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= psy1366
(345 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 = 154 bits (389), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 104/324 (32%), Positives = 159/324 (49%), Gaps = 23/324 (7%)
Query: 17 DIGSLLQISGTVVRITVAKMLEFRREY--VCTKCKQCFYVKADFEQFYSIANPL---SCG 71
DIG L+ I G +V++T K ++ Y + C Q F D E + P CG
Sbjct: 110 DIGKLITIDGILVKVTPVKERIYKATYKHIHPDCMQEFEWPEDEEMPEVLEMPTICPKCG 169
Query: 72 SPSSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLARPG 129
P P ++ D+Q+ IQER V G +P+ + + LEDDLVD ARPG
Sbjct: 170 KPGQF---RLIP----EKTKLIDWQKAVIQERPEEVPSGQLPRQLEIILEDDLVDSARPG 222
Query: 130 DDVIVCGAV-LRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPELRAEVTQFWED 188
D V V G + +++ PV +G R+ ++ + + + V ++I+ E ++ +D
Sbjct: 223 DRVKVTGILDIKQDSPVKRGSRAVFDIYMKVSSIEVSQKVLDEVIISEEDEKKIKDLAKD 282
Query: 189 HKYDGLAARNHILASICPAIYGXXXXXXXXXXXXXXXXXXXXXXXXXXRAESHLLLVGDP 248
R+ I++SI P+IYG R + H+L++GDP
Sbjct: 283 P-----WIRDRIISSIAPSIYGHWELKEALALALFGGVPKVLEDTRI-RGDIHILIIGDP 336
Query: 249 GTGKSEILKFAKRMSPRXXXXXXXXXXXXXXXXXXXRENG--EWHLEAGALVLSDGGVCC 306
GT KS++L+F R++PR RE G E++LEAGALVL+DGG+
Sbjct: 337 GTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREKGTGEYYLEAGALVLADGGIAV 396
Query: 307 IDEFSSIKEHDRTSIHEAMEQQTI 330
IDE +++ DR +IHEAMEQQT+
Sbjct: 397 IDEIDKMRDEDRVAIHEAMEQQTV 420
>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 = 62.8 bits (151), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 48/155 (30%), Positives = 76/155 (49%), Gaps = 9/155 (5%)
Query: 17 DIGSLLQISGTVVRITVAKMLEFRREY--VCTKCKQCFYVKADFEQFYSIANPLSCGSPS 74
DIG L+ I G +V++T K ++ Y + C Q F D E + P C P
Sbjct: 116 DIGKLITIDGILVKVTPVKERIYKATYKHIHPDCMQEFEWPEDEEMPEVLEMPTIC--PK 173
Query: 75 SCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLARPGDDV 132
F + ++ D+Q+ IQER V G +P+ + + LEDDLVD ARPGD V
Sbjct: 174 CGKPGQFRLIP--EKTKLIDWQKAVIQERPEEVPSGQLPRQLEIILEDDLVDSARPGDRV 231
Query: 133 IVCGAV-LRRWRPVVKGVRSDIELCLSANYLTVCN 166
V G + +++ PV +G R+ ++ + + + V
Sbjct: 232 KVTGILDIKQDSPVKRGSRAVFDIYMKVSSIEVSQ 266
>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 = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 41/125 (32%), Positives = 55/125 (44%), Gaps = 14/125 (11%)
Query: 18 IGSLLQISGTVVRITVAKMLEFRREYV--CTKCKQCFYVKADFEQFYSIANPLSCGSPSS 75
IG + + G V K E R V +C+ C A + I P C S
Sbjct: 110 IGKFVAVDGIV-----RKTDEIRPRIVKAVFECRGCMRHHAVTQSTNMITEPSLC---SE 161
Query: 76 CDGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLARPGDDVI 133
C G +F + D+ + D Q +K+QE + G P+ I V LEDDLVD PGD V
Sbjct: 162 CGGRSFRLLQ--DESEFLDTQTLKLQEPLENLSGGEQPRQITVVLEDDLVDTLTPGDIVR 219
Query: 134 VCGAV 138
V G +
Sbjct: 220 VTGTL 224
>pdb|3F8T|A Chain A, Crystal Structure Analysis Of A Full-Length Mcm Homolog
From Methanopyrus Kandleri
Length = 506
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 28/46 (60%)
Query: 285 RENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTI 330
+E+ W L AGA VL+DGG+ +D E R ++ EAM++ T+
Sbjct: 284 KEDRGWALRAGAAVLADGGILAVDHLEGAPEPHRWALMEAMDKGTV 329
>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 = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 10/13 (76%), Positives = 13/13 (100%)
Query: 241 HLLLVGDPGTGKS 253
H+LL+G+PGTGKS
Sbjct: 62 HVLLIGEPGTGKS 74
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 0.136 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,826,493
Number of Sequences: 62578
Number of extensions: 314936
Number of successful extensions: 885
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 877
Number of HSP's gapped (non-prelim): 6
length of query: 345
length of database: 14,973,337
effective HSP length: 100
effective length of query: 245
effective length of database: 8,715,537
effective search space: 2135306565
effective search space used: 2135306565
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: 52 (24.6 bits)