RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy1673
         (161 letters)



>gnl|CDD|227412 COG5080, YIP1, Rab GTPase interacting factor, Golgi membrane
           protein [Intracellular trafficking and secretion].
          Length = 227

 Score = 59.8 bits (145), Expect = 2e-11
 Identities = 31/95 (32%), Positives = 56/95 (58%), Gaps = 1/95 (1%)

Query: 1   MYGLLYLMATSPNVTISTVTSVLGYCLLPMVVLAGVNVILSLQGAVGLSLTILTVLWCAM 60
           ++ LL L+    N++  +  S+LGY LLP+V  + V++IL     +G  +  L ++W   
Sbjct: 132 LHLLLRLLGHK-NISFFSTISILGYSLLPLVFNSLVSIILGRILILGYVVVALFLIWSTY 190

Query: 61  SASKLLVTCFAMSHQQPLVAYPCAILYSVFALITF 95
           +AS +L +   +S+++ LV YP  + Y+VFA+I  
Sbjct: 191 AASGVLKSKLQLSNKRLLVVYPLLLFYNVFAIIIK 225



 Score = 39.0 bits (91), Expect = 3e-04
 Identities = 26/91 (28%), Positives = 47/91 (51%), Gaps = 4/91 (4%)

Query: 72  MSHQQPLVAYPCAIL-YSVFALITFVTMSTVLTPFVSRGAVGLSLTILTVLWCAMSASKL 130
           + H+        +IL YS+  L+    +S +L   +  G V   +  L ++W   +AS +
Sbjct: 139 LGHKNISFFSTISILGYSLLPLVFNSLVSIILGRILILGYV---VVALFLIWSTYAASGV 195

Query: 131 LVTCFAMSHQQPLVAYPCAILYSVFALITVF 161
           L +   +S+++ LV YP  + Y+VFA+I  F
Sbjct: 196 LKSKLQLSNKRLLVVYPLLLFYNVFAIIIKF 226


>gnl|CDD|114045 pfam05297, Herpes_LMP1, Herpesvirus latent membrane protein 1
           (LMP1).  This family consists of several latent membrane
           protein 1 or LMP1s mostly from Epstein-Barr virus. LMP1
           of EBV is a 62-65 kDa plasma membrane protein possessing
           six membrane spanning regions, a short cytoplasmic
           N-terminus and a long cytoplasmic carboxy tail of 200
           amino acids. EBV latent membrane protein 1 (LMP1) is
           essential for EBV-mediated transformation and has been
           associated with several cases of malignancies. EBV-like
           viruses in Cynomolgus monkeys (Macaca fascicularis) have
           been associated with high lymphoma rates in
           immunosuppressed monkeys.
          Length = 382

 Score = 28.1 bits (62), Expect = 2.1
 Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 3/48 (6%)

Query: 78  LVAYPCAILYSVFALITFVTMSTVLTPFVSRGAVGLSLTILTVLWCAM 125
           LV Y  A++  +  LI F+    +L P    GA+ L L ++T+L  A+
Sbjct: 53  LVLYSFALILIIIILIIFIFRRDLLCPL---GALCLLLLMITLLLIAL 97


>gnl|CDD|220591 pfam10131, PTPS_related, 6-pyruvoyl-tetrahydropterin synthase
           related domain; membrane protein.  This domain is found
           in various bacterial hypothetical membrane proteins, as
           well as in tetratricopeptide TPR_2 repeat protein. The
           exact function of the domain has not, as yet, been
           established.
          Length = 620

 Score = 27.0 bits (60), Expect = 5.0
 Identities = 13/56 (23%), Positives = 22/56 (39%), Gaps = 1/56 (1%)

Query: 62  ASKLLVTCFAMSHQQPLVAYPCAILYSVFALITFVTMSTVLTPFVSRGAVGLSLTI 117
           AS LL++  A+SH         AI   +            L   ++  A+G+ + I
Sbjct: 107 ASALLMSLIALSHAMVAAIVGLAIFGFLLLYEVLRRK-RFLRNLIALVAIGIGIAI 161


>gnl|CDD|213303 cd05937, FATP_chFAT1_like, Uncharacterized subfamily of
           bifunctional fatty acid transporter/very-long-chain
           acyl-CoA synthetase in fungi.  Fatty acid transport
           protein (FATP) transports long-chain or very-long-chain
           fatty acids across the plasma membrane. FATPs also have
           fatty acid CoA synthetase activity, thus playing dual
           roles as fatty acid transporters and its activation
           enzymes. FATPs are the key players in the trafficking of
           exogenous fatty acids into the cell and in intracellular
           fatty acid homeostasis. Members of this family are
           fungal FATPs, including FAT1 from Cochliobolus
           heterostrophus.
          Length = 468

 Score = 26.7 bits (59), Expect = 6.7
 Identities = 21/61 (34%), Positives = 27/61 (44%), Gaps = 9/61 (14%)

Query: 58  CAMSASKLLVTCFAMSH----QQPLVAYPCAILYSVFALITFVTMSTVLTPFVSRGAVGL 113
           CA+S  + LVT   +SH    Q P   Y C  LY   A   F+ +   L    S G + L
Sbjct: 105 CAISWRRTLVTSNPLSHDLNLQFPDRTYTCMPLYHGTA--AFLGLCYCL---GSGGTLCL 159

Query: 114 S 114
           S
Sbjct: 160 S 160



 Score = 26.3 bits (58), Expect = 8.1
 Identities = 15/43 (34%), Positives = 18/43 (41%), Gaps = 4/43 (9%)

Query: 123 CAMSASKLLVTCFAMSH----QQPLVAYPCAILYSVFALITVF 161
           CA+S  + LVT   +SH    Q P   Y C  LY   A     
Sbjct: 105 CAISWRRTLVTSNPLSHDLNLQFPDRTYTCMPLYHGTAAFLGL 147


>gnl|CDD|237948 PRK15339, PRK15339, type III secretion system outer membrane pore
           InvG; Provisional.
          Length = 559

 Score = 26.3 bits (58), Expect = 8.5
 Identities = 10/25 (40%), Positives = 16/25 (64%)

Query: 93  ITFVTMSTVLTPFVSRGAVGLSLTI 117
           +T+ TM +VL  F + G + +SL I
Sbjct: 403 VTYGTMISVLPRFSADGQIEMSLDI 427


  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    0.137    0.417 

Gapped
Lambda     K      H
   0.267   0.0708    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,427,339
Number of extensions: 648304
Number of successful extensions: 999
Number of sequences better than 10.0: 1
Number of HSP's gapped: 986
Number of HSP's successfully gapped: 90
Length of query: 161
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 72
Effective length of database: 6,990,096
Effective search space: 503286912
Effective search space used: 503286912
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 (22.0 bits)
S2: 55 (25.0 bits)