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= psy15771
(265 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FUG|5 Chain 5, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|E Chain E, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|N Chain N, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|W Chain W, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|3I9V|5 Chain 5, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3I9V|E Chain E, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3IAM|5 Chain 5, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAM|E Chain E, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAS|5 Chain 5, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|E Chain E, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|N Chain N, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|W Chain W, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3M9S|5 Chain 5, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|3M9S|E Chain E, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|2YBB|5 Chain 5, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
pdb|4HEA|5 Chain 5, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
pdb|4HEA|F Chain F, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
Length = 207
Score = 87.0 bits (214), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 49/114 (42%), Positives = 68/114 (59%), Gaps = 11/114 (9%)
Query: 100 HHTAQFVN-LVDIAGMDVPS----RPNRFEIIYNLLSLRY-----NSRIRVKTYTDELTP 149
H+ A N L DI G+D + RP RF ++Y L+SL SR V+ Y E P
Sbjct: 40 HYKAMGFNFLADIVGLDYLTYPDPRPERFAVVYELVSLPGWKDGDGSRFFVRVYVPEEDP 99
Query: 150 -LDSANEVFKAANWYEREIWDMFGVYFSNHPDLRRILTDYGFEGHPFRKDFPLS 202
L + +++ +AN+ ERE++D+FG+ F HPDLR+ILT EGHP RKD+PL
Sbjct: 100 RLPTVTDLWGSANFLEREVYDLFGIVFEGHPDLRKILTPEDLEGHPLRKDYPLG 153
>pdb|3MCR|A Chain A, Crystal Structure Of Nadh Dehydrogenase Subunit C
(Tfu_2693) From Thermobifida Fusca Yx-Er1 At 2.65 A
Resolution
Length = 213
Score = 55.1 bits (131), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 56/116 (48%), Gaps = 3/116 (2%)
Query: 70 IEKVQITSGDELELLIIPEGVVPVLQFLKDHHTAQFVNLVDIAGMDVP-SRPNRFEIIYN 128
I +V + G E+ + E ++ V L+D +F + + G+ P N +Y
Sbjct: 99 ISRVVVDRG-EITFHVQREHLLDVATRLRDDPALRFELCLGVTGVHYPEDEGNELHAVYA 157
Query: 129 LLSLRYNSRIRVKTYTDELTP-LDSANEVFKAANWYEREIWDMFGVYFSNHPDLRR 183
L S+ +N IR++ + P + S V+ +W+ERE WD FG+ F HP L R
Sbjct: 158 LRSITHNYEIRLEVSCPDSDPHIPSIVSVYPTNDWHEREAWDFFGIIFDGHPALTR 213
>pdb|4E9O|X Chain X, Vaccinia D8l Ectodomain Structure
pdb|4ETQ|X Chain X, Vaccinia Virus D8l Imv Envelope Protein In Complex With
Fab Of Murine Igg2a La5
pdb|4ETQ|C Chain C, Vaccinia Virus D8l Imv Envelope Protein In Complex With
Fab Of Murine Igg2a La5
Length = 269
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 46/188 (24%), Positives = 72/188 (38%), Gaps = 36/188 (19%)
Query: 48 DEVARSHLVDFGKYCAEILPKYIEKVQITSGDELELLIIPEGVVPVLQFLK--DHHTAQF 105
D+ +HL+D KY EI + K + +S +E + +G++ + FL+ DH F
Sbjct: 74 DDYGSNHLIDVYKYSGEINLVHWNKKKYSSYEEAKKH--DDGLIIISIFLQVLDHKNVYF 131
Query: 106 ---VNLVDIAGMDVPSRPNRFEIIYNLLSLRYNSRIRVKTYTDELTP--LDSANEVFKAA 160
VN +D S P F+ ++ Y D L P LD +
Sbjct: 132 QKIVNQLDSIRSANTSAP--FDSVF---------------YLDNLLPSKLDYFTYLGTTI 174
Query: 161 NWYEREIWDMFGVYFSNHPD----LRRILTDYGFEGHP------FRKDFPLSGYVEVRYD 210
N +W +F + H D R +L+ EG P +R + L+ EV Y
Sbjct: 175 NHSADAVWIIFPTPINIHSDQLSKFRTLLSLSNHEGKPHYITENYRNPYKLNDDTEVYYS 234
Query: 211 DEKKRVVV 218
E R
Sbjct: 235 GEIIRAAT 242
>pdb|4FOP|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From
Acinetobacter Baumannii At 1.86 A Resolution
pdb|4FOT|A Chain A, Crystal Structure Of Peptidyl- Trna Hydrolase From
Acinetobacter Baumannii At 2.20 A Resolution
pdb|4HOY|A Chain A, Crystal Structure Of Peptidyl- Trna Hydrolase From
Acinetobacter Baumannii At 1.78 A Resolution
pdb|4IKO|A Chain A, Structure Of Peptidyl- Trna Hydrolase From Acinetobacter
Baumannii At 1.90 A Resolution
Length = 193
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 20/50 (40%)
Query: 153 ANEVFKAANWYEREIWDMFGVYFSNHPDLRRILTDYGFEGHPFRKDFPLS 202
A A W+ ++ D +G+ N P I EGH R P++
Sbjct: 18 AQTRHNAGFWFVEQLADKYGITLKNDPKFHGISGRGNIEGHDVRLLLPMT 67
>pdb|3PZL|A Chain A, The Crystal Structure Of Agmatine Ureohydrolase Of
Thermoplasma Volcanium
pdb|3PZL|B Chain B, The Crystal Structure Of Agmatine Ureohydrolase Of
Thermoplasma Volcanium
pdb|3PZL|C Chain C, The Crystal Structure Of Agmatine Ureohydrolase Of
Thermoplasma Volcanium
Length = 313
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 139 RVKTYTDELTPLDSANEVFKAANWYEREIWDMFGVYFSNHPDLRR 183
R K + EL + S ++ A N YE + +FG+ F N RR
Sbjct: 8 REKDHASELRSIFSLKKIADAVNGYEEAKYVVFGIPFDNTSSYRR 52
>pdb|2OZP|A Chain A, Crystal Structure Of N-Acetyl-Gamma-Glutamyl-Phosphate
Reductase (Ttha1904) From Thermus Thermophilus
Length = 345
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 15/77 (19%), Positives = 35/77 (45%), Gaps = 2/77 (2%)
Query: 144 TDELTPLDSANEVFKAANWYEREIWDMFGVYFSNHPDLRRILTDYGFEGHPFRKDFPLSG 203
TD + + + F W ER++W + ++ P +R + G +P + +
Sbjct: 231 TDRVRGILXTAQCFVQDGWSERDVWQAYREAYAGEPFIRLVKQKKGVHRYPDPRFVQGTN 290
Query: 204 YVEVRY--DDEKKRVVV 218
Y ++ + +++ R+VV
Sbjct: 291 YADIGFELEEDTGRLVV 307
>pdb|2EX5|A Chain A, Group I Intron-encoded Homing Endonuclease I-ceui
Complexed With Dna
pdb|2EX5|B Chain B, Group I Intron-encoded Homing Endonuclease I-ceui
Complexed With Dna
Length = 207
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 36/145 (24%), Positives = 69/145 (47%), Gaps = 10/145 (6%)
Query: 43 IRKPIDEVARSHLVDFGKYCAEILPKY-IEKVQITSGDELELLIIPEGVVPVLQFLKDHH 101
++K D V ++ +F KY ++ + I++VQ+TS +L L EG + K
Sbjct: 16 LKKINDAVKKTK--NFSKYLIDLRKLFQIDEVQVTSESKLFLAGFLEGEASLNISTKKLA 73
Query: 102 TAQFVNLVDIAGMDVPSRPNRFEIIYNLLSLRYNSRIRVKTYTDELTPLDSANEVFKAAN 161
T++F +VD +V N +++Y L + RIR K+ ++ L N +
Sbjct: 74 TSKFGLVVD-PEFNVTRHVNGVKVLYLALEVFKTGRIRHKSGSNATLVLTIDNR----QS 128
Query: 162 WYEREI--WDMFGVYFSNHPDLRRI 184
E+ I ++ + V FS+ ++R+
Sbjct: 129 LEEKVIPFYEQYVVAFSSPEKVKRV 153
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
0.322 0.140 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,816,751
Number of Sequences: 62578
Number of extensions: 330405
Number of successful extensions: 770
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 764
Number of HSP's gapped (non-prelim): 12
length of query: 265
length of database: 14,973,337
effective HSP length: 97
effective length of query: 168
effective length of database: 8,903,271
effective search space: 1495749528
effective search space used: 1495749528
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)