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= psy17977
(362 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
Length = 3245
Score = 95.1 bits (235), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 88/390 (22%), Positives = 146/390 (37%), Gaps = 85/390 (21%)
Query: 17 PGIRSNLKRSLATIDEQVFNTHSLEGAWRKMVFGVCFFHAVIQERKKFGPLGWNILYEFN 76
PG+++NL + I + E + ++ F + +FHA+IQER ++ PLGW +EFN
Sbjct: 2757 PGVKANLLHTFIGIPATRMDKQPAERS--RIYFLLAWFHAIIQERLRYIPLGWTKFFEFN 2814
Query: 77 DSDLECALGTLKMYC----------AQDTIPWEALTYTFGEVNYGGRVTDYWDQRTLKTI 126
D+DL AL ++ + D IPW A+ G YGGR+ + +D R L +
Sbjct: 2815 DADLRGALDSIDYWVDLYSKGRSNIDPDKIPWIAVRTILGSTIYGGRIDNEFDMRLLYSF 2874
Query: 127 LLTYFGFHTLAPDYVYSASGTYYCPETEECNTLEMYREFVXXXXXXXXXXXFGMHDNANI 186
L F PD+ S P E T + +++ G+ +NA
Sbjct: 2875 LEQLFTPSAFNPDFPLVPSIGLSVP---EGTTRAHFMKWIEALPEISTPIWLGLPENAES 2931
Query: 187 AFQMKETKNVIQTIMEVQPREGGSSEGKSPDELV-------------------------- 220
+ + +I + ++Q SSE D+ V
Sbjct: 2932 LLLSNKARKMINDLQKMQ-----SSEEDGEDDQVSGSSKKESSSSSSEDKGKAKLRATIT 2986
Query: 221 ---------LEQCDSVIERIK------------------TKIDKDNAHPSLLEKGNRTCQ 253
L+Q + IK KI D A+ L GN
Sbjct: 2987 EWTKLLPKPLKQLKRTTQNIKDPLFRCFEREISTGGKLVKKITNDLANLLELISGNIKST 3046
Query: 254 VYL----------IVPKLWSAKCYPSLKSLGSWIKDLALRIDFIAVWLNHG--PPVSFWI 301
YL IVPK W P SL WI D + R+ ++ + W+
Sbjct: 3047 NYLRSLTTSISKGIVPKEWKWYSVPETISLSVWISDFSKRMQQLSEISESSDYSSIQVWL 3106
Query: 302 SGFFFPQGFMTGCLQTHARRHDIAIDTLKI 331
G P+ ++T Q+ ++ + +++ L++
Sbjct: 3107 GGLLNPEAYITATRQSASQLNGWSLENLRL 3136
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 95.1 bits (235), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 88/390 (22%), Positives = 146/390 (37%), Gaps = 85/390 (21%)
Query: 17 PGIRSNLKRSLATIDEQVFNTHSLEGAWRKMVFGVCFFHAVIQERKKFGPLGWNILYEFN 76
PG+++NL + I + E + ++ F + +FHA+IQER ++ PLGW +EFN
Sbjct: 2879 PGVKANLLHTFIGIPATRMDKQPAERS--RIYFLLAWFHAIIQERLRYIPLGWTKFFEFN 2936
Query: 77 DSDLECALGTLKMYC----------AQDTIPWEALTYTFGEVNYGGRVTDYWDQRTLKTI 126
D+DL AL ++ + D IPW A+ G YGGR+ + +D R L +
Sbjct: 2937 DADLRGALDSIDYWVDLYSKGRSNIDPDKIPWIAVRTILGSTIYGGRIDNEFDMRLLYSF 2996
Query: 127 LLTYFGFHTLAPDYVYSASGTYYCPETEECNTLEMYREFVXXXXXXXXXXXFGMHDNANI 186
L F PD+ S P E T + +++ G+ +NA
Sbjct: 2997 LEQLFTPSAFNPDFPLVPSIGLSVP---EGTTRAHFMKWIEALPEISTPIWLGLPENAES 3053
Query: 187 AFQMKETKNVIQTIMEVQPREGGSSEGKSPDELV-------------------------- 220
+ + +I + ++Q SSE D+ V
Sbjct: 3054 LLLSNKARKMINDLQKMQ-----SSEEDGEDDQVSGSSKKESSSSSSEDKGKAKLRATIT 3108
Query: 221 ---------LEQCDSVIERIK------------------TKIDKDNAHPSLLEKGNRTCQ 253
L+Q + IK KI D A+ L GN
Sbjct: 3109 EWTKLLPKPLKQLKRTTQNIKDPLFRCFEREISTGGKLVKKITNDLANLLELISGNIKST 3168
Query: 254 VYL----------IVPKLWSAKCYPSLKSLGSWIKDLALRIDFIAVWLNHG--PPVSFWI 301
YL IVPK W P SL WI D + R+ ++ + W+
Sbjct: 3169 NYLRSLTTSISKGIVPKEWKWYSVPETISLSVWISDFSKRMQQLSEISESSDYSSIQVWL 3228
Query: 302 SGFFFPQGFMTGCLQTHARRHDIAIDTLKI 331
G P+ ++T Q+ ++ + +++ L++
Sbjct: 3229 GGLLNPEAYITATRQSASQLNGWSLENLRL 3258
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 43/89 (48%), Gaps = 4/89 (4%)
Query: 35 FNTHSLEGAWRKM-VFGVCFFHAVIQERKKFGPLGWNILYEFNDSDLECALGTLKMYCAQ 93
F T + G W F + +FHA+I R + P G++ Y FND D + A L+ A
Sbjct: 2309 FFTGKISGVWSVYCTFLLSWFHALITARTRLVPHGFSKKYYFNDCDFQFASVYLENVLAT 2368
Query: 94 DT---IPWEALTYTFGEVNYGGRVTDYWD 119
++ IPW + + YGG++ + D
Sbjct: 2369 NSTNNIPWAQVRDHIATIVYGGKIDEEKD 2397
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 43/89 (48%), Gaps = 4/89 (4%)
Query: 35 FNTHSLEGAWRKM-VFGVCFFHAVIQERKKFGPLGWNILYEFNDSDLECALGTLKMYCAQ 93
F T + G W F + +FHA+I R + P G++ Y FND D + A L+ A
Sbjct: 2518 FFTGKISGVWSVYCTFLLSWFHALITARTRLVPHGFSKKYYFNDCDFQFASVYLENVLAT 2577
Query: 94 DT---IPWEALTYTFGEVNYGGRVTDYWD 119
++ IPW + + YGG++ + D
Sbjct: 2578 NSTNNIPWAQVRDHIATIVYGGKIDEEKD 2606
>pdb|1S7K|A Chain A, Riml- Ribosomal L7L12 ALPHA-N-Protein Acetyltransferase
Crystal Form 2 (Apo)
pdb|1S7L|A Chain A, Riml- Ribosomal L7L12 ALPHA-N-Protein Acetyltransferase In
Complex With Coenzyme A (Coa-Cys134 Disulfide)
pdb|1S7N|A Chain A, Ribosomal L7L12 ALPHA-N-Protein Acetyltransferase In
Complex With Coenzyme A (Coa Free Sulfhydryl)
pdb|1S7N|B Chain B, Ribosomal L7L12 ALPHA-N-Protein Acetyltransferase In
Complex With Coenzyme A (Coa Free Sulfhydryl)
pdb|1S7N|C Chain C, Ribosomal L7L12 ALPHA-N-Protein Acetyltransferase In
Complex With Coenzyme A (Coa Free Sulfhydryl)
pdb|1S7N|D Chain D, Ribosomal L7L12 ALPHA-N-Protein Acetyltransferase In
Complex With Coenzyme A (Coa Free Sulfhydryl)
Length = 182
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 6/63 (9%)
Query: 291 LNHGPPVSFWISGFFFPQGFMTGCLQ---TH-ARRHDIA--IDTLKIDFQMTNVVLSQEE 344
+N + +W+ F QG M+ LQ TH ARR DI + ++D Q +N V +
Sbjct: 93 INKAAYIGYWLDESFQGQGIMSQSLQALMTHYARRGDIRRFVIKCRVDNQASNAVARRNH 152
Query: 345 IEL 347
L
Sbjct: 153 FTL 155
>pdb|1Z9U|A Chain A, Structural Genomics, The Crystal Structure Of The Acetyl
Transferase, Modifies N-Terminal Serine Of 50s Ribosomal
Subunit Protein L7L12 From Salmonella Typhimurium
pdb|1Z9U|B Chain B, Structural Genomics, The Crystal Structure Of The Acetyl
Transferase, Modifies N-Terminal Serine Of 50s Ribosomal
Subunit Protein L7L12 From Salmonella Typhimurium
Length = 179
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 6/63 (9%)
Query: 291 LNHGPPVSFWISGFFFPQGFMTGCLQ---TH-ARRHDIA--IDTLKIDFQMTNVVLSQEE 344
+N + +W+ F QG M+ LQ TH ARR DI + ++D Q +N V +
Sbjct: 90 INKAAYIGYWLDESFQGQGIMSQSLQALMTHYARRGDIRRFVIKCRVDNQASNAVARRNH 149
Query: 345 IEL 347
L
Sbjct: 150 FTL 152
>pdb|1S7F|A Chain A, Riml- Ribosomal L7L12 ALPHA-N-Protein Acetyltransferase
Crystal Form I (Apo)
Length = 199
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 6/63 (9%)
Query: 291 LNHGPPVSFWISGFFFPQGFMTGCLQ---TH-ARRHDIA--IDTLKIDFQMTNVVLSQEE 344
+N + +W+ F QG M+ LQ TH ARR DI + ++D Q +N V +
Sbjct: 110 INKAAYIGYWLDESFQGQGIMSQSLQALMTHYARRGDIRRFVIKCRVDNQASNAVARRNH 169
Query: 345 IEL 347
L
Sbjct: 170 FTL 172
>pdb|4AEE|A Chain A, Crystal Structure Of Maltogenic Amylase From S.Marinus
pdb|4AEE|B Chain B, Crystal Structure Of Maltogenic Amylase From S.Marinus
Length = 696
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 32/61 (52%), Gaps = 5/61 (8%)
Query: 236 DKDNAHPSLLEKGNRTCQVYLIVPKLWSAKCYPSLKSLGS---WIKDLALRIDFIAVWLN 292
D DN P + ++GN ++Y + KL + Y S +S+ +++L + FI W+N
Sbjct: 579 DPDNRRPMIWDRGNWDLELYEHIKKL--IRIYKSCRSMRHGYFLVENLGSNLLFIKRWIN 636
Query: 293 H 293
+
Sbjct: 637 N 637
>pdb|3I6D|A Chain A, Crystal Structure Of Ppo From Bacillus Subtilis With Af
pdb|3I6D|B Chain B, Crystal Structure Of Ppo From Bacillus Subtilis With Af
Length = 470
Score = 28.1 bits (61), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 34/63 (53%), Gaps = 4/63 (6%)
Query: 199 TIMEVQPREGGSSEGKSPDELVLEQC-DSVIERIKT--KIDKDNAHPSLLEKGNRTCQVY 255
T++E PR GG + D ++E+ DS +ER K+ ++ KD LL N T Q Y
Sbjct: 38 TLVEASPRVGGKIQTVKKDGYIIERGPDSFLERKKSAPQLVKDLGLEHLLVN-NATGQSY 96
Query: 256 LIV 258
++V
Sbjct: 97 VLV 99
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
0.322 0.137 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,079,002
Number of Sequences: 62578
Number of extensions: 450653
Number of successful extensions: 881
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 871
Number of HSP's gapped (non-prelim): 12
length of query: 362
length of database: 14,973,337
effective HSP length: 100
effective length of query: 262
effective length of database: 8,715,537
effective search space: 2283470694
effective search space used: 2283470694
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)