BLASTP 2.2.23 [Feb-03-2010]


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.


Reference for composition-based statistics starting in round 2:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= P40571
         (144 letters)

Database: ../databases/nrPDB-GO_2019.06.18_sequences.fasta 
           36,641 sequences; 10,336,785 total letters

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


Results from round 1


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

6AGB-K nrPDB                                                          302   4e-83
6AHU-K nrPDB                                                           39   8e-04
2KI7-B nrPDB                                                           31   0.15 
1X0T-A nrPDB                                                           28   1.4  
6BK6-A nrPDB                                                           27   2.3  
2CFA-B nrPDB                                                           25   9.5  

>6AGB-K nrPDB
          Length = 144

 Score =  302 bits (773), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 144/144 (100%), Positives = 144/144 (100%)

Query: 1   MGKKAHGGKMKPEIDENGTLLVPPPRTIANQDHFHRLNYLYQISAYQTRARQKARTDAHT 60
           MGKKAHGGKMKPEIDENGTLLVPPPRTIANQDHFHRLNYLYQISAYQTRARQKARTDAHT
Sbjct: 1   MGKKAHGGKMKPEIDENGTLLVPPPRTIANQDHFHRLNYLYQISAYQTRARQKARTDAHT 60

Query: 61  PLARNYIKSMDLISKKTKTSLLPTIKRTICKKCHRLLWTPKKLEITSDGALSVMCGCGTV 120
           PLARNYIKSMDLISKKTKTSLLPTIKRTICKKCHRLLWTPKKLEITSDGALSVMCGCGTV
Sbjct: 61  PLARNYIKSMDLISKKTKTSLLPTIKRTICKKCHRLLWTPKKLEITSDGALSVMCGCGTV 120

Query: 121 KRFNIGADPNYRTYSEREGNLLNS 144
           KRFNIGADPNYRTYSEREGNLLNS
Sbjct: 121 KRFNIGADPNYRTYSEREGNLLNS 144


>6AHU-K nrPDB
          Length = 154

 Score = 38.9 bits (89), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 22/70 (31%), Positives = 37/70 (52%), Gaps = 5/70 (7%)

Query: 28 IANQDHFHRLNYLYQISAYQTRARQKARTDAHTPLARNYIKSMDLISKKTKTSLLPTIKR 87
          + +++ F RLN+LYQ +         A+   +  LAR Y  +   I+K+      P++KR
Sbjct: 5  VKDREAFQRLNFLYQAAHCVL-----AQDPENQALARFYCYTERTIAKRLVLRRDPSVKR 59

Query: 88 TICKKCHRLL 97
          T+C+ C  LL
Sbjct: 60 TLCRGCSSLL 69


>2KI7-B nrPDB
          Length = 123

 Score = 31.2 bits (69), Expect = 0.15,   Method: Compositional matrix adjust.
 Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 1/44 (2%)

Query: 55 RTDAHTP-LARNYIKSMDLISKKTKTSLLPTIKRTICKKCHRLL 97
          R   ++P LA+ Y++   L+ +K K  +    KR  CKKCH  L
Sbjct: 27 RVFPYSPELAKRYVELALLVQQKAKVKIPRKWKRRYCKKCHAFL 70


>1X0T-A nrPDB
          Length = 120

 Score = 28.1 bits (61), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)

Query: 55 RTDAHTP-LARNYIKSMDLISKKTKTSLLPTIKRTICKKCHRLL 97
          R   ++P LA+ Y++    I KK K  +    KR  CK+CH  L
Sbjct: 32 RVARYSPDLAKRYVELALEIQKKAKVKIPRKWKRRYCKRCHTFL 75


>6BK6-A nrPDB
          Length = 372

 Score = 27.3 bits (59), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 36/68 (52%), Gaps = 17/68 (25%)

Query: 9   KMKPEIDENGTLLVPPPRTI----ANQDHFHRLNYLYQIS---------AYQTRARQKAR 55
           K++PEID++G+++  P   I    AN+  F+  NY+Y I          + ++  R+K R
Sbjct: 50  KVEPEIDKHGSMI--PKYKIYTPGANERKFN--NYMYMICYGFVEDVERSPESGKRKKIR 105

Query: 56  TDAHTPLA 63
           T A  PL 
Sbjct: 106 TIAAYPLG 113


>2CFA-B nrPDB
          Length = 217

 Score = 25.4 bits (54), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 20/80 (25%), Positives = 34/80 (42%), Gaps = 15/80 (18%)

Query: 18  GTLLVPPPRTIANQDHFHRLNYLYQISAYQTRARQKARTDAHTPLARNYIKSMDLISKKT 77
             +  PPP     QDH +R N L  +        +  +T   T   + Y +SM+L +K  
Sbjct: 93  SVMETPPPHQARFQDHKNRQNSLDTVP-------EDDQTWWATEQEKLYAQSMELYNK-- 143

Query: 78  KTSLLPTIKRTICKKCHRLL 97
                  +++ I K+C R +
Sbjct: 144 ------ALEKGIAKECARFI 157


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


Results from round 2


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value
Sequences used in model and found again:

6AGB-K nrPDB                                                          277   1e-75
6AHU-K nrPDB                                                          109   4e-25

Sequences not found previously or not previously below threshold:

2KI7-B nrPDB                                                           30   0.51 
1X0T-A nrPDB                                                           28   1.3  
5Y7Y-A nrPDB                                                           27   3.1  
3MCR-A nrPDB                                                           26   5.0  
5JCF-A nrPDB                                                           26   7.4  


CONVERGED!
>6AGB-K nrPDB
          Length = 144

 Score =  277 bits (708), Expect = 1e-75,   Method: Composition-based stats.
 Identities = 144/144 (100%), Positives = 144/144 (100%)

Query: 1   MGKKAHGGKMKPEIDENGTLLVPPPRTIANQDHFHRLNYLYQISAYQTRARQKARTDAHT 60
           MGKKAHGGKMKPEIDENGTLLVPPPRTIANQDHFHRLNYLYQISAYQTRARQKARTDAHT
Sbjct: 1   MGKKAHGGKMKPEIDENGTLLVPPPRTIANQDHFHRLNYLYQISAYQTRARQKARTDAHT 60

Query: 61  PLARNYIKSMDLISKKTKTSLLPTIKRTICKKCHRLLWTPKKLEITSDGALSVMCGCGTV 120
           PLARNYIKSMDLISKKTKTSLLPTIKRTICKKCHRLLWTPKKLEITSDGALSVMCGCGTV
Sbjct: 61  PLARNYIKSMDLISKKTKTSLLPTIKRTICKKCHRLLWTPKKLEITSDGALSVMCGCGTV 120

Query: 121 KRFNIGADPNYRTYSEREGNLLNS 144
           KRFNIGADPNYRTYSEREGNLLNS
Sbjct: 121 KRFNIGADPNYRTYSEREGNLLNS 144


>6AHU-K nrPDB
          Length = 154

 Score =  109 bits (272), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 22/70 (31%), Positives = 37/70 (52%), Gaps = 5/70 (7%)

Query: 28 IANQDHFHRLNYLYQISAYQTRARQKARTDAHTPLARNYIKSMDLISKKTKTSLLPTIKR 87
          + +++ F RLN+LYQ +         A+   +  LAR Y  +   I+K+      P++KR
Sbjct: 5  VKDREAFQRLNFLYQAAHCVL-----AQDPENQALARFYCYTERTIAKRLVLRRDPSVKR 59

Query: 88 TICKKCHRLL 97
          T+C+ C  LL
Sbjct: 60 TLCRGCSSLL 69


>2KI7-B nrPDB
          Length = 123

 Score = 29.7 bits (65), Expect = 0.51,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 28/69 (40%), Gaps = 8/69 (11%)

Query: 29 ANQDHFHRLNYLYQISAYQTRARQKARTDAHTPLARNYIKSMDLISKKTKTSLLPTIKRT 88
            +    R++ L+ ++                 LA+ Y++   L+ +K K  +    KR 
Sbjct: 10 KKRIAKERIDILFSLAERVF--------PYSPELAKRYVELALLVQQKAKVKIPRKWKRR 61

Query: 89 ICKKCHRLL 97
           CKKCH  L
Sbjct: 62 YCKKCHAFL 70


>1X0T-A nrPDB
          Length = 120

 Score = 28.1 bits (61), Expect = 1.3,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 27/65 (41%), Gaps = 8/65 (12%)

Query: 33 HFHRLNYLYQISAYQTRARQKARTDAHTPLARNYIKSMDLISKKTKTSLLPTIKRTICKK 92
             R++ L+ ++    R            LA+ Y++    I KK K  +    KR  CK+
Sbjct: 19 AIERIDTLFTLAERVARYSPD--------LAKRYVELALEIQKKAKVKIPRKWKRRYCKR 70

Query: 93 CHRLL 97
          CH  L
Sbjct: 71 CHTFL 75


>5Y7Y-A nrPDB
          Length = 258

 Score = 27.0 bits (58), Expect = 3.1,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 26/59 (44%), Gaps = 4/59 (6%)

Query: 4  KAHGGKMKPEIDENGTLLVPPPRTIANQDHFHRL----NYLYQISAYQTRARQKARTDA 58
          K H  ++  E+D   +LL  PP  I+  D    L    +YL   S +Q    Q +R  A
Sbjct: 16 KRHRDRLNAELDHLASLLPFPPDIISKLDKLSVLRLSVSYLRVKSFFQVVQEQSSRQPA 74


>3MCR-A nrPDB
          Length = 213

 Score = 26.2 bits (56), Expect = 5.0,   Method: Composition-based stats.
 Identities = 10/66 (15%), Positives = 26/66 (39%), Gaps = 9/66 (13%)

Query: 36  RLNYLYQISAYQTRARQKARTDAHTPLAR---------NYIKSMDLISKKTKTSLLPTIK 86
           R  Y  +++    R+ ++  T   T ++R          +++   L+   T+    P ++
Sbjct: 73  RTAYFDEVADALERSLKEIGTPYDTAISRVVVDRGEITFHVQREHLLDVATRLRDDPALR 132

Query: 87  RTICKK 92
             +C  
Sbjct: 133 FELCLG 138


>5JCF-A nrPDB
          Length = 701

 Score = 25.8 bits (55), Expect = 7.4,   Method: Composition-based stats.
 Identities = 11/78 (14%), Positives = 30/78 (38%), Gaps = 7/78 (8%)

Query: 36  RLNYLYQISAYQTRAR-----QKARTDAHTPLARNYIKSMDLISKKTKTSLLPTIKRTIC 90
           R N +Y+               K +      +    +K+     ++      P++   +C
Sbjct: 531 RENMMYKAIRRVQEMPPEEYLNKIQDFQLQSIVEKQMKAKR--DQRKTYKKNPSLITFLC 588

Query: 91  KKCHRLLWTPKKLEITSD 108
           K CH+L+ + + +++  +
Sbjct: 589 KNCHKLICSGEDIQVIEN 606


  Database: ../databases/nrPDB-GO_2019.06.18_sequences.fasta
    Posted date:  Jan 3, 2023  9:05 PM
  Number of letters in database: 10,336,785
  Number of sequences in database:  36,641
  
Lambda     K      H
   0.315    0.132    0.382 

Lambda     K      H
   0.267   0.0406    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,915,488
Number of Sequences: 36641
Number of extensions: 201443
Number of successful extensions: 390
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 380
Number of HSP's gapped (non-prelim): 13
length of query: 144
length of database: 10,336,785
effective HSP length: 88
effective length of query: 56
effective length of database: 7,112,377
effective search space: 398293112
effective search space used: 398293112
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)