RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

Searching..................................................done

Query= gi|254780958|ref|YP_003065371.1| HflK protein [Candidatus
Liberibacter asiaticus str. psy62]
         (355 letters)



>gnl|CDD|48216 cd03404, Band_7_HflK, Band_7_HflK: The band 7 domain of flotillin
           (reggie) like proteins. This group includes proteins
           similar to prokaryotic HlfK (High frequency of
           lysogenization K). Although many members of the band 7
           family are lipid raft associated, prokaryote plasma
           membranes lack cholesterol and are unlikely to have
           lipid raft domains.  Individual proteins of this band 7
           domain family may cluster to form membrane microdomains
           which may in turn recruit multiprotein complexes.
           Escherichia coli HflK is an integral membrane protein
           which may localize to the plasma membrane. HflK
           associates with another band 7 family member (HflC) to
           form an HflKC complex.  HflKC interacts with FtsH in a
           large complex termed the FtsH holo-enzyme. FtsH is an
           AAA ATP-dependent protease which exerts progressive
           proteolysis against membrane-embedded and soluble
           substrate proteins.  HflKC can modulate the activity of
           FtsH. HflKC plays a role in the decision between
           lysogenic and lytic cycle growth during lambda phage
           infection..
          Length = 266

 Score =  281 bits (721), Expect = 2e-76
 Identities = 120/267 (44%), Positives = 166/267 (62%), Gaps = 5/267 (1%)

Query: 55  IILLLIGSFCAFQSIYIVHPDERAVELRFGKPKNDVFLPGLHMMF-WPIDQVEIVKVIER 113
           +I  L+         YIV P ER V LRFGK    V  PGLH    +PI+ VE+V V + 
Sbjct: 1   LIAALLVILWLLSGFYIVQPGERGVVLRFGKYSRTVE-PGLHWKLPYPIEVVEVVPVFQL 59

Query: 114 QQKIGGRSASVG---SNSGLILTGDQNIVGLHFSVLYVVTDPRLYLFNLENPGETLKQVS 170
           +                  L+LTGD+NIV + F+V Y ++DP  YLFN+ +P  TL+Q +
Sbjct: 60  RSVGIPVRVGSVRSVPGESLMLTGDENIVDVEFAVQYRISDPYDYLFNVRDPEGTLRQAA 119

Query: 171 ESAMREVVGRRFAVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVA 230
           ESAMREVVGR    D+    R++IA +VR L+Q  +D YK+GI I  ++++DA PP EV 
Sbjct: 120 ESAMREVVGRSTLDDVLTEGREEIAQDVRELLQAILDAYKAGIEIVGVNLQDADPPEEVQ 179

Query: 231 DAFDEVQRAEQDEDRFVEESNKYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGEADRF 290
           DAFD+V +A QD +R + E+  Y+N V+  ARGEA+ I + + AYK+ +I EAQGEA RF
Sbjct: 180 DAFDDVNKARQDRERLINEAEAYANEVVPKARGEAARIIQEAEAYKEEVIAEAQGEAARF 239

Query: 291 LSIYGQYVNAPTLLRKRIYLETMEGIL 317
            S+  +Y  AP + R+R+YLETME +L
Sbjct: 240 ESLLAEYKKAPDVTRERLYLETMEEVL 266


>gnl|CDD|30678 COG0330, HflC, Membrane protease subunits, stomatin/prohibitin
           homologs [Posttranslational modification, protein
           turnover, chaperones].
          Length = 291

 Score =  163 bits (414), Expect = 6e-41
 Identities = 82/287 (28%), Positives = 135/287 (47%), Gaps = 8/287 (2%)

Query: 55  IILLLIGSFCAFQSIYIVHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQVEIVKVIERQ 114
           IILL+I     F SI++V   ER V LRFG+    +  PGLH      + +E V V    
Sbjct: 7   IILLVILIVLLFSSIFVVKEGERGVVLRFGRYTRTLGEPGLHFKIPFPEAIEEVVVRVDL 66

Query: 115 QKIGGRSASVGSNSGLILTGDQNIVGLHFSVLYVVTDPRLYLFNLENPGETLKQVSESAM 174
           +    R+  VG     ++T D  IV +   V Y VTDP+  ++N+EN    L+Q+ +SA+
Sbjct: 67  R---ERTLDVGP-PQEVITKDNVIVSVDAVVQYRVTDPQKAVYNVENAEAALRQLVQSAL 122

Query: 175 REVVGRRFAVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFD 234
           R V+GR    ++   +R +I  ++R ++ +  D +  GI +  + I+D  PP EV  A +
Sbjct: 123 RSVIGRMTLDELLTERRAEINAKIREILDEAADPW--GIKVVDVEIKDIDPPEEVQAAME 180

Query: 235 EVQRAEQDEDRFVEESNKYSN--RVLGSARGEASHIRESSIAYKDRIIQEAQGEADRFLS 292
           +   AE+D+   + E+   +    +      EA+ I   + A  + I +     A    +
Sbjct: 181 KQMAAERDKRAEILEAEGEAQAAILRAEGEAEAAIILAEAEAEAEVIARAEADAAKIIAA 240

Query: 293 IYGQYVNAPTLLRKRIYLETMEGILKKAKKVIIDKKQSVMPYLPLNE 339
              +   AP  L +R   E +E  L    KV++    +    L L E
Sbjct: 241 ALREAPAAPQALAQRYLEELLEIALAGNSKVVVVPNSAGGAILGLLE 287


>gnl|CDD|144658 pfam01145, Band_7, SPFH domain / Band 7 family.  This family has
           been called SPFH, Band 7 or PHB domain.
          Length = 177

 Score = 99.4 bits (248), Expect = 1e-21
 Identities = 59/183 (32%), Positives = 90/183 (49%), Gaps = 15/183 (8%)

Query: 70  YIVHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQVEIVKVIERQQKIGGRSASVGSNSG 129
            IV P E  V  RFGK    V  PGLH     I+ + +V    +  ++  +         
Sbjct: 1   KIVPPGEVGVVTRFGKVS-RVLGPGLHFKLPFIETIYVVDTRLQTLEVTVQLE------- 52

Query: 130 LILTGDQNIVGLHFSVLYVVTDPRLYLFNL---ENPGETLKQVSESAMREVVGRRFAVDI 186
            +LT D   V +  +V Y V DP   + N    ++  E L+ +  SA+REV+ R    ++
Sbjct: 53  -VLTKDGVPVTVDVTVQYRVEDPAKLVANYGGEDDLQELLRPLVRSALREVIARYTLDEL 111

Query: 187 FRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAEQDEDRF 246
             S R++IA EV+  +Q+ +D Y  GI I  + I D  PP E+A+A +E Q AEQ+ +  
Sbjct: 112 L-SNREEIAQEVKEALQEELDKY--GIEIEDVQITDIDPPPEIAEAIEEKQAAEQEAEEA 168

Query: 247 VEE 249
             E
Sbjct: 169 EIE 171


>gnl|CDD|48217 cd03405, Band_7_HflC, Band_7_HflC: The band 7 domain of flotillin
           (reggie) like proteins. This group includes proteins
           similar to prokaryotic HlfC (High frequency of
           lysogenization C). Although many members of the band 7
           family are lipid raft associated, prokaryote plasma
           membranes lack cholesterol and are unlikely to have
           lipid raft domains.  Individual proteins of this band 7
           domain family may cluster to form membrane microdomains
           which may in turn recruit multiprotein complexes.
           Escherichia coli HflC is an integral membrane protein
           which may localize to the plasma membrane. HflC
           associates with another band 7 family member (HflK) to
           form an HflKC complex.  HflKC interacts with FtsH in a
           large complex termed the FtsH holo-enzyme. FtsH is an
           AAA ATP-dependent protease which exerts progressive
           proteolysis against membrane-embedded and soluble
           substrate proteins.  HflKC can modulate the activity of
           FtsH. HflKC plays a role in the decision between
           lysogenic and lytic cycle growth during lambda phage
           infection..
          Length = 242

 Score = 78.6 bits (194), Expect = 2e-15
 Identities = 56/234 (23%), Positives = 100/234 (42%), Gaps = 20/234 (8%)

Query: 69  IYIVHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQVEIVKVIERQQKIGGRSASVGSNS 128
           ++IV   E+AV LRFG+    V  PGLH     I QV+     +R   +      V    
Sbjct: 1   LFIVDEGEQAVVLRFGEVVRVVTEPGLHFKLPFIQQVKKFD--KRILTLDSDPQRV---- 54

Query: 129 GLILTGDQNIVGLHFSVLYVVTDPRLYLFNLEN----PGETLKQVSESAMREVVGRRFAV 184
              LT D+  + +     + +TDP  +   +          L Q+  SA+R   G+R  +
Sbjct: 55  ---LTKDKKRLIVDAYAKWRITDPLRFYQAVGGEERAAETRLDQIVNSALRAEFGKRTLI 111

Query: 185 DIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAE--QD 242
           ++   +R ++  E+R  + +       GI +  + I+    P EV+++     RAE  + 
Sbjct: 112 ELVSGERGELMEEIRRAVAEEAKEL--GIEVVDVRIKRIDLPEEVSESVYRRMRAERERI 169

Query: 243 EDRFVEESNKYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGEADRFLSIYGQ 296
              F  E  + + R+   A  E + I   + AY++      +G+A+    IY +
Sbjct: 170 AAEFRAEGEEEAERIRADADRERTVIL--AEAYREAQEIRGEGDAEA-ARIYAE 220


>gnl|CDD|48215 cd03403, Band_7_stomatin_like, Band_7_stomatin_like: A subgroup of
           the band 7 domain of flotillin (reggie) like proteins
           similar to stomatin and podicin (two lipid
           raft-associated integral membrane proteins). Individual
           proteins of this band 7 domain family may cluster to
           form membrane microdomains which may in turn recruit
           multiprotein complexes. Stomatin is widely expressed
           and, highly expressed in red blood cells. It localizes
           predominantly to the plasma membrane and to
           intracellular vesicles of the endocytic pathway, where
           it is present in higher order homo-oligomeric complexes
           (of between 9 and 12 monomers).  Stomatin interacts with
           and regulates members of the degenerin/epithelia Na+
           channel family in mechanosensory cells of Caenorhabditis
           elegans and vertebrate neurons and, is implicated in
           trafficking of Glut1 glucose transporters. Prohibitin is
           a mitochondrial inner-membrane protein hypothesized to
           act as a chaperone for the stabilization of
           mitochondrial proteins. Podicin localizes to the plasma
           membrane of podocyte foot processes and, is found in
           higher order oligomers. Podocin plays a role in
           regulating glomerular permeability.  Mutations in the
           podicin gene give rise to autosomal recessive steroid
           resistant nephritic syndrome.  This group also contains
           proteins similar to three Caenorhabditis elegans
           proteins: UNC-1, UNC-24 and, MEC-2.  Mutations in the
           unc-1 and unc-24 genes result in abnormal motion and
           altered patterns of sensitivity to volatile anesthetics.
           MEC-2 and UNC-24 proteins interact with MEC-4 which is
           part of the degenerin channel complex required for
           response to gentle body touch..
          Length = 215

 Score = 76.3 bits (188), Expect = 1e-14
 Identities = 60/254 (23%), Positives = 109/254 (42%), Gaps = 43/254 (16%)

Query: 72  VHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQVEIVKVIERQQKIGGRSASVGSNSGLI 131
           V   ER V  R GK       PGLH    P       KV  R+Q +      V      +
Sbjct: 1   VPQYERGVVERLGKYHR-TLGPGLHF-IIPFIDRIAYKVDLREQVL-----DVPPQE--V 51

Query: 132 LTGDQNIVGLHFSVLYVVTDPRLYLFNLENPGETLKQVSESAMREVVGRRFAVDIFRSQR 191
           +T D   V +   + Y V DP   ++ +E+    + Q++++ +R V+G+    ++  S+R
Sbjct: 52  ITKDNVTVRVDAVLYYRVVDPVKAVYGVEDYRYAISQLAQTTLRSVIGKMELDELL-SER 110

Query: 192 QQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAEQDEDRFVEESN 251
           ++I  E+  ++ +  D +  G+ +  + I+D   P+E+ +A  +   AE+++   + E  
Sbjct: 111 EEINAELVEILDEATDPW--GVKVERVEIKDIILPQEIQEAMAKQAEAEREKRAKIIE-- 166

Query: 252 KYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGEADRFLSIYGQYVNAPTLLRKRIYLE 311
                    A GE    R+++I         A+           Q    P  L+ R  LE
Sbjct: 167 ---------AEGE----RQAAIL-------LAEAAK--------QAAINPAALQLR-ELE 197

Query: 312 TMEGILKKAKKVII 325
           T+E I K+A   ++
Sbjct: 198 TLEEIAKEAASTVV 211


>gnl|CDD|48210 cd02106, Band_7, The band 7 domain of flotillin (reggie) like
           proteins. This group contains proteins similar to
           stomatin, prohibitin, flotillin, HlfK/C and podicin.
           Many of these band 7 domain-containing proteins are
           lipid raft-associated.  Individual proteins of this band
           7 domain family may cluster to form membrane
           microdomains which may in turn recruit multiprotein
           complexes. Microdomains formed from flotillin proteins
           may in addition be dynamic units with their own
           regulatory functions.  Flotillins have been implicated
           in signal transduction, vesicle trafficking,
           cytoskeleton rearrangement and are known to interact
           with a variety of proteins.  Stomatin interacts with and
           regulates members of the degenerin/epithelia Na+ channel
           family in mechanosensory cells of Caenorhabditis elegans
           and vertebrate neurons and participates in trafficking
           of Glut1 glucose transporters. Prohibitin may act as a
           chaperone for the stabilization of mitochondrial
           proteins.  Prokaryotic HflK/C plays a role in the
           decision between lysogenic and lytic cycle growth during
           lambda phage infection. Flotillins have been implicated
           in the progression of prion disease, in the pathogenesis
           of neurodegenerative diseases such as Parkinson's and
           Alzheimer's disease and, in cancer invasion and
           metastasis. Mutations in the podicin gene give rise to
           autosomal recessive steroid resistant nephritic
           syndrome.
          Length = 121

 Score = 75.4 bits (185), Expect = 2e-14
 Identities = 42/124 (33%), Positives = 68/124 (54%), Gaps = 5/124 (4%)

Query: 116 KIGGRSASVGSNSGLILTGDQNIVGLHFSVLYVVTDPRLYLFNLENPG--ETLKQVSESA 173
           +I  R  ++      +LT D   V +   V Y V DP   L+N+ +P   E L+Q+++SA
Sbjct: 1   RIDLRRQTLDVPPQEVLTKDNVPVRVDAVVQYRVVDPVKALYNVRDPEDEEALRQLAQSA 60

Query: 174 MREVVGRRFAVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAF 233
           +R V+G+   +D     R +IA EVR  +Q+ +D Y  GI +  + I+D  PP EV +A 
Sbjct: 61  LRSVIGKM-TLDELLEDRDEIAAEVREALQEDLDKY--GIEVVDVRIKDIDPPEEVQEAM 117

Query: 234 DEVQ 237
           ++ Q
Sbjct: 118 EDRQ 121


>gnl|CDD|37831 KOG2620, KOG2620, KOG2620, Prohibitins and stomatins of the PID
           superfamily [Energy production and conversion].
          Length = 301

 Score = 68.5 bits (167), Expect = 2e-12
 Identities = 57/226 (25%), Positives = 90/226 (39%), Gaps = 16/226 (7%)

Query: 69  IYIVHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQ-VEIVKVIERQQKIGGRSASVGSN 127
           I  V   E AV  RFGK  + +  PGLH +   ID+   +  + E       + A     
Sbjct: 9   IRFVPQQEAAVVERFGK-FHRILEPGLHFLPPVIDKIAYVHSLKEIAILDPKQEA----- 62

Query: 128 SGLILTGDQNIVGLHFSVLYVVTDPRLYL--FNLENPGETLKQVSESAMREVVGRRFAVD 185
               +T D   V +   + Y V DP      + +ENP   ++Q++++ MR  VG+     
Sbjct: 63  ----ITKDNVFVQIDGVLYYRVVDPYADDASYGVENPEYAIQQLAQTTMRSEVGKLTLDK 118

Query: 186 IFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAEQDEDR 245
           +F  +R  +   +   I K M+ +  G       I D  PP  V  A +    AE+ +  
Sbjct: 119 VFE-ERNSLNKSIVEAINKAMEAW--GYECLRYEIRDIEPPPSVKRAMNMQNEAERMKRA 175

Query: 246 FVEESNKYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGEADRFL 291
            + ES       +  A GE      +S     +    A GEA+  L
Sbjct: 176 AILESEGERIAQINRAEGEKESKILASEGIARQRQNIADGEAEAIL 221


>gnl|CDD|48213 cd03401, Band_7_prohibitin, Band_7_prohibitin. A subgroup of the
           band 7 domain of flotillin (reggie) like proteins. This
           subgroup group includes proteins similar to prohibitin
           (a lipid raft-associated integral membrane protein).
           Individual proteins of this band 7 domain family may
           cluster to form membrane microdomains which may in turn
           recruit multiprotein complexes. These microdomains in
           addition to being stable scaffolds may also be also
           dynamic units with their own regulatory functions.
           Prohibitin is a mitochondrial inner-membrane protein
           which may act as a chaperone for the stabilization of
           mitochondrial proteins.  Human prohibitin forms a
           heter-oligomeric complex with Bap-37 (prohibitin 2, a
           band 7 domain carrying homologue). This complex may
           protect non-assembled membrane proteins against
           proteolysis by the m-AAA protease. Prohibitin and Bap-37
           yeast homologues have been implicated in yeast longevity
           and, in the maintenance of mitochondrial morphology..
          Length = 196

 Score = 55.2 bits (133), Expect = 3e-08
 Identities = 51/206 (24%), Positives = 92/206 (44%), Gaps = 21/206 (10%)

Query: 68  SIYIVHPDERAVEL-RFGKPKNDVFLPGLHMMFWPIDQVEIVKVIERQQKIGGRSASVGS 126
           S+Y V    RAV   R G  K+ V+  GLH       +  I  V  R + I    ++ GS
Sbjct: 1   SLYNVDGGHRAVLFNRGGGVKDLVYGEGLHFRIPWFQKPIIFDVRARPRNI---ESTTGS 57

Query: 127 NSGLILTGDQNIVGLHFSVLY---VVTDPRLYLFNLENPGET-LKQVSESAMREVVGRRF 182
                   D  +V +   VL+       PR+Y    E+  E  L  +    ++ VV +  
Sbjct: 58  K-------DLQMVNITLRVLFRPDASQLPRIYQNLGEDYDERVLPSIINEVLKAVVAQFT 110

Query: 183 AVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAEQD 242
           A ++  +QR++++  +R  + +    +  GI+++ +SI   +  +E   A +  Q A+Q+
Sbjct: 111 AEELI-TQREEVSALIREALTERAKDF--GIILDDVSITHLTFSKEFTKAVEAKQVAQQE 167

Query: 243 EDR---FVEESNKYSNRVLGSARGEA 265
            +R    VE++ +     +  A GEA
Sbjct: 168 AERAKFVVEKAEQEKQAAVIRAEGEA 193


>gnl|CDD|37832 KOG2621, KOG2621, KOG2621, Prohibitins and stomatins of the PID
           superfamily [Energy production and conversion].
          Length = 288

 Score = 51.8 bits (124), Expect = 3e-07
 Identities = 39/192 (20%), Positives = 84/192 (43%), Gaps = 13/192 (6%)

Query: 54  YIILLLIGSFCAFQSIYIVHPDERAVELRFGK-PKNDVFLPGLHMMFWPIDQVEIVKVIE 112
           ++++L+      +  + IV   ERAV  R G+        PGL           ++  I+
Sbjct: 40  FLLVLMTFPISIWFCLKIVQEYERAVIFRLGRLRTGGARGPGL---------FFLLPCID 90

Query: 113 RQQKIGGRSASVGSNSGLILTGDQNIVGLHFSVLYVVTDPRLYLFNLENPGETLKQVSES 172
             +K+  R+ S       ILT D   + +   V Y ++DP + + N+ +     + ++++
Sbjct: 91  TFRKVDLRTQSFNVPPQEILTKDSVTISVDAVVYYRISDPIIAVNNVGDADNATRLLAQT 150

Query: 173 AMREVVGRRFAVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADA 232
            +R  +G +   +I  S R+ IA E +  + +  + +  G+ +  + I+D   P ++  A
Sbjct: 151 TLRNYLGTKTLSEIL-SSREVIAQEAQKALDEATEPW--GVKVERVEIKDVRLPAQLQRA 207

Query: 233 FDEVQRAEQDED 244
                 A ++  
Sbjct: 208 MAAEAEATREAR 219


>gnl|CDD|38300 KOG3090, KOG3090, KOG3090, Prohibitin-like protein
           [Posttranslational modification, protein turnover,
           chaperones].
          Length = 290

 Score = 49.6 bits (118), Expect = 1e-06
 Identities = 53/220 (24%), Positives = 98/220 (44%), Gaps = 23/220 (10%)

Query: 55  IILLLIGSFCAFQSIYIVHPDERAVEL-RFGKPKNDVFLPGLHMMFWPIDQVEIVKVIER 113
           +++  +G++   QS+Y V    RA+   R G  K+D++  G H      ++  I  V  R
Sbjct: 24  LLIGGLGAYGVTQSLYNVDGGHRAIVFNRIGGIKDDIYPEGTHFRIPWFERPIIYDVRAR 83

Query: 114 QQKIGGRSASVGSNSGLILTGDQNIVGLHFSVLY---VVTDPRLYLFNLENPGE-TLKQV 169
            + I   S+  GS        D  +V +   VL        P +Y    +N  E  L  +
Sbjct: 84  PRLI---SSPTGSK-------DLQMVNIGLRVLSRPMADQLPEIYRTLGQNYDERVLPSI 133

Query: 170 SESAMREVVGRRFAVDIFRSQRQQIALEVR-NLIQKTMDYYKSGILINTISIEDASPPRE 228
               ++ VV +  A  +  +QR+Q++  +R  L ++  D+    I ++ +SI + +  +E
Sbjct: 134 INEVLKAVVAQFNASQLI-TQREQVSRLIRKILTERAADF---NIALDDVSITELTFGKE 189

Query: 229 VADAFDEVQRAEQDEDR---FVEESNKYSNRVLGSARGEA 265
              A +  Q A Q+  R    VE++ +     +  A+GEA
Sbjct: 190 FTAAIEAKQVAAQEAQRAKFIVEKAEQEKQSAIVRAQGEA 229


>gnl|CDD|33399 COG3599, DivIVA, Cell division initiation protein [Cell division
           and chromosome partitioning].
          Length = 212

 Score = 37.3 bits (86), Expect = 0.006
 Identities = 17/109 (15%), Positives = 37/109 (33%), Gaps = 3/109 (2%)

Query: 184 VDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAEQDE 243
           +D       +I      L +         I       E+     E A+A D ++RA    
Sbjct: 43  LDENEDLEDEIDELKEELKEAADAEDSQAIQQAETEAEELKQAAE-AEADDILKRASAQA 101

Query: 244 DRFVEESNKYSNRVLGSARG--EASHIRESSIAYKDRIIQEAQGEADRF 290
            R   ++   ++R L  A+   E   ++  +   + R+  + + +    
Sbjct: 102 QRVFGKAQYKADRYLEDAKIAQELEDLKRQAQVERQRLRSDIEAQLASA 150



 Score = 27.7 bits (61), Expect = 5.2
 Identities = 13/56 (23%), Positives = 31/56 (55%)

Query: 237 QRAEQDEDRFVEESNKYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGEADRFLS 292
           + A+ ++ + ++++   +  +  +A  EA  I + + A   R+  +AQ +ADR+L 
Sbjct: 62  EAADAEDSQAIQQAETEAEELKQAAEAEADDILKRASAQAQRVFGKAQYKADRYLE 117


>gnl|CDD|48214 cd03402, Band_7_2, A subgroup of the band 7 domain of flotillin
           (reggie) like proteins. This subgroup contains proteins
           similar to stomatin, prohibitin, flotillin, HlfK/C and
           podicin.  Many of these band 7 domain-containing
           proteins are lipid raft-associated.  Individual proteins
           of this band 7 domain family may cluster to form
           membrane microdomains which may in turn recruit
           multiprotein complexes.  Microdomains formed from
           flotillin proteins may in addition be dynamic units with
           their own regulatory functions.  Flotillins have been
           implicated in signal transduction, vesicle trafficking,
           cytoskeleton rearrangement and are known to interact
           with a variety of proteins.  Stomatin interacts with and
           regulates members of the degenerin/epithelia Na+ channel
           family in mechanosensory cells of Caenorhabditis elegans
           and vertebrate neurons and participates in trafficking
           of Glut1 glucose transporters. Prohibitin may act as a
           chaperone for the stabilization of mitochondrial
           proteins.  Prokaryotic HflK/C plays a role in the
           decision between lysogenic and lytic cycle growth during
           lambda phage infection. Flotillins have been implicated
           in the progression of prion disease, in the pathogenesis
           of neurodegenerative diseases such as Parkinson's and
           Alzheimer's disease and, in cancer invasion and
           metastasis. Mutations in the podicin gene give rise to
           autosomal recessive steroid resistant nephritic
           syndrome..
          Length = 219

 Score = 31.4 bits (71), Expect = 0.37
 Identities = 24/115 (20%), Positives = 48/115 (41%), Gaps = 14/115 (12%)

Query: 68  SIYIVHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQVEIVKVIERQQKIGGRSASVGSN 127
            +++V P++  V + FG+    +   GL     P            ++++  R  +    
Sbjct: 1   GLFVVEPNQARVLVLFGRYIGTIRRTGL-RWVNPF---------SSKKRVSLRVRNF--E 48

Query: 128 SGLILTGDQNIVGLHFSVLYV--VTDPRLYLFNLENPGETLKQVSESAMREVVGR 180
           S  +   D N   +  + + V  V D    +FN+++  E +   SESA+R V  +
Sbjct: 49  SEKLKVNDANGNPIEIAAVIVWRVVDTAKAVFNVDDYEEFVHIQSESALRHVASQ 103


>gnl|CDD|38173 KOG2962, KOG2962, KOG2962, Prohibitin-related membrane protease
           subunits [General function prediction only].
          Length = 322

 Score = 31.2 bits (70), Expect = 0.42
 Identities = 34/194 (17%), Positives = 78/194 (40%), Gaps = 22/194 (11%)

Query: 54  YIILLLIGSFCAF--QSIYIVHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQVEIVKVI 111
           +++   I    AF   +++ +      V  R G     +  PG H+M   I   + V+V 
Sbjct: 6   FLVAAAIALLVAFLSSAVHKIEEGHVGVYYRGGALLTSITGPGFHLMLPFITTYKSVQVT 65

Query: 112 ERQQKIGGRSASVGSNSGLILTGDQNIVGLHFSVLYVVTDP-RLYLFNLENP-------G 163
            +  ++  ++   G++ G+++  D+ I  ++F     V D  + Y  + +          
Sbjct: 66  LQTDEV--KNVPCGTSGGVLIYFDR-IEVVNFLRPDAVYDIVKNYTVDYDKTLIFNKIHH 122

Query: 164 ETLKQVSESAMREVVGRRFAVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDA 223
           E  +  S   ++EV      +D+F     QI   +++ +Q  +     G+ I  + +   
Sbjct: 123 ELNQFCSVHTLQEVY-----IDLF----DQIDENLKDALQADLTRMAPGLEIQAVRVTKP 173

Query: 224 SPPREVADAFDEVQ 237
             P  +   F+ ++
Sbjct: 174 KIPEAIRRNFELME 187


>gnl|CDD|48212 cd03400, Band_7_1, A subgroup of the band 7 domain of flotillin
           (reggie) like proteins. This subgroup contains proteins
           similar to stomatin, prohibitin, flotillin, HlfK/C and
           podicin.  Many of these band 7 domain-containing
           proteins are lipid raft-associated.  Individual proteins
           of this band 7 domain family may cluster to form
           membrane microdomains which may in turn recruit
           multiprotein complexes.  Microdomains formed from
           flotillin proteins may in addition be dynamic units with
           their own regulatory functions.  Flotillins have been
           implicated in signal transduction, vesicle trafficking,
           cytoskeleton rearrangement and are known to interact
           with a variety of proteins.  Stomatin interacts with and
           regulates members of the degenerin/epithelia Na+ channel
           family in mechanosensory cells of Caenorhabditis elegans
           and vertebrate neurons and participates in trafficking
           of Glut1 glucose transporters. Prohibitin may act as a
           chaperone for the stabilization of mitochondrial
           proteins.  Prokaryotic HflK/C plays a role in the
           decision between lysogenic and lytic cycle growth during
           lambda phage infection. Flotillins have been implicated
           in the progression of prion disease, in the pathogenesis
           of neurodegenerative diseases such as Parkinson's and
           Alzheimer's disease and, in cancer invasion and
           metastasis. Mutations in the podicin gene give rise to
           autosomal recessive steroid resistant nephritic
           syndrome..
          Length = 124

 Score = 30.3 bits (68), Expect = 0.81
 Identities = 15/63 (23%), Positives = 34/63 (53%), Gaps = 2/63 (3%)

Query: 172 SAMREVVGRRFAVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVAD 231
           S +REV GR  A  I+ ++R++I   ++  + +       G+++  + + +   P ++AD
Sbjct: 61  SLVREVTGRYTAEQIYSTKRKEIESAIKKELIEEFV--GDGLILEEVLLRNIKLPDQIAD 118

Query: 232 AFD 234
           A +
Sbjct: 119 AIE 121


>gnl|CDD|31055 COG0711, AtpF, F0F1-type ATP synthase, subunit b [Energy production
           and conversion].
          Length = 161

 Score = 29.8 bits (67), Expect = 1.2
 Identities = 17/65 (26%), Positives = 32/65 (49%), Gaps = 4/65 (6%)

Query: 227 REVADAFDEVQRAEQDEDRFVEESNKYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGE 286
            ++AD   E +R +++    + E  +     L  AR +AS I E +    ++I +E + E
Sbjct: 40  AKIADDLAEAERLKEEAQALLAEYEQ----ELEEAREQASEIIEQAKKEAEQIAEEIKAE 95

Query: 287 ADRFL 291
           A+  L
Sbjct: 96  AEEEL 100


>gnl|CDD|144982 pfam01593, Amino_oxidase, Flavin containing amine oxidoreductase.
           This family consists of various amine oxidases,
           including maze polyamine oxidase (PAO) and various
           flavin containing monoamine oxidases (MAO). The aligned
           region includes the flavin binding site of these
           enzymes. The family also contains phytoene
           dehydrogenases and related enzymes. In vertebrates MAO
           plays an important role regulating the intracellular
           levels of amines via there oxidation; these include
           various neurotransmitters, neurotoxins and trace amines.
           In lower eukaryotes such as aspergillus and in bacteria
           the main role of amine oxidases is to provide a source
           of ammonium. PAOs in plants, bacteria and protozoa
           oxidase spermidine and spermine to an aminobutyral,
           diaminopropane and hydrogen peroxide and are involved in
           the catabolism of polyamines. Other members of this
           family include tryptophan 2-monooxygenase, putrescine
           oxidase, corticosteroid binding proteins and
           antibacterial glycoproteins.
          Length = 444

 Score = 29.8 bits (67), Expect = 1.2
 Identities = 35/244 (14%), Positives = 72/244 (29%), Gaps = 32/244 (13%)

Query: 108 VKVIERQQKIGGRSASVGSNSGLILTGDQNIVG----LHFSVLYVVTDPRL--------- 154
           V V+E + ++GGR  +V  +  LI  G Q   G    L   +L +  +  L         
Sbjct: 17  VTVLEARDRVGGRIRTVRFDGFLIELGAQWFHGAYPNLLNLLLELGLELGLLLFPFPGDD 76

Query: 155 -------------YLFNLENPGETLKQVSESAMREVVGRRFAVDIFRSQRQQIALEVRNL 201
                           +L  P   L +        +        +       +A E+  L
Sbjct: 77  FVRLKYRGGPYPDVPGDLPPPLFLLLRSLLDLELSLEEPIRRALLLLVALLLLAPELLEL 136

Query: 202 IQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAEQDEDRFVEESNKYSNRVLGSA 261
              +     S      + +         A  F  ++ + +     +   +      +   
Sbjct: 137 DLLSFSDLLSAAGFLELFLLLFRSLLAGALGFLPLELSARLALLSLRLFDLEDGGSVFPG 196

Query: 262 RGEASHIRESSIAYKDRIIQEAQGEADRFLSIYGQYVNAPTLLRKRIYLETMEGILKKAK 321
            G         +    ++I  A G     +      V + T     + + T++G + +A 
Sbjct: 197 GGF-----TLPLGGLPQLIAAALGLLGGRVR-LNTRVRSITKEGDGVTVTTVDGEVIEAD 250

Query: 322 KVII 325
            VI+
Sbjct: 251 AVIV 254


>gnl|CDD|30364 COG0014, ProA, Gamma-glutamyl phosphate reductase [Amino acid
           transport and metabolism].
          Length = 417

 Score = 29.4 bits (66), Expect = 1.6
 Identities = 20/80 (25%), Positives = 32/80 (40%), Gaps = 6/80 (7%)

Query: 228 EVADAFDEVQRAEQDEDRFVEESNKY--SNRVLGSARGEASHIRESSIAYKDRIIQEAQG 285
           E      +  +   +ED +  E      + +V+ S     +HI      + D II E   
Sbjct: 292 EALALLPDAVKPATEED-WDTEYLDLILAVKVVDSLDEAIAHINTYGSGHSDAIITEDYA 350

Query: 286 EADRFLSIY---GQYVNAPT 302
            A+RF++       YVNA T
Sbjct: 351 NAERFVNEVDSAAVYVNAST 370


>gnl|CDD|37351 KOG2140, KOG2140, KOG2140, Uncharacterized conserved protein
           [General function prediction only].
          Length = 739

 Score = 29.2 bits (65), Expect = 1.9
 Identities = 27/149 (18%), Positives = 54/149 (36%), Gaps = 16/149 (10%)

Query: 171 ESAMREVVGRRFAVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVA 230
           +  ++ ++   F +   + +     LE  +L+++           +++S+ED   P +  
Sbjct: 331 DRRVQYMIETLFQIRKDKFKSHPAVLEELDLVEEEDQI------THSLSLEDEDDPEKEL 384

Query: 231 DAFDEVQRAEQDEDRFVEESNKYS---NRVLGSARGEASHIRESSIAYKDRIIQEAQGEA 287
             F      ++D + F E   KY      +LG+   E     + S    D    E+  E 
Sbjct: 385 GVF------KKDPN-FEENEEKYDAIKKEILGNEDSENEDDEDGSSEDDDEEEDESVEED 437

Query: 288 DRFLSIYGQYVNAPTLLRKRIYLETMEGI 316
           +  L I           R+ IYL     +
Sbjct: 438 EEKLQIIDMTETNLVNFRRTIYLTIQSSL 466


>gnl|CDD|79360 cd01031, EriC, ClC chloride channel EriC.  This domain is found in
           the EriC chloride transporters that mediate the extreme
           acid resistance response in eubacteria and archaea. This
           response allows bacteria to survive in the acidic
           environments by decarboxylation-linked proton
           utilization. As shown for Escherichia coli EriC, these
           channels can counterbalance the electric current
           produced by the outwardly directed virtual proton pump
           linked to amino acid decarboxylation.  The EriC proteins
           belong to the ClC superfamily of chloride ion channels,
           which share a unique double-barreled architecture and
           voltage-dependent gating mechanism.  The
           voltage-dependent gating is conferred by the permeating
           anion itself, acting as the gating charge. In
           Escherichia coli EriC, a glutamate residue that
           protrudes into the pore is thought to participate in
           gating by binding to a Cl- ion site within the
           selectivity filter..
          Length = 402

 Score = 28.9 bits (65), Expect = 2.1
 Identities = 15/70 (21%), Positives = 28/70 (40%), Gaps = 3/70 (4%)

Query: 42  DLIPFFKSYGSVYIILLLIGSFCAFQSIYIVHPDERAVELRFGKPKNDVFLPGLHMMFWP 101
            L  F  +   + ++L LI +     + ++V       +   G P+ +  L GL    W 
Sbjct: 25  SLYDFAANNPPLLLVLPLISAVLGLLAGWLVKKFAPEAK-GSGIPQVEGVLAGLLPPNWW 83

Query: 102 IDQVEIVKVI 111
             +V  VK +
Sbjct: 84  --RVLPVKFV 91


>gnl|CDD|36181 KOG0963, KOG0963, KOG0963, Transcription factor/CCAAT displacement
           protein CDP1 [Transcription].
          Length = 629

 Score = 28.8 bits (64), Expect = 2.6
 Identities = 17/111 (15%), Positives = 44/111 (39%), Gaps = 3/111 (2%)

Query: 239 AEQDEDRFVEESNKYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGEADRFLSIYGQYV 298
           +E    R  EE+ ++            + + +S  +  D + + ++     FL +Y + +
Sbjct: 38  SEISRKRLAEETREFKKNTPEDKLKMVNPLLKSYQSEIDNLTKRSKFAEAAFLDVYEKLI 97

Query: 299 NAPTLLRKRIYLETMEGILKKAKKVIIDKKQSVMPYLPLNEAFSRIQTKRE 349
            AP        L +   +L K +K   + ++       +N   + ++T++ 
Sbjct: 98  EAPD---PVPLLASAAELLNKQQKASEENEELKEELEEVNNELADLKTQQV 145


>gnl|CDD|73396 cd04734, OYE_like_3_FMN, Old yellow enzyme (OYE)-related FMN
           binding domain, group 3. Each monomer of OYE contains
           FMN as a non-covalently bound cofactor, uses NADPH as a
           reducing agent with oxygens, quinones, and
           alpha,beta-unsaturated aldehydes and ketones, and can
           act as electron acceptors in the catalytic reaction.
           Other members of OYE family include trimethylamine
           dehydrogenase, 2,4-dienoyl-CoA reductase, enoate
           reductase, pentaerythriol tetranitrate reductase,
           xenobiotic reductase, and morphinone reductase. One
           member of this subgroup, the Sinorhizobium meliloti
           stachydrine utilization protein stcD, has been idenified
           as a putative N-methylproline demethylase..
          Length = 343

 Score = 28.2 bits (63), Expect = 3.1
 Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 2/47 (4%)

Query: 14  RLSGSNGNGDGLPPFDVEAIIRYIKDKFDLIPFFK-SYGSVYIILLL 59
           R+SG      GL P +   I   +  +  LI +   S GS Y +L L
Sbjct: 214 RISGDEDTEGGLSPDEALEIAARLAAE-GLIDYVNVSAGSYYTLLGL 259


>gnl|CDD|143806 pfam00015, MCPsignal, Methyl-accepting chemotaxis protein (MCP)
           signaling domain.  This domain is thought to transduce
           the signal to CheA since it is highly conserved in very
           diverse MCPs.
          Length = 213

 Score = 28.2 bits (63), Expect = 3.3
 Identities = 23/128 (17%), Positives = 45/128 (35%), Gaps = 41/128 (32%)

Query: 179 GRRFAVDIFRSQRQQIALEVRNLIQKTMDYYK--SGILINTIS-IEDASPPR-------- 227
           GR FAV         +A EVR L +++    K    ++   +    D++           
Sbjct: 74  GRGFAV---------VADEVRKLAERSAQAAKEIEALIEEIVKQTNDSTASIQQTRTEVE 124

Query: 228 ---------------------EVADAFDEVQRAEQDEDRFVEESNKYSNRVLGSARGEAS 266
                                E+AD   E+  A  ++   +++ N+   R+    +  A+
Sbjct: 125 VGSTIVESTGEALKEIVDAVAEIADIVQEIAAASDEQSAGIDQVNQAVARIDQVTQQNAA 184

Query: 267 HIRESSIA 274
            + ES+ A
Sbjct: 185 LVEESAAA 192


>gnl|CDD|36306 KOG1090, KOG1090, KOG1090, Predicted dual-specificity phosphatase
           [General function prediction only].
          Length = 1732

 Score = 27.8 bits (61), Expect = 4.9
 Identities = 15/78 (19%), Positives = 30/78 (38%), Gaps = 10/78 (12%)

Query: 181 RFAVDIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAE 240
            F    F   R+   +   ++++         +   T  +E    PR   D FDE+    
Sbjct: 366 TFHKAAFLGFRKLTEMMFLSVLK--------SMYFQTFVLERG-LPRRKHDLFDELS-CF 415

Query: 241 QDEDRFVEESNKYSNRVL 258
           ++ D+ + + N  S+  L
Sbjct: 416 KELDQLIFKQNSTSSESL 433


>gnl|CDD|36380 KOG1165, KOG1165, KOG1165, Casein kinase (serine/threonine/tyrosine
           protein kinase) [Signal transduction mechanisms].
          Length = 449

 Score = 26.9 bits (59), Expect = 8.6
 Identities = 11/30 (36%), Positives = 15/30 (50%)

Query: 116 KIGGRSASVGSNSGLILTGDQNIVGLHFSV 145
           K  GRSA    +SG   +    +VG H+ V
Sbjct: 3   KPSGRSAHSARSSGSSSSSGVLMVGPHYRV 32


>gnl|CDD|58155 cd03680, MM_CoA_mutase_ICM_like, Coenzyme
           B12-dependent-methylmalonyl coenzyme A (CoA) mutase
           (MCM) family, isobutyryl-CoA mutase (ICM)-like
           subfamily; contains archaeal and bacterial proteins
           similar to the large subunit of Streptomyces
           cinnamonensis coenzyme B12-dependent ICM. ICM from S.
           cinnamonensis is comprised of a large and a small
           subunit. The holoenzyme appears to be an alpha2beta2
           heterotetramer with up to 2 molecules of coenzyme B12
           bound. The small subunit binds coenzyme B12. ICM
           catalyzes the reversible rearrangement of n-butyryl-CoA
           to isobutyryl-CoA, intermediates in fatty acid and
           valine catabolism, which in S. cinnamonensis can be
           converted to methylmalonyl-CoA and used in polyketide
           synthesis..
          Length = 538

 Score = 26.7 bits (59), Expect = 9.5
 Identities = 13/34 (38%), Positives = 19/34 (55%)

Query: 220 IEDASPPREVADAFDEVQRAEQDEDRFVEESNKY 253
           IED    RE+ADA  + Q+  +  +R V   NK+
Sbjct: 425 IEDGYFQREIADAAYKYQKEIESGERIVVGVNKF 458


>gnl|CDD|99783 cd06186, NOX_Duox_like_FAD_NADP, NADPH oxidase (NOX) catalyzes
          the generation of reactive oxygen species (ROS) such as
          superoxide and hydrogen peroxide. ROS were originally
          identified as bactericidal agents in phagocytes, but
          are now also implicated in cell signaling and
          metabolism. NOX has a 6-alpha helix heme-binding
          transmembrane domain fused to a flavoprotein with the
          nucleotide binding domain located in the cytoplasm.
          Duox enzymes link a peroxidase domain to the NOX domain
          via a single  transmembrane and EF-hand Ca2+ binding
          sites. The flavoprotein module has a ferredoxin like
          FAD/NADPH binding domain. In classical phagocytic NOX2,
          electron transfer occurs from NADPH to FAD to the heme
          of cytb to oxygen leading to superoxide formation..
          Length = 210

 Score = 26.9 bits (60), Expect = 9.7
 Identities = 9/27 (33%), Positives = 13/27 (48%)

Query: 71 IVHPDERAVELRFGKPKNDVFLPGLHM 97
           + PD   + L   KPK   + PG H+
Sbjct: 5  ELLPDSDVIRLTIPKPKPFKWKPGQHV 31


>gnl|CDD|36519 KOG1305, KOG1305, KOG1305, Amino acid transporter protein [Amino
          acid transport and metabolism].
          Length = 411

 Score = 26.7 bits (59), Expect = 9.7
 Identities = 9/31 (29%), Positives = 22/31 (70%), Gaps = 2/31 (6%)

Query: 44 IPF-FKSYGSVY-IILLLIGSFCAFQSIYIV 72
          +P+ FK+ G +  I+L+++ +F +  S+Y++
Sbjct: 27 MPYAFKTAGLLLGILLIVLSAFLSLLSLYLL 57


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.320    0.138    0.394 

Gapped
Lambda     K      H
   0.267   0.0633    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,325,291
Number of extensions: 231957
Number of successful extensions: 618
Number of sequences better than 10.0: 1
Number of HSP's gapped: 599
Number of HSP's successfully gapped: 38
Length of query: 355
Length of database: 6,263,737
Length adjustment: 95
Effective length of query: 260
Effective length of database: 4,210,882
Effective search space: 1094829320
Effective search space used: 1094829320
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.3 bits)