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= 022762
(292 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3APO|A Chain A, Crystal Structure Of Full-Length Erdj5
Length = 780
Score = 60.5 bits (145), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 29/68 (42%), Positives = 45/68 (66%), Gaps = 5/68 (7%)
Query: 7 DHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSYEILKD 66
+ Y +LG+ + +EI +A+K AL+LHPDK P++P+AH +F K+ +YE+LKD
Sbjct: 22 NFYSLLGV-----SKTASSREIRQAFKKLALKLHPDKNPNNPNAHGDFLKINRAYEVLKD 76
Query: 67 EKARKLFD 74
E RK +D
Sbjct: 77 EDLRKKYD 84
>pdb|3APQ|A Chain A, Crystal Structure Of J-Trx1 Fragment Of Erdj5
pdb|3APQ|B Chain B, Crystal Structure Of J-Trx1 Fragment Of Erdj5
Length = 210
Score = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 29/68 (42%), Positives = 45/68 (66%), Gaps = 5/68 (7%)
Query: 7 DHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSYEILKD 66
+ Y +LG+ + +EI +A+K AL+LHPDK P++P+AH +F K+ +YE+LKD
Sbjct: 3 NFYSLLGVSK-----TASSREIRQAFKKLALKLHPDKNPNNPNAHGDFLKINRAYEVLKD 57
Query: 67 EKARKLFD 74
E RK +D
Sbjct: 58 EDLRKKYD 65
>pdb|2DN9|A Chain A, Solution Structure Of J-Domain From The Dnaj Homolog,
Human Tid1 Protein
Length = 79
Score = 57.4 bits (137), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 29/68 (42%), Positives = 41/68 (60%), Gaps = 5/68 (7%)
Query: 7 DHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSYEILKD 66
D+Y++LG+P ++KEI KAY A + HPD DDP A + F +L +YE+L D
Sbjct: 8 DYYQILGVPR-----NASQKEIKKAYYQLAKKYHPDTNKDDPKAKEKFSQLAEAYEVLSD 62
Query: 67 EKARKLFD 74
E RK +D
Sbjct: 63 EVKRKQYD 70
>pdb|2CTW|A Chain A, Solution Structure Of J-Domain From Mouse Dnaj Subfamily
C Menber 5
Length = 109
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 26/66 (39%), Positives = 40/66 (60%), Gaps = 5/66 (7%)
Query: 9 YRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSYEILKDEK 68
Y VLGL T +I K+Y+ AL+ HPDK PD+P+A D F+++ +++ IL D
Sbjct: 20 YHVLGLDKNA-----TSDDIKKSYRKLALKYHPDKNPDNPEAADKFKEINNAHAILTDAT 74
Query: 69 ARKLFD 74
R ++D
Sbjct: 75 KRNIYD 80
>pdb|1BQZ|A Chain A, J-Domain (Residues 1-77) Of The Escherichia Coli
N-Terminal Fragment (Residues 1-78) Of The Molecular
Chaperone Dnaj, Nmr, 20 Structures
Length = 77
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 41/68 (60%), Gaps = 5/68 (7%)
Query: 7 DHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSYEILKD 66
D+Y +LG+ E E+EI KAYK A++ HPD+ D +A F+++K +YE+L D
Sbjct: 4 DYYEILGVSKTAE-----EREIRKAYKRLAMKYHPDRNQGDKEAEAKFKEIKEAYEVLTD 58
Query: 67 EKARKLFD 74
+ R +D
Sbjct: 59 SQKRAAYD 66
>pdb|1XBL|A Chain A, Nmr Structure Of The J-Domain (Residues 2-76) In The
Escherichia Coli N-Terminal Fragment (Residues 2-108)
Of The Molecular Chaperone Dnaj, 20 Structures
Length = 107
Score = 52.0 bits (123), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 41/68 (60%), Gaps = 5/68 (7%)
Query: 7 DHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSYEILKD 66
D+Y +LG+ E E+EI KAYK A++ HPD+ D +A F+++K +YE+L D
Sbjct: 4 DYYEILGVSKTAE-----EREIRKAYKRLAMKYHPDRNQGDKEAEAKFKEIKEAYEVLTD 58
Query: 67 EKARKLFD 74
+ R +D
Sbjct: 59 SQKRAAYD 66
>pdb|1BQ0|A Chain A, J-Domain (Residues 1-77) Of The Escherichia Coli
N-Terminal Fragment (Residues 1-104) Of The Molecular
Chaperone Dnaj, Nmr, 20 Structures
Length = 103
Score = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 41/68 (60%), Gaps = 5/68 (7%)
Query: 7 DHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSYEILKD 66
D+Y +LG+ E E+EI KAYK A++ HPD+ D +A F+++K +YE+L D
Sbjct: 4 DYYEILGVSKTAE-----EREIRKAYKRLAMKYHPDRNQGDKEAEAKFKEIKEAYEVLTD 58
Query: 67 EKARKLFD 74
+ R +D
Sbjct: 59 SQKRAAYD 66
>pdb|1HDJ|A Chain A, Human Hsp40 (Hdj-1), Nmr
Length = 77
Score = 51.2 bits (121), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 44/68 (64%), Gaps = 6/68 (8%)
Query: 7 DHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSYEILKD 66
D+Y+ LGL G +++EI +AY+ +AL HPDK + P A + F+++ +Y++L D
Sbjct: 4 DYYQTLGLARG-----ASDEEIKRAYRRQALRYHPDKNKE-PGAEEKFKEIAEAYDVLSD 57
Query: 67 EKARKLFD 74
+ R++FD
Sbjct: 58 PRKREIFD 65
>pdb|2OCH|A Chain A, J-domain Of Dnj-12 From Caenorhabditis Elegans
Length = 73
Score = 50.8 bits (120), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 43/72 (59%), Gaps = 8/72 (11%)
Query: 3 VDHVDHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSYE 62
V +Y VLG+ ++ E+ KAY+ AL+ HPDK +PD + F+++ +YE
Sbjct: 5 VKETGYYDVLGVKP-----DASDNELKKAYRKMALKFHPDK---NPDGAEQFKQISQAYE 56
Query: 63 ILKDEKARKLFD 74
+L DEK R+++D
Sbjct: 57 VLSDEKKRQIYD 68
>pdb|2CTQ|A Chain A, Solution Structure Of J-Domain From Human Dnaj Subfamily
C Menber 12
Length = 112
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 46/71 (64%), Gaps = 5/71 (7%)
Query: 4 DHVDHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSYEI 63
D D+Y +LG +E + + ++I +K +ALE HPDK P++P A + FQKL+ + EI
Sbjct: 18 DTEDYYTLLGC---DELSSV--EQILAEFKVRALECHPDKHPENPKAVETFQKLQKAKEI 72
Query: 64 LKDEKARKLFD 74
L +E++R +D
Sbjct: 73 LTNEESRARYD 83
>pdb|2LO1|A Chain A, Nmr Structure Of The Protein Bc008182, A Dnaj-Like
Domain From Homo Sapiens
Length = 71
Score = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 45/73 (61%), Gaps = 10/73 (13%)
Query: 3 VDHVDHYRVLGL-PSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSY 61
V +Y VLG+ P+ T++E+ KAY+ AL+ HPDK P++ + F+++ +Y
Sbjct: 3 VKETTYYDVLGVKPNA------TQEELKKAYRKLALKYHPDKNPNE---GEKFKQISQAY 53
Query: 62 EILKDEKARKLFD 74
E+L D K R+L+D
Sbjct: 54 EVLSDAKKRELYD 66
>pdb|2DMX|A Chain A, Solution Structure Of The J Domain Of Dnaj Homolog
Subfamily B Member 8
Length = 92
Score = 48.1 bits (113), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 41/70 (58%), Gaps = 6/70 (8%)
Query: 6 VDHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDP-DAHDNFQKLKSSYEIL 64
++Y VLG+ A + ++I KAY+ AL HPDK PD+ +A F+ + +YE+L
Sbjct: 9 ANYYEVLGVQ-----ASASPEDIKKAYRKLALRWHPDKNPDNKEEAEKKFKLVSEAYEVL 63
Query: 65 KDEKARKLFD 74
D K R L+D
Sbjct: 64 SDSKKRSLYD 73
>pdb|2EJ7|A Chain A, Solution Structure Of The Dnaj Domain Of The Human
Protein Hcg3, A Hypothetical Protein Tmp_locus_21
Length = 82
Score = 47.8 bits (112), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 43/70 (61%), Gaps = 6/70 (8%)
Query: 6 VDHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDP-DAHDNFQKLKSSYEIL 64
VD+Y VL +P + + + I KAY+ AL+ HPDK P++ +A F+++ +YE+L
Sbjct: 9 VDYYEVLDVPR-----QASSEAIKKAYRKLALKWHPDKNPENKEEAERRFKQVAEAYEVL 63
Query: 65 KDEKARKLFD 74
D K R ++D
Sbjct: 64 SDAKKRDIYD 73
>pdb|2CUG|A Chain A, Solution Structure Of The J Domain Of The Pseudo Dnaj
Protein, Mouse Hypothetical Mkiaa0962
Length = 88
Score = 47.8 bits (112), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 29/69 (42%), Positives = 39/69 (56%), Gaps = 6/69 (8%)
Query: 6 VDHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSYEILK 65
D YRVLG+ ++ +I KAYK A E HPDK DP A D F ++ +YEIL
Sbjct: 17 FDPYRVLGVSR-----TASQADIKKAYKKLAREWHPDKN-KDPGAEDRFIQISKAYEILS 70
Query: 66 DEKARKLFD 74
+E+ R +D
Sbjct: 71 NEEKRTNYD 79
>pdb|2LGW|A Chain A, Solution Structure Of The J Domain Of Hsj1a
Length = 99
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 42/68 (61%), Gaps = 6/68 (8%)
Query: 8 HYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPD-AHDNFQKLKSSYEILKD 66
+Y +L +P + +I KAY+ KAL+ HPDK PD+ + A F+++ +YE+L D
Sbjct: 4 YYEILDVPR-----SASADDIKKAYRRKALQWHPDKNPDNKEFAEKKFKEVAEAYEVLSD 58
Query: 67 EKARKLFD 74
+ R+++D
Sbjct: 59 KHKREIYD 66
>pdb|2CTR|A Chain A, Solution Structure Of J-Domain From Human Dnaj Subfamily
B Menber 9
Length = 88
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%), Gaps = 6/69 (8%)
Query: 8 HYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSYEILKDE 67
+Y +LG+P +E++I KA+ A++ HPDK PDA F+++ +YE L D
Sbjct: 9 YYDILGVPK-----SASERQIKKAFHKLAMKYHPDKN-KSPDAEAKFREIAEAYETLSDA 62
Query: 68 KARKLFDDL 76
RK +D L
Sbjct: 63 NRRKEYDTL 71
>pdb|2CTP|A Chain A, Solution Structure Of J-Domain From Human Dnaj Subfamily
B Menber 12
Length = 78
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 41/70 (58%), Gaps = 6/70 (8%)
Query: 7 DHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSYEILKD 66
D+Y +LG+ G +++++ KAY+ AL+ HPDK P A + F+ + ++Y +L +
Sbjct: 8 DYYEILGVSRGA-----SDEDLKKAYRRLALKFHPDKN-HAPGATEAFKAIGTAYAVLSN 61
Query: 67 EKARKLFDDL 76
+ RK +D
Sbjct: 62 PEKRKQYDQF 71
>pdb|3LZ8|A Chain A, Structure Of A Putative Chaperone Dnaj From Klebsiella
Pneumoniae Subsp. Pneumoniae Mgh 78578 At 2.9 A
Resolution.
pdb|3LZ8|B Chain B, Structure Of A Putative Chaperone Dnaj From Klebsiella
Pneumoniae Subsp. Pneumoniae Mgh 78578 At 2.9 A
Resolution
Length = 329
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 31/94 (32%), Positives = 49/94 (52%), Gaps = 15/94 (15%)
Query: 7 DHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSYEILKD 66
D+Y +LG+ ++ K I AY+ A + HPD ++ DA F+ L ++E+LKD
Sbjct: 29 DYYAILGVQPTDD-----LKTIKTAYRRLARKYHPDVSKEN-DAEAKFKDLAEAWEVLKD 82
Query: 67 EKARKLFDDLLK------IKREKQ---QRQSQQD 91
E+ R +D L + R++Q Q SQQD
Sbjct: 83 EQRRAEYDQLWQHRNDPGFGRQRQTHEQSYSQQD 116
>pdb|2O37|A Chain A, J-Domain Of Sis1 Protein, Hsp40 Co-Chaperone From
Saccharomyces Cerevisiae
Length = 92
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 39/67 (58%), Gaps = 10/67 (14%)
Query: 9 YRVLGL-PSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSYEILKDE 67
Y +LG+ PS E+E+ K Y+ AL+ HPDK D + F+++ ++EIL D
Sbjct: 11 YDLLGVSPSA------NEQELKKGYRKAALKYHPDKPTGD---TEKFKEISEAFEILNDP 61
Query: 68 KARKLFD 74
+ R+++D
Sbjct: 62 QKREIYD 68
>pdb|2KQX|A Chain A, Nmr Structure Of The J-Domain (Residues 2-72) In The
Escherichia Coli Cbpa
Length = 73
Score = 35.8 bits (81), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 40/72 (55%), Gaps = 6/72 (8%)
Query: 7 DHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPDDPDAHDNFQKLKSSYEILKD 66
D+Y ++G+ ++ K I AY+ A + HPD +PDA F+++ ++E+L D
Sbjct: 6 DYYAIMGVKPTDDL-----KTIKTAYRRLARKYHPDV-SKEPDAEARFKEVAEAWEVLSD 59
Query: 67 EKARKLFDDLLK 78
E+ R +D + +
Sbjct: 60 EQRRAEYDQMWQ 71
>pdb|2Y4T|A Chain A, Crystal Structure Of The Human Co-Chaperone P58(Ipk)
pdb|2Y4T|B Chain B, Crystal Structure Of The Human Co-Chaperone P58(Ipk)
pdb|2Y4T|C Chain C, Crystal Structure Of The Human Co-Chaperone P58(Ipk)
Length = 450
Score = 35.4 bits (80), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 39/72 (54%), Gaps = 8/72 (11%)
Query: 7 DHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPD---DPDAHDNFQKLKSSYEI 63
D+Y++LG+ + ++EI KAY+ AL+ HPD + A F + ++ E+
Sbjct: 383 DYYKILGVKRNAK-----KQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEV 437
Query: 64 LKDEKARKLFDD 75
L D + RK FDD
Sbjct: 438 LSDPEMRKKFDD 449
>pdb|2Y4U|A Chain A, Crystal Structure Of Human P58(Ipk) In Space Group P312
Length = 450
Score = 35.0 bits (79), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 39/72 (54%), Gaps = 8/72 (11%)
Query: 7 DHYRVLGLPSGEEGAKLTEKEISKAYKWKALELHPDKRPD---DPDAHDNFQKLKSSYEI 63
D+Y++LG+ + ++EI KAY+ AL+ HPD + A F + ++ E+
Sbjct: 383 DYYKILGVKRNAK-----KQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEV 437
Query: 64 LKDEKARKLFDD 75
L D + RK FDD
Sbjct: 438 LSDPEXRKKFDD 449
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 32.0 bits (71), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 26/41 (63%), Gaps = 1/41 (2%)
Query: 175 EKFGEDYTAERLREIFSEFGKVEDVVI-KSSKKKGSALVVM 214
EK +D + L IFS+FG++ D+++ +S K +G A V+
Sbjct: 19 EKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIF 59
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 32.0 bits (71), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 5/39 (12%)
Query: 181 YTAER-LREIFSEFGKVEDVVI----KSSKKKGSALVVM 214
YT ER LRE+FS++G + DV I +S + +G A V
Sbjct: 57 YTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYF 95
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 32.0 bits (71), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 5/39 (12%)
Query: 181 YTAER-LREIFSEFGKVEDVVI----KSSKKKGSALVVM 214
YT ER LRE+FS++G + DV I +S + +G A V
Sbjct: 26 YTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYF 64
>pdb|1FHT|A Chain A, Rna-Binding Domain Of The U1a Spliceosomal Protein U1a117,
Nmr, 43 Structures
Length = 116
Score = 31.2 bits (69), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 26/41 (63%), Gaps = 1/41 (2%)
Query: 175 EKFGEDYTAERLREIFSEFGKVEDVVI-KSSKKKGSALVVM 214
EK +D + L IFS+FG++ D+++ +S K +G A V+
Sbjct: 18 EKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIF 58
>pdb|1DRZ|A Chain A, U1a Spliceosomal ProteinHEPATITIS DELTA VIRUS GENOMIC
Ribozyme Complex
Length = 97
Score = 31.2 bits (69), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 175 EKFGEDYTAERLREIFSEFGKVEDVVI-KSSKKKGSALVVM 214
EK +D + L IFS FG++ D+++ +S K +G A V+
Sbjct: 18 EKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQAFVIF 58
>pdb|3CUL|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUL|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3EGZ|A Chain A, Crystal Structure Of An In Vitro Evolved Tetracycline
Aptamer And Artificial Riboswitch
Length = 98
Score = 31.2 bits (69), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 175 EKFGEDYTAERLREIFSEFGKVEDVVI-KSSKKKGSALVVM 214
EK +D + L IFS FG++ D+++ +S K +G A V+
Sbjct: 19 EKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQAFVIF 59
>pdb|1URN|A Chain A, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|B Chain B, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|C Chain C, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1NU4|A Chain A, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|1NU4|B Chain B, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|3HHN|B Chain B, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
pdb|3HHN|D Chain D, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
Length = 97
Score = 31.2 bits (69), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 175 EKFGEDYTAERLREIFSEFGKVEDVVI-KSSKKKGSALVVM 214
EK +D + L IFS FG++ D+++ +S K +G A V+
Sbjct: 18 EKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIF 58
>pdb|1U6B|A Chain A, Crystal Structure Of A Self-Splicing Group I Intron With
Both Exons
pdb|1ZZN|A Chain A, Crystal Structure Of A Group I IntronTWO EXON COMPLEX THAT
Includes All Catalytic Metal Ion Ligands.
pdb|3G8S|A Chain A, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|B Chain B, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|C Chain C, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|D Chain D, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8T|A Chain A, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|B Chain B, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|C Chain C, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|D Chain D, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G96|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G9C|A Chain A, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|B Chain B, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|C Chain C, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|D Chain D, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3IRW|P Chain P, Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3MUM|P Chain P, Crystal Structure Of The G20a Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUR|P Chain P, Crystal Structure Of The C92u Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUT|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Gmp
pdb|3MUV|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Amp
pdb|3MXH|P Chain P, Native Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3P49|B Chain B, Crystal Structure Of A Glycine Riboswitch From
Fusobacterium Nucleatum
pdb|3R1H|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1H|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1L|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3R1L|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3UCU|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Pgpg
pdb|3UCZ|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Gpg
pdb|3UD3|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Pgpa
pdb|3UD4|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Gpa
Length = 98
Score = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 175 EKFGEDYTAERLREIFSEFGKVEDVVI-KSSKKKGSALVVM 214
EK +D + L IFS FG++ D+++ +S K +G A V+
Sbjct: 19 EKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIF 59
>pdb|1M5K|C Chain C, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5K|F Chain F, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5O|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5O|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1SJ3|P Chain P, Hepatitis Delta Virus Gemonic Ribozyme Precursor, With
Mg2+ Bound
pdb|1SJ4|P Chain P, Crystal Structure Of A C75u Mutant Hepatitis Delta Virus
Ribozyme Precursor, In Cu2+ Solution
pdb|1SJF|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Cobalt
Hexammine Solution
pdb|1VBX|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Edta Solution
pdb|1VBY|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, And Mn2+ Bound
pdb|1VBZ|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Ba2+ Solution
pdb|1VC0|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Imidazole And
Sr2+ Solution
pdb|1VC5|A Chain A, Crystal Structure Of The Wild Type Hepatitis Delta Virus
Gemonic Ribozyme Precursor, In Edta Solution
pdb|1VC6|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Product With C75u Mutaion, Cleaved In Imidazole
And Mg2+ Solutions
pdb|1VC7|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Sr2+ Solution
pdb|2OIH|A Chain A, Hepatitis Delta Virus Gemonic Ribozyme Precursor With C75u
Mutation And Bound To Monovalent Cation Tl+
pdb|2OJ3|A Chain A, Hepatitis Delta Virus Ribozyme Precursor Structure, With
C75u Mutation, Bound To Tl+ And Cobalt Hexammine
(Co(Nh3) 63+)
Length = 100
Score = 31.2 bits (69), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 175 EKFGEDYTAERLREIFSEFGKVEDVVI-KSSKKKGSALVVM 214
EK +D + L IFS FG++ D+++ +S K +G A V+
Sbjct: 19 EKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIF 59
>pdb|1AUD|A Chain A, U1a-Utrrna, Nmr, 31 Structures
pdb|1DZ5|A Chain A, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
pdb|1DZ5|B Chain B, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
Length = 101
Score = 30.8 bits (68), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 175 EKFGEDYTAERLREIFSEFGKVEDVVI-KSSKKKGSALVVM 214
EK +D + L IFS FG++ D+++ +S K +G A V+
Sbjct: 18 EKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIF 58
>pdb|2K3K|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd1
Length = 104
Score = 30.8 bits (68), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 186 LREIFSEFGKVEDVV-IKSSKKKGSALVVM 214
L IFS+FG++ D+V +K+ K +G A V+
Sbjct: 27 LYAIFSQFGQILDIVALKTLKMRGQAFVIF 56
>pdb|1OIA|A Chain A, U1a Rnp Domain 1-95
pdb|1OIA|B Chain B, U1a Rnp Domain 1-95
Length = 95
Score = 30.4 bits (67), Expect = 1.2, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 26/40 (65%), Gaps = 1/40 (2%)
Query: 175 EKFGEDYTAERLREIFSEFGKVEDVVI-KSSKKKGSALVV 213
EK +D + L IFS+FG++ D+++ +S K +G A V+
Sbjct: 19 EKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVI 58
>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 = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 48 PDAHDNFQKLKSSY-EILKDEKARKLFDDLLKIKREKQ--QRQSQQDGKRRKMMSDLEER 104
P F+ + S + ILK L ++L I+R +Q +R S GK +K + + ER
Sbjct: 267 PAESTRFKSINSEFIAILKKVSGAPLILEVLAIERIQQTMERLSDLLGKVQKALGEYLER 326
Query: 105 ERAAFA 110
+R+AFA
Sbjct: 327 QRSAFA 332
>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 = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 48 PDAHDNFQKLKSSY-EILKDEKARKLFDDLLKIKREKQ--QRQSQQDGKRRKMMSDLEER 104
P F+ + S + ILK L ++L I+R +Q +R S GK +K + + ER
Sbjct: 267 PAESTRFKSINSEFIAILKKVSGAPLILEVLAIERIQQTMERLSDLLGKVQKALGEYLER 326
Query: 105 ERAAFA 110
+R+AFA
Sbjct: 327 QRSAFA 332
>pdb|3IWN|C Chain C, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
pdb|3IWN|D Chain D, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
Length = 91
Score = 30.0 bits (66), Expect = 1.7, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 175 EKFGEDYTAERLREIFSEFGKVEDVVI-KSSKKKGSALVV 213
EK +D + L IFS FG++ D+++ +S K +G A V+
Sbjct: 14 EKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVI 53
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 30.0 bits (66), Expect = 1.7, Method: Composition-based stats.
Identities = 17/37 (45%), Positives = 24/37 (64%), Gaps = 5/37 (13%)
Query: 181 YTAER-LREIFSEFGKVEDVVI----KSSKKKGSALV 212
YT ER LRE+FS++G + DV I +S + +G A V
Sbjct: 26 YTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV 62
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 30.0 bits (66), Expect = 1.8, Method: Composition-based stats.
Identities = 17/37 (45%), Positives = 24/37 (64%), Gaps = 5/37 (13%)
Query: 181 YTAER-LREIFSEFGKVEDVVI----KSSKKKGSALV 212
YT ER LRE+FS++G + DV I +S + +G A V
Sbjct: 23 YTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFV 59
>pdb|3K0J|A Chain A, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|B Chain B, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|C Chain C, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|D Chain D, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
Length = 96
Score = 29.6 bits (65), Expect = 1.8, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 175 EKFGEDYTAERLREIFSEFGKVEDVVI-KSSKKKGSALVV 213
EK +D + L IFS FG++ D+++ +S K +G A V+
Sbjct: 18 EKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVI 57
>pdb|3L3C|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
Length = 90
Score = 29.6 bits (65), Expect = 1.8, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 175 EKFGEDYTAERLREIFSEFGKVEDVVI-KSSKKKGSALVV 213
EK +D + L IFS FG++ D+++ +S K +G A V+
Sbjct: 13 EKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVI 52
>pdb|1CX0|A Chain A, Hepatitis Delta Virus Ribozyme
Length = 95
Score = 29.6 bits (65), Expect = 1.9, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 175 EKFGEDYTAERLREIFSEFGKVEDVVI-KSSKKKGSALVV 213
EK +D + L IFS FG++ D+++ +S K +G A V+
Sbjct: 16 EKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQAFVI 55
>pdb|2QSA|A Chain A, Crystal Structure Of J-Domain Of Dnaj Homolog Dnj-2
Precursor From C.Elegans
Length = 109
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 35/55 (63%), Gaps = 3/55 (5%)
Query: 26 KEISKAYKWKALELHPDKRPDDPD---AHDNFQKLKSSYEILKDEKARKLFDDLL 77
++++KAY+ A + HPD+ + + A + F+ + ++YE LKD++A+ +D L
Sbjct: 31 QKLAKAYRALARKHHPDRVKNKEEKLLAEERFRVIATAYETLKDDEAKTNYDYYL 85
>pdb|3BO2|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO3|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO4|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3IIN|A Chain A, Plasticity Of The Kink Turn Structural Motif
Length = 95
Score = 29.3 bits (64), Expect = 2.4, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 175 EKFGEDYTAERLREIFSEFGKVEDVVI-KSSKKKGSALVV 213
EK +D + L IFS FG++ D+++ +S K +G A V+
Sbjct: 16 EKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVI 55
>pdb|2NZ4|A Chain A, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|B Chain B, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|C Chain C, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|D Chain D, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
Length = 94
Score = 29.3 bits (64), Expect = 2.4, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 175 EKFGEDYTAERLREIFSEFGKVEDVVI-KSSKKKGSALVV 213
EK +D + L IFS FG++ D+++ +S K +G A V+
Sbjct: 15 EKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVI 54
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 28.9 bits (63), Expect = 3.2, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 179 EDYTAERLREIFSEFGKVEDVVI 201
ED TAE L++ F ++G+V DV I
Sbjct: 21 EDMTAEELQQFFCQYGEVVDVFI 43
>pdb|1WF0|A Chain A, Solution Structure Of Rrm Domain In Tar Dna-Binding
Protein- 43
Length = 88
Score = 28.9 bits (63), Expect = 3.9, Method: Composition-based stats.
Identities = 12/22 (54%), Positives = 15/22 (68%)
Query: 180 DYTAERLREIFSEFGKVEDVVI 201
D T + LRE FS++G V DV I
Sbjct: 16 DMTEDELREFFSQYGDVMDVFI 37
>pdb|4DGT|A Chain A, Crystal Structure Of Plp-Bound Putative Aminotransferase
From Clostridium Difficile 630 Crystallized With
Magnesium Formate
pdb|4DGT|B Chain B, Crystal Structure Of Plp-Bound Putative Aminotransferase
From Clostridium Difficile 630 Crystallized With
Magnesium Formate
pdb|4DQ6|A Chain A, Crystal Structure Of Plp-Bound Putative Aminotransferase
From Clostridium Difficile 630
pdb|4DQ6|B Chain B, Crystal Structure Of Plp-Bound Putative Aminotransferase
From Clostridium Difficile 630
Length = 391
Score = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 16/28 (57%)
Query: 48 PDAHDNFQKLKSSYEILKDEKARKLFDD 75
P N L+SSY +L DEK KL DD
Sbjct: 236 PTKTFNIAGLQSSYVVLPDEKDYKLLDD 263
>pdb|1B79|A Chain A, N-Terminal Domain Of Dna Replication Protein Dnab
pdb|1B79|B Chain B, N-Terminal Domain Of Dna Replication Protein Dnab
pdb|1B79|C Chain C, N-Terminal Domain Of Dna Replication Protein Dnab
pdb|1B79|D Chain D, N-Terminal Domain Of Dna Replication Protein Dnab
Length = 119
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%)
Query: 153 ETKQSGSGGVGLDKEKVLKVSWEKFGEDYTAERLREIFSEFGKVED 198
E +QS GG+ LD E+ V+ +D+ R IF+E ++++
Sbjct: 22 EAEQSVLGGLMLDNERWDDVAERVVADDFYTRPHRHIFTEMARLQE 67
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 156 QSGSGGVGLDKEKVLKVSWEKFGEDYTAERLREIFSEFGKVED--VVIKSSKKKGSALVV 213
SGS G + + +V+ + + + ERLR+ FS FG + V+++ + KG V
Sbjct: 2 SSGSSGDRITRYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVC 61
Query: 214 M 214
Sbjct: 62 F 62
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 25/37 (67%), Gaps = 4/37 (10%)
Query: 182 TAERLREIFSEFGKVEDVVI----KSSKKKGSALVVM 214
T+E+++E+FS+FGKV +V + ++ K KG V M
Sbjct: 14 TSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEM 50
>pdb|1JWE|A Chain A, Nmr Structure Of The N-Terminal Domain Of E. Coli Dnab
Helicase
Length = 114
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%)
Query: 153 ETKQSGSGGVGLDKEKVLKVSWEKFGEDYTAERLREIFSEFGKVED 198
E +QS GG+ LD E+ V+ +D+ R IF+E ++++
Sbjct: 9 EAEQSVLGGLMLDNERWDDVAERVVADDFYTRPHRHIFTEMARLQE 54
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 27.3 bits (59), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 159 SGGVGLDKEKVLKVSWEKFGEDYTAERLREIFSEFGKVEDV 199
SG G+ K KVL V T E L + FS+FGK+E V
Sbjct: 3 SGSSGMAKVKVLFV--RNLANTVTEEILEKAFSQFGKLERV 41
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
0.312 0.130 0.362
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,723,277
Number of Sequences: 62578
Number of extensions: 300128
Number of successful extensions: 1123
Number of sequences better than 100.0: 81
Number of HSP's better than 100.0 without gapping: 43
Number of HSP's successfully gapped in prelim test: 38
Number of HSP's that attempted gapping in prelim test: 1053
Number of HSP's gapped (non-prelim): 91
length of query: 292
length of database: 14,973,337
effective HSP length: 98
effective length of query: 194
effective length of database: 8,840,693
effective search space: 1715094442
effective search space used: 1715094442
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 51 (24.3 bits)