651    33 334677888889999999999999999876542    222222335


Q ss_pred             HHHHHHHHhcCC---HHHHHHHHHHH
Q 025612          202 TILIRNLENAGE---EELVAAVRRDC  224 (250)
Q Consensus       202 ~~li~~~~~~g~---~~~a~~~~~~m  224 (250)
                      ..+-..|...|+   +++|..+++..
T Consensus       307 ~~l~~~~~~~~~~~~~~~al~~~~~~  332 (383)
T 3ulq_A          307 EFLKSLYLSGPDEEAIQGFFDFLESK  332 (383)
T ss_dssp             HHHHHHHTSSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHC
Confidence            666666777777   44555544443

>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=98.13  E-value=0.0002  Score=49.67  Aligned_cols=95  Identities=8%  Similarity=-0.054  Sum_probs=47.9

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 025612          130 LYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLE  209 (250)
Q Consensus       130 ~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~  209 (250)
                      .|..+-..+.+.|++++|...|++..+.. +.+...|..+-.+|.+.|++++|...|++..+.. .-+...|..+-.++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            34444445555555555555555544321 1234555555555555555555555555554431 113445555555555


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 025612          210 NAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       210 ~~g~~~~a~~~~~~m~~  226 (250)
                      ..|++++|.+.|+...+
T Consensus        84 ~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           84 AVKEYASALETLDAART  100 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHH
Confidence            55555555555555544

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.13  E-value=0.00032  Score=51.06  Aligned_cols=96  Identities=14%  Similarity=0.079  Sum_probs=64.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  177 (250)
                      +-..+.+.|++++|...|+...+. . +-+...|..+-.+|...|++++|...|++..... +-+...|..+-.+|.+.|
T Consensus        42 lg~~~~~~g~~~eA~~~~~~al~~-~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~~~lg  118 (151)
T 3gyz_A           42 YAYDFYNKGRIEEAEVFFRFLCIY-D-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQLRLK  118 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcC
Confidence            445566777777777777777642 1 2246677777777777777777777777766531 124566777777777777


Q ss_pred             ChHHHHHHHHHHHHCCCCCCH
Q 025612          178 MIDKAMETYETMKASGCTPHK  198 (250)
Q Consensus       178 ~~~~a~~~~~~m~~~g~~p~~  198 (250)
                      ++++|...|++..+.  .|+.
T Consensus       119 ~~~eA~~~~~~al~l--~~~~  137 (151)
T 3gyz_A          119 APLKAKECFELVIQH--SNDE  137 (151)
T ss_dssp             CHHHHHHHHHHHHHH--CCCH
T ss_pred             CHHHHHHHHHHHHHh--CCCH
Confidence            777777777777663  3554

>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=98.12  E-value=6.1e-05  Score=55.74  Aligned_cols=119  Identities=9%  Similarity=0.029  Sum_probs=66.6

Q ss_pred             HhcCChhHHHHHHHHHHHhcC-cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHcCCCH--H
Q 025612           71 KLAKSSSKLEEGFQSRICRLL-KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILM-LGKNKQI--A  145 (250)
Q Consensus        71 ~~~~~~~~a~~l~~~m~~~~~-~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~-~~~~~~~--~  145 (250)
                      ...|++++|...++...+..- .+... .+-..+...|++++|...|+...+..  +.+...|..+-.. |...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcchH
Confidence            445666777777766654321 11222 45555666677777777777665421  2245556666666 5566666  7


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 025612          146 MAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS  192 (250)
Q Consensus       146 ~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  192 (250)
                      +|...|++..... +-+...|..+...|...|++++|...|++..+.
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            7777776665531 123555666666666777777777777666553

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.12  E-value=0.00012  Score=51.53  Aligned_cols=89  Identities=17%  Similarity=0.121  Sum_probs=54.4

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 025612          100 TELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMI  179 (250)
Q Consensus       100 ~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~  179 (250)
                      ..+.+.|++++|.+.|++..+..  +.+...|..+-.+|.+.|++++|+..|++..+.. +.+...|..+-.+|...|++
T Consensus        21 ~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~   97 (126)
T 4gco_A           21 NEYFKKGDYPTAMRHYNEAVKRD--PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVAMREW   97 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHHCCCH
Confidence            45566667777777766655421  2245666666666666777777766666655431 22355666666666666666


Q ss_pred             HHHHHHHHHHHH
Q 025612          180 DKAMETYETMKA  191 (250)
Q Consensus       180 ~~a~~~~~~m~~  191 (250)
                      ++|.+.|++..+
T Consensus        98 ~~A~~~~~~al~  109 (126)
T 4gco_A           98 SKAQRAYEDALQ  109 (126)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            666666666655

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.12  E-value=0.00033  Score=49.14  Aligned_cols=103  Identities=12%  Similarity=0.039  Sum_probs=86.2

Q ss_pred             CCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 025612          124 YKPD-LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFT  202 (250)
Q Consensus       124 ~~~~-~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~  202 (250)
                      +.|+ ...|...=..|.+.|++++|.+.|++..+.. +-+...|..+-.+|.+.|++++|+..|++..+.. ..+...|.
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~   85 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYI   85 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHH
Confidence            3443 4567777788999999999999999987642 3468899999999999999999999999987743 23578899


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          203 ILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       203 ~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      .+-.+|...|++++|.+.|+...+..
T Consensus        86 ~lg~~~~~~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           86 RKAACLVAMREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            99999999999999999999988754

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.11  E-value=4.8e-05  Score=51.08  Aligned_cols=96  Identities=9%  Similarity=0.020  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC--CHHHHHHHHHH
Q 025612          130 LYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP--HKLTFTILIRN  207 (250)
Q Consensus       130 ~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~ty~~li~~  207 (250)
                      .|..+-..+.+.|++++|...|++..+.. +.+...|..+...|...|++++|...|++..+.. ..  +...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHH
Confidence            34445555555666666666665554431 2234555555555666666666666666555431 11  34555555566


Q ss_pred             HHhc-CCHHHHHHHHHHHHhc
Q 025612          208 LENA-GEEELVAAVRRDCIQY  227 (250)
Q Consensus       208 ~~~~-g~~~~a~~~~~~m~~~  227 (250)
                      +.+. |++++|.+.+....+.
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHhCCHHHHHHHHHHHhhc
Confidence            6666 6666666666555443

>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=98.11  E-value=0.00016  Score=59.75  Aligned_cols=125  Identities=12%  Similarity=0.030  Sum_probs=95.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-------------HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHH
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPD-------------LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTR  164 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-------------~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~  164 (250)
                      +-..+.+.|++++|...|+...+...-.++             ...|..+-.+|.+.|++++|...|++..+.. +-+..
T Consensus       153 ~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~  231 (336)
T 1p5q_A          153 RGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEK  231 (336)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHH
Confidence            455667778888888888877642211110             5788999999999999999999999887642 33678


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHH-HHHHHHHH
Q 025612          165 VYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELV-AAVRRDCI  225 (250)
Q Consensus       165 ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a-~~~~~~m~  225 (250)
                      .|..+-.+|...|++++|...|++..+.  .| +...+..+-.++.+.|+.+++ .++++.|.
T Consensus       232 a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          232 GLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8889999999999999999999998774  34 567888888889999998888 44566554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.11  E-value=0.00014  Score=50.38  Aligned_cols=110  Identities=17%  Similarity=0.051  Sum_probs=69.0

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  177 (250)
                      +-..+.+.|++++|...|+...+ . .+.+...|..+-..|...|++++|.+.|++..+.. +.+...|..+...|.+.|
T Consensus        22 ~~~~~~~~~~~~~A~~~~~~al~-~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~   98 (133)
T 2lni_A           22 KGNECFQKGDYPQAMKHYTEAIK-R-NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAALEAMK   98 (133)
T ss_dssp             HHHHHHHTTCSHHHHHHHHHHHT-T-CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH-c-CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHHh
Confidence            44555667777777777776653 1 12356667777777777777777777777766531 235667777777777777


Q ss_pred             ChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcC
Q 025612          178 MIDKAMETYETMKASGCTP-HKLTFTILIRNLENAG  212 (250)
Q Consensus       178 ~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g  212 (250)
                      ++++|.+.|++..+.  .| +...+..+-..+.+.|
T Consensus        99 ~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           99 DYTKAMDVYQKALDL--DSSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             CHHHHHHHHHHHHHH--CGGGTHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhc
Confidence            788877777776653  23 2344444545544433

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.08  E-value=0.00047  Score=57.20  Aligned_cols=161  Identities=11%  Similarity=-0.088  Sum_probs=112.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhc----Cc--ccHH----HHHHHHHHcCCHHHHHHHHHHHHHhC---CCCCCHHHHH
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRL----LK--ADLL----DTLTELRRQNELDLALKVFNFVRKEV---WYKPDLSLYS  132 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~----~~--~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~---g~~~~~~~y~  132 (250)
                      +-..+...|++++|...+++.....    ..  |...    .+-..+...|++++|...+++..+..   +......+|.
T Consensus        99 la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  178 (373)
T 1hz4_A           99 QSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLA  178 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHH
Confidence            4555677899999999999876432    21  3222    35567789999999999999875421   1111246788


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhCCCCCC--HHHHH----HHHHHHHhcCChHHHHHHHHHHHHCCCCC---CHHHHHH
Q 025612          133 DMILMLGKNKQIAMAEELFCELKKEGLDPD--TRVYT----EMIGVYLQVGMIDKAMETYETMKASGCTP---HKLTFTI  203 (250)
Q Consensus       133 ~li~~~~~~~~~~~A~~~~~~m~~~g~~p~--~~ty~----~li~~~~~~g~~~~a~~~~~~m~~~g~~p---~~~ty~~  203 (250)
                      .+-..+...|++++|...+++.....-.++  .....    ..+..+...|++++|...+++.....-.+   ....+..
T Consensus       179 ~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  258 (373)
T 1hz4_A          179 MLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRN  258 (373)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHH
Confidence            888899999999999999998764311111  22111    23344778999999999998876543211   1335677


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh
Q 025612          204 LIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       204 li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      +...+...|++++|.+.++....
T Consensus       259 la~~~~~~g~~~~A~~~l~~a~~  281 (373)
T 1hz4_A          259 IARAQILLGEFEPAEIVLEELNE  281 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            88899999999999999988754

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.08  E-value=0.00044  Score=57.40  Aligned_cols=160  Identities=11%  Similarity=-0.031  Sum_probs=115.6

Q ss_pred             HHHHhcCChhHHHHHHHHHHHhcCcccHH-------HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC----HHHHHHHHH
Q 025612           68 HAMKLAKSSSKLEEGFQSRICRLLKADLL-------DTLTELRRQNELDLALKVFNFVRKEVWYKPD----LSLYSDMIL  136 (250)
Q Consensus        68 ~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-------~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~y~~li~  136 (250)
                      ..+...|++++|...+++.....-..+..       .+-..+...|++++|...+++..+...-..+    ..+++.+-.
T Consensus        22 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  101 (373)
T 1hz4_A           22 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE  101 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            34456799999999999987643222211       2445677889999999999986531111122    234667778


Q ss_pred             HHHcCCCHHHHHHHHHHHHhC----CCC--C-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC--CC--CHHHHHHHH
Q 025612          137 MLGKNKQIAMAEELFCELKKE----GLD--P-DTRVYTEMIGVYLQVGMIDKAMETYETMKASGC--TP--HKLTFTILI  205 (250)
Q Consensus       137 ~~~~~~~~~~A~~~~~~m~~~----g~~--p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p--~~~ty~~li  205 (250)
                      .|...|++++|...+++....    +-.  | ....+..+-..|...|++++|...+++.....-  .+  ...+|..+-
T Consensus       102 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  181 (373)
T 1hz4_A          102 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  181 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHH
Confidence            899999999999999886542    222  3 245677788889999999999999998765321  11  346788888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhc
Q 025612          206 RNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       206 ~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      ..+...|++++|.+.+++..+.
T Consensus       182 ~~~~~~g~~~~A~~~l~~a~~~  203 (373)
T 1hz4_A          182 QCSLARGDLDNARSQLNRLENL  203 (373)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999988654

>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=98.06  E-value=0.00027  Score=49.57  Aligned_cols=98  Identities=9%  Similarity=-0.048  Sum_probs=62.3

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 025612          127 DLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIR  206 (250)
Q Consensus       127 ~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~  206 (250)
                      +...|..+-..+...|++++|...|++..... +.+...|..+...|...|++++|...|++..+.. .-+...|..+-.
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            45666666666777777777777776655431 2245666666666777777777777776665532 124556666667


Q ss_pred             HHHhcCCHHHHHHHHHHHHh
Q 025612          207 NLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       207 ~~~~~g~~~~a~~~~~~m~~  226 (250)
                      +|...|+++.|.+.|+...+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            77777777777777766554

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.06  E-value=0.00024  Score=59.41  Aligned_cols=159  Identities=13%  Similarity=0.023  Sum_probs=114.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHh----cCcccHH----HHHHHHHHcCCHHHHHHHHHHHHH---hCCCCCCHHHHHH
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICR----LLKADLL----DTLTELRRQNELDLALKVFNFVRK---EVWYKPDLSLYSD  133 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~----~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~---~~g~~~~~~~y~~  133 (250)
                      .+-..+...|++++|...+++..+.    +..+...    .+-..+...|++++|.+.|.+..+   ..+-+....++..
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  266 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFG  266 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHH
Confidence            4566677889999999999987643    2222211    366677889999999999998753   1122333778889


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhC----CCCCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHCCCCCC-HHHHHHHH
Q 025612          134 MILMLGKNKQIAMAEELFCELKKE----GLDPDTRVYTEMIGVYLQVGM---IDKAMETYETMKASGCTPH-KLTFTILI  205 (250)
Q Consensus       134 li~~~~~~~~~~~A~~~~~~m~~~----g~~p~~~ty~~li~~~~~~g~---~~~a~~~~~~m~~~g~~p~-~~ty~~li  205 (250)
                      +-..|.+.|++++|...+++..+.    +-+.....++.+-..|...|+   +.+|..+++.   .+..|+ ...+..+-
T Consensus       267 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la  343 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAA  343 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHH
Confidence            999999999999999999987653    122224456666667777788   7777777765   333333 34667888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHh
Q 025612          206 RNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       206 ~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      ..|...|++++|.+.|+...+
T Consensus       344 ~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          344 AVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999988764

>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=98.06  E-value=0.00011  Score=54.31  Aligned_cols=122  Identities=7%  Similarity=0.022  Sum_probs=94.6

Q ss_pred             HHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCCh--
Q 025612          103 RRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGV-YLQVGMI--  179 (250)
Q Consensus       103 ~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~-~~~~g~~--  179 (250)
                      ...|++++|...|....+..  +.+...|..+-..|...|++++|...|++..+.. +.+...|..+... |...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN--PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            46788889999998876532  3467889999999999999999999999887642 2366777788778 7788998  


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          180 DKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       180 ~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      ++|...|++..+.. .-+...+..+-..|...|++++|.+.++...+..
T Consensus        98 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           98 AQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            99999999987753 2256788888899999999999999999987654

>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=98.05  E-value=3.3e-05  Score=58.53  Aligned_cols=129  Identities=12%  Similarity=0.035  Sum_probs=87.0

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCC--------------HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPD--------------LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDT  163 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~--------------~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~  163 (250)
                      +-..+.+.|++++|...|.+..+...-.|+              ...|..+-.+|.+.|++++|...+++.... -+.+.
T Consensus        44 ~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~-~p~~~  122 (198)
T 2fbn_A           44 EGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI-DKNNV  122 (198)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-CcccH
Confidence            445566778888888888877642211221              367888888999999999999999987764 23467


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHH-HHHHHHHhccC
Q 025612          164 RVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVA-AVRRDCIQYVE  229 (250)
Q Consensus       164 ~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~-~~~~~m~~~g~  229 (250)
                      ..|..+-.+|...|++++|...|++..+.  .| +...+..+-.++...++.+++. ..+..|...|.
T Consensus       123 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~~~  188 (198)
T 2fbn_A          123 KALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDKGP  188 (198)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHC--------------
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            78888889999999999999999988764  34 5667777777777777777766 55555554443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.05  E-value=0.0006  Score=57.62  Aligned_cols=164  Identities=6%  Similarity=-0.093  Sum_probs=118.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCcc-c------------------HHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLKA-D------------------LLDTLTELRRQNELDLALKVFNFVRKEVW  123 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~-~------------------~~~ll~~~~~~~~~~~a~~~~~~m~~~~g  123 (250)
                      -+.-.+.+.+.|++++|.+.|....+..-.. +                  ...+...|.+.|++++|.+.+....+..+
T Consensus         7 ~l~~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~   86 (434)
T 4b4t_Q            7 KLEEARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMM   86 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence            3444677888999999999999987532211 0                  12588899999999999999998764322


Q ss_pred             CCCCHH----HHHHHHHHHHcCCCHHHHHHHHHHHHh----CCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHC--
Q 025612          124 YKPDLS----LYSDMILMLGKNKQIAMAEELFCELKK----EGLDPD-TRVYTEMIGVYLQVGMIDKAMETYETMKAS--  192 (250)
Q Consensus       124 ~~~~~~----~y~~li~~~~~~~~~~~A~~~~~~m~~----~g~~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~~--  192 (250)
                      -.++..    +.+.+=..+...|+.+.|.+++.+...    .+..+. ..++..+...|...|++++|..++++....  
T Consensus        87 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~  166 (434)
T 4b4t_Q           87 QFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFK  166 (434)
T ss_dssp             TSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHT
T ss_pred             HccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHH
Confidence            222322    223333344467889999999887643    333333 567888999999999999999999987543  


Q ss_pred             C--CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          193 G--CTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       193 g--~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      +  -+| ....|..+.+.|...|++++|..+++....
T Consensus       167 ~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          167 KLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             TSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            2  122 236799999999999999999999988654

>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=98.04  E-value=0.00022  Score=60.17  Aligned_cols=129  Identities=6%  Similarity=-0.044  Sum_probs=108.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCC-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQ-IAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~-~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      +-..+.+.|++++|...|+...+. . +-+...|+.+-..|.+.|+ +++|+..|++..+.. +-+...|+.+-..|...
T Consensus       103 lg~~~~~~g~~~~Al~~~~~al~l-~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~~~~~  179 (382)
T 2h6f_A          103 FRAVLQRDERSERAFKLTRDAIEL-N-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWL  179 (382)
T ss_dssp             HHHHHHHTCCCHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCChHHHHHHHHHHHHh-C-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHc
Confidence            445667889999999999998753 2 2358889999999999997 999999999988742 22678899999999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 025612          177 GMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      |++++|+..|++..+.. .-+...|..+-.++.+.|++++|.+.++.+.+..-.
T Consensus       180 g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~  232 (382)
T 2h6f_A          180 RDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR  232 (382)
T ss_dssp             TCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT
T ss_pred             cCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            99999999999998753 226788999999999999999999999999876554

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.04  E-value=0.00014  Score=52.98  Aligned_cols=98  Identities=11%  Similarity=-0.078  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIR  206 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~  206 (250)
                      ...+..+-..|.+.|++++|...|++..... +-+...|..+-.+|...|++++|...|++..+.  .| +...|..+-.
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l--~P~~~~~~~~lg~  112 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFAL--GKNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SSSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CCCCcHHHHHHHH
Confidence            5567777888999999999999999987742 336888999999999999999999999998874  34 4678889999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcc
Q 025612          207 NLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       207 ~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      +|.+.|++++|.+.|+...+..
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            9999999999999999998765

>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=98.01  E-value=0.00032  Score=67.63  Aligned_cols=141  Identities=16%  Similarity=0.164  Sum_probs=84.9

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcC
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKN  141 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~  141 (250)
                      .+..+-+++-..|++++|...|.+.   +..-....++.+|.+.|++++|.+.+...++ ..  ++....+.+..+|++.
T Consensus      1107 vWsqLAKAql~~G~~kEAIdsYiKA---dD~say~eVa~~~~~lGkyEEAIeyL~mArk-~~--~e~~Idt~LafaYAKl 1180 (1630)
T 1xi4_A         1107 VWSQLAKAQLQKGMVKEAIDSYIKA---DDPSSYMEVVQAANTSGNWEELVKYLQMARK-KA--RESYVETELIFALAKT 1180 (1630)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHhc---CChHHHHHHHHHHHHcCCHHHHHHHHHHHHh-hc--ccccccHHHHHHHHhh
Confidence            3445566666777777777776442   2222233577777777777777777776543 22  2323333466667776


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 025612          142 KQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVR  221 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~  221 (250)
                      +++++.....    +   .|+...|..+-..|...|++++|..+|...         ..|..+...|.+.|+++.|.+.+
T Consensus      1181 ~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaa 1244 (1630)
T 1xi4_A         1181 NRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGA 1244 (1630)
T ss_pred             cCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHH
Confidence            6666433332    1   235555666666666777777777777663         36677777777777777776666


Q ss_pred             HHH
Q 025612          222 RDC  224 (250)
Q Consensus       222 ~~m  224 (250)
                      ++.
T Consensus      1245 rKA 1247 (1630)
T 1xi4_A         1245 RKA 1247 (1630)
T ss_pred             HHh
Confidence            554

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.01  E-value=0.00045  Score=54.42  Aligned_cols=129  Identities=17%  Similarity=0.072  Sum_probs=99.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCC-CCC-HHHHHHHHHHH
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGKNKQIAMAEELFCELKKEGL-DPD-TRVYTEMIGVY  173 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~-~p~-~~ty~~li~~~  173 (250)
                      ..-..+.+.|++++|...|+.+.+...-.|. ...+..+-.+|.+.|++++|...|++..+..- .|. ...+..+-.+|
T Consensus        20 ~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~   99 (261)
T 3qky_A           20 ERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCY   99 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHH
Confidence            4566778999999999999999753211111 67788888999999999999999999877421 122 45677777888


Q ss_pred             Hh--------cCChHHHHHHHHHHHHCCCCCCH-HHH-----------------HHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          174 LQ--------VGMIDKAMETYETMKASGCTPHK-LTF-----------------TILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       174 ~~--------~g~~~~a~~~~~~m~~~g~~p~~-~ty-----------------~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      ..        .|++++|...|++..+..  |+. ...                 ..+-..|.+.|+++.|.+.|+...+.
T Consensus       100 ~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~  177 (261)
T 3qky_A          100 YKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDA  177 (261)
T ss_dssp             HHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            88        999999999999987742  432 222                 45677889999999999999998865

>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=98.00  E-value=0.00018  Score=49.61  Aligned_cols=106  Identities=12%  Similarity=0.154  Sum_probs=77.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCC--CCCC----HHHHHHHHH
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEG--LDPD----TRVYTEMIG  171 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g--~~p~----~~ty~~li~  171 (250)
                      +-..+...|++++|...|....+..  +.+...|..+...|...|++++|...|++.....  ..++    ..+|..+..
T Consensus        10 l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la~   87 (131)
T 1elr_A           10 LGNDAYKKKDFDTALKHYDKAKELD--PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHH
Confidence            4556778888888888888876532  3467778888888888899999988888876542  1222    677888888


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 025612          172 VYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRN  207 (250)
Q Consensus       172 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~  207 (250)
                      .|.+.|++++|.+.|+...+.  .|+......+-..
T Consensus        88 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~  121 (131)
T 1elr_A           88 SYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQA  121 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHHH
Confidence            888999999999999888774  3565555444433

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.00  E-value=0.00019  Score=52.43  Aligned_cols=91  Identities=11%  Similarity=-0.001  Sum_probs=62.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  177 (250)
                      +-..+.+.|++++|...|+...+..  +-+...|..+-.+|.+.|++++|...|++..+.. +-+...|..+-..|...|
T Consensus        17 ~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g   93 (164)
T 3sz7_A           17 EGNAAMARKEYSKAIDLYTQALSIA--PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLARFDMA   93 (164)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC--CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcc
Confidence            5556667777777777777766421  2256677777777777777777777777766542 224666777777777777


Q ss_pred             ChHHHHHHHHHHHH
Q 025612          178 MIDKAMETYETMKA  191 (250)
Q Consensus       178 ~~~~a~~~~~~m~~  191 (250)
                      ++++|...|++..+
T Consensus        94 ~~~~A~~~~~~al~  107 (164)
T 3sz7_A           94 DYKGAKEAYEKGIE  107 (164)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            77777777777655

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.00  E-value=0.00063  Score=54.74  Aligned_cols=131  Identities=13%  Similarity=0.058  Sum_probs=98.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCC---CCCC--HHHHH
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPD----LSLYSDMILMLGKNKQIAMAEELFCELKKEG---LDPD--TRVYT  167 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g---~~p~--~~ty~  167 (250)
                      ..+..+...|++++|.+.+....+.....++    ...+..+...|...|++++|...|++..+..   ..+.  ..+|+
T Consensus        80 ~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 2qfc_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHH
Confidence            4677888999999999999987653221111    1234456667788899999999999876532   1222  45899


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHH----CCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          168 EMIGVYLQVGMIDKAMETYETMKA----SGCTP--HKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       168 ~li~~~~~~g~~~~a~~~~~~m~~----~g~~p--~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      .+-..|...|++++|...|++..+    .+-.+  ...+|..+-..|.+.|++++|.+.+++..+.
T Consensus       160 ~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~  225 (293)
T 2qfc_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEI  225 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            999999999999999999998762    22122  1258899999999999999999999987643

>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=98.00  E-value=0.00034  Score=50.50  Aligned_cols=93  Identities=13%  Similarity=0.001  Sum_probs=41.5

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 025612          131 YSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLEN  210 (250)
Q Consensus       131 y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~  210 (250)
                      +..+-..+.+.|++++|...|++..... +.+...|..+-.+|...|++++|...|++..... .-+...|..+-.+|..
T Consensus        24 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~  101 (148)
T 2vgx_A           24 LYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLLQ  101 (148)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHH
Confidence            3334444444555555555554443321 1134444444444445555555555554444321 1123444444444555


Q ss_pred             cCCHHHHHHHHHHHH
Q 025612          211 AGEEELVAAVRRDCI  225 (250)
Q Consensus       211 ~g~~~~a~~~~~~m~  225 (250)
                      .|++++|.+.|+...
T Consensus       102 ~g~~~~A~~~~~~al  116 (148)
T 2vgx_A          102 XGELAEAESGLFLAQ  116 (148)
T ss_dssp             TTCHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHH
Confidence            555555555554443

>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=97.96  E-value=0.00058  Score=60.39  Aligned_cols=129  Identities=8%  Similarity=-0.068  Sum_probs=104.3

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 025612           61 SEAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILML  138 (250)
Q Consensus        61 ~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~  138 (250)
                      .....+...+...|++++|...+++..+..-. +... .+-..+...|++++|.+.|++..+. . +.+...|..+-..|
T Consensus        24 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~-p~~~~~~~~la~~~  101 (568)
T 2vsy_A           24 VAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQQASDA-A-PEHPGIALWLGHAL  101 (568)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-C-CCCHHHHHHHHHHH
Confidence            34455677788889999999999998764321 2222 5777888999999999999998753 2 33578999999999


Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CChHHHHHHHHHHHHC
Q 025612          139 GKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV---GMIDKAMETYETMKAS  192 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~---g~~~~a~~~~~~m~~~  192 (250)
                      .+.|++++|.+.|++..+.. +-+...+..+...|...   |+.++|.+.+++..+.
T Consensus       102 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A          102 EDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            99999999999999987642 23578889999999999   9999999999998765

>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=97.95  E-value=6.3e-05  Score=54.56  Aligned_cols=118  Identities=12%  Similarity=0.039  Sum_probs=92.5

Q ss_pred             HcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHH
Q 025612          104 RQNELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKA  182 (250)
Q Consensus       104 ~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a  182 (250)
                      ..|++++|...+.....   ..|+ ...+-.+-..|.+.|++++|.+.|++..+.. +-+..+|..+-..|.+.|++++|
T Consensus         9 ~~~~~e~ai~~~~~a~~---~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A   84 (150)
T 4ga2_A            9 SKADVERYIASVQGSTP---SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKA   84 (150)
T ss_dssp             CHHHHHHHHHHHHHHSC---SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HcChHHHHHHHHHHhcc---cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHH
Confidence            45678888888887642   2232 3445667888999999999999999987742 23678899999999999999999


Q ss_pred             HHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHH-HHHHHhc
Q 025612          183 METYETMKASGCTP-HKLTFTILIRNLENAGEEELVAAV-RRDCIQY  227 (250)
Q Consensus       183 ~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~-~~~m~~~  227 (250)
                      ...|++..+.  .| +...|..+-..|.+.|+++++.+. ++...+.
T Consensus        85 ~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l  129 (150)
T 4ga2_A           85 VECYRRSVEL--NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL  129 (150)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh
Confidence            9999998874  45 568899999999999998776654 5665553

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.95  E-value=0.00028  Score=50.29  Aligned_cols=88  Identities=14%  Similarity=0.014  Sum_probs=38.6

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 025612          100 TELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMI  179 (250)
Q Consensus       100 ~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~  179 (250)
                      ..+.+.|++++|...|+...+..  +.+...|..+-.+|.+.|++++|...|+...... +-+...|..+-.+|...|++
T Consensus        26 ~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~  102 (142)
T 2xcb_A           26 FNQYQAGKWDDAQKIFQALCMLD--HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQLGDL  102 (142)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCH
Confidence            33444455555555555443211  1234444444444445555555555554443321 11233344444444445555


Q ss_pred             HHHHHHHHHHH
Q 025612          180 DKAMETYETMK  190 (250)
Q Consensus       180 ~~a~~~~~~m~  190 (250)
                      ++|...|+...
T Consensus       103 ~~A~~~~~~al  113 (142)
T 2xcb_A          103 DGAESGFYSAR  113 (142)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555444443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=97.94  E-value=0.0012  Score=53.23  Aligned_cols=127  Identities=13%  Similarity=0.041  Sum_probs=101.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHHh
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMI-GVYLQ  175 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li-~~~~~  175 (250)
                      .+-..+...|++++|...|+...+..  +-+...+..+-..|.+.|++++|...|++....  .|+........ ..+.+
T Consensus       122 ~~a~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~l~~  197 (287)
T 3qou_A          122 QQAMQLMQESNYTDALPLLXDAWQLS--NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQIELLX  197 (287)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHT--TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHhC--CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHHHHHh
Confidence            45667789999999999999987532  235788999999999999999999999987664  46655433333 34667


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          176 VGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       176 ~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      .++.++|...+++..... ..+...+..+-..+...|++++|.+.+....+..
T Consensus       198 ~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~  249 (287)
T 3qou_A          198 QAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXD  249 (287)
T ss_dssp             HHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc
Confidence            888889999998887753 2367889999999999999999999999998754

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.93  E-value=0.00017  Score=51.44  Aligned_cols=129  Identities=9%  Similarity=-0.103  Sum_probs=80.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHHHhC----CCCC-CHHHHHH
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPD----LSLYSDMILMLGKNKQIAMAEELFCELKKE----GLDP-DTRVYTE  168 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~y~~li~~~~~~~~~~~A~~~~~~m~~~----g~~p-~~~ty~~  168 (250)
                      +-..+...|++++|...+.+..+...-.++    ..++..+-..|...|++++|.+.|++....    +-.+ ....+..
T Consensus        15 l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   94 (164)
T 3ro3_A           15 LGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYS   94 (164)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHH
Confidence            334455666666666666664321100111    246677777777888888888877775432    1111 1445667


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          169 MIGVYLQVGMIDKAMETYETMKAS----GCTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       169 li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      +-..|...|++++|.+.+++..+.    +..+ ...++..+-..+...|++++|.+.+++..+
T Consensus        95 l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           95 LGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            777778888888888888776432    2111 135677777888888888888888887654

>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=97.91  E-value=0.0008  Score=46.56  Aligned_cols=91  Identities=18%  Similarity=0.116  Sum_probs=72.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  177 (250)
                      +-..+.+.|++++|...|+...+..  +.+...|..+-.+|.+.|++++|...|++..+.. +-+...|..+-..|...|
T Consensus        10 ~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~   86 (126)
T 3upv_A           10 EGKEYFTKSDWPNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVK   86 (126)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHh
Confidence            3456778899999999998876532  3357888888899999999999999998877642 235778888888999999


Q ss_pred             ChHHHHHHHHHHHH
Q 025612          178 MIDKAMETYETMKA  191 (250)
Q Consensus       178 ~~~~a~~~~~~m~~  191 (250)
                      ++++|...|++..+
T Consensus        87 ~~~~A~~~~~~al~  100 (126)
T 3upv_A           87 EYASALETLDAART  100 (126)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999988766

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.90  E-value=0.00016  Score=54.33  Aligned_cols=123  Identities=11%  Similarity=-0.019  Sum_probs=91.3

Q ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhc
Q 025612          102 LRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKK----EGLDP-DTRVYTEMIGVYLQV  176 (250)
Q Consensus       102 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~----~g~~p-~~~ty~~li~~~~~~  176 (250)
                      ....|++++|.++++.+..  ........++.+-..|...|++++|...|++...    .|..| ...+++.+-..|...
T Consensus         2 ~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~   79 (203)
T 3gw4_A            2 AFEAHDYALAERQAQALLA--HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMA   79 (203)
T ss_dssp             -----CHHHHHHHHHHHHT--STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHT
T ss_pred             ccccccHHHHHHHHHHhcC--ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHc
Confidence            3568999999997766642  2223578889999999999999999999988755    22222 346788888899999


Q ss_pred             CChHHHHHHHHHHHHC----CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          177 GMIDKAMETYETMKAS----GCTP--HKLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~----g~~p--~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      |++++|.+.+++..+.    |-.|  ....+..+-..+...|++++|.+.+++..+
T Consensus        80 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  135 (203)
T 3gw4_A           80 GNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLV  135 (203)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            9999999999886543    3122  235688888899999999999999988764

>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=97.89  E-value=0.00023  Score=57.85  Aligned_cols=128  Identities=11%  Similarity=-0.008  Sum_probs=95.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh---CCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC----CCCC-CHHHHHH
Q 025612           98 TLTELRRQNELDLALKVFNFVRKE---VWYKP-DLSLYSDMILMLGKNKQIAMAEELFCELKKE----GLDP-DTRVYTE  168 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~---~g~~~-~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~----g~~p-~~~ty~~  168 (250)
                      ....|...|++++|...|.+..+-   .+-.. -..+|+.+-..|.+.|++++|...|++..+.    |-.. -..+|+.
T Consensus        42 a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~  121 (307)
T 2ifu_A           42 AAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDR  121 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            345677889999999999886431   11111 1568899999999999999999999875432    2111 1467888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          169 MIGVYLQVGMIDKAMETYETMKAS----GCTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       169 li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      +-..|.. |++++|+..|++..+.    |-.+ ...++..+-..|.+.|++++|.+.|++..+
T Consensus       122 lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  183 (307)
T 2ifu_A          122 AGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKS  183 (307)
T ss_dssp             HHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            8888888 9999999999886542    2111 146788899999999999999999998875

>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=97.89  E-value=0.0013  Score=63.56  Aligned_cols=148  Identities=13%  Similarity=0.119  Sum_probs=102.6

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           61 SEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        61 ~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      ..+..++..+.+.|++++|.+.+....+..-.|... .+..+|++.+++++...+.    +    .++...|..+-..|-
T Consensus      1135 say~eVa~~~~~lGkyEEAIeyL~mArk~~~e~~Idt~LafaYAKl~rleele~fI----~----~~n~ad~~~iGd~le 1206 (1630)
T 1xi4_A         1135 SSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFI----N----GPNNAHIQQVGDRCY 1206 (1630)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCHHHHHHHH----h----CCCHHHHHHHHHHHH
Confidence            456678999999999999999998766544222222 4788888888887544332    2    345566666777777


Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC------------------------CCC
Q 025612          140 KNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS------------------------GCT  195 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~------------------------g~~  195 (250)
                      ..|++++|..+|...         ..|..+..+|++.|++++|.+.+++-...                        ++.
T Consensus      1207 ~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~n~~aWkev~~acve~~Ef~LA~~cgl~Ii 1277 (1630)
T 1xi4_A         1207 DEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIV 1277 (1630)
T ss_pred             hcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHHHhhhhHHHHHHHHHHhhh
Confidence            888888888888774         37788888888888888887777554211                        122


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025612          196 PHKLTFTILIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       196 p~~~ty~~li~~~~~~g~~~~a~~~~~~m~  225 (250)
                      -+...+..++..|.+.|.+++|..+++.-.
T Consensus      1278 v~~deLeeli~yYe~~G~feEAI~LlE~aL 1307 (1630)
T 1xi4_A         1278 VHADELEELINYYQDRGYFEELITMLEAAL 1307 (1630)
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            344556677777888888888888775544

>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=97.87  E-value=0.00078  Score=45.27  Aligned_cols=92  Identities=17%  Similarity=0.082  Sum_probs=68.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  177 (250)
                      +...+...|++++|...|+...+..  +.+...+..+...|.+.|++++|...+++..+.. +.+...|..+...|...|
T Consensus        10 ~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~   86 (118)
T 1elw_A           10 KGNKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLN   86 (118)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHh
Confidence            4556677888888888888876421  2356777778888888888888888888776642 235677778888888888


Q ss_pred             ChHHHHHHHHHHHHC
Q 025612          178 MIDKAMETYETMKAS  192 (250)
Q Consensus       178 ~~~~a~~~~~~m~~~  192 (250)
                      ++++|.+.|++..+.
T Consensus        87 ~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           87 RFEEAKRTYEEGLKH  101 (118)
T ss_dssp             CHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHHc
Confidence            888888888887764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.87  E-value=0.001  Score=48.46  Aligned_cols=97  Identities=11%  Similarity=0.005  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRN  207 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~  207 (250)
                      ...|..+-..|.+.|++++|...|++..+.. +-+...|..+-..|.+.|++++|...|++..+.. .-+...|..+-.+
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3445555555555666666666665554421 1144555555555556666666666665554432 1134555555555


Q ss_pred             HHhcCCHHHHHHHHHHHHh
Q 025612          208 LENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       208 ~~~~g~~~~a~~~~~~m~~  226 (250)
                      |...|++++|.+.|+...+
T Consensus        89 ~~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHH
Confidence            5566666666665555543

>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=97.86  E-value=0.00042  Score=62.96  Aligned_cols=147  Identities=12%  Similarity=-0.008  Sum_probs=111.5

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 025612           61 SEAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILML  138 (250)
Q Consensus        61 ~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~  138 (250)
                      .....+...+...|++++|...|++..+..-. +... .+-.++...|++++|...|++..+..  +-+...|..+-.+|
T Consensus       434 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~--P~~~~~~~~lg~~~  511 (681)
T 2pzi_A          434 ELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTGDYDSATKHFTEVLDTF--PGELAPKLALAATA  511 (681)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTCSHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHH
Confidence            44445567788889999999999998764321 2222 46667889999999999999987532  22577889999999


Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCC
Q 025612          139 GKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPH-KLTFTILIRNLENAGE  213 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~ty~~li~~~~~~g~  213 (250)
                      .+.|++++ .+.|++..+.. +-+...|..+-..|.+.|++++|.+.|++..+.  .|+ ...|..+..++...++
T Consensus       512 ~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          512 ELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTLDEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             HHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHHHhhccc--CcccHHHHHHHHHHHHccCC
Confidence            99999999 99999987642 235778999999999999999999999988764  465 4667777777766554

>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=97.86  E-value=0.00096  Score=60.50  Aligned_cols=163  Identities=16%  Similarity=0.136  Sum_probs=119.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcC---------ccc-----------H----HHHHHHHHHcCCHHHHHHHHHHHHHh
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLL---------KAD-----------L----LDTLTELRRQNELDLALKVFNFVRKE  121 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~---------~~~-----------~----~~ll~~~~~~~~~~~a~~~~~~m~~~  121 (250)
                      .+...-+.|++++|.++|+.+.....         .|+           .    ...++..-+.|.++.|..+|....+.
T Consensus       384 ~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~  463 (679)
T 4e6h_A          384 LSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRL  463 (679)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            45556678999999999999876421         121           1    14666677889999999999999764


Q ss_pred             -CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC--CH
Q 025612          122 -VWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP--HK  198 (250)
Q Consensus       122 -~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~  198 (250)
                       ....+......+.|...+ .++.+.|.++|+...+. ++-+...|...+......|+.+.|..+|++.....-.+  ..
T Consensus       464 ~~~~~~~lyi~~A~lE~~~-~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~  541 (679)
T 4e6h_A          464 KKLVTPDIYLENAYIEYHI-SKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLK  541 (679)
T ss_dssp             GGGSCTHHHHHHHHHHHTT-TSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHH
T ss_pred             cCCCChHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHH
Confidence             223334444444444322 35699999999998775 34466677888888888999999999999988764222  34


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 025612          199 LTFTILIRNLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       199 ~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      ..|...++--.+.|+.+.+.++.+.+.+.--.
T Consensus       542 ~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~  573 (679)
T 4e6h_A          542 MIFQKVIFFESKVGSLNSVRTLEKRFFEKFPE  573 (679)
T ss_dssp             HHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            67888888888999999999999999876543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.86  E-value=0.00047  Score=45.97  Aligned_cols=92  Identities=8%  Similarity=-0.060  Sum_probs=68.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHh
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDP--DTRVYTEMIGVYLQ  175 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p--~~~ty~~li~~~~~  175 (250)
                      +-..+.+.|++++|...|+...+..  +.+...|..+-..|...|++++|...|++..+.. +.  +...|..+...|.+
T Consensus        12 ~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~~~~   88 (112)
T 2kck_A           12 EGVLQYDAGNYTESIDLFEKAIQLD--PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADALRY   88 (112)
T ss_dssp             HHHHHHSSCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHHHHH
Confidence            4556667788888888888876421  2356777888888888888888888888877642 22  47778888888888


Q ss_pred             c-CChHHHHHHHHHHHHC
Q 025612          176 V-GMIDKAMETYETMKAS  192 (250)
Q Consensus       176 ~-g~~~~a~~~~~~m~~~  192 (250)
                      . |++++|.+.++.....
T Consensus        89 ~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           89 IEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             CSSCSHHHHHHHHHHGGG
T ss_pred             HhCCHHHHHHHHHHHhhc
Confidence            8 8888888888887764

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.86  E-value=0.00029  Score=61.45  Aligned_cols=127  Identities=9%  Similarity=-0.061  Sum_probs=96.7

Q ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCC----CHHHHHHHHHHHHcCCCHHHHHHHHHHHHh---CCC---CCC-HHHHH
Q 025612          101 ELRRQNELDLALKVFNFVRKE--VWYKP----DLSLYSDMILMLGKNKQIAMAEELFCELKK---EGL---DPD-TRVYT  167 (250)
Q Consensus       101 ~~~~~~~~~~a~~~~~~m~~~--~g~~~----~~~~y~~li~~~~~~~~~~~A~~~~~~m~~---~g~---~p~-~~ty~  167 (250)
                      .+-..|++++|..++++..+.  .-+.|    ...++|.|...|...|++++|..++++...   .-+   .|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            455789999999999886432  22223    267899999999999999999999988643   112   233 57799


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHH-----CCC-CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          168 EMIGVYLQVGMIDKAMETYETMKA-----SGC-TPHK-LTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       168 ~li~~~~~~g~~~~a~~~~~~m~~-----~g~-~p~~-~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      .|-..|...|++++|+.++++..+     .|- .|+. .+.+.+-.++...+.+++|+.+++.+++.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999987643     231 2333 45666777888899999999999999864

>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=0.00058  Score=47.84  Aligned_cols=99  Identities=7%  Similarity=0.051  Sum_probs=56.0

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC--CCCCC----HHHHHHHHH
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKE--GLDPD----TRVYTEMIG  171 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~--g~~p~----~~ty~~li~  171 (250)
                      +=..+.+.|++++|.+.|++..+. . +-+...|+.+-.+|.+.|++++|++.|++..+.  ...++    ..+|..+-.
T Consensus        14 lG~~~~~~~~~~~A~~~y~~Al~~-~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~   91 (127)
T 4gcn_A           14 LGNAAYKQKDFEKAHVHYDKAIEL-D-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAGN   91 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh-C-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHHH
Confidence            334566667777777777766542 1 224566666666777777777777766665432  11111    134555555


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCCHHH
Q 025612          172 VYLQVGMIDKAMETYETMKASGCTPHKLT  200 (250)
Q Consensus       172 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t  200 (250)
                      .|...|++++|++.|++-...  .||..+
T Consensus        92 ~~~~~~~~~~A~~~~~kal~~--~~~~~~  118 (127)
T 4gcn_A           92 AFQKQNDLSLAVQWFHRSLSE--FRDPEL  118 (127)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--SCCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhh--CcCHHH
Confidence            666666666666666665442  355443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.83  E-value=0.00081  Score=47.83  Aligned_cols=128  Identities=11%  Similarity=-0.065  Sum_probs=93.1

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhcCc-cc---H---H-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC----HHHH
Q 025612           64 IQAVHAMKLAKSSSKLEEGFQSRICRLLK-AD---L---L-DTLTELRRQNELDLALKVFNFVRKEVWYKPD----LSLY  131 (250)
Q Consensus        64 ~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~---~---~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~y  131 (250)
                      ..+-..+...|++++|...+++.....-. ++   .   . .+-..+...|++++|.+.++...+...-..+    ...+
T Consensus        13 ~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   92 (164)
T 3ro3_A           13 GNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSC   92 (164)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHH
Confidence            34566677889999999999997643211 11   1   1 4777788999999999999986532111112    5567


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 025612          132 SDMILMLGKNKQIAMAEELFCELKKE----GLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       132 ~~li~~~~~~~~~~~A~~~~~~m~~~----g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  191 (250)
                      ..+-..|...|++++|.+.+++..+.    +-.+ ...++..+-..|...|++++|.+.+++..+
T Consensus        93 ~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           93 YSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            88888999999999999999886542    2111 245678888899999999999999988654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.83  E-value=0.00095  Score=47.05  Aligned_cols=62  Identities=13%  Similarity=0.050  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 025612          129 SLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       129 ~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  191 (250)
                      ..|..+-..|...|++++|...|++..+.. +.+...|..+...|...|++++|...|++..+
T Consensus        66 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A           66 VLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYRRSQALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444444445555555555555555443321 11344444555555555555555555555444

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.83  E-value=0.00085  Score=46.34  Aligned_cols=91  Identities=12%  Similarity=-0.020  Sum_probs=46.6

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHH
Q 025612           99 LTELRRQNELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPD----TRVYTEMIGVY  173 (250)
Q Consensus        99 l~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~----~~ty~~li~~~  173 (250)
                      -..+.+.|++++|...|+...+...-.+. ...+..+-.+|.+.|++++|...|++....  .|+    ...+..+...|
T Consensus         9 a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A            9 AFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSR--YPTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSTTHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHH--CCCCcccHHHHHHHHHHH
Confidence            34455566666666666665432111110 134445555555666666666666655443  122    34455555555


Q ss_pred             HhcCChHHHHHHHHHHHH
Q 025612          174 LQVGMIDKAMETYETMKA  191 (250)
Q Consensus       174 ~~~g~~~~a~~~~~~m~~  191 (250)
                      .+.|++++|...|+...+
T Consensus        87 ~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            556666666666655554

>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=97.82  E-value=0.00043  Score=48.52  Aligned_cols=104  Identities=11%  Similarity=0.060  Sum_probs=81.7

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCCC----HHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS--GCTPH----KLTF  201 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~----~~ty  201 (250)
                      ...+..+=..|.+.|++++|++.|++..+.. +-+...|+.+-.+|.+.|++++|++.|++..+.  ...++    ..+|
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            4567777788999999999999999987642 235788999999999999999999999987653  11222    2467


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhccCCch
Q 025612          202 TILIRNLENAGEEELVAAVRRDCIQYVEFPE  232 (250)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd  232 (250)
                      ..+-.++...|++++|.+.|+...+..-.|+
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~~~~~~  117 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSEFRDPE  117 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSCCHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCcCHH
Confidence            7777888999999999999998776544444

>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=97.82  E-value=0.0014  Score=47.14  Aligned_cols=93  Identities=12%  Similarity=-0.025  Sum_probs=75.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      .+-..+.+.|++++|...|+...+..  +.+...|..+-.+|...|++++|...|++..... +-+...|..+-.+|...
T Consensus        26 ~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~  102 (148)
T 2vgx_A           26 SLAFNQYQSGXYEDAHXVFQALCVLD--HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLLQX  102 (148)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcC--cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHc
Confidence            35567788999999999999987532  3367888888899999999999999999887642 23567788888999999


Q ss_pred             CChHHHHHHHHHHHHC
Q 025612          177 GMIDKAMETYETMKAS  192 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~  192 (250)
                      |++++|...|+...+.
T Consensus       103 g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A          103 GELAEAESGLFLAQEL  118 (148)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            9999999999987663

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=97.82  E-value=0.00064  Score=52.48  Aligned_cols=127  Identities=12%  Similarity=0.089  Sum_probs=92.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHH
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDT----RVYTEMIG  171 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~----~ty~~li~  171 (250)
                      .+-..+.+.|++++|...|+.+.+...-.|. ...+..+..+|.+.|++++|...|++..+.  .|+.    ..+-.+-.
T Consensus         9 ~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a~~~~g~   86 (225)
T 2yhc_A            9 ATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVMYMRGL   86 (225)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHHHHHHHH
Confidence            3456788999999999999999764222222 457788889999999999999999998764  2332    23333334


Q ss_pred             HHHh------------------cCChHHHHHHHHHHHHCCCCCCH-HHH-----------------HHHHHHHHhcCCHH
Q 025612          172 VYLQ------------------VGMIDKAMETYETMKASGCTPHK-LTF-----------------TILIRNLENAGEEE  215 (250)
Q Consensus       172 ~~~~------------------~g~~~~a~~~~~~m~~~g~~p~~-~ty-----------------~~li~~~~~~g~~~  215 (250)
                      +|.+                  .|+.++|...|++..+.  -|+. ..+                 ..+-..|.+.|+++
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~  164 (225)
T 2yhc_A           87 TNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWV  164 (225)
T ss_dssp             HHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHH
Confidence            4433                  57899999999999875  2433 121                 23456788999999


Q ss_pred             HHHHHHHHHHhc
Q 025612          216 LVAAVRRDCIQY  227 (250)
Q Consensus       216 ~a~~~~~~m~~~  227 (250)
                      .|...|+.+.+.
T Consensus       165 ~A~~~~~~~l~~  176 (225)
T 2yhc_A          165 AVVNRVEGMLRD  176 (225)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998865

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.81  E-value=0.00085  Score=47.74  Aligned_cols=98  Identities=10%  Similarity=0.003  Sum_probs=76.0

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRN  207 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~  207 (250)
                      ...+..+-..+.+.|++++|...|++..... +-+...|..+-..|.+.|++++|...|+...... .-+...|..+-.+
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   95 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAEC   95 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHH
Confidence            3445566677888899999999998876642 2367778888888889999999999998887653 2255677788888


Q ss_pred             HHhcCCHHHHHHHHHHHHhc
Q 025612          208 LENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       208 ~~~~g~~~~a~~~~~~m~~~  227 (250)
                      |...|++++|.+.|+...+.
T Consensus        96 ~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            88999999999998887654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.79  E-value=0.00011  Score=50.71  Aligned_cols=85  Identities=12%  Similarity=-0.030  Sum_probs=44.2

Q ss_pred             cCCHHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHH
Q 025612          105 QNELDLALKVFNFVRKEVW--YKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKA  182 (250)
Q Consensus       105 ~~~~~~a~~~~~~m~~~~g--~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a  182 (250)
                      .|++++|...|++..+ .+  -+-+...|..+-..|.+.|++++|...|++..+.. +-+...|..+..+|.+.|++++|
T Consensus         3 ~g~~~~A~~~~~~al~-~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIA-SGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             ----CCCHHHHHHHHS-SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCcHHHHHHHHHHHHH-cCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHH
Confidence            4556666666666543 21  01124455555566666666666666666655431 12345555556666666666666


Q ss_pred             HHHHHHHHH
Q 025612          183 METYETMKA  191 (250)
Q Consensus       183 ~~~~~~m~~  191 (250)
                      ...|++...
T Consensus        81 ~~~~~~al~   89 (117)
T 3k9i_A           81 VELLLKIIA   89 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666665544

>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=97.78  E-value=0.0017  Score=53.59  Aligned_cols=125  Identities=7%  Similarity=-0.116  Sum_probs=98.5

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCcc----------------cHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLKA----------------DLL-DTLTELRRQNELDLALKVFNFVRKEVWYK  125 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~----------------~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~  125 (250)
                      ...+-..+.+.|++++|...|++..+..-..                ... .+-.++.+.|++++|...|+...+. . +
T Consensus       150 ~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~-~-p  227 (336)
T 1p5q_A          150 VKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL-D-S  227 (336)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-T
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-C-C
Confidence            3345667778899999999999987644322                111 4777888999999999999998753 2 3


Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHH-HHHHHHHH
Q 025612          126 PDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKA-METYETMK  190 (250)
Q Consensus       126 ~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a-~~~~~~m~  190 (250)
                      .+...|..+-.+|...|++++|...|++..+.. +-+...+..+...+.+.|+.+++ ..+|+.|.
T Consensus       228 ~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          228 NNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            468899999999999999999999999987742 23577888899999999999988 45666664

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.77  E-value=0.0011  Score=45.81  Aligned_cols=89  Identities=12%  Similarity=0.037  Sum_probs=49.8

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC----HHHHHHHHH
Q 025612          135 ILMLGKNKQIAMAEELFCELKKEGLDPDT----RVYTEMIGVYLQVGMIDKAMETYETMKASGCTPH----KLTFTILIR  206 (250)
Q Consensus       135 i~~~~~~~~~~~A~~~~~~m~~~g~~p~~----~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~ty~~li~  206 (250)
                      -..+.+.|++++|...|++..+..  |+.    ..+..+-..|.+.|++++|...|+...+..  |+    ...+..+-.
T Consensus         9 a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la~   84 (129)
T 2xev_A            9 AFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHHH
Confidence            344555666666666666655431  221    345555556666666666666666655432  22    344555556


Q ss_pred             HHHhcCCHHHHHHHHHHHHhc
Q 025612          207 NLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       207 ~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      ++.+.|++++|.+.|+...+.
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            666666666666666665543

>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=97.77  E-value=0.00064  Score=50.27  Aligned_cols=127  Identities=18%  Similarity=0.153  Sum_probs=95.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHh
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGV-YLQ  175 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~-~~~  175 (250)
                      ..-..+.+.|++++|...|+...+..  +-+...+..+-..|.+.|++++|...|+.....  .|+...+..+... +..
T Consensus        11 ~~a~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A           11 KQVSELLQQGEHAQALNVIQTLSDEL--QSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSCHHH--HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHHHHHh
Confidence            45567889999999999999865421  235788999999999999999999999987654  3444433332211 223


Q ss_pred             cCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC
Q 025612          176 VGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQYVE  229 (250)
Q Consensus       176 ~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~  229 (250)
                      .+...+|...|++..+.  .| +...+..+-..+...|++++|.+.|+...+..-
T Consensus        87 ~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p  139 (176)
T 2r5s_A           87 QAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNL  139 (176)
T ss_dssp             HHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             hcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCc
Confidence            33344578888887764  45 578899999999999999999999999887653

>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=97.74  E-value=0.0014  Score=45.68  Aligned_cols=92  Identities=11%  Similarity=-0.035  Sum_probs=72.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      .+-..+.+.|++++|...|....+..  +.+...|..+-.+|...|++++|...|++..... +-+...|..+-..|...
T Consensus        14 ~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~   90 (137)
T 3q49_B           14 EQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQLEM   90 (137)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHH
Confidence            45567778888999998888876532  2357788888888999999999999998877642 23577888888889999


Q ss_pred             CChHHHHHHHHHHHH
Q 025612          177 GMIDKAMETYETMKA  191 (250)
Q Consensus       177 g~~~~a~~~~~~m~~  191 (250)
                      |++++|...|++..+
T Consensus        91 ~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           91 ESYDEAIANLQRAYS  105 (137)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHH
Confidence            999999999988765

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.70  E-value=0.0014  Score=52.71  Aligned_cols=127  Identities=9%  Similarity=-0.058  Sum_probs=87.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHH
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDT----RVYTEMIGVY  173 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~----~ty~~li~~~  173 (250)
                      +...+...|++++|.++|+.+.. .  .|+....-.+-..+.+.+++++|+..|+.....   |+.    ..+..+-.++
T Consensus       108 yA~~L~~~g~y~eA~~~l~~~~~-~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~---~d~~~~~~a~~~LG~al  181 (282)
T 4f3v_A          108 FAACEAAQGNYADAMEALEAAPV-A--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW---PDKFLAGAAGVAHGVAA  181 (282)
T ss_dssp             HHHHHHHHTCHHHHHHHHTSSCC-T--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC---SCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHh-c--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc---CCcccHHHHHHHHHHHH
Confidence            55667788888888888887742 2  344334455555778888888888888744332   222    3566667778


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 025612          174 LQVGMIDKAMETYETMKASGCTPH--KLTFTILIRNLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       174 ~~~g~~~~a~~~~~~m~~~g~~p~--~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      ...|++++|+..|++.......|.  .......-.++.+.|+.++|..+|+++....-.
T Consensus       182 ~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~  240 (282)
T 4f3v_A          182 ANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE  240 (282)
T ss_dssp             HHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC
T ss_pred             HHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc
Confidence            888888888888888775444354  235556666777888888888888888765433

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.70  E-value=0.00072  Score=46.95  Aligned_cols=90  Identities=13%  Similarity=0.063  Sum_probs=47.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhc
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQV  176 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~  176 (250)
                      +-..+.+.|++++|...|+...+..  +-+...|..+-.++...|++++|...|++..+.  .| +...|..+...|.+.
T Consensus        23 ~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           23 EGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHc
Confidence            3444555566666666665554321  124455555555555566666666665555442  22 344555555555555


Q ss_pred             CChHHHHHHHHHHHH
Q 025612          177 GMIDKAMETYETMKA  191 (250)
Q Consensus       177 g~~~~a~~~~~~m~~  191 (250)
                      |++++|...|++..+
T Consensus        99 g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           99 HNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHH
Confidence            666666655555543

>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=97.67  E-value=0.0042  Score=46.59  Aligned_cols=126  Identities=9%  Similarity=-0.102  Sum_probs=88.8

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCC-CCCC--------------HH
Q 025612          100 TELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEG-LDPD--------------TR  164 (250)
Q Consensus       100 ~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g-~~p~--------------~~  164 (250)
                      ......|.++++.+.|+.-.+.  .......+..+-..+.+.|++++|...|++..... -.|+              ..
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~   89 (198)
T 2fbn_A           12 SGRENLYFQGAKKSIYDYTDEE--KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEIS   89 (198)
T ss_dssp             ----------CCCSGGGCCHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHH
T ss_pred             hhhhhhhhccccCchhhCCHHH--HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHH
Confidence            3344555666666555533211  01135567778888999999999999999987641 1121              27


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          165 VYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       165 ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      .|..+-.+|.+.|++++|...++...+.. ..+...|..+-.+|...|+++.|.+.|+...+..
T Consensus        90 ~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~  152 (198)
T 2fbn_A           90 CNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  152 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC
Confidence            88889999999999999999999987752 3367889999999999999999999999987654

>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=97.67  E-value=0.00038  Score=60.51  Aligned_cols=118  Identities=11%  Similarity=0.027  Sum_probs=69.9

Q ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHH
Q 025612          102 LRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDK  181 (250)
Q Consensus       102 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~  181 (250)
                      +.+.|++++|.+.|++..+..  +-+...|+.+-.+|.+.|++++|.+.|++..+.. +-+...|..+-..|.+.|++++
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            345677777777777765421  2246677777777777777777777777766642 2245667777777777777777


Q ss_pred             HHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 025612          182 AMETYETMKASG-CTPHKLTFTILIRNLENAGEEELVAAVRR  222 (250)
Q Consensus       182 a~~~~~~m~~~g-~~p~~~ty~~li~~~~~~g~~~~a~~~~~  222 (250)
                      |.+.|++..+.. -.++.......+..+.+.|++++|.+.++
T Consensus        93 A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           93 ALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            777777765531 12222222222333666677777777666

>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=97.65  E-value=0.0011  Score=57.24  Aligned_cols=125  Identities=10%  Similarity=0.014  Sum_probs=95.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-------------HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHH
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPD-------------LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTR  164 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-------------~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~  164 (250)
                      +-..+.+.|++++|...|++..+...-.++             ...|+.+-.+|.+.|++++|...|++..+.. +-+..
T Consensus       274 ~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~  352 (457)
T 1kt0_A          274 KGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEK  352 (457)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHH
Confidence            556677889999999999987652211111             5889999999999999999999999987642 23678


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHH-HHHHHH
Q 025612          165 VYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVAA-VRRDCI  225 (250)
Q Consensus       165 ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~-~~~~m~  225 (250)
                      .|..+-.+|...|++++|...|++..+.  .| +...+..+-.++.+.++.+++.+ +++.|.
T Consensus       353 a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          353 GLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQISMCQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----CHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8899999999999999999999998874  45 44677888888888888887764 455554

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.64  E-value=0.00013  Score=50.25  Aligned_cols=56  Identities=16%  Similarity=0.063  Sum_probs=25.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELK  155 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~  155 (250)
                      +-.++.+.|++++|...|++..+. . +-+...|..+-.+|.+.|++++|...|++..
T Consensus        33 lg~~~~~~~~~~~A~~~~~~al~~-~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al   88 (117)
T 3k9i_A           33 LGSTFRTLGEYRKAEAVLANGVKQ-F-PNHQALRVFYAMVLYNLGRYEQGVELLLKII   88 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh-C-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            334444445555555555554431 1 1124444444445555555555555554443

>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=97.62  E-value=0.0021  Score=51.52  Aligned_cols=92  Identities=11%  Similarity=-0.035  Sum_probs=75.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV  176 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~  176 (250)
                      .+-..+.+.|++++|...|....+..  +-+...|..+-.+|.+.|++++|...+++..+.. +-+...|..+-.+|...
T Consensus         9 ~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~   85 (281)
T 2c2l_A            9 EQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQLEM   85 (281)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            35567788999999999999987531  2368888899999999999999999999887642 23567888888999999


Q ss_pred             CChHHHHHHHHHHHH
Q 025612          177 GMIDKAMETYETMKA  191 (250)
Q Consensus       177 g~~~~a~~~~~~m~~  191 (250)
                      |++++|...|++..+
T Consensus        86 g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           86 ESYDEAIANLQRAYS  100 (281)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999999988765

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=97.61  E-value=0.0013  Score=50.13  Aligned_cols=120  Identities=13%  Similarity=0.096  Sum_probs=91.2

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HHHHHH----------------HHHHHHcCCCHHHHHHHHHHHHhCCCCC
Q 025612           99 LTELRRQNELDLALKVFNFVRKEVWYKPD-LSLYSD----------------MILMLGKNKQIAMAEELFCELKKEGLDP  161 (250)
Q Consensus        99 l~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~----------------li~~~~~~~~~~~A~~~~~~m~~~g~~p  161 (250)
                      -..+.+.|++++|...|+...+.   .|+ ...|..                +-..|.+.|++++|...|++..+.. +-
T Consensus        11 g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~   86 (208)
T 3urz_A           11 VSAAIEAGQNGQAVSYFRQTIAL---NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PN   86 (208)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH---CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh---CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CC
Confidence            34567899999999999998753   343 445555                8888999999999999999987742 23


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCC--HHHHHHHHHHH
Q 025612          162 DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGE--EELVAAVRRDC  224 (250)
Q Consensus       162 ~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~--~~~a~~~~~~m  224 (250)
                      +...|..+-..|...|++++|...|++..+.  .| +..+|..+-..|...|+  .+.+...++..
T Consensus        87 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~  150 (208)
T 3urz_A           87 NVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTAEQEKKKLETDYKKL  150 (208)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            6788999999999999999999999999874  35 56778888777766554  33444444443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.61  E-value=0.0011  Score=53.33  Aligned_cols=129  Identities=9%  Similarity=-0.048  Sum_probs=96.9

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhcCcccH-H--HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC----HHHHHHHHHH
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICRLLKADL-L--DTLTELRRQNELDLALKVFNFVRKEVWYKPD----LSLYSDMILM  137 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~-~--~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~y~~li~~  137 (250)
                      .....+...|++++|.++|+.+...+  |+. .  .+-..+.+.+++++|+..|....+    .|+    ...+..+=.+
T Consensus       107 ayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~----~~d~~~~~~a~~~LG~a  180 (282)
T 4f3v_A          107 GFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGK----WPDKFLAGAAGVAHGVA  180 (282)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGG----CSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhc----cCCcccHHHHHHHHHHH
Confidence            34677888999999999999886543  322 2  455578899999999999986532    222    2356677788


Q ss_pred             HHcCCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHH
Q 025612          138 LGKNKQIAMAEELFCELKKEGLDPD--TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTF  201 (250)
Q Consensus       138 ~~~~~~~~~A~~~~~~m~~~g~~p~--~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty  201 (250)
                      +.+.|++++|++.|++.......|.  .......-.++.+.|+.++|..+|+++...  .|+...+
T Consensus       181 l~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~~~~~  244 (282)
T 4f3v_A          181 AANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HPEPKVA  244 (282)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHH
Confidence            9999999999999999875443354  335666677888999999999999999884  4663333

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.56  E-value=0.0016  Score=45.07  Aligned_cols=87  Identities=13%  Similarity=0.033  Sum_probs=37.4

Q ss_pred             HHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCH
Q 025612          136 LMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEE  214 (250)
Q Consensus       136 ~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~  214 (250)
                      ..+.+.|++++|...|++..+.. +-+...|..+-..+...|++++|...|++..+.  .| +...+..+-.+|.+.|++
T Consensus        25 ~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~la~~~~~~g~~  101 (121)
T 1hxi_A           25 LSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEHNA  101 (121)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCH
Confidence            33444444444444444443320 113344444444444444444444444444332  12 233444444444444444


Q ss_pred             HHHHHHHHHHH
Q 025612          215 ELVAAVRRDCI  225 (250)
Q Consensus       215 ~~a~~~~~~m~  225 (250)
                      ++|.+.++...
T Consensus       102 ~~A~~~~~~al  112 (121)
T 1hxi_A          102 NAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            44444444433

>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=97.56  E-value=0.0038  Score=56.64  Aligned_cols=165  Identities=9%  Similarity=0.047  Sum_probs=116.8

Q ss_pred             HHHHHHHHHHHhcCChhHHH-HHHHHHHHhcCcccHH---HHHHHHHHcCCHHHHHHHHHHHHHhC--------CCCCC-
Q 025612           61 SEAIQAVHAMKLAKSSSKLE-EGFQSRICRLLKADLL---DTLTELRRQNELDLALKVFNFVRKEV--------WYKPD-  127 (250)
Q Consensus        61 ~~~~~ll~~~~~~~~~~~a~-~l~~~m~~~~~~~~~~---~ll~~~~~~~~~~~a~~~~~~m~~~~--------g~~~~-  127 (250)
                      .-++...+-+...|+.++|. .++++... .++.+..   ..+...-+.|+++.|.++|+.+.+..        .-.|+ 
T Consensus       344 ~lW~~ya~~~~~~~~~~~a~r~il~rAi~-~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~  422 (679)
T 4e6h_A          344 EIWFNMANYQGEKNTDSTVITKYLKLGQQ-CIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTN  422 (679)
T ss_dssp             HHHHHHHHHHHHHSCCTTHHHHHHHHHHH-HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHH-hCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcc
Confidence            33444455566778888886 99998874 2333332   46666778899999999999987420        00132 


Q ss_pred             -----------HHHHHHHHHHHHcCCCHHHHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhc-CChHHHHHHHHHHHHCC
Q 025612          128 -----------LSLYSDMILMLGKNKQIAMAEELFCELKKE-G-LDPDTRVYTEMIGVYLQV-GMIDKAMETYETMKASG  193 (250)
Q Consensus       128 -----------~~~y~~li~~~~~~~~~~~A~~~~~~m~~~-g-~~p~~~ty~~li~~~~~~-g~~~~a~~~~~~m~~~g  193 (250)
                                 ..+|-..++...+.|..+.|..+|....+. + ..+......+.+.  .+. ++.+.|..+|+...+. 
T Consensus       423 ~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE--~~~~~d~e~Ar~ife~~Lk~-  499 (679)
T 4e6h_A          423 ESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIE--YHISKDTKTACKVLELGLKY-  499 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHH--HTTTSCCHHHHHHHHHHHHH-
T ss_pred             hhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHH--HHhCCCHHHHHHHHHHHHHH-
Confidence                       346888888888999999999999998775 2 2233333333333  233 5699999999998775 


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC
Q 025612          194 CTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVE  229 (250)
Q Consensus       194 ~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~  229 (250)
                      +.-+..-+...++.....|+.+.|..+|+......-
T Consensus       500 ~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~  535 (679)
T 4e6h_A          500 FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKIS  535 (679)
T ss_dssp             HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSS
T ss_pred             CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcC
Confidence            333566677888888889999999999999887654

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=97.53  E-value=0.0016  Score=55.66  Aligned_cols=99  Identities=13%  Similarity=0.016  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHH--HHHHHHH-HHHhcCChHHHHHHHHHHHHCC-------------
Q 025612          130 LYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTR--VYTEMIG-VYLQVGMIDKAMETYETMKASG-------------  193 (250)
Q Consensus       130 ~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~--ty~~li~-~~~~~g~~~~a~~~~~~m~~~g-------------  193 (250)
                      .|..+-..|...|++++|.+.|++..+....|...  .+..+.. .+...|+.++|+..|++..+..             
T Consensus       336 ~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l  415 (472)
T 4g1t_A          336 VCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKMKDKL  415 (472)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHHHHHH
T ss_pred             hhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHH
Confidence            34445555556666666666666655442222111  1111111 1234556666666555543311             


Q ss_pred             ----------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          194 ----------CTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       194 ----------~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                                -..+..+|..+-..|...|++++|.+.|++..+.|
T Consensus       416 ~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~  460 (472)
T 4g1t_A          416 QKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESG  460 (472)
T ss_dssp             HHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-------------
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence                      01233455555555666666666666666555443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.46  E-value=0.0076  Score=50.70  Aligned_cols=164  Identities=13%  Similarity=0.004  Sum_probs=116.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhc-CcccHH------HHHHHH-HHcCCHHHHHHHHHHHHH---hCCCCCC-HHH
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRL-LKADLL------DTLTEL-RRQNELDLALKVFNFVRK---EVWYKPD-LSL  130 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~-~~~~~~------~ll~~~-~~~~~~~~a~~~~~~m~~---~~g~~~~-~~~  130 (250)
                      ...+...|...|++++|.+++....... ..++..      ..+..+ ...|+.+.|.+++.....   ..+..+. ..+
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            4457888999999999999999876422 112211      223322 245889999998887642   2232333 567


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhC--CC--CC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCCC--HH
Q 025612          131 YSDMILMLGKNKQIAMAEELFCELKKE--GL--DP-DTRVYTEMIGVYLQVGMIDKAMETYETMKAS----GCTPH--KL  199 (250)
Q Consensus       131 y~~li~~~~~~~~~~~A~~~~~~m~~~--g~--~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~--~~  199 (250)
                      +..|...|...|++++|..++++....  +.  ++ ...+|..++..|...|++++|..+++.....    +..|.  ..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  217 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAE  217 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHH
Confidence            889999999999999999999987542  22  12 2457888999999999999999999886542    22222  25


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          200 TFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       200 ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      .+..+...+...|+++.|...|.+..+
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            567777788889999999888777643

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.44  E-value=0.0028  Score=55.22  Aligned_cols=125  Identities=8%  Similarity=-0.009  Sum_probs=91.9

Q ss_pred             HHHHhcCChhHHHHHHHHHHHhc---C---cccHH----HHHHHHHHcCCHHHHHHHHHHHHH----hCC-CCC-CHHHH
Q 025612           68 HAMKLAKSSSKLEEGFQSRICRL---L---KADLL----DTLTELRRQNELDLALKVFNFVRK----EVW-YKP-DLSLY  131 (250)
Q Consensus        68 ~~~~~~~~~~~a~~l~~~m~~~~---~---~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~----~~g-~~~-~~~~y  131 (250)
                      ..+...|++++|..++++..+..   +   .|++.    .|..+|...|++++|..++++..+    ..| -.| ...+|
T Consensus       317 ~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l  396 (490)
T 3n71_A          317 DKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAV  396 (490)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            34567899999999999976421   2   23333    477888899999999999998642    112 122 26779


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHh---CCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 025612          132 SDMILMLGKNKQIAMAEELFCELKK---EGLDPD----TRVYTEMIGVYLQVGMIDKAMETYETMKAS  192 (250)
Q Consensus       132 ~~li~~~~~~~~~~~A~~~~~~m~~---~g~~p~----~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  192 (250)
                      +.|-..|...|++++|+.++++...   .-+-||    ..+.+.+-.++...|.+++|+.+|..+++.
T Consensus       397 ~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          397 MRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999987543   212233    344566667888899999999999999763

>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=97.43  E-value=0.0024  Score=53.50  Aligned_cols=119  Identities=13%  Similarity=0.054  Sum_probs=86.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-------------CCC-CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEV-------------WYK-PDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDT  163 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~-------------g~~-~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~  163 (250)
                      +-..+.+.|++++|...|++..+..             ... .+...|+.+-.+|.+.|++++|.+.+++..+.. +-+.
T Consensus       229 ~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~  307 (370)
T 1ihg_A          229 IGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNT  307 (370)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-chhH
Confidence            4455667778888877777765300             011 235778888889999999999999999887742 2357


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHH
Q 025612          164 RVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVAA  219 (250)
Q Consensus       164 ~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~  219 (250)
                      ..|..+-.+|...|++++|.+.|++..+.  .| +...+..+-..+...++.+++.+
T Consensus       308 ~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          308 KALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            78888889999999999999999988764  34 55667777777777777766654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.42  E-value=0.0029  Score=45.84  Aligned_cols=68  Identities=18%  Similarity=0.203  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHK  198 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  198 (250)
                      ...|..+-.+|.+.|++++|...+++..+.. +-+...|..+-.+|...|++++|...|+...+.  .|+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~  130 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAA  130 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGG
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCC
Confidence            4567777777777788888877777766532 234667777777777778888888777776663  3543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.39  E-value=0.015  Score=41.99  Aligned_cols=99  Identities=12%  Similarity=0.029  Sum_probs=73.4

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhC-------C----------CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 025612          129 SLYSDMILMLGKNKQIAMAEELFCELKKE-------G----------LDPDTRVYTEMIGVYLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       129 ~~y~~li~~~~~~~~~~~A~~~~~~m~~~-------g----------~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  191 (250)
                      ..+...=..+.+.|++++|...|.+....       .          -+-+...|..+-.+|.+.|++++|...++...+
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~   91 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLK   91 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            34445555556666666666666554432       0          011346788899999999999999999999887


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          192 SGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       192 ~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      .. .-+...|..+-.+|...|++++|.+.|+...+..
T Consensus        92 ~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           92 RE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            53 2367889999999999999999999999987653

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=97.36  E-value=0.022  Score=48.80  Aligned_cols=151  Identities=7%  Similarity=-0.038  Sum_probs=83.4

Q ss_pred             HHHHHHhcC---ChhHHHHHHHHHHHhcCcccH--HHHHHHHHHc----CCHHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 025612           66 AVHAMKLAK---SSSKLEEGFQSRICRLLKADL--LDTLTELRRQ----NELDLALKVFNFVRKEVWYKPDLSLYSDMIL  136 (250)
Q Consensus        66 ll~~~~~~~---~~~~a~~l~~~m~~~~~~~~~--~~ll~~~~~~----~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~  136 (250)
                      +-..+...|   +.++|...|++..+.|.....  ..+-..|...    +++++|.+.|+...  .   -+...+..|-.
T Consensus       182 Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa--~---g~~~a~~~Lg~  256 (452)
T 3e4b_A          182 LATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA--P---GYPASWVSLAQ  256 (452)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG--G---GSTHHHHHHHH
T ss_pred             HHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc--C---CCHHHHHHHHH
Confidence            344455556   666777777776666554433  2233333222    46677777776653  1   23344444444


Q ss_pred             H-H--HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-----ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 025612          137 M-L--GKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG-----MIDKAMETYETMKASGCTPHKLTFTILIRNL  208 (250)
Q Consensus       137 ~-~--~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g-----~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~  208 (250)
                      . |  ...+++++|.+.|++..+.|   +...+..|-..|. .|     +.++|.+.|++-. .   -+...+..|-..|
T Consensus       257 ~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~A~~~Lg~~y  328 (452)
T 3e4b_A          257 LLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G---REVAADYYLGQIY  328 (452)
T ss_dssp             HHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T---TCHHHHHHHHHHH
T ss_pred             HHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C---CCHHHHHHHHHHH
Confidence            4 3  34667777777777766655   5555555555555 34     6666766666555 2   2444454554555


Q ss_pred             Hh----cCCHHHHHHHHHHHHhccC
Q 025612          209 EN----AGEEELVAAVRRDCIQYVE  229 (250)
Q Consensus       209 ~~----~g~~~~a~~~~~~m~~~g~  229 (250)
                      ..    ..++++|.++|+...+.|.
T Consensus       329 ~~G~g~~~d~~~A~~~~~~Aa~~g~  353 (452)
T 3e4b_A          329 RRGYLGKVYPQKALDHLLTAARNGQ  353 (452)
T ss_dssp             HTTTTSSCCHHHHHHHHHHHHTTTC
T ss_pred             HCCCCCCcCHHHHHHHHHHHHhhCh
Confidence            44    2366666666666665554

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.30  E-value=0.0015  Score=43.70  Aligned_cols=65  Identities=11%  Similarity=0.024  Sum_probs=47.3

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 025612          127 DLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS  192 (250)
Q Consensus       127 ~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  192 (250)
                      +...|..+-..+.+.|++++|.+.|++..+.. +.+...|..+-.+|.+.|++++|.+.|++..+.
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            45566777777778888888888887766541 235677777777888888888888888877763

>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=97.26  E-value=0.025  Score=39.99  Aligned_cols=113  Identities=9%  Similarity=-0.052  Sum_probs=70.5

Q ss_pred             CCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHH
Q 025612          106 NELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQ----VGMIDK  181 (250)
Q Consensus       106 ~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~----~g~~~~  181 (250)
                      +++++|.+.|....+ .| .|+..    |=..|...+.+++|.+.|++-.+.|   +...+..|-..|..    .++.++
T Consensus         9 ~d~~~A~~~~~~aa~-~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACE-LN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHH-TT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHc-CC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            345666666666653 44 23322    4445555566666777777666654   56666666666666    667777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhccCC
Q 025612          182 AMETYETMKASGCTPHKLTFTILIRNLEN----AGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       182 a~~~~~~m~~~g~~p~~~ty~~li~~~~~----~g~~~~a~~~~~~m~~~g~~  230 (250)
                      |.+.|++-.+.|   +...+..|-..|..    .+++++|.++|+...+.|..
T Consensus        80 A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~  129 (138)
T 1klx_A           80 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  129 (138)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCCH
Confidence            777777766654   44556666666666    66777777777777666654

>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=97.25  E-value=0.0056  Score=43.47  Aligned_cols=113  Identities=10%  Similarity=-0.087  Sum_probs=91.4

Q ss_pred             cCChhHHHHHHHHHHHhcCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc----CCCHHHHH
Q 025612           73 AKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK----NKQIAMAE  148 (250)
Q Consensus        73 ~~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~----~~~~~~A~  148 (250)
                      .++.++|...|++..+.|.....  +=..|...+.+++|.+.|....+ .   -+...+..|=..|..    .+++++|.
T Consensus         8 ~~d~~~A~~~~~~aa~~g~~~a~--lg~~y~~g~~~~~A~~~~~~Aa~-~---g~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELNEMFGC--LSLVSNSQINKQKLFQYLSKACE-L---NSGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTCTTHH--HHHHTCTTSCHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCCHhhh--HHHHHHcCCCHHHHHHHHHHHHc-C---CCHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            35677899999998887744333  44455566778889999999875 3   367888888888887    89999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCC
Q 025612          149 ELFCELKKEGLDPDTRVYTEMIGVYLQ----VGMIDKAMETYETMKASGC  194 (250)
Q Consensus       149 ~~~~~m~~~g~~p~~~ty~~li~~~~~----~g~~~~a~~~~~~m~~~g~  194 (250)
                      ++|++-.+.|   +...+..|-..|..    .++.++|.+.|++-.+.|.
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            9999998876   67888888888888    8999999999999988764

>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=97.23  E-value=0.0089  Score=47.81  Aligned_cols=93  Identities=8%  Similarity=-0.105  Sum_probs=73.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcC-cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLL-KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~-~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      ........+.+.|++++|...|++.....- .+... .+-.++.+.|++++|...++...+ . -+-+...|..+-.+|.
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~-~-~p~~~~~~~~lg~~~~   83 (281)
T 2c2l_A            6 ELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALE-L-DGQSVKAHFFLGQCQL   83 (281)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT-S-CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH-h-CCCCHHHHHHHHHHHH
Confidence            344456778889999999999999876532 22222 577788899999999999999864 2 2335788999999999


Q ss_pred             cCCCHHHHHHHHHHHHh
Q 025612          140 KNKQIAMAEELFCELKK  156 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~  156 (250)
                      ..|++++|...|++..+
T Consensus        84 ~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           84 EMESYDEAIANLQRAYS  100 (281)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            99999999999998765

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=97.21  E-value=0.016  Score=49.31  Aligned_cols=151  Identities=13%  Similarity=0.055  Sum_probs=86.1

Q ss_pred             CChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcC----------
Q 025612           74 KSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKN----------  141 (250)
Q Consensus        74 ~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~----------  141 (250)
                      ++.++|..++++....... +... .+-..+.+.|++++|...|....+..  +-+..+|..+-..|...          
T Consensus       227 ~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~y~~~~~~~~~~~~~  304 (472)
T 4g1t_A          227 EEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI--PNNAYLHCQIGCCYRAKVFQVMNLREN  304 (472)
T ss_dssp             ---CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             hHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC--CChHHHHHHHHHHHHHHHHHhhhHHHH
Confidence            5556677777766543221 1222 46666777777777777777765421  22355555554444321          


Q ss_pred             ---------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH--HHHHHHH-HHH
Q 025612          142 ---------KQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKL--TFTILIR-NLE  209 (250)
Q Consensus       142 ---------~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--ty~~li~-~~~  209 (250)
                               +..+.|...|++..+.. +.+..+|..+-..|...|++++|.+.|++..+....|...  .+..+-. ...
T Consensus       305 ~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~  383 (472)
T 4g1t_A          305 GMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLY  383 (472)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHH
Confidence                     22455666666554431 2234557777888888999999999998887754332221  1222221 234


Q ss_pred             hcCCHHHHHHHHHHHHhc
Q 025612          210 NAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       210 ~~g~~~~a~~~~~~m~~~  227 (250)
                      ..|++++|.+.+.+..+.
T Consensus       384 ~~~~~~~Ai~~y~kal~i  401 (472)
T 4g1t_A          384 QMKCEDKAIHHFIEGVKI  401 (472)
T ss_dssp             TSSCHHHHHHHHHHHHHS
T ss_pred             HCCCHHHHHHHHHHHHhc
Confidence            678888888888776553

>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=97.17  E-value=0.0098  Score=49.78  Aligned_cols=100  Identities=9%  Similarity=0.020  Sum_probs=82.4

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhC--------------CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKE--------------GLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKAS  192 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~--------------g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  192 (250)
                      ...|..+-..|.+.|++++|.+.|++..+.              ...| +...|+.+-.+|.+.|++++|++.+++..+.
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  302 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI  302 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh
Confidence            445778888899999999999999987651              0122 4577889999999999999999999999875


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          193 GCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       193 g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      . .-+...|..+-.+|.+.|++++|.+.|+...+..
T Consensus       303 ~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~  337 (370)
T 1ihg_A          303 D-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  337 (370)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             C-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            3 2267889999999999999999999999987654

>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=97.16  E-value=0.002  Score=55.88  Aligned_cols=114  Identities=13%  Similarity=-0.033  Sum_probs=83.6

Q ss_pred             HHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHH
Q 025612           70 MKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMA  147 (250)
Q Consensus        70 ~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A  147 (250)
                      +.+.|++++|.+.+++..+..-. +... .+-.++.+.|++++|.+.|++..+ .. +-+...|..+-.+|.+.|++++|
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~-l~-p~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIE-LD-KKYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-SC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH-hC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            45679999999999998765321 2222 577788899999999999999875 32 33578899999999999999999


Q ss_pred             HHHHHHHHhCCCCC-CHHHHHHHHHH--HHhcCChHHHHHHHH
Q 025612          148 EELFCELKKEGLDP-DTRVYTEMIGV--YLQVGMIDKAMETYE  187 (250)
Q Consensus       148 ~~~~~~m~~~g~~p-~~~ty~~li~~--~~~~g~~~~a~~~~~  187 (250)
                      .+.|++..+.  .| +...+..+-.+  +.+.|++++|.+.++
T Consensus        94 ~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           94 LRDYETVVKV--KPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHH--STTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999998764  23 23344444444  888899999999988

>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=97.12  E-value=0.013  Score=42.90  Aligned_cols=62  Identities=6%  Similarity=0.044  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHC-----CCCCCH-HHH----HHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          165 VYTEMIGVYLQVGMIDKAMETYETMKAS-----GCTPHK-LTF----TILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       165 ty~~li~~~~~~g~~~~a~~~~~~m~~~-----g~~p~~-~ty----~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      .|+.+-.++.+.|++++|+..|++-.+.     -+.|+. ..|    ...-.++...|++++|.+.|+...+
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            7777777777788888887777776652     225654 456    6777888888999999888888743

>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=97.11  E-value=0.013  Score=50.36  Aligned_cols=97  Identities=9%  Similarity=-0.031  Sum_probs=83.6

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC----------------HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPD----------------TRVYTEMIGVYLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~----------------~~ty~~li~~~~~~g~~~~a~~~~~~m~~  191 (250)
                      ...|..+-..|.+.|++++|...|++..+.  .|+                ...|+.+-.+|.+.|++++|+..|++..+
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  345 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSW--LEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALG  345 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            567888889999999999999999988763  222                58899999999999999999999999887


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          192 SGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       192 ~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      .. .-+...|..+-.+|...|++++|.+.|+...+.
T Consensus       346 ~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l  380 (457)
T 1kt0_A          346 LD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  380 (457)
T ss_dssp             HS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             cC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            53 236788999999999999999999999998765

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.10  E-value=0.0012  Score=54.51  Aligned_cols=94  Identities=11%  Similarity=0.029  Sum_probs=52.0

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHH
Q 025612          130 LYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHK-LTFTILIRNL  208 (250)
Q Consensus       130 ~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~ty~~li~~~  208 (250)
                      .|+.+-.+|.+.|++++|...|++..+.. +-+...|..+-.+|...|++++|...|++..+.  .|+. ..+..+-...
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~  308 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALA  308 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHH
Confidence            78888889999999999999999877642 236788889999999999999999999987663  4543 3344444332


Q ss_pred             -HhcCCHHHHHHHHHHHHh
Q 025612          209 -ENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       209 -~~~g~~~~a~~~~~~m~~  226 (250)
                       ...+..+.+.++|..|..
T Consensus       309 ~~~~~~~~~a~~~~~~~l~  327 (338)
T 2if4_A          309 EQEKALYQKQKEMYKGIFK  327 (338)
T ss_dssp             -------------------
T ss_pred             HHHHHHHHHHHHHHHHhhC
Confidence             234566777778877754

>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=97.05  E-value=0.024  Score=41.38  Aligned_cols=108  Identities=15%  Similarity=0.034  Sum_probs=77.1

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCC-----C-----HHHHHHHHHHHHcCCCHHHHHHHHHHHHhC-----CCCCCH
Q 025612           99 LTELRRQNELDLALKVFNFVRKEVWYKP-----D-----LSLYSDMILMLGKNKQIAMAEELFCELKKE-----GLDPDT  163 (250)
Q Consensus        99 l~~~~~~~~~~~a~~~~~~m~~~~g~~~-----~-----~~~y~~li~~~~~~~~~~~A~~~~~~m~~~-----g~~p~~  163 (250)
                      -..+.+.|++++|...|+...+-..-.|     +     ...|+.+-.++.+.|++++|+..+++..+.     .+.||.
T Consensus        18 G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~   97 (159)
T 2hr2_A           18 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   97 (159)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCch
Confidence            3456677888888888887654211100     2     238899999999999999999999887662     226653


Q ss_pred             -HHH----HHHHHHHHhcCChHHHHHHHHHHHH-----CCCCCCHHHHHHHHH
Q 025612          164 -RVY----TEMIGVYLQVGMIDKAMETYETMKA-----SGCTPHKLTFTILIR  206 (250)
Q Consensus       164 -~ty----~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~ty~~li~  206 (250)
                       ..|    ...-.++...|++++|+..|++..+     .|+.+........+.
T Consensus        98 ~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~~~~~  150 (159)
T 2hr2_A           98 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAI  150 (159)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH
Confidence             567    7888899999999999999998754     477776665555444

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.96  E-value=0.014  Score=39.36  Aligned_cols=79  Identities=9%  Similarity=-0.071  Sum_probs=52.9

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 025612          110 LALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETM  189 (250)
Q Consensus       110 ~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m  189 (250)
                      .|...|+...+ . -+.+...|..+-..|...|++++|...|++..... +.+...|..+-..|...|++++|...|++.
T Consensus         3 ~a~~~~~~al~-~-~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            3 AITERLEAMLA-Q-GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CHHHHHHHHHT-T-TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH-h-CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            35556666543 1 12356677777777888888888888887766542 224566777777777888888888877776


Q ss_pred             HH
Q 025612          190 KA  191 (250)
Q Consensus       190 ~~  191 (250)
                      .+
T Consensus        80 l~   81 (115)
T 2kat_A           80 LA   81 (115)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>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=96.93  E-value=0.011  Score=50.76  Aligned_cols=87  Identities=10%  Similarity=0.014  Sum_probs=68.5

Q ss_pred             cCCCHHHHHHHHHHHHh---CCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHH-----CC-CCCCH-HHHHHHH
Q 025612          140 KNKQIAMAEELFCELKK---EGLDPD----TRVYTEMIGVYLQVGMIDKAMETYETMKA-----SG-CTPHK-LTFTILI  205 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~---~g~~p~----~~ty~~li~~~~~~g~~~~a~~~~~~m~~-----~g-~~p~~-~ty~~li  205 (250)
                      +.|++++|+.++++..+   +-+.|+    ..+++.|...|...|++++|+.++++..+     .| -.|+. .+|+.|-
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            45789999999987654   223333    47899999999999999999999998753     12 24444 6799999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHh
Q 025612          206 RNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       206 ~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      ..|...|++++|+.++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999988643

>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=96.91  E-value=0.016  Score=49.55  Aligned_cols=92  Identities=11%  Similarity=0.051  Sum_probs=70.4

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhC---CCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHC------CCCCCH-H
Q 025612          134 MILMLGKNKQIAMAEELFCELKKE---GLDPD----TRVYTEMIGVYLQVGMIDKAMETYETMKAS------GCTPHK-L  199 (250)
Q Consensus       134 li~~~~~~~~~~~A~~~~~~m~~~---g~~p~----~~ty~~li~~~~~~g~~~~a~~~~~~m~~~------g~~p~~-~  199 (250)
                      .+..+.+.|++++|..++++..+.   -+.|+    ..+++.|...|...|++++|+.++++...-      .-.|+. .
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~  372 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGV  372 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHH
Confidence            355566788999999999887653   12232    567899999999999999999999876531      233443 6


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025612          200 TFTILIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       200 ty~~li~~~~~~g~~~~a~~~~~~m~  225 (250)
                      +|+.|-..|...|++++|+.++++..
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            68889999999999999999888764

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=96.90  E-value=0.14  Score=43.87  Aligned_cols=119  Identities=13%  Similarity=0.150  Sum_probs=84.3

Q ss_pred             HHHHHHHHcC---CHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 025612           97 DTLTELRRQN---ELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKN----KQIAMAEELFCELKKEGLDPDTRVYTEM  169 (250)
Q Consensus        97 ~ll~~~~~~~---~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~----~~~~~A~~~~~~m~~~g~~p~~~ty~~l  169 (250)
                      .+-..|.+.|   +.++|.+.|....+ .| .++...+..|-..|...    +++++|.+.|++.. .|   +...+..|
T Consensus       181 ~Lg~~~~~~g~~~~~~~A~~~~~~aa~-~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~L  254 (452)
T 3e4b_A          181 ELATVYQKKQQPEQQAELLKQMEAGVS-RG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSL  254 (452)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHH-TT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHH
T ss_pred             HHHHHHHHcCCcccHHHHHHHHHHHHH-CC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHH
Confidence            4556666778   78888888888764 44 34555556666666554    68889999888876 33   45555555


Q ss_pred             HHH-H--HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-----CHHHHHHHHHHHH
Q 025612          170 IGV-Y--LQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAG-----EEELVAAVRRDCI  225 (250)
Q Consensus       170 i~~-~--~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g-----~~~~a~~~~~~m~  225 (250)
                      -.. |  ...|+.++|.+.|++..+.|   +...+..|-..|. .|     ++++|.++|+...
T Consensus       255 g~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa  314 (452)
T 3e4b_A          255 AQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV  314 (452)
T ss_dssp             HHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT
T ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh
Confidence            555 3  45788999999998888776   5566666666666 45     8888888888766

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.89  E-value=0.023  Score=36.05  Aligned_cols=63  Identities=14%  Similarity=0.158  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  191 (250)
                      ...|..+-..|.+.|++++|...|++..+.. +-+...|..+-..|.+.|++++|...|++..+
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            3455556666666667777766666655431 22455566666666666777777766666655

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.88  E-value=0.028  Score=51.39  Aligned_cols=104  Identities=10%  Similarity=0.016  Sum_probs=72.5

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 025612          100 TELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMI  179 (250)
Q Consensus       100 ~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~  179 (250)
                      ......|+++.|+++.+.+       .+...|..|-..+.+.++++.|.++|..+..         |..+...|...|+.
T Consensus       660 ~~~l~~~~~~~A~~~~~~~-------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~  723 (814)
T 3mkq_A          660 ELALKVGQLTLARDLLTDE-------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNK  723 (814)
T ss_dssp             HHHHHHTCHHHHHHHHTTC-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCH
T ss_pred             ehhhhcCCHHHHHHHHHhh-------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCH
Confidence            3445667777777765443       3678899999999999999999999998765         45566666667777


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025612          180 DKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       180 ~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~  225 (250)
                      +...++-+.....|-      ++.-..+|.+.|++++|.+++.++.
T Consensus       724 ~~~~~~~~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          724 EGLVTLAKDAETTGK------FNLAFNAYWIAGDIQGAKDLLIKSQ  763 (814)
T ss_dssp             HHHHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHcCc------hHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            776666655555442      2444555666777777777776654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.80  E-value=0.029  Score=37.75  Aligned_cols=80  Identities=10%  Similarity=0.101  Sum_probs=65.5

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025612          146 MAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       146 ~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~  225 (250)
                      .|...|++..+.. +-+...|..+-..|...|++++|...|++..+.. ..+...|..+-.+|...|++++|.+.|+...
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4667777776542 3367889999999999999999999999987753 2356788999999999999999999999887


Q ss_pred             hc
Q 025612          226 QY  227 (250)
Q Consensus       226 ~~  227 (250)
                      +.
T Consensus        81 ~~   82 (115)
T 2kat_A           81 AA   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            54

>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=96.75  E-value=0.016  Score=49.56  Aligned_cols=88  Identities=7%  Similarity=0.046  Sum_probs=68.9

Q ss_pred             HcCCHHHHHHHHHHHHHh--CCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHHHh---C--C-CCCC-HHHHHHHH
Q 025612          104 RQNELDLALKVFNFVRKE--VWYKPD----LSLYSDMILMLGKNKQIAMAEELFCELKK---E--G-LDPD-TRVYTEMI  170 (250)
Q Consensus       104 ~~~~~~~a~~~~~~m~~~--~g~~~~----~~~y~~li~~~~~~~~~~~A~~~~~~m~~---~--g-~~p~-~~ty~~li  170 (250)
                      +.|++++|..++++..+.  .-+.|+    ..++|.|...|...|++++|..++++...   +  | -.|+ ..+||.|-
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            457899999999986431  223333    67899999999999999999999988653   1  2 2333 47799999


Q ss_pred             HHHHhcCChHHHHHHHHHHHH
Q 025612          171 GVYLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       171 ~~~~~~g~~~~a~~~~~~m~~  191 (250)
                      ..|...|++++|+.+|++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999987643

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.75  E-value=0.01  Score=39.26  Aligned_cols=64  Identities=20%  Similarity=0.153  Sum_probs=41.9

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 025612          127 DLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       127 ~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  191 (250)
                      +...+..+-..|.+.|++++|.+.|++..+.. +-+...|..+-.+|...|++++|.+.|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45566667777777777777777777765532 12345666677777777777777777766543

>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=96.74  E-value=0.015  Score=49.79  Aligned_cols=94  Identities=12%  Similarity=-0.011  Sum_probs=74.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHHHh---C--C-CCCC-H
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKE--VWYKPD----LSLYSDMILMLGKNKQIAMAEELFCELKK---E--G-LDPD-T  163 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~--~g~~~~----~~~y~~li~~~~~~~~~~~A~~~~~~m~~---~--g-~~p~-~  163 (250)
                      ..+..+.+.|++++|..++++..+.  .-+.|+    ..+++.|...|...|++++|+.++++...   .  | -.|+ .
T Consensus       292 ~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a  371 (429)
T 3qwp_A          292 KKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRG  371 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHH
Confidence            3566777899999999999987632  222332    67899999999999999999999987653   1  1 2233 5


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHH
Q 025612          164 RVYTEMIGVYLQVGMIDKAMETYETMK  190 (250)
Q Consensus       164 ~ty~~li~~~~~~g~~~~a~~~~~~m~  190 (250)
                      .+|+.|-..|...|++++|+.++++..
T Consensus       372 ~~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          372 VQVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            779999999999999999999998764

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=96.74  E-value=0.011  Score=48.81  Aligned_cols=96  Identities=9%  Similarity=-0.023  Sum_probs=73.3

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHH------------------HHHHHHHHHHhcCChHHHHHHHHHHH
Q 025612          129 SLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTR------------------VYTEMIGVYLQVGMIDKAMETYETMK  190 (250)
Q Consensus       129 ~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~------------------ty~~li~~~~~~g~~~~a~~~~~~m~  190 (250)
                      ..|..+-..|.+.|++++|...|++....  .|+..                  .|+.+-.+|.+.|++++|...|++..
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            34555556666677777777777665442  23332                  78889999999999999999999987


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          191 ASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       191 ~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      +.. .-+...|..+-.+|...|++++|.+.|+...+.
T Consensus       258 ~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l  293 (338)
T 2if4_A          258 TEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKY  293 (338)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            743 236788999999999999999999999988654

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.55  E-value=0.022  Score=37.60  Aligned_cols=65  Identities=12%  Similarity=0.051  Sum_probs=56.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          162 DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       162 ~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      +...|..+-..|.+.|++++|...|++..+.. .-+...|..+-.+|...|++++|.+.+++..+.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            57788899999999999999999999988753 124578999999999999999999999987754

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=96.54  E-value=0.17  Score=43.88  Aligned_cols=28  Identities=7%  Similarity=-0.173  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHh
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICR   89 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~   89 (250)
                      -++..+.-+...|+.++|..++++....
T Consensus       215 lW~~ya~~~~~~~~~~~ar~i~erAi~~  242 (493)
T 2uy1_A          215 VYFFYSEYLIGIGQKEKAKKVVERGIEM  242 (493)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            3444566667788999999999988766

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.37  E-value=0.076  Score=33.46  Aligned_cols=66  Identities=12%  Similarity=0.167  Sum_probs=56.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          162 DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       162 ~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      +...|..+-..|...|++++|...|++..+.. ..+...+..+-..+.+.|++++|.+.+++..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~   73 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD   73 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            35677888889999999999999999987653 2367788899999999999999999999988754

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.26  E-value=0.082  Score=34.73  Aligned_cols=67  Identities=12%  Similarity=0.195  Sum_probs=57.2

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          161 PDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       161 p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      ++...|..+-..+.+.|++++|.+.|++..+.. ..+...|..+-.++.+.|++++|.+.++...+..
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   68 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT   68 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            356678888899999999999999999987752 2367889999999999999999999999988654

>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=95.85  E-value=0.081  Score=38.52  Aligned_cols=101  Identities=15%  Similarity=0.011  Sum_probs=69.3

Q ss_pred             HHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCC----------HHHHHHHHHHHHhCCCCC-CHHHHHHHHH
Q 025612          103 RRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQ----------IAMAEELFCELKKEGLDP-DTRVYTEMIG  171 (250)
Q Consensus       103 ~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~----------~~~A~~~~~~m~~~g~~p-~~~ty~~li~  171 (250)
                      .+.+.+++|.+.++...+..  +-+...|+.+=.++...++          +++|+..|++..+-  .| +...|..+-.
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~--P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l--dP~~~~A~~~LG~   88 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIGN   88 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh--CcCcHHHHHHHHH
Confidence            35566778888888776532  2256666666666666554          45888888887663  34 4567888888


Q ss_pred             HHHhcC-----------ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 025612          172 VYLQVG-----------MIDKAMETYETMKASGCTPHKLTFTILIRNLE  209 (250)
Q Consensus       172 ~~~~~g-----------~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~  209 (250)
                      +|...|           ++++|.+.|++..+  +.|+...|..-+...-
T Consensus        89 ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~~~~  135 (158)
T 1zu2_A           89 AYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMTA  135 (158)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHH
T ss_pred             HHHHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHHH
Confidence            887764           78999999988887  4687777666555443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=95.83  E-value=0.58  Score=37.91  Aligned_cols=159  Identities=8%  Similarity=-0.085  Sum_probs=113.4

Q ss_pred             CChhHHHHHHHHHHHhcCcccHHH---HHHHHHHcCCHH--HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCC-----
Q 025612           74 KSSSKLEEGFQSRICRLLKADLLD---TLTELRRQNELD--LALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQ-----  143 (250)
Q Consensus        74 ~~~~~a~~l~~~m~~~~~~~~~~~---ll~~~~~~~~~~--~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~-----  143 (250)
                      +++++++.+++.+.+..-+ +..+   ---.+.+.|.++  +++++++.+.+ .. .-|-+.|+---..+.+.+.     
T Consensus       124 ~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~-~d-~~N~sAW~~R~~ll~~l~~~~~~~  200 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVID-TD-LKNNSAWSHRFFLLFSKKHLATDN  200 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH-HC-TTCHHHHHHHHHHHHSSGGGCCHH
T ss_pred             CCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHH-hC-CCCHHHHHHHHHHHHhccccchhh
Confidence            7888999999998764322 2211   122233456666  99999999986 33 3377888877777777776     


Q ss_pred             -HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHH-HHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHH
Q 025612          144 -IAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDK-AMETYETMKASG--CTPHKLTFTILIRNLENAGEEELVAA  219 (250)
Q Consensus       144 -~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~-a~~~~~~m~~~g--~~p~~~ty~~li~~~~~~g~~~~a~~  219 (250)
                       ++++++.++++.... +-|...|+-+-..+.+.|.... +..+.....+.+  -..+...+..+.+.|.+.|+.++|.+
T Consensus       201 ~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~  279 (306)
T 3dra_A          201 TIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRT  279 (306)
T ss_dssp             HHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHH
Confidence             889999998877642 3478889888888888887444 556777765533  23478899999999999999999999


Q ss_pred             HHHHHHh--ccCCchHHHH
Q 025612          220 VRRDCIQ--YVEFPERFLE  236 (250)
Q Consensus       220 ~~~~m~~--~g~~pd~~~~  236 (250)
                      +++.+.+  ..+..+.+.+
T Consensus       280 ~~~~l~~~~Dpir~~yW~~  298 (306)
T 3dra_A          280 VYDLLKSKYNPIRSNFWDY  298 (306)
T ss_dssp             HHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHhccChHHHHHHHH
Confidence            9999985  3444444433

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.56  E-value=0.48  Score=35.05  Aligned_cols=129  Identities=8%  Similarity=0.028  Sum_probs=66.7

Q ss_pred             HHHHhcCChhHHHHHHHHHHHhcCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHH
Q 025612           68 HAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMA  147 (250)
Q Consensus        68 ~~~~~~~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A  147 (250)
                      ....+.|+++.|.++-+.+   .....+..|-+...+.|+++-|++.|....       |   |..|.-.|.-.|+.++.
T Consensus        13 ~LAL~lg~l~~A~e~a~~l---~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~-------D---~~~L~~Ly~~tg~~e~L   79 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL---NDSITWERLIQEALAQGNASLAEMIYQTQH-------S---FDKLSFLYLVTGDVNKL   79 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH---CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT-------C---HHHHHHHHHHHTCHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh---CCHHHHHHHHHHHHHcCChHHHHHHHHHhC-------C---HHHHHHHHHHhCCHHHH
Confidence            3344556666666665543   222223356666666666666666666552       1   45555555555665555


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 025612          148 EELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDC  224 (250)
Q Consensus       148 ~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m  224 (250)
                      .++-+.-...|      -+|.-...+...|+++++.++|.+.   |-.|-.+.      ..-..|..+.|.++..++
T Consensus        80 ~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~---~r~~eA~~------~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           80 SKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG---GSLPLAYA------VAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT---TCHHHHHH------HHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC---CChHHHHH------HHHHcCcHHHHHHHHHHh
Confidence            54433333322      2455555566667777777766432   22221111      111255666677766554

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.32  E-value=0.48  Score=33.57  Aligned_cols=84  Identities=11%  Similarity=0.024  Sum_probs=66.1

Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 025612          141 NKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAV  220 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~  220 (250)
                      +|++......+-.+-.     +....+.-+......|+-|+..+++.++.. +..|++...-.+-.||.+.|+..++.++
T Consensus        74 C~NlKrVi~C~~~~n~-----~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eL  147 (172)
T 1wy6_A           74 CQNLKSVVECGVINNT-----LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTL  147 (172)
T ss_dssp             CSCTHHHHHHHHHTTC-----CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hhcHHHHHHHHHHhcc-----hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHH
Confidence            4455555555444332     556678888999999999999999999654 3578888899999999999999999999


Q ss_pred             HHHHHhccCC
Q 025612          221 RRDCIQYVEF  230 (250)
Q Consensus       221 ~~~m~~~g~~  230 (250)
                      +.+.=+.|+.
T Consensus       148 l~~AC~kG~k  157 (172)
T 1wy6_A          148 LIEACKKGEK  157 (172)
T ss_dssp             HHHHHHTTCH
T ss_pred             HHHHHHhhhH
Confidence            9999999886

>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=95.27  E-value=1.4  Score=38.81  Aligned_cols=168  Identities=10%  Similarity=0.002  Sum_probs=117.4

Q ss_pred             HHHHHHHhcCCh-hHHHHHHHHHHHhcCcccHH-----HHHHHHHHcCC-------HHHHHHHHHHHHHhCCCCCCHHHH
Q 025612           65 QAVHAMKLAKSS-SKLEEGFQSRICRLLKADLL-----DTLTELRRQNE-------LDLALKVFNFVRKEVWYKPDLSLY  131 (250)
Q Consensus        65 ~ll~~~~~~~~~-~~a~~l~~~m~~~~~~~~~~-----~ll~~~~~~~~-------~~~a~~~~~~m~~~~g~~~~~~~y  131 (250)
                      ..+.++.+.|+. ++|++.++++....-.-...     .++..+.+...       ++++.++++.+.+. . +-+...|
T Consensus        33 ~~~~~~~~~~~~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~-~-pK~y~aW  110 (567)
T 1dce_A           33 QAVFQKRQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV-N-PKSYGTW  110 (567)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH-C-TTCHHHH
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh-C-CCCHHHH
Confidence            345555555555 47899999987543321111     24444443221       89999999999753 2 3367889


Q ss_pred             HHHHHHHHcCC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 025612          132 SDMILMLGKNK--QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG-MIDKAMETYETMKASGCTPHKLTFTILIRNL  208 (250)
Q Consensus       132 ~~li~~~~~~~--~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~  208 (250)
                      +.--..+.+.+  +++++.+.++++.+.. .-|...|+---..+.+.| .++++++.++++.+.... |...|+..-..+
T Consensus       111 ~hR~w~l~~l~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll  188 (567)
T 1dce_A          111 HHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLL  188 (567)
T ss_dssp             HHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHcccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHH
Confidence            88888888889  7799999999998853 337788888777778888 899999999999876533 677788777777


Q ss_pred             Hhc--------------CCHHHHHHHHHHHHhccC-CchHHHH
Q 025612          209 ENA--------------GEEELVAAVRRDCIQYVE-FPERFLE  236 (250)
Q Consensus       209 ~~~--------------g~~~~a~~~~~~m~~~g~-~pd~~~~  236 (250)
                      .+.              +.++++.+.++......- -...+.|
T Consensus       189 ~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y  231 (567)
T 1dce_A          189 PQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFY  231 (567)
T ss_dssp             HHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHH
T ss_pred             HhhcccccccccccccHHHHHHHHHHHHHHHhhCCCCccHHHH
Confidence            663              457888888877765432 2444444

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=95.15  E-value=0.59  Score=38.93  Aligned_cols=66  Identities=15%  Similarity=0.079  Sum_probs=34.3

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          160 DPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       160 ~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      ..+..+|.++-..+...|++++|...+++....+  |+...|..+=..+.-.|++++|.+.+.+..+.
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            3345555555444444455555555555555543  55555544455555555555555555554443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=95.07  E-value=0.2  Score=32.19  Aligned_cols=54  Identities=17%  Similarity=0.019  Sum_probs=27.1

Q ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 025612          101 ELRRQNELDLALKVFNFVRKEVWYKPDLS-LYSDMILMLGKNKQIAMAEELFCELKK  156 (250)
Q Consensus       101 ~~~~~~~~~~a~~~~~~m~~~~g~~~~~~-~y~~li~~~~~~~~~~~A~~~~~~m~~  156 (250)
                      .+.+.|++++|...|+...+. . +.+.. .|..+-.+|.+.|++++|.+.|++..+
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~-~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQT-E-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH-C-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH-C-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            344555555555555555431 1 11334 455555555555555555555555444

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=94.98  E-value=0.23  Score=31.90  Aligned_cols=56  Identities=23%  Similarity=0.286  Sum_probs=44.0

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCC-CHH-HHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 025612          135 ILMLGKNKQIAMAEELFCELKKEGLDP-DTR-VYTEMIGVYLQVGMIDKAMETYETMKAS  192 (250)
Q Consensus       135 i~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~-ty~~li~~~~~~g~~~~a~~~~~~m~~~  192 (250)
                      ...+.+.|++++|...|++..+.  .| +.. .|..+-..|...|++++|...|++..+.
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            44567788999999999887764  34 456 7888888888899999999999888764

>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=94.95  E-value=1.3  Score=36.95  Aligned_cols=75  Identities=15%  Similarity=-0.028  Sum_probs=63.7

Q ss_pred             CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 025612          125 KPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTI  203 (250)
Q Consensus       125 ~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~  203 (250)
                      ..+..+|.++-..+...|++++|...+++....+  |+...|..+-..+.-.|++++|.+.|++-...  .|...||..
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~~  348 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLYW  348 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHHH
Confidence            5678889888877777899999999999998875  88888877788888999999999999987773  588887654

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=94.71  E-value=0.3  Score=32.38  Aligned_cols=64  Identities=11%  Similarity=-0.025  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhC------CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKE------GLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~------g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  191 (250)
                      ...+-.|=..+.+.|+++.|...|++..+.      +-.+....|..|..+|.+.|++++|...+++..+
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            334444455555555555555555543321      0112344555555666666666666666665554

>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=94.57  E-value=0.14  Score=37.19  Aligned_cols=97  Identities=12%  Similarity=0.087  Sum_probs=72.2

Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC----------hHHHHHHHHHHHHCCCCC-CHHHHHHHHHHH
Q 025612          140 KNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGM----------IDKAMETYETMKASGCTP-HKLTFTILIRNL  208 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~----------~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~  208 (250)
                      +.+.+++|.+.++...+.. +-+...|+.+-.++...|+          +++|+..|++..+.  .| +...|..+=.+|
T Consensus        14 r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l--dP~~~~A~~~LG~ay   90 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh--CcCcHHHHHHHHHHH
Confidence            4456889999998877642 3367788878777777765          45999999998874  46 557899999999


Q ss_pred             HhcC-----------CHHHHHHHHHHHHhccCCchHHHHHHH
Q 025612          209 ENAG-----------EEELVAAVRRDCIQYVEFPERFLEEVY  239 (250)
Q Consensus       209 ~~~g-----------~~~~a~~~~~~m~~~g~~pd~~~~~~~  239 (250)
                      ...|           ++++|.+.|++..+..-....+.+.+.
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y~~al~  132 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            8874           899999999998876544444444443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=94.47  E-value=0.81  Score=32.93  Aligned_cols=86  Identities=16%  Similarity=0.055  Sum_probs=53.7

Q ss_pred             HHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCChHHH
Q 025612          108 LDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNK---QIAMAEELFCELKKEGLDP--DTRVYTEMIGVYLQVGMIDKA  182 (250)
Q Consensus       108 ~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~---~~~~A~~~~~~m~~~g~~p--~~~ty~~li~~~~~~g~~~~a  182 (250)
                      +..+.+-|.+..+ .|. ++..+--.+-.++++.+   +++++..+|++..+.. .|  +...+=.|--+|.+.|++++|
T Consensus        14 l~~~~~~y~~e~~-~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           14 LLKFEKKFQSEKA-AGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHH-TTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHc-cCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            4455566665543 333 57777777777777777   5567888888776653 23  122222333455788888888


Q ss_pred             HHHHHHHHHCCCCCCH
Q 025612          183 METYETMKASGCTPHK  198 (250)
Q Consensus       183 ~~~~~~m~~~g~~p~~  198 (250)
                      .+.++...+  +.|+.
T Consensus        91 ~~y~~~lL~--ieP~n  104 (152)
T 1pc2_A           91 LKYVRGLLQ--TEPQN  104 (152)
T ss_dssp             HHHHHHHHH--HCTTC
T ss_pred             HHHHHHHHh--cCCCC
Confidence            888888777  45744

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=93.99  E-value=0.8  Score=39.68  Aligned_cols=77  Identities=19%  Similarity=0.182  Sum_probs=37.9

Q ss_pred             CHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 025612          107 ELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETY  186 (250)
Q Consensus       107 ~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~  186 (250)
                      +.+.|..+|+...+..+  -+...|...++...+.|+.+.|..+|+....     ....|...+.-=...|+.+.+..++
T Consensus       335 d~~~ar~ife~al~~~~--~~~~~~~~yid~e~~~~~~~~aR~l~er~~k-----~~~lw~~~~~fE~~~G~~~~~r~v~  407 (493)
T 2uy1_A          335 SRATPYNIFSSGLLKHP--DSTLLKEEFFLFLLRIGDEENARALFKRLEK-----TSRMWDSMIEYEFMVGSMELFRELV  407 (493)
T ss_dssp             CSHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHTCHHHHHHHHHHSCC-----BHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----HHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            45555555555543221  1233344445555555555555555555421     3444555554444455555555555


Q ss_pred             HHHH
Q 025612          187 ETMK  190 (250)
Q Consensus       187 ~~m~  190 (250)
                      ++..
T Consensus       408 ~~~~  411 (493)
T 2uy1_A          408 DQKM  411 (493)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=93.93  E-value=2.1  Score=34.62  Aligned_cols=163  Identities=9%  Similarity=-0.008  Sum_probs=113.9

Q ss_pred             HHHHHHHHHHhcCCh-hHHHHHHHHHHHhcCcccHH----HHHHHHHHcC--CHHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSS-SKLEEGFQSRICRLLKADLL----DTLTELRRQN--ELDLALKVFNFVRKEVWYKPDLSLYSDM  134 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~-~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~--~~~~a~~~~~~m~~~~g~~~~~~~y~~l  134 (250)
                      +++..+++..+.|.. ++|+.+++.++..  .|+..    .--..+...+  .+++++++++.+.+. + +-+...|+.-
T Consensus        34 ~~~~~~~a~~~~~e~s~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~-n-Pk~y~aW~~R  109 (306)
T 3dra_A           34 QIMGLLLALMKAEEYSERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALD-N-EKNYQIWNYR  109 (306)
T ss_dssp             HHHHHHHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHH-C-TTCCHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHH-C-cccHHHHHHH
Confidence            344456666666655 5899999998754  33333    1222233455  899999999998753 2 2245556544


Q ss_pred             HHHH----HcC---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChH--HHHHHHHHHHHCCCCCCHHHHHHHH
Q 025612          135 ILML----GKN---KQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMID--KAMETYETMKASGCTPHKLTFTILI  205 (250)
Q Consensus       135 i~~~----~~~---~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~--~a~~~~~~m~~~g~~p~~~ty~~li  205 (250)
                      -..+    .+.   +++++++++++.+.+.. +-|...|+----.+.+.|.++  +++++++.+.+.... |...|+.--
T Consensus       110 ~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~  187 (306)
T 3dra_A          110 QLIIGQIMELNNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRF  187 (306)
T ss_dssp             HHHHHHHHHHTTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHH
Confidence            4444    444   78999999999998752 347778887777778888888  999999999886543 777888777


Q ss_pred             HHHHhcCC------HHHHHHHHHHHHhccCC
Q 025612          206 RNLENAGE------EELVAAVRRDCIQYVEF  230 (250)
Q Consensus       206 ~~~~~~g~------~~~a~~~~~~m~~~g~~  230 (250)
                      ..+.+.++      ++++.+.++.+......
T Consensus       188 ~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~  218 (306)
T 3dra_A          188 FLLFSKKHLATDNTIDEELNYVKDKIVKCPQ  218 (306)
T ss_dssp             HHHHSSGGGCCHHHHHHHHHHHHHHHHHCSS
T ss_pred             HHHHhccccchhhhHHHHHHHHHHHHHhCCC
Confidence            77777776      88888888887766554

>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=93.82  E-value=0.41  Score=40.16  Aligned_cols=69  Identities=14%  Similarity=0.085  Sum_probs=49.6

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH-----CCCCCCHHHH
Q 025612          132 SDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKA-----SGCTPHKLTF  201 (250)
Q Consensus       132 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~ty  201 (250)
                      ..++..+...|++++|...+..+... -+.+...|-.+|.+|.+.|+..+|++.|+...+     .|+.|+..+-
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            34556666788888888777776543 234677888888888888888888888877643     3888887653

>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=93.73  E-value=1.3  Score=31.79  Aligned_cols=112  Identities=13%  Similarity=0.124  Sum_probs=70.7

Q ss_pred             CHHHHHHHHHHHHcCCCH------HHHHHHHHHHHhCCCCCCHH----HHHHHHH---HHHhcCChHHHHHHHHHHHHCC
Q 025612          127 DLSLYSDMILMLGKNKQI------AMAEELFCELKKEGLDPDTR----VYTEMIG---VYLQVGMIDKAMETYETMKASG  193 (250)
Q Consensus       127 ~~~~y~~li~~~~~~~~~------~~A~~~~~~m~~~g~~p~~~----ty~~li~---~~~~~g~~~~a~~~~~~m~~~g  193 (250)
                      |..+|=..+...-+.|++      +...++|++... .++|+..    .|--|--   .+-..+++++|.++|+.+++.+
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia-~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE-ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH-HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH-cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            444555555555555665      666667776544 3555421    1111110   1123488999999999987654


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCchHHHHHHHH
Q 025612          194 CTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERFLEEVYQ  240 (250)
Q Consensus       194 ~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~~~~~~~  240 (250)
                      -+. ...|...-+-=.+.|++..|.+++..-...+-.|...+..-.+
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~le~a~~  136 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEMLEIALR  136 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHHHHHHH
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHHHHHHH
Confidence            444 5666666666678999999999999999988888776665333

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=93.71  E-value=0.23  Score=45.24  Aligned_cols=132  Identities=15%  Similarity=0.110  Sum_probs=89.6

Q ss_pred             HHHHHhcCChhHHHH-HHHHHHHhcCc-ccH-HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCC
Q 025612           67 VHAMKLAKSSSKLEE-GFQSRICRLLK-ADL-LDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQ  143 (250)
Q Consensus        67 l~~~~~~~~~~~a~~-l~~~m~~~~~~-~~~-~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~  143 (250)
                      .......+++++|.+ ++..     ++ .+. ..++..+-+.|.+++|.++.+.-..             -.......|+
T Consensus       606 ~~~~~~~~~~~~a~~~~l~~-----i~~~~~~~~~~~~l~~~~~~~~a~~~~~~~~~-------------~f~~~l~~~~  667 (814)
T 3mkq_A          606 FQTLTLRGEIEEAIENVLPN-----VEGKDSLTKIARFLEGQEYYEEALNISPDQDQ-------------KFELALKVGQ  667 (814)
T ss_dssp             HHHHHHTTCHHHHHHHTGGG-----CCCHHHHHHHHHHHHHTTCHHHHHHHCCCHHH-------------HHHHHHHHTC
T ss_pred             HhHHHHhCCHHHHHHHHHhc-----CCchHHHHHHHHHHHhCCChHHheecCCCcch-------------heehhhhcCC
Confidence            344456788888877 5521     11 111 3577778889999999876643211             1334567899


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC-------CCCCHHHHHHHHHHHHhcCCHHH
Q 025612          144 IAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASG-------CTPHKLTFTILIRNLENAGEEEL  216 (250)
Q Consensus       144 ~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g-------~~p~~~ty~~li~~~~~~g~~~~  216 (250)
                      +++|.++.+.+      .+...|..|-..+.+.|+++.|.+.|..+.+..       ..-+..-...+.+.....|+++.
T Consensus       668 ~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d~~~l~~l~~~~~~~~~~~~~~~~a~~~~~~~~  741 (814)
T 3mkq_A          668 LTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHDLESLFLLHSSFNNKEGLVTLAKDAETTGKFNL  741 (814)
T ss_dssp             HHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccChhhhHHHHHHcCCHHHHHHHHHHHHHcCchHH
Confidence            99999886554      377899999999999999999999999875421       12234445556666666777777


Q ss_pred             HHHHHH
Q 025612          217 VAAVRR  222 (250)
Q Consensus       217 a~~~~~  222 (250)
                      |..++-
T Consensus       742 A~~~~~  747 (814)
T 3mkq_A          742 AFNAYW  747 (814)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=93.46  E-value=1  Score=32.40  Aligned_cols=84  Identities=17%  Similarity=0.054  Sum_probs=63.0

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---ChHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHH
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG---MIDKAMETYETMKASGCTP--HKLTFTILIRNLENAGEEELV  217 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g---~~~~a~~~~~~m~~~g~~p--~~~ty~~li~~~~~~g~~~~a  217 (250)
                      .+..+.+-|++-...|- ++..+--.+-.++++.+   +.+++..++++..+.. .|  +...+-.|--+|.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            34567777777666554 78888888888889988   6779999999987764 34  233444455567999999999


Q ss_pred             HHHHHHHHhcc
Q 025612          218 AAVRRDCIQYV  228 (250)
Q Consensus       218 ~~~~~~m~~~g  228 (250)
                      .+.++.+.+..
T Consensus        91 ~~y~~~lL~ie  101 (152)
T 1pc2_A           91 LKYVRGLLQTE  101 (152)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHhcC
Confidence            99999987653

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=92.98  E-value=2  Score=31.66  Aligned_cols=109  Identities=14%  Similarity=0.131  Sum_probs=82.0

Q ss_pred             cHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 025612           94 DLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVY  173 (250)
Q Consensus        94 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~  173 (250)
                      |...=.+.....|+++.|.++.+.+ +      +...|..|-+...+.|+++-|.++|.....         |..+.--|
T Consensus         7 D~~~rF~LAL~lg~l~~A~e~a~~l-~------~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly   70 (177)
T 3mkq_B            7 DPHIRFDLALEYGNLDAALDEAKKL-N------DSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLY   70 (177)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHH-C------CHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHH
T ss_pred             ChHHHHHHHHhcCCHHHHHHHHHHh-C------CHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHH
Confidence            3334456667899999999998876 2      688999999999999999999999999765         55666667


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 025612          174 LQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDC  224 (250)
Q Consensus       174 ~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m  224 (250)
                      .-.|+.+...++-+.-...|      -++.-...+.-.|+++++.+++.+.
T Consensus        71 ~~tg~~e~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           71 LVTGDVNKLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHTCHHHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC
Confidence            77888888776666555554      2345555666777888887777443

>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=92.60  E-value=1.2  Score=37.39  Aligned_cols=117  Identities=13%  Similarity=0.022  Sum_probs=84.8

Q ss_pred             CCHHHHHHHHHHHH---cCCCHHHHHHHHHHHHhC--CC-CCCH------------------HHHHHHHHHHHhcCChHH
Q 025612          126 PDLSLYSDMILMLG---KNKQIAMAEELFCELKKE--GL-DPDT------------------RVYTEMIGVYLQVGMIDK  181 (250)
Q Consensus       126 ~~~~~y~~li~~~~---~~~~~~~A~~~~~~m~~~--g~-~p~~------------------~ty~~li~~~~~~g~~~~  181 (250)
                      .|...|..++....   ..|+.+.|.+.+.+....  |- -++.                  .....++..+...|+.++
T Consensus       110 ~D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~~~~w~~~~r~~l~~~~~~a~~~~~~~~l~~g~~~~  189 (388)
T 2ff4_A          110 CDLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASA  189 (388)
T ss_dssp             BHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             chHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHH
Confidence            35666666665433   357888888888776542  31 1111                  123445667778999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----ccCCchHHHHHHHHhhh
Q 025612          182 AMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQ-----YVEFPERFLEEVYQKHR  243 (250)
Q Consensus       182 a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~pd~~~~~~~~~~~  243 (250)
                      +....+...... ..+...|..+|.++.+.|+..+|.+.|+.+.+     .|+.|..-+..+...-.
T Consensus       190 a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~~~il  255 (388)
T 2ff4_A          190 VIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALNERIL  255 (388)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            999998886542 34778999999999999999999999988754     59999988888776644

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=92.24  E-value=1.7  Score=30.87  Aligned_cols=119  Identities=11%  Similarity=-0.014  Sum_probs=85.6

Q ss_pred             HHhcCChhHHHHHHHHHHHhcCc--ccHH--------------HHHHHHH------HcCCHHHHHHHHHHHHHhCCCCCC
Q 025612           70 MKLAKSSSKLEEGFQSRICRLLK--ADLL--------------DTLTELR------RQNELDLALKVFNFVRKEVWYKPD  127 (250)
Q Consensus        70 ~~~~~~~~~a~~l~~~m~~~~~~--~~~~--------------~ll~~~~------~~~~~~~a~~~~~~m~~~~g~~~~  127 (250)
                      +...|..++..++..+..+....  .++.              ..++..+      .+|++......+..+-      -+
T Consensus        17 ~ildG~v~qGveii~k~~~ssni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis~C~NlKrVi~C~~~~n------~~   90 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKSSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINN------TL   90 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTT------CC
T ss_pred             HHHhhhHHHHHHHHHHHcCCCCccccceeeeecchhhchhHHHHHHHHHhhhcCcHhhhcHHHHHHHHHHhc------ch
Confidence            34557888888888877644322  1221              1333332      3466666666666553      24


Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCT  195 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~  195 (250)
                      ..-.+.-++.+...|+-+.-.+++.++.. +.+|+....-.+-.+|.+.|+..++.+++.+.-+.|++
T Consensus        91 se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           91 NEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            56678889999999999999999999644 46788888889999999999999999999999988875

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=91.99  E-value=1.6  Score=28.21  Aligned_cols=65  Identities=9%  Similarity=0.012  Sum_probs=36.9

Q ss_pred             CCHHHHHHHHHHHHcCCC---HHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 025612          126 PDLSLYSDMILMLGKNKQ---IAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKAS  192 (250)
Q Consensus       126 ~~~~~y~~li~~~~~~~~---~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  192 (250)
                      .|...+..+-.++...++   .++|..+|++....  .| +......+-..+.+.|++++|...|+.+.+.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~--dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQL--EPYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            345555555555543333   56666666665552  23 3344444456666667777777777766654

>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=91.98  E-value=1.6  Score=35.11  Aligned_cols=112  Identities=13%  Similarity=0.037  Sum_probs=80.2

Q ss_pred             HHHHHHHHH-HHHcC--CC------HHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhc-----CChHHHHHHHHHHH
Q 025612          128 LSLYSDMIL-MLGKN--KQ------IAMAEELFCELKKEGLDPD---TRVYTEMIGVYLQV-----GMIDKAMETYETMK  190 (250)
Q Consensus       128 ~~~y~~li~-~~~~~--~~------~~~A~~~~~~m~~~g~~p~---~~ty~~li~~~~~~-----g~~~~a~~~~~~m~  190 (250)
                      .-.|..++. .+...  |+      ...|..++++..+  +.|+   -..|..|...|.+.     |+.++|.+.|++-.
T Consensus       154 ~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL  231 (301)
T 3u64_A          154 TLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLT  231 (301)
T ss_dssp             HHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHH
Confidence            455665554 44443  33      3456666666555  4666   56799999999995     99999999999998


Q ss_pred             HCCCCC--CHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhccCC--chHH-HHHHHHhhh
Q 025612          191 ASGCTP--HKLTFTILIRNLENA-GEEELVAAVRRDCIQYVEF--PERF-LEEVYQKHR  243 (250)
Q Consensus       191 ~~g~~p--~~~ty~~li~~~~~~-g~~~~a~~~~~~m~~~g~~--pd~~-~~~~~~~~~  243 (250)
                      +.  .|  +..++...-+.+++. |+.+.+.+.+++.......  |+.. ...++++..
T Consensus       232 ~L--nP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~~~q~eA  288 (301)
T 3u64_A          232 RY--CSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKLLVILSQKRA  288 (301)
T ss_dssp             HH--CCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHHHHHHHHH
T ss_pred             Hh--CCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHHHHHHHHH
Confidence            84  46  367777888888884 9999999999999987766  6644 444555444

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=91.94  E-value=1.7  Score=28.45  Aligned_cols=67  Identities=7%  Similarity=-0.051  Sum_probs=54.3

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          161 PDTRVYTEMIGVYLQVGMIDKAMETYETMKAS------GCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       161 p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~------g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      .+..-+-.|-..+.+.|+++.|...|+...+.      +-.+....+..|-.+|.+.|+++.|...+++..+.
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            35555667888899999999999999886542      12345678999999999999999999999998764

>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=91.43  E-value=2.3  Score=29.54  Aligned_cols=23  Identities=22%  Similarity=0.118  Sum_probs=11.7

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHH
Q 025612          132 SDMILMLGKNKQIAMAEELFCEL  154 (250)
Q Consensus       132 ~~li~~~~~~~~~~~A~~~~~~m  154 (250)
                      +.+|.-|...|+.++|.+.++++
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            34445555555555555555554

>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=91.02  E-value=3.5  Score=33.14  Aligned_cols=92  Identities=13%  Similarity=0.080  Sum_probs=71.0

Q ss_pred             HHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHcC-----CCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhc-
Q 025612          108 LDLALKVFNFVRKEVWYKPD---LSLYSDMILMLGKN-----KQIAMAEELFCELKKEGLDP--DTRVYTEMIGVYLQV-  176 (250)
Q Consensus       108 ~~~a~~~~~~m~~~~g~~~~---~~~y~~li~~~~~~-----~~~~~A~~~~~~m~~~g~~p--~~~ty~~li~~~~~~-  176 (250)
                      ...|...+++..+   +.|+   -..|..|-..|.+.     |+.++|.+.|++-.+-  .|  +..++...-..+++. 
T Consensus       179 l~~A~a~lerAle---LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~L--nP~~~id~~v~YA~~l~~~~  253 (301)
T 3u64_A          179 VHAAVMMLERACD---LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRY--CSAHDPDHHITYADALCIPL  253 (301)
T ss_dssp             HHHHHHHHHHHHH---HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHH--CCTTCSHHHHHHHHHTTTTT
T ss_pred             HHHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHh--CCCCCchHHHHHHHHHHHhc
Confidence            3456666666554   4666   56899999999995     9999999999998874  45  377788888888884 


Q ss_pred             CChHHHHHHHHHHHHCCCC--CCHHHHHHH
Q 025612          177 GMIDKAMETYETMKASGCT--PHKLTFTIL  204 (250)
Q Consensus       177 g~~~~a~~~~~~m~~~g~~--p~~~ty~~l  204 (250)
                      |+.+++.+.+++.......  |+....+.+
T Consensus       254 gd~~~a~~~L~kAL~a~p~~~P~~~lan~~  283 (301)
T 3u64_A          254 NNRAGFDEALDRALAIDPESVPHNKLLVIL  283 (301)
T ss_dssp             TCHHHHHHHHHHHHHCCGGGCSSCHHHHHH
T ss_pred             CCHHHHHHHHHHHHcCCCCCCCChhHHHHH
Confidence            9999999999999997666  775544443

>3rjo_A Endoplasmic reticulum aminopeptidase 1; ERAP1, hydrolase; 2.30A {Homo sapiens}

Probab=91.00  E-value=6.4  Score=33.15  Aligned_cols=152  Identities=9%  Similarity=-0.049  Sum_probs=93.7

Q ss_pred             HHHHHHhcCChh---HHHHHHHHHHHh----cCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 025612           66 AVHAMKLAKSSS---KLEEGFQSRICR----LLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILML  138 (250)
Q Consensus        66 ll~~~~~~~~~~---~a~~l~~~m~~~----~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~  138 (250)
                      ++...|..|..+   +|.+.|+.....    .++|+....+-+.+-. .-++-..+++...+    ..+..-=+.++.++
T Consensus       203 ~l~~ac~~g~~~c~~~A~~~f~~~~~~~~~~~i~~dlr~~Vy~~~~~-~~~~~~~l~~~y~~----s~~~~ek~~ll~aL  277 (419)
T 3rjo_A          203 LLLLACVHNYQPCVQRAEGYFRKWKESNGNLSLPVDVTLAVFAVGAQ-STEGWDFLYSKYQF----SLSSTEKSQIEFAL  277 (419)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHTTTCSCCCGGGHHHHHHHHTT-SHHHHHHHHHHHHH----CCCHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHhhCCCCCCCCCCcceeEEeeeeC-CHHHHHHHHHHHhc----CCCHHHHHHHHHHc
Confidence            577788888765   778888887653    2677877655555433 34444566666654    34667788999999


Q ss_pred             HcCCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcC-ChHHHHHHHH----HHHHCCCCCCHHHHHHHHHHHHhc-
Q 025612          139 GKNKQIAMAEELFCELKKEGL-DPDTRVYTEMIGVYLQVG-MIDKAMETYE----TMKASGCTPHKLTFTILIRNLENA-  211 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~~g~-~p~~~ty~~li~~~~~~g-~~~~a~~~~~----~m~~~g~~p~~~ty~~li~~~~~~-  211 (250)
                      +...+.+...++++......+ ++....  .++.+.+... ..+.|++.+.    .+.+. +.++...+..+|...+.. 
T Consensus       278 ~~s~d~~ll~~~L~~~l~~~~ir~qD~~--~~~~~v~~n~~g~~~aw~fl~~nw~~l~~~-~~~~~~~~~~~i~~~~~~~  354 (419)
T 3rjo_A          278 CRTQNKEKLQWLLDESFKGDKIKTQEFP--QILTLIGRNPVGYPLAWQFLRKNWNKLVQK-FELGSSSIAHMVMGTTNQF  354 (419)
T ss_dssp             TTCSCHHHHHHHHHHHHHTSSSCGGGHH--HHHHHHHTSTTTHHHHHHHHHHHHHHHHHH-HCTTCHHHHHHHHHTTTTC
T ss_pred             CCCCCHHHHHHHHHHHhCCCCCchhHHH--HHHHHHhcCcchHHHHHHHHHHHHHHHHHH-hCcCchhHHHHHHHHhhcC
Confidence            999999999999998877653 443322  2344444332 2445666554    23332 223446777788776543 


Q ss_pred             ---CCHHHHHHHHHHHH
Q 025612          212 ---GEEELVAAVRRDCI  225 (250)
Q Consensus       212 ---g~~~~a~~~~~~m~  225 (250)
                         .+.++.+++|+.-.
T Consensus       355 ~t~~~l~e~~~Ff~~~~  371 (419)
T 3rjo_A          355 STRTRLEEVKGFFSSLK  371 (419)
T ss_dssp             CSHHHHHHHHHHHHTTT
T ss_pred             CCHHHHHHHHHHHHhCc
Confidence               34555666665443

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=90.68  E-value=2.6  Score=28.04  Aligned_cols=63  Identities=16%  Similarity=0.224  Sum_probs=39.6

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIR  206 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~  206 (250)
                      +.-+..+-++.+....+.|+.....+.+++|-+.+++.-|.++|+-.+.. +.+...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHH
Confidence            45566666777766677777777777777777777777777777766543 1122334555443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=90.60  E-value=2.3  Score=29.44  Aligned_cols=95  Identities=17%  Similarity=0.070  Sum_probs=58.6

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHH---HHHHHHHHHhCCCCC-CHHH-HHHHHHHH
Q 025612           99 LTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAM---AEELFCELKKEGLDP-DTRV-YTEMIGVY  173 (250)
Q Consensus        99 l~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~---A~~~~~~m~~~g~~p-~~~t-y~~li~~~  173 (250)
                      ++.-.....+..+.+-|..... .|. ++..+--.+-.++++.++...   ++.++++....+ .| +..- .=-|--++
T Consensus         8 l~~~~~~~~l~~~~~~y~~e~~-~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~   84 (126)
T 1nzn_A            8 LNELVSVEDLLKFEKKFQSEKA-AGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGN   84 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH-HSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHH
T ss_pred             HhccCCHHHHHHHHHHHHHHhc-cCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHH
Confidence            3333444455566666665543 332 666666677777887777655   777888776653 12 1221 22234577


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCH
Q 025612          174 LQVGMIDKAMETYETMKASGCTPHK  198 (250)
Q Consensus       174 ~~~g~~~~a~~~~~~m~~~g~~p~~  198 (250)
                      .+.|++++|.+.++.+.+  +.|+.
T Consensus        85 yklg~Y~~A~~~~~~lL~--~eP~n  107 (126)
T 1nzn_A           85 YRLKEYEKALKYVRGLLQ--TEPQN  107 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             HHhhhHHHHHHHHHHHHH--hCCCC
Confidence            888888888888888877  45644

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=89.42  E-value=7.8  Score=35.47  Aligned_cols=124  Identities=14%  Similarity=0.089  Sum_probs=80.1

Q ss_pred             HHHHHHHHcCC-HHHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHHcCCC-HHHHHHHHHHHHhC------CCCCC-HH-
Q 025612           97 DTLTELRRQNE-LDLALKVFNFVRKEVWYKPDLS--LYSDMILMLGKNKQ-IAMAEELFCELKKE------GLDPD-TR-  164 (250)
Q Consensus        97 ~ll~~~~~~~~-~~~a~~~~~~m~~~~g~~~~~~--~y~~li~~~~~~~~-~~~A~~~~~~m~~~------g~~p~-~~-  164 (250)
                      +++.-+...++ ++.|..+|+.+.+.   .|...  ...++|..+.+.++ --+|..++++..+.      ...+. .. 
T Consensus       253 ~Ll~~~~~t~~~~~~a~~~le~L~~~---~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~  329 (754)
T 4gns_B          253 SLKSFIAITPSLVDFTIDYLKGLTKK---DPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADS  329 (754)
T ss_dssp             HHHHHHHTCGGGHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHH
T ss_pred             HHHHHHcccccHHHHHHHHHHHHHhh---CCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccc
Confidence            46666666766 68899999999753   34322  23444555444443 22455555544321      12221 11 


Q ss_pred             ----HH-HHHHH----HHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025612          165 ----VY-TEMIG----VYLQVGMIDKAMETYETMKASGCTPH-KLTFTILIRNLENAGEEELVAAVRRDCI  225 (250)
Q Consensus       165 ----ty-~~li~----~~~~~g~~~~a~~~~~~m~~~g~~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~  225 (250)
                          .+ ..|+.    -|...|+++-|+.+-++-..  ..|+ ..||-.|..+|...|+++.|.-.++-+-
T Consensus       330 ~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~--~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          330 ARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTE--LALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHh--cCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                11 12333    34568999999999998877  3565 7999999999999999999999988873

>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=87.90  E-value=3  Score=29.89  Aligned_cols=22  Identities=14%  Similarity=0.058  Sum_probs=11.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHH
Q 025612           97 DTLTELRRQNELDLALKVFNFV  118 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m  118 (250)
                      .+|..|...|+.++|.+.++++
T Consensus        14 ~lL~EY~~~~D~~EA~~cl~EL   35 (152)
T 2ion_A           14 MLLKEYLLSGDISEAEHCLKEL   35 (152)
T ss_dssp             HHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHh
Confidence            3455555555555555555544

>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=87.76  E-value=10  Score=30.95  Aligned_cols=156  Identities=10%  Similarity=0.031  Sum_probs=110.5

Q ss_pred             HHHHHHhcCChh-HHHHHHHHHHHhcCcccHH-------HHHHHHHHcC-------CHHHHHHHHHHHHHhCCCCCCHHH
Q 025612           66 AVHAMKLAKSSS-KLEEGFQSRICRLLKADLL-------DTLTELRRQN-------ELDLALKVFNFVRKEVWYKPDLSL  130 (250)
Q Consensus        66 ll~~~~~~~~~~-~a~~l~~~m~~~~~~~~~~-------~ll~~~~~~~-------~~~~a~~~~~~m~~~~g~~~~~~~  130 (250)
                      .+....+.|..+ +|+.+++.+...  .|+..       .++..+.+..       .+++++.+++.+.+. . +-+..+
T Consensus        35 ~~~~~~~~~e~s~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~-~-PKny~a  110 (331)
T 3dss_A           35 AVFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV-N-PKSYGT  110 (331)
T ss_dssp             HHHHHHHTTCCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH-C-TTCHHH
T ss_pred             HHHHHHHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHh-C-CCCHHH
Confidence            355555666666 899999998743  34333       3666555532       267889999988752 2 337788


Q ss_pred             HHHHHHHHHcCC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-hHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 025612          131 YSDMILMLGKNK--QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGM-IDKAMETYETMKASGCTPHKLTFTILIRN  207 (250)
Q Consensus       131 y~~li~~~~~~~--~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~-~~~a~~~~~~m~~~g~~p~~~ty~~li~~  207 (250)
                      |+.--..+.+.+  .++++..+++.+.+.. +-|...|+----.+...|. ++++++.++.+.+.... |...|+..-..
T Consensus       111 W~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~l  188 (331)
T 3dss_A          111 WHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCL  188 (331)
T ss_dssp             HHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHH
T ss_pred             HHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHH
Confidence            888777777777  4899999999998753 3477778777777777888 58999999999886533 66777777666


Q ss_pred             HHhc--------------CCHHHHHHHHHHHHhc
Q 025612          208 LENA--------------GEEELVAAVRRDCIQY  227 (250)
Q Consensus       208 ~~~~--------------g~~~~a~~~~~~m~~~  227 (250)
                      +.+.              +.++++.+.+......
T Consensus       189 l~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~  222 (331)
T 3dss_A          189 LPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT  222 (331)
T ss_dssp             HHHHSCCC------CCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhccccccccccchHHHHHHHHHHHHHHHh
Confidence            6655              4577777777776654

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=87.69  E-value=4.8  Score=28.28  Aligned_cols=62  Identities=16%  Similarity=0.220  Sum_probs=38.7

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILI  205 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li  205 (250)
                      |.-+..+-++.+....+.|+.....+.+++|-+.+++.-|.++|+-.+.. +.+...+|..++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~l  129 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI  129 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHH
Confidence            44456666666666667777777777777777777777777777766544 122233455544

>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=87.66  E-value=6.2  Score=28.38  Aligned_cols=97  Identities=15%  Similarity=0.111  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHhcCCh------hHHHHHHHHHHHhcCcccHH----HHHHH------HHHcCCHHHHHHHHHHHHHhCCCC
Q 025612           62 EAIQAVHAMKLAKSS------SKLEEGFQSRICRLLKADLL----DTLTE------LRRQNELDLALKVFNFVRKEVWYK  125 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~------~~a~~l~~~m~~~~~~~~~~----~ll~~------~~~~~~~~~a~~~~~~m~~~~g~~  125 (250)
                      ++...+..+-+.|++      ++..++|++... .++|+..    ..|..      +-..+++++|.++|+.+.+ .+-.
T Consensus        15 ~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia-~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~-~hKk   92 (161)
T 4h7y_A           15 DWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE-ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARA-NCKK   92 (161)
T ss_dssp             HHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH-HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHH-HCTT
T ss_pred             HHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH-cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH-HhHH
Confidence            444446666667888      777778877654 3444321    11111      1122566677777776653 2222


Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC
Q 025612          126 PDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDP  161 (250)
Q Consensus       126 ~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  161 (250)
                      - ...|-.--..=.+.|++..|.+++..-...+-+|
T Consensus        93 F-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           93 F-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             B-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             H-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            2 5555555555566777777777776666655443

>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=87.30  E-value=11  Score=30.96  Aligned_cols=159  Identities=9%  Similarity=-0.002  Sum_probs=110.4

Q ss_pred             HHHHHHhc-CChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcC-CHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           66 AVHAMKLA-KSSSKLEEGFQSRICRLLKADLL----DTLTELRRQN-ELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        66 ll~~~~~~-~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~-~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      .+++..+. ...++|+++++.+....  |+..    ---..+...| .+++++++++.+.+ .. +-+...|+.--..+.
T Consensus        59 ~~r~~~~~~e~se~AL~lt~~~L~~n--P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~-~n-PKny~aW~hR~wlL~  134 (349)
T 3q7a_A           59 YFRAIAAKEEKSERALELTEIIVRMN--PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAV-QN-LKSYQVWHHRLLLLD  134 (349)
T ss_dssp             HHHHHHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH-TT-CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHhC--chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHH-hC-CCcHHHHHHHHHHHH
Confidence            35555555 55568999999987543  3322    1112223446 59999999999975 33 336778887777776


Q ss_pred             cC-C-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChH--------HHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 025612          140 KN-K-QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMID--------KAMETYETMKASGCTPHKLTFTILIRNLE  209 (250)
Q Consensus       140 ~~-~-~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~--------~a~~~~~~m~~~g~~p~~~ty~~li~~~~  209 (250)
                      +. + ++++++++++.+.+.. +-|...|+----.+.+.|.++        ++++.++++.+.... |...|+..-..+.
T Consensus       135 ~l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~  212 (349)
T 3q7a_A          135 RISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRV  212 (349)
T ss_dssp             HHCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHT
T ss_pred             HhcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            65 6 8899999999998752 336777766555555555555        899999999886543 7788888888888


Q ss_pred             hcCC-------HHHHHHHHHHHHhccCC
Q 025612          210 NAGE-------EELVAAVRRDCIQYVEF  230 (250)
Q Consensus       210 ~~g~-------~~~a~~~~~~m~~~g~~  230 (250)
                      +.++       ++++.+.++........
T Consensus       213 ~l~~~~~~~~~~~eELe~~~~aI~~~P~  240 (349)
T 3q7a_A          213 SRPGAETSSRSLQDELIYILKSIHLIPH  240 (349)
T ss_dssp             TSTTCCCCHHHHHHHHHHHHHHHHHCTT
T ss_pred             hccccccchHHHHHHHHHHHHHHHhCCC
Confidence            8776       67788888777765443

>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=86.80  E-value=16  Score=32.16  Aligned_cols=119  Identities=7%  Similarity=-0.068  Sum_probs=90.9

Q ss_pred             CHHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHcCCC----------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 025612          107 ELDLALKVFNFVRKEVWYKP-DLSLYSDMILMLGKNKQ----------IAMAEELFCELKKEGLDPDTRVYTEMIGVYLQ  175 (250)
Q Consensus       107 ~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~~~~~~~~----------~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~  175 (250)
                      .-++|.+.++.+.+.   .| +...|+.-=.++.+.|+          ++++.++++.+.+.. +-+...|+.=-..+.+
T Consensus        44 ~~eeal~~~~~~l~~---nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~  119 (567)
T 1dce_A           44 LDESVLELTSQILGA---NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSR  119 (567)
T ss_dssp             CSHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHH---CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            346789999998753   34 45667655455555555          899999999987752 2366778877777788


Q ss_pred             cC--ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhccCC
Q 025612          176 VG--MIDKAMETYETMKASGCTPHKLTFTILIRNLENAG-EEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       176 ~g--~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g-~~~~a~~~~~~m~~~g~~  230 (250)
                      .|  +++++++.++.+.+...+ |...|+.---++.+.| .++++.+.++.+.+....
T Consensus       120 l~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~  176 (567)
T 1dce_A          120 LPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS  176 (567)
T ss_dssp             CSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC
T ss_pred             cccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC
Confidence            88  779999999999886533 7788988888888888 899999999888876655

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=86.48  E-value=4.8  Score=25.89  Aligned_cols=65  Identities=5%  Similarity=-0.078  Sum_probs=36.5

Q ss_pred             CHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          162 DTRVYTEMIGVYLQVGM---IDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       162 ~~~ty~~li~~~~~~g~---~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      |...+..+-.++...++   .++|..++++..+.  .| +......+-..+.+.|++++|.+.|+.+.+..
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~--dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQL--EPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            44455555555543333   56666666666553  23 33445555566666666666666666666543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=86.05  E-value=9.7  Score=32.38  Aligned_cols=152  Identities=12%  Similarity=0.102  Sum_probs=95.6

Q ss_pred             CChhHHHHHHHHHHHhc-Cccc----H---HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHH--HHHHHHHHcCCC
Q 025612           74 KSSSKLEEGFQSRICRL-LKAD----L---LDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLY--SDMILMLGKNKQ  143 (250)
Q Consensus        74 ~~~~~a~~l~~~m~~~~-~~~~----~---~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y--~~li~~~~~~~~  143 (250)
                      ++++.|.+.+-.+.+.. ...|    .   ..++..|.+.++++...+.+..+.+.+|..+...+.  +.++........
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~  109 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKS  109 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCc
Confidence            66777777776665421 1111    1   169999999999999999888887766654443221  333333333333


Q ss_pred             HHHH--HHHHHHHHh--CC-CCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCCC---HHHHHHHHHHHHh
Q 025612          144 IAMA--EELFCELKK--EG-LDP---DTRVYTEMIGVYLQVGMIDKAMETYETMKAS--GCTPH---KLTFTILIRNLEN  210 (250)
Q Consensus       144 ~~~A--~~~~~~m~~--~g-~~p---~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~---~~ty~~li~~~~~  210 (250)
                      .+..  ..+.+....  .| +-.   .......|...|-..|++.+|.++++.+...  |....   ...|...++.|..
T Consensus       110 ~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~  189 (445)
T 4b4t_P          110 LDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSIL  189 (445)
T ss_dssp             THHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH
Confidence            3322  222222111  11 111   2233456778899999999999999998643  33222   2568888999999


Q ss_pred             cCCHHHHHHHHHHHH
Q 025612          211 AGEEELVAAVRRDCI  225 (250)
Q Consensus       211 ~g~~~~a~~~~~~m~  225 (250)
                      .+++..|..++....
T Consensus       190 ~~d~~~a~~~~~ki~  204 (445)
T 4b4t_P          190 KGDYSQATVLSRKIL  204 (445)
T ss_dssp             HTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHH
Confidence            999999999998874

>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=85.89  E-value=5.8  Score=26.34  Aligned_cols=53  Identities=6%  Similarity=-0.075  Sum_probs=46.2

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-ccCC
Q 025612          178 MIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQ-YVEF  230 (250)
Q Consensus       178 ~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~-~g~~  230 (250)
                      +.-++.+-++.+....+.|++....+.++||-|.+++-.|.++|...+. .|-.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~   78 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPH   78 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTC
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCc
Confidence            5557788888888889999999999999999999999999999999884 4444

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=85.05  E-value=6.4  Score=37.85  Aligned_cols=69  Identities=10%  Similarity=-0.075  Sum_probs=39.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHC-CCCC-CH--HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCchHH
Q 025612          166 YTEMIGVYLQVGMIDKAMETYETMKAS-GCTP-HK--LTFTILIRNLENAGEEELVAAVRRDCIQYVEFPERF  234 (250)
Q Consensus       166 y~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p-~~--~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~  234 (250)
                      |..++.-|-+.|.++.+.++-..-.+. +-.+ +.  ..|..+++++...|++++|...+-.+......-|.+
T Consensus       902 Y~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r~~cL  974 (1139)
T 4fhn_B          902 YLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLKKSCL  974 (1139)
T ss_dssp             HHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSCHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHHHHHH
Confidence            566666666666666666665543322 1111 11  246666777777777777766666665555554433

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=84.97  E-value=16  Score=30.58  Aligned_cols=163  Identities=12%  Similarity=0.019  Sum_probs=101.9

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccH------HHHHHHHHHcC-CH----HHHHHHHHHHHHhCCCCCCHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADL------LDTLTELRRQN-EL----DLALKVFNFVRKEVWYKPDLS  129 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~------~~ll~~~~~~~-~~----~~a~~~~~~m~~~~g~~~~~~  129 (250)
                      ..+.+...|.+.|+.++..+++.....--.. |-.      ..+|+.+.... ..    +-..+.+++..++...=....
T Consensus        21 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~~  100 (394)
T 3txn_A           21 GILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQS  100 (394)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3446788899999999999999876532211 111      14777776643 33    334444444443211000111


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhC--CCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCCCHHHHH
Q 025612          130 LYSDMILMLGKNKQIAMAEELFCELKKE--GLDPD---TRVYTEMIGVYLQVGMIDKAMETYETMKAS--GCTPHKLTFT  202 (250)
Q Consensus       130 ~y~~li~~~~~~~~~~~A~~~~~~m~~~--g~~p~---~~ty~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~ty~  202 (250)
                      +=.-|...|...|++.+|.+++.++...  .+...   ...|-.-+..|...|++.++...+..-+..  .+.|++.+- 
T Consensus       101 l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~-  179 (394)
T 3txn_A          101 LEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQ-  179 (394)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH-
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHH-
Confidence            2236889999999999999999988763  22111   234667788899999999999999876543  333444332 


Q ss_pred             HHHHHH-----H-hcCCHHHHHHHHHHHH
Q 025612          203 ILIRNL-----E-NAGEEELVAAVRRDCI  225 (250)
Q Consensus       203 ~li~~~-----~-~~g~~~~a~~~~~~m~  225 (250)
                      ..++.|     . ..+++..|...|-+.-
T Consensus       180 a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          180 GALDLQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHhccCHHHHHHHHHHHH
Confidence            333332     3 6788999888776653

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=83.78  E-value=6.9  Score=27.04  Aligned_cols=87  Identities=15%  Similarity=0.041  Sum_probs=60.8

Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHH---HHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCC
Q 025612          139 GKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDK---AMETYETMKASGCTP--HKLTFTILIRNLENAGE  213 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~---a~~~~~~m~~~g~~p--~~~ty~~li~~~~~~g~  213 (250)
                      .....+..+.+-|++-...|- |+..|--.+-.++++.+..++   +..++++....+ .|  ...-.-.|--++.+.|+
T Consensus        12 ~~~~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~   89 (126)
T 1nzn_A           12 VSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKE   89 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhh
Confidence            333445566677776655444 777776677778888877666   888898887764 23  22333345567889999


Q ss_pred             HHHHHHHHHHHHhc
Q 025612          214 EELVAAVRRDCIQY  227 (250)
Q Consensus       214 ~~~a~~~~~~m~~~  227 (250)
                      ++.|.+.++.+.+.
T Consensus        90 Y~~A~~~~~~lL~~  103 (126)
T 1nzn_A           90 YEKALKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999998764

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=83.24  E-value=9  Score=35.07  Aligned_cols=122  Identities=11%  Similarity=-0.004  Sum_probs=74.6

Q ss_pred             HHHHHHhcCC-hhHHHHHHHHHHHhcCcccHH---HHHHHHHHcCC-HHHHHHHHHHHHHh-----CCCCC-CHH-----
Q 025612           66 AVHAMKLAKS-SSKLEEGFQSRICRLLKADLL---DTLTELRRQNE-LDLALKVFNFVRKE-----VWYKP-DLS-----  129 (250)
Q Consensus        66 ll~~~~~~~~-~~~a~~l~~~m~~~~~~~~~~---~ll~~~~~~~~-~~~a~~~~~~m~~~-----~g~~~-~~~-----  129 (250)
                      +++.+...++ .+.|..+|+++....-..+..   .+|..+.+.+. --+|.++.++..+.     ....+ +..     
T Consensus       254 Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~~  333 (754)
T 4gns_B          254 LKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARLM  333 (754)
T ss_dssp             HHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHH
T ss_pred             HHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccccc
Confidence            3555555666 578999999987654333332   23333333322 22344444443221     11111 111     


Q ss_pred             -----HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 025612          130 -----LYSDMILMLGKNKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMETYETM  189 (250)
Q Consensus       130 -----~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m  189 (250)
                           ..+.=.+.|...|+++.|+++-++-...  .| +-.||-.|..+|.+.|+++.|+-.+..+
T Consensus       334 ~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          334 NCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             CcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence                 1112234456789999999999887663  45 4789999999999999999999999887

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=81.84  E-value=13  Score=27.07  Aligned_cols=63  Identities=14%  Similarity=0.010  Sum_probs=45.5

Q ss_pred             CCCcHHHHHHHHHHHhcCChhHHHHHHHHHHHhc-Cccc-----HH-----HHHHHHHHcCCHHHHHHHHHHHH
Q 025612           57 RVLSSEAIQAVHAMKLAKSSSKLEEGFQSRICRL-LKAD-----LL-----DTLTELRRQNELDLALKVFNFVR  119 (250)
Q Consensus        57 ~~~~~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~-~~~~-----~~-----~ll~~~~~~~~~~~a~~~~~~m~  119 (250)
                      ++..|..++-++.+...+.++.|.-+.+-+.... ..|+     ..     -+-+++...+++..|...|++..
T Consensus        17 ~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qAL   90 (167)
T 3ffl_A           17 RGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMAL   90 (167)
T ss_dssp             ----CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            3445677888999999999999998888865322 2333     22     37788889999999999999853

>4fke_A Aminopeptidase N; zinc aminopeptidase, hydrolase; HET: NAG; 1.85A {Sus scrofa} PDB: 4fkh_A* 4fkk_A* 4fkn_A* 4fkf_A* 4f5c_A* 4fyt_A* 4fyr_A* 4fys_A* 4fyq_A*

Probab=81.60  E-value=35  Score=31.96  Aligned_cols=140  Identities=9%  Similarity=0.015  Sum_probs=86.2

Q ss_pred             HHHHHHhcCChh---HHHHHHHHHHHh----cCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 025612           66 AVHAMKLAKSSS---KLEEGFQSRICR----LLKADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILM  137 (250)
Q Consensus        66 ll~~~~~~~~~~---~a~~l~~~m~~~----~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~  137 (250)
                      ++...|..|..+   .|.+.|+.....    .++|+.. .+...-.+.|.-++-..+++...+    ..+..--..++.+
T Consensus       692 ~l~~ac~~g~~~c~~~a~~~f~~~~~~~~~~~i~~dlr~~vy~~~~~~g~~~~~~~l~~~~~~----~~~~~ek~~ll~a  767 (909)
T 4fke_A          692 AISTACSNGLPQCENLAKTLFDQWMSDPENNPIHPNLRSTIYCNAIAQGGQDQWDFAWGQLQQ----AQLVNEADKLRSA  767 (909)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTCTTSCCSCTTTHHHHHHHHHHHSCHHHHHHHHHHHHH----CCSHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHhhCCCCCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHc----cCCHHHHHHHHHH
Confidence            577778888766   677788776543    2567777 455555677887777777887764    2355666889999


Q ss_pred             HHcCCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCC-hHHHHHHHHHH---HHCCCCCCHHHHHHHHHHHHhc
Q 025612          138 LGKNKQIAMAEELFCELKKEG-LDPDTRVYTEMIGVYLQVGM-IDKAMETYETM---KASGCTPHKLTFTILIRNLENA  211 (250)
Q Consensus       138 ~~~~~~~~~A~~~~~~m~~~g-~~p~~~ty~~li~~~~~~g~-~~~a~~~~~~m---~~~g~~p~~~ty~~li~~~~~~  211 (250)
                      ++...+.+...++++...... +++...  ..++.+...... .+.|++.+.+=   ....+..+..++..+|...+..
T Consensus       768 L~~~~d~~~l~~~L~~~l~~~~ir~qd~--~~~~~~v~~n~~g~~~~~~f~~~n~~~l~~~~~~~~~~~~~~i~~~~~~  844 (909)
T 4fke_A          768 LACSNEVWLLNRYLGYTLNPDLIRKQDA--TSTINSIASNVIGQPLAWDFVQSNWKKLFQDYGGGSFSFSNLIQGVTRR  844 (909)
T ss_dssp             HTTCCCHHHHHHHHHHTTCTTTSCGGGH--HHHHHHHHHSTTHHHHHHHHHHHHCTTTTTSSSSCCCCHHHHHHHHHTT
T ss_pred             hCCCCCHHHHHHHHHHHhCCCCCchhhH--HHHHHHHhcChHHHHHHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHh
Confidence            999999999999988876543 444322  223344443322 23444444321   0111223334567777777654

---

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	250
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.95
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.72
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.65
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.6
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.59
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.54
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.23
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.18
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.13
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.11
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.11
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.01
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.99
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.98
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.94
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.86
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.82
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.81
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.79
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.74
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	97.72
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.71
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.7
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.68
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.66
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.62
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.57
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	97.57
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.57
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.46
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.45
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.41
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.32
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.31
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.28
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	96.99
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	96.95
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.9
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.9
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.89
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	96.33
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.28
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	95.94
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	95.81
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	95.5
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	95.36
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	95.27
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	94.48
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.31
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	93.85
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	93.56
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	90.92
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	90.9
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	88.68
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	88.07
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	87.5
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	86.44
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	86.43
d1sxjc1	95	Replication factor C3 {Baker's yeast (Saccharomyce	82.47
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	80.16
d1khda1	69	Anthranilate phosphoribosyltransferase (TrpD) {Pec	80.01

>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=98.95  E-value=2e-07  Score=75.19  Aligned_cols=162  Identities=13%  Similarity=0.139  Sum_probs=129.8

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHhcCcc-cHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 025612           61 SEAIQAVHAMKLAKSSSKLEEGFQSRICRLLKA-DLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILML  138 (250)
Q Consensus        61 ~~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~-~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~  138 (250)
                      .....+...+...|++++|...++......... ... .+-..+.+.|++++|...|++..+ .. +-+..+|..+...|
T Consensus       204 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~-~~-p~~~~~~~~l~~~~  281 (388)
T d1w3ba_         204 DAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE-LQ-PHFPDAYCNLANAL  281 (388)
T ss_dssp             HHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-TC-SSCHHHHHHHHHHH
T ss_pred             HHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-hC-CCCHHHHHHHHHHH
Confidence            344455677888899999999999887654332 222 577788899999999999999865 22 23577889999999


Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHH
Q 025612          139 GKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELV  217 (250)
Q Consensus       139 ~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a  217 (250)
                      ...|++++|.+.|+..... .+.+...+..+...|.+.|++++|.+.|++..+.  .| +..++..+-.+|.+.|++++|
T Consensus       282 ~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A  358 (388)
T d1w3ba_         282 KEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEA  358 (388)
T ss_dssp             HHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHH
T ss_pred             HHcCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999887664 3567788889999999999999999999998764  45 467788899999999999999


Q ss_pred             HHHHHHHHhc
Q 025612          218 AAVRRDCIQY  227 (250)
Q Consensus       218 ~~~~~~m~~~  227 (250)
                      .+.|++..+.
T Consensus       359 ~~~~~~al~l  368 (388)
T d1w3ba_         359 LMHYKEAIRI  368 (388)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHHh
Confidence            9999988764

>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=98.72  E-value=5.2e-06  Score=66.51  Aligned_cols=162  Identities=11%  Similarity=0.058  Sum_probs=130.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhcC-cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           62 EAIQAVHAMKLAKSSSKLEEGFQSRICRLL-KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        62 ~~~~ll~~~~~~~~~~~a~~l~~~m~~~~~-~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      ....+...+...|+.++|...+++.....- .++.. .+-..+...|++++|...|....+. . ..+...+..+-..|.
T Consensus       171 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~l~~~~~  248 (388)
T d1w3ba_         171 AWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSL-S-PNHAVVHGNLACVYY  248 (388)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH-C-TTCHHHHHHHHHHHH
T ss_pred             HHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHH-h-hhHHHHHHHHHHHHH
Confidence            334446667788999999999998875421 11222 5777888999999999999998753 2 346778888999999


Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 025612          140 KNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAA  219 (250)
Q Consensus       140 ~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~  219 (250)
                      +.|++++|...|++..+.. +-+..+|..+...|...|++++|.+.++..... ...+...+..+...+.+.|++++|.+
T Consensus       249 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~  326 (388)
T d1w3ba_         249 EQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVR  326 (388)
T ss_dssp             HTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHCCCHHHHHH
Confidence            9999999999999987642 235678999999999999999999999987765 34577889999999999999999999


Q ss_pred             HHHHHHhc
Q 025612          220 VRRDCIQY  227 (250)
Q Consensus       220 ~~~~m~~~  227 (250)
                      .+++..+.
T Consensus       327 ~~~~al~~  334 (388)
T d1w3ba_         327 LYRKALEV  334 (388)
T ss_dssp             HHHHHTTS
T ss_pred             HHHHHHHh
Confidence            99998764

>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=98.65  E-value=9.4e-06  Score=64.19  Aligned_cols=160  Identities=8%  Similarity=-0.050  Sum_probs=105.1

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhcC-cccHH-HHHHHHHHcCCHHHHHHHHHHHHH---------------------
Q 025612           64 IQAVHAMKLAKSSSKLEEGFQSRICRLL-KADLL-DTLTELRRQNELDLALKVFNFVRK---------------------  120 (250)
Q Consensus        64 ~~ll~~~~~~~~~~~a~~l~~~m~~~~~-~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~---------------------  120 (250)
                      ..+...+...|++++|...|.+..+..- .+... .+...+...|++++|.+.+....+                     
T Consensus        57 ~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  136 (323)
T d1fcha_          57 QYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGL  136 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC-----------
T ss_pred             HHHHHHHHHcCChHHHHHHHHhhhccccccccccccccccccccccccccccchhhHHHhccchHHHHHhhhhhhhhccc
Confidence            3345566666777777777776654321 11111 345556666666666666555422                     


Q ss_pred             ----------------------------hCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 025612          121 ----------------------------EVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGV  172 (250)
Q Consensus       121 ----------------------------~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~  172 (250)
                                                  ...-..+...+..+-..+...|++++|...|++..... +-+...|..+-..
T Consensus       137 ~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~  215 (323)
T d1fcha_         137 GPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGAT  215 (323)
T ss_dssp             ----CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             ccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhc
Confidence                                        11112345566677777888888888888888866532 2246778888888


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          173 YLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       173 ~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      |.+.|++++|.+.|++..+.  .| +...|..+-.+|.+.|++++|.+.|++..+
T Consensus       216 ~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         216 LANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ccccccchhHHHHHHHHHHH--hhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            88888888888888887663  34 456788888888888888888888887654

>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=98.60  E-value=3.3e-05  Score=60.94  Aligned_cols=162  Identities=12%  Similarity=0.047  Sum_probs=125.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCc-ccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLK-ADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK  140 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~-~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~  140 (250)
                      .+..-..+.+.|++++|...|++..+..-. ++.. .+-.++...|++++|...|....+. . +-+...|..+...|..
T Consensus        22 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~-~-p~~~~~~~~la~~~~~   99 (323)
T d1fcha_          22 PFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLEL-K-PDNQTALMALAVSFTN   99 (323)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcc-c-cccccccccccccccc
Confidence            344556678999999999999998864321 2222 4677888999999999999998753 2 2357888999999999


Q ss_pred             CCCHHHHHHHHHHHHhCC--------------------------------------------------CCCCHHHHHHHH
Q 025612          141 NKQIAMAEELFCELKKEG--------------------------------------------------LDPDTRVYTEMI  170 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~~g--------------------------------------------------~~p~~~ty~~li  170 (250)
                      .|++++|.+.+++.....                                                  -.++...+..+.
T Consensus       100 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~  179 (323)
T d1fcha_         100 ESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLG  179 (323)
T ss_dssp             TTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHH
T ss_pred             cccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhH
Confidence            999999999888765321                                                  012345567777


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          171 GVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       171 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      ..+...|++++|...|++..... .-+...|..+-..|.+.|++++|.+.++...+.
T Consensus       180 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  235 (323)
T d1fcha_         180 VLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL  235 (323)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHH
Confidence            88889999999999999987642 125678888999999999999999999998764

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.59  E-value=8.1e-06  Score=64.74  Aligned_cols=159  Identities=13%  Similarity=0.087  Sum_probs=118.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcCcc-cH--HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHcC
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLLKA-DL--LDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILM-LGKN  141 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~~~-~~--~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~-~~~~  141 (250)
                      .+....+.|+.++|..+|+++.+..... ..  ...+..+.+.|+++.|.++|....+. + +.+...|-..... +...
T Consensus       105 ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~-~-~~~~~~~~~~a~~e~~~~  182 (308)
T d2onda1         105 YADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED-A-RTRHHVYVTAALMEYYCS  182 (308)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS-T-TCCTHHHHHHHHHHHHTS
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHh-C-CCcHHHHHHHHHHHHHhc
Confidence            3566677899999999999987643322 22  26788888899999999999998753 2 2233444433332 3456


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-CCCCC--HHHHHHHHHHHHhcCCHHHHH
Q 025612          142 KQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS-GCTPH--KLTFTILIRNLENAGEEELVA  218 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~--~~ty~~li~~~~~~g~~~~a~  218 (250)
                      |+.+.|..+|+.+... .+-+...|...+..+.+.|+.++|..+|++.... +..|+  ...|...+.--...|+.+.+.
T Consensus       183 ~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~  261 (308)
T d2onda1         183 KDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASIL  261 (308)
T ss_dssp             CCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHH
T ss_pred             cCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            8899999999988775 3446778999999999999999999999987665 45553  457888888878889999999


Q ss_pred             HHHHHHHhc
Q 025612          219 AVRRDCIQY  227 (250)
Q Consensus       219 ~~~~~m~~~  227 (250)
                      ++++.+.+.
T Consensus       262 ~~~~r~~~~  270 (308)
T d2onda1         262 KVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999887653

>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=98.54  E-value=8.7e-06  Score=64.55  Aligned_cols=155  Identities=13%  Similarity=0.101  Sum_probs=115.8

Q ss_pred             ChhHHHHHHHHHHHhcCcccHH---HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHH
Q 025612           75 SSSKLEEGFQSRICRLLKADLL---DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELF  151 (250)
Q Consensus        75 ~~~~a~~l~~~m~~~~~~~~~~---~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~  151 (250)
                      ..++|..+|++..+...+.+..   ......-+.|+++.|..+|+.+.+ .........|...+..+.+.|+++.|.++|
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~-~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA-IEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT-SSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH-HhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            4467888888877543332222   466777899999999999999874 332333567999999999999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHH-HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-cC
Q 025612          152 CELKKEGLDPDTRVYTEMIG-VYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY-VE  229 (250)
Q Consensus       152 ~~m~~~g~~p~~~ty~~li~-~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~-g~  229 (250)
                      +...+.+-. +...|-.... -+...|+.+.|..+|+.+.+. ..-+...|...++.+.+.|+++.|..+|+...+. +.
T Consensus       158 ~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            998876422 3333333332 234468999999999998875 3346788999999999999999999999998764 45


Q ss_pred             Cch
Q 025612          230 FPE  232 (250)
Q Consensus       230 ~pd  232 (250)
                      .|+
T Consensus       236 ~~~  238 (308)
T d2onda1         236 PPE  238 (308)
T ss_dssp             CGG
T ss_pred             ChH
Confidence            665

>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=98.23  E-value=0.00021  Score=52.40  Aligned_cols=125  Identities=14%  Similarity=0.058  Sum_probs=93.4

Q ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChH
Q 025612          101 ELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMID  180 (250)
Q Consensus       101 ~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~  180 (250)
                      .+...|+++.|.+.|..+.     .|+..+|..+=.+|.+.|++++|.+.|++-.+.. +-+...|+.+-.+|.+.|+++
T Consensus        14 ~~~~~~d~~~Al~~~~~i~-----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~   87 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYD   87 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHCCCHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHH
Confidence            4467888999988887652     4677888888888899999999999998876642 235677888888888999999


Q ss_pred             HHHHHHHHHHHC------------CC--CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCc
Q 025612          181 KAMETYETMKAS------------GC--TPH-KLTFTILIRNLENAGEEELVAAVRRDCIQYVEFP  231 (250)
Q Consensus       181 ~a~~~~~~m~~~------------g~--~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  231 (250)
                      +|.+.|++-...            |.  .++ ..++..+-.++.+.|++++|.+.+....+....+
T Consensus        88 ~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          88 LAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             HHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            999888876542            11  111 2455566677888999999999888877655554

>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=98.18  E-value=5.6e-05  Score=50.83  Aligned_cols=89  Identities=18%  Similarity=0.101  Sum_probs=59.7

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 025612          100 TELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMI  179 (250)
Q Consensus       100 ~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~  179 (250)
                      ..+.+.|++++|..+|++..+..  +-+...|+.+-.+|.+.|++++|+..+....+.+ +.+...|..+-.+|...|++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC--CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            45667777777777777766421  2346667777777777777777777777765542 33566677777777777777


Q ss_pred             HHHHHHHHHHHH
Q 025612          180 DKAMETYETMKA  191 (250)
Q Consensus       180 ~~a~~~~~~m~~  191 (250)
                      ++|+..|+...+
T Consensus        88 ~~A~~~~~~a~~   99 (117)
T d1elwa_          88 EEAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHH
Confidence            777777777665

>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=98.13  E-value=0.00048  Score=54.47  Aligned_cols=153  Identities=8%  Similarity=0.044  Sum_probs=117.3

Q ss_pred             HHHHhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcC-CHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCC
Q 025612           68 HAMKLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQN-ELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNK  142 (250)
Q Consensus        68 ~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~-~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~  142 (250)
                      ..+.+.+..++|+.++++.++.  .|+..    ..-.++...| ++++|...++...+. . +-+..+|+.+-..+.+.|
T Consensus        51 ~~~~~~e~~~~Al~~~~~ai~l--nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~-~-p~~~~a~~~~~~~~~~l~  126 (315)
T d2h6fa1          51 AVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE-Q-PKNYQVWHHRRVLVEWLR  126 (315)
T ss_dssp             HHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHhCCchHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH-H-HhhhhHHHHHhHHHHhhc
Confidence            3455678999999999999864  44443    2334455555 599999999998753 2 235889999999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCC------HH
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGE------EE  215 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~------~~  215 (250)
                      ++++|++.|+++.+. -+-+...|+.+...+.+.|++++|.+.|+...+..  | +...|+.+-..+.+.++      ++
T Consensus       127 ~~~eAl~~~~kal~~-dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~--p~n~~a~~~r~~~l~~~~~~~~~~~~~  203 (315)
T d2h6fa1         127 DPSQELEFIADILNQ-DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED--VRNNSVWNQRYFVISNTTGYNDRAVLE  203 (315)
T ss_dssp             CCTTHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCSCSHHHHH
T ss_pred             cHHHHHHHHhhhhhh-hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC--CccHHHHHHHHHHHHHccccchhhhhH
Confidence            999999999998774 13368899999999999999999999999998854  4 56677777666666655      56


Q ss_pred             HHHHHHHHHHhc
Q 025612          216 LVAAVRRDCIQY  227 (250)
Q Consensus       216 ~a~~~~~~m~~~  227 (250)
                      +|.+.+....+.
T Consensus       204 ~ai~~~~~al~~  215 (315)
T d2h6fa1         204 REVQYTLEMIKL  215 (315)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHh
Confidence            777777666544

>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=98.11  E-value=5.8e-05  Score=55.21  Aligned_cols=90  Identities=13%  Similarity=-0.009  Sum_probs=74.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhc
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQV  176 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~  176 (250)
                      .=..+.+.|++++|...|....+..  +-+...|+.+-.+|.+.|++++|...|+...+  +.| +..+|..+-.+|.+.
T Consensus        10 ~Gn~~~~~g~~~~Ai~~~~kal~~~--p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~lg~~~~~l   85 (201)
T d2c2la1          10 QGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFFLGQCQLEM   85 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHHHHHHHHHC
Confidence            4567889999999999999876532  34688899999999999999999999998875  355 467888899999999


Q ss_pred             CChHHHHHHHHHHHH
Q 025612          177 GMIDKAMETYETMKA  191 (250)
Q Consensus       177 g~~~~a~~~~~~m~~  191 (250)
                      |++++|+..|+...+
T Consensus        86 ~~~~~A~~~~~~al~  100 (201)
T d2c2la1          86 ESYDEAIANLQRAYS  100 (201)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999999988765

>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=98.11  E-value=8.7e-05  Score=49.83  Aligned_cols=102  Identities=14%  Similarity=-0.005  Sum_probs=75.5

Q ss_pred             HHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 025612          136 LMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEE  215 (250)
Q Consensus       136 ~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~  215 (250)
                      +.+.+.|++++|..+|++..+. -+-+...|..+-.+|.+.|++++|+..++...+.. ..+...|..+-.++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~-~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKL-DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc-CCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHH
Confidence            4567788888888888887664 23456778888888888888888888888877653 346778888888888888888


Q ss_pred             HHHHHHHHHHhccCCchHHHHHHH
Q 025612          216 LVAAVRRDCIQYVEFPERFLEEVY  239 (250)
Q Consensus       216 ~a~~~~~~m~~~g~~pd~~~~~~~  239 (250)
                      +|...|+...+..-....+...+.
T Consensus        89 ~A~~~~~~a~~~~p~~~~~~~~l~  112 (117)
T d1elwa_          89 EAKRTYEEGLKHEANNPQLKEGLQ  112 (117)
T ss_dssp             HHHHHHHHHHTTCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHH
Confidence            888888888765444334444443

>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=98.01  E-value=0.00017  Score=51.05  Aligned_cols=94  Identities=14%  Similarity=0.158  Sum_probs=77.8

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 025612          100 TELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMI  179 (250)
Q Consensus       100 ~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~  179 (250)
                      ..|.+.|++++|...|.+..+. . +-+...|..+-.+|...|++++|...|+...+.. +-+...|..+..+|...|++
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~-~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIEL-N-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH-S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHhhhcccc-c-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCH
Confidence            4677999999999999998753 2 3468889999999999999999999999987642 33567899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCH
Q 025612          180 DKAMETYETMKASGCTPHK  198 (250)
Q Consensus       180 ~~a~~~~~~m~~~g~~p~~  198 (250)
                      ++|...|++....  .|+.
T Consensus        95 ~eA~~~~~~a~~~--~p~~  111 (159)
T d1a17a_          95 RAALRDYETVVKV--KPHD  111 (159)
T ss_dssp             HHHHHHHHHHHHH--STTC
T ss_pred             HHHHHHHHHHHHc--CCCC
Confidence            9999999998874  3543

>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=97.99  E-value=5.5e-05  Score=51.43  Aligned_cols=105  Identities=15%  Similarity=0.035  Sum_probs=76.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCH---HHHHHHHHHHHhCCCCCCH-HHHHHHHHH
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQI---AMAEELFCELKKEGLDPDT-RVYTEMIGV  172 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~---~~A~~~~~~m~~~g~~p~~-~ty~~li~~  172 (250)
                      .+++.+...+++++|.+.|+...+. + +.+..++..+-.++.+.++.   ++|+.+|++.....-.|+. .+|..+-.+
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~-~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH-S-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhh-C-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            4677888888999999999987652 2 34677888888888876554   4688888887765433332 367777888


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 025612          173 YLQVGMIDKAMETYETMKASGCTPHKLTFTILI  205 (250)
Q Consensus       173 ~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li  205 (250)
                      |.+.|++++|.+.|++..+  +.|+..-...+.
T Consensus        82 y~~~g~~~~A~~~~~~aL~--~~P~~~~A~~l~  112 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQ--TEPQNNQAKELE  112 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHH--hCcCCHHHHHHH
Confidence            8899999999999998887  457655444333

>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=97.98  E-value=0.00043  Score=53.87  Aligned_cols=164  Identities=10%  Similarity=-0.025  Sum_probs=114.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHh----cCcccHH----HHHHHHHHcCCHHHHHHHHHHHHH---hCC-CCCCHHHHH
Q 025612           65 QAVHAMKLAKSSSKLEEGFQSRICR----LLKADLL----DTLTELRRQNELDLALKVFNFVRK---EVW-YKPDLSLYS  132 (250)
Q Consensus        65 ~ll~~~~~~~~~~~a~~l~~~m~~~----~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~---~~g-~~~~~~~y~  132 (250)
                      .+...|...|++++|.+.|.+..+.    +-.++..    .+-.+|.+.|++++|.+.++...+   ..| ......++.
T Consensus        42 ~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  121 (290)
T d1qqea_          42 QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKF  121 (290)
T ss_dssp             HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHH
Confidence            4577788899999999999998642    2333332    466778899999999999997542   121 111245566


Q ss_pred             HHHHHHH-cCCCHHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-----CCCH-HH
Q 025612          133 DMILMLG-KNKQIAMAEELFCELKK----EGLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKASGC-----TPHK-LT  200 (250)
Q Consensus       133 ~li~~~~-~~~~~~~A~~~~~~m~~----~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~-----~p~~-~t  200 (250)
                      .+...|- ..|++++|.+.|++..+    .+-.+ -..+|..+...|...|++++|...|++.....-     .... ..
T Consensus       122 ~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~  201 (290)
T d1qqea_         122 ELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDY  201 (290)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHH
T ss_pred             HHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHH
Confidence            7777774 46999999999987643    22222 135688889999999999999999999876421     1121 22


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          201 FTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       201 y~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      |....-.+...|+++.|.+.++...+..
T Consensus       202 ~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         202 FLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            3444556678899999999999887654

>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=97.94  E-value=0.00024  Score=50.22  Aligned_cols=92  Identities=9%  Similarity=-0.053  Sum_probs=79.2

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 025612          135 ILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEE  214 (250)
Q Consensus       135 i~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~  214 (250)
                      =+.|.+.|++++|...|++..+.. +-+...|..+-..|...|++++|...|+...+.. .-+...|..+..+|...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCH
Confidence            346779999999999999987753 3467889999999999999999999999998753 23558999999999999999


Q ss_pred             HHHHHHHHHHHhcc
Q 025612          215 ELVAAVRRDCIQYV  228 (250)
Q Consensus       215 ~~a~~~~~~m~~~g  228 (250)
                      ++|.+.+++..+..
T Consensus        95 ~eA~~~~~~a~~~~  108 (159)
T d1a17a_          95 RAALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcC
Confidence            99999999988765

>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=97.86  E-value=0.0012  Score=49.63  Aligned_cols=121  Identities=11%  Similarity=-0.029  Sum_probs=67.8

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcC
Q 025612           99 LTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVG  177 (250)
Q Consensus        99 l~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g  177 (250)
                      -..|.+.|++++|.+.|+...+..  +-+..+|+.+-.+|.+.|++++|.+.|++..+.  .| +..+|..+...|...|
T Consensus        44 G~~y~~~g~~~~A~~~~~~al~l~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g  119 (259)
T d1xnfa_          44 GVLYDSLGLRALARNDFSQALAIR--PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYYGG  119 (259)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCCHHHHHHHHHHhhccC--CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHH--HhhhhhhHHHHHHHHHHHh
Confidence            345556677777777777665421  124666667777777777777777777766553  22 3445666666667777


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 025612          178 MIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDC  224 (250)
Q Consensus       178 ~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m  224 (250)
                      ++++|...|+...+.. ..+......+.-++.+.+..+.+..+....
T Consensus       120 ~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (259)
T d1xnfa_         120 RDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  165 (259)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHh
Confidence            7777777776665532 113333333333334444444444433333

>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=97.82  E-value=0.00053  Score=49.05  Aligned_cols=77  Identities=13%  Similarity=0.011  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHH
Q 025612          129 SLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRN  207 (250)
Q Consensus       129 ~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~  207 (250)
                      .+|+.+-.+|.+.|++++|...++...... +-+...|..+-.+|...|++++|...|+...+.  .| |......+-..
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~P~n~~~~~~l~~~  139 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVC  139 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            567788888999999999999998877642 237888888999999999999999999998774  46 44444444333


Q ss_pred             H
Q 025612          208 L  208 (250)
Q Consensus       208 ~  208 (250)
                      .
T Consensus       140 ~  140 (170)
T d1p5qa1         140 Q  140 (170)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=97.81  E-value=0.0031  Score=47.26  Aligned_cols=157  Identities=10%  Similarity=-0.028  Sum_probs=106.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhcCcccHH----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcC
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICRLLKADLL----DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKN  141 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~  141 (250)
                      +-..+.+.|++++|...|++..+.  .|+..    .+-.++.+.|++++|...|+...+..  +-+...|..+-.+|...
T Consensus        43 ~G~~y~~~g~~~~A~~~~~~al~l--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~  118 (259)
T d1xnfa_          43 RGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD--PTYNYAHLNRGIALYYG  118 (259)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCHHHHHHHHHHhhcc--CCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH--hhhhhhHHHHHHHHHHH
Confidence            456677889999999999998754  33332    57778889999999999999987632  22466788888999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC----------------------------
Q 025612          142 KQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASG----------------------------  193 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g----------------------------  193 (250)
                      |++++|.+.|+...+.. +.+......+..++.+.+..+.+..+........                            
T Consensus       119 g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  197 (259)
T d1xnfa_         119 GRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISEQTLMERLKAD  197 (259)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999887642 2233333333333344443333333322222210                            


Q ss_pred             ------CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          194 ------CTPH-KLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       194 ------~~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                            ..|+ ..+|..+-..|...|++++|.+.|+.....
T Consensus       198 ~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         198 ATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             CCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence                  1111 124556777888999999999999988754

>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=97.79  E-value=0.00032  Score=51.02  Aligned_cols=90  Identities=7%  Similarity=-0.113  Sum_probs=71.8

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhcC-cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHc
Q 025612           64 IQAVHAMKLAKSSSKLEEGFQSRICRLL-KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMILMLGK  140 (250)
Q Consensus        64 ~~ll~~~~~~~~~~~a~~l~~~m~~~~~-~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~~~~~  140 (250)
                      ...-..+.+.|++++|+..|++.+...- .+... .+-.+|.+.|++++|...|....+   +.| +...|..+-.+|.+
T Consensus         8 ~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~---l~p~~~~a~~~lg~~~~~   84 (201)
T d2c2la1           8 KEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALE---LDGQSVKAHFFLGQCQLE   84 (201)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH---hCCCcHHHHHHHHHHHHH
Confidence            3446778899999999999999876431 12222 467788899999999999998864   345 47889999999999


Q ss_pred             CCCHHHHHHHHHHHHh
Q 025612          141 NKQIAMAEELFCELKK  156 (250)
Q Consensus       141 ~~~~~~A~~~~~~m~~  156 (250)
                      .|++++|...|++..+
T Consensus        85 l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          85 MESYDEAIANLQRAYS  100 (201)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            9999999999998654

>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=97.74  E-value=0.00047  Score=45.66  Aligned_cols=89  Identities=11%  Similarity=0.017  Sum_probs=52.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 025612           98 TLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVG  177 (250)
Q Consensus        98 ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  177 (250)
                      +-..+.+.|++++|...|++..+. . +-+...|..+-.+|.+.|++++|+..|++..+.. +-+...|..+...|...|
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~-~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQK-E-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH-S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccc-c-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCC
Confidence            334455666666666666666542 1 1145666666666666666666666666655431 223556666666666666


Q ss_pred             ChHHHHHHHHHH
Q 025612          178 MIDKAMETYETM  189 (250)
Q Consensus       178 ~~~~a~~~~~~m  189 (250)
                      ++++|.+.+++.
T Consensus        99 ~~~~A~~~l~~~  110 (112)
T d1hxia_          99 NANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            666666666553

>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=97.72  E-value=0.002  Score=46.81  Aligned_cols=122  Identities=13%  Similarity=-0.021  Sum_probs=92.8

Q ss_pred             HHHhcCChhHHHHHHHHHHHhcCcccHH---HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHH
Q 025612           69 AMKLAKSSSKLEEGFQSRICRLLKADLL---DTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIA  145 (250)
Q Consensus        69 ~~~~~~~~~~a~~l~~~m~~~~~~~~~~---~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~  145 (250)
                      .+...|+++.|++.|+++.    +|+..   .+=.++.+.|++++|.+.|++..+. . +-+...|+.+-.+|.+.|+++
T Consensus        14 ~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l-d-p~~~~a~~~~g~~~~~~g~~~   87 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR-D-KHLAVAYFQRGMLYYQTEKYD   87 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH-h-hhhhhhHHHHHHHHHhhccHH
Confidence            4567799999999998642    23322   5777788999999999999998753 2 335888999999999999999


Q ss_pred             HHHHHHHHHHhCC------------C--CCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC
Q 025612          146 MAEELFCELKKEG------------L--DPD-TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP  196 (250)
Q Consensus       146 ~A~~~~~~m~~~g------------~--~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  196 (250)
                      +|.+.|++.....            +  +++ ..++..+-.+|.+.|++++|.+.|....+....|
T Consensus        88 ~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          88 LAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             HHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            9999999875421            1  111 2455667778999999999999999887754443

>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=97.71  E-value=0.0001  Score=50.09  Aligned_cols=96  Identities=16%  Similarity=0.056  Sum_probs=77.0

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHCCCCCCH-HHHHHHHHH
Q 025612          132 SDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGM---IDKAMETYETMKASGCTPHK-LTFTILIRN  207 (250)
Q Consensus       132 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~---~~~a~~~~~~m~~~g~~p~~-~ty~~li~~  207 (250)
                      ..|++.+...+++++|++.|+.....+ +.+..++..+-.++.+.++   +++|..+|++.....-.|+. .+|..+-.+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            467888999999999999999987742 3467888888888887554   45699999998875433432 467788899


Q ss_pred             HHhcCCHHHHHHHHHHHHhcc
Q 025612          208 LENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       208 ~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      |.+.|++++|.+.|+...+..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhHHHHHHHHHHHHhC
Confidence            999999999999999998854

>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=97.70  E-value=0.0012  Score=47.77  Aligned_cols=77  Identities=12%  Similarity=0.044  Sum_probs=46.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----hccCCchHHHHHH
Q 025612          164 RVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCI-----QYVEFPERFLEEV  238 (250)
Q Consensus       164 ~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~-----~~g~~pd~~~~~~  238 (250)
                      ..+..+...+.+.|++++|...++...+.. .-+...|..++.+|.+.|+.++|.+.|+.+.     +.|+.|..-+..+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~l  146 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRAL  146 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHHH
Confidence            345556666666666666666666665531 2255666666666666666666666666653     2466666555555


Q ss_pred             HHh
Q 025612          239 YQK  241 (250)
Q Consensus       239 ~~~  241 (250)
                      ...
T Consensus       147 ~~~  149 (179)
T d2ff4a2         147 NER  149 (179)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=97.68  E-value=0.00061  Score=49.31  Aligned_cols=119  Identities=12%  Similarity=0.015  Sum_probs=82.9

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHh--cC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCC
Q 025612           66 AVHAMKLAKSSSKLEEGFQSRICR--LL-KADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNK  142 (250)
Q Consensus        66 ll~~~~~~~~~~~a~~l~~~m~~~--~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~  142 (250)
                      .-......|++++|.+.|.+....  |- .++..        .+.+  +...-..+..     .-...+..+...+.+.|
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~--------~~~w--~~~~r~~l~~-----~~~~a~~~la~~~~~~g   81 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREWRGPVLDDLR--------DFQF--VEPFATALVE-----DKVLAHTAKAEAEIACG   81 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGT--------TSTT--HHHHHHHHHH-----HHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccccccCc--------chHH--HHHHHHHHHH-----HHHHHHHHHHHHHHHCC
Confidence            345667778888888888887642  21 11110        0111  1111111211     02456788999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH-----HCCCCCCHHH
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMK-----ASGCTPHKLT  200 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~-----~~g~~p~~~t  200 (250)
                      ++++|...++...... +-+...|..++.+|.+.|+.++|++.|++++     +.|+.|+..|
T Consensus        82 ~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          82 RASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             CchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            9999999999987741 3478889999999999999999999999874     3599999876

>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=97.66  E-value=0.00026  Score=46.98  Aligned_cols=87  Identities=14%  Similarity=0.044  Sum_probs=75.3

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhc
Q 025612          134 MILMLGKNKQIAMAEELFCELKKEGLDP-DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENA  211 (250)
Q Consensus       134 li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~  211 (250)
                      +-..+.+.|++++|...|++....  .| +...|..+-..|.+.|++++|...|+...+.  .| +...|..+-..|...
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccc--ccccchhhhhhhhhhhhhhhHHHhhccccccccc--ccccccchHHHHHHHHHC
Confidence            345677899999999999998775  34 6888999999999999999999999998774  35 578899999999999


Q ss_pred             CCHHHHHHHHHHH
Q 025612          212 GEEELVAAVRRDC  224 (250)
Q Consensus       212 g~~~~a~~~~~~m  224 (250)
                      |++++|.+.+++.
T Consensus        98 g~~~~A~~~l~~~  110 (112)
T d1hxia_          98 HNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            9999999998864

>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=97.62  E-value=0.0015  Score=45.62  Aligned_cols=62  Identities=15%  Similarity=0.136  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 025612          129 SLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       129 ~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~  191 (250)
                      .+|+.+-.+|.+.|++++|++.+++..+.. +-+..+|..+..+|...|++++|...|+...+
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            355566666666666666666666655431 23556666666666666666666666666655

>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=97.57  E-value=0.0021  Score=49.74  Aligned_cols=164  Identities=9%  Similarity=0.023  Sum_probs=107.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHh----cCcccHH----HHHHHHHH-cCCHHHHHHHHHHHHH---hCCCCC-CHH
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICR----LLKADLL----DTLTELRR-QNELDLALKVFNFVRK---EVWYKP-DLS  129 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~----~~~~~~~----~ll~~~~~-~~~~~~a~~~~~~m~~---~~g~~~-~~~  129 (250)
                      ...+...|.+.|++++|.+.+++....    |......    .+...|-. .|++++|.+.|.+..+   ..+-.+ -..
T Consensus        80 ~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~  159 (290)
T d1qqea_          80 YVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNK  159 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhh
Confidence            334577788899999999999987542    2211111    24445544 5999999999988642   122111 145


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC-----CH-HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-CC---HH
Q 025612          130 LYSDMILMLGKNKQIAMAEELFCELKKEGLDP-----DT-RVYTEMIGVYLQVGMIDKAMETYETMKASGCT-PH---KL  199 (250)
Q Consensus       130 ~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-----~~-~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~---~~  199 (250)
                      +|..+...|.+.|++++|...|++........     .. ..|...+..+...|+++.|...+++..+.... ++   ..
T Consensus       160 ~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~  239 (290)
T d1qqea_         160 CFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESN  239 (290)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HH
T ss_pred             HHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHH
Confidence            68889999999999999999999987642221     11 12344455677889999999999998764211 12   23


Q ss_pred             HHHHHHHHHHh--cCCHHHHHHHHHHHHh
Q 025612          200 TFTILIRNLEN--AGEEELVAAVRRDCIQ  226 (250)
Q Consensus       200 ty~~li~~~~~--~g~~~~a~~~~~~m~~  226 (250)
                      ....++.++-.  .+.+++|..-|+.+.+
T Consensus       240 ~l~~l~~a~~~~d~e~~~eai~~y~~~~~  268 (290)
T d1qqea_         240 FLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (290)
T ss_dssp             HHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhh
Confidence            45667777665  3457777777765544

>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=97.57  E-value=0.0017  Score=51.08  Aligned_cols=125  Identities=6%  Similarity=-0.024  Sum_probs=104.6

Q ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHcCC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 025612          101 ELRRQNELDLALKVFNFVRKEVWYKP-DLSLYSDMILMLGKNK-QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGM  178 (250)
Q Consensus       101 ~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~y~~li~~~~~~~-~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~  178 (250)
                      .+.+.+..++|+++++...+.   .| +...|+..-.++...| ++++|+..++...+.. +-+..+|+.+-..+.+.|+
T Consensus        52 ~~~~~e~~~~Al~~~~~ai~l---nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~~~l~~  127 (315)
T d2h6fa1          52 VLQRDERSERAFKLTRDAIEL---NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWLRD  127 (315)
T ss_dssp             HHHHTCCCHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHhCCchHHHHHHHHHHHHH---CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHHHhhcc
Confidence            355778999999999999863   34 5778888888888876 5999999999986642 2368889999999999999


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 025612          179 IDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       179 ~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      +++|++.++.+.+.. .-+...|..+...+...|++++|.+.++...+....
T Consensus       128 ~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~  178 (315)
T d2h6fa1         128 PSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR  178 (315)
T ss_dssp             CTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc
Confidence            999999999998742 236789999999999999999999999999887654

>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=97.57  E-value=0.0066  Score=46.86  Aligned_cols=160  Identities=10%  Similarity=-0.055  Sum_probs=113.0

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCcccH---H----HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC----HHHHHHHH
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLKADL---L----DTLTELRRQNELDLALKVFNFVRKEVWYKPD----LSLYSDMI  135 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~~~~---~----~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~y~~li  135 (250)
                      ...+...|++++|..++++.....-..+.   .    .+-..+...|++++|...|++..+...-.++    ...+..+.
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~   98 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS   98 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            44566889999999999998754321111   1    2556778899999999999987532111122    44567777


Q ss_pred             HHHHcCCCHHHHHHHHHHHHh----CCCCC--C-HHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCCCHHHHHHH
Q 025612          136 LMLGKNKQIAMAEELFCELKK----EGLDP--D-TRVYTEMIGVYLQVGMIDKAMETYETMKAS----GCTPHKLTFTIL  204 (250)
Q Consensus       136 ~~~~~~~~~~~A~~~~~~m~~----~g~~p--~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~~ty~~l  204 (250)
                      ..+...|++..+...+.+...    .+...  . ...+..+-..+...|+++.+...++.....    +......++..+
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  178 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHH
Confidence            888999999999998887543    22221  1 235566678888999999999999887643    333445667777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh
Q 025612          205 IRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       205 i~~~~~~g~~~~a~~~~~~m~~  226 (250)
                      ...+...++...+...+.....
T Consensus       179 ~~~~~~~~~~~~a~~~~~~a~~  200 (366)
T d1hz4a_         179 IQCSLARGDLDNARSQLNRLEN  200 (366)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHH
Confidence            7888889999998888776543

>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=97.46  E-value=0.013  Score=45.06  Aligned_cols=160  Identities=13%  Similarity=0.035  Sum_probs=114.1

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHhcCc----ccHH---HHHHHHHHcCCHHHHHHHHHHHHHh---CCCCC--CHHHHHHH
Q 025612           67 VHAMKLAKSSSKLEEGFQSRICRLLK----ADLL---DTLTELRRQNELDLALKVFNFVRKE---VWYKP--DLSLYSDM  134 (250)
Q Consensus        67 l~~~~~~~~~~~a~~l~~~m~~~~~~----~~~~---~ll~~~~~~~~~~~a~~~~~~m~~~---~g~~~--~~~~y~~l  134 (250)
                      -..+...|+++.+...+.......-.    ....   .....+...+....+...+......   .+..+  ....+..+
T Consensus       140 a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~  219 (366)
T d1hz4a_         140 AQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVR  219 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHH
T ss_pred             HHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHH
Confidence            45667789999999999988653221    1111   3556677889999888888775431   11111  13446667


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCC---CCHHHHHHHHHHHHhcCChHHHHHHHHHHHH----CCCCCCH-HHHHHHHH
Q 025612          135 ILMLGKNKQIAMAEELFCELKKEGLD---PDTRVYTEMIGVYLQVGMIDKAMETYETMKA----SGCTPHK-LTFTILIR  206 (250)
Q Consensus       135 i~~~~~~~~~~~A~~~~~~m~~~g~~---p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~~-~ty~~li~  206 (250)
                      ...+...|++++|...+.........   .....+..+...|...|++++|...++....    .+..|+. .++..+-.
T Consensus       220 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  299 (366)
T d1hz4a_         220 VIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQ  299 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHH
Confidence            77888999999999999886543222   2345667788899999999999999988753    3555543 56777889


Q ss_pred             HHHhcCCHHHHHHHHHHHHh
Q 025612          207 NLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       207 ~~~~~g~~~~a~~~~~~m~~  226 (250)
                      .|.+.|++++|.+.+++..+
T Consensus       300 ~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         300 LYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999987643

>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=97.45  E-value=0.0016  Score=44.06  Aligned_cols=91  Identities=13%  Similarity=0.178  Sum_probs=53.9

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC--CCCCC----HHHHHHHHHH
Q 025612           99 LTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKE--GLDPD----TRVYTEMIGV  172 (250)
Q Consensus        99 l~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~--g~~p~----~~ty~~li~~  172 (250)
                      =..+.+.|++++|...|.+..+. . +.+...|..+-.+|.+.|++++|...+++..+-  +....    ..+|..+-..
T Consensus        11 G~~~~~~~~y~~Ai~~y~~al~~-~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_          11 GNDAYKKKDFDTALKHYDKAKEL-D-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh-C-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            34566677777777777776542 1 234666666777777777777777777665441  00000    2345555566


Q ss_pred             HHhcCChHHHHHHHHHHHH
Q 025612          173 YLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       173 ~~~~g~~~~a~~~~~~m~~  191 (250)
                      +...+++++|.+.|+.-..
T Consensus        89 ~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHh
Confidence            6666667777766665443

>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=97.41  E-value=0.0055  Score=43.43  Aligned_cols=63  Identities=11%  Similarity=0.016  Sum_probs=55.9

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          164 RVYTEMIGVYLQVGMIDKAMETYETMKASGCTP-HKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       164 ~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      .+|+.+-.+|.+.|++++|+..++.....  .| +...|..+-.+|...|+++.|...|+...+..
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~--~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALEL--DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhc--cccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            46788889999999999999999998774  35 78899999999999999999999999998754

>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=97.32  E-value=0.003  Score=42.60  Aligned_cols=100  Identities=12%  Similarity=0.058  Sum_probs=72.4

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC---CCC--CC-HHHHHHHHH
Q 025612          133 DMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS---GCT--PH-KLTFTILIR  206 (250)
Q Consensus       133 ~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~---g~~--p~-~~ty~~li~  206 (250)
                      .+=+.|.+.|++++|...|.+..+.+ +-+...|..+-.+|.+.|++++|...+++..+.   ...  ++ ..+|..+-.
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            34456778888999999988877642 235778888888888899999999888887642   111  11 246777888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhccCCchH
Q 025612          207 NLENAGEEELVAAVRRDCIQYVEFPER  233 (250)
Q Consensus       207 ~~~~~g~~~~a~~~~~~m~~~g~~pd~  233 (250)
                      .+...+++++|.+.|..-....-.|+.
T Consensus        88 ~~~~~~~~~~A~~~~~kal~~~~~~~~  114 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSLAEHRTPDV  114 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCCHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCCCHHH
Confidence            888888999999888887655444543

>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=97.31  E-value=0.011  Score=40.88  Aligned_cols=66  Identities=9%  Similarity=-0.106  Sum_probs=57.6

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC
Q 025612          163 TRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVE  229 (250)
Q Consensus       163 ~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~  229 (250)
                      ..+|+.+..+|.+.|++++|++.++...+.. +-+..+|..+-.++...|+++.|...|+...+..-
T Consensus        67 ~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P  132 (153)
T d2fbna1          67 ISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP  132 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST
T ss_pred             HHHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            3578889999999999999999999987753 33779999999999999999999999999887653

>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=97.28  E-value=0.0083  Score=42.30  Aligned_cols=69  Identities=10%  Similarity=0.074  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH
Q 025612          129 SLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLT  200 (250)
Q Consensus       129 ~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t  200 (250)
                      .+|+.+-.+|.+.|++++|+..+++..... +.+...|..+..+|...|++++|...|+...+.  .|+...
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~  133 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKA  133 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHH
Confidence            456777778888999999999998876642 446788888888999999999999999998874  454433

>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=96.99  E-value=0.0096  Score=41.89  Aligned_cols=64  Identities=13%  Similarity=-0.011  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS  192 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  192 (250)
                      ...|+.+-.+|.+.|++++|+..+++..+.. +-+...|..+-.+|.+.|++++|...|+...+.
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            4566677777888888888888888776642 235667777888888888888888888877763

>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=96.95  E-value=0.017  Score=40.49  Aligned_cols=66  Identities=6%  Similarity=-0.033  Sum_probs=56.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          162 DTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       162 ~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      +...|+.+-.+|.+.|++++|+..++...+.. .-+...|..+-.+|.+.|+++.|.+.|+...+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~  141 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  141 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            45567778889999999999999999998753 2367889999999999999999999999988753

>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=96.90  E-value=0.015  Score=40.31  Aligned_cols=91  Identities=12%  Similarity=-0.048  Sum_probs=60.0

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCCC----------HHHHHHHHHHHHcCCCHHHHHHHHHHHHhC-----CCCCC--
Q 025612          100 TELRRQNELDLALKVFNFVRKEVWYKPD----------LSLYSDMILMLGKNKQIAMAEELFCELKKE-----GLDPD--  162 (250)
Q Consensus       100 ~~~~~~~~~~~a~~~~~~m~~~~g~~~~----------~~~y~~li~~~~~~~~~~~A~~~~~~m~~~-----g~~p~--  162 (250)
                      ..+.+.|++++|.+.|.+..+-..-.|+          ...|+.+-.+|.+.|++++|...+++....     ...++  
T Consensus        17 ~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~   96 (156)
T d2hr2a1          17 QRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEG   96 (156)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccccccccccc
Confidence            3455678888888888876532211222          456788888888888888888887775431     12222  


Q ss_pred             ---HHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 025612          163 ---TRVYTEMIGVYLQVGMIDKAMETYETMK  190 (250)
Q Consensus       163 ---~~ty~~li~~~~~~g~~~~a~~~~~~m~  190 (250)
                         ...|+.+-.+|...|++++|...|++..
T Consensus        97 ~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          97 KLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             chhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence               2245666777888888888888887754

>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=96.90  E-value=0.0011  Score=51.02  Aligned_cols=121  Identities=16%  Similarity=0.049  Sum_probs=74.6

Q ss_pred             HHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCChHH
Q 025612          103 RRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDT-RVYTEMIGVYLQVGMIDK  181 (250)
Q Consensus       103 ~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~ty~~li~~~~~~g~~~~  181 (250)
                      .+.|++++|...+++..+. . +-|...+..+...|+..|++++|...|+...+.  .|+. ..+..+...+...+..++
T Consensus         7 L~~G~l~eAl~~l~~al~~-~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKA-S-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHT-C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH-C-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHH
Confidence            4678999999999988753 2 346888999999999999999999999988764  4543 333333333322222222


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          182 AMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       182 a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      +..-...-...+-.++...+......+.+.|+.++|.+.+....+.
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            1111000000111122344445556677889999999998887654

>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=96.89  E-value=0.021  Score=39.46  Aligned_cols=99  Identities=7%  Similarity=-0.024  Sum_probs=73.7

Q ss_pred             HHHHHHH--HHHHHcCCCHHHHHHHHHHHHhC-CCCCC----------HHHHHHHHHHHHhcCChHHHHHHHHHHHHC--
Q 025612          128 LSLYSDM--ILMLGKNKQIAMAEELFCELKKE-GLDPD----------TRVYTEMIGVYLQVGMIDKAMETYETMKAS--  192 (250)
Q Consensus       128 ~~~y~~l--i~~~~~~~~~~~A~~~~~~m~~~-g~~p~----------~~ty~~li~~~~~~g~~~~a~~~~~~m~~~--  192 (250)
                      ...|+.+  -..+.+.|++++|+..|++-.+- .-.|+          ...|+.+-.+|.+.|++++|..-+++....  
T Consensus         7 a~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~   86 (156)
T d2hr2a1           7 VGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFN   86 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccc
Confidence            3456666  44566789999999999987652 11122          467999999999999999999999887642  


Q ss_pred             ---CCCCCH-----HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 025612          193 ---GCTPHK-----LTFTILIRNLENAGEEELVAAVRRDCIQ  226 (250)
Q Consensus       193 ---g~~p~~-----~ty~~li~~~~~~g~~~~a~~~~~~m~~  226 (250)
                         ...++.     ..|+.+-.+|...|++++|.+.|++..+
T Consensus        87 ~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          87 RRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence               223332     2466778999999999999999998653

>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=96.33  E-value=0.087  Score=36.66  Aligned_cols=64  Identities=11%  Similarity=0.024  Sum_probs=55.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 025612          164 RVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYV  228 (250)
Q Consensus       164 ~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g  228 (250)
                      ..|+.+-.+|.+.|++++|+..++...+.. ..+...|..+-.+|...|++++|.+.|....+..
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            457778888999999999999999987742 3477889999999999999999999999988643

>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=96.28  E-value=0.028  Score=38.51  Aligned_cols=116  Identities=10%  Similarity=-0.051  Sum_probs=70.0

Q ss_pred             HHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcC----------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 025612          103 RRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKN----------KQIAMAEELFCELKKEGLDPDTRVYTEMIGV  172 (250)
Q Consensus       103 ~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~----------~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~  172 (250)
                      -+.+.+++|.+.|+...+. . +-+...|..+=.+|...          +.+++|...|++..+-. +-+..+|..+-..
T Consensus         8 ~r~~~fe~A~~~~e~al~~-~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~   84 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKS-N-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhh-C-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHH
Confidence            3455677777777776542 1 22455555555555432          34567777777766531 2245667777777


Q ss_pred             HHhcC-----------ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC
Q 025612          173 YLQVG-----------MIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVE  229 (250)
Q Consensus       173 ~~~~g-----------~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~  229 (250)
                      |...|           .+++|.+.|+...+  +.|+..+|..-+..+.      .|.+++.+..+.|+
T Consensus        85 y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~~------ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          85 YTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMTA------KAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHH------THHHHHHHHHHSSS
T ss_pred             HHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHHH------HHHHHHHHHHHHhc
Confidence            66544           35778888877776  5688777776665554      45666666665553

>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=95.94  E-value=0.13  Score=39.82  Aligned_cols=138  Identities=7%  Similarity=0.001  Sum_probs=96.9

Q ss_pred             CChhHHHHHHHHHHHhcCcccHH-------HHHHHHHH-------cCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 025612           74 KSSSKLEEGFQSRICRLLKADLL-------DTLTELRR-------QNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLG  139 (250)
Q Consensus        74 ~~~~~a~~l~~~m~~~~~~~~~~-------~ll~~~~~-------~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~  139 (250)
                      ...++|++++++....  .|+..       .++..+..       .|.+++|..+++...+. . +-+...|..+-.++.
T Consensus        43 ~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~-~-pk~~~~~~~~~~~~~  118 (334)
T d1dcea1          43 ELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV-N-PKSYGTWHHRCWLLS  118 (334)
T ss_dssp             CCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHh-C-CCcHHHHHHhhHHHH
Confidence            4457999999998753  34432       24444444       45578899999998753 2 335677777777776


Q ss_pred             cCC--CHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 025612          140 KNK--QIAMAEELFCELKKEGLDPDTRVYTEMI-GVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEEL  216 (250)
Q Consensus       140 ~~~--~~~~A~~~~~~m~~~g~~p~~~ty~~li-~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~  216 (250)
                      ..+  ++++|...+++..+.. +++...|...+ ..+...|..++|+..++...+..- -+...|+.+-..+.+.|+++.
T Consensus       119 ~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p-~~~~a~~~l~~~~~~~~~~~~  196 (334)
T d1dcea1         119 RLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPD  196 (334)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCC
T ss_pred             HhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCHHH
Confidence            655  5899999999987742 23466555444 666678999999999998877542 267788888888888887665


Q ss_pred             H
Q 025612          217 V  217 (250)
Q Consensus       217 a  217 (250)
                      |
T Consensus       197 A  197 (334)
T d1dcea1         197 S  197 (334)
T ss_dssp             S
T ss_pred             H
Confidence            4

>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=95.81  E-value=0.0093  Score=45.60  Aligned_cols=120  Identities=11%  Similarity=-0.056  Sum_probs=74.5

Q ss_pred             HHhcCChhHHHHHHHHHHHhcC-cccHH-HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHcCCCHHH
Q 025612           70 MKLAKSSSKLEEGFQSRICRLL-KADLL-DTLTELRRQNELDLALKVFNFVRKEVWYKPD-LSLYSDMILMLGKNKQIAM  146 (250)
Q Consensus        70 ~~~~~~~~~a~~l~~~m~~~~~-~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~li~~~~~~~~~~~  146 (250)
                      ..+.|++++|...+++.++..- .++.. .+...++..|++++|.+.|+...+.   .|+ ...+..+-..+...+..++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHhccccHH
Confidence            4467999999999999875432 22333 6999999999999999999998752   454 4444444333332222222


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 025612          147 AEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKAS  192 (250)
Q Consensus       147 A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  192 (250)
                      +..-...-...+-.++...+......+.+.|+.++|.+.+++..+.
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            2111110000111222344444556778899999999999988663

>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=95.50  E-value=0.4  Score=37.50  Aligned_cols=91  Identities=10%  Similarity=0.019  Sum_probs=52.5

Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 025612          126 PDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILI  205 (250)
Q Consensus       126 ~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li  205 (250)
                      .+......++..|-..|.+++...+++..... -.++...++-++..|++.+ .++   +.+.++...-.   +-..-++
T Consensus        97 ~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~-~~k---l~e~l~~~s~~---y~~~k~~  168 (336)
T d1b89a_          97 VHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK-PQK---MREHLELFWSR---VNIPKVL  168 (336)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC-HHH---HHHHHHHHSTT---SCHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC-hHH---HHHHHHhcccc---CCHHHHH
Confidence            34555566777777777777777777665322 2445666777777777754 233   33333332111   2233456


Q ss_pred             HHHHhcCCHHHHHHHHHHH
Q 025612          206 RNLENAGEEELVAAVRRDC  224 (250)
Q Consensus       206 ~~~~~~g~~~~a~~~~~~m  224 (250)
                      +.|-+.+-++++.-++..+
T Consensus       169 ~~c~~~~l~~elv~Ly~~~  187 (336)
T d1b89a_         169 RAAEQAHLWAELVFLYDKY  187 (336)
T ss_dssp             HHHHTTTCHHHHHHHHHHT
T ss_pred             HHHHHcCChHHHHHHHHhc
Confidence            7777777777776666554

>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=95.36  E-value=0.1  Score=32.53  Aligned_cols=57  Identities=14%  Similarity=-0.010  Sum_probs=26.1

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhC-----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 025612          135 ILMLGKNKQIAMAEELFCELKKE-----GLDPD-TRVYTEMIGVYLQVGMIDKAMETYETMKA  191 (250)
Q Consensus       135 i~~~~~~~~~~~A~~~~~~m~~~-----g~~p~-~~ty~~li~~~~~~g~~~~a~~~~~~m~~  191 (250)
                      =..+.+.|++++|...|++..+.     ...++ ..+++.|-.+|.+.|++++|.+.|++..+
T Consensus        12 G~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~   74 (95)
T d1tjca_          12 GKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH
Confidence            34444455555555555443221     01111 23455555555555555555555555544

>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=95.27  E-value=0.06  Score=33.69  Aligned_cols=61  Identities=8%  Similarity=-0.057  Sum_probs=42.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHHhC
Q 025612           97 DTLTELRRQNELDLALKVFNFVRKEV----WYKPD-LSLYSDMILMLGKNKQIAMAEELFCELKKE  157 (250)
Q Consensus        97 ~ll~~~~~~~~~~~a~~~~~~m~~~~----g~~~~-~~~y~~li~~~~~~~~~~~A~~~~~~m~~~  157 (250)
                      .+=..+.+.|++++|...|++..+..    ...++ ..+|+.|-.+|.+.|++++|.+.+++..+.
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            34556677788888877777654311    11222 567888888888888888888888887763

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.48  E-value=0.36  Score=37.74  Aligned_cols=131  Identities=12%  Similarity=0.041  Sum_probs=94.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhcCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCC
Q 025612           63 AIQAVHAMKLAKSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNK  142 (250)
Q Consensus        63 ~~~ll~~~~~~~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~  142 (250)
                      ...+.+.|.+.|.++.|..++..+.      +...++..+.+.++++.|.+++...       -+..+|..+...+....
T Consensus        17 ~~~i~~~c~~~~lye~A~~lY~~~~------d~~rl~~~~v~l~~~~~avd~~~k~-------~~~~~~k~~~~~l~~~~   83 (336)
T d1b89a_          17 IQQVGDRCYDEKMYDAAKLLYNNVS------NFGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVCFACVDGK   83 (336)
T ss_dssp             ------------CTTTHHHHHHHTT------CHHHHHHHHHTTTCHHHHHHHHHHH-------TCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhCC------CHHHHHHHHHhhccHHHHHHHHHHc-------CCHHHHHHHHHHHHhCc
Confidence            3345677778999999999998653      5556888899999999998887644       16789999999999887


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAG  212 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g  212 (250)
                      ....|     .+...+...+...-..++..|-..|..++...+++..... -.++...++.++..|++.+
T Consensus        84 e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          84 EFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             CHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC
T ss_pred             HHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC
Confidence            76554     3334445567777788999999999999999999987543 3567788999999999874

>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=94.31  E-value=0.41  Score=31.73  Aligned_cols=123  Identities=14%  Similarity=0.083  Sum_probs=85.7

Q ss_pred             HHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhC-CCC----------------CCHHH
Q 025612          103 RRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKE-GLD----------------PDTRV  165 (250)
Q Consensus       103 ~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~-g~~----------------p~~~t  165 (250)
                      .-.|.+++..++..+..++    .+..-||=+|.-....-+.+...++++..-+- .+.                -+...
T Consensus        13 ildG~ve~Gveii~k~~~s----s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~Nlk~vv~C~~~~n~~se~   88 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKS----STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEH   88 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHH----SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHH
T ss_pred             HHhhhHHhHHHHHHHHccc----CCccccceeeeecccccchHHHHHHHHHHhhhcCchhhhcHHHHHHHHHHhcchHHH
Confidence            3456677777777766553    24455555555555555555555555544321 111                14455


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 025612          166 YTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       166 y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      ++--+....+.|+-+...+++.++.+. -+|++...-.+-.||-+.|...++.+++.+.=+.|+.
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            677788899999999999999997774 4788888889999999999999999999999888875

>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=93.85  E-value=0.19  Score=34.05  Aligned_cols=100  Identities=13%  Similarity=0.085  Sum_probs=68.4

Q ss_pred             HHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----------CChHHHHHHHHHHHHCCCCC-CHHHHHHHHH
Q 025612          138 LGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQV----------GMIDKAMETYETMKASGCTP-HKLTFTILIR  206 (250)
Q Consensus       138 ~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~----------g~~~~a~~~~~~m~~~g~~p-~~~ty~~li~  206 (250)
                      |-+.+.+++|...|+...+.. +-+...|..+-.+|...          +.+++|...|++..+.  .| +..+|..+-.
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l--~P~~~~a~~~lG~   83 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIGN   83 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHh--cchhhHHHhhHHH
Confidence            345567899999999987642 34566777777676643          4567899999988773  45 5678888888


Q ss_pred             HHHhcCC-----------HHHHHHHHHHHHhccCCchHHHHHHHH
Q 025612          207 NLENAGE-----------EELVAAVRRDCIQYVEFPERFLEEVYQ  240 (250)
Q Consensus       207 ~~~~~g~-----------~~~a~~~~~~m~~~g~~pd~~~~~~~~  240 (250)
                      +|...|+           ++.|.+.|+...+..-..+.+...+..
T Consensus        84 ~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~  128 (145)
T d1zu2a1          84 AYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEM  128 (145)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHH
Confidence            8876553           577888887777655444444444443

>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=93.56  E-value=0.39  Score=31.86  Aligned_cols=18  Identities=11%  Similarity=0.215  Sum_probs=9.9

Q ss_pred             HHHHHHHHhccCCchHHH
Q 025612          218 AAVRRDCIQYVEFPERFL  235 (250)
Q Consensus       218 ~~~~~~m~~~g~~pd~~~  235 (250)
                      .++...+...|+.|..+.
T Consensus       106 ~~fi~rav~d~~l~~~~~  123 (129)
T d2nsza1         106 ERFVEECFQAGIISKQLR  123 (129)
T ss_dssp             HHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHHcCCCCHHHH
Confidence            444555556666665543

>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=90.92  E-value=0.46  Score=39.05  Aligned_cols=98  Identities=8%  Similarity=-0.072  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHH
Q 025612          128 LSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHK-LTFTILIR  206 (250)
Q Consensus       128 ~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~ty~~li~  206 (250)
                      ...++.+-..+.+.|+.++|...+..-....   ...++..+-..+...|++++|...|++..+.  .|+. .+|+.|-.
T Consensus       120 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~  194 (497)
T d1ya0a1         120 RVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAI  194 (497)
T ss_dssp             -----------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHH
T ss_pred             HHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHH
Confidence            4445555566666666666666555433211   1244555666667777777777777776653  3433 67777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhccCC
Q 025612          207 NLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       207 ~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      .+...|+..+|...|.+-.....+
T Consensus       195 ~~~~~~~~~~A~~~y~ral~~~~~  218 (497)
T d1ya0a1         195 LASSKGDHLTTIFYYCRSIAVKFP  218 (497)
T ss_dssp             HHHHTTCHHHHHHHHHHHHSSSBC
T ss_pred             HHHHcCCHHHHHHHHHHHHhCCCC
Confidence            777777777777777666654444

>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=90.90  E-value=0.83  Score=37.42  Aligned_cols=103  Identities=14%  Similarity=-0.000  Sum_probs=57.2

Q ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCh
Q 025612          101 ELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGKNKQIAMAEELFCELKKEGLDPD-TRVYTEMIGVYLQVGMI  179 (250)
Q Consensus       101 ~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~ty~~li~~~~~~g~~  179 (250)
                      .+.+.|+.+.|...+....+-   . ...++..+=..+...|++++|...|++..+.  .|+ ..+|+.|-..|...|+.
T Consensus       129 ~~~~~~~~~~A~~~~~~al~~---~-~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~  202 (497)
T d1ya0a1         129 ISNKQTHTSAIVKPQSSSCSY---I-CQHCLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDH  202 (497)
T ss_dssp             --------------CCHHHHH---H-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCH
T ss_pred             HHHhCCCHHHHHHHHHHHhCC---C-HHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCH
Confidence            344555555655555443320   0 1245556666777788888888888876653  343 46788888888888888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 025612          180 DKAMETYETMKASGCTPHKLTFTILIRNLEN  210 (250)
Q Consensus       180 ~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~  210 (250)
                      .+|...|.+-.... .|-..++..|...+.+
T Consensus       203 ~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         203 LTTIFYYCRSIAVK-FPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHHHHHHHHHSSS-BCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCC-CCCHHHHHHHHHHHHH
Confidence            88888777766543 3555666666665554

>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=88.68  E-value=2  Score=27.84  Aligned_cols=83  Identities=8%  Similarity=-0.102  Sum_probs=40.0

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCC
Q 025612          142 KQIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQ----VGMIDKAMETYETMKASGCTPHKLTFTILIRNLEN----AGE  213 (250)
Q Consensus       142 ~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~----~g~  213 (250)
                      .+.++|.++|++..+.|   +...+..|-..|..    ..+.++|.++|++-.+.|.   +.....|-..|..    ..+
T Consensus        37 ~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~---~~a~~~Lg~~y~~G~gv~~d  110 (133)
T d1klxa_          37 INKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLND---QDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccCc---chHHHHHHHHHHcCCccCCC
Confidence            44555555555554444   33333333333332    2345566666666555542   2233333333333    235


Q ss_pred             HHHHHHHHHHHHhccCC
Q 025612          214 EELVAAVRRDCIQYVEF  230 (250)
Q Consensus       214 ~~~a~~~~~~m~~~g~~  230 (250)
                      .++|.++|+.-.+.|..
T Consensus       111 ~~~A~~~~~~Aa~~G~~  127 (133)
T d1klxa_         111 EKQAVKTFEKACRLGSE  127 (133)
T ss_dssp             HHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHCCCH
Confidence            66666666666665543

>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=88.07  E-value=1.9  Score=26.83  Aligned_cols=62  Identities=16%  Similarity=0.220  Sum_probs=35.9

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 025612          143 QIAMAEELFCELKKEGLDPDTRVYTEMIGVYLQVGMIDKAMETYETMKASGCTPHKLTFTILI  205 (250)
Q Consensus       143 ~~~~A~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ty~~li  205 (250)
                      +.-++.+-++.+....+.|+.....+.+++|-+.+++.-|.++|+-.+.. +.++...|..++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHH
Confidence            44455666666666666666666666666666666666666666665543 112333444443

>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=87.50  E-value=4.5  Score=30.39  Aligned_cols=122  Identities=7%  Similarity=-0.012  Sum_probs=83.0

Q ss_pred             HcCCHHHHHHHHHHHHHhCCCCCC-HHHHHH---HHHHHHc-------CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 025612          104 RQNELDLALKVFNFVRKEVWYKPD-LSLYSD---MILMLGK-------NKQIAMAEELFCELKKEGLDPDTRVYTEMIGV  172 (250)
Q Consensus       104 ~~~~~~~a~~~~~~m~~~~g~~~~-~~~y~~---li~~~~~-------~~~~~~A~~~~~~m~~~g~~p~~~ty~~li~~  172 (250)
                      +.+..++|.++++...+.   .|+ ...|+.   ++..+..       .|.+++|+.+++...+.. +-+...|..+...
T Consensus        41 ~~~~~~~al~~~~~~l~~---~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~  116 (334)
T d1dcea1          41 AGELDESVLELTSQILGA---NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWL  116 (334)
T ss_dssp             TTCCSHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHH
Confidence            334458999999998752   465 334543   2333333       345788999999876642 3366677777777


Q ss_pred             HHhcC--ChHHHHHHHHHHHHCCCCCCHHHHHHH-HHHHHhcCCHHHHHHHHHHHHhccCC
Q 025612          173 YLQVG--MIDKAMETYETMKASGCTPHKLTFTIL-IRNLENAGEEELVAAVRRDCIQYVEF  230 (250)
Q Consensus       173 ~~~~g--~~~~a~~~~~~m~~~g~~p~~~ty~~l-i~~~~~~g~~~~a~~~~~~m~~~g~~  230 (250)
                      +...+  ++++|...++...+.. .++...+... -..+...+.++.|.+.++...+....
T Consensus       117 ~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~  176 (334)
T d1dcea1         117 LSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS  176 (334)
T ss_dssp             HHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC
T ss_pred             HHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC
Confidence            77765  4889999999987752 2345555444 46777789999999999988776554

>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=86.44  E-value=2.9  Score=27.06  Aligned_cols=112  Identities=11%  Similarity=-0.060  Sum_probs=78.3

Q ss_pred             CChhHHHHHHHHHHHhcCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc----CCCHHHHHH
Q 025612           74 KSSSKLEEGFQSRICRLLKADLLDTLTELRRQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK----NKQIAMAEE  149 (250)
Q Consensus        74 ~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~----~~~~~~A~~  149 (250)
                      .+.++|...|.+..+.|.......|.  .....+.++|.+.+....+ .|   +...+..|=..|..    ..+.++|.+
T Consensus         7 kd~~~A~~~~~kaa~~g~~~a~~~l~--~~~~~~~~~a~~~~~~aa~-~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~   80 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNEMFGCLSLV--SNSQINKQKLFQYLSKACE-LN---SGNGCRFLGDFYENGKYVKKDLRKAAQ   80 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTCTTHHHHHH--TCTTSCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHCSSSCCCHHHHHH
T ss_pred             cCHHHHHHHHHHHHHCCChhhhhhhc--cccccCHHHHHHHHhhhhc-cc---chhhhhhHHHhhhhccccchhhHHHHH
Confidence            46789999999998887654444443  2345678999999998865 44   44555555555543    567899999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCC
Q 025612          150 LFCELKKEGLDPDTRVYTEMIGVYLQ----VGMIDKAMETYETMKASGC  194 (250)
Q Consensus       150 ~~~~m~~~g~~p~~~ty~~li~~~~~----~g~~~~a~~~~~~m~~~g~  194 (250)
                      +|+.-.+.|   +......|-..|..    ..+.++|.+.|+.-.+.|.
T Consensus        81 ~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          81 YYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            999988876   45555555555554    4578888888888777664

>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=86.43  E-value=4.4  Score=29.21  Aligned_cols=148  Identities=9%  Similarity=-0.070  Sum_probs=93.5

Q ss_pred             CChhHHHHHHHHHHHhcCcccHHHHHHHHH----HcCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc----CCCHH
Q 025612           74 KSSSKLEEGFQSRICRLLKADLLDTLTELR----RQNELDLALKVFNFVRKEVWYKPDLSLYSDMILMLGK----NKQIA  145 (250)
Q Consensus        74 ~~~~~a~~l~~~m~~~~~~~~~~~ll~~~~----~~~~~~~a~~~~~~m~~~~g~~~~~~~y~~li~~~~~----~~~~~  145 (250)
                      .+.+.|...++...+.|.......+-..+.    .......+...+.....    ..+...+..|-..|..    ..+..
T Consensus        88 ~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~  163 (265)
T d1ouva_          88 QNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLK  163 (265)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             hhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhHHHHHHhhhhhc----ccccchhhhhhhhhccCCCcccccc
Confidence            455567777776666555444333322222    23445666666666543    3456677777777764    45677


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHH
Q 025612          146 MAEELFCELKKEGLDPDTRVYTEMIGVYLQ----VGMIDKAMETYETMKASGCTPHKLTFTILIRNLEN----AGEEELV  217 (250)
Q Consensus       146 ~A~~~~~~m~~~g~~p~~~ty~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~----~g~~~~a  217 (250)
                      .+...++...+.|   +......+-..|..    ..+.++|...|+.-.+.|   ++..+..|-..|.+    ..+.+.|
T Consensus       164 ~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A  237 (265)
T d1ouva_         164 KALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQA  237 (265)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTH
T ss_pred             cchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHH
Confidence            7777777776655   55555555444544    567888999998888776   34555555556654    3378889


Q ss_pred             HHHHHHHHhccCCc
Q 025612          218 AAVRRDCIQYVEFP  231 (250)
Q Consensus       218 ~~~~~~m~~~g~~p  231 (250)
                      .++|+...+.|..+
T Consensus       238 ~~~~~kAa~~g~~~  251 (265)
T d1ouva_         238 IENFKKGCKLGAKG  251 (265)
T ss_dssp             HHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHCcCHH
Confidence            99999888888665

>d1sxjc1 a.80.1.1 (C:239-333) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=82.47  E-value=2.9  Score=25.56  Aligned_cols=28  Identities=18%  Similarity=0.208  Sum_probs=12.8

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHH-HCCCC
Q 025612          167 TEMIGVYLQVGMIDKAMETYETMK-ASGCT  195 (250)
Q Consensus       167 ~~li~~~~~~g~~~~a~~~~~~m~-~~g~~  195 (250)
                      ..++..+.. |++++|.+..+.+. +.|..
T Consensus         7 ~~il~~~l~-~~f~~a~~~l~~l~~~~G~s   35 (95)
T d1sxjc1           7 KAVLKSILE-DDWGTAHYTLNKVRSAKGLA   35 (95)
T ss_dssp             HHHHHHHHT-SCHHHHHHHHHHHHHTTTCC
T ss_pred             HHHHHHHHh-CCHHHHHHHHHHHHHHcCCC
Confidence            344444332 55555555555443 33443

>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=80.16  E-value=4.8  Score=24.96  Aligned_cols=50  Identities=6%  Similarity=-0.053  Sum_probs=44.1

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 025612          178 MIDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQY  227 (250)
Q Consensus       178 ~~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~  227 (250)
                      +.-++.+-++.+....+.|++....+-++||-|.+++..|.++|...+..
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K   70 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   70 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            45577777888888889999999999999999999999999999998843

>d1khda1 a.46.2.1 (A:12-80) Anthranilate phosphoribosyltransferase (TrpD) {Pectobacterium carotovorum [TaxId: 554]}

class: All alpha proteins
fold: Methionine synthase domain-like
superfamily: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
family: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
domain: Anthranilate phosphoribosyltransferase (TrpD)
species: Pectobacterium carotovorum [TaxId: 554]

Probab=80.01  E-value=3.6  Score=23.43  Aligned_cols=63  Identities=6%  Similarity=0.046  Sum_probs=24.7

Q ss_pred             HHHHHHHHHhcCC--hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC
Q 025612          166 YTEMIGVYLQVGM--IDKAMETYETMKASGCTPHKLTFTILIRNLENAGEEELVAAVRRDCIQYVE  229 (250)
Q Consensus       166 y~~li~~~~~~g~--~~~a~~~~~~m~~~g~~p~~~ty~~li~~~~~~g~~~~a~~~~~~m~~~g~  229 (250)
                      |+.+|......++  .+++..+++.+....+ ++...=..|+....+.-..++...+.+.|.+.+.
T Consensus         2 ~~~il~kl~~g~~Ls~ee~~~~~~~i~~g~~-~d~qiaafL~al~~kg~t~dEi~g~~~am~~~~~   66 (69)
T d1khda1           2 HQPILEKLFKSQSMTQEESHQLFAAIVRGEL-EDSQLAAALISMKMRGERPEEIAGAASALLADAQ   66 (69)
T ss_dssp             CHHHHHHHHTTCCCCHHHHHHHHHHHTTTCS-CHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCC
Confidence            4444444443332  3344444544444322 2222222222222233344444444455544443