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= 009859
(523 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FUG|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|L Chain L, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|U Chain U, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|3I9V|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3I9V|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3IAM|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAM|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAS|3 Chain 3, 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|C Chain C, 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|L Chain L, 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|U Chain U, 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|3 Chain 3, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|3M9S|C Chain C, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|2YBB|3 Chain 3, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
pdb|4HEA|3 Chain 3, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
pdb|4HEA|D Chain D, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
Length = 783
Score = 123 bits (308), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 128/485 (26%), Positives = 189/485 (38%), Gaps = 55/485 (11%)
Query: 2 CVRFATEVAGVQDLGMLGRGSGEEIGTYVEKLMTSELSGNVIDICPVGALTSKPFAFKAR 61
CVR+ EV G + L + RG IGT ++ + S SGN+ DICPVGAL F+AR
Sbjct: 187 CVRYFEEVPGDEVLDFIERGVHTFIGT-MDFGLPSGFSGNITDICPVGALLDLTARFRAR 245
Query: 62 NWELKGTETIDVTDAVGSNIRIDSRGPEVMRILPRLNEDINEEWISDKTRFCYDGLKSQR 121
NWE++ T T VG I D+R E++RI R ++NE WI D RF ++ R
Sbjct: 246 NWEMEETPTTCALCPVGCGITADTRSGELLRIRAREVPEVNEIWICDAGRFGHEWADQNR 305
Query: 122 LNDPMIRGADGRFKAVNWRDALAVVAEVMLQAKPEEIVGIAGRLSDAESMMALKDFLNRM 181
L P++R +GR W +A + E + +A+ EE+ + E + + +
Sbjct: 306 LKTPLVR-KEGRLVEATWEEAFLALKEGLKEARGEEVGLYLAHDATLEEGLLASELAKAL 364
Query: 182 GSNNVWCEGTGAQSNADLRSGYIMNTSISGLEKADCFLLVGTQPRVEAAMVNARIRKTVR 241
+ ++ +G A + S+ L +AD F LV P EA +++ R+ + VR
Sbjct: 365 KTPHLDFQGRTAAP-----ASLFPPASLEDLLQAD-FALVLGDPTEEAPILHLRLSEFVR 418
Query: 242 --ANNAKVGYIGPATDLNYDHQHLGTGPKTLLEIAEGRHPFFS----------------- 282
+ + P DL + K L A R P
Sbjct: 419 DLKPPHRYNHGTPFADLQIKERMPRRTDKMAL-FAPYRAPLMKWAAIHEVHRPGEEREIL 477
Query: 283 ------------------AISNAKNPVIIVGAGLFERKDKDAIFSTVEAIAKKGNVIRPD 324
A AKNPV+I+GAG+ + TV A + R
Sbjct: 478 LALLGDKEGSEMVAKAKEAWEKAKNPVLILGAGVLQ--------DTVAAERARLLAERKG 529
Query: 325 WNXXXXXXXXXXXXXXXXXXXXPESSNSIESAKFVYLMGADDVDLEKLPNDAFVVYQGHH 384
S + +Y E L FVV H
Sbjct: 530 AKVLAMTPAANARGLEAMGVLPGAKGASWDEPGALYAYYGFVPPEEALKGKRFVVMHLSH 589
Query: 385 GDHGVYR-ANVILPASAFSEKEGTYENTEGCTQQTLPAVPTVGDARDDWKIIRALSEVAG 443
R A+V+LPA F EK G N EG PA G+A +++ L+E G
Sbjct: 590 LHPLAERYAHVVLPAPTFYEKRGHLVNLEGRVLPLSPAPIENGEAEGALQVLALLAEALG 649
Query: 444 MRLPY 448
+R P+
Sbjct: 650 VRPPF 654
>pdb|2IV2|X Chain X, Reinterpretation Of Reduced Form Of Formate Dehydrogenase
H From E. Coli
pdb|1AA6|A Chain A, Reduced Form Of Formate Dehydrogenase H From E. Coli
pdb|1FDI|A Chain A, Oxidized Form Of Formate Dehydrogenase H From E. Coli
Complexed With The Inhibitor Nitrite
pdb|1FDO|A Chain A, Oxidized Form Of Formate Dehydrogenase H From E. Coli
Length = 715
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 41/86 (47%)
Query: 392 ANVILPASAFSEKEGTYENTEGCTQQTLPAVPTVGDARDDWKIIRALSEVAGMRLPYDTI 451
A+VILP++++ E EG + + Q+ AV D + DW+II ++ G + Y+
Sbjct: 439 ADVILPSTSWGEHEGVFTAADRGFQRFFKAVEPKWDLKTDWQIISEIATRMGYPMHYNNT 498
Query: 452 GGIRSRIRTVAPNLLHVDEREPATLG 477
I +R + P+ + LG
Sbjct: 499 QEIWDELRHLCPDFYGATYEKMGELG 524
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 39/144 (27%), Positives = 61/144 (42%), Gaps = 13/144 (9%)
Query: 121 RLNDPMIRGA-DGRFKAVNWRDALAVVAEVMLQAK----PEEIVGI-AGRLSDAESMMAL 174
RL PMIR G+ + V+W +AL VAE + K P+ I + R + E+ +
Sbjct: 61 RLKTPMIRRQRGGKLEPVSWDEALNYVAERLSAIKEKYGPDAIQTTGSSRGTGNETNYVM 120
Query: 175 KDFLNR-MGSNNVWCEG--TGAQSNADLRSGY---IMNTSISGLEKADCFLLVGTQPRVE 228
+ F +G+NNV C S A L M+ +I+ ++ D + G P
Sbjct: 121 QKFARAVIGTNNVDCCARVXHGPSVAGLHQSVGNGAMSNAINEIDNTDLVFVFGYNPADS 180
Query: 229 AAMVNARIRKTVRANNAKVGYIGP 252
+V + R N AK+ P
Sbjct: 181 HPIVANHVINAKR-NGAKIIVCDP 203
>pdb|3O5A|A Chain A, Crystal Structure Of Partially Reduced Periplasmic Nitrate
Reductase From Cupriavidus Necator Using Ionic Liquids
Length = 802
Score = 35.4 bits (80), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 392 ANVILPASAFSEKEGTYENTEGCTQQTLPAVPTVGDARDD-WKII 435
A+++LP++ + EKEG Y N E TQ V G+AR D W+++
Sbjct: 493 ADLVLPSAMWVEKEGAYGNAERRTQFWHQLVDAPGEARSDLWQLV 537
>pdb|3ML1|A Chain A, Crystal Structure Of The Periplasmic Nitrate Reductase
From Cupriavidus Necator
Length = 802
Score = 35.4 bits (80), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 392 ANVILPASAFSEKEGTYENTEGCTQQTLPAVPTVGDARDD-WKII 435
A+++LP++ + EKEG Y N E TQ V G+AR D W+++
Sbjct: 493 ADLVLPSAMWVEKEGAYGNAERRTQFWHQLVDAPGEARSDLWQLV 537
>pdb|1OGY|A Chain A, Crystal Structure Of The Heterodimeric Nitrate Reductase
From Rhodobacter Sphaeroides
pdb|1OGY|C Chain C, Crystal Structure Of The Heterodimeric Nitrate Reductase
From Rhodobacter Sphaeroides
pdb|1OGY|E Chain E, Crystal Structure Of The Heterodimeric Nitrate Reductase
From Rhodobacter Sphaeroides
pdb|1OGY|G Chain G, Crystal Structure Of The Heterodimeric Nitrate Reductase
From Rhodobacter Sphaeroides
pdb|1OGY|I Chain I, Crystal Structure Of The Heterodimeric Nitrate Reductase
From Rhodobacter Sphaeroides
pdb|1OGY|K Chain K, Crystal Structure Of The Heterodimeric Nitrate Reductase
From Rhodobacter Sphaeroides
pdb|1OGY|M Chain M, Crystal Structure Of The Heterodimeric Nitrate Reductase
From Rhodobacter Sphaeroides
pdb|1OGY|O Chain O, Crystal Structure Of The Heterodimeric Nitrate Reductase
From Rhodobacter Sphaeroides
Length = 802
Score = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 39/80 (48%), Gaps = 5/80 (6%)
Query: 361 LMGADDVDLEKLPN----DAFVVYQGHHGDHGVYRANVILPASAFSEKEGTYENTEGCTQ 416
+ A ++D E P + F+V + A+++LPA+ + EKEG Y N E T
Sbjct: 458 MQAAPNIDQETYPGYRNPENFIVVSDAYPTVTGRAADLVLPAAMWVEKEGAYGNAERRTH 517
Query: 417 QTLPAVPTVGDARDD-WKII 435
V G+AR D W+++
Sbjct: 518 FWHQLVEAPGEARSDLWQLM 537
>pdb|2NYA|A Chain A, Crystal Structure Of The Periplasmic Nitrate Reductase
(Nap) From Escherichia Coli
pdb|2NYA|F Chain F, Crystal Structure Of The Periplasmic Nitrate Reductase
(Nap) From Escherichia Coli
Length = 792
Score = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 392 ANVILPASAFSEKEGTYENTEGCTQQTLPAVPTVGDARDD-WKIIR 436
A++ILP + + EKEG Y N E TQ V G+A+ D W++++
Sbjct: 483 ADLILPTAMWVEKEGAYGNAERRTQFWRQQVQAPGEAKSDLWQLVQ 528
>pdb|3S6K|A Chain A, Crystal Structure Of Xcnags
Length = 467
Score = 32.7 bits (73), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 26/99 (26%), Positives = 45/99 (45%), Gaps = 15/99 (15%)
Query: 151 LQAKPEEIVGIAGRL--SDAESMMALKDFLNRMGSNNVWCEGTGAQSNADLRSGYIMNTS 208
L AK +V + G + D E++ + FL +G + G G Q +A+L + I +
Sbjct: 58 LDAKRFAVVKVGGAVLRDDLEALTSSLSFLQEVGLTPIVLHGAGPQLDAELSAAGIEKQT 117
Query: 209 ISGLEKADCFLLVGTQPRVEAAMVNARIRKTVRANNAKV 247
++GL RV + A +RK +A+N K+
Sbjct: 118 VNGL-------------RVTSPHALAIVRKVFQASNLKL 143
>pdb|1VZO|A Chain A, The Structure Of The N-Terminal Kinase Domain Of Msk1
Reveals A Novel Autoinhibitory Conformation For A Dual
Kinase Protein
Length = 355
Score = 32.7 bits (73), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 33/117 (28%), Positives = 57/117 (48%), Gaps = 20/117 (17%)
Query: 80 NIRIDSRGPEVMRILPRLNEDINEEWISDKTRFCYDGLKSQRLNDP-MIRGAD-GRFKAV 137
NI +DS G V+ + +++E+++D+T YD + P ++RG D G KAV
Sbjct: 189 NILLDSNGHVVLT-----DFGLSKEFVADETERAYDFCGTIEYMAPDIVRGGDSGHDKAV 243
Query: 138 NWRDALAVVAEVMLQAKPEEIVG-------IAGRLSDAE-----SMMAL-KDFLNRM 181
+W ++ E++ A P + G I+ R+ +E M AL KD + R+
Sbjct: 244 DWWSLGVLMYELLTGASPFTVDGEKNSQAEISRRILKSEPPYPQEMSALAKDLIQRL 300
>pdb|1W36|B Chain B, Recbcd:dna Complex
pdb|1W36|E Chain E, Recbcd:dna Complex
pdb|3K70|B Chain B, Crystal Structure Of The Complete Initiation Complex Of
Recbcd
pdb|3K70|E Chain E, Crystal Structure Of The Complete Initiation Complex Of
Recbcd
Length = 1180
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 347 PESSNSIESAKFVYLMGADDVDLEKLPNDAF---VVYQGHHGDHGVYRANVILP 397
PE N++ SA +MG + +D+E L ND VV + G ++R ++P
Sbjct: 606 PERENTLRSALATSMMGLNALDIETLNNDEHAWDVVVEEFDGYRQIWRKRGVMP 659
>pdb|2GF2|A Chain A, Crystal Structure Of Human Hydroxyisobutyrate
Dehydrogenase
pdb|2GF2|B Chain B, Crystal Structure Of Human Hydroxyisobutyrate
Dehydrogenase
pdb|2GF2|C Chain C, Crystal Structure Of Human Hydroxyisobutyrate
Dehydrogenase
pdb|2GF2|D Chain D, Crystal Structure Of Human Hydroxyisobutyrate
Dehydrogenase
Length = 296
Score = 29.3 bits (64), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 173 ALKDFLNRMGSNNVWCEGTGAQSNADLRSGYIMNTSISGLEKA-DCFLLVGTQPRVEAAM 231
A ++ L MGSN V+C G A + + ++ S+ G +A + + +G P++ A +
Sbjct: 145 AAQELLGCMGSNVVYCGAVGTGQAAKICNNMLLAISMIGTAEAMNLGIRLGLDPKLLAKI 204
Query: 232 VN 233
+N
Sbjct: 205 LN 206
>pdb|2I9P|A Chain A, Crystal Structure Of Human Hydroxyisobutyrate
Dehydrogenase Complexed With Nad+
pdb|2I9P|B Chain B, Crystal Structure Of Human Hydroxyisobutyrate
Dehydrogenase Complexed With Nad+
pdb|2I9P|C Chain C, Crystal Structure Of Human Hydroxyisobutyrate
Dehydrogenase Complexed With Nad+
pdb|2I9P|D Chain D, Crystal Structure Of Human Hydroxyisobutyrate
Dehydrogenase Complexed With Nad+
Length = 319
Score = 28.9 bits (63), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 173 ALKDFLNRMGSNNVWCEGTGAQSNADLRSGYIMNTSISGLEKA-DCFLLVGTQPRVEAAM 231
A ++ L MGSN V+C G A + + ++ S+ G +A + + +G P++ A +
Sbjct: 167 AAQELLGCMGSNVVYCGAVGTGQAAKICNNMLLAISMIGTAEAMNLGIRLGLDPKLLAKI 226
Query: 232 VN 233
+N
Sbjct: 227 LN 228
>pdb|2I4L|A Chain A, Rhodopseudomonas Palustris Prolyl-trna Synthetase
pdb|2I4L|B Chain B, Rhodopseudomonas Palustris Prolyl-trna Synthetase
pdb|2I4L|C Chain C, Rhodopseudomonas Palustris Prolyl-trna Synthetase
pdb|2I4M|A Chain A, Rhodopseudomonas Palustris Prolyl-Trna Synthetase In
Complex With Proams
pdb|2I4M|B Chain B, Rhodopseudomonas Palustris Prolyl-Trna Synthetase In
Complex With Proams
pdb|2I4M|C Chain C, Rhodopseudomonas Palustris Prolyl-Trna Synthetase In
Complex With Proams
pdb|2I4N|A Chain A, Rhodopseudomonas Palustris Prolyl-Trna Synthetase In
Complex With Cysams
pdb|2I4N|B Chain B, Rhodopseudomonas Palustris Prolyl-Trna Synthetase In
Complex With Cysams
pdb|2I4N|C Chain C, Rhodopseudomonas Palustris Prolyl-Trna Synthetase In
Complex With Cysams
pdb|2I4O|A Chain A, Rhodopseudomonas Palustris Prolyl-Trna Synthetase In
Complex With Atp
pdb|2I4O|B Chain B, Rhodopseudomonas Palustris Prolyl-Trna Synthetase In
Complex With Atp
pdb|2I4O|C Chain C, Rhodopseudomonas Palustris Prolyl-Trna Synthetase In
Complex With Atp
Length = 458
Score = 28.5 bits (62), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 5/59 (8%)
Query: 70 TIDVTDAVGSNIRIDSRGPEVMRILPRLNEDI-----NEEWISDKTRFCYDGLKSQRLN 123
T+ + D + R D+ GPE++RI R ++ NEE I++ R KS LN
Sbjct: 93 TLQLADLWRESGRYDAYGPEMLRIADRHKRELLYGPTNEEMITEIFRAYIKSYKSLPLN 151
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
0.317 0.134 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,826,956
Number of Sequences: 62578
Number of extensions: 603281
Number of successful extensions: 1287
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1274
Number of HSP's gapped (non-prelim): 17
length of query: 523
length of database: 14,973,337
effective HSP length: 103
effective length of query: 420
effective length of database: 8,527,803
effective search space: 3581677260
effective search space used: 3581677260
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: 54 (25.4 bits)