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= 028777
(204 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1M3S|A Chain A, Crystal Structure Of Yckf From Bacillus Subtilis
pdb|1M3S|B Chain B, Crystal Structure Of Yckf From Bacillus Subtilis
Length = 186
Score = 94.4 bits (233), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 53/153 (34%), Positives = 84/153 (54%), Gaps = 6/153 (3%)
Query: 52 VFLYGVGREGLMLKALCMRLAHLGISTHLVFDMTTPPISSNDLLIASAGPGGFSTVDAIC 111
+F G GR GLM K+ MRL H+G + H+V ++ TPP++ DL+I +G G ++
Sbjct: 40 IFTAGAGRSGLMAKSFAMRLMHMGFNAHIVGEILTPPLAEGDLVIIGSGSGETKSLIHTA 99
Query: 112 SRARSYGARVLLLTAQPESGSSVKHASVVAYVPAQTMADDDDEQGKEKSRPLMPMGSVYE 171
++A+S V LT PES S K A ++ +P + D G K+ + PMGS++E
Sbjct: 100 AKAKSLHGIVAALTINPES-SIGKQADLIIRMPG---SPKDQSNGSYKT--IQPMGSLFE 153
Query: 172 GAMFVLFEMVVYKLGEALGQSPEAVRSRHTNLE 204
+ + ++ V+ KL E G E + + H NLE
Sbjct: 154 QTLLLFYDAVILKLMEKKGLDSETMFTHHANLE 186
>pdb|1VIV|A Chain A, Crystal Structure Of A Hypothetical Protein
pdb|1VIV|B Chain B, Crystal Structure Of A Hypothetical Protein
Length = 197
Score = 94.0 bits (232), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 53/153 (34%), Positives = 84/153 (54%), Gaps = 6/153 (3%)
Query: 52 VFLYGVGREGLMLKALCMRLAHLGISTHLVFDMTTPPISSNDLLIASAGPGGFSTVDAIC 111
+F G GR GLM K+ MRL H+G + H+V ++ TPP++ DL+I +G G ++
Sbjct: 41 IFTAGAGRSGLMAKSFAMRLMHMGFNAHIVGEILTPPLAEGDLVIIGSGSGETKSLIHTA 100
Query: 112 SRARSYGARVLLLTAQPESGSSVKHASVVAYVPAQTMADDDDEQGKEKSRPLMPMGSVYE 171
++A+S V LT PES S K A ++ +P + D G K+ + PMGS++E
Sbjct: 101 AKAKSLHGIVAALTINPES-SIGKQADLIIRMPG---SPKDQSNGSYKT--IQPMGSLFE 154
Query: 172 GAMFVLFEMVVYKLGEALGQSPEAVRSRHTNLE 204
+ + ++ V+ KL E G E + + H NLE
Sbjct: 155 QTLLLFYDAVILKLMEKKGLDSETMFTHHANLE 187
>pdb|1VIM|A Chain A, Crystal Structure Of An Hypothetical Protein
pdb|1VIM|B Chain B, Crystal Structure Of An Hypothetical Protein
pdb|1VIM|C Chain C, Crystal Structure Of An Hypothetical Protein
pdb|1VIM|D Chain D, Crystal Structure Of An Hypothetical Protein
Length = 200
Score = 75.5 bits (184), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 47/166 (28%), Positives = 85/166 (51%), Gaps = 6/166 (3%)
Query: 39 VAELTNTATQKGSVFLYGVGREGLMLKALCMRLAHLGISTHLVFDMTTPPISSNDLLIAS 98
V E+ S+F+ G GR G + KA MRL HLG + ++V + TP I+ D+L+
Sbjct: 37 VGEMIKLIDSARSIFVIGAGRSGYIAKAFAMRLMHLGYTVYVVGETVTPRITDQDVLVGI 96
Query: 99 AGPGGFSTVDAICSRARSYGARVLLLTAQPESGSSVKHASVVAYVPAQTMADDDDEQGKE 158
+G G ++V I +A+ G++++ +T + +S S K A VV V + + D E
Sbjct: 97 SGSGETTSVVNISKKAKDIGSKLVAVTGKRDS-SLAKMADVVMVVKGKMKQERD-----E 150
Query: 159 KSRPLMPMGSVYEGAMFVLFEMVVYKLGEALGQSPEAVRSRHTNLE 204
L P+G+++E + + +V ++ + + + +RH LE
Sbjct: 151 ILSQLAPLGTMFELTAMIFLDALVAEIMMQKHLTEKDLEARHAVLE 196
>pdb|1JEO|A Chain A, Crystal Structure Of The Hypothetical Protein Mj1247 From
Methanococcus Jannaschii At 2.0 A Resolution Infers A
Molecular Function Of 3-Hexulose-6-Phosphate Isomerase
Length = 180
Score = 65.1 bits (157), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 40/162 (24%), Positives = 73/162 (45%), Gaps = 15/162 (9%)
Query: 42 LTNTATQKGSVFLYGVGREGLMLKALCMRLAHLGISTHLVFDMTTPPISSNDLLIASAGP 101
L + + +F++GVGR G + + MRL HLG ++ V + TTP +DLLI +G
Sbjct: 33 LIDRIIKAKKIFIFGVGRSGYIGRCFAMRLMHLGFKSYFVGETTTPSYEKDDLLILISGS 92
Query: 102 GGFSTVDAICSRARSYGARVLLLTAQPESGSSVKHASVVAYVPAQTMADDDDEQGKEKSR 161
G T + ++ ++ E G+ V+ A + +P + K
Sbjct: 93 G--RTESVLTVAKKAKNINNNIIAIVXEXGNVVEFADLT--IPLEV-----------KKS 137
Query: 162 PLMPMGSVYEGAMFVLFEMVVYKLGEALGQSPEAVRSRHTNL 203
+PMG+ +E + ++V+ ++ + L + RH NL
Sbjct: 138 KYLPMGTTFEETALIFLDLVIAEIMKRLNLDESEIIKRHXNL 179
>pdb|3V3T|A Chain A, Crystal Structure Of Clostridium Botulinum Phage C-St Tubz
Length = 360
Score = 28.1 bits (61), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 2/57 (3%)
Query: 88 PISSNDLLIASAGPGGFSTVDAICSRARSYGARVLLLTAQPESGSSVKHASVVAYVP 144
P N ++ A G GG + VD + Y A L + + S+KHA ++P
Sbjct: 1 PHMKNKIVFAPIGQGGGNIVDTLLGICGDYNA--LFINTSKKDLDSLKHAKHTYHIP 55
>pdb|1VRQ|A Chain A, Crystal Structure Of Heterotetrameric Sarcosine Oxidase
From Corynebacterium Sp. U-96 In Complex With Folinic
Acid
pdb|1X31|A Chain A, Crystal Structure Of Heterotetrameric Sarcosine Oxidase
From Corynebacterium Sp. U-96
pdb|3AD7|A Chain A, Heterotetrameric Sarcosine Oxidase From Corynebacterium
Sp. U-96 In Complex With Methylthio Acetate
pdb|3AD8|A Chain A, Heterotetrameric Sarcosine Oxidase From Corynebacterium
Sp. U-96 In Complex With Pyrrole 2-Carboxylate
pdb|3AD9|A Chain A, Heterotetrameric Sarcosine Oxidase From Corynebacterium
Sp. U-96 Sarcosine-Reduced Form
pdb|3ADA|A Chain A, Heterotetrameric Sarcosine Oxidase From Corynebacterium
Sp. U-96 In Complex With Sulfite
Length = 964
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 17/21 (80%)
Query: 118 GARVLLLTAQPESGSSVKHAS 138
GARV+LL +PE+G +++ AS
Sbjct: 150 GARVMLLDERPEAGGTLREAS 170
>pdb|1KAC|A Chain A, Knob Domain From Adenovirus Serotype 12 In Complex With
Domain 1 Of Its Cellular Receptor Car
pdb|1NOB|A Chain A, Knob Domain From Adenovirus Serotype 12
pdb|1NOB|B Chain B, Knob Domain From Adenovirus Serotype 12
pdb|1NOB|C Chain C, Knob Domain From Adenovirus Serotype 12
pdb|1NOB|D Chain D, Knob Domain From Adenovirus Serotype 12
pdb|1NOB|E Chain E, Knob Domain From Adenovirus Serotype 12
pdb|1NOB|F Chain F, Knob Domain From Adenovirus Serotype 12
Length = 185
Score = 26.9 bits (58), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 4/60 (6%)
Query: 28 TAPHPPP----LDIMVAELTNTATQKGSVFLYGVGREGLMLKALCMRLAHLGISTHLVFD 83
T P PPP + + A+LT T+ GS+ V G+ L ++ + HLVFD
Sbjct: 10 TTPDPPPNCSLIQELDAKLTLCLTKNGSIVNGIVSLVGVKGNLLNIQSTTTTVGVHLVFD 69
>pdb|1P6A|A Chain A, Structural Basis For Variation In Asdenovirus Affinity
For The Cellular Receptor Car (S489y Mutant)
Length = 185
Score = 26.6 bits (57), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 4/60 (6%)
Query: 28 TAPHPPP----LDIMVAELTNTATQKGSVFLYGVGREGLMLKALCMRLAHLGISTHLVFD 83
T P PPP + + A+LT T+ GS+ V G+ L ++ + HLVFD
Sbjct: 10 TTPDPPPNCSLIQELDAKLTLCLTKNGSIVNGIVSLVGVKGNLLNIQSTTTTVGVHLVFD 69
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
0.318 0.132 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,403,395
Number of Sequences: 62578
Number of extensions: 198359
Number of successful extensions: 486
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 477
Number of HSP's gapped (non-prelim): 15
length of query: 204
length of database: 14,973,337
effective HSP length: 94
effective length of query: 110
effective length of database: 9,091,005
effective search space: 1000010550
effective search space used: 1000010550
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)