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= psy4907
(308 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1OKC|A Chain A, Structure Of Mitochondrial AdpATP CARRIER IN COMPLEX WITH
Carboxyatractyloside
pdb|2C3E|A Chain A, The Bovine Mitochondrial Adp-Atp Carrier
Length = 297
Score = 65.9 bits (159), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 63/285 (22%), Positives = 120/285 (42%), Gaps = 36/285 (12%)
Query: 16 IAGATGSVIGVSTFYPLEIVKLRSIIN--DRNLSHNDQ-KGILQKFEQIIKEEGLEALYQ 72
+AG + I + P+E VKL + + +S Q KGI+ +I KE+G + ++
Sbjct: 12 LAGGVAAAISKTAVAPIERVKLLLQVQHASKQISAEKQYKGIIDCVVRIPKEQGFLSFWR 71
Query: 73 G-LEPMVKSLYTS--NFVY-----------------FYSFHA--LKSGSVIGVSTF---Y 107
G L +++ T NF + F+ + A L SG G ++ Y
Sbjct: 72 GNLANVIRYFPTQALNFAFKDKYKQIFLGGVDRHKQFWRYFAGNLASGGAAGATSLCFVY 131
Query: 108 PLEIVKLRSIIN-DRNLSHNDQKGILQKFEQIIKEEGLEALYQGLEPMVKSLYTSNFVYF 166
PL+ + R + + + + G+ +I K +GL LYQG V+ + YF
Sbjct: 132 PLDFARTRLAADVGKGAAQREFTGLGNCITKIFKSDGLRGLYQGFNVSVQGIIIYRAAYF 191
Query: 167 YSFHALKSVKGSGGESSIVTDLCLSSIAGIINVLTTTPLWVVNTRLKVSN-------QYS 219
+ K + I+ ++ + L + P V R+ + + Y+
Sbjct: 192 GVYDTAKGMLPDPKNVHIIVSWMIAQTVTAVAGLVSYPFDTVRRRMMMQSGRKGADIMYT 251
Query: 220 GLLHGLNKIYKEEGASALWKGTFASIILVSNPAIQMSVYELLKRY 264
G + KI K+EG A +KG +++++ A + +Y+ +K++
Sbjct: 252 GTVDCWRKIAKDEGPKAFFKGAWSNVLRGMGGAFVLVLYDEIKKF 296
Score = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 34/73 (46%), Gaps = 9/73 (12%)
Query: 183 SIVTDLCLSSIAGIINVLTTTPLWVVNTRLKVSN---------QYSGLLHGLNKIYKEEG 233
S + D +A I+ P+ V L+V + QY G++ + +I KE+G
Sbjct: 6 SFLKDFLAGGVAAAISKTAVAPIERVKLLLQVQHASKQISAEKQYKGIIDCVVRIPKEQG 65
Query: 234 ASALWKGTFASII 246
+ W+G A++I
Sbjct: 66 FLSFWRGNLANVI 78
>pdb|2LCK|A Chain A, Structure Of The Mitochondrial Uncoupling Protein 2
Determined By Nmr Molecular Fragment Replacement
Length = 303
Score = 61.6 bits (148), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 70/278 (25%), Positives = 115/278 (41%), Gaps = 32/278 (11%)
Query: 17 AGATGSVIGVSTFYPLEIVKLRSIIND------RNLSHNDQKGILQKFEQIIKEEGLEAL 70
AG + + TF PL+ K+R I R + +G+L +++ EG +L
Sbjct: 8 AGTAACIADLITF-PLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRTEGPRSL 66
Query: 71 YQGLEPMVK----------SLYTS--NFVYFYSFHA-----LKSGSVIG---VSTFYPLE 110
Y GL ++ LY S F S HA L +GS G V+ P +
Sbjct: 67 YNGLVAGLQRQMSFASVRIGLYDSVKQFYTKGSEHAGIGSRLLAGSTTGALAVAVAQPTD 126
Query: 111 IVKLRSIINDRNLSHNDQKGILQKFEQIIKEEGLEALYQGLEPMVKSLYTSNFVYFYSFH 170
+VK+R R + ++ ++ I +EEG+ L++G P V N ++
Sbjct: 127 VVKVRFQAQARAGGGRRYQSTVEAYKTIAREEGIRGLWKGTSPNVARNAIVNCAELVTYD 186
Query: 171 ALKS--VKGSGGESSIVTDLCLSSIAGIINVLTTTPLWVVNTRLKVS--NQYSGLLHGLN 226
+K +K + + + AG + +P+ VV TR S QY H
Sbjct: 187 LIKDTLLKANLMTDDLPCHFTSAFGAGFCTTVIASPVDVVKTRYMNSALGQYHSAGHCAL 246
Query: 227 KIYKEEGASALWKGTFASIILVSNPAIQMSV-YELLKR 263
+ ++EG A +KG S + + + + M V YE LKR
Sbjct: 247 TMLRKEGPRAFYKGFMPSFLRLGSWNVVMFVTYEQLKR 284
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 40/179 (22%), Positives = 73/179 (40%), Gaps = 25/179 (13%)
Query: 16 IAGATGSVIGVSTFYPLEIVKLRSIINDRNLSHNDQKGILQKFEQIIKEEGLEALYQGLE 75
+AG+T + V+ P ++VK+R R + ++ ++ I +EEG+ L++G
Sbjct: 109 LAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGRRYQSTVEAYKTIAREEGIRGLWKGTS 168
Query: 76 PMVKSLYTSNFVYFYSFHALK------------------SGSVIGVSTFY---PLEIVKL 114
P V N ++ +K S G T P+++VK
Sbjct: 169 PNVARNAIVNCAELVTYDLIKDTLLKANLMTDDLPCHFTSAFGAGFCTTVIASPVDVVKT 228
Query: 115 RSIINDRNLSHNDQKGILQKFEQIIKEEGLEALYQGLEPMVKSLYTSNFVYFYSFHALK 173
R + + H+ L ++++EG A Y+G P L + N V F ++ LK
Sbjct: 229 RYMNSALGQYHSAGHCAL----TMLRKEGPRAFYKGFMPSFLRLGSWNVVMFVTYEQLK 283
>pdb|1UBH|L Chain L, Three-Dimensional Structure Of The Carbon Monoxide Complex
Of [nife]hydrogenase From Desulufovibrio Vulgaris
Miyazaki F
pdb|1UBJ|L Chain L, Three-Dimensional Structure Of The Carbon Monoxide Complex
Of [nife]hydrogenase From Desulufovibrio Vulgaris
Miyazaki F
pdb|1UBK|L Chain L, Three-dimensional Structure Of The Carbon Monoxide Complex
Of [nife]hydrogenase From Desulufovibrio Vulgaris
Miyazaki F
pdb|1UBL|L Chain L, Three-Dimensional Structure Of The Carbon Monoxide Complex
Of [nife]hydrogenase From Desulufovibrio Vulgaris
Miyazaki F
pdb|1UBM|L Chain L, Three-dimensional Structure Of The Carbon Monoxide Complex
Of [nife]hydrogenase From Desulufovibrio Vulgaris
Miyazaki F
pdb|1UBO|L Chain L, Three-Dimensional Structure Of The Carbon Monoxide Complex
Of [nife]hydrogenase From Desulufovibrio Vulgaris
Miyazaki F
pdb|1UBR|L Chain L, Three-Dimensional Structure Of The Carbon Monoxide Complex
Of [nife]hydrogenase From Desulufovibrio Vulgaris
Miyazaki F
pdb|1UBT|L Chain L, Three-Dimensional Structure Of The Carbon Monoxide Complex
Of [nife]hydrogenase From Desulufovibrio Vulgaris
Miyazaki F
pdb|1UBU|L Chain L, Three-Dimensional Structure Of The Carbon Monoxide Complex
Of [nife]hydrogenase From Desulufovibrio Vulgaris
Miyazaki F
Length = 534
Score = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 25/57 (43%)
Query: 84 SNFVYFYSFHALKSGSVIGVSTFYPLEIVKLRSIINDRNLSHNDQKGILQKFEQIIK 140
+ V+FY HAL V P + K+ S I+ R + D K + K + ++
Sbjct: 105 DHIVHFYHLHALDFVDVTAALKADPAKAAKVASSISPRKTTAADLKAVQDKLKTFVE 161
>pdb|1H2R|L Chain L, Three-Dimensional Structure Of Ni-Fe Hydrogenase From
Desulfivibrio Vulgaris Miyazaki F In The Reduced Form At
1.4 A Resolution
Length = 534
Score = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 25/57 (43%)
Query: 84 SNFVYFYSFHALKSGSVIGVSTFYPLEIVKLRSIINDRNLSHNDQKGILQKFEQIIK 140
+ V+FY HAL V P + K+ S I+ R + D K + K + ++
Sbjct: 105 DHIVHFYHLHALDFVDVTAALKADPAKAAKVASSISPRKTTAADLKAVQDKLKTFVE 161
>pdb|1WUJ|L Chain L, Three-Dimensional Structure Of The Ni-B State Of
[nife]hydrogenase From Desulufovibrio Vulgaris Miyazaki
F
pdb|1WUK|L Chain L, High Resolution Structure Of The Oxidized State Of
[nife]hydrogenase From Desulufovibrio Vulgaris Miyazaki
F
pdb|1WUL|L Chain L, High Resolution Structure Of The Reduced State Of
[nife]hydrogenase From Desulufovibrio Vulgaris Miyazaki
F
Length = 534
Score = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 25/57 (43%)
Query: 84 SNFVYFYSFHALKSGSVIGVSTFYPLEIVKLRSIINDRNLSHNDQKGILQKFEQIIK 140
+ V+FY HAL V P + K+ S I+ R + D K + K + ++
Sbjct: 105 DHIVHFYHLHALDFVDVTAALKADPAKAAKVASSISPRKTTAADLKAVQDKLKTFVE 161
>pdb|1WUH|L Chain L, Three-Dimensional Structure Of The Ni-A State Of
[nife]hydrogenase From Desulufovibrio Vulgaris Miyazaki
F
pdb|1WUI|L Chain L, Ultra-High Resolution Structure Of The Ni-A State Of
[nife]hydrogenase From Desulufovibrio Vulgaris Miyazaki
F
Length = 534
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 25/57 (43%)
Query: 84 SNFVYFYSFHALKSGSVIGVSTFYPLEIVKLRSIINDRNLSHNDQKGILQKFEQIIK 140
+ V+FY HAL V P + K+ S I+ R + D K + K + ++
Sbjct: 105 DHIVHFYHLHALDFVDVTAALKADPAKAAKVASSISPRKTTAADLKAVQDKLKTFVE 161
>pdb|1H2A|L Chain L, Single Crystals Of Hydrogenase From Desulfovibrio Vulgaris
Length = 567
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 25/57 (43%)
Query: 84 SNFVYFYSFHALKSGSVIGVSTFYPLEIVKLRSIINDRNLSHNDQKGILQKFEQIIK 140
+ V+FY HAL V P + K+ S I+ R + D K + K + ++
Sbjct: 123 DHIVHFYHLHALDFVDVTAALKADPAKAAKVASSISPRKTTAADLKAVQDKLKTFVE 179
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
0.320 0.135 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,303,881
Number of Sequences: 62578
Number of extensions: 326597
Number of successful extensions: 971
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 952
Number of HSP's gapped (non-prelim): 11
length of query: 308
length of database: 14,973,337
effective HSP length: 99
effective length of query: 209
effective length of database: 8,778,115
effective search space: 1834626035
effective search space used: 1834626035
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)