RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

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

Query= psy1802
         (325 letters)



>gnl|CDD|217378 pfam03124, EXS, EXS family.  We have named this region the EXS
           family after (ERD1, XPR1, and SYG1). This family
           includes C-terminus portions from the SYG1 G-protein
           associated signal transduction protein from
           Saccharomyces cerevisiae, and sequences that are thought
           to be murine leukaemia virus (MLV) receptors (XPR1).
           N-terminus portions from these proteins are aligned in
           the SPX pfam03105 family. The previously noted
           similarity between SYG1 and MLV receptors over their
           whole sequences is thus borne out in pfam03105 and this
           family. While the N-termini aligned in pfam03105 are
           thought to be involved in signal transduction, the role
           of the C-terminus sequences aligned in this family is
           not known. This region of similarity contains several
           predicted transmembrane helices. This family also
           includes the ERD1 (ERD: ER retention defective) yeast
           proteins. ERD1 proteins are involved in the localisation
           of endogenous endoplasmic reticulum (ER) proteins. erd1
           null mutants secrete such proteins even though they
           possess the C-terminal HDEL ER lumen localisation label
           sequence. In addition, null mutants also exhibit defects
           in the Golgi-dependent processing of several
           glycoproteins, which led to the suggestion that the
           sorting of luminal ER proteins actually occurs in the
           Golgi, with subsequent return of these proteins to the
           ER via `salvage' vesicles.
          Length = 337

 Score =  299 bits (769), Expect = e-101
 Identities = 135/305 (44%), Positives = 187/305 (61%), Gaps = 16/305 (5%)

Query: 20  RLFRGPLLFIEFLFLIGINVYGWRSSGVNHVLIFELNPRNHLSEQHIMELAAMLGVVWTL 79
            L+RG  L I  L+L G+N+Y W+ SG+N+V IFE +PR  LS + ++ELA+   V+W L
Sbjct: 4   PLYRGFFLLILGLWLWGLNLYVWKRSGINYVFIFEFDPRTSLSHRELLELASFFTVLWLL 63

Query: 80  AVLGFLYSGTLGIPPY----TTPLVLILIMTVFLFNPTKTLYYEARFWTLKILTRVLMAP 135
           + L +L    L +         PLVL+LI+ + LF P    Y   RFW L+ L R+L+AP
Sbjct: 64  SFLLYLLLEHLELTKPASWVQVPLVLLLIVLLILFLPFNIFYRSGRFWLLRTLFRILLAP 123

Query: 136 LFHVNFADFWLADQLNSLVPAILDLQYLVCFYATDDSWMYFSTFPKDSSKCVDKVLYLRP 195
            + V F DF+LADQL SLV  + DL+Y VC+Y  +             + C    +Y+ P
Sbjct: 124 FYPVKFRDFFLADQLTSLVKVLADLEYTVCYYFNNGDS--------SDNTCGSSKVYVLP 175

Query: 196 VVACLPAWFRFAQCLRRYKDTKEKFPHLANAGKYATTFFVVIFSFLNIELTKRGHPSNMF 255
           +VACLP W RF QCLRRY+DT + FPHLANA KY+T   VV+ S     L ++ + S+ +
Sbjct: 176 IVACLPYWIRFLQCLRRYRDTGDAFPHLANALKYSTAIPVVVLST----LYRKYNTSDAY 231

Query: 256 FYLWILSSIISSCYSYMWDIRMDWGLFDDNTGEYTLLRDEIVYSSTTYYYVAIIEDFILR 315
             LWI+ SII+S YS+ WD++MDWGLF  N+ +   LRD+++Y     YY AI+ D ILR
Sbjct: 232 RILWIVFSIINSIYSFYWDVKMDWGLFQKNSSKNRFLRDKLLYPRKWVYYFAIVLDLILR 291

Query: 316 FGWAL 320
           F W L
Sbjct: 292 FAWLL 296


>gnl|CDD|227696 COG5409, COG5409, EXS domain-containing protein [Signal
           transduction mechanisms].
          Length = 384

 Score =  141 bits (357), Expect = 5e-39
 Identities = 86/318 (27%), Positives = 141/318 (44%), Gaps = 24/318 (7%)

Query: 10  QTRDDWRIGVRLFRGPLLFIEFLFLIGINVYGWRSSGVNHVLIFELNPRNHLSEQHIME- 68
                  I + L+ G +L     FL  ++ Y    + +N+  IF     +  +    ++ 
Sbjct: 28  PQSFIVLILLALWGGWILVFFLAFLFDVSCYILTRTPINYRFIFLFEQLSSTARNFNLDF 87

Query: 69  -LAAMLGVVWTLAVLGFL--YSGTLGIPPYTTPLVLILIMTVFLF--NPTKTLYYEARFW 123
               +    +T ++  FL    G   I  +   L L+ + TVF F   P + +YY +R +
Sbjct: 88  HRIIIPFHFFTTSLFIFLNAVEGLKFILLFVYFLPLLQVGTVFWFLLKPFQIIYYWSRRY 147

Query: 124 TLKILTRVLMAPLFHVNFADFWLADQLNSLVPAILDLQYLVCFYATDDSWMYFSTFPKDS 183
            ++ L RV +     V F DF+  D L SL  A+ D+    C Y+     + F      S
Sbjct: 148 LIESLIRVFLFGYSLVRFTDFFFGDILISLTYALGDIYIFFCVYS-----LLFREPLCKS 202

Query: 184 SKCVDKVLYLRPVVACLPAWFRFAQCLRRYKDTKEKFPHLANAGKYATTFFVVIFSFLNI 243
           S        L  + A LP   RF QCLRRY+D+  +FPHL NA KY+    V+   +L  
Sbjct: 203 SH-----SDLSGLAALLPVIVRFLQCLRRYRDSLHEFPHLLNALKYSLNIPVLFCLWL-Y 256

Query: 244 ELTKRGHPSNMFFYLWILSSIISSCYSYMWDIRMDWGLFDDNTGEYTLLRDEIVYSSTTY 303
            + +        F+L I  ++++S Y+  WD+ MDW L    +      R   +      
Sbjct: 257 RVYEGE---ERLFHLQIWFALLNSIYTSFWDVFMDWSLDSLTSLRSWSKRAVTLL----K 309

Query: 304 YYVAIIEDFILRFGWALL 321
           Y++A+I +F+LRF W + 
Sbjct: 310 YHIAMIINFLLRFSWIVY 327


>gnl|CDD|221099 pfam11377, DUF3180, Protein of unknown function (DUF3180).  Some
           members in this family of proteins are annotated as
           membrane proteins however this cannot be confirmed.
           Currently there is no known function.
          Length = 137

 Score = 28.7 bits (65), Expect = 2.3
 Identities = 14/37 (37%), Positives = 22/37 (59%), Gaps = 1/37 (2%)

Query: 69  LAAMLGVV-WTLAVLGFLYSGTLGIPPYTTPLVLILI 104
           LA +  V  W LA +   Y G+L I P+T P+ L+++
Sbjct: 4   LAVVGAVAGWLLASVLERYGGSLPILPWTAPVSLLVL 40


>gnl|CDD|177680 PLN00048, PLN00048, photosystem I light harvesting chlorophyll a/b
           binding protein 3; Provisional.
          Length = 262

 Score = 29.0 bits (65), Expect = 3.0
 Identities = 22/77 (28%), Positives = 30/77 (38%), Gaps = 10/77 (12%)

Query: 71  AMLGVVWTLA--VLGFLYSGTLGIPPYTTPLVLILIMTVFLFNPTKTLYYEARFWTLKIL 128
           AMLG    +A  +LG       G+ P  T L         +  P  T  Y A  +TL +L
Sbjct: 96  AMLGAAGAIAPEILG-----KAGLIPQETALPW---FQSGVIPPAGTYDYWADPYTLFVL 147

Query: 129 TRVLMAPLFHVNFADFW 145
              LM    H    D++
Sbjct: 148 EMALMGFAEHRRAQDYY 164


>gnl|CDD|223534 COG0458, CarB, Carbamoylphosphate synthase large subunit (split
           gene in MJ) [Amino acid transport and metabolism /
           Nucleotide transport and metabolism].
          Length = 400

 Score = 28.8 bits (65), Expect = 4.1
 Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 8/44 (18%)

Query: 44  SSGVNHVLIFELNPR--------NHLSEQHIMELAAMLGVVWTL 79
             G   + + E+NPR        +  +   I ++AA L V +TL
Sbjct: 275 DPGGGELYVIEINPRVSRSSALASKATGYPIAKVAAKLAVGYTL 318


>gnl|CDD|119297 pfam10777, YlaC, sigma70 family sigma factor YlaC.  Members of the
           sigma70 family of sigma factors are components of the
           RNA polymerase holoenzyme that direct bacterial or
           plastid core RNA polymerase to specific promoter
           elements. This domain is an inner membrane protein of
           unknown function.
          Length = 156

 Score = 27.0 bits (60), Expect = 9.4
 Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 2/49 (4%)

Query: 69  LAAMLGVVWTLAVLGFLYSGTLGIPPYTTPLVLILIMTVFLFNPTKTLY 117
           LA +   +  LAV+  L S   G+       VL ++M  FLF   K +Y
Sbjct: 40  LAMLASYLAVLAVM--LQSPYFGLGSVWAFTVLFIVMNAFLFFDIKPVY 86


  Database: CDD.v3.10
    Posted date:  Mar 20, 2013  7:55 AM
  Number of letters in database: 10,937,602
  Number of sequences in database:  44,354
  
Lambda     K      H
   0.331    0.145    0.477 

Gapped
Lambda     K      H
   0.267   0.0778    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,600,593
Number of extensions: 1744517
Number of successful extensions: 2313
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2299
Number of HSP's successfully gapped: 64
Length of query: 325
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 228
Effective length of database: 6,635,264
Effective search space: 1512840192
Effective search space used: 1512840192
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 59 (26.4 bits)