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= 021051
(318 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3LTM|A Chain A, Structure Of A New Family Of Artificial Alpha Helicoidal
Repeat Proteins (Alpha-Rep) Based On Thermostable
Heat-Like Repeats
pdb|3LTM|B Chain B, Structure Of A New Family Of Artificial Alpha Helicoidal
Repeat Proteins (Alpha-Rep) Based On Thermostable
Heat-Like Repeats
Length = 211
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 35/108 (32%), Positives = 54/108 (50%), Gaps = 2/108 (1%)
Query: 190 YERYAALFALRNHGGDEAVSAIIDSLGATSALLKHEVAYVLGQLQNKAASAALSDVLRNV 249
Y R AA +AL G + AV +I +L A ++ A LGQ+ ++ A L L+
Sbjct: 34 YVRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALK-- 91
Query: 250 NEHPMVRHEAAEALGSIADDQSIGLLKEFAKDPEPIVSQSCEVALSML 297
+E VR AA ALG I D++++ L + KD + V + AL +
Sbjct: 92 DEDGWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEI 139
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 48/92 (52%), Gaps = 2/92 (2%)
Query: 206 EAVSAIIDSLGATSALLKHEVAYVLGQLQNKAASAALSDVLRNVNEHPMVRHEAAEALGS 265
E V I +L S ++ AY LG++ ++ A L L++ E VR AA+ALG
Sbjct: 19 EKVEMYIKNLQDDSYYVRRAAAYALGKIGDERAVEPLIKALKD--EDAWVRRAAADALGQ 76
Query: 266 IADDQSIGLLKEFAKDPEPIVSQSCEVALSML 297
I D++++ L + KD + V QS VAL +
Sbjct: 77 IGDERAVEPLIKALKDEDGWVRQSAAVALGQI 108
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 20/38 (52%)
Query: 54 LIRATKDSSNLLAHEAAFALGQMQDAEAIPALEAVLND 91
LI+A KD + AA ALGQ+ D A+ L L D
Sbjct: 86 LIKALKDEDGWVRQSAAVALGQIGDERAVEPLIKALKD 123
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 46/188 (24%), Positives = 74/188 (39%), Gaps = 33/188 (17%)
Query: 55 IRATKDSSNLLAHEAAFALGQMQDAEAIPALEAVLNDFSLHPIVRHXXXXXXXXXXXXSN 114
I+ +D S + AA+ALG++ D A+ L L D + R +
Sbjct: 25 IKNLQDDSYYVRRAAAYALGKIGDERAVEPLIKALKDEDAW-VRRAAADALGQIGDERAV 83
Query: 115 IPLLKNSLVSDPAQEVRETCELALERIEKLKASGSDGSSMTERSPFMSVDPAAPASSCSS 174
PL+K + D VR++ +AL G ER+ V+P
Sbjct: 84 EPLIKA--LKDEDGWVRQSAAVAL------------GQIGDERA----VEP--------- 116
Query: 175 VDMLREVLLGEEKGMYERYAALFALRNHGGDEAVSAIIDSLGATSALLKHEVAYVLGQLQ 234
L + L E+ + R AA FAL G + AV +I +L ++ A LG++
Sbjct: 117 ---LIKALKDED--WFVRIAAAFALGEIGDERAVEPLIKALKDEDGWVRQSAADALGEIG 171
Query: 235 NKAASAAL 242
+ AA+
Sbjct: 172 GERVRAAM 179
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 54 LIRATKDSSNLLAHEAAFALGQMQDAEAIPALEAVLND 91
LI+A KD + AAFALG++ D A+ L L D
Sbjct: 117 LIKALKDEDWFVRIAAAFALGEIGDERAVEPLIKALKD 154
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 36/81 (44%), Gaps = 2/81 (2%)
Query: 11 FKSSPEMEKFLCDRLVDPTQPISERFRALFSLRNLKGPGPRDALIRATKDSSNLLAHEAA 70
++ PE + L D + + R A ++L + + LI+A KD + AA
Sbjct: 14 LRADPEKVEMYIKNLQDDSYYV--RRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAA 71
Query: 71 FALGQMQDAEAIPALEAVLND 91
ALGQ+ D A+ L L D
Sbjct: 72 DALGQIGDERAVEPLIKALKD 92
>pdb|3LTJ|A Chain A, Structure Of A New Family Of Artificial Alpha Helicoidal
Repeat Proteins (Alpha-Rep) Based On Thermostable
Heat-Like Repeats
Length = 201
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 35/106 (33%), Positives = 53/106 (50%), Gaps = 2/106 (1%)
Query: 190 YERYAALFALRNHGGDEAVSAIIDSLGATSALLKHEVAYVLGQLQNKAASAALSDVLRNV 249
Y R AA +AL G + AV +I +L A ++ A LGQ+ ++ A L L+
Sbjct: 29 YVRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALK-- 86
Query: 250 NEHPMVRHEAAEALGSIADDQSIGLLKEFAKDPEPIVSQSCEVALS 295
+E VR AA ALG I D++++ L + KD + V + AL
Sbjct: 87 DEDGWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALG 132
Score = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 32/96 (33%), Positives = 50/96 (52%), Gaps = 2/96 (2%)
Query: 206 EAVSAIIDSLGATSALLKHEVAYVLGQLQNKAASAALSDVLRNVNEHPMVRHEAAEALGS 265
E V I +L S ++ AY LG++ ++ A L L++ E VR AA+ALG
Sbjct: 14 EKVEMYIKNLQDDSYYVRRAAAYALGKIGDERAVEPLIKALKD--EDAWVRRAAADALGQ 71
Query: 266 IADDQSIGLLKEFAKDPEPIVSQSCEVALSMLEYEQ 301
I D++++ L + KD + V QS VAL + E+
Sbjct: 72 IGDERAVEPLIKALKDEDGWVRQSAAVALGQIGDER 107
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 20/38 (52%)
Query: 54 LIRATKDSSNLLAHEAAFALGQMQDAEAIPALEAVLND 91
LI+A KD + AA ALGQ+ D A+ L L D
Sbjct: 81 LIKALKDEDGWVRQSAAVALGQIGDERAVEPLIKALKD 118
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 44/189 (23%), Positives = 73/189 (38%), Gaps = 35/189 (18%)
Query: 55 IRATKDSSNLLAHEAAFALGQMQDAEAIPALEAVLNDFSLHPIVRHXXXXXXXXXXXXSN 114
I+ +D S + AA+ALG++ D A+ L L D VR
Sbjct: 20 IKNLQDDSYYVRRAAAYALGKIGDERAVEPLIKALKDED--AWVRRAAADALGQIGDERA 77
Query: 115 I-PLLKNSLVSDPAQEVRETCELALERIEKLKASGSDGSSMTERSPFMSVDPAAPASSCS 173
+ PL+K + D VR++ +AL +I +A V+P A
Sbjct: 78 VEPLIKA--LKDEDGWVRQSAAVALGQIGDERA----------------VEPLIKAL--- 116
Query: 174 SVDMLREVLLGEEKGMYERYAALFALRNHGGDEAVSAIIDSLGATSALLKHEVAYVLGQL 233
+++ + R AA FAL G + AV +I +L ++ A LG++
Sbjct: 117 -----------KDEDWFVRIAAAFALGEIGDERAVEPLIKALKDEDGWVRQSAADALGEI 165
Query: 234 QNKAASAAL 242
+ AA+
Sbjct: 166 GGERVRAAM 174
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 54 LIRATKDSSNLLAHEAAFALGQMQDAEAIPALEAVLND 91
LI+A KD + AAFALG++ D A+ L L D
Sbjct: 112 LIKALKDEDWFVRIAAAFALGEIGDERAVEPLIKALKD 149
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 35/79 (44%), Gaps = 2/79 (2%)
Query: 13 SSPEMEKFLCDRLVDPTQPISERFRALFSLRNLKGPGPRDALIRATKDSSNLLAHEAAFA 72
+ PE + L D + + R A ++L + + LI+A KD + AA A
Sbjct: 11 TDPEKVEMYIKNLQDDSYYV--RRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADA 68
Query: 73 LGQMQDAEAIPALEAVLND 91
LGQ+ D A+ L L D
Sbjct: 69 LGQIGDERAVEPLIKALKD 87
>pdb|1TE4|A Chain A, Solution Structure Of Mth187. Ontario Centre For
Structural Proteomics Target Mth0187_1_111; Northeast
Structural Genomics Target Tt740
Length = 131
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 47/95 (49%), Gaps = 5/95 (5%)
Query: 204 GDEAVSAIIDSLGATSALLKHEVAYVLGQLQNKAASAALSDVLRNVNEHPMVRHEAAEAL 263
GDEA +++SL ++ A+++G Q++ A L +L ++ VR AA +L
Sbjct: 40 GDEAFEPLLESLSNEDWRIRGAAAWIIGNFQDERAVEPLIKLLE--DDSGFVRSGAARSL 97
Query: 264 GSIADDQSIGLLKEFAKDPEPIVSQSCEVALSMLE 298
I ++ +++ A E + +VA++ LE
Sbjct: 98 EQIGGERVRAAMEKLA---ETGTGFARKVAVNYLE 129
>pdb|4B4T|N Chain N, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 945
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 29/59 (49%), Gaps = 6/59 (10%)
Query: 250 NEHPMVRHEAAEALGSIADDQ----SIGLLKEFAKDPEPIVSQSCEVALSMLEYEQLEK 304
N H VR A ALG + +I +L KDP V Q+ +ALSM+ +Q EK
Sbjct: 614 NAH--VRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVRQAAMIALSMILIQQTEK 670
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
0.315 0.130 0.356
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,087,716
Number of Sequences: 62578
Number of extensions: 286801
Number of successful extensions: 788
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 767
Number of HSP's gapped (non-prelim): 19
length of query: 318
length of database: 14,973,337
effective HSP length: 99
effective length of query: 219
effective length of database: 8,778,115
effective search space: 1922407185
effective search space used: 1922407185
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: 51 (24.3 bits)