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= psy1102
(138 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2NPS|C Chain C, Crystal Structure Of The Early Endosomal Snare Complex
Length = 81
Score = 57.4 bits (137), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 30/65 (46%), Positives = 42/65 (64%), Gaps = 1/65 (1%)
Query: 48 LLDTSEEIERTGKHLETGYRIAIETEKIATDVLKDLESQRETLQRTRTRHSHTDFINLAC 107
LLD +E +ER+ + LE GY+IA+ETE+I ++L++L RE +QR R R TD NL
Sbjct: 7 LLDNTERLERSSRRLEAGYQIAVETEQIGQEMLENLSHDRERIQRARERLRETDA-NLGK 65
Query: 108 GSMIC 112
S I
Sbjct: 66 SSRIL 70
>pdb|1GL2|C Chain C, Crystal Structure Of An Endosomal Snare Core Complex
Length = 65
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 41/61 (67%), Gaps = 1/61 (1%)
Query: 55 IERTGKHLETGYRIAIETEKIATDVLKDLESQRETLQRTRTRHSHTDFINLACGSMICQT 114
+ R + +E +RIA ET++I T+++++L QR+ L+RT++R +T+ NL+ I ++
Sbjct: 4 MNRATQSIERSHRIATETDQIGTEIIEELGEQRDQLERTKSRLVNTNE-NLSKSRKILRS 62
Query: 115 V 115
+
Sbjct: 63 M 63
>pdb|2V5P|A Chain A, Complex Structure Of Human Igf2r Domains 11-13 Bound To
Igf-Ii
pdb|2V5P|B Chain B, Complex Structure Of Human Igf2r Domains 11-13 Bound To
Igf-Ii
Length = 492
Score = 28.1 bits (61), Expect = 1.7, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 25/62 (40%), Gaps = 5/62 (8%)
Query: 22 CFLLSEYHVEYFSENSTNINEEQSQRLLDTSEEIERTGKHLETGYRIAIETEKIATDVLK 81
C L +H E +T + ++D S I RTG GY E+E A+D
Sbjct: 127 CTLFFSWHTPLACEQATECSVRNGSSIVDLSPLIHRTG-----GYEAYDESEDDASDTNP 181
Query: 82 DL 83
D
Sbjct: 182 DF 183
>pdb|2V5O|A Chain A, Structure Of Human Igf2r Domains 11-14
Length = 627
Score = 28.1 bits (61), Expect = 1.8, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 25/62 (40%), Gaps = 5/62 (8%)
Query: 22 CFLLSEYHVEYFSENSTNINEEQSQRLLDTSEEIERTGKHLETGYRIAIETEKIATDVLK 81
C L +H E +T + ++D S I RTG GY E+E A+D
Sbjct: 127 CTLFFSWHTPLACEQATECSVRNGSSIVDLSPLIHRTG-----GYEAYDESEDDASDTNP 181
Query: 82 DL 83
D
Sbjct: 182 DF 183
>pdb|2V5N|A Chain A, Structure Of Human Igf2r Domains 11-12
Length = 299
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 25/62 (40%), Gaps = 5/62 (8%)
Query: 22 CFLLSEYHVEYFSENSTNINEEQSQRLLDTSEEIERTGKHLETGYRIAIETEKIATDVLK 81
C L +H E +T + ++D S I RTG GY E+E A+D
Sbjct: 127 CTLFFSWHTPLACEQATECSVRNGSSIVDLSPLIHRTG-----GYEAYDESEDDASDTNP 181
Query: 82 DL 83
D
Sbjct: 182 DF 183
>pdb|2XTL|A Chain A, Structure Of The Major Pilus Backbone Protein From
Streptococcus Agalactiae
pdb|2XTL|B Chain B, Structure Of The Major Pilus Backbone Protein From
Streptococcus Agalactiae
Length = 452
Score = 26.9 bits (58), Expect = 4.1, Method: Composition-based stats.
Identities = 15/56 (26%), Positives = 26/56 (46%)
Query: 26 SEYHVEYFSENSTNINEEQSQRLLDTSEEIERTGKHLETGYRIAIETEKIATDVLK 81
SE V + N++ +RL + +++ GK+L +A + EK A D K
Sbjct: 261 SEPKVVTYGRKFVKTNKDGKERLAGATFLVKKDGKYLARKSGVATDAEKAAVDSTK 316
>pdb|3U2G|A Chain A, Crystal Structure Of The C-Terminal Duf1608 Domain Of The
Methanosarcina Acetivorans S-Layer (Ma0829) Protein
Length = 286
Score = 26.6 bits (57), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 43/88 (48%), Gaps = 11/88 (12%)
Query: 2 GLSVPTGGFLGTELALLISWCFLL-----SEYHVE-YFSENSTNINEEQSQRL----LDT 51
G +P GG + T + + + +Y V +F+E IN +++ ++ LD+
Sbjct: 47 GNVIPEGGLVYTTTIADVDFEYYNPDAGWDQYPVXGFFAEEYIPINPDKADKIAKLVLDS 106
Query: 52 SEEIE-RTGKHLETGYRIAIETEKIATD 78
++ RTG+ L+ G AIE +++ D
Sbjct: 107 DDKYTIRTGEXLDLGEGYAIEAKQVDVD 134
>pdb|3U2H|A Chain A, Crystal Structure Of The C-Terminal Duf1608 Domain Of The
Methanosarcina Acetivorans S-Layer (Ma0829) Protein
Length = 286
Score = 26.2 bits (56), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 30/52 (57%), Gaps = 5/52 (9%)
Query: 32 YFSENSTNINEEQSQRL----LDTSEEIE-RTGKHLETGYRIAIETEKIATD 78
+F+E IN +++ ++ LD+ ++ RTG+ L+ G AIE +++ D
Sbjct: 83 FFAEEYIPINPDKADKIAKLVLDSDDKYTIRTGEMLDLGEGYAIEAKQVDVD 134
>pdb|2W57|A Chain A, Crystal Structure Of The Vibrio Cholerae Ferric Uptake
Regulator (Fur) Reveals Structural Rearrangement Of The
Dna-Binding Domains
pdb|2W57|B Chain B, Crystal Structure Of The Vibrio Cholerae Ferric Uptake
Regulator (Fur) Reveals Structural Rearrangement Of The
Dna-Binding Domains
Length = 150
Score = 25.8 bits (55), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 31/70 (44%), Gaps = 6/70 (8%)
Query: 42 EEQSQRLLDTSEEIERTGKHLETGYRIAIETEKIATDVLKDLESQRETLQRTRTRHSHTD 101
EE ++L+D EEI L T YR+ + + E + + + T+H H
Sbjct: 37 EELYKKLIDLGEEIG-----LATVYRVLNQFDDAGIVTRHHFEGGKSVFELS-TQHHHDH 90
Query: 102 FINLACGSMI 111
+ L CG +I
Sbjct: 91 LVCLDCGEVI 100
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 0.132 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,084,911
Number of Sequences: 62578
Number of extensions: 142526
Number of successful extensions: 450
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 446
Number of HSP's gapped (non-prelim): 17
length of query: 138
length of database: 14,973,337
effective HSP length: 89
effective length of query: 49
effective length of database: 9,403,895
effective search space: 460790855
effective search space used: 460790855
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)