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= 025799
(248 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OCH|A Chain A, J-domain Of Dnj-12 From Caenorhabditis Elegans
Length = 73
Score = 75.5 bits (184), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 40/73 (54%), Positives = 51/73 (69%), Gaps = 3/73 (4%)
Query: 1 MVKDTAYYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSD 60
MVK+T YYDVLGV DAS E+KKAY A HPDKN P A+ F+ + +AY+VLSD
Sbjct: 4 MVKETGYYDVLGVKPDASDNELKKAYRKMALKFHPDKN---PDGAEQFKQISQAYEVLSD 60
Query: 61 PEKREAYDKHGKE 73
+KR+ YD+ G+E
Sbjct: 61 EKKRQIYDQGGEE 73
>pdb|2LO1|A Chain A, Nmr Structure Of The Protein Bc008182, A Dnaj-Like
Domain From Homo Sapiens
Length = 71
Score = 72.8 bits (177), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 38/73 (52%), Positives = 51/73 (69%), Gaps = 3/73 (4%)
Query: 1 MVKDTAYYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSD 60
MVK+T YYDVLGV +A+ E+KKAY A HPDKNP + + F+ + +AY+VLSD
Sbjct: 2 MVKETTYYDVLGVKPNATQEELKKAYRKLALKYHPDKNPNE---GEKFKQISQAYEVLSD 58
Query: 61 PEKREAYDKHGKE 73
+KRE YDK G++
Sbjct: 59 AKKRELYDKGGEQ 71
>pdb|2DN9|A Chain A, Solution Structure Of J-Domain From The Dnaj Homolog,
Human Tid1 Protein
Length = 79
Score = 70.9 bits (172), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 37/65 (56%), Positives = 44/65 (67%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSDPEKREA 66
YY +LGV +AS EIKKAYY A+ HPD N DPKA + F L EAY+VLSD KR+
Sbjct: 9 YYQILGVPRNASQKEIKKAYYQLAKKYHPDTNKDDPKAKEKFSQLAEAYEVLSDEVKRKQ 68
Query: 67 YDKHG 71
YD +G
Sbjct: 69 YDAYG 73
>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 = 70.9 bits (172), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 38/94 (40%), Positives = 54/94 (57%), Gaps = 8/94 (8%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSDPEKREA 66
YY++LGV+ A EI+KAY A HPD+N GD +A F+ + EAY+VL+D +KR A
Sbjct: 5 YYEILGVSKTAEEREIRKAYKRLAMKYHPDRNQGDKEAEAKFKEIKEAYEVLTDSQKRAA 64
Query: 67 YDKHGKEGIPQ--------DSMVDAAAVFGMIFG 92
YD++G Q D + +FG +FG
Sbjct: 65 YDQYGHAAFEQGGMGGGGFGGGADFSDIFGDVFG 98
>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 = 70.9 bits (172), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 38/94 (40%), Positives = 54/94 (57%), Gaps = 8/94 (8%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSDPEKREA 66
YY++LGV+ A EI+KAY A HPD+N GD +A F+ + EAY+VL+D +KR A
Sbjct: 5 YYEILGVSKTAEEREIRKAYKRLAMKYHPDRNQGDKEAEAKFKEIKEAYEVLTDSQKRAA 64
Query: 67 YDKHGKEGIPQ--------DSMVDAAAVFGMIFG 92
YD++G Q D + +FG +FG
Sbjct: 65 YDQYGHAAFEQGGMGGGGFGGGADFSDIFGDVFG 98
>pdb|2DMX|A Chain A, Solution Structure Of The J Domain Of Dnaj Homolog
Subfamily B Member 8
Length = 92
Score = 68.6 bits (166), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 36/66 (54%), Positives = 46/66 (69%), Gaps = 1/66 (1%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDP-KAAKNFQVLGEAYQVLSDPEKRE 65
YY+VLGV ASP +IKKAY A HPDKNP + +A K F+++ EAY+VLSD +KR
Sbjct: 11 YYEVLGVQASASPEDIKKAYRKLALRWHPDKNPDNKEEAEKKFKLVSEAYEVLSDSKKRS 70
Query: 66 AYDKHG 71
YD+ G
Sbjct: 71 LYDRAG 76
>pdb|2LGW|A Chain A, Solution Structure Of The J Domain Of Hsj1a
Length = 99
Score = 68.2 bits (165), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 37/71 (52%), Positives = 50/71 (70%), Gaps = 1/71 (1%)
Query: 6 AYYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPK-AAKNFQVLGEAYQVLSDPEKR 64
+YY++L V AS +IKKAY KA HPDKNP + + A K F+ + EAY+VLSD KR
Sbjct: 3 SYYEILDVPRSASADDIKKAYRRKALQWHPDKNPDNKEFAEKKFKEVAEAYEVLSDKHKR 62
Query: 65 EAYDKHGKEGI 75
E YD++G+EG+
Sbjct: 63 EIYDRYGREGL 73
>pdb|1HDJ|A Chain A, Human Hsp40 (Hdj-1), Nmr
Length = 77
Score = 67.8 bits (164), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 35/69 (50%), Positives = 47/69 (68%), Gaps = 1/69 (1%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSDPEKREA 66
YY LG+ AS EIK+AY +A HPDKN +P A + F+ + EAY VLSDP KRE
Sbjct: 5 YYQTLGLARGASDEEIKRAYRRQALRYHPDKNK-EPGAEEKFKEIAEAYDVLSDPRKREI 63
Query: 67 YDKHGKEGI 75
+D++G+EG+
Sbjct: 64 FDRYGEEGL 72
>pdb|3APO|A Chain A, Crystal Structure Of Full-Length Erdj5
Length = 780
Score = 67.4 bits (163), Expect = 7e-12, Method: Composition-based stats.
Identities = 31/72 (43%), Positives = 48/72 (66%)
Query: 4 DTAYYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSDPEK 63
D +Y +LGV+ AS EI++A+ A +HPDKNP +P A +F + AY+VL D +
Sbjct: 20 DQNFYSLLGVSKTASSREIRQAFKKLALKLHPDKNPNNPNAHGDFLKINRAYEVLKDEDL 79
Query: 64 REAYDKHGKEGI 75
R+ YDK+G++G+
Sbjct: 80 RKKYDKYGEKGL 91
>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 = 67.4 bits (163), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 33/71 (46%), Positives = 46/71 (64%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSDPEKREA 66
YY++LGV+ A EI+KAY A HPD+N GD +A F+ + EAY+VL+D +KR A
Sbjct: 5 YYEILGVSKTAEEREIRKAYKRLAMKYHPDRNQGDKEAEAKFKEIKEAYEVLTDSQKRAA 64
Query: 67 YDKHGKEGIPQ 77
YD++G Q
Sbjct: 65 YDQYGHAAFEQ 75
>pdb|2O37|A Chain A, J-Domain Of Sis1 Protein, Hsp40 Co-Chaperone From
Saccharomyces Cerevisiae
Length = 92
Score = 67.0 bits (162), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 34/74 (45%), Positives = 49/74 (66%), Gaps = 3/74 (4%)
Query: 1 MVKDTAYYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSD 60
MVK+T YD+LGV+ A+ E+KK Y A HPDK GD + F+ + EA+++L+D
Sbjct: 4 MVKETKLYDLLGVSPSANEQELKKGYRKAALKYHPDKPTGD---TEKFKEISEAFEILND 60
Query: 61 PEKREAYDKHGKEG 74
P+KRE YD++G E
Sbjct: 61 PQKREIYDQYGLEA 74
>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 = 64.7 bits (156), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 30/69 (43%), Positives = 47/69 (68%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSDPEKREA 66
+Y +LGV+ AS EI++A+ A +HPDKNP +P A +F + AY+VL D + R+
Sbjct: 4 FYSLLGVSKTASSREIRQAFKKLALKLHPDKNPNNPNAHGDFLKINRAYEVLKDEDLRKK 63
Query: 67 YDKHGKEGI 75
YDK+G++G+
Sbjct: 64 YDKYGEKGL 72
>pdb|2CTW|A Chain A, Solution Structure Of J-Domain From Mouse Dnaj Subfamily
C Menber 5
Length = 109
Score = 63.2 bits (152), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 30/68 (44%), Positives = 45/68 (66%)
Query: 8 YDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSDPEKREAY 67
Y VLG++ +A+ +IKK+Y A HPDKNP +P+AA F+ + A+ +L+D KR Y
Sbjct: 20 YHVLGLDKNATSDDIKKSYRKLALKYHPDKNPDNPEAADKFKEINNAHAILTDATKRNIY 79
Query: 68 DKHGKEGI 75
DK+G G+
Sbjct: 80 DKYGSLGL 87
>pdb|2CTP|A Chain A, Solution Structure Of J-Domain From Human Dnaj Subfamily
B Menber 12
Length = 78
Score = 62.4 bits (150), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 33/65 (50%), Positives = 44/65 (67%), Gaps = 1/65 (1%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSDPEKREA 66
YY++LGV+ AS ++KKAY A HPDKN P A + F+ +G AY VLS+PEKR+
Sbjct: 9 YYEILGVSRGASDEDLKKAYRRLALKFHPDKNHA-PGATEAFKAIGTAYAVLSNPEKRKQ 67
Query: 67 YDKHG 71
YD+ G
Sbjct: 68 YDQFG 72
>pdb|2YUA|A Chain A, Solution Structure Of The Dnaj Domain From Human
Williams- Beuren Syndrome Chromosome Region 18 Protein
Length = 99
Score = 60.5 bits (145), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 29/65 (44%), Positives = 40/65 (61%)
Query: 5 TAYYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSDPEKR 64
TA YD+LGV A+ A+IK AYY + + HPD+N G +AA+ F + +AY VL R
Sbjct: 17 TALYDLLGVPSTATQAQIKAAYYRQCFLYHPDRNSGSAEAAERFTRISQAYVVLGSATLR 76
Query: 65 EAYDK 69
YD+
Sbjct: 77 RKYDR 81
>pdb|2CUG|A Chain A, Solution Structure Of The J Domain Of The Pseudo Dnaj
Protein, Mouse Hypothetical Mkiaa0962
Length = 88
Score = 58.9 bits (141), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 34/64 (53%), Positives = 42/64 (65%), Gaps = 1/64 (1%)
Query: 8 YDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSDPEKREAY 67
Y VLGV+ AS A+IKKAY AR HPDKN DP A F + +AY++LS+ EKR Y
Sbjct: 20 YRVLGVSRTASQADIKKAYKKLAREWHPDKNK-DPGAEDRFIQISKAYEILSNEEKRTNY 78
Query: 68 DKHG 71
D +G
Sbjct: 79 DHYG 82
>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 = 57.4 bits (137), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 33/66 (50%), Positives = 44/66 (66%), Gaps = 1/66 (1%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDP-KAAKNFQVLGEAYQVLSDPEKRE 65
YY+VL V AS IKKAY A HPDKNP + +A + F+ + EAY+VLSD +KR+
Sbjct: 11 YYEVLDVPRQASSEAIKKAYRKLALKWHPDKNPENKEEAERRFKQVAEAYEVLSDAKKRD 70
Query: 66 AYDKHG 71
YD++G
Sbjct: 71 IYDRYG 76
>pdb|2CTR|A Chain A, Solution Structure Of J-Domain From Human Dnaj Subfamily
B Menber 9
Length = 88
Score = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 31/65 (47%), Positives = 40/65 (61%), Gaps = 1/65 (1%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSDPEKREA 66
YYD+LGV AS +IKKA++ A HPDKN P A F+ + EAY+ LSD +R+
Sbjct: 9 YYDILGVPKSASERQIKKAFHKLAMKYHPDKNK-SPDAEAKFREIAEAYETLSDANRRKE 67
Query: 67 YDKHG 71
YD G
Sbjct: 68 YDTLG 72
>pdb|2CTQ|A Chain A, Solution Structure Of J-Domain From Human Dnaj Subfamily
C Menber 12
Length = 112
Score = 51.2 bits (121), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 39/62 (62%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSDPEKREA 66
YY +LG + +S +I + ++A HPDK+P +PKA + FQ L +A ++L++ E R
Sbjct: 22 YYTLLGCDELSSVEQILAEFKVRALECHPDKHPENPKAVETFQKLQKAKEILTNEESRAR 81
Query: 67 YD 68
YD
Sbjct: 82 YD 83
>pdb|2KQX|A Chain A, Nmr Structure Of The J-Domain (Residues 2-72) In The
Escherichia Coli Cbpa
Length = 73
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSDPEKREA 66
YY ++GV IK AY AR HPD + +P A F+ + EA++VLSD ++R
Sbjct: 7 YYAIMGVKPTDDLKTIKTAYRRLARKYHPDVS-KEPDAEARFKEVAEAWEVLSDEQRRAE 65
Query: 67 YDK 69
YD+
Sbjct: 66 YDQ 68
>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 = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 26/63 (41%), Positives = 35/63 (55%), Gaps = 1/63 (1%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSDPEKREA 66
YY +LGV IK AY AR HPD + + AK F+ L EA++VL D ++R
Sbjct: 30 YYAILGVQPTDDLKTIKTAYRRLARKYHPDVSKENDAEAK-FKDLAEAWEVLKDEQRRAE 88
Query: 67 YDK 69
YD+
Sbjct: 89 YDQ 91
>pdb|2Y4U|A Chain A, Crystal Structure Of Human P58(Ipk) In Space Group P312
Length = 450
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 28/65 (43%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPD---KNPGDPKAAKNFQVLGEAYQVLSDPEK 63
YY +LGV +A EI KAY A HPD KA K F + A +VLSDPE
Sbjct: 384 YYKILGVKRNAKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEX 443
Query: 64 REAYD 68
R+ +D
Sbjct: 444 RKKFD 448
>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 = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 28/65 (43%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPD---KNPGDPKAAKNFQVLGEAYQVLSDPEK 63
YY +LGV +A EI KAY A HPD KA K F + A +VLSDPE
Sbjct: 384 YYKILGVKRNAKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEM 443
Query: 64 REAYD 68
R+ +D
Sbjct: 444 RKKFD 448
>pdb|1WJZ|A Chain A, Soluiotn Structure Of J-Domain Of Mouse Dnaj Like
Protein
Length = 94
Score = 35.4 bits (80), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 36/68 (52%), Gaps = 6/68 (8%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAA------KNFQVLGEAYQVLSD 60
+Y +LG + A+ +++K+ Y + HPDK D A + F + +A+++L +
Sbjct: 18 WYSILGADPSANMSDLKQKYQKLILLYHPDKQSADVPAGTMEECMQKFIEIDQAWKILGN 77
Query: 61 PEKREAYD 68
E ++ YD
Sbjct: 78 EETKKKYD 85
>pdb|2L6L|A Chain A, Solution Structure Of Human J-Protein Co-Chaperone, Dph4
Length = 155
Score = 34.3 bits (77), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 35/68 (51%), Gaps = 6/68 (8%)
Query: 7 YYDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAA------KNFQVLGEAYQVLSD 60
+Y +LG + A+ +++K+ Y + HPDK D A + F + +A+++L +
Sbjct: 12 WYSILGADPSANISDLKQKYQKLILMYHPDKQSTDVPAGTVEECVQKFIEIDQAWKILGN 71
Query: 61 PEKREAYD 68
E + YD
Sbjct: 72 EETKREYD 79
>pdb|2QSA|A Chain A, Crystal Structure Of J-Domain Of Dnaj Homolog Dnj-2
Precursor From C.Elegans
Length = 109
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 34/65 (52%), Gaps = 4/65 (6%)
Query: 8 YDVLGVNVDA-SPAEIKKAYYLKARIVHPDKNPGDPK---AAKNFQVLGEAYQVLSDPEK 63
YDVL VN + ++ KAY AR HPD+ + A + F+V+ AY+ L D E
Sbjct: 18 YDVLEVNREEFDKQKLAKAYRALARKHHPDRVKNKEEKLLAEERFRVIATAYETLKDDEA 77
Query: 64 REAYD 68
+ YD
Sbjct: 78 KTNYD 82
>pdb|2YS8|A Chain A, Solution Structure Of The Dnaj-Like Domain From Human
Ras- Associated Protein Rap1
Length = 90
Score = 31.2 bits (69), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 20/30 (66%)
Query: 8 YDVLGVNVDASPAEIKKAYYLKARIVHPDK 37
+D+LGV AS E+ KAY A ++HPDK
Sbjct: 30 WDMLGVKPGASRDEVNKAYRKLAVLLHPDK 59
>pdb|1XI5|J Chain J, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|K Chain K, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|L Chain L, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|M Chain M, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|N Chain N, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|O Chain O, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|P Chain P, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|Q Chain Q, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|R Chain R, Clathrin D6 Coat With Auxilin J-Domain
Length = 114
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 8 YDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDP 42
+ +G+ +P ++KK Y +VHPDK G P
Sbjct: 52 WKPVGMADLVTPEQVKKVYRKAVLVVHPDKATGQP 86
>pdb|1HI9|A Chain A, Zn-Dependent D-Aminopeptidase Dppa From Bacillus Subtilis,
A Self-Compartmentalizing Protease.
pdb|1HI9|B Chain B, Zn-Dependent D-Aminopeptidase Dppa From Bacillus Subtilis,
A Self-Compartmentalizing Protease.
pdb|1HI9|C Chain C, Zn-Dependent D-Aminopeptidase Dppa From Bacillus Subtilis,
A Self-Compartmentalizing Protease.
pdb|1HI9|D Chain D, Zn-Dependent D-Aminopeptidase Dppa From Bacillus Subtilis,
A Self-Compartmentalizing Protease.
pdb|1HI9|E Chain E, Zn-Dependent D-Aminopeptidase Dppa From Bacillus Subtilis,
A Self-Compartmentalizing Protease
Length = 274
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 36/154 (23%), Positives = 61/154 (39%), Gaps = 20/154 (12%)
Query: 66 AYDKHGKEGIPQDSMVDAAAVFGMIFGSEYFEDYIGQLALATMASVEVEE--DKQDIEVY 123
+ D G G+P D+ VD+ G +E G+L + A+ + E + EV
Sbjct: 6 SVDMEGISGLPDDTFVDS--------GKRNYER--GRLIMTEEANYCIAEAFNSGCTEVL 55
Query: 124 KHKIQEKMRAMQKEREEKLITILKNHLEPF--VDGRADEF--VKWANAEARRLSGAAFGE 179
+ KM + E+ ++ ++PF V+G D F + AR +
Sbjct: 56 VNDSHSKMNNLMVEKLHPEADLISGDVKPFSMVEGLDDTFRGALFLGYHARASTPGVMSH 115
Query: 180 AMLHTIGYIYTR-RAAKELGKDKR---YMKVPFL 209
+M+ + + Y R ELG + Y VP L
Sbjct: 116 SMIFGVRHFYINDRPVGELGLNAYVAGYYDVPVL 149
>pdb|1NZ6|A Chain A, Crystal Structure Of Auxilin J-Domain
pdb|1NZ6|B Chain B, Crystal Structure Of Auxilin J-Domain
Length = 101
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 17 ASPAEIKKAYYLKARIVHPDKNPGDP 42
+P ++KK Y +VHPDK G P
Sbjct: 48 VTPEQVKKVYRKAVLVVHPDKATGQP 73
>pdb|1N4C|A Chain A, Nmr Structure Of The J-Domain And Clathrin Substrate
Binding Domain Of Bovine Auxilin
Length = 182
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 8 YDVLGVNVDASPAEIKKAYYLKARIVHPDKNPGDP 42
+ +G+ +P ++KK Y +VHPDK G P
Sbjct: 120 WKPVGMADLVTPEQVKKVYRKAVLVVHPDKATGQP 154
>pdb|1L9U|D Chain D, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|M Chain M, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9Z|D Chain D, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
pdb|1YNJ|D Chain D, Taq Rna Polymerase-Sorangicin Complex
pdb|1YNJ|J Chain J, Taq Rna Polymerase-Sorangicin Complex
pdb|1YNN|D Chain D, Taq Rna Polymerase-rifampicin Complex
pdb|1YNN|J Chain J, Taq Rna Polymerase-rifampicin Complex
Length = 1524
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 36/74 (48%), Gaps = 9/74 (12%)
Query: 11 LGVNVDASPAEIKKAYYLKARIVHPDKNPGDPKAAKNFQVLGEAYQVLSDPEKREAYDKH 70
+G +D S E+++ Y IV DPK A V E Q+L+D E RE ++
Sbjct: 112 IGTLLDLSATELEQVLYFNKYIVL------DPKGAVLDGVPVEKRQLLTDEEYREL--RY 163
Query: 71 GK-EGIPQDSMVDA 83
GK E P + VDA
Sbjct: 164 GKQETYPLPAGVDA 177
>pdb|3L2D|A Chain A, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp.
pdb|3L2D|B Chain B, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp.
pdb|3L2D|C Chain C, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp.
pdb|3L2D|D Chain D, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp.
pdb|3L2E|B Chain B, Glycocyamine Kinase, Alpha-Beta Heterodimer From Marine
Worm Namalycastis Sp.
pdb|3L2E|D Chain D, Glycocyamine Kinase, Alpha-Beta Heterodimer From Marine
Worm Namalycastis Sp.
pdb|3L2F|A Chain A, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|B Chain B, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|C Chain C, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|D Chain D, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|E Chain E, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|F Chain F, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|G Chain G, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|H Chain H, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|I Chain I, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|J Chain J, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|K Chain K, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|L Chain L, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|M Chain M, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|N Chain N, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|O Chain O, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|P Chain P, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|Q Chain Q, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2F|R Chain R, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 1.
pdb|3L2G|A Chain A, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|B Chain B, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|C Chain C, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|D Chain D, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|E Chain E, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|F Chain F, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|G Chain G, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|H Chain H, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|I Chain I, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|J Chain J, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|K Chain K, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|L Chain L, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|M Chain M, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|N Chain N, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|O Chain O, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|P Chain P, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|Q Chain Q, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2.
pdb|3L2G|R Chain R, Glycocyamine Kinase, Beta-Beta Homodimer From Marine
Worm Namalycastis Sp., With Transition State Analog
Mg(Ii)-Adp-No3-Glycocyamine. Part 2
Length = 390
Score = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 37/90 (41%), Gaps = 16/90 (17%)
Query: 26 YYLKARIVHPDK-NPGDPKAAKNFQVLGEAYQVLSDPEKREAYDKHGKEGIPQDSMVDAA 84
Y++K R+ H G KAA NF L + V++ +E Y+K+ + P D
Sbjct: 8 YFVKNRVGHSKPWESGKFKAADNFPDLSKHNNVMASQLTKELYEKYWDKVTPNGVTFDKC 67
Query: 85 AVFGM--------------IFGSEY-FEDY 99
G+ +FG EY +E Y
Sbjct: 68 IQTGVDNPGNKFYGKKTGCVFGDEYSYECY 97
>pdb|1H6K|A Chain A, Nuclear Cap Binding Complex
pdb|1H6K|B Chain B, Nuclear Cap Binding Complex
pdb|1H6K|C Chain C, Nuclear Cap Binding Complex
Length = 757
Score = 27.7 bits (60), Expect = 5.6, Method: Composition-based stats.
Identities = 26/99 (26%), Positives = 40/99 (40%), Gaps = 28/99 (28%)
Query: 80 MVDAAAVFGMIFGSEYFEDYIGQLALATMASV-------------EVEEDKQD------- 119
+VD AAV IF SE D+ + S E+EE K+
Sbjct: 594 IVDCAAVANWIFSSELSRDFTRLFVWEILHSTIRKMNKHVLKIQKELEEAKEKLARQHDG 653
Query: 120 -IEVYKHKIQEKMRAMQKERE-------EKLITILKNHL 150
+E ++QEK+ + Q E++ ++ I IL HL
Sbjct: 654 VLEEQIERLQEKVESAQSEQKNLFLVIFQRFIMILTEHL 692
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 0.132 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,504,809
Number of Sequences: 62578
Number of extensions: 310696
Number of successful extensions: 894
Number of sequences better than 100.0: 44
Number of HSP's better than 100.0 without gapping: 32
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 847
Number of HSP's gapped (non-prelim): 46
length of query: 248
length of database: 14,973,337
effective HSP length: 96
effective length of query: 152
effective length of database: 8,965,849
effective search space: 1362809048
effective search space used: 1362809048
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: 50 (23.9 bits)