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= psy1432
(850 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XUT|A Chain A, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
Family Transporter.
pdb|2XUT|B Chain B, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
Family Transporter.
pdb|2XUT|C Chain C, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
Family Transporter
Length = 524
Score = 65.9 bits (159), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 56/214 (26%), Positives = 91/214 (42%), Gaps = 52/214 (24%)
Query: 234 SANYPKSIYLILTIEFCERFSFCGLRTMLSLYLRDVLKFSEKD------ATVLYHIFYAL 287
+ +P+ I I+ E CERFSF G+R +L+ +L L S + A ++H F
Sbjct: 7 APKWPRQIPYIIASEACERFSFYGMRNILTPFLMTALLLSIPEELRGAVAKDVFHSFVIG 66
Query: 288 CYFVPIIGAILADSFYGRYRTIRVFSFDATVLYHIFYALCYFVPIIGAILADSFYGRYRT 347
YF P++G +AD F+G+Y TI S ++Y + +A AI S G Y
Sbjct: 67 VYFFPLLGGWIADRFFGKYNTILWLS----LIYCVGHAFL-------AIFEHSVQGFYT- 114
Query: 348 IRVFSFVYVLGNILLCLGAVPTLALPXXXXXXXXXXXXXXXXXXXXPCVAALCGEQFCVP 407
G L+ LG+ P V++ G+QF
Sbjct: 115 ----------GLFLIALGS-----------------------GGIKPLVSSFMGDQFDQS 141
Query: 408 EQRFYLERFFSVYYFIINIGGFLGMIFIPMIRKS 441
+ ++ F ++YF IN G F + +P++ K+
Sbjct: 142 NKSL-AQKAFDMFYFTINFGSFFASLSMPLLLKN 174
Score = 54.7 bits (130), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 58/113 (51%), Gaps = 12/113 (10%)
Query: 722 LILSPGRTVKLIYMVPQYVLMSIGEVMFAIAGLHFSFTQAPRSMKTVTIAAWQLSVALGN 781
L++ G + + + + Y L++ GEV+ + GL F+++QAP++MK ++ W LSV +GN
Sbjct: 395 LMMDGGSALSIFWQILPYALLTFGEVLVSATGLEFAYSQAPKAMKGTIMSFWTLSVTVGN 454
Query: 782 LIII----------CIEQL--RGYVGQAGEFFLYACLIFLDMLLFYRITKRYK 822
L ++ EQ+ G A + F +A L ++F + Y+
Sbjct: 455 LWVLLANVSVKSPTVTEQIVQTGMSVTAFQMFFFAGFAILAAIVFALYARSYQ 507
Score = 54.7 bits (130), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 56/120 (46%), Gaps = 5/120 (4%)
Query: 513 LDYAEDEYSPRLISDMKTVLAILFVFIPLPLFWSLFDQLGSSWTFQAA-RTDSQIFGIHI 571
L+ A + + +++VL IL +F + FWSLFDQ S+W QA Q F
Sbjct: 280 LERARKSHPDAAVDGVRSVLRILVLFALVTPFWSLFDQKASTWILQANDMVKPQWFE--- 336
Query: 572 LPDQMQVXXXXXXXXXXXXFDNCIYPALDKIRILENPLRRMVCGGCIAGFAFISAGYVEL 631
P MQ + +YPA++++ + LR+M G I G ++I G ++L
Sbjct: 337 -PAMMQALNPLLVMLLIPFNNFVLYPAIERMGVKLTALRKMGAGIAITGLSWIVVGTIQL 395
>pdb|1I19|A Chain A, Crystal Structure Of Cholesterol Oxidase From B.Sterolicum
pdb|1I19|B Chain B, Crystal Structure Of Cholesterol Oxidase From B.Sterolicum
Length = 561
Score = 33.1 bits (74), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 37/91 (40%), Gaps = 14/91 (15%)
Query: 156 PQLKIIAMNLNHKHDYKIRLTGXXXXXXXXXXXXQEHAKTFEGVPVEYGMNQIDVVLKDN 215
PQ + N H+HDYKIR G H T + VE G N V+L D
Sbjct: 45 PQDVVRLANWAHEHDYKIRPRGAM------------HGWT--PLTVEKGANVEKVILADT 90
Query: 216 LDNSSDIPVNLSLMKEMTSANYPKSIYLILT 246
+ + + I VN +A SI I+T
Sbjct: 91 MTHLNGITVNTGGPVATVTAGAGASIEAIVT 121
>pdb|2I0K|A Chain A, Cholesterol Oxidase From Brevibacterium Sterolicum-
His121ala Mutant
Length = 561
Score = 33.1 bits (74), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 36/91 (39%), Gaps = 14/91 (15%)
Query: 156 PQLKIIAMNLNHKHDYKIRLTGXXXXXXXXXXXXQEHAKTFEGVPVEYGMNQIDVVLKDN 215
PQ + N H+HDYKIR G + + VE G N V+L D
Sbjct: 45 PQDVVRLANWAHEHDYKIRPRGAMAG--------------WTPLTVEKGANVEKVILADT 90
Query: 216 LDNSSDIPVNLSLMKEMTSANYPKSIYLILT 246
+ + + I VN +A SI I+T
Sbjct: 91 MTHLNGITVNTGGPVATVTAGAGASIEAIVT 121
>pdb|4APS|A Chain A, Crystal Structure Of A Pot Family Peptide Transporter In
An Inward Open Conformation.
pdb|4APS|B Chain B, Crystal Structure Of A Pot Family Peptide Transporter In
An Inward Open Conformation
Length = 491
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 41/96 (42%), Gaps = 6/96 (6%)
Query: 238 PKSIYLILTIEFCERFSFCGLRTMLSLYLRDV-----LKFSEKDATVLYHIFYALCYFVP 292
P + + E ERFS+ G+R +L Y+ + L + A + I+ ++ Y
Sbjct: 12 PLGLSTLFMTEMWERFSYYGMRAILLYYMWFLISTGDLHITRATAASIMAIYASMVYLSG 71
Query: 293 IIGAILADSFYGRYRTIRVFSFDATVLYHIFYALCY 328
IG +AD G R + +L HI AL +
Sbjct: 72 TIGGFVADRIIGA-RPAVFWGGVLIMLGHIVLALPF 106
Score = 29.6 bits (65), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 38/73 (52%), Gaps = 6/73 (8%)
Query: 715 FQVFSKLLILSPGR------TVKLIYMVPQYVLMSIGEVMFAIAGLHFSFTQAPRSMKTV 768
F S LL+ PG V +++V + L+ +GE++ + GL + AP++ +
Sbjct: 363 FAGLSFLLMAIPGALYGTSGKVSPLWLVGSWALVILGEMLISPVGLSVTTKLAPKAFNSQ 422
Query: 769 TIAAWQLSVALGN 781
++ W LS ++G+
Sbjct: 423 MMSMWFLSSSVGS 435
>pdb|2AR9|A Chain A, Crystal Structure Of A Dimeric Caspase-9
pdb|2AR9|B Chain B, Crystal Structure Of A Dimeric Caspase-9
pdb|2AR9|C Chain C, Crystal Structure Of A Dimeric Caspase-9
pdb|2AR9|D Chain D, Crystal Structure Of A Dimeric Caspase-9
Length = 278
Score = 30.0 bits (66), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 8/57 (14%)
Query: 19 FVSWRTP-SGEWYVVDVSQ--DLLSYQQDITP-FLRKPKLVLI----NTLPCVVSVV 67
FVSWR P SG WYV + + ++ +D+ LR V + +PC+VS++
Sbjct: 213 FVSWRDPKSGSWYVETLDDIFEQWAHSEDLQSLLLRVANAVSVKGIYKQMPCIVSML 269
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
0.327 0.143 0.442
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,217,017
Number of Sequences: 62578
Number of extensions: 832556
Number of successful extensions: 1751
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1734
Number of HSP's gapped (non-prelim): 18
length of query: 850
length of database: 14,973,337
effective HSP length: 107
effective length of query: 743
effective length of database: 8,277,491
effective search space: 6150175813
effective search space used: 6150175813
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 56 (26.2 bits)