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= 029679
(189 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2GA8|A Chain A, Crystal Structure Of Yfh7 From Saccharomyces Cerevisiae: A
Putative P-Loop Containing Kinase With A Circular
Permutation.
pdb|2GAA|A Chain A, Crystal Structure Of Yfh7 From Saccharomyces Cerevisiae: A
Putative P-Loop Containing Kinase With A Circular
Permutation
Length = 359
Score = 43.5 bits (101), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 17/32 (53%), Positives = 23/32 (71%)
Query: 150 DVATVLPMDGFHLYLSQLDAMEDPKEAHARRG 181
++A ++PMDGFHL LD +DP+ AH RRG
Sbjct: 154 NIAQIVPMDGFHLSRRCLDLFKDPQTAHKRRG 185
Score = 31.2 bits (69), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 21/31 (67%)
Query: 105 NVKHIVGLAGPPGAGKSTLAAEVVRRINKIW 135
N + V L G PG+GKST+A E+ + IN+ +
Sbjct: 22 NYRVCVILVGSPGSGKSTIAEELXQIINEKY 52
>pdb|2V3C|C Chain C, Crystal Structure Of The Srp54-Srp19-7s.S Srp Rna Complex
Of M. Jannaschii
pdb|2V3C|D Chain D, Crystal Structure Of The Srp54-Srp19-7s.S Srp Rna Complex
Of M. Jannaschii
Length = 432
Score = 33.9 bits (76), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 47/95 (49%), Gaps = 21/95 (22%)
Query: 56 RSLVQNKTSLKVLCSQQREIPVVEARCMDE---------------VYDALAQRLLPTSAL 100
R+L+Q ++K++ +EI E R ++E VY+ L +LL A
Sbjct: 35 RALIQADVNVKLVLKMSKEI---ERRALEEKTPKGLSKKEHIIKIVYEELV-KLLGEEAK 90
Query: 101 ASNVNVK--HIVGLAGPPGAGKSTLAAEVVRRINK 133
+N K +++ L G G+GK+T AA++ R I K
Sbjct: 91 KLELNPKKQNVILLVGIQGSGKTTTAAKLARYIQK 125
>pdb|3NDB|B Chain B, Crystal Structure Of A Signal Sequence Bound To The Signal
Recognition Particle
Length = 454
Score = 33.9 bits (76), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 47/95 (49%), Gaps = 21/95 (22%)
Query: 56 RSLVQNKTSLKVLCSQQREIPVVEARCMDE---------------VYDALAQRLLPTSAL 100
R+L+Q ++K++ +EI E R ++E VY+ L +LL A
Sbjct: 35 RALIQADVNVKLVLKMSKEI---ERRALEEKTPKGLSKKEHIIKIVYEELV-KLLGEEAK 90
Query: 101 ASNVNVK--HIVGLAGPPGAGKSTLAAEVVRRINK 133
+N K +++ L G G+GK+T AA++ R I K
Sbjct: 91 KLELNPKKQNVILLVGIQGSGKTTTAAKLARYIQK 125
>pdb|3C8U|A Chain A, Crystal Structure Of Putative Fructose Transport System
Kinase (Yp_612366.1) From Silicibacter Sp. Tm1040 At
1.95 A Resolution
Length = 208
Score = 33.9 bits (76), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 31/56 (55%), Gaps = 14/56 (25%)
Query: 107 KHIVGLAGPPGAGKSTLAAEVVRRINKIWPQKASSFDSQVKPPDVATVLPMDGFHL 162
+ +V L+G PG+GKSTL+ + A++ +Q P A V+P DGFHL
Sbjct: 22 RQLVALSGAPGSGKSTLSNPL-----------AAALSAQGLP---AEVVPXDGFHL 63
>pdb|1W5S|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp Form)
pdb|1W5S|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp Form)
pdb|1W5T|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
Complexes)
pdb|1W5T|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
Complexes)
pdb|1W5T|C Chain C, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
Complexes)
Length = 412
Score = 31.2 bits (69), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 43/83 (51%), Gaps = 10/83 (12%)
Query: 79 EARCMDEVYDALAQRLLPTSALASNVNVKHIVGLAGPPGAGKSTLAAEVVRRINKIWPQK 138
EA + +Y RLL + L S+VN+ I G G G GK+TLA V+R+++ ++
Sbjct: 30 EAEALARIY---LNRLLSGAGL-SDVNM--IYGSIGRVGIGKTTLAKFTVKRVSEAAAKE 83
Query: 139 A----SSFDSQVKPPDVATVLPM 157
++ + P++ T+L +
Sbjct: 84 GLTVKQAYVNAFNAPNLYTILSL 106
>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|B Chain B, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|C Chain C, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|D Chain D, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
Length = 447
Score = 30.4 bits (67), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 37/82 (45%), Gaps = 20/82 (24%)
Query: 84 DEVYDALAQRLLPTSALASNVNVKHIVG------------------LAGPPGAGKSTLAA 125
D + LA R+ P + LA + +H++ L GPPG GK+TL A
Sbjct: 10 DNTFQPLAARMRPEN-LAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTL-A 67
Query: 126 EVVRRINKIWPQKASSFDSQVK 147
EV+ R ++ S+ S VK
Sbjct: 68 EVIARYANADVERISAVTSGVK 89
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 30.0 bits (66), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 44/88 (50%), Gaps = 6/88 (6%)
Query: 93 RLLPTSALASNVNVKHIVGLAGPPGAGKSTLAAEVVRRINKIWPQKASSFDSQVKPPDVA 152
R+ +A A ++H++ L GPPG GK+TLA + + + +S + KP D+A
Sbjct: 25 RVYLEAAKARKEPLEHLL-LFGPPGLGKTTLAHVIAHELG--VNLRVTSGPAIEKPGDLA 81
Query: 153 TVLP---MDGFHLYLSQLDAMEDPKEAH 177
+L +G L++ ++ + E H
Sbjct: 82 AILANSLEEGDILFIDEIHRLSRQAEEH 109
>pdb|2WWW|A Chain A, Crystal Structure Of Methylmalonic Acidemia Type A Protein
pdb|2WWW|B Chain B, Crystal Structure Of Methylmalonic Acidemia Type A Protein
pdb|2WWW|C Chain C, Crystal Structure Of Methylmalonic Acidemia Type A Protein
pdb|2WWW|D Chain D, Crystal Structure Of Methylmalonic Acidemia Type A Protein
Length = 349
Score = 30.0 bits (66), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 12/14 (85%), Positives = 13/14 (92%)
Query: 110 VGLAGPPGAGKSTL 123
VGL+GPPGAGKST
Sbjct: 77 VGLSGPPGAGKSTF 90
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 29.6 bits (65), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 44/88 (50%), Gaps = 6/88 (6%)
Query: 93 RLLPTSALASNVNVKHIVGLAGPPGAGKSTLAAEVVRRINKIWPQKASSFDSQVKPPDVA 152
R+ +A A ++H++ L GPPG GK+TLA + + + +S + KP D+A
Sbjct: 25 RVYLEAAKARKEPLEHLL-LFGPPGLGKTTLAHVIAHELG--VNLRVTSGPAIEKPGDLA 81
Query: 153 TVLP---MDGFHLYLSQLDAMEDPKEAH 177
+L +G L++ ++ + E H
Sbjct: 82 AILANSLEEGDILFIDEIHRLSRQAEEH 109
>pdb|1HQC|A Chain A, Structure Of Ruvb From Thermus Thermophilus Hb8
pdb|1HQC|B Chain B, Structure Of Ruvb From Thermus Thermophilus Hb8
Length = 324
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 44/88 (50%), Gaps = 6/88 (6%)
Query: 93 RLLPTSALASNVNVKHIVGLAGPPGAGKSTLAAEVVRRINKIWPQKASSFDSQVKPPDVA 152
R+ +A A ++H++ L GPPG GK+TLA + + + +S + KP D+A
Sbjct: 25 RVYLEAAKARKEPLEHLL-LFGPPGLGKTTLAHVIAHELGVNL--RVTSGPAIEKPGDLA 81
Query: 153 TVLP---MDGFHLYLSQLDAMEDPKEAH 177
+L +G L++ ++ + E H
Sbjct: 82 AILANSLEEGDILFIDEIHRLSRQAEEH 109
>pdb|2CHG|A Chain A, Replication Factor C Domains 1 And 2
pdb|2CHG|B Chain B, Replication Factor C Domains 1 And 2
pdb|2CHG|C Chain C, Replication Factor C Domains 1 And 2
pdb|2CHG|D Chain D, Replication Factor C Domains 1 And 2
Length = 226
Score = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 52/119 (43%), Gaps = 19/119 (15%)
Query: 81 RCMDEVY--DALAQRLLPTSALASNVNVKHIVGLAGPPGAGKSTLAAEVVRRI-NKIWPQ 137
R +DEV D + QRL N+ H++ +GPPG GK+ A + R + + W
Sbjct: 14 RTLDEVVGQDEVIQRL---KGYVERKNIPHLL-FSGPPGTGKTATAIALARDLFGENWRD 69
Query: 138 KASSFDS---------QVKPPDVATVLPMDG--FH-LYLSQLDAMEDPKEAHARRGGEV 184
++ + K + A P+ G F ++L + DA+ +A RR E+
Sbjct: 70 NFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEM 128
>pdb|2CHQ|A Chain A, Replication Factor C Adpnp Complex
pdb|2CHQ|B Chain B, Replication Factor C Adpnp Complex
pdb|2CHQ|C Chain C, Replication Factor C Adpnp Complex
pdb|2CHV|A Chain A, Replication Factor C Adpnp Complex
pdb|2CHV|B Chain B, Replication Factor C Adpnp Complex
pdb|2CHV|C Chain C, Replication Factor C Adpnp Complex
pdb|2CHV|D Chain D, Replication Factor C Adpnp Complex
pdb|2CHV|E Chain E, Replication Factor C Adpnp Complex
pdb|2CHV|F Chain F, Replication Factor C Adpnp Complex
Length = 319
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 52/119 (43%), Gaps = 19/119 (15%)
Query: 81 RCMDEVY--DALAQRLLPTSALASNVNVKHIVGLAGPPGAGKSTLAAEVVRRI-NKIWPQ 137
R +DEV D + QRL N+ H++ +GPPG GK+ A + R + + W
Sbjct: 14 RTLDEVVGQDEVIQRL---KGYVERKNIPHLL-FSGPPGTGKTATAIALARDLFGENWRD 69
Query: 138 KASSFDS---------QVKPPDVATVLPMDG--FH-LYLSQLDAMEDPKEAHARRGGEV 184
++ + K + A P+ G F ++L + DA+ +A RR E+
Sbjct: 70 NFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEM 128
>pdb|3M6A|A Chain A, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|B Chain B, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|C Chain C, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|D Chain D, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|E Chain E, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|F Chain F, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
Length = 543
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 31/61 (50%), Gaps = 9/61 (14%)
Query: 80 ARCMDEVYDAL---AQRLLPTSALASNVNVKHIVG----LAGPPGAGKSTLAAEVVRRIN 132
R +DE + L +R+L LA K + G LAGPPG GK++LA + + +
Sbjct: 76 GRLLDEEHHGLEKVKERIL--EYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLG 133
Query: 133 K 133
+
Sbjct: 134 R 134
>pdb|1KAG|A Chain A, Crystal Structure Of The Escherichia Coli Shikimate Kinase
I (Arok)
pdb|1KAG|B Chain B, Crystal Structure Of The Escherichia Coli Shikimate Kinase
I (Arok)
Length = 173
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 107 KHIVGLAGPPGAGKSTLAAEVVRRINKIWPQKASSFDSQVKPPDVATVLPMDG 159
K + L GP GAGKST+ ++ +++N + + + DV V ++G
Sbjct: 4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSDQEIEKRT-GADVGWVFDLEG 55
>pdb|4FI3|C Chain C, Structure Of Vitamin B12 Transporter Btucd-F In A
Nucleotide-Bound State
pdb|4FI3|D Chain D, Structure Of Vitamin B12 Transporter Btucd-F In A
Nucleotide-Bound State
Length = 249
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 100 LASNVNVKHIVGLAGPPGAGKSTLAAEV 127
L+ V I+ L GP GAGKSTL A +
Sbjct: 19 LSGEVRAGEILHLVGPNGAGKSTLLARM 46
>pdb|4DBL|C Chain C, Crystal Structure Of E159q Mutant Of Btucdf
pdb|4DBL|D Chain D, Crystal Structure Of E159q Mutant Of Btucdf
pdb|4DBL|H Chain H, Crystal Structure Of E159q Mutant Of Btucdf
pdb|4DBL|I Chain I, Crystal Structure Of E159q Mutant Of Btucdf
Length = 249
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 100 LASNVNVKHIVGLAGPPGAGKSTLAAEV 127
L+ V I+ L GP GAGKSTL A +
Sbjct: 19 LSGEVRAGEILHLVGPNGAGKSTLLARM 46
>pdb|1MV5|A Chain A, Crystal Structure Of Lmra Atp-Binding Domain
pdb|1MV5|B Chain B, Crystal Structure Of Lmra Atp-Binding Domain
pdb|1MV5|C Chain C, Crystal Structure Of Lmra Atp-Binding Domain
pdb|1MV5|D Chain D, Crystal Structure Of Lmra Atp-Binding Domain
Length = 243
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 3/47 (6%)
Query: 77 VVEARCMDEVYDALAQRLLPTSALASNVNVKHIVGLAGPPGAGKSTL 123
++ AR +D YD ++++L + + N I+ AGP G GKST+
Sbjct: 1 MLSARHVDFAYDD-SEQILRDISFEAQPN--SIIAFAGPSGGGKSTI 44
>pdb|2H92|A Chain A, Crystal Structure Of Staphylococcus Aureus Cytidine
Monophosphate Kinase In Complex With Cytidine-5'-
Monophosphate
pdb|2H92|B Chain B, Crystal Structure Of Staphylococcus Aureus Cytidine
Monophosphate Kinase In Complex With Cytidine-5'-
Monophosphate
pdb|2H92|C Chain C, Crystal Structure Of Staphylococcus Aureus Cytidine
Monophosphate Kinase In Complex With Cytidine-5'-
Monophosphate
Length = 219
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 110 VGLAGPPGAGKSTLAAEVVRRINKIWPQKASSF 142
+ L GP AGKST+A V ++ I+ + +
Sbjct: 6 IALDGPAAAGKSTIAKRVASELSMIYVDTGAMY 38
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/15 (80%), Positives = 13/15 (86%)
Query: 110 VGLAGPPGAGKSTLA 124
V LAGPPG GK+TLA
Sbjct: 54 VLLAGPPGLGKTTLA 68
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/15 (80%), Positives = 13/15 (86%)
Query: 110 VGLAGPPGAGKSTLA 124
V LAGPPG GK+TLA
Sbjct: 54 VLLAGPPGLGKTTLA 68
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/15 (80%), Positives = 13/15 (86%)
Query: 110 VGLAGPPGAGKSTLA 124
V LAGPPG GK+TLA
Sbjct: 54 VLLAGPPGLGKTTLA 68
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 12/15 (80%), Positives = 13/15 (86%)
Query: 110 VGLAGPPGAGKSTLA 124
V LAGPPG GK+TLA
Sbjct: 54 VLLAGPPGLGKTTLA 68
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 12/15 (80%), Positives = 13/15 (86%)
Query: 110 VGLAGPPGAGKSTLA 124
V LAGPPG GK+TLA
Sbjct: 54 VLLAGPPGLGKTTLA 68
>pdb|1UDX|A Chain A, Crystal Structure Of The Conserved Protein Tt1381 From
Thermus Thermophilus Hb8
Length = 416
Score = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 15/27 (55%), Positives = 17/27 (62%)
Query: 110 VGLAGPPGAGKSTLAAEVVRRINKIWP 136
VGL G P AGKS+L A + R KI P
Sbjct: 160 VGLVGYPNAGKSSLLAAMTRAHPKIAP 186
>pdb|1YE8|A Chain A, Crystal Structure Of Thep1 From The Hyperthermophile
Aquifex Aeolicus
Length = 178
Score = 27.7 bits (60), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 112 LAGPPGAGKSTLAAEVVRRINK 133
+ G PG GK+TL ++V R+ K
Sbjct: 5 ITGEPGVGKTTLVKKIVERLGK 26
>pdb|1NXQ|A Chain A, Crystal Structure Of R-Alcohol Dehydrogenase (Radh)
(Apoenyzme) From Lactobacillus Brevis
pdb|1ZK4|A Chain A, Structure Of R-specific Alcohol Dehydrogenase (wildtype)
From Lactobacillus Brevis In Complex With Acetophenone
And Nadp
Length = 251
Score = 27.7 bits (60), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 30/128 (23%), Positives = 51/128 (39%), Gaps = 17/128 (13%)
Query: 33 HDGFLSFSWIRRNTNAQPVFGKTRSLVQN------KTSLKVLCSQQREIPVVEARCMDEV 86
HD W + + FG +LV N K+ + ++ R++ V +D V
Sbjct: 61 HDSSDEDGWTKLFDATEKAFGPVSTLVNNAGIAVNKSVEETTTAEWRKLLAVN---LDGV 117
Query: 87 YDAL---AQRLLPTSALASNVNVKHIVGLAGPPGAGKSTLAAEVVRRINKIWPQKASSFD 143
+ QR+ AS +N+ I G G P G + VR ++ K+++ D
Sbjct: 118 FFGTRLGIQRMKNKGLGASIINMSSIEGFVGDPSLGAYNASKGAVRIMS-----KSAALD 172
Query: 144 SQVKPPDV 151
+K DV
Sbjct: 173 CALKDYDV 180
>pdb|1ZJY|A Chain A, Structure Of R-Specific Alcohol Dehydrogenase (Mutant
G37d) From Lactobacillus Brevis In Complex With
Phenylethanol And Nadh
pdb|1ZJZ|A Chain A, Structure Of R-Specific Alcohol Dehydrogenase (Mutant
G37d) From Lactobacillus Brevis In Complex With
Phenylethanol And Nad
pdb|1ZK0|A Chain A, Structure Of R-Specific Alcohol Dehydrogenase (Mutant
G37d) From Lactobacillus Brevis In Complex With
Phenylethanol And Nadh
pdb|1ZK1|A Chain A, Structure Of R-Specific Alcohol Dehydrogenase (Mutant
G37d) From Lactobacillus Brevis In Complex With
Phenylethanol And Nad
pdb|1ZK2|A Chain A, Orthorhombic Crystal Structure Of The Apo-Form Of
R-Specific Alcohol Dehydrogenase (Mutant G37d) From
Lactobacillus Brevis
pdb|1ZK3|A Chain A, Triclinic Crystal Structure Of The Apo-Form Of R-Specific
Alcohol Dehydrogenase (Mutant G37d) From Lactobacillus
Brevis
pdb|1ZK3|B Chain B, Triclinic Crystal Structure Of The Apo-Form Of R-Specific
Alcohol Dehydrogenase (Mutant G37d) From Lactobacillus
Brevis
pdb|1ZK3|C Chain C, Triclinic Crystal Structure Of The Apo-Form Of R-Specific
Alcohol Dehydrogenase (Mutant G37d) From Lactobacillus
Brevis
pdb|1ZK3|D Chain D, Triclinic Crystal Structure Of The Apo-Form Of R-Specific
Alcohol Dehydrogenase (Mutant G37d) From Lactobacillus
Brevis
pdb|1ZK3|E Chain E, Triclinic Crystal Structure Of The Apo-Form Of R-Specific
Alcohol Dehydrogenase (Mutant G37d) From Lactobacillus
Brevis
pdb|1ZK3|F Chain F, Triclinic Crystal Structure Of The Apo-Form Of R-Specific
Alcohol Dehydrogenase (Mutant G37d) From Lactobacillus
Brevis
pdb|1ZK3|G Chain G, Triclinic Crystal Structure Of The Apo-Form Of R-Specific
Alcohol Dehydrogenase (Mutant G37d) From Lactobacillus
Brevis
pdb|1ZK3|H Chain H, Triclinic Crystal Structure Of The Apo-Form Of R-Specific
Alcohol Dehydrogenase (Mutant G37d) From Lactobacillus
Brevis
Length = 251
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 30/128 (23%), Positives = 51/128 (39%), Gaps = 17/128 (13%)
Query: 33 HDGFLSFSWIRRNTNAQPVFGKTRSLVQN------KTSLKVLCSQQREIPVVEARCMDEV 86
HD W + + FG +LV N K+ + ++ R++ V +D V
Sbjct: 61 HDSSDEDGWTKLFDATEKAFGPVSTLVNNAGIAVNKSVEETTTAEWRKLLAVN---LDGV 117
Query: 87 YDAL---AQRLLPTSALASNVNVKHIVGLAGPPGAGKSTLAAEVVRRINKIWPQKASSFD 143
+ QR+ AS +N+ I G G P G + VR ++ K+++ D
Sbjct: 118 FFGTRLGIQRMKNKGLGASIINMSSIEGFVGDPSLGAYNASKGAVRIMS-----KSAALD 172
Query: 144 SQVKPPDV 151
+K DV
Sbjct: 173 CALKDYDV 180
>pdb|1L7V|C Chain C, Bacterial Abc Transporter Involved In B12 Uptake
pdb|1L7V|D Chain D, Bacterial Abc Transporter Involved In B12 Uptake
Length = 249
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/26 (53%), Positives = 16/26 (61%)
Query: 100 LASNVNVKHIVGLAGPPGAGKSTLAA 125
L+ V I+ L GP GAGKSTL A
Sbjct: 19 LSGEVRAGEILHLVGPNGAGKSTLLA 44
>pdb|2QI9|C Chain C, Abc-Transporter Btucd In Complex With Its Periplasmic
Binding Protein Btuf
pdb|2QI9|D Chain D, Abc-Transporter Btucd In Complex With Its Periplasmic
Binding Protein Btuf
Length = 249
Score = 27.7 bits (60), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/26 (53%), Positives = 16/26 (61%)
Query: 100 LASNVNVKHIVGLAGPPGAGKSTLAA 125
L+ V I+ L GP GAGKSTL A
Sbjct: 19 LSGEVRAGEILHLVGPNGAGKSTLLA 44
>pdb|2XZL|A Chain A, Upf1-Rna Complex
Length = 802
Score = 27.3 bits (59), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 112 LAGPPGAGKSTLAAEVVRRINKI 134
+ GPPG GK+ +A +V ++KI
Sbjct: 380 IQGPPGTGKTVTSATIVYHLSKI 402
>pdb|2C9O|A Chain A, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|B Chain B, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|C Chain C, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
Length = 456
Score = 27.3 bits (59), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 110 VGLAGPPGAGKSTLAAEVVRRINKIWP 136
V LAGPPG GK+ LA + + + P
Sbjct: 66 VLLAGPPGTGKTALALAIAQELGSKVP 92
>pdb|3TQC|A Chain A, Structure Of The Pantothenate Kinase (Coaa) From Coxiella
Burnetii
pdb|3TQC|B Chain B, Structure Of The Pantothenate Kinase (Coaa) From Coxiella
Burnetii
Length = 321
Score = 26.9 bits (58), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 28/103 (27%), Positives = 43/103 (41%), Gaps = 27/103 (26%)
Query: 72 QREIPVVEARCMDEVYDALAQRLLPTSALASNV--------------NVKHIVGLAGPPG 117
Q +I +V + + E+Y L+ RLL A V +I+G+AG
Sbjct: 44 QGQIEIVSLKEVTEIYLPLS-RLLSFYVTARQTLQQATYQFLGKPEPKVPYIIGIAGSVA 102
Query: 118 AGKSTLAAEVVRRINKIWPQKASSFDSQVKPPDVATVLPMDGF 160
GKST + V++ + WP P+V V+ DGF
Sbjct: 103 VGKST-TSRVLKALLSRWPDH----------PNVE-VITTDGF 133
>pdb|2XSZ|A Chain A, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|B Chain B, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|C Chain C, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
Length = 367
Score = 26.9 bits (58), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 112 LAGPPGAGKSTLAAEVVRRINKIWP 136
LAGPPG GK+ LA + + + P
Sbjct: 82 LAGPPGTGKTALALAIAQELGSKVP 106
>pdb|3GD7|A Chain A, Crystal Structure Of Human Nbd2 Complexed With N6-
Phenylethyl-Atp (P-Atp)
pdb|3GD7|B Chain B, Crystal Structure Of Human Nbd2 Complexed With N6-
Phenylethyl-Atp (P-Atp)
pdb|3GD7|C Chain C, Crystal Structure Of Human Nbd2 Complexed With N6-
Phenylethyl-Atp (P-Atp)
pdb|3GD7|D Chain D, Crystal Structure Of Human Nbd2 Complexed With N6-
Phenylethyl-Atp (P-Atp)
Length = 390
Score = 26.6 bits (57), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 110 VGLAGPPGAGKSTLAAEVVRRIN 132
VGL G G+GKSTL + +R +N
Sbjct: 50 VGLLGRTGSGKSTLLSAFLRLLN 72
>pdb|3R8C|A Chain A, Crystal Structure Of Cytidylate Kinase (Cmk) From
Mycobacterium Abscessus
pdb|3R8C|B Chain B, Crystal Structure Of Cytidylate Kinase (Cmk) From
Mycobacterium Abscessus
pdb|4DIE|A Chain A, Crystal Structure Of A Cytidylate Kinase Cmk From
Mycobacterium Abscessus Bound To
Cytidine-5'-Monophosphate
pdb|4DIE|B Chain B, Crystal Structure Of A Cytidylate Kinase Cmk From
Mycobacterium Abscessus Bound To
Cytidine-5'-Monophosphate
pdb|4DIE|C Chain C, Crystal Structure Of A Cytidylate Kinase Cmk From
Mycobacterium Abscessus Bound To
Cytidine-5'-Monophosphate
pdb|4DIE|D Chain D, Crystal Structure Of A Cytidylate Kinase Cmk From
Mycobacterium Abscessus Bound To
Cytidine-5'-Monophosphate
Length = 228
Score = 26.6 bits (57), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 10/34 (29%), Positives = 20/34 (58%)
Query: 109 IVGLAGPPGAGKSTLAAEVVRRINKIWPQKASSF 142
+V + GP G GKS++A E+ R++ + + +
Sbjct: 6 VVAVDGPSGTGKSSVAKELARQLGASYLDTGAMY 39
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 26.6 bits (57), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 16/30 (53%)
Query: 112 LAGPPGAGKSTLAAEVVRRINKIWPQKASS 141
L GPPG GKS LA V N + +SS
Sbjct: 56 LYGPPGTGKSYLAKAVATEANSTFFSVSSS 85
>pdb|3EIH|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
pdb|3EIH|B Chain B, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
pdb|3EIH|C Chain C, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
Length = 340
Score = 26.6 bits (57), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 16/30 (53%)
Query: 112 LAGPPGAGKSTLAAEVVRRINKIWPQKASS 141
L GPPG GKS LA V N + +SS
Sbjct: 74 LYGPPGTGKSYLAKAVATEANSTFFSVSSS 103
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 26.6 bits (57), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 16/30 (53%)
Query: 112 LAGPPGAGKSTLAAEVVRRINKIWPQKASS 141
L GPPG GKS LA V N + +SS
Sbjct: 65 LYGPPGTGKSYLAKAVATEANSTFFSVSSS 94
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 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,493,176
Number of Sequences: 62578
Number of extensions: 200387
Number of successful extensions: 900
Number of sequences better than 100.0: 51
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 853
Number of HSP's gapped (non-prelim): 66
length of query: 189
length of database: 14,973,337
effective HSP length: 93
effective length of query: 96
effective length of database: 9,153,583
effective search space: 878743968
effective search space used: 878743968
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: 48 (23.1 bits)