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= 014661
(420 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3F9V|A Chain A, Crystal Structure Of A Near Full-Length Archaeal Mcm:
Functional Insights For An Aaa+ Hexameric Helicase
Length = 595
Score = 151 bits (382), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 117/387 (30%), Positives = 202/387 (52%), Gaps = 29/387 (7%)
Query: 40 LYIDFAELLDEDPEIAHLVFSKPADYLRFFEDAAIWAHKIVFDELKSCEKRVEKKFIHVR 99
L I+F+++L + +A+ + + L E A++ H + D + ++ +EK +HVR
Sbjct: 39 LIIEFSDVLSFNENLAYEIINNTKIILPILE-GALYDHILQLD--PTYQRDIEK--VHVR 93
Query: 100 INVSGSPLECPETFPSIGRVRVKHHGVLLTLKGTVIRSGATK--MYEGERTYMCRKCKHM 157
I + P + ++R G L+T+ G +++ K +Y+ ++ C
Sbjct: 94 I------VGIPRVI-ELRKIRSTDIGKLITIDGILVKVTPVKERIYKATYKHIHPDCMQE 146
Query: 158 FPVYPELETRNSIV-LPSHCPSQRSKPCEGTNFQFVENSIICHDYQEIKIQESTQVLGVG 216
F +PE E ++ +P+ CP + KP + F+ + D+Q+ IQE + + G
Sbjct: 147 FE-WPEDEEMPEVLEMPTICP-KCGKPGQ---FRLIPEKTKLIDWQKAVIQERPEEVPSG 201
Query: 217 VIPRSILVILKDDLVDIVKAGDDVIVTGILTAKW-SPDLKDVRCDLDPVLIANHVRRTNE 275
+PR + +IL+DDLVD + GD V VTGIL K SP + R D + + + + +
Sbjct: 202 QLPRQLEIILEDDLVDSARPGDRVKVTGILDIKQDSPVKRGSRAVFDIYMKVSSIEVSQK 261
Query: 276 LKSDIDIPDDIIMQFKQFWSEFKDTPLKGRNAILRGICPQVFGLFTVKLAVALTLIGGVQ 335
+ ++ I ++ + K KD ++ R I+ I P ++G + +K A+AL L GGV
Sbjct: 262 VLDEVIISEEDEKKIKDLA---KDPWIRDR--IISSIAPSIYGHWELKEALALALFGGVP 316
Query: 336 HVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVIXXXXXXXXXXXXXXAVKD- 394
V T++RG+ H+L++GDPGT KSQ L+F ++++ R+V V++
Sbjct: 317 KV-LEDTRIRGDIHILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREK 375
Query: 395 -GGEWMLEAGALVLADGGLCCIDEFDR 420
GE+ LEAGALVLADGG+ IDE D+
Sbjct: 376 GTGEYYLEAGALVLADGGIAVIDEIDK 402
>pdb|1LTL|A Chain A, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|B Chain B, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|C Chain C, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|D Chain D, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|E Chain E, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|F Chain F, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
Length = 279
Score = 69.7 bits (169), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 63/213 (29%), Positives = 98/213 (46%), Gaps = 30/213 (14%)
Query: 38 YP----LYIDFAELLDEDPEIAHLVFSKPADYLRFFEDAAIWAHKIVFDELKSCEKRVEK 93
YP + +D+ +L DP++A L+ KP D +R AA A + + D L+
Sbjct: 38 YPNVRSIEVDYLDLEMFDPDLADLLIEKPDDVIR----AAQQAIRNI-DRLR-------- 84
Query: 94 KFIHVRINVSGSPLECPETFPSIGRVRVKHHGVLLTLKGTVIRSGATKMYEGERTYMCRK 153
K + + I SG P + +R K G + + G V ++ + + + CR
Sbjct: 85 KNVDLNIRFSGISNVIP-----LRELRSKFIGKFVAVDGIVRKTDEIRPRIVKAVFECRG 139
Query: 154 CKHMFPVYPELETRNSIVLPSHCPSQRSKPCEGTNFQFVENSIICHDYQEIKIQESTQVL 213
C V ++ N I PS C C G +F+ +++ D Q +K+QE + L
Sbjct: 140 CMRHHAV---TQSTNMITEPSLCSE-----CGGRSFRLLQDESEFLDTQTLKLQEPLENL 191
Query: 214 GVGVIPRSILVILKDDLVDIVKAGDDVIVTGIL 246
G PR I V+L+DDLVD + GD V VTG L
Sbjct: 192 SGGEQPRQITVVLEDDLVDTLTPGDIVRVTGTL 224
>pdb|2VL6|A Chain A, Structural Analysis Of The Sulfolobus Solfataricus Mcm
Protein N-Terminal Domain
pdb|2VL6|B Chain B, Structural Analysis Of The Sulfolobus Solfataricus Mcm
Protein N-Terminal Domain
pdb|2VL6|C Chain C, Structural Analysis Of The Sulfolobus Solfataricus Mcm
Protein N-Terminal Domain
Length = 268
Score = 65.5 bits (158), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 61/219 (27%), Positives = 109/219 (49%), Gaps = 20/219 (9%)
Query: 40 LYIDFAELLDEDPEIAHLVFSKPADYLRFFEDAAIWAHKIVFDELKSCEKRVEKKFIHVR 99
L I+F+++L + +A+ + + L E A++ H + D + ++ +EK +HVR
Sbjct: 45 LIIEFSDVLSFNENLAYEIINNTKIILPILE-GALYDHILQLD--PTYQRDIEK--VHVR 99
Query: 100 INVSGSPLECPETFPSIGRVRVKHHGVLLTLKGTVIRSGATK--MYEGERTYMCRKCKHM 157
I G P + ++R G L+T+ G +++ K +Y+ ++ C
Sbjct: 100 I--VGIP-----RVIELRKIRSTDIGKLITIDGILVKVTPVKERIYKATYKHIHPDCMQE 152
Query: 158 FPVYPELETRNSIV-LPSHCPSQRSKPCEGTNFQFVENSIICHDYQEIKIQESTQVLGVG 216
F +PE E ++ +P+ CP + KP + F+ + D+Q+ IQE + + G
Sbjct: 153 FE-WPEDEEMPEVLEMPTICP-KCGKPGQ---FRLIPEKTKLIDWQKAVIQERPEEVPSG 207
Query: 217 VIPRSILVILKDDLVDIVKAGDDVIVTGILTAKWSPDLK 255
+PR + +IL+DDLVD + GD V VTGIL K +K
Sbjct: 208 QLPRQLEIILEDDLVDSARPGDRVKVTGILDIKQDSPVK 246
>pdb|3F8T|A Chain A, Crystal Structure Analysis Of A Full-Length Mcm Homolog
From Methanopyrus Kandleri
Length = 506
Score = 32.7 bits (73), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 28/71 (39%), Gaps = 1/71 (1%)
Query: 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVIXXXXXXXXXXXXXXAVKDGGEWMLEAGALVLA 408
H+LL G P L+ R V +D G W L AGA VLA
Sbjct: 241 HVLLAGYPVVCSEILHHVLDHLAPRGVYVDLRRTELTDLTAVLKEDRG-WALRAGAAVLA 299
Query: 409 DGGLCCIDEFD 419
DGG+ +D +
Sbjct: 300 DGGILAVDHLE 310
>pdb|3K1J|A Chain A, Crystal Structure Of Lon Protease From Thermococcus
Onnurineus Na1
pdb|3K1J|B Chain B, Crystal Structure Of Lon Protease From Thermococcus
Onnurineus Na1
Length = 604
Score = 32.7 bits (73), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 24/41 (58%)
Query: 330 LIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKL 370
+IG V+ T + H+LL+G+PGTGKS + A+L
Sbjct: 43 VIGQEHAVEVIKTAANQKRHVLLIGEPGTGKSMLGQAMAEL 83
>pdb|3MPR|A Chain A, Crystal Structure Of EndonucleaseEXONUCLEASEPHOSPHATASE
FAMILY Protein From Bacteroides Thetaiotaomicron,
Northeast Structural Genomics Consortium Target Btr318a
pdb|3MPR|B Chain B, Crystal Structure Of EndonucleaseEXONUCLEASEPHOSPHATASE
FAMILY Protein From Bacteroides Thetaiotaomicron,
Northeast Structural Genomics Consortium Target Btr318a
pdb|3MPR|C Chain C, Crystal Structure Of EndonucleaseEXONUCLEASEPHOSPHATASE
FAMILY Protein From Bacteroides Thetaiotaomicron,
Northeast Structural Genomics Consortium Target Btr318a
pdb|3MPR|D Chain D, Crystal Structure Of EndonucleaseEXONUCLEASEPHOSPHATASE
FAMILY Protein From Bacteroides Thetaiotaomicron,
Northeast Structural Genomics Consortium Target Btr318a
Length = 298
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 31/67 (46%), Gaps = 4/67 (5%)
Query: 287 IMQFKQFW-SEFKDTPLKGRNAILRGICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVR 345
I++ FW SE D P KG +A+L IC +G F K + H D G K R
Sbjct: 95 IVEKGDFWLSETPDVPSKGWDAVLPRICS--WGHFKCK-DTGFEFLFFNLHXDHIGKKAR 151
Query: 346 GESHLLL 352
ES L+
Sbjct: 152 VESAFLV 158
>pdb|3O3M|B Chain B, (R)-2-Hydroxyisocaproyl-Coa Dehydratase
pdb|3O3M|D Chain D, (R)-2-Hydroxyisocaproyl-Coa Dehydratase
pdb|3O3N|B Chain B, (R)-2-Hydroxyisocaproyl-Coa Dehydratase In Complex With
Its Substrate (R)-2-Hydroxyisocaproyl-Coa
pdb|3O3N|D Chain D, (R)-2-Hydroxyisocaproyl-Coa Dehydratase In Complex With
Its Substrate (R)-2-Hydroxyisocaproyl-Coa
pdb|3O3O|B Chain B, (R)-2-Hydroxyisocaproyl-Coa Dehydratase In Complex With
(R)-2- Hydroxyisocaproate
Length = 385
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 3/70 (4%)
Query: 234 VKAGDDVIVTGILTAKWSPDLKDVRCDLDPVLIANHV-RRTNELKSDIDIPDDIIMQFKQ 292
V +G V++TGIL S D+ D+ D + ++A+ + + T + ++D+ DD + + +
Sbjct: 226 VCSGKKVLLTGILAD--SKDILDILEDNNISVVADDLAQETRQFRTDVPAGDDALERLAR 283
Query: 293 FWSEFKDTPL 302
WS + L
Sbjct: 284 QWSNIEGCSL 293
>pdb|1VQW|A Chain A, Crystal Structure Of A Protein With Similarity To Flavin-
Containing Monooxygenases And To Mammalian
Dimethylalanine Monooxygenases
pdb|1VQW|B Chain B, Crystal Structure Of A Protein With Similarity To Flavin-
Containing Monooxygenases And To Mammalian
Dimethylalanine Monooxygenases
Length = 457
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 34/110 (30%), Positives = 44/110 (40%), Gaps = 19/110 (17%)
Query: 159 PVYPELETRNSIVLPSHCPSQRSKPCEGTNFQFVENSIICHDYQEIKIQESTQVLGVGVI 218
P+Y +L+T I L +C Q KP QF I +YQ I Q
Sbjct: 85 PLYRDLQTNTPIELXGYC-DQSFKP---QTLQFPHRHTI-QEYQRIYAQ----------- 128
Query: 219 PRSILVILKDDLVDIVKAGDDVIVTGILTAKWSPDLKDVRCDLDPVLIAN 268
P + L D++DI K +VT T SP KD+ D V I N
Sbjct: 129 PLLPFIKLATDVLDIEKKDGSWVVTYKGTKAGSPISKDI---FDAVSICN 175
>pdb|2GV8|A Chain A, Crystal Structure Of Flavin-Containing Monooxygenase (Fmo)
From S.Pombe And Nadph Cofactor Complex
pdb|2GV8|B Chain B, Crystal Structure Of Flavin-Containing Monooxygenase (Fmo)
From S.Pombe And Nadph Cofactor Complex
pdb|2GVC|A Chain A, Crystal Structure Of Flavin-Containing Monooxygenase
(Fmo)from S.Pombe And Substrate (Methimazole) Complex
pdb|2GVC|B Chain B, Crystal Structure Of Flavin-Containing Monooxygenase
(Fmo)from S.Pombe And Substrate (Methimazole) Complex
pdb|2GVC|D Chain D, Crystal Structure Of Flavin-Containing Monooxygenase
(Fmo)from S.Pombe And Substrate (Methimazole) Complex
pdb|2GVC|E Chain E, Crystal Structure Of Flavin-Containing Monooxygenase
(Fmo)from S.Pombe And Substrate (Methimazole) Complex
Length = 447
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 34/110 (30%), Positives = 44/110 (40%), Gaps = 19/110 (17%)
Query: 159 PVYPELETRNSIVLPSHCPSQRSKPCEGTNFQFVENSIICHDYQEIKIQESTQVLGVGVI 218
P+Y +L+T I L +C Q KP QF I +YQ I Q
Sbjct: 83 PLYRDLQTNTPIELXGYC-DQSFKP---QTLQFPHRHTI-QEYQRIYAQ----------- 126
Query: 219 PRSILVILKDDLVDIVKAGDDVIVTGILTAKWSPDLKDVRCDLDPVLIAN 268
P + L D++DI K +VT T SP KD+ D V I N
Sbjct: 127 PLLPFIKLATDVLDIEKKDGSWVVTYKGTKAGSPISKDI---FDAVSICN 173
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 28.5 bits (62), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 31/55 (56%), Gaps = 2/55 (3%)
Query: 322 VKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVI 376
V + + +++ + +D + +V+G H++L+G TGK+ +F A L+ ++
Sbjct: 1586 VPMVIHESMVDHILRIDRALKQVQG--HMMLIGASRTGKTILTRFVAWLNGLKIV 1638
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 28.5 bits (62), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 31/55 (56%), Gaps = 2/55 (3%)
Query: 322 VKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVI 376
V + + +++ + +D + +V+G H++L+G TGK+ +F A L+ ++
Sbjct: 1367 VPMVIHESMVDHILRIDRALKQVQG--HMMLIGASRTGKTILTRFVAWLNGLKIV 1419
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 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,833,585
Number of Sequences: 62578
Number of extensions: 524338
Number of successful extensions: 1317
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1306
Number of HSP's gapped (non-prelim): 15
length of query: 420
length of database: 14,973,337
effective HSP length: 101
effective length of query: 319
effective length of database: 8,652,959
effective search space: 2760293921
effective search space used: 2760293921
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: 53 (25.0 bits)