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= 032590
(137 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B93|A Chain A, Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyrin
Repeat Domain Of Varp
Length = 189
Score = 72.8 bits (177), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 38/107 (35%), Positives = 64/107 (59%), Gaps = 6/107 (5%)
Query: 5 FKKRYGGGKADTAIAKSLNKEFGPIMKEHMKYIIDHAE--EIEKLIKVKAQVSEVKSIML 62
F+ YG +A TA+ ++N EF ++ +K+ H+E ++K+++ +AQV E+K IM+
Sbjct: 87 FQTTYGS-RAQTALPYAMNSEFSSVLAAQLKH---HSENKSLDKVMETQAQVDELKGIMV 142
Query: 63 ENIDKAVDRGENIQNLADKTENLREQAQAYKKAGTQIRRKMWYQNMK 109
NID RGE ++ L DKTENL + + +K + R M +N+K
Sbjct: 143 RNIDLVAQRGERLELLIDKTENLVDSSVTFKTTSRNLARAMCMKNIK 189
>pdb|2NPS|A Chain A, Crystal Structure Of The Early Endosomal Snare Complex
Length = 74
Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 29/67 (43%), Positives = 44/67 (65%)
Query: 45 EKLIKVKAQVSEVKSIMLENIDKAVDRGENIQNLADKTENLREQAQAYKKAGTQIRRKMW 104
+K+ V+ QV EV +M ENI K ++RGE + L DK+E+L + A A+ Q+RR+MW
Sbjct: 8 DKIKHVQNQVDEVIDVMQENITKVIERGERLDELQDKSESLSDNATAFSNRSKQLRRQMW 67
Query: 105 YQNMKIK 111
++ KIK
Sbjct: 68 WRGCKIK 74
>pdb|3HD7|A Chain A, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3HD7|E Chain E, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3IPD|A Chain A, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
pdb|3IPD|E Chain E, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
Length = 91
Score = 48.9 bits (115), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 43/67 (64%)
Query: 44 IEKLIKVKAQVSEVKSIMLENIDKAVDRGENIQNLADKTENLREQAQAYKKAGTQIRRKM 103
+ +L + +AQV EV IM N+DK ++R + + L D+ + L+ A ++ + +++RK
Sbjct: 4 MRRLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQAGASQFETSAAKLKRKY 63
Query: 104 WYQNMKI 110
W++N+K+
Sbjct: 64 WWKNLKM 70
>pdb|3B5N|A Chain A, Structure Of The Yeast Plasma Membrane Snare Complex
pdb|3B5N|E Chain E, Structure Of The Yeast Plasma Membrane Snare Complex
pdb|3B5N|I Chain I, Structure Of The Yeast Plasma Membrane Snare Complex
Length = 61
Score = 48.9 bits (115), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 38/59 (64%)
Query: 46 KLIKVKAQVSEVKSIMLENIDKAVDRGENIQNLADKTENLREQAQAYKKAGTQIRRKMW 104
+ +++A++ + IM +NI+K +RGE + ++ DK +NL AQ +K+ ++R+ MW
Sbjct: 3 RTAELQAEIDDTVGIMRDNINKVAERGERLTSIEDKADNLAVSAQGFKRGANRVRKAMW 61
>pdb|2KOG|A Chain A, Lipid-Bound Synaptobrevin Solution Nmr Structure
Length = 119
Score = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 42/65 (64%)
Query: 46 KLIKVKAQVSEVKSIMLENIDKAVDRGENIQNLADKTENLREQAQAYKKAGTQIRRKMWY 105
+L + +AQV EV IM N+DK ++R + + L D+ + L+ A ++ + +++RK W+
Sbjct: 34 RLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQAGASQFETSAAKLKRKYWW 93
Query: 106 QNMKI 110
+N+K+
Sbjct: 94 KNLKM 98
>pdb|1SFC|A Chain A, Neuronal Synaptic Fusion Complex
pdb|1SFC|E Chain E, Neuronal Synaptic Fusion Complex
pdb|1SFC|I Chain I, Neuronal Synaptic Fusion Complex
Length = 96
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 42/65 (64%)
Query: 46 KLIKVKAQVSEVKSIMLENIDKAVDRGENIQNLADKTENLREQAQAYKKAGTQIRRKMWY 105
+L + +AQV EV IM N+DK ++R + + L D+ + L+ A ++ + +++RK W+
Sbjct: 31 RLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQAGASQFETSAAKLKRKYWW 90
Query: 106 QNMKI 110
+N+K+
Sbjct: 91 KNLKM 95
>pdb|1L4A|A Chain A, X-Ray Structure Of The Neuronal ComplexinSNARE COMPLEX
From The Squid Loligo Pealei
Length = 80
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 40/65 (61%)
Query: 46 KLIKVKAQVSEVKSIMLENIDKAVDRGENIQNLADKTENLREQAQAYKKAGTQIRRKMWY 105
+L + +AQV EV IM N+DK ++R I L D+ + L+ A ++ + +++RK W+
Sbjct: 16 RLQQTQAQVEEVVDIMRVNVDKVLERDSKISELDDRADALQAGASQFEASAGKLKRKFWW 75
Query: 106 QNMKI 110
+N K+
Sbjct: 76 KNCKM 80
>pdb|1KIL|A Chain A, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX
Length = 66
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 39/62 (62%)
Query: 46 KLIKVKAQVSEVKSIMLENIDKAVDRGENIQNLADKTENLREQAQAYKKAGTQIRRKMWY 105
+L + +AQV EV IM N+DK ++R + + L D+ + L+ A ++ + +++RK W+
Sbjct: 5 RLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQAGASQFETSAAKLKRKYWW 64
Query: 106 QN 107
+N
Sbjct: 65 KN 66
>pdb|1N7S|A Chain A, High Resolution Structure Of A Truncated Neuronal Snare
Complex
Length = 63
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 36/59 (61%)
Query: 46 KLIKVKAQVSEVKSIMLENIDKAVDRGENIQNLADKTENLREQAQAYKKAGTQIRRKMW 104
+L + +AQV EV IM N+DK ++R + + L D+ + L+ A ++ + +++RK W
Sbjct: 5 RLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQAGASQFETSAAKLKRKYW 63
>pdb|1GL2|A Chain A, Crystal Structure Of An Endosomal Snare Core Complex
Length = 65
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 39/57 (68%)
Query: 45 EKLIKVKAQVSEVKSIMLENIDKAVDRGENIQNLADKTENLREQAQAYKKAGTQIRR 101
+++ ++++V VK+IM +N+++ + RGEN+ +L +KTE+L ++ +K ++ R
Sbjct: 9 DRVRNLQSEVEGVKNIMTQNVERILARGENLDHLRNKTEDLEATSEHFKTTSQKVAR 65
>pdb|3KYQ|A Chain A, Lipid-Induced Conformational Switch Controls Fusion
Activity Of Longin Domain Snare Ykt6
Length = 199
Score = 36.2 bits (82), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 33/54 (61%)
Query: 43 EIEKLIKVKAQVSEVKSIMLENIDKAVDRGENIQNLADKTENLREQAQAYKKAG 96
E + + KV+A++ E K I+ ++ ++RGE + +L K+E L Q++A+ K
Sbjct: 136 EADPMSKVQAELDETKIILHNTMESLLERGEKLDDLVSKSEVLGTQSKAFYKTA 189
>pdb|2NUP|C Chain C, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
pdb|2NUT|C Chain C, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
Length = 196
Score = 32.7 bits (73), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 40/81 (49%), Gaps = 1/81 (1%)
Query: 25 EFGPIMKEHMKYIIDHAEEIEKLIKVKAQVSEVKSIMLENIDKAVDRGENIQNLADKTEN 84
EF +++ K ID + L + ++ +V+ IM+ NI++ + RGE + L K N
Sbjct: 115 EFDTFIQKTKKLYID-SRARRNLGSINTELQDVQRIMVANIEEVLQRGEALSALDSKANN 173
Query: 85 LREQAQAYKKAGTQIRRKMWY 105
L ++ Y++ + + Y
Sbjct: 174 LSSLSKKYRQDAKYLNMRSTY 194
>pdb|3ZYM|A Chain A, Structure Of Calm (Picalm) In Complex With Vamp8
pdb|3ZYM|B Chain B, Structure Of Calm (Picalm) In Complex With Vamp8
pdb|3ZYM|C Chain C, Structure Of Calm (Picalm) In Complex With Vamp8
Length = 310
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 25/32 (78%)
Query: 44 IEKLIKVKAQVSEVKSIMLENIDKAVDRGENI 75
++++ ++++V VK+IM +N+++ + RGEN+
Sbjct: 279 MDRVRNLQSEVEGVKNIMTQNVERILARGENL 310
>pdb|3IZR|A Chain A, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 216
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 24/103 (23%), Positives = 48/103 (46%), Gaps = 9/103 (8%)
Query: 9 YGGGKADTAIAKSLNKEFGPIMKEHMKY--IIDHAEEIEKLIKVKAQVSEVKSIMLENID 66
Y A AI K + + GP + + K+ ++ H E +E A+V+E K+ + +
Sbjct: 106 YHAFLASEAIIKQIPRLLGPGLNKAGKFPTLVSHQESLE------AKVNETKATVKFQLK 159
Query: 67 KAVDRGENIQNLADKTENLREQAQAYKKAGTQIRRKMWYQNMK 109
K + G + NL+ + +++ Q + +K W QN++
Sbjct: 160 KVLCMGVAVGNLSMDEKQIQQNIQMSVNFLVSLLKKNW-QNVR 201
>pdb|1RKQ|A Chain A, Crystal Structure Of Had-Like Phosphatase Yida From E.
Coli
pdb|1RKQ|B Chain B, Crystal Structure Of Had-Like Phosphatase Yida From E.
Coli
Length = 282
Score = 27.3 bits (59), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 23 NKEFGPIMKEHMKYIIDHA-EEIEKLIKVKAQVSEVKSIMLENIDKAVDRGENIQNLAD 80
N +F +M I+D A I + +K K V + LE +DK V++G +++LAD
Sbjct: 150 NTQFLKVMMIDEPAILDQAIARIPQEVKEKYTVLKSAPYFLEILDKRVNKGTGVKSLAD 208
>pdb|3NQW|A Chain A, A Metazoan Ortholog Of Spot Hydrolyzes Ppgpp And Plays A
Role In Starvation Responses
pdb|3NQW|B Chain B, A Metazoan Ortholog Of Spot Hydrolyzes Ppgpp And Plays A
Role In Starvation Responses
Length = 179
Score = 26.6 bits (57), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 41/84 (48%), Gaps = 10/84 (11%)
Query: 22 LNKEFGPIMKEHMKYIIDHAEEIEKLIKVKAQVSEVKSIMLENIDKAVDRGENIQNLADK 81
+ K FGP + ++ + D + +EK E K + +EN K+ R + I+ LADK
Sbjct: 75 VEKLFGPDVCGLVREVTDD-KSLEK--------QERKRLQIENAAKSSCRAKLIK-LADK 124
Query: 82 TENLREQAQAYKKAGTQIRRKMWY 105
+NLR+ TQ RR ++
Sbjct: 125 LDNLRDLQVNTPTGWTQERRDQYF 148
>pdb|2GP4|A Chain A, Structure Of [fes]cluster-free Apo Form Of
6-phosphogluconate Dehydratase From Shewanella
Oneidensis
pdb|2GP4|B Chain B, Structure Of [fes]cluster-free Apo Form Of
6-phosphogluconate Dehydratase From Shewanella
Oneidensis
Length = 628
Score = 26.6 bits (57), Expect = 4.5, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 62 LENIDKAVDRGENIQNLADKTENLREQAQAYKKAGT 97
+ N +KA R + Q D+ + L +AQ+Y AGT
Sbjct: 205 IPNKEKARIRQQFAQGKVDRAQLLEAEAQSYHSAGT 240
>pdb|3FIE|C Chain C, Crystal Structure Of Clostridium Botulinum Neurotoxin
Serotype F Catalytic Domain With An Inhibitor (Inh1)
pdb|3FIE|D Chain D, Crystal Structure Of Clostridium Botulinum Neurotoxin
Serotype F Catalytic Domain With An Inhibitor (Inh1)
Length = 38
Score = 26.2 bits (56), Expect = 5.7, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 46 KLIKVKAQVSEVKSIMLENIDKAVDR 71
+L + +AQV EV IM N+DK ++R
Sbjct: 10 RLQQTQAQVDEVVDIMRVNVDKVLER 35
>pdb|3RK2|A Chain A, Truncated Snare Complex
pdb|3RK2|E Chain E, Truncated Snare Complex
pdb|3RK3|A Chain A, Truncated Snare Complex With Complexin
pdb|3RL0|A Chain A, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|E Chain E, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|I Chain I, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|M Chain M, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|Q Chain Q, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|U Chain U, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|Y Chain Y, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|CC Chain c, Truncated Snare Complex With Complexin (P1)
Length = 37
Score = 25.4 bits (54), Expect = 9.3, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 20/30 (66%)
Query: 46 KLIKVKAQVSEVKSIMLENIDKAVDRGENI 75
+L + +AQV EV IM N+DK ++R + +
Sbjct: 8 RLQQTQAQVDEVVDIMRVNVDKVLERDQKL 37
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
0.316 0.131 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,208,007
Number of Sequences: 62578
Number of extensions: 102617
Number of successful extensions: 519
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 495
Number of HSP's gapped (non-prelim): 35
length of query: 137
length of database: 14,973,337
effective HSP length: 89
effective length of query: 48
effective length of database: 9,403,895
effective search space: 451386960
effective search space used: 451386960
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 46 (22.3 bits)