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= psy12603
(391 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CON|A Chain A, Solution Structure Of Rsgi Ruh-035, A Zn-Ribbon Module In
Mouse Cdna
Length = 79
Score = 70.1 bits (170), Expect = 2e-12, Method: Composition-based stats.
Identities = 30/66 (45%), Positives = 47/66 (71%), Gaps = 1/66 (1%)
Query: 239 IRELRTFILRCYACYKTTSIMTKVFCPKCGYKTLKRVAVSVDEQGKQKIHINLK-RPLTA 297
+RE R++ILRC+ C+KTTS M +VFC CG KTLK+V+V++++ G +H + + L
Sbjct: 8 VREARSYILRCHGCFKTTSDMNRVFCGHCGNKTLKKVSVTINDDGTLHMHFSRNPKVLNP 67
Query: 298 RGKKFS 303
RG ++S
Sbjct: 68 RGLRYS 73
>pdb|2LCQ|A Chain A, Solution Structure Of The Endonuclease Nob1 From
P.Horikoshii
Length = 165
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 45/83 (54%), Gaps = 3/83 (3%)
Query: 8 TIPEVVNEVTSKRQIRRLVVLPYDLQIKEADP--DSISFVTEFSKKTGDYPSLSSTDIKV 65
T P VV E+ + L L ++K A+P +SI + + +K+TG+ LS DI+V
Sbjct: 30 TTPSVVEEIKDRESKIFLESLISAGKVKIAEPSKESIDRIIQVAKETGEVNELSKADIEV 89
Query: 66 IALTYELHKQHIGVDSINTEPIS 88
+AL YEL K I D N + I+
Sbjct: 90 LALAYEL-KGEIFSDDYNVQNIA 111
>pdb|1C8O|A Chain A, 2.9 A Structure Of Cleaved Viral Serpin Crma
Length = 300
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 26/41 (63%), Gaps = 3/41 (7%)
Query: 45 VTEFSKKTGDYPSLSSTDIKVIALTYELHKQHIGVDSINTE 85
+TE TGDY ++S++D+ V A+ +HK +I V+ TE
Sbjct: 255 LTEVFGSTGDYSNMSNSDVSVDAM---IHKTYIDVNEEYTE 292
>pdb|1M93|B Chain B, 1.65 A Structure Of Cleaved Viral Serpin Crma
Length = 245
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 26/41 (63%), Gaps = 3/41 (7%)
Query: 45 VTEFSKKTGDYPSLSSTDIKVIALTYELHKQHIGVDSINTE 85
+TE TGDY ++S++D+ V A+ +HK +I V+ TE
Sbjct: 200 LTEVFGSTGDYSNMSNSDVSVDAM---IHKTYIDVNEEYTE 237
>pdb|1DG3|A Chain A, Structure Of Human Guanylate Binding Protein-1 In
Nucleotide Free Form
pdb|1F5N|A Chain A, Human Guanylate Binding Protein-1 In Complex With The Gtp
Analogue, Gmppnp
Length = 592
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 45/97 (46%), Gaps = 4/97 (4%)
Query: 289 INLKRPLTARGKKFSLPTFKGGKH-ANNPIVAEDQPVPDQRPTRLGRTKTNALDPDYIAG 347
+ LK+ + + + F+LP K D+PV ++ +L + + LDP+++
Sbjct: 206 LKLKKGTSQKDETFNLPRLCIRKFFPKKKCFVFDRPVHRRKLAQLEKLQDEELDPEFVQQ 265
Query: 348 MSPFAVHDI-NSKSAML--GIRNNGKNNEVKYWMYKN 381
++ F + NSK+ L GI+ NG E Y N
Sbjct: 266 VADFCSYIFSNSKTKTLSGGIQVNGPRLESLVLTYVN 302
>pdb|2PMZ|P Chain P, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|2PMZ|Z Chain Z, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|2WAQ|P Chain P, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|P Chain P, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|X Chain X, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|3HKZ|P Chain P, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
pdb|3HKZ|X Chain X, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
pdb|2Y0S|P Chain P, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|2Y0S|X Chain X, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|4AYB|P Chain P, Rnap At 3.2ang
pdb|4B1O|P Chain P, Archaeal Rnap-Dna Binary Complex At 4.32ang
pdb|4B1P|X Chain X, Archaeal Rnap-Dna Binary Complex At 4.32ang
Length = 48
Score = 28.9 bits (63), Expect = 5.2, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 18/32 (56%), Gaps = 5/32 (15%)
Query: 246 ILRCYACYKTTS-----IMTKVFCPKCGYKTL 272
+ RC C+KT + ++ V CP CGYK +
Sbjct: 3 VYRCGKCWKTFTDEQLKVLPGVRCPYCGYKII 34
>pdb|1F0C|A Chain A, Structure Of The Viral Serpin Crma
Length = 305
Score = 28.5 bits (62), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 3/41 (7%)
Query: 45 VTEFSKKTGDYPSLSSTDIKVIALTYELHKQHIGVDSINTE 85
+TE TGDY ++ ++D+ V A+ +HK +I V+ TE
Sbjct: 255 LTEVFGSTGDYSNMCNSDVSVDAM---IHKTYIDVNEEYTE 292
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
0.318 0.135 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,105,860
Number of Sequences: 62578
Number of extensions: 445944
Number of successful extensions: 947
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 942
Number of HSP's gapped (non-prelim): 11
length of query: 391
length of database: 14,973,337
effective HSP length: 101
effective length of query: 290
effective length of database: 8,652,959
effective search space: 2509358110
effective search space used: 2509358110
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: 52 (24.6 bits)