BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= psy11622
         (346 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|4FMW|A Chain A, Crystal Structure Of Methyltransferase Domain Of Human Rna
           (Guanine-9- ) Methyltransferase Domain Containing
           Protein 2
 pdb|4FMW|B Chain B, Crystal Structure Of Methyltransferase Domain Of Human Rna
           (Guanine-9- ) Methyltransferase Domain Containing
           Protein 2
          Length = 197

 Score =  173 bits (439), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 90/189 (47%), Positives = 126/189 (66%), Gaps = 3/189 (1%)

Query: 97  KLVKMETSPNKLRVCIDFSFDHLMTQKDICKCVKQFNWCYSLNRRAQHPLQFYVSSFKDK 156
           K V+ +   + LR+ ID SFDHL   KDI K  KQ   CY+ NRRA HP+QFY++S   +
Sbjct: 10  KRVRRDVVHSTLRLIIDCSFDHLXVLKDIKKLHKQIQRCYAENRRALHPVQFYLTSHGGQ 69

Query: 157 CKQEIARYN-GYEHW-DVHIHEQAYLDLFKKEDLVYLTSDSDNIIEELDQSKVYIIGGLV 214
            K+     + G+ +W D+HI  + Y +L KKEDL+YLTSDS NI++ELD+SK Y+IGGLV
Sbjct: 70  LKKNXDENDKGWVNWKDIHIKPEHYSELIKKEDLIYLTSDSPNILKELDESKAYVIGGLV 129

Query: 215 DHNQHKLLTLNKAREENIAHGKLPIDTYLNMKTRQVLAVNHVFQILLAISSDKKSWKDAL 274
           DHN HK LT  +A +  I H +LP+  ++   +R+VLAVNHVF+I+L    + + W++A 
Sbjct: 130 DHNHHKGLTYKQASDYGINHAQLPLGNFVKXNSRKVLAVNHVFEIILE-YLETRDWQEAF 188

Query: 275 LETLPERKN 283
              LP+RK 
Sbjct: 189 FTILPQRKG 197


>pdb|2EC6|B Chain B, Placopecten Striated Muscle Myosin Ii
          Length = 133

 Score = 29.6 bits (65), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 31/61 (50%), Gaps = 1/61 (1%)

Query: 213 LVDHNQHKLLTLNKAREENIAHGKLPIDTYLNMKTRQVLAVNHVFQILLAISSDKKSWKD 272
           ++D N+   + +N  +EE  + G+ P D  L    ++     + F + L+I SDK S  D
Sbjct: 10  MIDQNRDGFIDINDLKEEFSSLGRTPDDKELTAMLKEAPGPLN-FTMFLSIFSDKLSGTD 68

Query: 273 A 273
           +
Sbjct: 69  S 69


>pdb|1BQH|G Chain G, Murine Cd8aa Ectodomain Fragment In Complex With H-2kbVSV8
 pdb|1BQH|H Chain H, Murine Cd8aa Ectodomain Fragment In Complex With H-2kbVSV8
 pdb|1BQH|I Chain I, Murine Cd8aa Ectodomain Fragment In Complex With H-2kbVSV8
 pdb|1BQH|K Chain K, Murine Cd8aa Ectodomain Fragment In Complex With H-2kbVSV8
          Length = 129

 Score = 28.9 bits (63), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 22/80 (27%), Positives = 41/80 (51%), Gaps = 10/80 (12%)

Query: 188 LVYLTSDSDNII--EELDQSKVYIIGGLVDHNQHKLLTLNKAREENIAHGKLPIDTYLNM 245
           +VY+ S  + I   E+L+ SK++    + D N   +LTLNK  +EN  +       + ++
Sbjct: 53  VVYMASSHNKITWDEKLNSSKLF--SAMRDTNNKYVLTLNKFSKENEGY------YFCSV 104

Query: 246 KTRQVLAVNHVFQILLAISS 265
            +  V+  + V  +L  +SS
Sbjct: 105 ISNSVMYFSSVVPVLQKVSS 124


>pdb|1NEZ|G Chain G, The Crystal Structure Of A TlCD8AA COMPLEX AT 2.1A
           Resolution:implications For Memory T Cell Generation,
           Co-Receptor Preference And Affinity
 pdb|1NEZ|H Chain H, The Crystal Structure Of A TlCD8AA COMPLEX AT 2.1A
           Resolution:implications For Memory T Cell Generation,
           Co-Receptor Preference And Affinity
          Length = 128

 Score = 28.9 bits (63), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 22/80 (27%), Positives = 41/80 (51%), Gaps = 10/80 (12%)

Query: 188 LVYLTSDSDNII--EELDQSKVYIIGGLVDHNQHKLLTLNKAREENIAHGKLPIDTYLNM 245
           +VY+ S  + I   E+L+ SK++    + D N   +LTLNK  +EN  +       + ++
Sbjct: 53  VVYMASSHNKITWDEKLNSSKLF--SAMRDTNNKYVLTLNKFSKENEGY------YFCSV 104

Query: 246 KTRQVLAVNHVFQILLAISS 265
            +  V+  + V  +L  +SS
Sbjct: 105 ISNSVMYFSSVVPVLQKVSS 124


>pdb|2ID5|A Chain A, Crystal Structure Of The Lingo-1 Ectodomain
 pdb|2ID5|B Chain B, Crystal Structure Of The Lingo-1 Ectodomain
 pdb|2ID5|C Chain C, Crystal Structure Of The Lingo-1 Ectodomain
 pdb|2ID5|D Chain D, Crystal Structure Of The Lingo-1 Ectodomain
          Length = 477

 Score = 27.7 bits (60), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 13/39 (33%), Positives = 20/39 (51%)

Query: 87  IPLGPSRKALKLVKMETSPNKLRVCIDFSFDHLMTQKDI 125
           IPLG       L K++ S NK+ + +D+ F  L   K +
Sbjct: 95  IPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSL 133


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.313    0.130    0.384 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,676,612
Number of Sequences: 62578
Number of extensions: 449689
Number of successful extensions: 689
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 680
Number of HSP's gapped (non-prelim): 20
length of query: 346
length of database: 14,973,337
effective HSP length: 100
effective length of query: 246
effective length of database: 8,715,537
effective search space: 2144022102
effective search space used: 2144022102
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)