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= psy12682
(755 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 = 233 bits (595), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 164/599 (27%), Positives = 286/599 (47%), Gaps = 37/599 (6%)
Query: 2 KQIFKSGAGWSIKLGDTVIEYNDNFKFYITTKLRNPHYLPEIAVKVTLLNFMITPVGLAD 61
K+I K G I+LGD ++++ +F ++ T+ H+ P++ +VT +NF +TP L
Sbjct: 2251 KEIRKKGGRILIRLGDQDVDFSPSFMIFLFTRDPTAHFTPDLCSRVTFVNFTVTPSSLQS 2310
Query: 62 QLLGTVVAKDRPDLEAEKNQLIVQGADNKRQLKEIEDKILQILSSSEGNILEDESAIQVL 121
Q L + +RPD +++ L+ + + +L+ +E +L LS + GNIL+D+S I L
Sbjct: 2311 QCLHEALKTERPDTHKKRSDLLKIQGEFQVKLRILEKSLLNALSQASGNILDDDSVISTL 2370
Query: 122 SSSKVLSNEIQEKQAVAEVTEKSIDAARLEYTPIAAHSTVLFFCIANLGNIDPMYQYSLV 181
+ K + EI K E + I Y P+A + ++F + L +YQ+SL
Sbjct: 2371 ETLKKETTEIALKVEETETVMQEISEVSALYNPMALSCSRVYFAMEELSQFH-LYQFSLR 2429
Query: 182 WF-DNLYRMAIDNTEKAD--NVPQRIEDLSGYFTYSLYTNICRSIFEKDKLLFSLILAV- 237
F D Y + +N D + +R+ LS + + R++ DKL F+L L +
Sbjct: 2430 AFLDIFYNLLNNNPNLVDKKDPNERLVYLSKDIFSMTFNRVTRTLLNDDKLTFALQLTII 2489
Query: 238 NLRFKAETISMENWMFLLTGGVGLDN-----PHKNPTTWMVTQSWDELCRLDELQEFKGI 292
+++ + I W FLL GG L + P + Q W +C ++ F +
Sbjct: 2490 SVKGTSNEIEESEWDFLLKGGDNLTSIKETIPQLDSLLSTTQQKW-LICLRQQVPSFSKL 2548
Query: 293 RDHFTAKHQEWKQIYXXXXX-----------XXXXXXXXXXXKLDVFQKLCVLRCIRFDK 341
DH +WKQ + + F+K+ +++ D+
Sbjct: 2549 VDHIQQNSSDWKQFFGKDQVGEPIIPESWIVAQAQLSNQQSTIVSNFRKILLMKAFHSDR 2608
Query: 342 VVPAIQNFVIHDLGQKFVEPPPFDIVSSYNDSV-CTVPLIFLLTPGADPTAVLLKFADDM 400
V+ +FV G+ F+ D+ + V + PL+ PG D ++ + DD+
Sbjct: 2609 VLQYSHSFVCSVFGEDFLNTQELDMANIVEKEVKSSSPLLLCSVPGYDASSKV----DDL 2664
Query: 401 GFGGSK-FSALSLGQGQG-PIAVKLINDGLKKGDWVLLQNCHLAKSWMPVLEKMCESLSP 458
K + + ++G +G +A K I K G WVLL+N HLA W+ LEK SLSP
Sbjct: 2665 ALQLHKQYKSFAIGSPEGFELAEKSIYAAAKSGTWVLLKNIHLAPQWLVQLEKKLHSLSP 2724
Query: 459 ETTHPDFRLWLTSYPSNLFPVSVLQNGVKITNEPPKGLRANINRSYLSDPISNPEFYNSC 518
HP FRL++TS P ++L+ + E P G++AN+ +++ P + +
Sbjct: 2725 ---HPSFRLFMTSEIHPALPANLLRMSNVFSYENPPGVKANLLHTFIGIPATRMD----- 2776
Query: 519 QQPERFRKLLFNLCFFHALILERIKFGPLGWNIQYQFNETDLKISLVQLKMFLDQYSEA 577
+QP ++ F L +FHA+I ER+++ PLGW ++FN+ DL+ +L + ++D YS+
Sbjct: 2777 KQPAERSRIYFLLAWFHAIIQERLRYIPLGWTKFFEFNDADLRGALDSIDYWVDLYSKG 2835
>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 = 233 bits (595), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 164/599 (27%), Positives = 286/599 (47%), Gaps = 37/599 (6%)
Query: 2 KQIFKSGAGWSIKLGDTVIEYNDNFKFYITTKLRNPHYLPEIAVKVTLLNFMITPVGLAD 61
K+I K G I+LGD ++++ +F ++ T+ H+ P++ +VT +NF +TP L
Sbjct: 2373 KEIRKKGGRILIRLGDQDVDFSPSFMIFLFTRDPTAHFTPDLCSRVTFVNFTVTPSSLQS 2432
Query: 62 QLLGTVVAKDRPDLEAEKNQLIVQGADNKRQLKEIEDKILQILSSSEGNILEDESAIQVL 121
Q L + +RPD +++ L+ + + +L+ +E +L LS + GNIL+D+S I L
Sbjct: 2433 QCLHEALKTERPDTHKKRSDLLKIQGEFQVKLRILEKSLLNALSQASGNILDDDSVISTL 2492
Query: 122 SSSKVLSNEIQEKQAVAEVTEKSIDAARLEYTPIAAHSTVLFFCIANLGNIDPMYQYSLV 181
+ K + EI K E + I Y P+A + ++F + L +YQ+SL
Sbjct: 2493 ETLKKETTEIALKVEETETVMQEISEVSALYNPMALSCSRVYFAMEELSQFH-LYQFSLR 2551
Query: 182 WF-DNLYRMAIDNTEKAD--NVPQRIEDLSGYFTYSLYTNICRSIFEKDKLLFSLILAV- 237
F D Y + +N D + +R+ LS + + R++ DKL F+L L +
Sbjct: 2552 AFLDIFYNLLNNNPNLVDKKDPNERLVYLSKDIFSMTFNRVTRTLLNDDKLTFALQLTII 2611
Query: 238 NLRFKAETISMENWMFLLTGGVGLDN-----PHKNPTTWMVTQSWDELCRLDELQEFKGI 292
+++ + I W FLL GG L + P + Q W +C ++ F +
Sbjct: 2612 SVKGTSNEIEESEWDFLLKGGDNLTSIKETIPQLDSLLSTTQQKW-LICLRQQVPSFSKL 2670
Query: 293 RDHFTAKHQEWKQIYXXXXX-----------XXXXXXXXXXXKLDVFQKLCVLRCIRFDK 341
DH +WKQ + + F+K+ +++ D+
Sbjct: 2671 VDHIQQNSSDWKQFFGKDQVGEPIIPESWIVAQAQLSNQQSTIVSNFRKILLMKAFHSDR 2730
Query: 342 VVPAIQNFVIHDLGQKFVEPPPFDIVSSYNDSV-CTVPLIFLLTPGADPTAVLLKFADDM 400
V+ +FV G+ F+ D+ + V + PL+ PG D ++ + DD+
Sbjct: 2731 VLQYSHSFVCSVFGEDFLNTQELDMANIVEKEVKSSSPLLLCSVPGYDASSKV----DDL 2786
Query: 401 GFGGSK-FSALSLGQGQG-PIAVKLINDGLKKGDWVLLQNCHLAKSWMPVLEKMCESLSP 458
K + + ++G +G +A K I K G WVLL+N HLA W+ LEK SLSP
Sbjct: 2787 ALQLHKQYKSFAIGSPEGFELAEKSIYAAAKSGTWVLLKNIHLAPQWLVQLEKKLHSLSP 2846
Query: 459 ETTHPDFRLWLTSYPSNLFPVSVLQNGVKITNEPPKGLRANINRSYLSDPISNPEFYNSC 518
HP FRL++TS P ++L+ + E P G++AN+ +++ P + +
Sbjct: 2847 ---HPSFRLFMTSEIHPALPANLLRMSNVFSYENPPGVKANLLHTFIGIPATRMD----- 2898
Query: 519 QQPERFRKLLFNLCFFHALILERIKFGPLGWNIQYQFNETDLKISLVQLKMFLDQYSEA 577
+QP ++ F L +FHA+I ER+++ PLGW ++FN+ DL+ +L + ++D YS+
Sbjct: 2899 KQPAERSRIYFLLAWFHAIIQERLRYIPLGWTKFFEFNDADLRGALDSIDYWVDLYSKG 2957
>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 = 64.7 bits (156), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 47/252 (18%), Positives = 122/252 (48%), Gaps = 1/252 (0%)
Query: 7 SGAGWSIKLGDTVIEYNDNFKFYITTKLRNPHYLPEIAVKVTLLNFMITPVGLADQLLGT 66
+G ++++GD ++ + +FK +I + + + +V L++F+ + ++
Sbjct: 2076 AGNRVTVEIGDHEVDVSGDFKLFIHSCDPSGDIPIFLRSRVRLVHFVTNKESIETRIFDI 2135
Query: 67 VVAKDRPDLEAEKNQLIVQGADNKRQLKEIEDKILQILSSSEGNILEDESAIQVLSSSKV 126
+ ++ +++ ++ LI + K +LK +E ++L+ L++S+GN+LE++ + L++ K
Sbjct: 2136 TLTEENAEMQRKREDLIKLNTEYKLKLKNLEKRLLEELNNSQGNMLENDELMVTLNNLKK 2195
Query: 127 LSNEIQEKQAVAEVTEKSIDAARLEYTPIAAHSTVLFFCIANLGNIDPMYQYSLVWFDNL 186
+ I++K + +E D EY+ I HS +F + G Y S+ F +
Sbjct: 2196 EAMNIEKKLSESEEFFPQFDNLVEEYSIIGKHSVKIFSMLEKFGQFHWFYGISIGQFLSC 2255
Query: 187 Y-RMAIDNTEKADNVPQRIEDLSGYFTYSLYTNICRSIFEKDKLLFSLILAVNLRFKAET 245
+ R+ I + + R++++ +Y ++ +K K++ ++ + +F E+
Sbjct: 2256 FKRVFIKKSRETRAARTRVDEILWLLYQEVYCQFSTALDKKFKMIMAMTMFCLYKFDIES 2315
Query: 246 ISMENWMFLLTG 257
+ + + G
Sbjct: 2316 EQYKEAVLTMIG 2327
Score = 53.5 bits (127), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 38/144 (26%), Positives = 65/144 (45%), Gaps = 8/144 (5%)
Query: 430 KGDWVLLQNCHLAKSWMPV-LEKMCESLSPETTHPDFRLWLTSY-PSNLFPVSVLQNGVK 487
+G W+LLQN ++ SW+ L K E H F++++T + + P +LQ +
Sbjct: 2438 EGGWILLQNIQMSLSWVKTYLHKHVEETKAAEEHEKFKMFMTCHLTGDKLPAPLLQRTDR 2497
Query: 488 ITNEPPKGLRANINRSYLSDPISNPEFYNSCQQPERFRKLLFNLCFFHALILERIKFGPL 547
E G+ + + S +F+ F L +FHALI R + P
Sbjct: 2498 FVYEDIPGILDTVKDLWGS------QFFTGKISGVWSVYCTFLLSWFHALITARTRLVPH 2551
Query: 548 GWNIQYQFNETDLKISLVQLKMFL 571
G++ +Y FN+ D + + V L+ L
Sbjct: 2552 GFSKKYYFNDCDFQFASVYLENVL 2575
>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 = 63.9 bits (154), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 46/252 (18%), Positives = 122/252 (48%), Gaps = 1/252 (0%)
Query: 7 SGAGWSIKLGDTVIEYNDNFKFYITTKLRNPHYLPEIAVKVTLLNFMITPVGLADQLLGT 66
+G ++++GD ++ + +FK +I + + + +V L++F+ + ++
Sbjct: 1867 AGNRVTVEIGDHEVDVSGDFKLFIHSCDPSGDIPIFLRSRVRLVHFVTNKESIETRIFDI 1926
Query: 67 VVAKDRPDLEAEKNQLIVQGADNKRQLKEIEDKILQILSSSEGNILEDESAIQVLSSSKV 126
+ ++ +++ ++ LI + + +LK +E ++L+ L++S+GN+LE++ + L++ K
Sbjct: 1927 TLTEENAEMQRKREDLIKLNTEYRLKLKNLEKRLLEELNNSQGNMLENDELMVTLNNLKK 1986
Query: 127 LSNEIQEKQAVAEVTEKSIDAARLEYTPIAAHSTVLFFCIANLGNIDPMYQYSLVWFDNL 186
+ I++K + +E D EY+ I HS +F + G Y S+ F +
Sbjct: 1987 EAMNIEKKLSESEEFFPQFDNLVEEYSIIGKHSVKIFSMLEKFGQFHWFYGISIGQFLSC 2046
Query: 187 Y-RMAIDNTEKADNVPQRIEDLSGYFTYSLYTNICRSIFEKDKLLFSLILAVNLRFKAET 245
+ R+ I + + R++++ +Y ++ +K K++ ++ + +F E+
Sbjct: 2047 FKRVFIKKSRETRAARTRVDEILWLLYQEVYCQFSTALDKKFKMIMAMTMFCLYKFDIES 2106
Query: 246 ISMENWMFLLTG 257
+ + + G
Sbjct: 2107 EQYKEAVLTMIG 2118
Score = 55.1 bits (131), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 38/144 (26%), Positives = 66/144 (45%), Gaps = 8/144 (5%)
Query: 430 KGDWVLLQNCHLAKSWMPV-LEKMCESLSPETTHPDFRLWLTSY-PSNLFPVSVLQNGVK 487
+G W+LLQN ++ SW+ L K E H F++++T + + P +LQ +
Sbjct: 2229 EGGWILLQNIQMSLSWVKTYLHKHVEETKAAEEHEKFKMFMTCHLTGDKLPAPLLQRTDR 2288
Query: 488 ITNEPPKGLRANINRSYLSDPISNPEFYNSCQQPERFRKLLFNLCFFHALILERIKFGPL 547
+ E G+ + + S +F+ F L +FHALI R + P
Sbjct: 2289 VVYEDIPGILDTVKDLWGS------QFFTGKISGVWSVYCTFLLSWFHALITARTRLVPH 2342
Query: 548 GWNIQYQFNETDLKISLVQLKMFL 571
G++ +Y FN+ D + + V L+ L
Sbjct: 2343 GFSKKYYFNDCDFQFASVYLENVL 2366
>pdb|3KE6|A Chain A, The Crystal Structure Of The Rsbu And Rsbw Domains Of
Rv1364c From Mycobacterium Tuberculosis
pdb|3KE6|B Chain B, The Crystal Structure Of The Rsbu And Rsbw Domains Of
Rv1364c From Mycobacterium Tuberculosis
Length = 399
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 30/54 (55%), Gaps = 8/54 (14%)
Query: 364 FDIVSSYN----DSVCTVPLIFLLTPGADPTAVLLKFADDMGFGGSKFSALSLG 413
+DI ++ N ++ +VP++ PGAD A L A+D GG F AL+LG
Sbjct: 13 YDIPTTENLYFQGAMVSVPVV----PGADIAAEYLVAAEDTAAGGDWFDALALG 62
>pdb|4I98|A Chain A, Crystal Structure Of The Complex Between Scpa(residues
1-160)- Scpb(residues 1-183)
Length = 160
Score = 30.0 bits (66), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 278 DELCRLDELQEFKGIRDHFTAKHQEWKQIY 307
D L +++E ++FK + +H AKHQE Q Y
Sbjct: 88 DLLSQIEEYRKFKLLGEHLEAKHQERAQYY 117
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
0.321 0.137 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,422,285
Number of Sequences: 62578
Number of extensions: 927237
Number of successful extensions: 2145
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 2119
Number of HSP's gapped (non-prelim): 14
length of query: 755
length of database: 14,973,337
effective HSP length: 106
effective length of query: 649
effective length of database: 8,340,069
effective search space: 5412704781
effective search space used: 5412704781
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: 55 (25.8 bits)