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= psy12734
(217 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 = 73.2 bits (178), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 40/155 (25%), Positives = 74/155 (47%), Gaps = 1/155 (0%)
Query: 3 KYVGAMTERQKLQEETDIMMRRLEAADKLISGLGREKIRWTADLATLEQNRNQLIGACLL 62
+Y + E ++++ E+ + +++ + L+ L E+ RW + ++G +L
Sbjct: 2050 EYATLIRETEQIKTESSKVKNKVDRSIALLDNLNSERGRWEQQSENFNTQMSTVVGDVVL 2109
Query: 63 SGAFLCYTSAFTWEFRQQMVYVDWQSNITKLSIPIVSDFRLEKELCDDVMISQWNSEGLP 122
+ AFL Y F FR ++ W + + I SD + L W++ LP
Sbjct: 2110 ASAFLAYIGFFDQNFRTDLMR-KWMIRLDSVGIKFKSDLSVPSFLSKPEERLNWHANSLP 2168
Query: 123 PDELSIQNGILSTRGCHFPLCIDPQTQALKWIRNR 157
DEL I+N I+ R +PL IDP QA++++ N+
Sbjct: 2169 SDELCIENAIMLKRFNRYPLVIDPSGQAMEFLMNQ 2203
>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 = 73.2 bits (178), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 40/155 (25%), Positives = 74/155 (47%), Gaps = 1/155 (0%)
Query: 3 KYVGAMTERQKLQEETDIMMRRLEAADKLISGLGREKIRWTADLATLEQNRNQLIGACLL 62
+Y + E ++++ E+ + +++ + L+ L E+ RW + ++G +L
Sbjct: 2172 EYATLIRETEQIKTESSKVKNKVDRSIALLDNLNSERGRWEQQSENFNTQMSTVVGDVVL 2231
Query: 63 SGAFLCYTSAFTWEFRQQMVYVDWQSNITKLSIPIVSDFRLEKELCDDVMISQWNSEGLP 122
+ AFL Y F FR ++ W + + I SD + L W++ LP
Sbjct: 2232 ASAFLAYIGFFDQNFRTDLMR-KWMIRLDSVGIKFKSDLSVPSFLSKPEERLNWHANSLP 2290
Query: 123 PDELSIQNGILSTRGCHFPLCIDPQTQALKWIRNR 157
DEL I+N I+ R +PL IDP QA++++ N+
Sbjct: 2291 SDELCIENAIMLKRFNRYPLVIDPSGQAMEFLMNQ 2325
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 31/134 (23%), Positives = 56/134 (41%), Gaps = 6/134 (4%)
Query: 26 EAADKLISGLGREKIRWTADLATLEQNRNQLIGACLLSGAFLCYTSAFTWEFRQQMVYVD 85
EA+ L+ L EK RW + +LIG C++S + Y R M+ +
Sbjct: 1684 EASISLVKSLTFEKERWLNTTKQFSKTSQELIGNCIISSIYETYFGHLNERERGDMLVI- 1742
Query: 86 WQSNITKLSIPIVSDFRLEKELC--DDVMISQWNSEGLPPDELSIQN-GILSTRGCHFPL 142
+ + K ++ ++R L D+ M +W GL ++ ++N I+ P
Sbjct: 1743 LKRLLGKFAVKYDVNYRFIDYLVTLDEKM--KWLECGLDKNDYFLENMSIVMNSQDAVPF 1800
Query: 143 CIDPQTQALKWIRN 156
+DP + + I N
Sbjct: 1801 LLDPSSHMITVISN 1814
>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 = 35.0 bits (79), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 29/129 (22%), Positives = 53/129 (41%), Gaps = 6/129 (4%)
Query: 31 LISGLGREKIRWTADLATLEQNRNQLIGACLLSGAFLCYTSAFTWEFRQQMVYVDWQSNI 90
L+ L EK RW + +LIG C++S + Y R M+ + + +
Sbjct: 1898 LVKSLTFEKERWLNTTKQFSKTSQELIGNCIISSIYETYFGHLNERERADMLVI-LKRLL 1956
Query: 91 TKLSIPIVSDFRLEKELC--DDVMISQWNSEGLPPDELSIQN-GILSTRGCHFPLCIDPQ 147
K ++ ++R L D+ M +W GL ++ ++N I+ P +DP
Sbjct: 1957 GKFAVKYDVNYRFIDYLVTLDEKM--KWLECGLDKNDYFLENMSIVMNSQDAVPFLLDPS 2014
Query: 148 TQALKWIRN 156
+ + I N
Sbjct: 2015 SHMITVISN 2023
>pdb|4EIV|A Chain A, 1.37 Angstrom Resolution Crystal Structure Of Apo-Form Of
A Putative Deoxyribose-Phosphate Aldolase From
Toxoplasma Gondii Me49
pdb|4EIV|B Chain B, 1.37 Angstrom Resolution Crystal Structure Of Apo-Form Of
A Putative Deoxyribose-Phosphate Aldolase From
Toxoplasma Gondii Me49
Length = 297
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 72 AFTWEFRQQMVYVDWQSNITKLSIPIVSDFRLEKELCDDVMISQWNSEGLPPD 124
A T +F QM++ + +I + + F L KEL D W+S G+ PD
Sbjct: 244 AETADFLMQMIFENGPRSIVRDKFRVGGGFNLLKELRD--CYESWDSVGVSPD 294
>pdb|1Q2X|A Chain A, Crystal Structure Of The E243d Mutant Of Aspartate
Semialdehyde Dehydrogenase From Haemophilus Influenzae
Bound With Substrate Aspartate Semialdehyde
pdb|1Q2X|B Chain B, Crystal Structure Of The E243d Mutant Of Aspartate
Semialdehyde Dehydrogenase From Haemophilus Influenzae
Bound With Substrate Aspartate Semialdehyde
Length = 371
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 29 DKLISGLGREKIRW-----TADLATLEQNRNQLIGACLLSGAFLCYTSAFTWEFRQQM 81
DKL+ G+ K W T + L N + G C+ GA C++ AFT + ++ +
Sbjct: 232 DKLLPETGQTKDEWKGYAETNKILGLSDNPIPVDGLCVRIGALRCHSQAFTIKLKKDL 289
>pdb|1PR3|A Chain A, Crystal Structure Of The R103k Mutant Of Aspartate
Semialdehyde Dehydrogenase From Haemophilus Influenzae
Length = 371
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 29 DKLISGLGREKIRW-----TADLATLEQNRNQLIGACLLSGAFLCYTSAFTWEFRQQM 81
DKL+ G+ K W T + L N + G C+ GA C++ AFT + ++ +
Sbjct: 232 DKLLPETGQTKEEWKGYAETNKILGLSDNPIPVDGLCVRIGALRCHSQAFTIKLKKDL 289
>pdb|1PS8|A Chain A, Crystal Structure Of The R270k Mutant Of Aspartate
Semialdehyde Dehydrogenase From Haemophilus Influenzae
Length = 371
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 29 DKLISGLGREKIRW-----TADLATLEQNRNQLIGACLLSGAFLCYTSAFTWEFRQQM 81
DKL+ G+ K W T + L N + G C+ GA C++ AFT + ++ +
Sbjct: 232 DKLLPETGQTKEEWKGYAETNKILGLSDNPIPVDGLCVKIGALRCHSQAFTIKLKKDL 289
>pdb|1NWC|A Chain A, Crystal Structure Of Aspartate-Semialdehyde Dehydrogenase
From Haemophilus Influenzae
pdb|1NWC|B Chain B, Crystal Structure Of Aspartate-Semialdehyde Dehydrogenase
From Haemophilus Influenzae
pdb|1TA4|A Chain A, Crystal Structure Of Aspartate-Semialdehyde Dehydrogenase
From Haemophilus Influenzae With A Bound Arsenate
pdb|1TB4|A Chain A, Crystal Structure Of Aspartate-Semialdehyde Dehydrogenase
From Haemophilus Influenzae With A Bound Periodate
Length = 371
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 29 DKLISGLGREKIRW-----TADLATLEQNRNQLIGACLLSGAFLCYTSAFTWEFRQQM 81
DKL+ G+ K W T + L N + G C+ GA C++ AFT + ++ +
Sbjct: 232 DKLLPETGQTKEEWKGYAETNKILGLSDNPIPVDGLCVRIGALRCHSQAFTIKLKKDL 289
>pdb|1PQP|A Chain A, Crystal Structure Of The C136s Mutant Of Aspartate
Semialdehyde Dehydrogenase From Haemophilus Influenzae
Bound With Aspartate Semialdehyde And Phosphate
Length = 371
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 29 DKLISGLGREKIRW-----TADLATLEQNRNQLIGACLLSGAFLCYTSAFTWEFRQQM 81
DKL+ G+ K W T + L N + G C+ GA C++ AFT + ++ +
Sbjct: 232 DKLLPETGQTKEEWKGYAETNKILGLSDNPIPVDGLCVRIGALRCHSQAFTIKLKKDL 289
>pdb|1OZA|A Chain A, Crystal Structure Of The R103l Mutant Of Aspartate
Semialdehyde Dehydrogenase From Haemophilus Influenzae
Length = 371
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 29 DKLISGLGREKIRW-----TADLATLEQNRNQLIGACLLSGAFLCYTSAFTWEFRQQM 81
DKL+ G+ K W T + L N + G C+ GA C++ AFT + ++ +
Sbjct: 232 DKLLPETGQTKEEWKGYAETNKILGLSDNPIPVDGLCVRIGALRCHSQAFTIKLKKDL 289
>pdb|1NWH|A Chain A, Crystal Structure Of Aspartate Semialdehyde Dehydrogenase
From Haemophilus Influenzae As A Tetrahedral
Hemithioacetal Reaction Intermediate At 2.0 A
pdb|1NWH|B Chain B, Crystal Structure Of Aspartate Semialdehyde Dehydrogenase
From Haemophilus Influenzae As A Tetrahedral
Hemithioacetal Reaction Intermediate At 2.0 A
pdb|1NX6|A Chain A, Crystal Structure Of Aspartate Semialdehyde Dehydrogenase
From Haemophilus Influenzae As A Tetrahedral
Hemithiocetal Reaction Intermediate With Phosphate At
2.15 A
Length = 371
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 29 DKLISGLGREKIRW-----TADLATLEQNRNQLIGACLLSGAFLCYTSAFTWEFRQQM 81
DKL+ G+ K W T + L N + G C+ GA C++ AFT + ++ +
Sbjct: 232 DKLLPETGQTKEEWKGYAETNKILGLSDNPIPVDGLCVRIGALRCHSQAFTIKLKKDL 289
>pdb|1PU2|A Chain A, Crystal Structure Of The K246r Mutant Of Aspartate
Semialdehyde Dehydrogenase From Haemophilus Influenzae
Length = 371
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 29 DKLISGLGREKIRW-----TADLATLEQNRNQLIGACLLSGAFLCYTSAFTWEFRQQM 81
DKL+ G+ K W T + L N + G C+ GA C++ AFT + ++ +
Sbjct: 232 DKLLPETGQTKEEWRGYAETNKILGLSDNPIPVDGLCVRIGALRCHSQAFTIKLKKDL 289
>pdb|3HIP|A Chain A, High-Potential Iron-Sulfur Protein From Chromatium
Purpuratum
pdb|3HIP|B Chain B, High-Potential Iron-Sulfur Protein From Chromatium
Purpuratum
pdb|3HIP|C Chain C, High-Potential Iron-Sulfur Protein From Chromatium
Purpuratum
Length = 82
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 10/58 (17%)
Query: 145 DPQTQALKWIRNREDKNNLKWNSEGLPPDELSIQNGILSTRGCHFPLCIDPQTQALKW 202
DP ALK+ R+ + GLPP+E +N C F ++P + A W
Sbjct: 10 DPAAVALKYHRDAASSERVAAARPGLPPEEQHCEN-------CQF---MNPDSAAADW 57
>pdb|3IVR|A Chain A, Crystal Structure Of Putative Long-Chain-Fatty-Acid Coa
Ligase From Rhodopseudomonas Palustris Cga009
pdb|3IVR|B Chain B, Crystal Structure Of Putative Long-Chain-Fatty-Acid Coa
Ligase From Rhodopseudomonas Palustris Cga009
Length = 509
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 25 LEAADKLISGLGREKIRWTADLATLEQNRN---QLIGACLLSGAFL 67
L A++L SGL R+ + +A L QN + +LIGA L GA L
Sbjct: 38 LARAERLASGLLRDGVHTGDRVAILSQNCSEMIELIGAVALIGAIL 83
>pdb|2G8F|A Chain A, B. Halodurans Rnase H Catalytic Domain E188a Mutant In
Complex With Mg2+ And RnaDNA HYBRID (NON-P Nick At The
Active Site)
pdb|2G8V|A Chain A, B. Halodurans Rnase H Catalytic Domain E188a Mutant In
Complex With Mg2+ And Rna/dna Hybrid (reaction Product)
pdb|2G8W|A Chain A, B. Halodurans Rnase H Catalytic Domain E188a Mutant In
Complex With Ca2+ And RnaDNA HYBRID
Length = 142
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 27/45 (60%), Gaps = 3/45 (6%)
Query: 126 LSIQNGI--LSTRGCHFPLCIDPQTQALKWIRNREDKNNLKWNSE 168
L+I +G+ L R P+ D QT A+KW+++++ K+ L N E
Sbjct: 57 LAIVHGLRYLKERNSRKPIYSDSQT-AIKWVKDKKAKSTLVRNEE 100
>pdb|1ZBL|A Chain A, Bacillus Halodurans Rnase H Catalytic Domain Mutant D192n
In Complex With 12-Mer RnaDNA HYBRID
pdb|1ZBL|B Chain B, Bacillus Halodurans Rnase H Catalytic Domain Mutant D192n
In Complex With 12-Mer RnaDNA HYBRID
Length = 139
Score = 26.9 bits (58), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 27/45 (60%), Gaps = 3/45 (6%)
Query: 126 LSIQNGI--LSTRGCHFPLCIDPQTQALKWIRNREDKNNLKWNSE 168
L+I +G+ L R P+ D QT A+KW+++++ K+ L N E
Sbjct: 57 LAIVHGLRYLKERNSRKPIYSDSQT-AIKWVKDKKAKSTLVRNEE 100
>pdb|2G8H|A Chain A, B. Halodurans Rnase H Catalytic Domain D192n Mutant In
Complex With Mg2+ And RnaDNA HYBRID (NON-P Nick At The
Active Site)
pdb|2G8I|A Chain A, B. Halodurans Rnase H Catalytic Domain D192n Mutant In
Complex With Mn2+ And RnaDNA HYBRID (NON-P Nick At The
Active Site)
pdb|2G8K|A Chain A, B. Halodurans Rnase H Catalytic Domain D192n Mutant In
Complex With Ca2+ And RnaDNA HYBRID (NON-P Nick At The
Active Site)
Length = 142
Score = 26.9 bits (58), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 27/45 (60%), Gaps = 3/45 (6%)
Query: 126 LSIQNGI--LSTRGCHFPLCIDPQTQALKWIRNREDKNNLKWNSE 168
L+I +G+ L R P+ D QT A+KW+++++ K+ L N E
Sbjct: 57 LAIVHGLRYLKERNSRKPIYSDSQT-AIKWVKDKKAKSTLVRNEE 100
>pdb|1PQU|A Chain A, Crystal Structure Of The H277n Mutant Of Aspartate
Semialdehyde Dehydrogenase From Haemophilus Influenzae
Bound With Nadp, S-Methyl Cysteine Sulfoxide And
Cacodylate
pdb|1PQU|B Chain B, Crystal Structure Of The H277n Mutant Of Aspartate
Semialdehyde Dehydrogenase From Haemophilus Influenzae
Bound With Nadp, S-Methyl Cysteine Sulfoxide And
Cacodylate
pdb|1PQU|C Chain C, Crystal Structure Of The H277n Mutant Of Aspartate
Semialdehyde Dehydrogenase From Haemophilus Influenzae
Bound With Nadp, S-Methyl Cysteine Sulfoxide And
Cacodylate
pdb|1PQU|D Chain D, Crystal Structure Of The H277n Mutant Of Aspartate
Semialdehyde Dehydrogenase From Haemophilus Influenzae
Bound With Nadp, S-Methyl Cysteine Sulfoxide And
Cacodylate
Length = 371
Score = 26.9 bits (58), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 5/58 (8%)
Query: 29 DKLISGLGREKIRW-----TADLATLEQNRNQLIGACLLSGAFLCYTSAFTWEFRQQM 81
DKL+ G+ K W T + L N + G C+ GA C + AFT + ++ +
Sbjct: 232 DKLLPETGQTKEEWKGYAETNKILGLSDNPIPVDGLCVRIGALRCNSQAFTIKLKKDL 289
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
0.319 0.135 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,641,083
Number of Sequences: 62578
Number of extensions: 262039
Number of successful extensions: 521
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 511
Number of HSP's gapped (non-prelim): 24
length of query: 217
length of database: 14,973,337
effective HSP length: 95
effective length of query: 122
effective length of database: 9,028,427
effective search space: 1101468094
effective search space used: 1101468094
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)