RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6362
         (157 letters)



>gnl|CDD|238125 cd00204, ANK, ankyrin repeats;  ankyrin repeats mediate
           protein-protein interactions in very diverse families of
           proteins. The number of ANK repeats in a protein can
           range from 2 to over 20 (ankyrins, for example). ANK
           repeats may occur in combinations with other types of
           domains. The structural repeat unit contains two
           antiparallel helices and a beta-hairpin, repeats are
           stacked in a superhelical arrangement; this alignment
           contains 4 consecutive repeats.
          Length = 126

 Score = 38.9 bits (91), Expect = 2e-04
 Identities = 33/112 (29%), Positives = 55/112 (49%), Gaps = 5/112 (4%)

Query: 31  VDDVILLRNRATNLNARMHDGTTPLILAARLAIEGMVEDLINDFVCSPGLHDWFWTLGIE 90
           ++ V LL     ++NA+ +DG TPL LAA+     +V+ L+              T    
Sbjct: 20  LEVVKLLLENGADVNAKDNDGRTPLHLAAKNGHLEIVKLLLEKGADVNARDKDGNTPLHL 79

Query: 91  HVCNVLVILITDDDVILLRNRATNLNARMHDGTTPLILAARLAIEGMVEDLI 142
              N  + ++     +LL++ A ++NAR  DG TPL LAA+     +V+ L+
Sbjct: 80  AARNGNLDVVK----LLLKHGA-DVNARDKDGRTPLHLAAKNGHLEVVKLLL 126



 Score = 32.7 bits (75), Expect = 0.026
 Identities = 32/103 (31%), Positives = 45/103 (43%), Gaps = 13/103 (12%)

Query: 45  NARMHDGTTPLILAARLAIEGMVEDLINDFVCSPGLHDWFWTLGIEHVCNVLVILITDDD 104
           NAR  DG TPL LAA      +V+ L+ +        D             L +   +  
Sbjct: 1   NARDEDGRTPLHLAASNGHLEVVKLLL-ENGADVNAKDNDG-------RTPLHLAAKNGH 52

Query: 105 V----ILLRNRATNLNARMHDGTTPLILAARLAIEGMVEDLIN 143
           +    +LL   A ++NAR  DG TPL LAAR     +V+ L+ 
Sbjct: 53  LEIVKLLLEKGA-DVNARDKDGNTPLHLAARNGNLDVVKLLLK 94



 Score = 28.1 bits (63), Expect = 1.1
 Identities = 16/43 (37%), Positives = 26/43 (60%), Gaps = 1/43 (2%)

Query: 106 ILLRNRATNLNARMHDGTTPLILAARLAIEGMVEDLINFFVHI 148
           +LL N A ++NA+ +DG TPL LAA+     +V+ L+     +
Sbjct: 25  LLLENGA-DVNAKDNDGRTPLHLAAKNGHLEIVKLLLEKGADV 66


>gnl|CDD|205076 pfam12796, Ank_2, Ankyrin repeats (3 copies). 
          Length = 91

 Score = 25.7 bits (57), Expect = 5.4
 Identities = 15/39 (38%), Positives = 21/39 (53%)

Query: 34 VILLRNRATNLNARMHDGTTPLILAARLAIEGMVEDLIN 72
          V LL     ++NA+  DG T L LAAR     +V+ L+ 
Sbjct: 44 VKLLLEHGADVNAKDKDGNTALHLAARNGNLEIVKLLLE 82



 Score = 25.7 bits (57), Expect = 5.4
 Identities = 15/39 (38%), Positives = 21/39 (53%)

Query: 105 VILLRNRATNLNARMHDGTTPLILAARLAIEGMVEDLIN 143
           V LL     ++NA+  DG T L LAAR     +V+ L+ 
Sbjct: 44  VKLLLEHGADVNAKDKDGNTALHLAARNGNLEIVKLLLE 82


>gnl|CDD|215148 PLN02264, PLN02264, lipoxygenase.
          Length = 919

 Score = 26.8 bits (59), Expect = 5.5
 Identities = 18/56 (32%), Positives = 21/56 (37%), Gaps = 10/56 (17%)

Query: 82  DWFWTLGIEHVCNVLVILITDDDVILLRNRATNLNARMHDGTTPLILAARLAIEGM 137
           +W W L   HVC+       D  V  L N       R H    P ILAA   +  M
Sbjct: 555 NWMWQLAKAHVCS------NDAGVHQLVNHWL----RTHACLEPFILAAHRQLSAM 600


>gnl|CDD|188036 TIGR00236, wecB, UDP-N-acetylglucosamine 2-epimerase.  This
           cytosolic enzyme converts UDP-N-acetyl-D-glucosamine to
           UDP-N-acetyl-D-mannosamine. In E. coli, this is the
           first step in the pathway of enterobacterial common
           antigen biosynthesis.Members of this orthology group
           have many gene symbols, often reflecting the overall
           activity of the pathway and/or operon that includes it.
           Symbols include epsC (exopolysaccharide C) in
           Burkholderia solanacerum, cap8P (type 8 capsule P) in
           Staphylococcus aureus, and nfrC in an older designation
           based on the effects of deletion on phage N4 adsorption.
           Epimerase activity was also demonstrated in a
           bifunctional rat enzyme, for which the N-terminal domain
           appears to be orthologous. The set of proteins found
           above the suggested cutoff includes E. coli WecB in one
           of two deeply branched clusters and the rat
           UDP-N-acetylglucosamine 2-epimerase domain in the other
           [Cell envelope, Biosynthesis and degradation of surface
           polysaccharides and lipopolysaccharides].
          Length = 365

 Score = 26.3 bits (58), Expect = 8.9
 Identities = 17/65 (26%), Positives = 25/65 (38%), Gaps = 7/65 (10%)

Query: 85  WTLGIEHVCNVLVILITDDDVILLR-NRATNLNARMHDGTTPLILAARLAIEGMVEDL-I 142
             + I +   VL     D   ILL  +R  N+   + +     I  A   I    ED+ I
Sbjct: 179 TNVEIAYSSPVLSEFGEDKRYILLTLHRRENVGEPLEN-----IFKAIREIVEEFEDVQI 233

Query: 143 NFFVH 147
            + VH
Sbjct: 234 VYPVH 238


  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
   0.329    0.144    0.458 

Gapped
Lambda     K      H
   0.267   0.0787    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,536,405
Number of extensions: 821665
Number of successful extensions: 876
Number of sequences better than 10.0: 1
Number of HSP's gapped: 873
Number of HSP's successfully gapped: 25
Length of query: 157
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 68
Effective length of database: 6,990,096
Effective search space: 475326528
Effective search space used: 475326528
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 55 (24.9 bits)